Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 80 of 172
Found at i:26568794 original size:37 final size:37
Alignment explanation
Indices: 26568744--26568822 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
26568734 TTATTACGAA
* * *
26568744 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
26568781 GTCTTACCCGGACAAAATCCCCACGCGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
26568818 GTCTT
1 GTCTT
26568823 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:26569019 original size:47 final size:47
Alignment explanation
Indices: 26568941--26569585 Score: 957
Period size: 47 Copynumber: 13.5 Consensus size: 47
26568931 CCCTTCGGGA
* * * * * *
26568941 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26568988 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26569035 CTTATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26569082 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26569131 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26569180 CTTATCACATATATACACTTTCCCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26569227 CTTATCACATATATACACCTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
26569274 CTTACCACATATATACACCTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26569321 CTTATCACATATATATACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26569368 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26569417 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * ** *
26569466 CTTATCGCATATATATACACTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26569513 CTTATCACATATATATACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26569560 CTTATCACATATATATACACTTTCAC
1 CTTATCAC--ATATATACACTTTCAC
26569586 GTATACACAC
Statistics
Matches: 549, Mismatches: 41, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
47 355 0.65
49 192 0.35
51 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:26569285 original size:192 final size:190
Alignment explanation
Indices: 26568941--26569585 Score: 1010
Period size: 192 Copynumber: 3.4 Consensus size: 190
26568931 CCCTTCGGGA
* * * * * * * * * *
26568941 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACATATATATACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
26569005 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
* *
26569070 CGGCCGTTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CGGCCATTAGGCCTTATCACATATATATACAC-TTCACATTCATCACATCGGCCGTTAGGC
*
26569131 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATA
1 CTTATCACATATATATAC-C-TTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
* * *
26569195 CACTTTCCCATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCAC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
* * *
26569260 TTCGGCCATTAGGCCTTACCACATATATACAC-CTTCACATTCATCACATCGGCCGTTAGGC
129 ATCGGCCATTAGGCCTTATCACATATATATACACTTCACATTCATCACATCGGCCGTTAGGC
26569321 CTTATCACATATATATACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATATACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
*
26569386 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
26569451 CATCGGCCATTAGGCCTTATCGCATATATATACAC-TCACATTCATCACATCGGCCGTTAGGC
128 CATCGGCCATTAGGCCTTATCACATATATATACACTTCACATTCATCACATCGGCCGTTAGGC
26569513 CTTATCACATATATATACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATATACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
26569578 ACTTTCAC
65 ACTTTCAC
26569586 GTATACACAC
Statistics
Matches: 420, Mismatches: 28, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
188 36 0.09
189 1 0.00
190 103 0.25
191 1 0.00
192 278 0.66
193 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATATACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATATACACTTCACATTCATCACATCGGCCGTTAGGC
Found at i:26569384 original size:239 final size:239
Alignment explanation
Indices: 26568941--26569585 Score: 1053
Period size: 239 Copynumber: 2.7 Consensus size: 239
26568931 CCCTTCGGGA
* * * * * * * *
26568941 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
26569006 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
26569071 GGCCGTTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 GGCCGTTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
26569136 CGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26569180 CTTATCACATATATACACTTTCCCATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
26569245 CTTCACATTCATCACTTCGGCCATTAGGCCTTACCACATATATACACCTTCACATTCATCACATC
66 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
26569310 GGCCGTTAGGCCTTATCACATATATATAC-C-TTCACATTCATCACATCGGCCATTAGGCCTTAT
131 GGCCGTTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
26569373 CACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26569417 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
26569482 ACAC-TCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATATACCTTCACATTCATCAC
64 AC-CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCAC
*
26569546 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
128 ATCGGCCGTTAGGCCTTATCACATATATATACACTTTCAC
26569586 GTATACACAC
Statistics
Matches: 376, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
237 83 0.22
238 1 0.00
239 285 0.76
240 2 0.01
241 5 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (239 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
GGCCGTTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:26569453 original size:286 final size:286
Alignment explanation
Indices: 26568941--26569574 Score: 1036
Period size: 286 Copynumber: 2.2 Consensus size: 286
26568931 CCCTTCGGGA
* * * * * * *
26568941 CTTATCACATTTATACACTTTCACATCCATCACGTT-GGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACCTTCACATTCATCAC-TTCGGCCATTAGGCCTTATCACATATATACA
* *
26569005 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
65 CCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACAT
*
26569070 CGGCCGTTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
130 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* **
26569135 TCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
195 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACAC
* *
26569200 TCCCATTCATCACATCGGCTATTAGGC
260 TCACATTCATCACATCGGCCATTAGGC
*
26569227 CTTATCACATATATACACCTTCACATTCATCACTTCGGCCATTAGGCCTTACCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATACAC
* *
26569292 CTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATATACCTTCACATTCATCACATC
66 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
*
26569357 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTAT
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* *
26569422 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATATACACT
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
*
26569487 CACATTCATCACATCGGCCGTTAGGC
261 CACATTCATCACATCGGCCATTAGGC
* *
26569513 CTTATCACATATATATACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCACATATATACACCTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATA
26569575 TACACTTTCA
Statistics
Matches: 322, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
285 2 0.01
286 320 0.99
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (286 bp):
CTTATCACATATATACACCTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
CACATTCATCACATCGGCCATTAGGC
Found at i:26573125 original size:40 final size:40
Alignment explanation
Indices: 26573081--26573171 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
26573071 TCTTCGGGAT
* *
26573081 TTAGCACGGATATATCACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCAGAAC
* * *
26573121 TTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCAGAAC
26573161 TTAGCCCGGAT
1 TTAGCCCGGAT
26573172 TTAGTAACTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCAGAAC
Found at i:26573154 original size:80 final size:80
Alignment explanation
Indices: 26573055--26573212 Score: 201
Period size: 80 Copynumber: 2.0 Consensus size: 80
26573045 CGAATACACG
* * * *
26573055 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA-TCACTAGCACGAATGCTCTTCAGA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCACCAATGC-CTTCAGA
26573119 ACTTAGCCCGGATACA
65 ACTTAGCCCGGATACA
* * * * * *
26573135 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGAT
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCACCAATGCCTTCAGAA
*
26573200 CTTAGTCCGGATA
66 CTTAGCCCGGATA
26573213 TGGTCACTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 53 0.80
81 13 0.20
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCACCAATGCCTTCAGAA
CTTAGCCCGGATACA
Found at i:26573196 original size:40 final size:40
Alignment explanation
Indices: 26573072--26573250 Score: 136
Period size: 40 Copynumber: 4.5 Consensus size: 40
26573062 CATGATTGCT
* * *
26573072 CTTCGGGATTTAGCACGGATATA-TCAC-TAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTAGCAC-AATGC
* * * * *
26573111 TCTTCAGAACTTAGCCCGGATACA-TCAC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* *
26573151 TCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* * * *
26573192 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAATGC
26573232 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
26573251 CATCATTCGA
Statistics
Matches: 113, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.03
40 91 0.81
41 19 0.17
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAATGC
Found at i:26573597 original size:29 final size:29
Alignment explanation
