Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 82 of 173
Found at i:25575854 original size:51 final size:51
Alignment explanation
Indices: 25575784--25575893 Score: 123
Period size: 51 Copynumber: 2.2 Consensus size: 51
25575774 TGAAAGTGAT
* * * *
25575784 GGCTACTATGCGTACCGGATAGT-TTCGATCACCTGTGTAGTACTATATGTA
1 GGCTACTACGCGTACCGGATAGTAAT-GATCACATGTGTAGTACTATATATA
* * * * *
25575835 GGCTACTACGTGTATCGGATGGTAATGGTCATATGTGTAGTACTATATATA
1 GGCTACTACGCGTACCGGATAGTAATGATCACATGTGTAGTACTATATATA
25575886 GGCTACTA
1 GGCTACTA
25575894 TGTGAACCGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 48 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (51 bp):
GGCTACTACGCGTACCGGATAGTAATGATCACATGTGTAGTACTATATATA
Found at i:25575955 original size:45 final size:45
Alignment explanation
Indices: 25575904--25575989 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
25575894 TGTGAACCGA
* * *
25575904 ACATCATTGATTAGTAAGGTTGTTGCTATGTGCTGATTCCATCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCATCGG
* *
25575949 ACATCATTGATTAATAAGGTGGTTGTTATTTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
25575990 CCGAGTATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCATCGG
Found at i:25586561 original size:20 final size:20
Alignment explanation
Indices: 25586505--25586562 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
25586495 TTATTGAATG
*
25586505 ATTGCACTTATGTCCCCTGT
1 ATTGCACTTTTGTCCCCTGT
* *
25586525 -TTGTACTTTGGTACCCCT-T
1 ATTGCACTTTTGT-CCCCTGT
25586544 ATTGCACTTTTGTGCCCCT
1 ATTGCACTTTTGT-CCCCT
25586563 ATTTATACTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.12, C:0.29, G:0.16, T:0.43
Consensus pattern (20 bp):
ATTGCACTTTTGTCCCCTGT
Found at i:25590180 original size:37 final size:37
Alignment explanation
Indices: 25590124--25590216 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
25590114 TGAGGTTTGA
* * *
25590124 TTGCATATTAAACATGCCCTGCAGGATA-TATCCAAT
1 TTGCATGTTAAACATGCCCTACACGATATTATCCAAT
**
25590160 TTGCATGTTAAAACATGCCCTACACGATATTATCTGAT
1 TTGCATGTT-AAACATGCCCTACACGATATTATCCAAT
* *
25590198 TCGCATGTTCAACATGCCC
1 TTGCATGTTAAACATGCCC
25590217 AATGTGACAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 8 0.17
37 26 0.54
38 14 0.29
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (37 bp):
TTGCATGTTAAACATGCCCTACACGATATTATCCAAT
Found at i:25590987 original size:39 final size:39
Alignment explanation
Indices: 25590933--25591148 Score: 405
Period size: 39 Copynumber: 5.5 Consensus size: 39
25590923 AATTTGTATT
25590933 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
25590972 TGAGTATTGTGATATACGATTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
25591011 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
25591050 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
25591089 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
25591128 TGAGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
25591149 AAAAGTGAAT
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 172 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:25595646 original size:51 final size:51
Alignment explanation
Indices: 25595584--25595760 Score: 207
Period size: 51 Copynumber: 3.5 Consensus size: 51
25595574 CGTTTGTAGT
*
25595584 CACATAGTACTACACACGTGACCATTAATATCCGATACACGTAGTAGCCTA
1 CACATAGTACTACACACGTGACCATTAATATCCGGTACACGTAGTAGCCTA
* * * * * * *
25595635 CACATAGTACTAGACACATGATCGA--AGCTATCCGGTACGCATAGTAGCCTG
1 CACATAGTACTACACACGTGA-CCATTA-ATATCCGGTACACGTAGTAGCCTA
* * * *
25595686 CACATAGTACTACACATGCGACCTTTCAT-TCCGGTACACGTAGTAGCCTA
1 CACATAGTACTACACACGTGACCATTAATATCCGGTACACGTAGTAGCCTA
25595736 CACATAGTACTACACACGTGACCAT
1 CACATAGTACTACACACGTGACCAT
25595761 CACTTTCACT
Statistics
Matches: 100, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
50 42 0.42
51 56 0.56
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
CACATAGTACTACACACGTGACCATTAATATCCGGTACACGTAGTAGCCTA
Found at i:25598153 original size:50 final size:50
Alignment explanation
Indices: 25598050--25598291 Score: 198
Period size: 50 Copynumber: 4.7 Consensus size: 50
25598040 GGGAATGAGA
* * *
25598050 TCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATATCTGGGACATGGCGTTGGCA-C--TGAG---ATGAGAGG
*
25598106 TCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACTGAGATGAGAGG
* * * * **
25598156 TTCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACTGAGATGAGAGG
** * * * * * * * * **
25598206 TGTCATGTAAGACCATATCTGGGATATGACATTGGAAGT-ACAAGAAACA
1 TCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACTGAGATGAGAGG
* * *
25598255 TCCCACGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATATCTGGGACATGGCGTTGGCA
25598292 TGTTATTATC
Statistics
Matches: 153, Mismatches: 33, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 34 0.22
50 81 0.53
53 3 0.02
55 1 0.01
56 34 0.22
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACTGAGATGAGAGG
Found at i:25600311 original size:80 final size:78
Alignment explanation
Indices: 25600184--25600397 Score: 329
Period size: 80 Copynumber: 2.7 Consensus size: 78
25600174 TGTATTTGAG
* *
25600184 TATTGTGATATATGCTTGAATGTTATTTGATTATATGAGTATTGTGATGTATGCTTGAATGTTAT
1 TATTATGATATATGCTTGAATGTTATGTGATTATATGAGTATTGTGATGTATGCTTGAATGTTAT
*
25600249 GTGATTATATGAG
66 GTGATTATATGAA
* *
25600262 TATTATGATATATATGTTTGAATGTTATGTGACTATATGAGTATTGTGATGTATGCTTGAATGTT
1 TATTATG--ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTGATGTATGCTTGAATGTT
25600327 ATGTGATTATATGAA
64 ATGTGATTATATGAA
* * * *
25600342 TATTGTGATATATGCTTAAATGTTATGTGATTATATGTGTATTGTGATATATGCTT
1 TATTATGATATATGCTTGAATGTTATGTGATTATATGAGTATTGTGATGTATGCTT
25600398 AAAAGTGAAT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 50 0.41
80 73 0.59
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (78 bp):
TATTATGATATATGCTTGAATGTTATGTGATTATATGAGTATTGTGATGTATGCTTGAATGTTAT
GTGATTATATGAA
Found at i:25600400 original size:39 final size:39
Alignment explanation
Indices: 25600180--25600397 Score: 337
Period size: 39 Copynumber: 5.5 Consensus size: 39
25600170 AACATGTATT
*
25600180 TGAGTATTGTGATATATGCTTGAATGTTATTTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
25600219 TGAGTATTGTGATGTATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * *
25600258 TGAGTATTATGATATATATGTTTGAATGTTATGTGACTATA
1 TGAGTATTGTG--ATATATGCTTGAATGTTATGTGATTATA
*
25600299 TGAGTATTGTGATGTATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
25600338 TGAATATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
25600377 TGTGTATTGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
25600398 AAAAGTGAAT
Statistics
Matches: 162, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 127 0.78
41 35 0.22
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:25600433 original size:119 final size:118
Alignment explanation
Indices: 25600194--25600433 Score: 277
Period size: 119 Copynumber: 2.0 Consensus size: 118
25600184 TATTGTGATA
* * * *
25600194 TATGCTTGAATGTTATTTGATTATATGAGTATTGTGATGTATGCTTGAATGTTATGTGATTATAT
1 TATGCTTGAATGTTATGTGATTATATGAATATTGTGATATATGCTTAAATGTTATGTGATTATAT
* * * * * * * * **
25600259 GAGTATTATGATATATATGTTTGAATGTTATGTGACTATATGAGTATTGTGATG
66 GAGTATTATGA-ATATATGCTTAAAAGTAATATGACTACATGAGAATGGACATG
25600313 TATGCTTGAATGTTATGTGATTATATGAATATTGTGATATATGCTTAAATGTTATGTGATTATAT
1 TATGCTTGAATGTTATGTGATTATATGAATATTGTGATATATGCTTAAATGTTATGTGATTATAT
* * *
25600378 GTGTATTGTG-ATATATGCTTAAAAGTGAATATGATTACCATGCA-AATGGACATG
66 GAGTATTATGAATATATGCTTAAAAGT-AATATGACTA-CATG-AGAATGGACATG
25600432 TA
1 TA
25600434 AATAATGCAC
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
117 13 0.13
118 7 0.07
119 80 0.79
120 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.44
Consensus pattern (118 bp):
TATGCTTGAATGTTATGTGATTATATGAATATTGTGATATATGCTTAAATGTTATGTGATTATAT
GAGTATTATGAATATATGCTTAAAAGTAATATGACTACATGAGAATGGACATG
Found at i:25605253 original size:127 final size:127
Alignment explanation
Indices: 25605017--25605433 Score: 462
Period size: 127 Copynumber: 3.3 Consensus size: 127
25605007 ACTTGATGCG
* * * * * *
25605017 ATCTGCTCTACTGCAACTTTAGAGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACAACTTAG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTCCGTCTGCTCCACTACAACTTAA
* ** *
25605082 GGAGATAAGACTGGATGTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTATGGTTTTA
66 GAAGATAAGACTGGATGTGATCTGCTCCACTACTACTTACGGAGATAAGATCTATGGTTTTA
* * **
25605144 AT-TCGCTCCACTGCAACTTCAGGGAAATAGGATTGATTTTTTCCGTCTGCTGCACTACTGCTTA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTCCGTCTGCTCCACTACAACTTA
*
25605208 AGAAGATAAGACTGGATGTGATCTGCTCCACTACTACTTACGGAGATAAGATCTTTGGTTTTA
65 AGAAGATAAGACTGGATGTGATCTGCTCCACTACTACTTACGGAGATAAGATCTATGGTTTTA
* * *
25605271 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTTCATCTGCTCCACTGCAACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTCCGTCTGCTCCACTACAAC-TTA
* * * ** * * * * ***
25605336 GGGAGATAA-AGCTGGATGCGATCCACTCTACTGCAACTT-CAGAGAGGTAAGATCTATTACTTT
65 AGAAGATAAGA-CTGGATGTGATCTGCTCCACTACTACTTAC-G-GAGATAAGATCTATGGTTTT
25605399 A
127 A
* * * *
25605400 ATCCGCTCCACTACAACTTTAGGAAGATAGGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATT
25605434 ATCGGCTTCA
Statistics
Matches: 245, Mismatches: 39, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
126 1 0.00
127 164 0.67
128 34 0.14
129 46 0.19
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (127 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTCCGTCTGCTCCACTACAACTTAA
GAAGATAAGACTGGATGTGATCTGCTCCACTACTACTTACGGAGATAAGATCTATGGTTTTA
Found at i:25605275 original size:43 final size:42
Alignment explanation
Indices: 25605062--25605344 Score: 150
Period size: 44 Copynumber: 6.7 Consensus size: 42
25605052 ATTTCTTCTG
* * * *
25605062 TCTGCTCCACTACAACTTAGGGAGATAAGA-C-TGGATGTGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCTTGGTTTTAA
**
25605102 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTATGGTTTTAA
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCT-TGGTTTTAA
* * * * * **
25605145 T-TCGCTCCACTGCAACTTCAGGGAAATAGGA--TTGATTTTTTCCG
1 TCT-GCTCCACTACTACTT-AGGGAGATAAGATCTTG--GTTTT-AA
* * * * * * *
25605189 TCTGCTGCACTACTGCTTAAGAAGATAAGA-C-TGGATGTGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCTTGGTTTTAA
*
25605229 TCTGCTCCACTACTACTTACGGAGATAAGATCTTTGGTTTTAA
1 TCTGCTCCACTACTACTTAGGGAGATAAGATC-TTGGTTTTAA
* * * ** *
25605272 TCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGATTTTTTTCA
1 TCTGCTCCACTACTACTT-AGGGAGATAAGATCT--TGGTTTTAA
* *
25605316 TCTGCTCCACTGCAACTTTAGGGAGATAA
1 TCTGCTCCACTACTAC-TTAGGGAGATAA
25605345 AGCTGGATGC
Statistics
Matches: 183, Mismatches: 43, Indels: 30
0.71 0.17 0.12
Matches are distributed among these distances:
40 53 0.29
41 6 0.03
42 3 0.02
43 54 0.30
44 64 0.35
45 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
TCTGCTCCACTACTACTTAGGGAGATAAGATCTTGGTTTTAA
Found at i:25605622 original size:131 final size:131
Alignment explanation
Indices: 25605462--25606076 Score: 797
Period size: 131 Copynumber: 4.7 Consensus size: 131
25605452 TCTTACACTT
* * * * * * * * **
25605462 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTTCTTATGGAGACAAGATCTGTAAT-TT
1 GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * * * ** *
25605526 CCAACCTATTCCACTGCTGGTTAGGGACATAAGAATTGTGGCTTAAATATGTTTCCCTACTCCTG
66 -CAACCTATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATTTGTTTCCCTACTCCTG
25605591 GG
130 GG
25605593 GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
1 GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
*
25605658 CAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATTTGTTTCCCTACTCCTGG
66 CAACCTATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATTTGTTTCCCTACTCCTGG
25605723 G
131 G
* * *
25605724 GAAGATAAGATTTGTCGTTTTTGATCTGTTCCACTACTGCTTAGGGAGATAGGATCTACAATCTT
1 GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
** * * * **
25605789 CAACCTGCTCCGCTACTGCTCAGGGAGACAAGGCTTGCGGCTTAAATTTGTTTCCCTACTCCTAA
66 CAACCTATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATTTGTTTCCCTACTCCTGG
25605854 G
131 G
* *
25605855 GAAGATAAGATTTGCCGTCTTTGATCTGCTGCACTACTGCTTAGGGAGATAAGATCTACAATCTT
1 GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * *
25605920 CAACCTGCTTCC-CTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTATTTCCCTACTCCTG
66 CAACCT-ATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATTTGTTTCCCTACTCCTG
25605984 GG
130 GG
* * * *
25605986 GAAGATAAGATTTGTCGTCTTCGATC--CATCCACTATTTCTTAGGGAGATAAGATCTGCAATCT
1 GAAGATAAGATTTGTCGTCTTTGATCTGC-TCCACTACTGCTTAGGGAGATAAGATCTACAATCT
* * * *
25606049 CCAAACTTATTCCACTACTGGTCAGGGA
65 TC-AACCTATTCCACTGCTGCTCAGGGA
25606077 CATAGGACTT
Statistics
Matches: 428, Mismatches: 51, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
129 1 0.00
130 36 0.08
131 386 0.90
132 5 0.01
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (131 bp):
GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
CAACCTATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATTTGTTTCCCTACTCCTGG
G
Found at i:25605643 original size:44 final size:44
Alignment explanation
Indices: 25605595--25605909 Score: 158
Period size: 44 Copynumber: 7.2 Consensus size: 44
25605585 CTCCTGGGGA
*
25605595 AGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * * * *
25605639 AGATAAGATCT-ACAATCTTCAACCTACTCCACTGCTGCTCAGGG
1 AGATAAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGG
* ** * * * * * *
25605683 AGACAAGGCTTGT-GGCTTAAATTTGTTTCC-CTACT-CCTGGGG
1 AGATAAGATTTGTCGTCTTTAATCTG-CTCCACTACTGCTTAGGG
* * *
25605725 AAGATAAGATTTGTCGTTTTTGATCTGTTCCACTACTGCTTAGGG
1 -AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * * * *
25605770 AGATAGGATCT-ACAATCTTCAACCTGCTCCGCTACTGCTCAGGG
1 AGATAAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGG
* ** * * * * * * *
25605814 AGACAAGGCTTG-CGGCTTAAATTTGTTTCC-CTACTCCTAAGGA
1 AGATAAGATTTGTCGTCTTTAATCTG-CTCCACTACTGCTTAGGG
* * *
25605857 AGATAAGATTTGCCGTCTTTGATCTGCTGCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
25605901 AGATAAGAT
1 AGATAAGAT
25605910 CTACAATCTT
Statistics
Matches: 187, Mismatches: 72, Indels: 24
0.66 0.25 0.08
Matches are distributed among these distances:
42 4 0.02
43 54 0.29
44 124 0.66
45 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
Found at i:25605928 original size:44 final size:44
Alignment explanation
Indices: 25605755--25605947 Score: 111
Period size: 44 Copynumber: 4.4 Consensus size: 44
25605745 TGATCTGTTC
* * *
25605755 CACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTGCTC
1 CACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTT
* * * * ** * ** *
25605799 CGCTACTGCTCAGGGAGACAAG-GCTTGC-GGCTTAAATTTGTTT
1 CACTACTGCTCAGGGAGATAAGATC-TACAATCTTCAACCTGCTT
* * * * * * ** ** * *
25605842 CCCTACTCCTAAGGAAGATAAGATTTGCCGTCTTTGATCTGCTG
1 CACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTT
*
25605886 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTGCTT
1 CACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTT
* *
25605930 CCCTGCTGCTCAGGGAGA
1 CACTACTGCTCAGGGAGA
25605948 CAAGGCTTGT
Statistics
Matches: 105, Mismatches: 41, Indels: 6
0.69 0.27 0.04
Matches are distributed among these distances:
43 29 0.28
44 76 0.72
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.28
Consensus pattern (44 bp):
CACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTT
Found at i:25607347 original size:15 final size:15
Alignment explanation
Indices: 25607314--25607350 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
25607304 GCCTCTCCAT
*
25607314 TTTTTTACTTTTTCA
1 TTTTTCACTTTTTCA
25607329 -TTTTCACTTTTTCA
1 TTTTTCACTTTTTCA
25607343 TTTTTCAC
1 TTTTTCAC
25607351 CCTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTCACTTTTTCA
Found at i:25608270 original size:33 final size:32
Alignment explanation
Indices: 25608227--25608320 Score: 95
Period size: 33 Copynumber: 2.9 Consensus size: 32
25608217 CTTTTTCATA
25608227 TTTTTATTTTGACTTTAATTGATTTCTCTTTTT-
1 TTTTTATTTTGACTTTAATT-ATTTCT-TTTTTG
* * *
25608260 TTTTTCTTTTGACTTTGATTTTTTCTTTTTTG
1 TTTTTATTTTGACTTTAATTATTTCTTTTTTG
* *
25608292 TTTTTGATTTTGATTTTGA-TATTT-TTTTT
1 TTTTT-ATTTTGACTTTAATTATTTCTTTTT
25608321 GATTGAATCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.19
32 14 0.26
33 29 0.55
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.73
Consensus pattern (32 bp):
TTTTTATTTTGACTTTAATTATTTCTTTTTTG
Found at i:25608283 original size:21 final size:21
Alignment explanation
Indices: 25608256--25608302 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
25608246 TGATTTCTCT
*
25608256 TTTTTTTTTCTTTTGACTTTGA
1 TTTTTTCTT-TTTTGACTTTGA
**
25608278 TTTTTTCTTTTTTGTTTTTGA
1 TTTTTTCTTTTTTGACTTTGA
25608299 TTTT
1 TTTT
25608303 GATTTTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (21 bp):
TTTTTTCTTTTTTGACTTTGA
Found at i:25614599 original size:26 final size:26
Alignment explanation
Indices: 25614570--25614694 Score: 122
Period size: 26 Copynumber: 5.0 Consensus size: 26
25614560 GGCTCTACAC
25614570 TCAAAATTTTACCATGGGTAAAATTG
1 TCAAAATTTTACCATGGGTAAAATTG
*
25614596 TCAAAATTTTATCGA-GGGTAAAATTG
1 TCAAAATTTTA-CCATGGGTAAAATTG
* *
25614622 TTAAAATTTT----TGAGGTAAAATGG
1 TCAAAATTTTACCATG-GGTAAAATTG
*
25614645 TCAAAATTTTACCGA-AGGTAAAATTG
1 TCAAAATTTTACC-ATGGGTAAAATTG
*
25614671 TCAAATTTTTA-C-TGGGTAAAATTG
1 TCAAAATTTTACCATGGGTAAAATTG
25614695 GGGTGAGAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
22 1 0.01
23 18 0.22
24 10 0.12
25 1 0.01
26 50 0.61
27 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (26 bp):
TCAAAATTTTACCATGGGTAAAATTG
Found at i:25614648 original size:49 final size:48
Alignment explanation
Indices: 25614586--25614680 Score: 145
Period size: 49 Copynumber: 2.0 Consensus size: 48
25614576 TTTTACCATG
* * *
25614586 GGTAAAATTGTCAAAATTTTATCGAGGGTAAAATTGTTAAAATTTTTGA
1 GGTAAAATGGTCAAAATTTTACCGAAGGTAAAATTG-TAAAATTTTTGA
*
25614635 GGTAAAATGGTCAAAATTTTACCGAAGGTAAAATTGTCAAATTTTT
1 GGTAAAATGGTCAAAATTTTACCGAAGGTAAAATTGTAAAATTTTT
25614681 ACTGGGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 9 0.21
49 33 0.79
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (48 bp):
GGTAAAATGGTCAAAATTTTACCGAAGGTAAAATTGTAAAATTTTTGA
Found at i:25619070 original size:25 final size:26
Alignment explanation
Indices: 25619042--25619097 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
25619032 TAAAACGGCA
* *
25619042 ATTTTACCC-CGTGGGTATTTTGGTC
1 ATTTTACCCTCGAGGGTATTTCGGTC
25619067 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCC-TCGAGGGTATTTCGGTC
25619094 ATTT
1 ATTT
25619098 AAAAACCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 9 0.33
27 18 0.67
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTCGAGGGTATTTCGGTC
Found at i:25625206 original size:50 final size:50
Alignment explanation
Indices: 25625139--25625329 Score: 213
Period size: 50 Copynumber: 3.8 Consensus size: 50
25625129 TTTCTTGTAC
* * **
25625139 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAAATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATTGG
** **
25625189 TGTCC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATTGG
* * * ** *
25625239 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACGTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATTGG
* * *
25625289 TGCCAACGCCATTTCCCAGACATGGTCTTACATGTGACCTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC
25625330 ATTCCCTTAA
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 2 0.02
50 118 0.97
51 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATTGG
Found at i:25625257 original size:100 final size:100
Alignment explanation
Indices: 25625139--25625319 Score: 249
Period size: 100 Copynumber: 1.8 Consensus size: 100
25625129 TTTCTTGTAC
* * * *
25625139 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGA-GTTCTCAAATTGGTGTCC-ATGCCATG
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACG-TCTCAAATCGGTG-CCAACGCCATG
25625202 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
64 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
* * ** *
25625239 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACGTCTTATCTCGGTGCCAACGCCATTTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACGTCTCAAATCGGTGCCAACGCCATGTC
25625304 CCAGACATGGTCTTAC
66 CCAGACATGGTCTTAC
25625320 ATGTGACCTC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
99 2 0.03
100 67 0.96
101 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.28
Consensus pattern (100 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACGTCTCAAATCGGTGCCAACGCCATGTC
CCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
Found at i:25626390 original size:13 final size:13
Alignment explanation
Indices: 25626372--25626397 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25626362 GCCAAAACAT
25626372 CGAAATTTTCAAA
1 CGAAATTTTCAAA
25626385 CGAAATTTTCAAA
1 CGAAATTTTCAAA
25626398 AATCATTTCG
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:25632892 original size:50 final size:50
Alignment explanation
Indices: 25632798--25632989 Score: 199
Period size: 50 Copynumber: 3.8 Consensus size: 50
25632788 GTTTCTTGTA
* * * ** *
25632798 GTGCCAATGTCATGTCCCAGATATGGTCTTACATGCGAGTTCTCATATTG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * *
25632848 GTGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGAACCTCTCATCTCG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATATCG
* * * * *
25632898 GTGCCAACGCCATGTCCCAAACA-GTGTCTTACATGGGACCTCTTATGTCA
1 GTGCCAATGCCATGTCCCAGACATG-GTCTTACATGGGACCTCTCATATCG
* * *
25632948 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGAGACCTC
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC
25632990 ATTCCCTTAG
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
49 3 0.03
50 110 0.94
51 4 0.03
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:25634865 original size:14 final size:15
Alignment explanation
Indices: 25634830--25634867 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
25634820 GTGTTTGGTT
*
25634830 CGGTTC-ACTAGATT
1 CGGTTCAACTAGATA
25634844 CGGTTCAACTA-ATA
1 CGGTTCAACTAGATA
25634858 CGGTTCAACT
1 CGGTTCAACT
25634868 GAACCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (15 bp):
CGGTTCAACTAGATA
Found at i:25637638 original size:50 final size:50
Alignment explanation
Indices: 25637468--25637652 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 50
25637458 AAAGTGATGG
* * ** *
25637468 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAAGTTAGA
* * * * * *
25637518 TCGCATGTGTAGTACTATGTGCAGGCTACTATGGGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAAG-TTAGA
* * * * *
25637569 TCACGTGTGGAGTACTATGTGCAGGCTACTACGTGAATCGAAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAAGTTAGA
*
25637619 TCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGT
25637653 ATATTGAATG
Statistics
Matches: 111, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
50 74 0.67
51 37 0.33
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAAGTTAGA
Found at i:25637645 original size:101 final size:101
Alignment explanation
Indices: 25637468--25637649 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 101
25637458 AAAGTGATGG
* * * * * * *
25637468 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGGAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGAAAGATCACATGTGTAGTAC
*
25637533 TATGTGCAGGCTACTATGGGTACCGGATAGCTTCGA
66 TATGTGAAGGCTACTATGGGTACCGGATAGCTTCGA
* *** *
25637569 TCACGTGTGGAGTACTATGTGCAGGCTACTACGTGAATCGAAAAGTTTGATCACGTGTGTAGTAC
1 TCACGTGTGGAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGAAAGATCACATGTGTAGTAC
25637634 TATGTGAAGGCTACTA
66 TATGTGAAGGCTACTA
25637650 CGTATATTGA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 68 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (101 bp):
TCACGTGTGGAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGAAAGATCACATGTGTAGTAC
TATGTGAAGGCTACTATGGGTACCGGATAGCTTCGA
Found at i:25645773 original size:24 final size:24
Alignment explanation
Indices: 25645741--25645788 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
25645731 GTCTTTTACC
* *
25645741 ACCCTTAAAGGGCTTTCATATACT
1 ACCCCTAAAGGGATTTCATATACT
25645765 ACCCCTAAAGGGATTTCATATACT
1 ACCCCTAAAGGGATTTCATATACT
25645789 GGTGCGCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (24 bp):
ACCCCTAAAGGGATTTCATATACT
Found at i:25647483 original size:45 final size:45
Alignment explanation
Indices: 25647407--25647594 Score: 222
Period size: 45 Copynumber: 4.2 Consensus size: 45
25647397 TACTACGTGT
* * *
25647407 ACCGAGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGTTATGTGCTGATTCC
* *
25647452 ACCGGGTATCACTGATTATAAAGGTGGTTGTTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGTTATGTGCTGATTCC
* * *
25647497 ACCGGGTA-CTATTGATTCTGAAGGTAGTT-TCTATGTGCTGATTCC
1 ACCGGGTATC-ATTGATTATAAAGGTGGTTGT-TATGTGCTGATTCC
* * *
25647542 ACCGAGTATCATTGACTATAAGGGTGG-TGTTATGTGCTGA-TCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGTTATGTGCTGATTCC
*
25647585 ACCGTGTATC
1 ACCGGGTATC
25647595 TGTTATTATT
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
43 12 0.10
44 13 0.10
45 98 0.79
46 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAAGGTGGTTGTTATGTGCTGATTCC
Found at i:25658641 original size:42 final size:42
Alignment explanation
Indices: 25658594--25658701 Score: 153
Period size: 42 Copynumber: 2.6 Consensus size: 42
25658584 ACGACCTAGC
**
25658594 ACACGGCCTGGCACACGGGCGTGTGGAATTACTTTGAAGGGT
1 ACACGGCCTGGCACACGGGCGTGTGGAATTACTTCAAAGGGT
* * *
25658636 ACACGGCCTGGCACATGGGTGTGTGGGATTACTTCAAAGGGT
1 ACACGGCCTGGCACACGGGCGTGTGGAATTACTTCAAAGGGT
* *
25658678 ACGCGGCCTGGCACACGAGCGTGT
1 ACACGGCCTGGCACACGGGCGTGT
25658702 AACTTGGTCG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.20, C:0.23, G:0.36, T:0.20
Consensus pattern (42 bp):
ACACGGCCTGGCACACGGGCGTGTGGAATTACTTCAAAGGGT
Found at i:25665090 original size:172 final size:173
Alignment explanation
Indices: 25664804--25665149 Score: 649
Period size: 172 Copynumber: 2.0 Consensus size: 173
25664794 TTTATCATTT
*
25664804 TGGCCTCGGTGGGGTTCAAACCCAGGACCTTAAAGGTCTTAAAGGGTAAAAATACTACCAGTTGG
1 TGGCCTCGGTGGGGTTCAAACCCAAGACCTTAAAGGTCTTAAAGGGTAAAAATACTACCAGTTGG
*
25664869 CTCTCACCAGGTACGCCAAGGTAAGCATATAAGGCATTGGTTGATGGTTCGAT-CCCCGCAAGCG
66 CTCTCACCAGGTACGCCAAGGTAAGCATATAAGGCATTGGTTGATGGTTCGATCCCCCGAAAGCG
25664933 CACTTTTCATAATTAATTTCTAACAATACTGACATCTCTCCCG
131 CACTTTTCATAATTAATTTCTAACAATACTGACATCTCTCCCG
*
25664976 TGGCCTCGGTGGGGTTTAAACCCAAGACCTTAAAGGTCTTAAAGGGTAAAAATACTACCAGTTGG
1 TGGCCTCGGTGGGGTTCAAACCCAAGACCTTAAAGGTCTTAAAGGGTAAAAATACTACCAGTTGG
*
25665041 CTCTCACCAGGTACGCTAAGGTAAGCATATAAGGCATTGGTTGATGGTTCGATCCCCCGAAAGCG
66 CTCTCACCAGGTACGCCAAGGTAAGCATATAAGGCATTGGTTGATGGTTCGATCCCCCGAAAGCG
25665106 CACTTTTCATAATTAATTTCTAACAATACTGACATCTCTCCCG
131 CACTTTTCATAATTAATTTCTAACAATACTGACATCTCTCCCG
25665149 T
1 T
25665150 AAGATTGTAG
Statistics
Matches: 169, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
172 115 0.68
173 54 0.32
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (173 bp):
TGGCCTCGGTGGGGTTCAAACCCAAGACCTTAAAGGTCTTAAAGGGTAAAAATACTACCAGTTGG
CTCTCACCAGGTACGCCAAGGTAAGCATATAAGGCATTGGTTGATGGTTCGATCCCCCGAAAGCG
CACTTTTCATAATTAATTTCTAACAATACTGACATCTCTCCCG
Found at i:25665767 original size:21 final size:21
Alignment explanation
Indices: 25665742--25665781 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25665732 AGCTCGGTAT
* *
25665742 TTATTTTTTGAAATTATAAAA
1 TTATTTTGTAAAATTATAAAA
25665763 TTATTTTGTAAAATTATAA
1 TTATTTTGTAAAATTATAA
25665782 TTATGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTATTTTGTAAAATTATAAAA
Found at i:25667293 original size:15 final size:17
Alignment explanation
Indices: 25667273--25667319 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
25667263 TAAAAGCATC
*
25667273 TAAATTTAATAT-AA-T
1 TAAATTCAATATGAACT
25667288 TAAATTCAATATGAACT
1 TAAATTCAATATGAACT
25667305 TAAATCTCAA-ATGAA
1 TAAAT-TCAATATGAA
25667320 AAATGTTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 11 0.39
16 2 0.07
17 11 0.39
18 4 0.14
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (17 bp):
TAAATTCAATATGAACT
Found at i:25669818 original size:29 final size:28
Alignment explanation
Indices: 25669781--25669953 Score: 122
Period size: 28 Copynumber: 6.1 Consensus size: 28
25669771 ATTCTAGGTC
* * * *
25669781 AAAATTGTAAAATTTGTAAAGTAGGAGAA
1 AAAACTGTAAAATCTGAAAAATAGG-GAA
*
25669810 AAAACTGTAAAATCTGAAAAATAGGGGA
1 AAAACTGTAAAATCTGAAAAATAGGGAA