Indices: 26573558--26573636 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
26573548 CTTAATAATC
*
26573558 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
26573588 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
26573617 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
26573637 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:26573682 original size:43 final size:43
Alignment explanation
Indices: 26573618--26573720 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
26573608 TGCATTTCAA
26573618 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
26573661 GCTCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
26573704 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
26573721 TGAAAACCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:26575806 original size:49 final size:49
Alignment explanation
Indices: 26575734--26576680 Score: 1639
Period size: 49 Copynumber: 19.6 Consensus size: 49
26575724 TCGGGACTTA
26575734 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
* * *
26575783 TCACATTCATCACATCGGCCATTAGGCCTTATCGC--ATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
*
26575830 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
* * *
26575879 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ACATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
* * *
26575926 TCACATTCATCGCATCGGCCATTAGGCCTTATCAC--ATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26575973 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576022 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576071 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576120 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576169 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576218 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576267 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576316 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576365 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576414 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576463 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
* * *
26576512 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ACATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
* * *
26576559 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ACATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
* * *
26576606 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ACATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
26576653 TCACATTCATCACATCGGCCATTAGGCC
1 TCACATTCATCACATCGGCCATTAGGCC
26576681 TTACTATCAT
Statistics
Matches: 879, Mismatches: 15, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
47 265 0.30
49 614 0.70
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (49 bp):
TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACGCTT
Found at i:26585348 original size:42 final size:42
Alignment explanation
Indices: 26585290--26585374 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
26585280 AAGTCTAATC
26585290 ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
1 ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
26585332 ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
1 ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
26585374 A
1 A
26585375 CTTTGACAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (42 bp):
ATCAACAATACCCTAGTTCAATTCCAACTAGGTCTCAACTAA
Found at i:26589970 original size:43 final size:43
Alignment explanation
Indices: 26589915--26589997 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
26589905 CAGTACAACA
*
26589915 ATTAAAGGAATGATATTCTAGGATCTTTAGCTATATTAGTACG
1 ATTAAAGGAATGATATTCTAGGATCTTTAGCTATACTAGTACG
* *
26589958 ATTAAAGTAATGATATTCTAGGCTCTTTAGCTATACTAGT
1 ATTAAAGGAATGATATTCTAGGATCTTTAGCTATACTAGT
26589998 GGATGTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (43 bp):
ATTAAAGGAATGATATTCTAGGATCTTTAGCTATACTAGTACG
Found at i:26590919 original size:28 final size:28
Alignment explanation
Indices: 26590854--26590908 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
26590844 GAGTAAGGAT
*
26590854 AATGTCATGAATAAGAGCAGAGAAAGGC
1 AATGTCATGAATAAGAGAAGAGAAAGGC
26590882 AATGTCATGAATAAGAGAAGAGAAAGG
1 AATGTCATGAATAAGAGAAGAGAAAGG
26590909 TGACTTGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.29, T:0.15
Consensus pattern (28 bp):
AATGTCATGAATAAGAGAAGAGAAAGGC
Found at i:26593650 original size:17 final size:18
Alignment explanation
Indices: 26593620--26593657 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
26593610 TTGAACTTGG
26593620 TTGTTAAATAAACTTGTT
1 TTGTTAAATAAACTTGTT
* *
26593638 TTGTTAAGT-AACTTTTT
1 TTGTTAAATAAACTTGTT
26593655 TTG
1 TTG
26593658 AATTTAGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (18 bp):
TTGTTAAATAAACTTGTT
Found at i:26602983 original size:65 final size:66
Alignment explanation
Indices: 26602902--26603033 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
26602892 ACTTGCGTAA
26602902 TAGGGTGTTGGCCGAATGCTTCTTCCCTA-CTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
1 TAGGGTGTTGGCCGAATGCTTCTTCCCTATCTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
26602966 G
66 G
*
26602967 TAGGGTGTTGGCCGAATGCTTCTTCCCTATTTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
1 TAGGGTGTTGGCCGAATGCTTCTTCCCTATCTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
26603032 G
66 G
26603033 T
1 T
26603034 TGACTTAAGC
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 29 0.45
66 36 0.55
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (66 bp):
TAGGGTGTTGGCCGAATGCTTCTTCCCTATCTTTTTGGGTTCTGAGTTTCTATAAGTTAGCATAT
G
Found at i:26607839 original size:13 final size:13
Alignment explanation
Indices: 26607818--26607848 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
26607808 CTTTGAAGGG
26607818 CACACGGGCTAGA
1 CACACGGGCTAGA
*
26607831 CACATGGGCTAGA
1 CACACGGGCTAGA
26607844 CACAC
1 CACAC
26607849 AGGCGTGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.26, T:0.10
Consensus pattern (13 bp):
CACACGGGCTAGA
Found at i:26622422 original size:42 final size:44
Alignment explanation
Indices: 26622330--26622498 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 44
26622320 CATAAGCTCG
* * * *
26622330 TACAATGCC-ATATCTCAGATATGGTCTTACATGTTATCACATA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA
* * *
26622373 T-CGATGCCACTATCCCAGACAAGGTCTTACACG-AATCA-ATA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA
*
26622414 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-A
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA
* ** *
26622457 TACAATGTCAATGCCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACA
26622499 ACTCGATAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
41 4 0.04
42 38 0.35
43 65 0.60
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (44 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA
Found at i:26625688 original size:45 final size:45
Alignment explanation
Indices: 26625628--26625715 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
26625618 CCAAAACATG
*
26625628 TGTCATATATATCATGAACGCAGACCACAACTCAATGAGTTCATA
1 TGTCACATATATCATGAACGCAGACCACAACTCAATGAGTTCATA
* *
26625673 TGTCACATATGTCATGAACTCAGACCACAACTCAATGAGTTCA
1 TGTCACATATATCATGAACGCAGACCACAACTCAATGAGTTCA
26625716 GATCACATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (45 bp):
TGTCACATATATCATGAACGCAGACCACAACTCAATGAGTTCATA
Found at i:26625716 original size:21 final size:21
Alignment explanation
Indices: 26625648--26625722 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 21
26625638 ATCATGAACG
26625648 CAGACCACAACTCAATGAGTT
1 CAGACCACAACTCAATGAGTT
* * * **
26625669 CATATGTCACATATGTC-ATGAACT
1 CAGA--CCACA-A-CTCAATGAGTT
26625693 CAGACCACAACTCAATGAGTT
1 CAGACCACAACTCAATGAGTT
*
26625714 CAGATCACA
1 CAGACCACA
26625723 TAATTTCTAG
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
20 2 0.05
21 17 0.45
22 4 0.11
23 4 0.11
24 9 0.24
25 2 0.05
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (21 bp):
CAGACCACAACTCAATGAGTT
Found at i:26638660 original size:26 final size:26
Alignment explanation
Indices: 26638624--26638681 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
26638614 TGCCCTAAAT
*
26638624 ATGTGTATATGGATTGATTTGAATGA
1 ATGTGAATATGGATTGATTTGAATGA
26638650 ATGTGAATATGGATTGATTTGAATGA
1 ATGTGAATATGGATTGATTTGAATGA
26638676 ATGTGA
1 ATGTGA
26638682 GATTCAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.40
Consensus pattern (26 bp):
ATGTGAATATGGATTGATTTGAATGA
Found at i:26639145 original size:43 final size:43
Alignment explanation
Indices: 26638974--26639146 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
26638964 CATAGGATTT
* * * * * *
26638974 TCGATATGTGATTTCGTGAAAGACCACATCTGGGACGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCATATCTAGGACATTGGCA
* * * * *
26639017 TCGAT-TTGAGATTTATGTGTAAGACCATGTCTAGGACATCGACA
1 TCGATATT-TGA-TTACGTGTAAGACCATATCTAGGACATTGGCA
* * *
26639061 TCG-TATTTGATTTCGTGTGAA-ACCCTATCTAGGACAATGGCA
1 TCGATATTTGATTACGTGT-AAGACCATATCTAGGACATTGGCA
* * *
26639103 TCGATATTTGATTACATGTAAGACCATGTCTAGGACGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCATATCTAGGACATTGGCA
26639146 T
1 T
26639147 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
42 28 0.28
43 43 0.43
44 28 0.28
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCATATCTAGGACATTGGCA
Found at i:26643340 original size:16 final size:16
Alignment explanation
Indices: 26643321--26643351 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26643311 CTTCTTCACT
26643321 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
26643337 TACTTACTTACTTAA
1 TACTCACTTACTTAA
26643352 TTAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:26643341 original size:20 final size:20
Alignment explanation
Indices: 26643318--26643357 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
26643308 AAACTTCTTC
*
26643318 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATTAAAT
*
26643338 ACTTACTTACTTAATTAAAT
1 ACTTACTCACTTAATTAAAT
26643358 TTATTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
ACTTACTCACTTAATTAAAT
Found at i:26643733 original size:55 final size:53
Alignment explanation
Indices: 26643611--26643797 Score: 182
Period size: 55 Copynumber: 3.5 Consensus size: 53
26643601 GCTATGTCTC
*
26643611 GACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTT
1 GACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCATT
* * * * *
26643664 GGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTATT
1 GACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AACTCACCAATGCCATGCATT
* * * **
26643719 GACATGATCCTACATGGTATCCTTGCCTTA-GAAACCTTACCAATTTTCATGTC-TT
1 GACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA-TGCCATG-CATT
*
26643774 GGCATGGTCTTACATGGTATCCTT
1 GACATGGTCTTACATGGTATCCTT
26643798 AAACCCTAAT
Statistics
Matches: 109, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.02
53 29 0.27
54 8 0.07
55 68 0.62
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
GACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCATT
Found at i:26650931 original size:40 final size:40
Alignment explanation
Indices: 26650871--26650960 Score: 171
Period size: 40 Copynumber: 2.2 Consensus size: 40
26650861 TCCCATTTTA
*
26650871 TTTCATTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
1 TTTCTTTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
26650911 TTTCTTTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
1 TTTCTTTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
26650951 TTTCTTTAAA
1 TTTCTTTAAA
26650961 ATTTTATCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (40 bp):
TTTCTTTAAATTGCCAAATGACCAAAATGCCCTTAAGCCC
Found at i:26655009 original size:43 final size:43
Alignment explanation
Indices: 26654961--26655044 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
26654951 CAGTGCAACA
*
26654961 ATTAAAGGAAT-GATAATCTAGGATCTTTAGCTATATTAGTGAG
1 ATTAAAGGAATCG-TAATCTAAGATCTTTAGCTATATTAGTGAG
*
26655004 ATTAAAGGAATCGTATTCTAAGATCTTTAGCTATATTAGTG
1 ATTAAAGGAATCGTAATCTAAGATCTTTAGCTATATTAGTG
26655045 GGTGTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (43 bp):
ATTAAAGGAATCGTAATCTAAGATCTTTAGCTATATTAGTGAG
Found at i:26662355 original size:30 final size:30
Alignment explanation
Indices: 26662293--26662357 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
26662283 ACTTATTTAA
*
26662293 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* * *
26662323 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
26662353 TTGTT
1 TTGTT
26662358 TATTAAGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.62
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:26674924 original size:38 final size:38
Alignment explanation
Indices: 26674873--26675064 Score: 240
Period size: 38 Copynumber: 5.0 Consensus size: 38
26674863 AGCACTCGAT
*
26674873 ATATATCCGGGTTAAGTCTCACAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCTCGCAGGCTTCGTGCTGGTA
* *
26674911 ATATATCTGGGTTAAGTCTCGTAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCTCGCAGGCTTCGTGCTGGTA
* * *
26674949 ATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTA
1 ATATATCCGGGTTAAGTCTCGCAGGCTTCGTGCTGGTA
* *
26674987 ATATATCCGGGTTAAAGTCTCGCAGGCTTAGTACTGGTA
1 ATATATCCGGGTT-AAGTCTCGCAGGCTTCGTGCTGGTA
* * * * *
26675026 TTATATCCGAGCTTAAAGTCCCGCAGGCTTTGTACTGGT
1 ATATATCCG-GGTT-AAGTCTCGCAGGCTTCGTGCTGGT
26675065 GACTGGATTC
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 81 0.60
39 28 0.21
40 26 0.19
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (38 bp):
ATATATCCGGGTTAAGTCTCGCAGGCTTCGTGCTGGTA
Found at i:26683126 original size:38 final size:39
Alignment explanation
Indices: 26683075--26683228 Score: 195
Period size: 38 Copynumber: 4.0 Consensus size: 39
26683065 AGCACTCGAT
26683075 ATATATCCGGGTT-AAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
* * * *
26683113 ATATATCCGGGTT-AAGCCCCACGGGCTTCGTGTTGGTA
1 ATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
* *
26683151 ATATATCCGGGTTAAAGTCTCGCAGGCTTAGTGCTGGTA
1 ATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
* * * *
26683190 TTATATCCGAGCTTAAAGTCTCGCAGGCTTTGTGCTGGT
1 ATATATCCG-GGTTAAAGTCCCGCAGGCTTCGTGCTGGT
26683229 GACTGGATTC
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 47 0.47
39 27 0.27
40 27 0.27
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.31
Consensus pattern (39 bp):
ATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
Found at i:26691728 original size:31 final size:31
Alignment explanation
Indices: 26691690--26691753 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
26691680 CCTTTTCATA
*
26691690 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
26691721 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
26691752 TT
1 TT
26691754 ACTATAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:26692022 original size:23 final size:23
Alignment explanation
Indices: 26691947--26692086 Score: 194
Period size: 23 Copynumber: 6.0 Consensus size: 23
26691937 GCTTTATCAT
*
26691947 ATAACTGGAGGCCT-AGCCTCTTTGA
1 ATAACTGG-GGCATAAGCC-CTTT-A
*
26691972 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCC-TTTA
26691996 ATAA-TAGGGGCATAAGCCCTTTA
1 ATAACT-GGGGCATAAGCCCTTTA
*
26692019 ATAACTGGGGCATAACCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
26692042 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
26692065 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
26692087 TTCACTTCCT
Statistics
Matches: 106, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
23 69 0.65
24 22 0.21
25 15 0.14
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:26692162 original size:20 final size:20
Alignment explanation
Indices: 26692137--26692203 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
26692127 TTATGATTAC
26692137 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
26692157 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
26692177 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
26692197 ACCATGT
1 ATCATGT
26692204 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:26692168 original size:11 final size:11
Alignment explanation
Indices: 26692137--26692192 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
26692127 TTATGATTAC
26692137 ATCATGTGCAT
1 ATCATGTGCAT
*
26692148 ATCA--TACAT
1 ATCATGTGCAT
26692157 ATCATGTGCAT
1 ATCATGTGCAT
*
26692168 ATCA--TACAT
1 ATCATGTGCAT
*
26692177 GTCATGTGCAT
1 ATCATGTGCAT
26692188 ATCAT
1 ATCAT
26692193 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:26692272 original size:25 final size:25
Alignment explanation
Indices: 26692240--26692287 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
26692230 ATACATAAAC
* * *
26692240 CCTAGGGGTATAAGGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
26692265 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
26692288 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:26699415 original size:43 final size:43
Alignment explanation
Indices: 26699338--26699503 Score: 208
Period size: 43 Copynumber: 3.9 Consensus size: 43
26699328 TTTTATCAAA
**** * *
26699338 TCACCGGCATT-TAGCCTGCTAGGTTTTAAACCCGATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATC
*
26699380 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATC
* * * *
26699423 TCACCGGCGTTATAGCCTACTAGGCTCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATC
* *
26699466 TCACCGGCATTATAGCCTGCTAGGCCCGTAGCTCGATA
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
26699504 ATATTATTCA
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 11 0.10
43 97 0.90
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATC
Found at i:26699543 original size:86 final size:86
Alignment explanation
Indices: 26699368--26699550 Score: 228
Period size: 86 Copynumber: 2.1 Consensus size: 86
26699358 AGGTTTTAAA
* *
26699368 CCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATCTCACCGGCGT
1 CCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATCTCACCAGCGT
*
26699433 TATAGCCTACTAGGCTCGAAG
66 TAAAGCCTACTAGGCTCGAAG
* * *
26699454 CCCGATATTATCTCACCGGCATTATAGCCTGCTAGGCCCGTAGCTCGATAATATTAT-TCACCAG
1 CCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG---ATATTATCTCACCAG
* * *
26699518 C-TTAAAGCTTGCTAGGC-CGAGG
63 CGTTAAAGCCTACTAGGCTCGAAG
26699540 CCCGAATATCA
1 CCCG-ATATCA
26699551 CATTTCGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
86 51 0.61
87 18 0.22
88 7 0.08
89 7 0.08
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (86 bp):
CCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATCTCACCAGCGT
TAAAGCCTACTAGGCTCGAAG
Found at i:26700980 original size:24 final size:24
Alignment explanation
Indices: 26700953--26701002 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
26700943 ATATATATAT
26700953 ATATATATTCTTCTAGTTACAGCA
1 ATATATATTCTTCTAGTTACAGCA
*
26700977 ATATATATTCTTCTAGTTACGGCA