*
25669838 AAAACTGTAAAATCAT-AAAAACATGGG-A
1 AAAACTGTAAAATC-TGAAAAATA-GGGAA
* **
25669866 AAAATTGTAAAAT-TAGAAAAAAATAGGGGC
1 AAAACTGTAAAATCT-G--AAAAATAGGGAA
* * *
25669896 AAAACTATAAAATATGAGAAATAGGG-A
1 AAAACTGTAAAATCTGAAAAATAGGGAA
* *
25669923 AAAACTAT-AAATCTGAGAAATATGGGAA
1 AAAACTGTAAAATCTGAAAAATA-GGGAA
25669951 AAA
1 AAA
25669954 CTATAAACTT
Statistics
Matches: 120, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
26 14 0.12
27 11 0.09
28 48 0.40
29 28 0.23
30 18 0.15
31 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.20
Consensus pattern (28 bp):
AAAACTGTAAAATCTGAAAAATAGGGAA
Found at i:25669934 original size:26 final size:27
Alignment explanation
Indices: 25669886--25669960 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
25669876 AATTAGAAAA
*
25669886 AAATAGGGGCAAAACTATAAAATATGAG
1 AAATAGGGGAAAAACTAT-AAATATGAG
*
25669914 AAATA-GGGAAAAACTATAAATCTGAG
1 AAATAGGGGAAAAACTATAAATATGAG
*
25669940 AAATATGGGAAAAACTATAAA
1 AAATAGGGGAAAAACTATAAA
25669961 CTTTAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 13 0.30
27 26 0.59
28 5 0.11
ACGTcount: A:0.56, C:0.07, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATAGGGGAAAAACTATAAATATGAG
Found at i:25677817 original size:28 final size:28
Alignment explanation
Indices: 25677785--25677864 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
25677775 AATATGGGTC
*
25677785 AAAACTATAAAATTTGAAAAATAAG-GAT
1 AAAACTGTAAAATTTGAAAAATAAGTG-T
* * *
25677813 AAAACTGTAAAATCTGAAAAACATGTGT
1 AAAACTGTAAAATTTGAAAAATAAGTGT
*
25677841 AAAACTGTAAAATCTTAAAAAATA
1 AAAACTGTAAAAT-TTGAAAAATA
25677865 GGGCACACAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 35 0.81
29 8 0.19
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.25
Consensus pattern (28 bp):
AAAACTGTAAAATTTGAAAAATAAGTGT
Found at i:25681849 original size:13 final size:13
Alignment explanation
Indices: 25681833--25681858 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25681823 GATTTTAATA
25681833 TATTTTAAATATT
1 TATTTTAAATATT
25681846 TATTTTAAATATT
1 TATTTTAAATATT
25681859 AAAAAATTTA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTAAATATT
Found at i:25694802 original size:3 final size:3
Alignment explanation
Indices: 25694794--25694819 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25694784 ATTACATCCA
25694794 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
25694820 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25699103 original size:3 final size:3
Alignment explanation
Indices: 25699095--25699129 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
25699085 ATTACATCCA
25699095 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25699130 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25700844 original size:16 final size:16
Alignment explanation
Indices: 25700823--25700874 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
25700813 TTTGGTTCGC
25700823 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25700839 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
25700855 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
25700871 TGTA
1 TGTA
25700875 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25700960 original size:39 final size:43
Alignment explanation
Indices: 25700855--25700964 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
25700845 GGATTAGAGG
25700855 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
25700900 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
25700940 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
25700965 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:25701127 original size:16 final size:16
Alignment explanation
Indices: 25701090--25701131 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25701080 TTAATCATAT
*
25701090 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25701106 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25701121 TTAAAATATAT
1 TTAAAATATAT
25701132 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25701138 original size:14 final size:15
Alignment explanation
Indices: 25701099--25701140 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25701089 TTTAAACATA
*
25701099 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25701114 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25701128 A-TATAATTTAATA
1 ATTATAATTAAATA
25701141 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25701462 original size:47 final size:47
Alignment explanation
Indices: 25701330--25701468 Score: 128
Period size: 47 Copynumber: 3.0 Consensus size: 47
25701320 TATTTTTTTC
* *
25701330 ATATAATTTAATAATAATATATAATTTCATAAAATTATTGATAAT-A
1 ATATAATTTAATAATGATATATAATTTCATAAAATTATTAATAATAA
** * * * *
25701376 AT-T--TTTCTTATATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATTTAATA-ATG-ATATATA-ATTTCATAAAATTATTAATAATAA
*
25701421 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTATTAATAATAA
25701468 A
1 A
25701469 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
43 5 0.07
44 15 0.22
45 13 0.19
46 12 0.17
47 19 0.28
48 5 0.07
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTATTAATAATAA
Found at i:25701465 original size:91 final size:92
Alignment explanation
Indices: 25701270--25701487 Score: 296
Period size: 92 Copynumber: 2.4 Consensus size: 92
25701260 AATTTAAAAT
* * * * * **
25701270 AATTA-TAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTTTTTTCATAT
1 AATTATTAA-TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTATATATTAAATAT
25701334 AATTTAATAATAATATATAATTTCATAA
65 AATTTAATAATAATATATAATTTCATAA
* *
25701362 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTA-ATATTAAATATA
1 AATTATTAATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTATATATTAAATATA
*
25701426 ATTTAATAATGATATATAATTTCATAA
66 ATTTAATAATAATATATAATTTCATAA
* *
25701453 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATTATTAATAAT-AAATTTTCTTATATGAATTTA
25701488 CTATAATCAA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
91 45 0.41
92 63 0.57
93 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (92 bp):
AATTATTAATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTATATATTAAATATA
ATTTAATAATAATATATAATTTCATAA
Found at i:25704624 original size:79 final size:81
Alignment explanation
Indices: 25704488--25704672 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
25704478 TTGAATGATG
*
25704488 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
25704552 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
25704567 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
25704629 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
25704647 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25704673 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:25704686 original size:40 final size:40
Alignment explanation
Indices: 25704489--25704672 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
25704479 TGAATGATGT
* * * *
25704489 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
25704529 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
25704569 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25704607 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25704648 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25704673 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25704694 original size:79 final size:79
Alignment explanation
Indices: 25704541--25704705 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
25704531 GGACTAAGAT
* **
25704541 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
25704606 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
25704620 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
25704683 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
25704699 CCGAAGG
1 CCGAAGG
25704706 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:25712586 original size:79 final size:81
Alignment explanation
Indices: 25712450--25712634 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
25712440 TTGAATGATG
*
25712450 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
25712514 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
25712529 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
25712591 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
25712609 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25712635 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:25712648 original size:40 final size:40
Alignment explanation
Indices: 25712451--25712634 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
25712441 TGAATGATGT
* * * *
25712451 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
25712491 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
25712531 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25712569 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25712610 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25712635 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25712656 original size:79 final size:79
Alignment explanation
Indices: 25712503--25712667 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
25712493 GGACTAAGAT
* **
25712503 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
25712568 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
25712582 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
25712645 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
25712661 CCGAAGG
1 CCGAAGG
25712668 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:25718024 original size:223 final size:223
Alignment explanation
Indices: 25717631--25718086 Score: 903
Period size: 223 Copynumber: 2.0 Consensus size: 223
25717621 TGTGAACTCC
25717631 TTGACTTTTAATTATACAGTAATTACTGACTTTTTGCTTTGGGATTGATTTAAATCTTCTAATTT
1 TTGA-TTTTAATTATACAGTAATTACTGACTTTTTGCTTTGGGATTGATTTAAATCTTCTAATTT
25717696 CAATTTTGAAGTGTTTATAATTGAACTAACTGCCAAACTTGCTTAGCCTTTTATGGGAAACCAGG
65 CAATTTTGAAGTGTTTATAATTGAACTAACTGCCAAACTTGCTTAGCCTTTTATGGGAAACCAGG
25717761 AGGGTTATGTACTGGTTAGGTTCTGAAACATGTTGGAAAATAAGTATAGATAGAAGAAGGTAGGG
130 AGGGTTATGTACTGGTTAGGTTCTGAAACATGTTGGAAAATAAGTATAGATAGAAGAAGGTAGGG
25717826 TTTTTATGTGCAATAGTGCGTTCACTGAA
195 TTTTTATGTGCAATAGTGCGTTCACTGAA
25717855 TTGATTTTAATTATACAGTAATTACTGACTTTTTGCTTTGGGATTGATTTAAATCTTCTAATTTC
1 TTGATTTTAATTATACAGTAATTACTGACTTTTTGCTTTGGGATTGATTTAAATCTTCTAATTTC
25717920 AATTTTGAAGTGTTTATAATTGAACTAACTGCCAAACTTGCTTAGCCTTTTATGGGAAACCAGGA
66 AATTTTGAAGTGTTTATAATTGAACTAACTGCCAAACTTGCTTAGCCTTTTATGGGAAACCAGGA
25717985 GGGTTATGTACTGGTTAGGTTCTGAAACATGTTGGAAAATAAGTATAGATAGAAGAAGGTAGGGT
131 GGGTTATGTACTGGTTAGGTTCTGAAACATGTTGGAAAATAAGTATAGATAGAAGAAGGTAGGGT
25718050 TTTTATGTGCAATAGTGCGTTCACTGAA
196 TTTTATGTGCAATAGTGCGTTCACTGAA
25718078 TTGATTTTA
1 TTGATTTTA
25718087 TTTGTGTCAA
Statistics
Matches: 232, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
223 228 0.98
224 4 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.39
Consensus pattern (223 bp):
TTGATTTTAATTATACAGTAATTACTGACTTTTTGCTTTGGGATTGATTTAAATCTTCTAATTTC
AATTTTGAAGTGTTTATAATTGAACTAACTGCCAAACTTGCTTAGCCTTTTATGGGAAACCAGGA
GGGTTATGTACTGGTTAGGTTCTGAAACATGTTGGAAAATAAGTATAGATAGAAGAAGGTAGGGT
TTTTATGTGCAATAGTGCGTTCACTGAA
Found at i:25718807 original size:164 final size:164
Alignment explanation
Indices: 25718536--25718897 Score: 697
Period size: 164 Copynumber: 2.2 Consensus size: 164
25718526 AGAGTGAAAC
25718536 AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
1 AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
*
25718601 AGAAGAAAACTTGAAGAACCCATTAACTTATCAACAAGGAAATCAGAAAGTACAGTTCGAAAGCT
66 AGAAGAAAACTTGAAGAACCCATTAACTTACCAACAAGGAAATCAGAAAGTACAGTTCGAAAGCT
*
25718666 TGAAGAAGTTGCAGCTAAGGCTTCAGCAACAAGG
131 TGAAGAAGCTGCAGCTAAGGCTTCAGCAACAAGG
25718700 AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
1 AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
*
25718765 AGAAGAAAACTTGAAGAACCCATTAACTTACCAACAAGGAAATTAGAAAGTACAGTTCGAAAGCT
66 AGAAGAAAACTTGAAGAACCCATTAACTTACCAACAAGGAAATCAGAAAGTACAGTTCGAAAGCT
25718830 TGAAGAAGCTGCAGCTAAGGCTTCAGCAACAAGG
131 TGAAGAAGCTGCAGCTAAGGCTTCAGCAACAAGG
25718864 AAATCTGAAGGGGATTAACTTACCAACAAGGAAA
1 AAATCTGAAGGGGATTAACTTACCAACAAGGAAA
25718898 TCGACAGAGG
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 195 1.00
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.20
Consensus pattern (164 bp):
AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
AGAAGAAAACTTGAAGAACCCATTAACTTACCAACAAGGAAATCAGAAAGTACAGTTCGAAAGCT
TGAAGAAGCTGCAGCTAAGGCTTCAGCAACAAGG
Found at i:25721134 original size:126 final size:126
Alignment explanation
Indices: 25720949--25721302 Score: 600
Period size: 126 Copynumber: 2.8 Consensus size: 126
25720939 TAATTTTGAG
* ** *
25720949 TTGACTTTTCTGATCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGGGAAGAATTTGTG
1 TTGACGTTTCTGAGAAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
25721014 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAACAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAACAATTATTTTT
* *
25721075 TTGACGTTTTTGAGAAAATAGAATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGAAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
25721140 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAACAATTATTTTT
* *
25721201 TTGACGTTTCTGAGCAAATAGTATAAAATCTCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGAAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
25721266 AAATCACGCCCTCGTGGATGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
25721303 CATGTTTGGG
Statistics
Matches: 213, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 213 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (126 bp):
TTGACGTTTCTGAGAAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAACAATTATTTTT
Found at i:25724448 original size:61 final size:61
Alignment explanation
Indices: 25724379--25724567 Score: 160
Period size: 61 Copynumber: 3.2 Consensus size: 61
25724369 TCAAATTATA
*
25724379 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
1 TAAAATTATTAATTGTTAGTAACAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
* * ** ** ** ** * * * *
25724440 TAAAATTATTAACT-CTAAAAATTGT-ATTAATGATTAGT-AAAAT-TATCA-AAT-T--ATA
1 TAAAATTATTAATTGTTAGTAACAGTCA--AAACATTTTTCCAAATCTAACATTATGTGAATG