1 ATATATATTCTTCTAGTTACAGCA
26701001 AT
1 AT
26701003 GAATAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (24 bp):
ATATATATTCTTCTAGTTACAGCA
Found at i:26708385 original size:39 final size:39
Alignment explanation
Indices: 26708300--26708392 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 39
26708290 GGTCTTTAAC
* *
26708300 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
* * *
26708339 CCAGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
**
26708378 TTGGATATATTTCCA
1 CCGGATATATTTCCA
26708393 ATCTTATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
Found at i:26715111 original size:15 final size:17
Alignment explanation
Indices: 26715091--26715123 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
26715081 ATATTATAAA
26715091 AATAGTGT-TAAA-ATG
1 AATAGTGTATAAAGATG
26715106 AATAGTGTATAAAGATG
1 AATAGTGTATAAAGATG
26715123 A
1 A
26715124 TAAAAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (17 bp):
AATAGTGTATAAAGATG
Found at i:26718067 original size:26 final size:26
Alignment explanation
Indices: 26718038--26718093 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
26718028 TGATAAAAAT
26718038 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26718064 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26718090 TGAT
1 TGAT
26718094 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:26719611 original size:26 final size:26
Alignment explanation
Indices: 26719582--26719634 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
26719572 TTTACAATTT
26719582 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
26719608 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
26719634 T
1 T
26719635 GCATGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:26725958 original size:19 final size:19
Alignment explanation
Indices: 26725930--26725971 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
26725920 CAATTTTTCC
*
26725930 CTTT-TTCCTTCTTTCTTT
1 CTTTCTTCCTTCCTTCTTT
26725948 CTTTCTTCCTTCCTTCTTT
1 CTTTCTTCCTTCCTTCTTT
26725967 CTTTC
1 CTTTC
26725972 CCCTGCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (19 bp):
CTTTCTTCCTTCCTTCTTT
Found at i:26726047 original size:2 final size:2
Alignment explanation
Indices: 26726040--26726076 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
26726030 CCTTTTACTT
*
26726040 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26726077 ATAACTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:26726378 original size:9 final size:9
Alignment explanation
Indices: 26726366--26726390 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26726356 AATTTGTAAT
26726366 ATAATAACA
1 ATAATAACA
26726375 ATAATAACA
1 ATAATAACA
26726384 ATAATAA
1 ATAATAA
26726391 TATATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:26729720 original size:20 final size:20
Alignment explanation
Indices: 26729695--26729732 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
26729685 GTCCCTTGTA
26729695 TTTTGTAAAAATTTTCTAGG
1 TTTTGTAAAAATTTTCTAGG
*
26729715 TTTTGTAAAATTTTTCTA
1 TTTTGTAAAAATTTTCTA
26729733 AGTTATCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTGTAAAAATTTTCTAGG
Found at i:26734864 original size:45 final size:46
Alignment explanation
Indices: 26734810--26734918 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 46
26734800 TGCACACTTT
* *
26734810 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
* *
26734856 TCACATTGGCCAGTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
26734903 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
26734919 ATCTTAAGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
45 24 0.44
46 5 0.09
47 26 0.47
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:26734909 original size:47 final size:45
Alignment explanation
Indices: 26734810--26734914 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
26734800 TGCACACTTT
* * *
26734810 TCACAATTGGTCATTCGGCCTTATCACATATTCACTTACACATATA
1 TCAC-ATTGGCCAGTCGGCCTTATCACATATACACTTACACATATA
*
26734856 TCACATTGGCCAGTCGGCCTTATCACATATACACACTTTCACAT-TCA
1 TCACATTGGCCAGTCGGCCTTATCACATAT--ACACTTACACATAT-A
26734903 TCACATTGGCCA
1 TCACATTGGCCA
26734915 TTCGATCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
45 24 0.46
46 5 0.10
47 23 0.44
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (45 bp):
TCACATTGGCCAGTCGGCCTTATCACATATACACTTACACATATA
Found at i:26737276 original size:4 final size:4
Alignment explanation
Indices: 26737267--26737295 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
26737257 TTTTTCCTTT
26737267 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
26737296 GTCATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:26738956 original size:35 final size:35
Alignment explanation
Indices: 26738910--26738979 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
26738900 GTTGTTGAAC
*
26738910 TTGGCCGAATAGAAGAAAGAAAAAGAAGGGAAAGA
1 TTGGCCGAATAGAAGAAAGAAAAAGAAAGGAAAGA
26738945 TTGGCCGAATAGAAGAAAGAAAAAGAAAGGAAAGA
1 TTGGCCGAATAGAAGAAAGAAAAAGAAAGGAAAGA
26738980 GCTTGGAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.56, C:0.06, G:0.30, T:0.09
Consensus pattern (35 bp):
TTGGCCGAATAGAAGAAAGAAAAAGAAAGGAAAGA
Found at i:26740239 original size:40 final size:41
Alignment explanation
Indices: 26740184--26740368 Score: 281
Period size: 40 Copynumber: 4.6 Consensus size: 41
26740174 CGGATGATAA
* *
26740184 CCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACAAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAATT
26740224 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAATT
*
26740264 CCGGGCTAAGTCTCGAAGGCATTTGTGCGT-GTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAATT
**
26740304 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAAT-T
26740344 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
26740369 AGCGAGTAGC
Statistics
Matches: 135, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 133 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAATT
Found at i:26742967 original size:37 final size:37
Alignment explanation
Indices: 26742917--26743066 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
26742907 CTTTAGCTCA
* *
26742917 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
26742954 GACAAAATCTCCACATGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
26742991 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
26743028 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
26743065 GA
1 GA
26743067 ATATATTTCC
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:26743332 original size:47 final size:47
Alignment explanation
Indices: 26743271--26743493 Score: 374
Period size: 47 Copynumber: 4.7 Consensus size: 47
26743261 TACATATATT
* * * * *
26743271 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
26743318 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTTACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
26743365 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
26743412 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
26743459 TCACATTGGCCATTCGGCCTTATCACATATATGCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCA
26743494 CATTCACATC
Statistics
Matches: 165, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 165 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:26743391 original size:22 final size:22
Alignment explanation
Indices: 26743364--26743486 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
26743354 GCTTACATTC
26743364 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
26743386 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
26743410 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
26743433 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
26743457 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
26743480 ATCACAT
1 ATCACAT
26743487 ATATGCACAT
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
22 21 0.28
23 20 0.27
24 20 0.27
25 14 0.19
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:26746121 original size:11 final size:11
Alignment explanation
Indices: 26746105--26746129 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26746095 AGAATACTAT
26746105 TAATGCTATGG
1 TAATGCTATGG
26746116 TAATGCTATGG
1 TAATGCTATGG
26746127 TAA
1 TAA
26746130 GGATGCAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
TAATGCTATGG
Found at i:26747334 original size:21 final size:21
Alignment explanation
Indices: 26747308--26747348 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
26747298 CAAACCACCA
26747308 AACACAGCCCTACCAGATGCT
1 AACACAGCCCTACCAGATGCT
*
26747329 AACACAGTCCTACCAGATGC
1 AACACAGCCCTACCAGATGC
26747349 AATTAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.15
Consensus pattern (21 bp):
AACACAGCCCTACCAGATGCT
Found at i:26749551 original size:30 final size:30
Alignment explanation
Indices: 26749517--26749573 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
26749507 ACACACGGTA
*
26749517 GTGTCGCTAGGCTGTGTGCCCCACACAACC
1 GTGTCGCCAGGCTGTGTGCCCCACACAACC
*
26749547 GTGTCGCCAGGTTGTGTGCCCCACACA
1 GTGTCGCCAGGCTGTGTGCCCCACACA
26749574 GTTGAGTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.28, T:0.21
Consensus pattern (30 bp):
GTGTCGCCAGGCTGTGTGCCCCACACAACC
Found at i:26751344 original size:29 final size:29
Alignment explanation
Indices: 26751302--26751360 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
26751292 ATCATTCAAG
26751302 AACATTCATGGCATAACCCTCACCCTTTA
1 AACATTCATGGCATAACCCTCACCCTTTA
26751331 AACATTCATGGCATAACCCTCACCCTTTA
1 AACATTCATGGCATAACCCTCACCCTTTA
26751360 A
1 A
26751361 CAATTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.34, G:0.07, T:0.27
Consensus pattern (29 bp):
AACATTCATGGCATAACCCTCACCCTTTA
Found at i:26751571 original size:37 final size:37
Alignment explanation
Indices: 26751521--26751595 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
26751511 TTAATTTTTC
26751521 TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
1 TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
26751558 TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
1 TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
26751595 T
1 T
26751596 TTTCATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.03, G:0.32, T:0.25
Consensus pattern (37 bp):
TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
Found at i:26753280 original size:43 final size:43
Alignment explanation
Indices: 26753224--26753378 Score: 179
Period size: 43 Copynumber: 3.6 Consensus size: 43
26753214 TGCCATATCG
* * * * *
26753224 CAGATATGGTCTTACATGTTATCACATATCGATGCCATTGTCC
1 CAGACATGGTCTTACATATAATCACATAACGATGCCAATGTCC
* *
26753267 CAGACAGGGTCTTACATGA-AATCATATAACGATGCCAATG-CC
1 CAGACATGGTCTTACAT-ATAATCACATAACGATGCCAATGTCC
* * * *
26753309 CAGACATGGTCTTACACATAATCACAAAACAATGCCAATGTCT
1 CAGACATGGTCTTACATATAATCACATAACGATGCCAATGTCC
*
26753352 CAGACATGGTCTTTCATATAATCACAT
1 CAGACATGGTCTTACATATAATCACAT
26753379 CTTGATAACC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 35 0.38
43 57 0.61
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
CAGACATGGTCTTACATATAATCACATAACGATGCCAATGTCC
Found at i:26766655 original size:16 final size:18
Alignment explanation
Indices: 26766632--26766673 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
26766622 ATTTAAATAG
26766632 ATATAAATTAATAT-TTA
1 ATATAAATTAATATATTA
*
26766649 A-ATAAATTATTATATTA
1 ATATAAATTAATATATTA
26766666 ATATAAAT
1 ATATAAAT
26766674 CATATCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
17 5 0.23
18 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATAAATTAATATATTA
Found at i:26772204 original size:26 final size:26
Alignment explanation
Indices: 26772175--26772227 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
26772165 TTTTGAAGAG
26772175 AAAGGAAAACGTGTCTTACAAGATGC
1 AAAGGAAAACGTGTCTTACAAGATGC
26772201 AAAGGAAAACGTGTCTTACAAGATGC
1 AAAGGAAAACGTGTCTTACAAGATGC
26772227 A
1 A
26772228 TTTTCACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (26 bp):
AAAGGAAAACGTGTCTTACAAGATGC
Found at i:26773408 original size:35 final size:35
Alignment explanation
Indices: 26773342--26773417 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
26773332 TATATACAAT
*
26773342 AAATATTTTTAAATTATATTCATAATAAAAT-ATCA
1 AAATATTTTCAAATTATATTCATAATAAAATAAT-A
* *
26773377 AAATATTTTACAAATTATATTTA-AATCAAATAATA
1 AAATATTTT-CAAATTATATTCATAATAAAATAATA
26773412 AAATAT
1 AAATAT
26773418 AAATTAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 23 0.64
36 13 0.36
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (35 bp):
AAATATTTTCAAATTATATTCATAATAAAATAATA
Found at i:26779091 original size:22 final size:22
Alignment explanation
Indices: 26779066--26779108 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26779056 TATCCAAACA
26779066 ATAACAACAAAATAATAGTAAT
1 ATAACAACAAAATAATAGTAAT
* * *
26779088 ATAATAGCAAAATGATAGTAA
1 ATAACAACAAAATAATAGTAA
26779109 AACAATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.23
Consensus pattern (22 bp):
ATAACAACAAAATAATAGTAAT
Found at i:26779412 original size:20 final size:20
Alignment explanation
Indices: 26779372--26779412 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
26779362 ATTATTTCAC
*
26779372 ATATATTTTCTAGATTATTT
1 ATATATTTTCTAAATTATTT
26779392 ATATATTTTTCTAAATT-TTT
1 ATATA-TTTTCTAAATTATTT
26779412 A
1 A
26779413 ACAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (20 bp):
ATATATTTTCTAAATTATTT
Found at i:26781387 original size:19 final size:19
Alignment explanation
Indices: 26781365--26781405 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
26781355 TTTTTACTGT
*
26781365 AAAAA-TACATTTGAATAAC
1 AAAAACTACATTT-AAGAAC
26781384 AAAAACTACATTTAAGAAC
1 AAAAACTACATTTAAGAAC
26781403 AAA
1 AAA
26781406 GTTAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (19 bp):
AAAAACTACATTTAAGAAC
Found at i:26782454 original size:11 final size:11
Alignment explanation
Indices: 26782438--26782471 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
26782428 TATTGCTTAA
26782438 GGGAGTAAAAG
1 GGGAGTAAAAG
26782449 GGGAGTAAAAG
1 GGGAGTAAAAG
* *
26782460 GGAAGAAAAAG
1 GGGAGTAAAAG
26782471 G
1 G
26782472 ATCCCTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (11 bp):
GGGAGTAAAAG
Found at i:26786587 original size:20 final size:20
Alignment explanation
Indices: 26786562--26786605 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
26786552 ATTACACAAA
26786562 TAAAAA-CAAAGCAAAAATAT
1 TAAAAAGCAAA-CAAAAATAT
* *
26786582 TAAAAAGCGAATAAAAATAT
1 TAAAAAGCAAACAAAAATAT
26786602 TAAA
1 TAAA
26786606 TGAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (20 bp):
TAAAAAGCAAACAAAAATAT
Found at i:26788299 original size:15 final size:14
Alignment explanation
Indices: 26788268--26788320 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
26788258 TGTTTTTCGA
*
26788268 AAAATGATTTCTAG
1 AAAATGATTTCTGG
*
26788282 AAAATAATTTCTTGG
1 AAAATGATTTC-TGG
26788297 AAAATGATTTCTGG
1 AAAATGATTTCTGG
26788311 AAAATGATTT
1 AAAATGATTT
26788321 ACTTTTTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:26788800 original size:22 final size:22
Alignment explanation
Indices: 26788775--26788863 Score: 83
Period size: 22 Copynumber: 4.0 Consensus size: 22
26788765 ATCCGAGTGC
*
26788775 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCACATG
26788797 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* * **
26788819 AGAACAACAATATT-GTCCA-AGTG
1 ATAAC--TAATATTACACCACA-TG
26788842 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
26788864 TAAAAGTATC
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
22 32 0.62
23 9 0.17
24 11 0.21
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:26789860 original size:32 final size:32
Alignment explanation
Indices: 26789814--26789874 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
26789804 TGTCAATCAT
26789814 TTCAATATTCAACAAGCTTAAAACATAATAAA
1 TTCAATATTCAACAAGCTTAAAACATAATAAA
*
26789846 TTCAATA-TCTAACAAGCTTGAAACATAAT
1 TTCAATATTC-AACAAGCTTAAAACATAAT
26789875 CAATATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (32 bp):
TTCAATATTCAACAAGCTTAAAACATAATAAA
Found at i:26790106 original size:12 final size:12
Alignment explanation
Indices: 26790089--26790113 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26790079 TAGCAGACCA
26790089 TTCTCTTTCTTC
1 TTCTCTTTCTTC
26790101 TTCTCTTTCTTC
1 TTCTCTTTCTTC
26790113 T
1 T
26790114 CGCTCCGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTCTTTCTTC
Found at i:26791988 original size:22 final size:20
Alignment explanation
Indices: 26791933--26791991 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
26791923 AAAATTGTAA
*
26791933 TTTAACTATA-AAATTAAGAT
1 TTTAA-TATATAAATTAAAAT
*
26791953 TTTAATATTTTAAATTGAAAAT
1 TTTAATA-TATAAATT-AAAAT
26791975 TTGTAATATATAAATTA
1 TT-TAATATATAAATTA
26791992 TGTACAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 6 0.19
22 13 0.41
23 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTAATATATAAATTAAAAT
Found at i:26804585 original size:46 final size:44
Alignment explanation
Indices: 26804493--26804697 Score: 162
Period size: 46 Copynumber: 4.5 Consensus size: 44
26804483 CGACACCATA
* * ** *
26804493 TCCCAGACATGGTCTTACACTGAC-ACATCTTTTAGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTTCATC-TCAAGGCGATGCATG
* *
26804538 TCCCAAACATGTCTTACACTGGCTTACGTCTCAAGGTCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTT-CATCTCAAGG-CGATGCATG
* * * *
26804584 TCCCAGACATGTCTTACACTAGCACTCATCTTAATGCTGATGCCATG
1 TCCCAGACATGTCTTACACTGGC-TTCATCTCAAGGC-GATG-CATG
* ** *
26804631 TCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCAGG
1 TCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCAAGG-CGATGCATG
26804678 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
26804698 AGCCCACAAT
Statistics
Matches: 130, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
44 12 0.09
45 13 0.10
46 54 0.42
47 28 0.22
48 21 0.16
49 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
TCCCAGACATGTCTTACACTGGCTTCATCTCAAGGCGATGCATG
Found at i:26804646 original size:94 final size:90
Alignment explanation
Indices: 26804493--26804705 Score: 238
Period size: 94 Copynumber: 2.3 Consensus size: 90
26804483 CGACACCATA
*
26804493 TCCCAGACATGGTCTTACACT-G-ACACATCTTTTAGCCGATGCATGTCCCAAACATGTCTTACA
1 TCCCAGACAT-GTCTTACACTAGCACACATCTTATAGCCGATGCATGTCCCAAACATGTCTTACA
* *
26804556 CTGGCTTACGTC-TCAA-GGTCGATGCATG
65 CTGGC-T-C-TCAT-AATGGCCGATGCAGG
* * *
26804584 TCCCAGACATGTCTTACACTAGCACTCATCTTA-ATGCTGATGCCATGTCCCAGACATGGTCTTA
1 TCCCAGACATGTCTTACACTAGCACACATCTTATA-GCCGATG-CATGTCCCAAACAT-GTCTTA
26804648 CACTGGCTCTCATAATGTGGCCGATGCAGG
63 CACTGGCTCTCATAA--TGGCCGATGCAGG
*
26804678 TCCCAGACATGTCTTACACTAGCCCACA
1 TCCCAGACATGTCTTACACTAGCACACA
26804706 ATAACCCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
90 10 0.10
91 16 0.15
92 16 0.15
93 14 0.13
94 49 0.47