*
25724495 TAAAATTATTAATTGTTAGTAACAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATG
1 TAAAATTATTAATTGTTAGTAACAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
25724556 TAAAATTATTAA
1 TAAAATTATTAA
25724568 CTTTGTTTAG
Statistics
Matches: 88, Mismatches: 30, Indels: 20
0.64 0.22 0.14
Matches are distributed among these distances:
55 21 0.24
56 10 0.11
57 6 0.07
58 3 0.03
59 6 0.07
60 9 0.10
61 33 0.38
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (61 bp):
TAAAATTATTAATTGTTAGTAACAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
Found at i:25724534 original size:116 final size:116
Alignment explanation
Indices: 25724330--25724569 Score: 444
Period size: 116 Copynumber: 2.1 Consensus size: 116
25724320 TGATAAATTG
*
25724330 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
* *
25724395 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTAACAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
*
25724446 TATTAACTCTAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
25724511 TAGTAACAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
66 TAGTAACAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
25724562 TATTAACT
1 TATTAACT
25724570 TTGTTTAGGG
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 120 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (116 bp):
TATTAACTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTAACAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:25724601 original size:23 final size:23
Alignment explanation
Indices: 25724574--25725044 Score: 284
Period size: 23 Copynumber: 19.6 Consensus size: 23
25724564 TTAACTTTGT
25724574 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* * **
25724597 CTAGGGTTTTAAAGTT-AA-GGGG
1 TTAGGGTTTTTAA-TTAAATTAGG
25724619 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATT-AA--A--TTA-GG
25724648 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
25724671 TTAGGGTTTTT-A--AAGTTAAGG
1 TTAGGGTTTTTAATTAAATT-AGG
*
25724692 TTTAAGGTTTTTAAGTT--A--AGG
1 -TTAGGGTTTTTAA-TTAAATTAGG
25724713 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
* *
25724737 TTAAGGTTTTT-A--AAGTTAAGG
1 TTAGGGTTTTTAATTAAATT-AGG
*
25724758 TTTAAGGTTTTTAATTAAATTAGGTTAGGG
1 -TTAGGGTTTTTAATT-AA--A--TTA-GG
25724788 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
25724811 TTAGGGTTTTGT-ATTAAATTAGG
1 TTAGGGTTTT-TAATTAAATTAGG
* *
25724834 TTATGGTTTTT-A--AAGTTAGG
1 TTAGGGTTTTTAATTAAATTAGG
25724854 TTTAGGGTTTTTAAGTT--A--AGG
1 -TTAGGGTTTTTAA-TTAAATTAGG
25724875 TTTAGGGTTTTTAATTAAATTATGTTAGGG
1 -TTAGGGTTTTTAATT-AA--A--TTA-GG
25724905 TTAGGGTTTTTAATTAAATCAAGTTAGGG
1 TTAGGGTTTTTAATT--A--AA-TTA-GG
*
25724934 TTAGGATTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
25724957 TTAGGGTTTTGT-ATTAAATTAGG
1 TTAGGGTTTT-TAATTAAATTAGG
*
25724980 TTAGGGTTAGGGTTTTGTATTAAATTAGG
1 TTAGGG-T----TTTT-AATTAAATTAGG
25725009 TTAGGGTTTTGT-ATTAAATTAGG
1 TTAGGGTTTT-TAATTAAATTAGG
25725032 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
25725045 AGTTAAGGTT
Statistics
Matches: 367, Mismatches: 22, Indels: 118
0.72 0.04 0.23
Matches are distributed among these distances:
20 19 0.05
21 51 0.14
22 41 0.11
23 121 0.33
24 20 0.05
25 5 0.01
26 4 0.01
27 2 0.01
28 8 0.02
29 86 0.23
30 9 0.02
32 1 0.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGG
Found at i:25724638 original size:45 final size:44
Alignment explanation
Indices: 25724574--25724872 Score: 198
Period size: 45 Copynumber: 6.4 Consensus size: 44
25724564 TTAACTTTGT
*
25724574 TTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTAAAGTTAAGGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTAAAGTTAA-GGG
* *
25724619 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTAAAGTT-AA--GGG
* * * *
25724671 TTAGGGTTTTT-A--AAGTTAAGGTTTAAGGTTTTTAAGTTAAGGT
1 TTAGGGTTTTTAATTAAATT-AGG-TTAGGGTTTTAAAGTTAAGGG
* *
25724714 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTTAATTAAATTAGGTT-AGGGTTTTAAAGTTAAGGG
* * *
25724759 TTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTAAAGTT-AA--GGG
* *
25724811 TTAGGGTTTTGT-ATTAAATTAGGTTATGGTTTTTAAAGTT-AGGT
1 TTAGGGTTTT-TAATTAAATTAGGTTA-GGGTTTTAAAGTTAAGGG
25724855 TTAGGGTTTTTAAGTTAA
1 TTAGGGTTTTTAA-TTAA
25724873 GGTTTAGGGT
Statistics
Matches: 203, Mismatches: 22, Indels: 58
0.72 0.08 0.20
Matches are distributed among these distances:
43 13 0.06
44 19 0.09
45 67 0.33
46 16 0.08
47 11 0.05
48 6 0.03
49 3 0.01
50 19 0.09
51 22 0.11
52 26 0.13
53 1 0.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (44 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTAAAGTTAAGGG
Found at i:25724650 original size:29 final size:29
Alignment explanation
Indices: 25724616--25724678 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
25724606 TAAAGTTAAG
25724616 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
25724645 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
25724674 GGGTT
1 GGGTT
25724679 TTTAAAGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.44
Consensus pattern (29 bp):
GGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:25724661 original size:74 final size:73
Alignment explanation
Indices: 25724574--25724820 Score: 359
Period size: 74 Copynumber: 3.5 Consensus size: 73
25724564 TTAACTTTGT
* * *
25724574 TTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTAAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTAAAGTTAA-GGTTTAAGGTTTTTAATTAAATT
25724639 AGGTTAGGG
65 AGGTTAGGG
25724648 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAAGGTTTTTAAGTT--A-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG-TTTTAAAGTTAAGGTTTAAGGTTTTTAA-TTAAAT
25724710 -AGG-T----
64 TAGGTTAGGG
*
25724714 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAAAGTTAAGGTTTAAGGTTTTTAATTAAATT
1 TTAGGGTTTTTAATTAAATTAGGTT-AGGGTTTTAAAGTTAAGGTTTAAGGTTTTTAATTAAATT
25724779 AGGTTAGGG
65 AGGTTAGGG
25724788 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTT
25724821 GTATTAAATT
Statistics
Matches: 156, Mismatches: 5, Indels: 25
0.84 0.03 0.13
Matches are distributed among these distances:
65 2 0.01
66 53 0.34
67 4 0.03
69 3 0.02
70 2 0.01
71 3 0.02
73 8 0.05
74 67 0.43
75 14 0.09
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (73 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTAAAGTTAAGGTTTAAGGTTTTTAATTAAATTA
GGTTAGGG
Found at i:25724673 original size:52 final size:52
Alignment explanation
Indices: 25724617--25725039 Score: 325
Period size: 52 Copynumber: 8.6 Consensus size: 52
25724607 AAAGTTAAGG
25724617 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
* * * *
25724669 GGTTAGGGTTTTT-A--AAGTTA----AGGTTTAAGGTTTTTAAGTT-AAG--
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAATTA
* *
25724712 GTTTAGGGTTTTTAATTAAATTAGGTTA-----A-GGTTTTT-A--AAGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT-A
*
25724756 GGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
*
25724809 GGTTAGGGTTTTGT-ATTAAATTAGGTTA----T--GGTTTTT-A--AAGTTA
1 GGTTAGGGTTTT-TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
25724852 GGTTTAGGGTTTTTAAGTT--A--AGG-T----TTAGGGTTTTTAATTAAATTATGTTA
1 GG-TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AA--A--TTA
* * *
25724902 GGGTTAGGGTTTTTAATTAAATCAAGTTAGGGTTAGGATTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
25724955 GGTTAGGGTTTTGT-ATTAAATTAGGTTAGGGTTAGGGTTTTGT-ATTAAATTA
1 GGTTAGGGTTTT-TAATTAAATTAGGTTAGGGTTAGGGTTTT-TAATTAAATTA
25725007 GGTTAGGGTTTTGT-ATTAAATTAGGTTAGGGTT
1 GGTTAGGGTTTT-TAATTAAATTAGGTTAGGGTT
25725040 TTTAAAGTTA
Statistics
Matches: 303, Mismatches: 19, Indels: 98
0.72 0.05 0.23
Matches are distributed among these distances:
40 2 0.01
41 4 0.01
42 7 0.02
43 23 0.08
44 20 0.07
45 46 0.15
46 16 0.05
48 1 0.00
49 7 0.02
50 18 0.06
51 11 0.04
52 115 0.38
53 11 0.04
54 5 0.02
55 1 0.00
57 2 0.01
58 14 0.05
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (52 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
Found at i:25724702 original size:21 final size:21
Alignment explanation
Indices: 25724678--25724768 Score: 96
Period size: 21 Copynumber: 4.2 Consensus size: 21
25724668 AGGTTAGGGT
25724678 TTTTAAAGTTAAGGTTTAAGG
1 TTTTAAAGTTAAGGTTTAAGG
* *
25724699 TTTTTAAGTTAAGGTTTAGGG
1 TTTTAAAGTTAAGGTTTAAGG
*
25724720 TTTTTAA-TTAAATTAGG-TTAAGG
1 TTTTAAAGTT--A--AGGTTTAAGG
25724743 TTTTTAAAGTTAAGGTTTAAGG
1 -TTTTAAAGTTAAGGTTTAAGG
25724765 TTTT
1 TTTT
25724769 TAATTAAATT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
20 2 0.03
21 33 0.56
22 7 0.12
23 6 0.10
24 9 0.15
25 2 0.03
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (21 bp):
TTTTAAAGTTAAGGTTTAAGG
Found at i:25724745 original size:140 final size:141
Alignment explanation
Indices: 25724572--25725071 Score: 574
Period size: 140 Copynumber: 3.5 Consensus size: 141
25724562 TATTAACTTT
*
25724572 GTTTAGGGTTTTTAATTAAATTAGGCTAGGG-TTTTAAAGTTAAGGGGTTAGGGTTTTTAATTAA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGGGTTAGGGTTTTTAATTAA
*
25724636 ATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTT-TA-AAGTTAAGGTTTAAGG
66 ATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTGTATAAATT-AGG-TTAAGG
25724699 TTTTT-AAGTTAAG
129 TTTTTAAAGTT-AG
* * *
25724712 GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAAAGTTAA-GGTTTAAGGTTTTTAATTAA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGGGTTAGGGTTTTTAATTAA
*
25724776 ATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTGTATTAAATTAGGTTATGGT
66 ATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTGTA-TAAATTAGGTTAAGGT
25724841 TTTTAAAGTTAG
130 TTTTAAAGTTAG
* *
25724853 GTTTAGGGTTTTTAAGTT--A--AGGTTTAGGGTTTTTAATTAAATTATGTTAGGGTTAGGGTTT
1 GTTTAGGGTTTTTAA-TTAAATTAGG-TTAGGGTTTTT-A--AAGTTAAG---GGGTTAGGGTTT
* * *
25724914 TTAATTAAATCAAGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTTTGTATTAAATTAG
58 TTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTGTA-TAAATTAG
*
25724979 GTTAGGGTTAGGGTTTTGTATTAAATTAG
122 GTTA-----A-GGTTTT-TA--AAGTTAG
* *
25725008 G-TTAGGGTTTTGT-ATTAAATTAGGTTAGGGTTTTTAAAGTTAA-GGTTTAGAGTTTTTAAGTT
1 GTTTAGGGTTTT-TAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGGGTTAGGGTTTTTAA-TT
25725070 AA
64 AA
25725072 GGTTTAGGGT
Statistics
Matches: 311, Mismatches: 20, Indels: 48
0.82 0.05 0.13
Matches are distributed among these distances:
138 3 0.01
139 10 0.03
140 94 0.30
141 41 0.13
142 15 0.05
143 4 0.01
146 76 0.24
149 14 0.05
150 4 0.01
152 6 0.02
153 9 0.03
154 11 0.04
155 10 0.03
156 11 0.04
157 3 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (141 bp):
GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGGGTTAGGGTTTTTAATTAA
ATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTGTATAAATTAGGTTAAGGTT
TTTAAAGTTAG
Found at i:25724796 original size:29 final size:29
Alignment explanation
Indices: 25724763--25724818 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
25724753 TAAGGTTTAA
25724763 GGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTTTTAATTAAATTAGGTTAGGGTTAG
25724792 GGTTTTTAATTAAATTAGGTTAGGGTT
1 GGTTTTTAATTAAATTAGGTTAGGGTT
25724819 TTGTATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (29 bp):
GGTTTTTAATTAAATTAGGTTAGGGTTAG
Found at i:25724896 original size:65 final size:65
Alignment explanation
Indices: 25724781--25724987 Score: 177
Period size: 79 Copynumber: 2.9 Consensus size: 65
25724771 ATTAAATTAG
*
25724781 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTGTATTAAATTAGGTTATGGTTTTTA
1 GTTAGGGTTAGGGTTTTTAATT-AA-TAGGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTA
25724846 AA
64 AA
*
25724848 GTTAGGTTTAGGGTTTTTAAGTT-A-AGGTTTAGGGTTTT-TAATTAAATTATGTTAGGGTTAGG
1 GTTAGGGTTAGGGTTTTTAA-TTAATAGG-TTAGGGTTTTGT-ATT-AA--A--TTA-GGTTAGG
25724910 GTTTTTAATTAAATCAA
57 G--TTT--TT--A--AA
*
25724927 GTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTTTGTATTAAATTAGGTTAGGGTT
1 GTTAGGGTTAGGGTTTTTAATT-AA-TAGGTTAGGGTTTTGTATTAAATTAGGTTAGGGTT
25724988 AGGGTTTTGT
Statistics
Matches: 114, Mismatches: 4, Indels: 38
0.73 0.03 0.24
Matches are distributed among these distances:
64 4 0.04
65 13 0.11
66 3 0.03
67 19 0.17
68 3 0.03
70 3 0.03
71 7 0.06
73 5 0.04
75 10 0.09
76 3 0.03
77 1 0.01
78 3 0.03
79 20 0.18
80 3 0.03
81 13 0.11
82 4 0.04
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (65 bp):
GTTAGGGTTAGGGTTTTTAATTAATAGGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAA
Found at i:25724909 original size:29 final size:29
Alignment explanation
Indices: 25724876--25725016 Score: 179
Period size: 29 Copynumber: 5.1 Consensus size: 29
25724866 AAGTTAAGGT
*
25724876 TTAGGGTTTTTAATTAAATTATGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
25724905 TTAGGGTTTTTAATTAAATCAAGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
25724934 TTAGGATTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
25724963 -T----TTTGT-ATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
25724986 TTAGGGTTTTGT-ATTAAATTAGGTTAGGG
1 TTAGGGTTTT-TAATTAAATTAGGTTAGGG
25725015 TT
1 TT
25725017 TTGTATTAAA
Statistics
Matches: 99, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
23 17 0.17
24 5 0.05
28 4 0.04
29 73 0.74
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.46
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:25724994 original size:117 final size:109
Alignment explanation
Indices: 25724751--25724994 Score: 258
Period size: 117 Copynumber: 2.1 Consensus size: 109
25724741 GGTTTTTAAA
*
25724751 GTTAAGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
* * *
25724816 GTTTTGTATTAAATTAGGTTATGGTTTTTAAAGTTAGGTTTAGG
66 ATTTTGTATTAAATTAGGTTAGGGTTTTTAAAATTAGGTTTAGG
* *
25724860 GTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTATGTTAGGGTTAGGGTTTTTAATTAAATC
1 G---TT-AG----GGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT--A--
25724925 AAGTTAGGGTTAGGATTTT-TAATTAAATTAGGTTAGGGTTTTGTATTAAATTAGG-TTAGG
54 AA-TTA-GGTTAGGATTTTGT-ATTAAATTAGGTTAGGGTTTT-TA--AAATTAGGTTTAGG
25724985 GTTAGGGTTT
1 GTTAGGGTTT
25724995 TGTATTAAAT
Statistics
Matches: 111, Mismatches: 6, Indels: 28
0.77 0.04 0.19
Matches are distributed among these distances:
109 1 0.01
112 2 0.02
113 1 0.01
117 50 0.45
119 1 0.01
121 4 0.04
122 6 0.05
123 31 0.28
124 2 0.02
125 6 0.05
126 7 0.06
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.47
Consensus pattern (109 bp):
GTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
ATTTTGTATTAAATTAGGTTAGGGTTTTTAAAATTAGGTTTAGG
Found at i:25725006 original size:198 final size:199
Alignment explanation
Indices: 25724763--25725140 Score: 622
Period size: 198 Copynumber: 1.9 Consensus size: 199
25724753 TAAGGTTTAA
25724763 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTGTATTAA
1 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTGTATTAA
* *
25724828 ATTAGGTTATGGTTTTTAAAGTT-AGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTA
66 ATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGAGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTA
*
25724892 AATT-AT-GTTAGGGTTAGGGTTTTTAATTAAATCAAGTTAGGGTTAGGATTTTTAATTAAATTA
131 AATTAATAGTTAGGGTTAGGG--TTAAATTAAATCAAGTTAGGGTTAGGATTTTTAATTAAATTA
25724955 GGTTAG
194 GGTTAG
25724961 GGTTTTGT-ATTAAATTAGGTTAGGGTTAGGGTTTTGT-ATTAAATTAGGTTAGGGTTTTGTATT
1 GGTTTT-TAATTAAATTAGGTTAGGGTTAGGGTTTT-TAATTAAATTAGGTTAGGGTTTTGTATT
25725024 AAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGAGTTTTTAAGTTAAGGTTTAGGGTTTTTAAT
64 AAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGAGTTTTTAAGTTAAGGTTTAGGGTTTTTAAT
*
25725089 TAAATTAAATCAGGTTAGGGTTAGGGTTAAATTAAATCAGGTTAGGGTTAGG
129 TAAATT-AAT-A-GTTAGGGTTAGGGTTAAATTAAATCAAGTTAGGGTTAGG
25725141 GTTAAATTAG
Statistics
Matches: 168, Mismatches: 4, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
198 83 0.49
199 46 0.27
201 2 0.01
202 24 0.14
204 13 0.08
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (199 bp):
GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTGTATTAA
ATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGAGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTA
AATTAATAGTTAGGGTTAGGGTTAAATTAAATCAAGTTAGGGTTAGGATTTTTAATTAAATTAGG
TTAG
Found at i:25725054 original size:21 final size:21
Alignment explanation
Indices: 25724979--25725087 Score: 89
Period size: 23 Copynumber: 5.0 Consensus size: 21
25724969 ATTAAATTAG
*
25724979 GTTAGGGTTAGGGTTTTGTATTAA
1 GTTAAGGTTAGGGTTTT-TA--AA
*
25725003 ATT-AGGTTAGGGTTTTGTATTAA
1 GTTAAGGTTAGGGTTTT-TA--AA
*
25725026 ATT-AGGTTAGGGTTTTTAAA
1 GTTAAGGTTAGGGTTTTTAAA
*
25725046 GTTAAGGTTTAGAGTTTTT-AA
1 GTTAAGG-TTAGGGTTTTTAAA
25725067 GTTAAGGTTTAGGGTTTTTAA
1 GTTAAGG-TTAGGGTTTTTAA
25725088 TTAAATTAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
20 4 0.05
21 23 0.30
22 13 0.17
23 35 0.45
24 2 0.03
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (21 bp):
GTTAAGGTTAGGGTTTTTAAA
Found at i:25725062 original size:22 final size:22
Alignment explanation
Indices: 25725032--25725087 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
25725022 TTAAATTAGG
25725032 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
*
25725054 TTAGAGTTTTT-AAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
25725075 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
25725088 TTAAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (22 bp):
TTAGGGTTTTTAAAGTTAAGGT
Found at i:25725118 original size:22 final size:23
Alignment explanation
Indices: 25725092--25725159 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 23
25725082 TTTTAATTAA
25725092 ATTAAATCAGGTTAGGGTTAGGG
1 ATTAAATCAGGTTAGGGTTAGGG
25725115 TTAAATTAAATCAGGTTAGGGTTAGGG
1 ----ATTAAATCAGGTTAGGGTTAGGG
*
25725142 -TTAAATTAGGTTAGGGTT
1 ATTAAATCAGGTTAGGGTT
25725160 TTTATTACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
22 17 0.43
27 23 0.57
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.35
Consensus pattern (23 bp):
ATTAAATCAGGTTAGGGTTAGGG
Found at i:25725122 original size:27 final size:27
Alignment explanation
Indices: 25725088--25725149 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
25725078 GGGTTTTTAA
25725088 TTAAATTAAATCAGGTTAGGGTTAGGG
1 TTAAATTAAATCAGGTTAGGGTTAGGG
25725115 TTAAATTAAATCAGGTTAGGGTTAGGG
1 TTAAATTAAATCAGGTTAGGGTTAGGG
25725142 TTAAATTA
1 TTAAATTA
25725150 GGTTAGGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (27 bp):
TTAAATTAAATCAGGTTAGGGTTAGGG
Found at i:25725187 original size:25 final size:25
Alignment explanation
Indices: 25725159--25725296 Score: 146
Period size: 25 Copynumber: 5.7 Consensus size: 25
25725149 AGGTTAGGGT
*
25725159 TTTTATTACATCAAATAAACTTATA
1 TTTTATTACATCAAATAAACTTCTA
25725184 TTTTATTACATCAAAT-AA----TA
1 TTTTATTACATCAAATAAACTTCTA
*** * *
25725204 TGAAAATA-ACTCGAAA-AAATTTCTA
1 TTTTATTACA-TC-AAATAAACTTCTA
25725229 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
25725254 TTTTATTGCATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
25725279 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
25725297 TATCAAAATA
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.01
20 8 0.09
21 5 0.05
24 5 0.05
25 73 0.78
26 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:25725246 original size:45 final size:44
Alignment explanation
Indices: 25725182--25725349 Score: 187
Period size: 50 Copynumber: 3.7 Consensus size: 44
25725172 AATAAACTTA
*
25725182 TATTTTATTACATCAAATAATATGAAAATAACTCGAAAAAATTTC
1 TATTTTATTACATCAAATAATATCAAAATAACTC-AAAAAATTTC
** ** *
25725227 TATTTTATTACATCAAATAA-ACTTCTATTTTATTGCATCAAATAAACTTC
1 TATTTTATTACATCAAATAATA--TC-A--AAATAAC-TCAAA-AAATTTC
25725277 TATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATTTC
1 TATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATTTC
*
25725321 TATTTT-TTACATAAAATAATATCAAAATA
1 TATTTTATTACATCAAATAATATCAAAATA
25725350 TTCAAAATAT
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
43 22 0.21
44 13 0.13
45 25 0.24
46 4 0.04
47 1 0.01
48 1 0.01
49 8 0.08
50 28 0.27
51 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (44 bp):
TATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATTTC
Found at i:25726471 original size:7 final size:7
Alignment explanation
Indices: 25726461--25726485 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25726451 TTATATACAT
25726461 AATACTA
1 AATACTA
25726468 AATACTA
1 AATACTA
25726475 AATACTA
1 AATACTA
25726482 AATA
1 AATA
25726486 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:25727680 original size:51 final size:51
Alignment explanation
Indices: 25727625--25727740 Score: 196
Period size: 51 Copynumber: 2.3 Consensus size: 51
25727615 TATTTTAAAA
*
25727625 AAGGAAATTGAGAGCAAATTGAAAGTAAATATGGATTTCAGAGAATTTTGG
1 AAGGAAATTGAGAGCAAACTGAAAGTAAATATGGATTTCAGAGAATTTTGG
* * *
25727676 AAGGAAATTGAGAGGAAACTGAAATTAAATATGGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGCAAACTGAAAGTAAATATGGATTTCAGAGAATTTTGG
25727727 AAGGAAATTGAGAG
1 AAGGAAATTGAGAG
25727741 AATTTTGGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.44, C:0.03, G:0.28, T:0.26
Consensus pattern (51 bp):
AAGGAAATTGAGAGCAAACTGAAAGTAAATATGGATTTCAGAGAATTTTGG
Found at i:25727737 original size:22 final size:22
Alignment explanation
Indices: 25727712--25727762 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
25727702 AAATATGGAT
25727712 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
* *
25727734 TTGAGAGAATTTTGGATGGAAT
1 TTGAGAGAATTTTGGAAGGAAA
25727756 TTGAGAG
1 TTGAGAG
25727763 GAAATTGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:25727768 original size:12 final size:12
Alignment explanation
Indices: 25727710--25727785 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 12
25727700 TTAAATATGG
25727710 ATTTGAGA-GAA
1 ATTTGAGAGGAA
*
25727721 TTTTG-GAAGGAA
1 ATTTGAG-AGGAA
25727733 A-TTGAGA-GAA
1 ATTTGAGAGGAA
*
25727743 TTTTG-GATGG-A
1 ATTTGAGA-GGAA
25727754 ATTTGAGAGGAA
1 ATTTGAGAGGAA
25727766 A-TTGAGAGGAA
1 ATTTGAGAGGAA
*
25727777 ATATGAGAG
1 ATTTGAGAG
25727786 AGGATTTGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
10 6 0.12
11 30 0.59
12 15 0.29
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:25741473 original size:25 final size:25
Alignment explanation
Indices: 25741431--25741500 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
25741421 ATGCTCATAC
*
25741431 GAGCTGTA-AACGGTAAGCTCCTTT
1 GAGCTGAATAACGGTAAGCTCCTTT
25741455 GAGCTGAATAACGGTAAGCTCCTTT
1 GAGCTGAATAACGGTAAGCTCCTTT
*
25741480 GAGCTGAATAATGGTAAGCTC
1 GAGCTGAATAACGGTAAGCTC
25741501 ATAAGAGCTG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 7 0.16
25 36 0.84
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAGCTCCTTT
Found at i:25741508 original size:25 final size:25
Alignment explanation
Indices: 25741423--25741520 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 25
25741413 GTACATGTAT
* *
25741423 GCTCATACGAGCTGTA-AACGGTAA
1 GCTCATATGAGCTGAATAACGGTAA
* *
25741447 GCTCCTTTGAGCTGAATAACGGTAA
1 GCTCATATGAGCTGAATAACGGTAA
* * *
25741472 GCTCCTTTGAGCTGAATAATGGTAA
1 GCTCATATGAGCTGAATAACGGTAA
* *
25741497 GCTCATAAGAGCTGAA-ATCGGTAA
1 GCTCATATGAGCTGAATAACGGTAA
25741521 CCCTAATGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 18 0.29
25 45 0.71
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (25 bp):
GCTCATATGAGCTGAATAACGGTAA
Found at i:25743973 original size:30 final size:30
Alignment explanation
Indices: 25743937--25743997 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
25743927 GCCTAAAATG
* *
25743937 TAAGACAATAATCACTAACTGCTACTCTAA
1 TAAGACAATAATCACGAACCGCTACTCTAA
*
25743967 TAAGACAATAATCACGAGCCGCTACTCTAA
1 TAAGACAATAATCACGAACCGCTACTCTAA
25743997 T
1 T
25743998 CTTCGGTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.25
Consensus pattern (30 bp):
TAAGACAATAATCACGAACCGCTACTCTAA
Found at i:25747938 original size:70 final size:70
Alignment explanation
Indices: 25747864--25748308 Score: 439
Period size: 70 Copynumber: 6.4 Consensus size: 70
25747854 GATTATAGTC
* **
25747864 GAGAGCTTTTAACTCTCGCTAACTGTGTGGGGGCTGCGGTATTAAACCTATGAGCCTTAAAATGA
1 GAGAGCTTTTAACTCTCGCTAACTGTTTGGGGGCTGCGGTATTAAACCTGCGAGCCTTAAAATGA
*
25747929 TAGCT
66 CAGCT
* * * * * * *
25747934 GAGAGCTTTTTAACTCTCGTTAACTATTTGGAGGTTGTGGTATTAAATCTGCAAGCCTTAAAATG
1 GAGAGC-TTTTAACTCTCGCTAACTGTTTGGGGGCTGCGGTATTAAACCTGCGAGCCTTAAAATG
* *
25747999 AAAACT
65 ACAGCT
* * *
25748005 GAGAGCTTTTAACTCTCGCTGACTATTT-GGGGCTGCGGTATTAAACTTGCGAGCCTTAAAATGA
1 GAGAGCTTTTAACTCTCGCTAACTGTTTGGGGGCTGCGGTATTAAACCTGCGAGCCTTAAAATGA
**
25748069 CAATT
66 CAGCT
* * * * * * *
25748074 G-GAAGCTTTTAAATTTTGTTAACTGTTTGGGGGCTGCGTTATTAAACCTGCGAGTCTTAAAAAG
1 GAG-AGCTTTTAACTCTCGCTAACTGTTTGGGGGCTGCGGTATTAAACCTGCGAGCCTTAAAATG
* *
25748138 ATAGTT
65 ACAGCT
* * ** * * * *
25748144 GAGAGCTTTTAACTCTCAG-TAACTGTTTAGAGATTGTGGTACTAAACCTGCGAGCTTTAAAATA
1 GAGAGCTTTTAACTCTC-GCTAACTGTTTGGGGGCTGCGGTATTAAACCTGCGAGCCTTAAAATG
*
25748208 ACAGTT
65 ACAGCT
* * * * * *
25748214 AAGAGCTTTTAACTCTCGCTAACTATTTGGGGGCTGTGATATTAAACCTACAAGCCTT-AAATGA
1 GAGAGCTTTTAACTCTCGCTAACTGTTTGGGGGCTGCGGTATTAAACCTGCGAGCCTTAAAATGA
25748278 CAGCT
66 CAGCT
* *
25748283 GGGACCTTTTAACTCTCGCTAACTGT
1 GAGAGCTTTTAACTCTCGCTAACTGT
25748309 CTGGAGTTTC
Statistics
Matches: 303, Mismatches: 66, Indels: 13
0.79 0.17 0.03
Matches are distributed among these distances:
68 1 0.00
69 85 0.28
70 157 0.52
71 60 0.20
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (70 bp):
GAGAGCTTTTAACTCTCGCTAACTGTTTGGGGGCTGCGGTATTAAACCTGCGAGCCTTAAAATGA
CAGCT
Found at i:25748308 original size:209 final size:210
Alignment explanation
Indices: 25747869--25748308 Score: 546
Period size: 209 Copynumber: 2.1 Consensus size: 210
25747859 TAGTCGAGAG
* *
25747869 CTTTTAACTCTCGCTAACTGTGTGGGGGCTGCGGTATTAAACCTATGAGCCTTAAAATGATAGCT
1 CTTTTAACTCTCGCTAACTGTGTGGGGGCTGCGGTATTAAACCTACGAGCCTTAAAAAGATAGCT
* * * *
25747934 GAGAGCTTTTTAACTCTCGTTAACTATTTGGAGGTTGTGGTATTAAATCTGCAAGCCTTAAAATG
66 GAGAGCTTTTTAACTCTCGTTAACTATTTAGAGATTGTGGTACTAAACCTGCAAGCCTTAAAATG
* * * * * *
25747999 AAAACTGAGAGCTTTTAACTCTCGCTGACTATTTGGGGCTGCGGTATTAAACTTGCGAGCCTTAA
131 AAAACTAAGAGCTTTTAACTCTCGCTAACTATTTGGGGCTGCGATATTAAACCTACAAGCCTTAA
* *
25748064 AATGACAATTGGAAG
196 AATGACAACTGGAAC
* * * * * * * * *
25748079 CTTTTAAATTTTGTTAACTGTTTGGGGGCTGCGTTATTAAACCTGCGAGTCTTAAAAAGATAGTT
1 CTTTTAACTCTCGCTAACTGTGTGGGGGCTGCGGTATTAAACCTACGAGCCTTAAAAAGATAGCT
* * *
25748144 GAGAGC-TTTTAACTCTCAG-TAACTGTTTAGAGATTGTGGTACTAAACCTGCGAGCTTTAAAAT
66 GAGAGCTTTTTAACTCTC-GTTAACTATTTAGAGATTGTGGTACTAAACCTGCAAGCCTTAAAAT
** *
25748207 -AACAGTTAAGAGCTTTTAACTCTCGCTAACTATTTGGGGGCTGTGATATTAAACCTACAAGCCT
130 GAA-AACTAAGAGCTTTTAACTCTCGCTAACTATTT-GGGGCTGCGATATTAAACCTACAAGCCT
* *
25748271 T-AAATGACAGCTGGGAC
193 TAAAATGACAACTGGAAC
25748288 CTTTTAACTCTCGCTAACTGT
1 CTTTTAACTCTCGCTAACTGT
25748309 CTGGAGTTTC
Statistics
Matches: 192, Mismatches: 35, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
208 2 0.01
209 105 0.55
210 85 0.44
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (210 bp):
CTTTTAACTCTCGCTAACTGTGTGGGGGCTGCGGTATTAAACCTACGAGCCTTAAAAAGATAGCT
GAGAGCTTTTTAACTCTCGTTAACTATTTAGAGATTGTGGTACTAAACCTGCAAGCCTTAAAATG
AAAACTAAGAGCTTTTAACTCTCGCTAACTATTTGGGGCTGCGATATTAAACCTACAAGCCTTAA
AATGACAACTGGAAC
Found at i:25753691 original size:15 final size:15
Alignment explanation
Indices: 25753671--25753700 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25753661 TGATCGGAGA
25753671 AAAGAAAATCAAACT
1 AAAGAAAATCAAACT
*
25753686 AAAGAAAATGAAACT
1 AAAGAAAATCAAACT
25753701 TGAAGAGCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAGAAAATCAAACT
Found at i:25753973 original size:332 final size:332
Alignment explanation
Indices: 25753367--25754000 Score: 1214
Period size: 332 Copynumber: 1.9 Consensus size: 332
25753357 CTTGTTTGCT
25753367 CTTGAAGAGCAAAGAACTGTTGTGGGGGTTCCTCTTGGCTAGGAGGAAGCGATAACCCTTGATTG
1 CTTGAAGAGCAAAGAACTGTTGTGGGGGTTCCTCTTGGCTAGGAGGAAGCGATAACCCTTGATTG
* * *
25753432 GCAGAAACATTCAAGTCTAGAAGACCAGAAACTCCTTAATAAACTGCATTGTCGAATTTCTCCAG
66 GCAGAAACATTCAAGTCTAGAAGACCAGAAACTCCTTAATAAAATGCACTGTCGAAGTTCTCCAG
*
25753497 TTTATTGGCAAACCATCCAACAAACAAATCCGTTTCATTGTGCTGACTGCTGGAACTTGATGCTC
131 TCTATTGGCAAACCATCCAACAAACAAATCCGTTTCATTGTGCTGACTGCTGGAACTTGATGCTC
*
25753562 CAGCTTGTCTTGACGAAAGGTTGAAGGGGAAATTCTCATTTGAGTGAGCCATTTCTATTCTGAAA
196 CAGCCTGTCTTGACGAAAGGTTGAAGGGGAAATTCTCATTTGAGTGAGCCATTTCTATTCTGAAA
25753627 CTTGAGAAAAGAAAATCAAACTAAAGAAATCTGATGATCGGAGAAAAGAAAATCAAACTAAAGAA
261 CTTGAGAAAAGAAAATCAAACTAAAGAAATCTGATGATCGGAGAAAAGAAAATCAAACTAAAGAA
25753692 AATGAAA
326 AATGAAA