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (90 bp):
TCCCAGACATGTCTTACACTAGCACACATCTTATAGCCGATGCATGTCCCAAACATGTCTTACAC
TGGCTCTCATAATGGCCGATGCAGG
Found at i:26806895 original size:28 final size:28
Alignment explanation
Indices: 26806851--26806915 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
26806841 ATGTACTAGA
*
26806851 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
*
26806879 ATACCCCTATGTTTGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
26806907 ATACCCCTA
1 ATACCCCTA
26806916 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:26807083 original size:27 final size:27
Alignment explanation
Indices: 26807021--26807110 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 27
26807011 AGGAAGCGTC
*
26807021 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
*
26807049 CTGGTGGC-CTTGCCACATATATCTGTT
1 CTGGTGGCAC-TGCCACAAATATCTGTT
*
26807076 CTGTTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
26807105 CTGGTG
1 CTGGTG
26807111 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
27 20 0.38
28 26 0.50
29 6 0.12
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:26807121 original size:29 final size:28
Alignment explanation
Indices: 26807031--26807121 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
26807021 CTGGTGGCTA
* * *
26807031 TGCCACAAATTATCTATTCTGGTGGC-C
1 TGCCACAAAATATCTGTTCTGGTGACAC
* * *
26807058 TTGCCAC-ATATATCTGTTCTGTTGGCAC
1 -TGCCACAAAATATCTGTTCTGGTGACAC
*
26807086 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
26807115 TGTCACA
1 TGCCACA
26807122 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 21 0.41
28 16 0.31
29 14 0.27
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:26813666 original size:57 final size:57
Alignment explanation
Indices: 26813578--26813691 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
26813568 CTAGGTATAA
26813578 ATTCGGCATTTGGAAGTGTTGTGTCGTTTTTTTCTTTTCTGACCATTCTTCCTTCTT
1 ATTCGGCATTTGGAAGTGTTGTGTCGTTTTTTTCTTTTCTGACCATTCTTCCTTCTT
26813635 ATTCGGCATTTGGAAGTGTTGTGTCGTTTTTTTCTTTTCTGACCATTCTTCCTTCTT
1 ATTCGGCATTTGGAAGTGTTGTGTCGTTTTTTTCTTTTCTGACCATTCTTCCTTCTT
26813692 TTCCTTTCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.11, C:0.19, G:0.18, T:0.53
Consensus pattern (57 bp):
ATTCGGCATTTGGAAGTGTTGTGTCGTTTTTTTCTTTTCTGACCATTCTTCCTTCTT
Found at i:26814526 original size:16 final size:16
Alignment explanation
Indices: 26814505--26814536 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26814495 CTAGGTCGGT
26814505 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
26814521 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
26814537 GTATTTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:26816525 original size:40 final size:40
Alignment explanation
Indices: 26816470--26816792 Score: 538
Period size: 40 Copynumber: 8.1 Consensus size: 40
26816460 NNNNNNNNNN
26816470 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* **
26816510 ATATCATCTCGCATAATTGCCTTCGGGTCACAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
26816550 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* **
26816590 ATATCATCTCGCATAATTGCCTTCGGGTCACAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
26816630 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* **
26816670 ATATCATCTCGCATAATTGCCTTCGGGTCACAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
26816710 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
26816750 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
26816790 ATA
1 ATA
26816793 ATCCAATGCT
Statistics
Matches: 259, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 259 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (40 bp):
ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
Found at i:26816603 original size:80 final size:80
Alignment explanation
Indices: 26816470--26816792 Score: 610
Period size: 80 Copynumber: 4.0 Consensus size: 80
26816460 NNNNNNNNNN
*
26816470 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCG
1 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCG
26816535 GGTCACAGCCCGGAT
66 GGTCACAGCCCGGAT
26816550 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCG
1 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCG
26816615 GGTCACAGCCCGGAT
66 GGTCACAGCCCGGAT
26816630 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCG
1 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCG
26816695 GGTCACAGCCCGGAT
66 GGTCACAGCCCGGAT
*
26816710 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCG
1 ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCG
**
26816775 GGTCTTAGCCCGGAT
66 GGTCACAGCCCGGAT
26816790 ATA
1 ATA
26816793 ATCCAATGCT
Statistics
Matches: 239, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 239 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (80 bp):
ATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCG
GGTCACAGCCCGGAT
Found at i:26832006 original size:28 final size:28
Alignment explanation
Indices: 26831934--26832011 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
26831924 CTGTAAAAGT
* ** *
26831934 GATTGTGCCTAGTAAGCCATATAGATGT
1 GATTGGGCCTAGTGGGCCATATAGATGA
*
26831962 GATTTGGGCCTAATGGGCCATAT-GAATGA
1 GA-TTGGGCCTAGTGGGCCATATAG-ATGA
26831991 GATTGGGCCTAGTGGGCCATA
1 GATTGGGCCTAGTGGGCCATA
26832012 AGCATGTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATAGATGA
Found at i:26834146 original size:143 final size:144
Alignment explanation
Indices: 26833887--26834174 Score: 551
Period size: 143 Copynumber: 2.0 Consensus size: 144
26833877 TGATAAAGAG
*
26833887 TTGTCATTGATATGGAGTGTCAGAATCAATGCATGAATATGTGTGTTAGAGAACAACATATTGGA
1 TTGTCATTGATATGGAGTGTCAGAACCAATGCATGAATATGTGTGTTAGAGAACAACATATTGGA
*
26833952 CTGACCCGCTATGAGTATGTTTCTTGGATTATTATGTAATTGTCACAACATTACTCATAGTGATT
66 CTGACCCGCTATGAGTATGTTTCTTGAATTATTATGTAATTGTCACAACATTACTCATAGTGATT
26834017 AATATGTATATGAT
131 AATATGTATATGAT
26834031 TTGTCATTGATATGGAGTGTCAGAACCAATGCATGAATATGTGTGTTAGAGAAC-ACATATTGGA
1 TTGTCATTGATATGGAGTGTCAGAACCAATGCATGAATATGTGTGTTAGAGAACAACATATTGGA
26834095 CTGACCCGCTATGAGTATGTTTCTTGAATTATTATGTAATTGTCACAACATTACTCATAGTGATT
66 CTGACCCGCTATGAGTATGTTTCTTGAATTATTATGTAATTGTCACAACATTACTCATAGTGATT
26834160 AATATGTATATGAT
131 AATATGTATATGAT
26834174 T
1 T
26834175 CTCAGACTTG
Statistics
Matches: 142, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
143 89 0.63
144 53 0.37
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (144 bp):
TTGTCATTGATATGGAGTGTCAGAACCAATGCATGAATATGTGTGTTAGAGAACAACATATTGGA
CTGACCCGCTATGAGTATGTTTCTTGAATTATTATGTAATTGTCACAACATTACTCATAGTGATT
AATATGTATATGAT
Found at i:26841655 original size:16 final size:16
Alignment explanation
Indices: 26841636--26841678 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
26841626 GCAAATCCTA
* *
26841636 AAAAGCTGAAATATCG
1 AAAAGCTAAAATACCG
26841652 AAAAGCTAAAATACCG
1 AAAAGCTAAAATACCG
*
26841668 AAAAGCCAAAA
1 AAAAGCTAAAA
26841679 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (16 bp):
AAAAGCTAAAATACCG
Found at i:26841939 original size:29 final size:28
Alignment explanation
Indices: 26841898--26841977 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
26841888 GACTGTAAAA
*
26841898 GTGATTGGGCCTAGTAGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
26841926 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
*
26841955 GAGATTGGGCCTAGTGGGCCATA
1 GTGATTGGGCCTAGTGGGCCATA
26841978 AGCATGTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.48
29 23 0.50
30 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:26856235 original size:13 final size:13
Alignment explanation
Indices: 26856217--26856241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26856207 CTGGAATAAA
26856217 TTAAATAAGTTAG
1 TTAAATAAGTTAG
26856230 TTAAATAAGTTA
1 TTAAATAAGTTA
26856242 AAGTCAGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
TTAAATAAGTTAG
Found at i:26857703 original size:25 final size:25
Alignment explanation
Indices: 26857677--26857775 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 25
26857667 TATTAGTTCT
*
26857677 GACCCACAGCTCGTGTGAGCATACT
1 GACCCACAGCTCGTGTGAGCATACC
** **
26857702 GACTTACAGCTCGTGAAAGCATACC
1 GACCCACAGCTCGTGTGAGCATACC
* ** *
26857727 GATCTTCAGCTCGAGTGAGCATACC
1 GACCCACAGCTCGTGTGAGCATACC
** * *
26857752 GATTCATAGCTCGTATGAGCATAC
1 GACCCACAGCTCGTGTGAGCATAC
26857776 ATGTACAAGA
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (25 bp):
GACCCACAGCTCGTGTGAGCATACC
Found at i:26859961 original size:20 final size:20
Alignment explanation
Indices: 26859895--26859961 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
26859885 ATTTTGATAA
*
26859895 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
26859915 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
26859935 ACATGATATGTATGTTATGC
1 ACATGATATGTATGATATGC
26859955 ACATGAT
1 ACATGAT
26859962 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:26860036 original size:24 final size:24
Alignment explanation
Indices: 26860009--26860113 Score: 160
Period size: 23 Copynumber: 4.4 Consensus size: 24
26859999 GGAGGAAGTG
26860009 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
26860033 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
26860056 T-AAAGGGCTTATGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
26860079 TAAAAGGGCTTTTACCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
26860103 TAAAAGAGGCT
1 TAAAAG-GGCT
26860114 AGGCCTTCAG