25753699 CTTGAAGAGCAAAGAACTGTTGTGGGGGTTCCTCTTGGCTAGGAGGAAGCGATAACCCTTGATTG
1 CTTGAAGAGCAAAGAACTGTTGTGGGGGTTCCTCTTGGCTAGGAGGAAGCGATAACCCTTGATTG
*
25753764 GCAGAAACATTCAAGTCTAGAAGACCAGAAACTCCTTAATAAAATGCACTGTCGGAGTTCTCCAG
66 GCAGAAACATTCAAGTCTAGAAGACCAGAAACTCCTTAATAAAATGCACTGTCGAAGTTCTCCAG
25753829 TCTATTGGCAAACCATCCAACAAACAAATCCGTTTCATTGTGCTGACTGCTGGAACTTGATGCTC
131 TCTATTGGCAAACCATCCAACAAACAAATCCGTTTCATTGTGCTGACTGCTGGAACTTGATGCTC
25753894 CAGCCTGTCTTGACGAAAGGTTGAAGGGGAAATTCTCATTTGAGTGAGCCATTTCTATTCTGAAA
196 CAGCCTGTCTTGACGAAAGGTTGAAGGGGAAATTCTCATTTGAGTGAGCCATTTCTATTCTGAAA
25753959 CTTGAGAAAAGAAAATCAAACTAAAGAAATCTGATGATCGGA
261 CTTGAGAAAAGAAAATCAAACTAAAGAAATCTGATGATCGGA
25754001 AGTTCATCCA
Statistics
Matches: 296, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
332 296 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (332 bp):
CTTGAAGAGCAAAGAACTGTTGTGGGGGTTCCTCTTGGCTAGGAGGAAGCGATAACCCTTGATTG
GCAGAAACATTCAAGTCTAGAAGACCAGAAACTCCTTAATAAAATGCACTGTCGAAGTTCTCCAG
TCTATTGGCAAACCATCCAACAAACAAATCCGTTTCATTGTGCTGACTGCTGGAACTTGATGCTC
CAGCCTGTCTTGACGAAAGGTTGAAGGGGAAATTCTCATTTGAGTGAGCCATTTCTATTCTGAAA
CTTGAGAAAAGAAAATCAAACTAAAGAAATCTGATGATCGGAGAAAAGAAAATCAAACTAAAGAA
AATGAAA
Found at i:25760136 original size:46 final size:46
Alignment explanation
Indices: 25760069--25760337 Score: 430
Period size: 46 Copynumber: 5.8 Consensus size: 46
25760059 CTACCCTGTT
*
25760069 TTGGACAGCATTAATATGCTCAAAATGGACAGCATTATACATCAAA
1 TTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACATCAAA
25760115 TTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACATCAAA
1 TTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACATCAAA
* * *
25760161 TTGGACAGCTTTAATATGCTCAAATTGGACAGCATTATACATCAAA
1 TTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACATCAAA
* *
25760207 TTGGTCAGCATCAATATTCTCAAAATGGACAGCATTATACATCAAA
1 TTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACATCAAA
* * * * *
25760253 TTGGACAGCATCAATATACTCAAAATTGACAACATTATGCAACAAA
1 TTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACATCAAA
*
25760299 TTGGACAGCATCAATCTGCTCAAAATGGACAGCATTATA
1 TTGGACAGCATCAATATGCTCAAAATGGACAGCATTATA
25760338 ACATATAAAA
Statistics
Matches: 203, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 203 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (46 bp):
TTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACATCAAA
Found at i:25761077 original size:41 final size:41
Alignment explanation
Indices: 25761027--25761123 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
25761017 GCCATCGTAC
* * *
25761027 AGCCGAAGCTAT-TATAATCTCGCACACTAAGTGCCTTACAT
1 AGCCGAAGCTATCT-CAATCTCGCACACTAAGTGCCATAAAT
*
25761068 AGTCGAAGCTATCTCAATCTCGCACACTAAGTGCCATAAAT
1 AGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCATAAAT
25761109 AGCCGAAGCTATCTC
1 AGCCGAAGCTATCTC
25761124 GAATTTCATA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 49 0.98
42 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (41 bp):
AGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCATAAAT
Found at i:25766420 original size:20 final size:20
Alignment explanation
Indices: 25766395--25766433 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
25766385 GATGTTATTT
25766395 ATTTTATTAACAATTTAATA
1 ATTTTATTAACAATTTAATA
25766415 ATTTTATTAACAATTTAAT
1 ATTTTATTAACAATTTAAT
25766434 TCTTCATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTATTAACAATTTAATA
Found at i:25776231 original size:168 final size:168
Alignment explanation
Indices: 25775953--25776294 Score: 675
Period size: 168 Copynumber: 2.0 Consensus size: 168
25775943 GTACTCTATA
25775953 ACCAATAGGGTGGAAGTATAGGCTTTTAGTAACGTCTTCCAAGTCTATTGAATTATAGTACTTTA
1 ACCAATAGGGTGGAAGTATAGGCTTTTAGTAACGTCTTCCAAGTCTATTGAATTATAGTACTTTA
25776018 GCTCCCAAGTAGAATATCCTAGTCCGGGCCAAACTAAGATATTGATACTCTAGATGGTTCATTGG
66 GCTCCCAAGTAGAATATCCTAGTCCGGGCCAAACTAAGATATTGATACTCTAGATGGTTCATTGG
25776083 TCATTATATGAAATTAAATGCCCAGCAAAAAAGTAACT
131 TCATTATATGAAATTAAATGCCCAGCAAAAAAGTAACT
25776121 ACCAATAGGGTGGAAGTATAGGCTTTTAGTAACGTCTTCCAAGTCTATTGAATTATAGTACTTTA
1 ACCAATAGGGTGGAAGTATAGGCTTTTAGTAACGTCTTCCAAGTCTATTGAATTATAGTACTTTA
*
25776186 GCTCCCAAGTAGAATATCCTAGTCCGGGCCAGACTAAGATATTGATACTCTAGATGGTTCATTGG
66 GCTCCCAAGTAGAATATCCTAGTCCGGGCCAAACTAAGATATTGATACTCTAGATGGTTCATTGG
25776251 TCATTATATGAAATTAAATGCCCAGCAAAAAAGTAACT
131 TCATTATATGAAATTAAATGCCCAGCAAAAAAGTAACT
25776289 ACCAAT
1 ACCAAT
25776295 GTGATAAGCC
Statistics
Matches: 173, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 173 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (168 bp):
ACCAATAGGGTGGAAGTATAGGCTTTTAGTAACGTCTTCCAAGTCTATTGAATTATAGTACTTTA
GCTCCCAAGTAGAATATCCTAGTCCGGGCCAAACTAAGATATTGATACTCTAGATGGTTCATTGG
TCATTATATGAAATTAAATGCCCAGCAAAAAAGTAACT
Found at i:25778418 original size:20 final size:20
Alignment explanation
Indices: 25778381--25778419 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25778371 ACCTCCCTCA
* *
25778381 GGGAGGCTTACCGGACAATG
1 GGGAGGCTTAACGCACAATG
25778401 GGGAGGCTTAACGCACAAT
1 GGGAGGCTTAACGCACAAT
25778420 AAAGTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.21, G:0.36, T:0.15
Consensus pattern (20 bp):
GGGAGGCTTAACGCACAATG
Found at i:25782515 original size:5 final size:5
Alignment explanation
Indices: 25782499--25782528 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
25782489 TGTTGCATTT
25782499 TTAAA TTAAAA TTAAA TTAAA TTAAA TTAA
1 TTAAA TT-AAA TTAAA TTAAA TTAAA TTAA
25782529 TTTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:25784472 original size:16 final size:16
Alignment explanation
Indices: 25784451--25784483 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25784441 TTAATCTACA
25784451 GTTTTTATTAT-TATAT
1 GTTTTT-TTATCTATAT
25784467 GTTTTTTTATCTATAT
1 GTTTTTTTATCTATAT
25784483 G
1 G
25784484 CTAAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (16 bp):
GTTTTTTTATCTATAT
Found at i:25798078 original size:217 final size:217
Alignment explanation
Indices: 25797703--25798706 Score: 1582
Period size: 217 Copynumber: 4.6 Consensus size: 217
25797693 TCGGTGGCCA
25797703 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
* * * * *
25797768 TGCAGAGAGCAGATCGCATTTGGTTTTATCTCCCAGAAGTTATAGTGGAGCAGACTAAGTAAGCA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
25797833 AGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
25797898 GCAGTGGAGTAAATTAAAGCCG
196 GCAGTGGAGTAGATTAAAGCCG
* * *
25797920 ATAATCCTATCTCTCTGAAGTTACAATGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
* * * *
25797985 TGCAAAGAGCAGATCGCATCTAGTCTTATCTCCTTGAAGTTACAGTGGAGTAGACTAAGTAAACA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
* ** * * *
25798050 AGTCTTATCCTCTTGAAGTTATAGTAAGGTAGACTAAAGATGGCAAATCTTATCTCCCTGAGGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
25798115 GCAGTAGAGTAGATTAAAGCCG
196 GCAGTGGAGTAGATTAAAGCCG
* *
25798137 ATAATCCTATCTCCCTAAATTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
* * * *
25798202 TGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCGGAAGTTGCAGTGGAGTAGACTAAGTAAGCA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
*
25798267 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* *
25798332 GTAGTGGAGCAGATTAAAGCCG
196 GCAGTGGAGTAGATTAAAGCCG
* * *
25798354 ATAATTCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTAAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
*
25798419 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAACA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
* * * *
25798484 AGTCTTATCCTCCTGAAGTTGCAGTGAGACAGATTGAAGATGGCAAATCTTATCTCCCTGAGGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
25798549 ACAGTGGAGTAGATTAAAG-C-
196 GCAGTGGAGTAGATTAAAGCCG
* * *
25798569 -TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTGAATT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
* * * *
25798633 TACAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
25798698 AGTCTTATC
131 AGTCTTATC
25798707 TTTCTGAATT
Statistics
Matches: 719, Mismatches: 68, Indels: 3
0.91 0.09 0.00
Matches are distributed among these distances:
214 127 0.18
216 1 0.00
217 591 0.82
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (217 bp):
ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
AGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGTAGATTAAAGCCG
Found at i:25798704 original size:44 final size:43
Alignment explanation
Indices: 25797793--25798707 Score: 319
Period size: 44 Copynumber: 21.1 Consensus size: 43
25797783 GCATTTGGTT
* **
25797793 TTATCTCCCAGAAGTTATAGTGGAGCAGACTAAGTAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTC
* * *
25797837 TTATC-CTCCTGAAGTTGCAGT-AAGGCAGACTGAAGATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTC
* * * *
25797882 TTATCTCCCTGAAGTTGCAGTGGAGTA-AATTA-AAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTC
* * * * * * * **
25797926 CTATCTCTCTGAAGTTACAATGGAGCGGATTAA-AACCTTGGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TC
* ** * * * *
25797970 TTATCTCTCTGAAGTTGCA-AAGAGCAGA-T-CGCATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
* * * *
25798010 TTATCTCCTTGAAGTTACAGTGGAGTAGACTAAGTAAACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTC
* ** * * * *
25798054 TTATC-CTCTTGAAGTTATAGT-AAGGTAGACTAAAGATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTC
* * * * *
25798099 TTATCTCCCTGAGGTTGCAGTAGAGTAGA-TTA-AAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTC
* * * * * * **
25798143 CTATCTCCCTAAATTTGCAGTGGAGCGGATTAA-AACCTTGGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TC
* * * * ***
25798187 TTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATTTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
* *
25798227 TTATCTCCCGGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTC
* *
25798271 TTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTC
* * ** * *
25798316 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-CAAGTC
* * * * **
25798361 -TATCTCTCTGAAGTTGCAGTGGAGCGGATTAA-AACCTTGGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TC
* * * * * * *
25798404 TTATCTCTCTAAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
* *
25798444 TTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTC
* * *
25798488 TTATC-CTCCTGAAGTTGCAGT-GAGACAGATTGAAGATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGA-AGCAAGTC
* * * *
25798533 TTATCTCCCTGAGGTTACAGTGGAGTAGA-TTA-AAGCTAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAGTC
* * * * * **
25798574 CTATCTCCCTGAAGTTACAGTGGAGCGGATTAA-AATCTTGGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TC
* * * * * * * *
25798618 TTATCTCTCTGAATTTACAG-AGAGCAGA-TCA-CATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
*
25798658 TTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTC
25798702 TTATCT
1 TTATCT
25798708 TTCTGAATTC
Statistics
Matches: 651, Mismatches: 159, Indels: 122
0.70 0.17 0.13
Matches are distributed among these distances:
40 76 0.12
41 64 0.10
42 31 0.05
43 47 0.07
44 287 0.44
45 135 0.21
46 11 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
Found at i:25808103 original size:11 final size:11
Alignment explanation
Indices: 25808087--25808113 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25808077 GAGAAAGCTA
25808087 AAAGTCAAGTC
1 AAAGTCAAGTC
25808098 AAAGTCAAGTC
1 AAAGTCAAGTC
25808109 AAAGT
1 AAAGT
25808114 GACAGCGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (11 bp):
AAAGTCAAGTC
Found at i:25808919 original size:30 final size:30
Alignment explanation
Indices: 25808860--25808933 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
25808850 TTCCTGGGAT
*** *
25808860 AGGATGTTTGAAAATTATCTTGGGTTTCCC
1 AGGATGTTTGAAAATTATCTCAAGATTCCC
25808890 AGGATGTTTGAAAATTATCTCAAGATTCCC
1 AGGATGTTTGAAAATTATCTCAAGATTCCC
*
25808920 AAG-T-TTTGAAAATT
1 AGGATGTTTGAAAATT
25808934 TTTCACGGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.26
29 1 0.03
30 28 0.72
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (30 bp):
AGGATGTTTGAAAATTATCTCAAGATTCCC
Found at i:25809303 original size:21 final size:21
Alignment explanation
Indices: 25809277--25809331 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
25809267 ATAGCGGTGA
*
25809277 CGGTGAGATTAGTTACTATAG
1 CGGTGAGATTAGATACTATAG
* *
25809298 CGGTGAGATTGGATACTGTAG
1 CGGTGAGATTAGATACTATAG
*
25809319 CAGTGAGATTAGA
1 CGGTGAGATTAGA
25809332 AACAATGGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (21 bp):
CGGTGAGATTAGATACTATAG
Found at i:25812801 original size:44 final size:45
Alignment explanation
Indices: 25812737--25813122 Score: 335
Period size: 44 Copynumber: 8.7 Consensus size: 45
25812727 ACTAGTATGG
* * * * *
25812737 GAAGACAAGATCT-CCTATCTTTGATCAAATTCATGCCAATACAT
1 GAAGACAAGATCTGTCTATCTTCGATCTACTTCACGCCAATACAT
*
25812781 GAAGACAAGATCTGTC-ATCTTCGATCTACTTCACGCCAATACGT
1 GAAGACAAGATCTGTCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * *
25812825 AAAGACAAGATCT-TCTACCTTTGATTTACTTTATGCCAATACAT
1 GAAGACAAGATCTGTCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * ***
25812869 GAAGACAAGATCTGT-TTTCTTCGATCTATTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTCTATCTTCGATCTACTTC-ACGCCAATACAT
* * * *
25812914 GAAGACAAGATTTG-CTACCTTTGATCTACTTCATGCCGAAT-CAT
1 GAAGACAAGATCTGTCTATCTTCGATCTACTTCACGCC-AATACAT
* * * * ***
25812958 GAAGACAAGATCT-ACTTTCTTCGATCTACTTCGC-CGCAGGTATGG
1 GAAGACAAGATCTGTCTATCTTCGATCTACTTCACGC-CA-ATACAT
25813003 GAAGACAAGATCTGT-TATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGTCTATCTTCGATCTACTTCACGCCAATACAT
* ** *
25813047 GAAGACAAGCTCTG-CTATCTTTAATCCACTTCACGCCAATACAT
1 GAAGACAAGATCTGTCTATCTTCGATCTACTTCACGCCAATACAT
*
25813091 GAAGACAAGATCTGT-TTTCTTCGATCTACTTC
1 GAAGACAAGATCTGTCTATCTTCGATCTACTTC
25813123 GCCACCAGTA
Statistics
Matches: 263, Mismatches: 65, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
43 4 0.02
44 191 0.73
45 67 0.25
46 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (45 bp):
GAAGACAAGATCTGTCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:25812961 original size:89 final size:89
Alignment explanation
Indices: 25812715--25813060 Score: 410
Period size: 89 Copynumber: 3.9 Consensus size: 89
25812705 GCGATGTTCA
* * * * * *
25812715 ATCTACTTCACCACTAGTATGGGAAGACAAGATCTCCTATCTTTGATCAAATTCATGCCAATACA