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 45 0.60
24 26 0.35
25 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:26860079 original size:46 final size:47
Alignment explanation
Indices: 26860011--26860106 Score: 158
Period size: 47 Copynumber: 2.1 Consensus size: 47
26860001 AGGAAGTGTA
* *
26860011 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATACCCCAGTTATT
*
26860057 AAAGGGCTTATGCCCCAATTATTAAAAGGGCTTTTACCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATACCCCAGTTATT
26860104 AAA
1 AAA
26860107 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 22 0.48
47 24 0.52
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATACCCCAGTTATT
Found at i:26868312 original size:42 final size:43
Alignment explanation
Indices: 26868188--26868335 Score: 151
Period size: 42 Copynumber: 3.5 Consensus size: 43
26868178 TGCGTTATCG
* * *
26868188 TGTAAGACCACGTTTGGGAC-GTTGGCATCAAT-TTGTGATTTACA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGATATT-TGATTT-CA
* * * *
26868232 TGTAAGACCATGTCTGAGACATTGGCATCG-TATATGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTCA
*
26868274 TGTAAGACC-TGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTCA
* *
26868316 TGTAAGACCACGTCTAGGAC
1 TGTAAGACCATGTCTGGGAC
26868336 GTTTGTATTG
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 18 0.21
42 28 0.33
43 15 0.17
44 25 0.29
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTCA
Found at i:26869687 original size:40 final size:39
Alignment explanation
Indices: 26869650--26869741 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
26869640 GCTACTCGTT
*
26869650 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
26869690 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
26869729 CAAATGCCTTCGG
1 CAAATGCCTTCGG
26869742 ATCTTAGTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:26869721 original size:39 final size:40
Alignment explanation
Indices: 26869631--26869794 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
26869621 CGGAATTTAA
** *
26869631 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
26869671 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
26869710 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
26869750 CTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
26869790 CCGGA
1 CCGGA
26869795 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:26871031 original size:56 final size:56
Alignment explanation
Indices: 26870964--26871139 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
26870954 TATTAGTTTA
*
26870964 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
26871020 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
26871076 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
26871132 TTGCCCAT
1 TTGCCCAT
26871140 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:26877690 original size:40 final size:39
Alignment explanation
Indices: 26877646--26877737 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
26877636 GCTACTCGTT
*
26877646 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
26877686 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
26877725 CAAATGCCTTCGG
1 CAAATGCCTTCGG
26877738 ATCTTAGTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:26877717 original size:39 final size:40
Alignment explanation
Indices: 26877627--26877790 Score: 158
Period size: 40 Copynumber: 4.1 Consensus size: 40
26877617 TGGAATTTAA
** * *
26877627 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
26877667 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
26877706 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
26877746 CTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
26877786 CCGGA
1 CCGGA
26877791 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:26879027 original size:56 final size:56
Alignment explanation
Indices: 26878960--26879135 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
26878950 TATTAGTTTA
*
26878960 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
26879016 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
26879072 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
26879128 TTGCCCAT
1 TTGCCCAT
26879136 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:26879575 original size:15 final size:15
Alignment explanation
Indices: 26879555--26879584 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26879545 TATGTGAATA
26879555 AAGGAATTATGGATG
1 AAGGAATTATGGATG
26879570 AAGGAATTATGGATG
1 AAGGAATTATGGATG
26879585 TTCGAGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.27
Consensus pattern (15 bp):
AAGGAATTATGGATG
Found at i:26889794 original size:43 final size:42
Alignment explanation
Indices: 26889731--26889819 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 42
26889721 TGTTTGGGAT
*
26889731 GCATCGTATATGATTTCATGTAAGACC-CTATCTAGGACAGTG
1 GCATCGTATATGATTACATGTAAGACCAC-ATCTAGGACAGTG
* * *
26889773 GCATCGATATTTGATTACATGTAAGACCACATCTGGGACATTG
1 GCATCG-TATATGATTACATGTAAGACCACATCTAGGACAGTG
26889816 GCAT
1 GCAT
26889820 TGTACGAGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
42 6 0.15
43 34 0.83
44 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (42 bp):
GCATCGTATATGATTACATGTAAGACCACATCTAGGACAGTG
Found at i:26892083 original size:11 final size:11
Alignment explanation
Indices: 26892067--26892099 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
26892057 CGAGATAGAA
26892067 ATAATTATTTT
1 ATAATTATTTT
26892078 ATAATTATTTT
1 ATAATTATTTT
26892089 ATAATTATTTT
1 ATAATTATTTT
26892100 GATGTTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATAATTATTTT
Found at i:26892871 original size:29 final size:30
Alignment explanation
Indices: 26892825--26892883 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
26892815 TTCCCGAGCC
*
26892825 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGCAAAAAGTGTAATTATGCAAAAGTT
* *
26892855 TAGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGCAAAAAGTGTAATTATGCAAAAGTT
26892884 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGCAAAAAGTGTAATTATGCAAAAGTT
Found at i:26897134 original size:71 final size:67
Alignment explanation
Indices: 26897055--26897195 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
26897045 CACCAGATAC
* * *
26897055 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGGGAAGCCACCAGATTGCAGCGAG
1 AGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGGGAAGCCACCAGATTGCAGCGAG
26897120 GCTGCT
62 GCTGCT
* * *
26897126 AGATATTGTGACGAAGTCACCAGAACAGATATATGTGGGGAGGCCACCAGATTGTAGCGAGGCTG
1 AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGGGAAGCCACCAGATTGCAGCGAGGCTG
26897191 CT
66 CT
26897193 AGA
1 AGA
26897196 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 24 0.38
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.21
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGGGAAGCCACCAGATTGCAGCGAGGCTG
CT
Found at i:26897907 original size:54 final size:54
Alignment explanation
Indices: 26897816--26897947 Score: 178
Period size: 54 Copynumber: 2.4 Consensus size: 54
26897806 ATTTTACCCC
* *
26897816 ACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTC-GATATTTCTACCTT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCTT
* *
26897870 ACAAGGGTATTTCGGTAATTCTATCCTA-TAGGCGTATTTCAGTAATTCTACCTT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTCAGTAATTCTACCTT
* *
26897924 ACAGGGGTATTTCAGTAATTCTAC
1 ACAAGGGTATTTCGGTAATTCTAC
26897948 AACTTATCCA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 3 0.04
54 65 0.94
55 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (54 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCTT
Found at i:26897944 original size:27 final size:27
Alignment explanation
Indices: 26897816--26897947 Score: 153
Period size: 27 Copynumber: 4.9 Consensus size: 27
26897806 ATTTTACCCC
* * *
26897816 ACAAGGGTATCTCGGTAATTCTACCCT
1 ACAAGGGTATTTCAGTAATTCTACCTT
*
26897843 ACAAGGGTATTTC-GATATTTCTACCTT
1 ACAAGGGTATTTCAG-TAATTCTACCTT
*
26897870 ACAAGGGTATTTCGGTAATTCTATCC-T
1 ACAAGGGTATTTCAGTAATTCTA-CCTT
*
26897897 A-TAGGCGTATTTCAGTAATTCTACCTT
1 ACAAGG-GTATTTCAGTAATTCTACCTT
*
26897924 ACAGGGGTATTTCAGTAATTCTAC
1 ACAAGGGTATTTCAGTAATTCTAC
26897948 AACTTATCCA
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.07
27 80 0.88
28 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
ACAAGGGTATTTCAGTAATTCTACCTT
Found at i:26903901 original size:27 final size:26
Alignment explanation
Indices: 26903853--26903904 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
26903843 GCGAGGCTGC
*
26903853 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
26903879 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
26903905 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:26904593 original size:27 final size:27
Alignment explanation
Indices: 26904563--26904700 Score: 152
Period size: 27 Copynumber: 5.1 Consensus size: 27
26904553 ATGGTATTTT
* *
26904563 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* *
26904590 TACCCTACAAGGGTATTTCGATATTTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* * *
26904617 TACCTTACAAAGGTATTTTGGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* *
26904644 TATCCTA-TAGGAGTATTTCGGTAATTC
1 TACCCTACAAGG-GTATTTCGGTAATTC
* * *
26904671 TACCTTACAAGGGTATTACAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
26904698 TAC
1 TAC
26904701 AACTTATCCA
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
26 2 0.02
27 85 0.94