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCATGCCAATACA
**
25812780 TGAAGACAAGATCTGTCATCTTCG
66 TGAAGACAAGATCTGTTTTCTTCG
* * * * ** * * *
25812804 ATCTACTTC-ACGCCAATACGTAAAGACAAGATCTTCTACCTTTGATTTACTTTATGCCAATACA
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCATGCCAATACA
25812868 TGAAGACAAGATCTGTTTTCTTCG
66 TGAAGACAAGATCTGTTTTCTTCG
* *
25812892 ATCTATTTCGCCACCAGTATGGGAAGACAAGATTTGCTACCTTTGATCTACTTCATGCCGAAT-C
1 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCATGCC-AATAC
**
25812956 ATGAAGACAAGATCTACTTTCTTCG
65 ATGAAGACAAGATCTGTTTTCTTCG
* * * * *
25812981 ATCTACTTCGCC-GCAGGTATGGGAAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAATAC
1 ATCTACTTCGCCACCA-GTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCATGCCAATAC
*
25813045 ATGAAGACAAGCTCTG
65 ATGAAGACAAGATCTG
25813061 CTATCTTTAA
Statistics
Matches: 216, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
88 77 0.36
89 136 0.63
90 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (89 bp):
ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCATGCCAATACA
TGAAGACAAGATCTGTTTTCTTCG
Found at i:25812988 original size:133 final size:134
Alignment explanation
Indices: 25812736--25813156 Score: 372
Period size: 133 Copynumber: 3.2 Consensus size: 134
25812726 CACTAGTATG
** * * * ** *
25812736 GGAAGACAAGATCTCCTATCTTTGATCAAATTCATGCCAATACATGAAGACAAGATCTG-TCATC
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCT-ATC
* * * * ** * * *
25812800 TTCGATCTACTTCACGCCAATACGTAAAGACAAGATCTTCTACCTTTGATTTACTTTATG-C-CA
65 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTT-CGCCGCA
25812863 -ATACA
129 GATACA
* * * * * ** * *
25812868 TGAAGACAAGATCTGTTTTCTTCGATCTATTTCGCCACCAGTATGGGAAGACAAGATTTGCTACC
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTATC
*
25812933 TTTGATCTACTTCATGCCGAAT-CATGAAGACAAGATCTACTTTCTTCGATCTAC-TTCGCCGCA
65 TTTGATCTACTTCACGCC-AATACATGAAGACAAGATCTACTTTCTTCGATCTACTTTCGCCGCA
* **
25812996 GGTATG
129 GATACA
* * *
25813002 GGAAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGCTCTGCTATCT
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCT
* * ** *
25813067 TTAATCCACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTAC-TTCGCCACCAG
66 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTTCGCC-GCAG
**
25813131 -TATG
130 ATACA
*
25813135 GGAAGACAAGATCTGCTATCTT
1 GGAAGACAAGATCTGTTATCTT
25813157 TAACCTGCTC
Statistics
Matches: 233, Mismatches: 48, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
131 1 0.00
132 32 0.14
133 161 0.69
134 39 0.17
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (134 bp):
GGAAGACAAGATCTGTTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCT
TTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTTCGCCGCAGA
TACA
Found at i:25813012 original size:45 final size:44
Alignment explanation
Indices: 25812869--25813156 Score: 210
Period size: 44 Copynumber: 6.5 Consensus size: 44
25812859 GCCAATACAT
* * *
25812869 GAAGACAAGATCTGTTTTCTTCGATCTATTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC-GCAGTATGG
* ** * *
25812914 GAAGACAAGATTTGCTACCTTTGATCTACTTCATGCCG-AATCAT--
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC--GCCGCAGT-ATGG
*
25812958 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCGCAGGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCGCA-GTATGG
* * ***
25813003 GAAGACAAGATCTG-TTATCTTCGATCTACTTC-ACGCCAATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCG-CAGTATGG
* * ** * * * ***
25813047 GAAGACAAGCTCTGCTATCTTTAATCCACTTC-ACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCG-CAGTATGG
* *
25813091 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC-GCAGTATGG
*
25813136 GAAGACAAGATCTGCTATCTT
1 GAAGACAAGATCTGCTTTCTT
25813157 TAACCTGCTC
Statistics
Matches: 192, Mismatches: 39, Indels: 24
0.75 0.15 0.09
Matches are distributed among these distances:
42 4 0.02
43 3 0.02
44 97 0.51
45 83 0.43
46 2 0.01
47 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCGCAGTATGG
Found at i:25813078 original size:89 final size:88
Alignment explanation
Indices: 25812715--25813156 Score: 403
Period size: 89 Copynumber: 5.0 Consensus size: 88
25812705 GCGATGTTCA
** * *
25812715 ATCTACTTCAC-CACTAGTATGGGAAGACAAGATCTCCTATCTTTGATCAAATTCATGCCAATAC
1 ATCTACTTCACGC-C-AGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCATGCCAATAC
25812779 ATGAAGACAAGATCTG-TCATCTTCG
64 ATGAAGACAAGATCTGCT-ATCTTCG
* * ** * * *
25812804 ATCTACTTCACGCCAATACGTAAAGACAAGATCT-TCTACCTTTGATTTACTTTATGCCAATACA
1 ATCTACTTCACGCCAGTATGGGAAGACAAGATCTGT-TATCTTTGATCTACTTCATGCCAATACA
* *
25812868 TGAAGACAAGATCTGTTTTCTTCG
65 TGAAGACAAGATCTGCTATCTTCG
* * * * * *
25812892 ATCTATTTCGCCACCAGTATGGGAAGACAAGATTTGCTACCTTTGATCTACTTCATGCCGAAT-C
1 ATCTACTTC-ACGCCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCATGCC-AATAC
* *
25812956 ATGAAGACAAGATCTACTTTCTTCG
64 ATGAAGACAAGATCTGCTATCTTCG
* * *
25812981 ATCTACTTCGC-CGCAGGTATGGGAAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAATAC
1 ATCTACTTCACGC-CA-GTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCATGCCAATAC
* **
25813045 ATGAAGACAAGCTCTGCTATCTTTA
64 ATGAAGACAAGATCTGCTATCTTCG
* * *** * *
25813070 ATCCACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTC--GCCACCAGTA
1 ATCTACTTCACGCCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCATGCCA--A-TA
***
25813133 TGGGAAGACAAGATCTGCTATCTT
63 CATGAAGACAAGATCTGCTATCTT
25813157 TAACCTGCTC
Statistics
Matches: 293, Mismatches: 47, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
86 4 0.01
87 1 0.00
88 108 0.37
89 175 0.60
90 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (88 bp):
ATCTACTTCACGCCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCATGCCAATACAT
GAAGACAAGATCTGCTATCTTCG
Found at i:25813206 original size:88 final size:88
Alignment explanation
Indices: 25813108--25813946 Score: 848
Period size: 88 Copynumber: 9.6 Consensus size: 88
25813098 AGATCTGTTT
* ** ** *
25813108 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTAACCTGCTCTGCTGC
1 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCTGCTGC
* *
25813173 CACCGAGGGAGGCAAGGCTAGTG
66 AACCCAGGGAGGCAAGGCTAGTG
* * * * *
25813196 TCTTCAATCTACTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTACT-TCGCTG
1 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCT-GCTG
* *
25813260 CCACCAAGGGAGGCAAGGCTAGTG
65 CAACCCAGGGAGGCAAGGCTAGTG
* * * * * * *
25813284 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTACTATCTTTAACATGCTCCGCTAC
1 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCTGCTGC
* *
25813349 CACCGAGGGAGGCAAGGCTAGTG
66 AACCCAGGGAGGCAAGGCTAGTG
* * * * ** * *
25813372 TCTTCGATCTAC-TC-C-ACCATTACTTAGGGAGATAAGATCTACAAT-TTTCAACCTGCTCTGC
1 TCTTCGATCTGCTTCGCTGCCAGTAC--AGGAAGGCAAGATCTGCTATCTTT-AACCTGCTCTGC
*
25813433 TGCAACCCAGGGAGGCAAGGCTGGTG
63 TGCAACCCAGGGAGGCAAGGCTAGTG
* * * * *
25813459 TCTTTGATTTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGC
1 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCTGCTGC
* * *
25813524 AACCCAGGGAAGAAAGGCTAGTT
66 AACCCAGGGAGGCAAGGCTAGTG
** * * *
25813547 TCTTCGATCTGCTTCGCTGTTAGTACAGGAATGCAAGATCTGCTAT-TTTCAACCTACTCCGCTG
1 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTT-AACCTGCTCTGCTG
*
25813611 CAACCCAGGGAGGCAAGGCTGGTG
65 CAACCCAGGGAGGCAAGGCTAGTG
* * * * * * * ** **
25813635 TCTTTGATCTGCTTCGCTGCCGGTATAGGAATGCAAGATCTGTTATATTCAGTCTGCTCCACTGC
1 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCTGCTGC
* * * *
25813700 AACCTAAGGAGGCAAGACTGGTG
66 AACCCAGGGAGGCAAGGCTAGTG
* * * * *
25813723 TCTTTGATCTGCTTTGCTGTCATTACAGGAAGGCAAG-TCTGCTAT-TTTCAACCTGCTCCGCTG
1 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTT-AACCTGCTCTGCTG
* *
25813786 CAACCCAGGAAGGCAAGTCTAGTG
65 CAACCCAGGGAGGCAAGGCTAGTG
* * * * * * *
25813810 TCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGACAAGATCTGCTATTTTTAACCTGCTGTGCTGC
1 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCTGCTGC
*
25813875 AACCCAGGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTAGTG
* * *
25813898 TCTTTGATCTGCTTCGCTGCCGGTACAGGAAGGCAAAATCTGCTATCTT
1 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTT
25813947 CAATGATCTA
Statistics
Matches: 632, Mismatches: 105, Indels: 28
0.83 0.14 0.04
Matches are distributed among these distances:
85 5 0.01
86 6 0.01
87 132 0.21
88 475 0.75
89 9 0.01
90 5 0.01
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCTGCTGC
AACCCAGGGAGGCAAGGCTAGTG
Found at i:25813255 original size:45 final size:45
Alignment explanation
Indices: 25813204--25813336 Score: 137
Period size: 45 Copynumber: 3.0 Consensus size: 45
25813194 TGTCTTCAAT
25813204 CTACTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
1 CTACTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
* * ** * * * * *
25813249 CTACTTCGCTGCCACCA-AGGGAGGCAAG-GCTAG-TGTCTTCAAT
1 CTACTTCACTGTCAGTACAGGAAGGCAAGATCT-GCTATCTTTAAC
* *
25813292 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTACTATCTTTAAC
1 CTACTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
25813337 ATGCTCCGCT
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
43 21 0.33
44 21 0.33
45 22 0.34
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (45 bp):
CTACTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
Found at i:25813274 original size:44 final size:44
Alignment explanation
Indices: 25813141--25813364 Score: 134
Period size: 44 Copynumber: 5.1 Consensus size: 44
25813131 TATGGGAAGA
*
25813141 CAAGATCTGCTATCTTTAACCTGC-TCTGCTGCCACCGAGGGAGG
1 CAAGATCTGCTATCTTTAACCTGCTTC-GCTGCCACCAAGGGAGG
* * * * * * * ** *
25813185 CAAG-GCTAG-TGTCTTCAATCTACTTCACTGTCAGTACAGGAAGG
1 CAAGATCT-GCTATCTTTAACCTGCTTCGCTGCCACCA-AGGGAGG
*
25813229 CAAGATCTGCTATCTTTAACCTACTTCGCTGCCACCAAGGGAGG
1 CAAGATCTGCTATCTTTAACCTGCTTCGCTGCCACCAAGGGAGG
* * * * * * ** *
25813273 CAAG-GCTAG-TGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGG
1 CAAGATCT-GCTATCTTTAACCTGCTTCGCTGCCACCA-AGGGAGG
* * * * *
25813317 CAAGATCTACTATCTTTAACATGCTCCGCTACCACCGAGGGAGG
1 CAAGATCTGCTATCTTTAACCTGCTTCGCTGCCACCAAGGGAGG
25813361 CAAG
1 CAAG
25813365 GCTAGTGTCT
Statistics
Matches: 127, Mismatches: 44, Indels: 18
0.67 0.23 0.10
Matches are distributed among these distances:
43 38 0.30
44 49 0.39
45 40 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (44 bp):
CAAGATCTGCTATCTTTAACCTGCTTCGCTGCCACCAAGGGAGG
Found at i:25813758 original size:44 final size:43
Alignment explanation
Indices: 25813431--25813933 Score: 160
Period size: 44 Copynumber: 11.5 Consensus size: 43
25813421 AACCTGCTCT
** * * *
25813431 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATTTGCTTC
1 GCTGCAATACAGGAAGGCAAGACTGGTGTCTTTGATCTGCTTC
* ** * * * * *
25813474 ACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGC-TC
1 GCTG-CAATACAGGAAGGCAAGA-CTGGTGTCTTTGATCTGCTTC
** * * * * *
25813518 TGCTGCAACCCAGGGAA-GAAAGGCTAGTTTCTTCGATCTGCTTC
1 -GCTGCAATACA-GGAAGGCAAGACTGGTGTCTTTGATCTGCTTC
* * * * * * * * *
25813562 GCTGTTAGTACAGGAATGCAAGATCTGCTAT-TTTCAACCTACTCC
1 GCTG-CAATACAGGAAGGCAAGA-CTGGTGTCTTT-GATCTGCTTC
** * *
25813607 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTC
1 GCTGCAATACAGGAAGGCAAGACTGGTGTCTTTGATCTGCTTC
** * * * * *
25813650 GCTGCCGGTATAGGAATGCAAGATCT-GT-TATATTCAGTCTGCTCC
1 GCTG-CAATACAGGAAGGCAAGA-CTGGTGTCT-TTGA-TCTGCTTC
* *
25813695 ACTGCAACCTA-AGG-AGGCAAGACTGGTGTCTTTGATCTGCTTT
1 GCTGCAA--TACAGGAAGGCAAGACTGGTGTCTTTGATCTGCTTC
* * * * * * *
25813738 GCTGTCATTACAGGAAGGCAAGTCTGCTAT-TTTCAACCTGCTCC
1 GCTG-CAATACAGGAAGGCAAGACTGGTGTCTTT-GATCTGCTTC
** * *
25813782 GCTGCAACCCAGGAAGGCAAGTCTAGTGTCTTTGATCTGCTTC
1 GCTGCAATACAGGAAGGCAAGACTGGTGTCTTTGATCTGCTTC
** * * * * * * *
25813825 GCTGTCGGTGCAGGAAGACAAGATCTGCTATTTTTAACCTGCTGT-
1 GCTG-CAATACAGGAAGGCAAGA-CTGGTGTCTTTGATCTGCT-TC
** * *
25813870 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTC
1 GCTGCAATACAGGAAGGCAAGACTGGTGTCTTTGATCTGCTTC
**
25813913 GCTGCCGGTACAGGAAGGCAA
1 GCTG-CAATACAGGAAGGCAA
25813934 AATCTGCTAT
Statistics
Matches: 312, Mismatches: 120, Indels: 55
0.64 0.25 0.11
Matches are distributed among these distances:
42 3 0.01
43 104 0.33
44 135 0.43
45 67 0.21
46 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (43 bp):
GCTGCAATACAGGAAGGCAAGACTGGTGTCTTTGATCTGCTTC
Found at i:25813788 original size:351 final size:350
Alignment explanation
Indices: 25813135--25813949 Score: 1008
Period size: 351 Copynumber: 2.3 Consensus size: 350
25813125 CACCAGTATG
* * *
25813135 GGAAGACAAGATCTGCTATCTTTAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTT
1 GGAAGACAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTT
* * * * *
25813200 CAATCTACTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTT-AACCTACTTCGCTGCCAC
66 CGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTAT-TTTCAACCTACTCCGCTGCAAC
*
25813264 CAAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTACTA
130 CAAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTACTA
* * * * * *
25813329 TCTTTAACATGCTCCGCTACCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACCATTA
195 TATTCAACATGCTCCACTACAACCGAAGGAGGCAAGACTAGTGTCTTCGATCTACTCCACCATTA
* * * * *
25813394 CTTAGGGAGATAAGATCTACAATTTTCAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTGGTG
260 C-TAGGAAGACAAGATCTACAATTTTCAACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCTAGTG
*
25813459 TCTTTGATTTGCTTCACTGCCGGTACA
324 TCTTTGATCTGCTTCACTGCCGGTACA
* * * *
25813486 GGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCCAGGGAAGAAAGGCTAGTTTCTT
1 GGAAGACAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTT
* *
25813551 CGATCTGCTTCGCTGTTAGTACAGGAATGCAAGATCTGCTATTTTCAACCTACTCCGCTGCAACC
66 CGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCGCTGCAACC
* * ** * * * * **
25813616 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTATAGGAATGCAAGATCTGTTAT
131 AAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTACTAT
* * * * * * ***
25813681 ATTCAGTC-TGCTCCACTGCAACCTAAGGAGGCAAGACTGGTGTCTTTGATCTGCTTTGCTGTCA
196 ATTCA-ACATGCTCCACTACAACCGAAGGAGGCAAGACTAGTGTCTTCGATCTAC--T-CCACCA
* * * *
25813745 TTAC-AGGAAGGCAAG-TCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGAAGGCAAGTCTAG
257 TTACTAGGAAGACAAGATCTACAATTTTCAACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCTAG
* * *
25813808 TGTCTTTGATCTGCTTCGCTGTCGGTGCA
322 TGTCTTTGATCTGCTTCACTGCCGGTACA
* *
25813837 GGAAGACAAGATCTGCTATTTTTAACCTGCTGTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTT
1 GGAAGACAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTT
* * * * *
25813902 TGATCTGCTTCGCTGCCGGTACAGGAAGGCAAAATCTGCTATCTTCAA
66 CGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAA
25813950 TGATCTATTC
Statistics
Matches: 393, Mismatches: 66, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
350 3 0.01
351 373 0.95
352 9 0.02
353 1 0.00
354 7 0.02
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (350 bp):
GGAAGACAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTT
CGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCGCTGCAACC
AAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTACTAT
ATTCAACATGCTCCACTACAACCGAAGGAGGCAAGACTAGTGTCTTCGATCTACTCCACCATTAC
TAGGAAGACAAGATCTACAATTTTCAACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCTAGTGTC
TTTGATCTGCTTCACTGCCGGTACA
Found at i:25813916 original size:263 final size:262
Alignment explanation
Indices: 25813141--25813949 Score: 903
Period size: 263 Copynumber: 3.1 Consensus size: 262
25813131 TATGGGAAGA
* * ** * * * * **
25813141 CAAGATCTGCTATCTTTAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCT
1 CAAGATCTGCTATATTCAACCTGCTCCACTGCAACCCAAGGAGGCAAGGCTGGTGTCTTTGATCT
* * * * * *
25813206 ACTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTACTTCGCTGCCACCAAGGGA
66 GCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTAT-TTTAACCTGCTCCGCTGCAACCCAGGAA
* * * *
25813271 GGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTACTATCTTTAA
130 GGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAA-GCAAGATCTGCTATTTTTAA
* * * * * * * * **
25813336 CATGCTCCGCTACCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTAC-TC-C-ACCATTACTTA
194 CCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTA--TA
25813398 GGGAGAT-
257 -GGA-ATG
* * * ** * *
25813405 -AAGATCTACAATTTTCAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATTT
1 CAAGATCTGCTATATTCAACCTGCTCCACTGCAACCCAAGGAGGCAAGGCTGGTGTCTTTGATCT
* * *
25813469 GCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCCAGGGA
66 GCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA-TTTTAACCTGCTCCGCTGCAACCCA-GGA
* * * *
25813534 A-GAAAGGCTAGTTTCTTCGATCTGCTTCGCTGTTAGTACAGGAATGCAAGATCTGCTATTTTCA
129 AGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAA-GCAAGATCTGCTATTTTTA
*
25813598 ACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTATAG
193 ACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTATAG
25813663 GAATG
258 GAATG
* ** * *
25813668 CAAGATCTGTTATATTCAGTCTGCTCCACTGCAACCTAAGGAGGCAAGACTGGTGTCTTTGATCT
1 CAAGATCTGCTATATTCAACCTGCTCCACTGCAACCCAAGGAGGCAAGGCTGGTGTCTTTGATCT
** *
25813733 GCTTTGCTGTCATTACAGGAAGGCAAG-TCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGAA
66 GCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTT-AACCTGCTCCGCTGCAACCCAGGAA
* * * *
25813797 GGCAAGTCTAGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGACAAGATCTGCTATTTTTAA
130 GGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAG-CAAGATCTGCTATTTTTAA
** *
25813862 CCTGCTGTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTACAGG
194 CCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTATAGG
*
25813927 AAGG
259 AATG
* *
25813931 CAAAATCTGCTATCTTCAA
1 CAAGATCTGCTATATTCAA
25813950 TGATCTATTC
Statistics
Matches: 461, Mismatches: 74, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
262 11 0.02
263 363 0.79
264 82 0.18
265 1 0.00
266 4 0.01
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (262 bp):
CAAGATCTGCTATATTCAACCTGCTCCACTGCAACCCAAGGAGGCAAGGCTGGTGTCTTTGATCT
GCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCTGCAACCCAGGAAG
GCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGCAAGATCTGCTATTTTTAACC
TGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTATAGGAA
TG
Found at i:25815283 original size:14 final size:15
Alignment explanation
Indices: 25815260--25815292 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25815250 ATCGACGCTT
25815260 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
25815274 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
25815289 TTCC
1 TTCC
25815293 CTGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:25816169 original size:25 final size:26
Alignment explanation
Indices: 25816118--25816182 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
25816108 AAGAAAATCC
* **
25816118 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
25816144 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
25816169 AAAATGAATGAAAA
1 AAAA-GAATGAAAA
25816183 GATGTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 10 0.29
26 24 0.71
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.22
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:25831159 original size:47 final size:48
Alignment explanation
Indices: 25831096--25831415 Score: 549
Period size: 47 Copynumber: 6.7 Consensus size: 48
25831086 ATGATAGTAT
25831096 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
25831143 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
*
25831190 TGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
25831237 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-A
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
25831285 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
25831334 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
25831383 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
25831416 CCCGAAGGGC
Statistics
Matches: 266, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
47 125 0.47
48 48 0.18
49 89 0.33
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (48 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
Found at i:25831351 original size:40 final size:42
Alignment explanation
Indices: 25831305--25831395 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 42
25831295 CCGATGTGAT
25831305 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTG
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCC-----G
25831352 ATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 --GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
25831396 ATGTGATGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
44 1 0.02
49 41 0.98
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (42 bp):
GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
Found at i:25831589 original size:37 final size:37
Alignment explanation
Indices: 25831533--25831611 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25831523 CCGAGCTCTA
* * *
25831533 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
25831570 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25831607 AAGAC
1 AAGAC
25831612 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25843680 original size:44 final size:45
Alignment explanation
Indices: 25843615--25844159 Score: 497
Period size: 44 Copynumber: 12.4 Consensus size: 45
25843605 TAAAAAACAG
* * * * *
25843615 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAA
1 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * *
25843659 CAGATCCTATTTTCCTATATTGGTAGCCAAGTGGATCGAAGAT-G
1 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * *
25843703 CAGAT-CTCGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCCT-GTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * *
25843747 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAA
1 -CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * *
25843792 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCAAAGAT-G
1 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * *
25843836 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
1 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * * * *
25843881 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCCAAGATAG
1 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* *
25843925 CAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-G
1 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * *
25843968 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * * *
25844012 GTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAA
1 -CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * *
25844057 CAGATCCTGTCTTCCTATATTGGTAGCCAAGTGGATCGAAGAT-G
1 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* *
25844101 CAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGA-AG
1 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* *
25844144 CAGATCTTGCCTTCCT
1 CAGATCCTGTCTTCCT
25844160 GCACCGACAG
Statistics
Matches: 405, Mismatches: 81, Indels: 31
0.78 0.16 0.06
Matches are distributed among these distances:
43 54 0.13
44 247 0.61
45 103 0.25
46 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (45 bp):
CAGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
Found at i:25843851 original size:133 final size:133
Alignment explanation
Indices: 25843613--25844157 Score: 925
Period size: 133 Copynumber: 4.1 Consensus size: 133
25843603 GCTAAAAAAC
* *
25843613 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTATTTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
*
25843678 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTCGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
25843743 GAA
131 GAA
25843746 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
* *
25843811 TTGGTAGCGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
25843876 GAA
131 GAA
* * *
25843879 AACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
*
25843944 TTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
25844008 GAA
131 GAA
*
25844011 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
* * * * *
25844076 TTGGTAGCCAAGTGGATCGAAGATGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
25844140 G-A
131 GAA
*
25844142 AGCAGATCTTGCCTTC
1 AGCAGATCTTGTCTTC
25844158 CTGCACCGAC
Statistics
Matches: 390, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 15 0.04
132 140 0.36
133 235 0.60
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (133 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
GAA
Found at i:25844091 original size:265 final size:264
Alignment explanation
Indices: 25843615--25844157 Score: 917
Period size: 265 Copynumber: 2.1 Consensus size: 264
25843605 TAAAAAACAG
* *
25843615 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTATTTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAACAGATCCTATCTTCCTATATT
25843680 GGTAGCCAAGTGGATCGAAGATGCAGATCTCGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
66 GGTAGCCAAGTGGATCGAAGATGCAGATCTCGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
25843745 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
131 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
* * *
25843810 ATTGGTAGCGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
196 ATTGGTAGCCAAGTGGATCAAAGATGCAGATCCTGTCTTCCCATACTGGTAG-GAAGTAGATCGA
25843875 AGAAAA
260 AG-AAA
* *
25843881 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAACAGATCCTATCTTCCTATATT
* *
25843946 GGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
66 GGTAGCCAAGTGGATCGAAGATGCAGATCTCGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
*
25844010 AAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
131 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
* * * *
25844075 ATTGGTAGCCAAGTGGATCGAAGATGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAA
196 ATTGGTAGCCAAGTGGATCAAAGATGCAGATCCTGTCTTCCCATACTGGTAGGAAGTAGATCGAA
*
25844140 GAAG
261 GAAA
*
25844144 CAGATCTTGCCTTC
1 CAGATCTTGTCTTC
25844158 CTGCACCGAC
Statistics
Matches: 261, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
263 15 0.06
264 13 0.05
265 167 0.64
266 66 0.25
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (264 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAACAGATCCTATCTTCCTATATT
GGTAGCCAAGTGGATCGAAGATGCAGATCTCGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
ATTGGTAGCCAAGTGGATCAAAGATGCAGATCCTGTCTTCCCATACTGGTAGGAAGTAGATCGAA
GAAA
Found at i:25844250 original size:88 final size:88
Alignment explanation
Indices: 25844142--25844372 Score: 336
Period size: 88 Copynumber: 2.6 Consensus size: 88
25844132 GGATCGAAGA
* * *
25844142 AGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCTTTGCCTCCCTGGG
1 AGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTACCTCCCTAGG
* *
25844207 TTGCAGTGGAGCAGGTTAAAAAT
66 TTGCAGCGGAACAGGTTAAAAAT
* * * *
25844230 AGCAGATCCTACCTTCCTGCACCGACAGTGAAACAGATCGAAGACACTAGCCTTACCTCCCTAGG
1 AGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTACCTCCCTAGG
25844295 TTGCAGCGGAACAGGTTAAAAAT
66 TTGCAGCGGAACAGGTTAAAAAT
*** * *
25844318 AGCAGATCTTGCCTTCCTGCACCGACAACAAAGCAGATCGAAGACATCAGTCTTA
1 AGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTA
25844373 TCACCTTGAC
Statistics
Matches: 125, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 125 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (88 bp):
AGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTACCTCCCTAGG
TTGCAGCGGAACAGGTTAAAAAT
Found at i:25844733 original size:44 final size:43
Alignment explanation
Indices: 25844678--25844799 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 43
25844668 GAAGATGACG
*
25844678 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCC-AT
* * * * *
25844722 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAATCCAT
1 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCCAT
* *
25844765 AGATCTTATCT-CTCTGAAGTTGCTGTAGAGTAGAT
1 A-ATCTTATCTCCT-TGAAGTTGCAGTAGAGCAGAT
25844800 CACGTCGGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 4 0.06
44 61 0.94
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (43 bp):
AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCCAT
Found at i:25845698 original size:10 final size:8
Alignment explanation
Indices: 25845674--25845707 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
25845664 ACATCTAGAG
25845674 TTTTTTTA
1 TTTTTTTA
25845682 TTTTTTTA
1 TTTTTTTA
25845690 TTTACTTTTA
1 TTT--TTTTA
25845700 TTTTTTTA
1 TTTTTTTA
25845708 CATACGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Done.