28 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGGTAATTC
Found at i:26907792 original size:46 final size:43
Alignment explanation
Indices: 26907644--26907784 Score: 115
Period size: 46 Copynumber: 3.1 Consensus size: 43
26907634 TGTAACCCGC
*
26907644 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CCATTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---A
* * * * *
26907691 -CATTTCA-CGAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCAT
1 CCA-TT-AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGC-CAA
*
26907737 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
1 CCATTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAA
26907781 CCAT
1 CCAT
26907785 CCTAGTGACA
Statistics
Matches: 74, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 29 0.39
47 29 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
CCATTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAA
Found at i:26908230 original size:30 final size:30
Alignment explanation
Indices: 26908196--26908255 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
26908186 ATTTAATACG
26908196 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
26908226 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
26908256 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:26915263 original size:47 final size:47
Alignment explanation
Indices: 26915195--26915505 Score: 572
Period size: 47 Copynumber: 6.6 Consensus size: 47
26915185 ATCCATAAGT
26915195 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
26915242 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
26915289 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
26915336 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* *
26915383 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTTCA-C
26915430 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
26915477 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
26915506 CATTCGCATC
Statistics
Matches: 256, Mismatches: 4, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
46 4 0.02
47 248 0.97
48 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:26916008 original size:30 final size:30
Alignment explanation
Indices: 26915974--26916033 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
26915964 ATTTAATACG
26915974 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
26916004 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
26916034 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:26916432 original size:37 final size:37
Alignment explanation
Indices: 26916382--26916454 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
26916372 GGAATCACTT
26916382 ACTATGGAGCTTGGAAGCTTGAAACAAACCCTAACTG
1 ACTATGGAGCTTGGAAGCTTGAAACAAACCCTAACTG
*
26916419 ACTATGGAGCTTGGAAGGTTGAAACAAACCCTAACT
1 ACTATGGAGCTTGGAAGCTTGAAACAAACCCTAACT
26916455 ATGGAGAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (37 bp):
ACTATGGAGCTTGGAAGCTTGAAACAAACCCTAACTG
Found at i:26917031 original size:27 final size:26
Alignment explanation
Indices: 26916992--26917177 Score: 185
Period size: 27 Copynumber: 6.9 Consensus size: 26
26916982 CCCAAATTAA
* * *
26916992 TAAAATGATTGTTTTACCCTTATGACG
1 TAAAATGACTGTTTTGCCCTTATG-GG
26917019 TAAAATGACTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTAT-GGG
* * *
26917046 TGAAATGATTATTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTAT-GGG
*
26917073 TAAAATGACTATTTTGCCCTTATGGG
1 TAAAATGACTGTTTTGCCCTTATGGG
* *
26917099 CTAAAATGACTGTTTTTCCCTTGTGAGG
1 -TAAAATGACTGTTTTGCCCTTATG-GG
*
26917127 TAAAATTACTGTTTTGCCCTTTTAT-GG
1 TAAAATGACTGTTTTGCCC--TTATGGG
* * *
26917154 TAAGATGACTATTTTACCCTTATG
1 TAAAATGACTGTTTTGCCCTTATG
26917178 TGACGTATGT
Statistics
Matches: 135, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.03
26 3 0.02
27 122 0.90
28 3 0.02
29 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (26 bp):
TAAAATGACTGTTTTGCCCTTATGGG
Found at i:26917076 original size:54 final size:54
Alignment explanation
Indices: 26916992--26917177 Score: 214
Period size: 54 Copynumber: 3.4 Consensus size: 54
26916982 CCCAAATTAA
* *
26916992 TAAAATGATTGTTTTACCCTTATGACGTAAAATGACTGTTTTGCCCTTATGGGG
1 TAAAATGATTGTTTTACCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGGGC
* * * * *
26917046 TGAAATGATTATTTTGCCCTTATGGGGTAAAATGACTATTTTGCCCTTATGGGC
1 TAAAATGATTGTTTTACCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGGGC
* * * *
26917100 TAAAATGACTGTTTTTCCCTTGTGAGGTAAAATTACTGTTTTGCCCTTTTAT-GG-
1 TAAAATGATTGTTTTACCCTTATGAGGTAAAATGACTGTTTTGCCC--TTATGGGC
* * *
26917154 TAAGATGACTATTTTACCCTTATG
1 TAAAATGATTGTTTTACCCTTATG
26917178 TGACGTATGT
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
54 105 0.95
55 2 0.02
56 4 0.04
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (54 bp):
TAAAATGATTGTTTTACCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGGGC
Found at i:26917142 original size:81 final size:82
Alignment explanation
Indices: 26916992--26917184 Score: 228
Period size: 81 Copynumber: 2.4 Consensus size: 82
26916982 CCCAAATTAA
* * * * *
26916992 TAAAATGATTGTTTTACCCTTAT-GACGTAAAATGACTGTTTTGCCCTTATGGGGTGAAATGATT
1 TAAAATGACTATTTTACCCTTATGGACGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACT
*
26917056 ATTTTGCCCTTATGGGG
66 ATTTTGCCCTTATAGGG
* * * * *
26917073 TAAAATGACTATTTTGCCCTTATGGGC-TAAAATGACTGTTTTTCCCTTGTGAGGTAAAATTACT
1 TAAAATGACTATTTTACCCTTATGGACGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACT
* * *
26917137 GTTTTGCCCTTTTATGG
66 ATTTTGCCCTTATAGGG
*
26917154 TAAGATGACTATTTTACCCTTATGTGACGTA
1 TAAAATGACTATTTTACCCTTATG-GACGTA
26917185 TGTTTATATT
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 86 0.93
82 4 0.04
83 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (82 bp):
TAAAATGACTATTTTACCCTTATGGACGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACT
ATTTTGCCCTTATAGGG
Found at i:26918104 original size:45 final size:45
Alignment explanation
Indices: 26918040--26918129 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
26918030 CATAAGAAAA
* *
26918040 CCCAAAACTCCTGAAGGAACTTGAAGGGAGATCTTTAGTCTTGAT
1 CCCAAAACTCCTCAAGGAACTTGAAGGGAGATCTTCAGTCTTGAT
26918085 CCCAAAACTCCTCAAGGAACTTGAAGGGAGATCTTCAGTCTTGAT
1 CCCAAAACTCCTCAAGGAACTTGAAGGGAGATCTTCAGTCTTGAT
26918130 GATGAATTCG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (45 bp):
CCCAAAACTCCTCAAGGAACTTGAAGGGAGATCTTCAGTCTTGAT
Found at i:26922325 original size:16 final size:16
Alignment explanation
Indices: 26922286--26922325 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
26922276 TATCTATTAG
*
26922286 AAAAAGCCGAAATGCC
1 AAAAAGCTGAAATGCC
*
26922302 GAAAAGCTGAAATGCC
1 AAAAAGCTGAAATGCC
26922318 AAAAAGCT
1 AAAAAGCT
26922326 AAAAGTTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.10
Consensus pattern (16 bp):
AAAAAGCTGAAATGCC
Found at i:26922652 original size:28 final size:28
Alignment explanation
Indices: 26922555--26922653 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 28
26922545 AATTTGACTA
**
26922555 GGCCTAACCGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATAT-AATGTGATTTG
* *
26922584 GGCCTAATGGGCTATATACAGGTGATTTG
1 GGCCTAATGGGCCATATA-ATGTGATTTG
*
26922613 GGCCTAAT-GGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATAT-AATGTGATTTG
*
26922640 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
26922654 GATACAGATA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 10 0.17
28 17 0.29
29 32 0.54
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (28 bp):
GGCCTAATGGGCCATATAATGTGATTTG
Found at i:26924445 original size:27 final size:27
Alignment explanation
Indices: 26924415--26924558 Score: 191
Period size: 27 Copynumber: 5.3 Consensus size: 27
26924405 TACTGAAATG
* *
26924415 CCCTCGATTTGTAAAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACTATTTTA
* *
26924442 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACTATTTTA
*
26924469 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAAAATTACTATTTTA
* *
26924496 CCCTCGATTTATAAAATAACCATTTTA
1 CCCTCGATTTATAAAATTACTATTTTA
* *
26924523 CCCT-AAGTTTACAAAATTACTATTTTA
1 CCCTCGA-TTTATAAAATTACTATTTTA
26924550 CCCTCGATT
1 CCCTCGATT
26924559 GTGAAATTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 100 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACTATTTTA
Found at i:26924601 original size:27 final size:27
Alignment explanation
Indices: 26924590--26924850 Score: 213
Period size: 27 Copynumber: 9.6 Consensus size: 27
26924580 TGTAGGATAG
*
26924590 AATTACCAAAATATCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
26924617 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
26924644 AATTACCAAAATAACCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * * *
26924671 AATTACTGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
26924698 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
26924725 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
26924752 AATTA-CAGAAACACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCCT-AGTTTGT-AA
* ** * **
26924781 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCCTAGTTTGTAA
* * *
26924808 AATTACTAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
26924835 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
26924851 TTGTAGGATG
Statistics
Matches: 194, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.03
27 159 0.82
28 13 0.07
29 17 0.09
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Done.