Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 189 of 320
Found at i:62734240 original size:61 final size:61
Alignment explanation
Indices: 62734174--62734396 Score: 188
Period size: 61 Copynumber: 3.6 Consensus size: 61
62734164 TTTTAATTAA
*
62734174 AATATAT-ATTTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATGATTTTAATAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
** * * * * * * * * * *
62734235 AATATATGATACT-GTAAAA-TATAA-AATAACATAATTATTAT-TAAATATAATCTAATTAA
1 AATATATGATTTTAATAAAATTTTAATAATTA-AT-ATTCTTATATGAATTTACTCAAATCAT
*
62734294 AATATAT-AATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATTTTAATAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
*
62734355 AATATATGATACTATAAAATAAAATTTTAAATAATTAATATT
1 AATATATGAT--T-T-TAATAAAATTTT-AATAATTAATATT
62734397 AAATATATTT
Statistics
Matches: 120, Mismatches: 28, Indels: 23
0.70 0.16 0.13
Matches are distributed among these distances:
58 6 0.05
59 28 0.23
60 16 0.13
61 36 0.30
62 8 0.07
64 1 0.01
65 3 0.03
66 22 0.18
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATGATTTTAATAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:62734300 original size:18 final size:17
Alignment explanation
Indices: 62734279--62734313 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62734269 TTATTATTAA
62734279 ATATAATCTAATTAAAAT
1 ATATAATCTAA-TAAAAT
*
62734297 ATATAATTTAATAAAAT
1 ATATAATCTAATAAAAT
62734314 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATCTAATAAAAT
Found at i:62734322 original size:59 final size:59
Alignment explanation
Indices: 62734142--62734322 Score: 143
Period size: 59 Copynumber: 3.0 Consensus size: 59
62734132 ATCATATTTA
* * *
62734142 AACATAATTATTATTAAATATATTTTAATTAAAATATATATTTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATAATCTAATTAAAATATATAATTTAATAAAATTCTTAAT
* * * * * * ** * * * * **
62734201 AA-TTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACT-GTAAAATAT-AAAAT
1 AACAT-A-ATTATTAT-TAAATATAATCTAATTAAAATATATAAT-TTAATAAAAT-TCTTAAT
62734262 AACATAATTATTATTAAATATAATCTAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATAATCTAATTAAAATATATAATTTAATAAAATTCTTAAT
62734321 AA
1 AA
62734323 TTAATATTCT
Statistics
Matches: 84, Mismatches: 30, Indels: 16
0.65 0.23 0.12
Matches are distributed among these distances:
58 3 0.04
59 34 0.40
60 14 0.17
61 30 0.36
62 3 0.04
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (59 bp):
AACATAATTATTATTAAATATAATCTAATTAAAATATATAATTTAATAAAATTCTTAAT
Found at i:62734428 original size:18 final size:17
Alignment explanation
Indices: 62734389--62734420 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
62734379 TTTTAAATAA
62734389 TTAATATTAAATATATT
1 TTAATATTAAATATATT
62734406 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
62734421 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:62734445 original size:120 final size:119
Alignment explanation
Indices: 62734142--62734434 Score: 464
Period size: 120 Copynumber: 2.4 Consensus size: 119
62734132 ATCATATTTA
62734142 AACATAATTATTATTAAATATATTTTAATTAAAATATATATTTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATA-TTTAATAAAATTCTTAATAATTAA
*
62734207 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
65 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
62734262 AACATAATTATTATTAAATATAATCTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATAT-ATTTAATAAAATTCTTAATAATTAA
* *
62734327 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
65 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* *
62734383 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATAT-ATTTAATAAAATT
62734435 TAAAATAATT
Statistics
Matches: 160, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
119 3 0.02
120 153 0.96
121 4 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (119 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATATTTAATAAAATTCTTAATAATTAAT
ATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:62734545 original size:91 final size:91
Alignment explanation
Indices: 62734450--62734657 Score: 258
Period size: 91 Copynumber: 2.3 Consensus size: 91
62734440 TAATTATAAC
* * * *
62734450 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
62734514 TAATATAAAATTTCATAAAATTCTTGA
65 TAATATAAAATTTCATAAAATTCTTAA
* * *
62734541 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* * * *
62734606 GATATATAATTTCATGAAATTGTTAA
66 AATATAAAATTTCATAAAATTCTTAA
*
62734632 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
62734658 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 79 0.77
92 22 0.22
93 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATAAAATTTCATAAAATTCTTAA
Found at i:62735186 original size:12 final size:12
Alignment explanation
Indices: 62735171--62735200 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62735161 AATACAAACA
62735171 ACAGAAGCTGCT
1 ACAGAAGCTGCT
62735183 ACAGAAGCTGCT
1 ACAGAAGCTGCT
*
62735195 AAAGAA
1 ACAGAA
62735201 ATTAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:62739298 original size:7 final size:7
Alignment explanation
Indices: 62739286--62739310 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
62739276 AATTAATCTA
62739286 AACCCTT
1 AACCCTT
62739293 AACCCTT
1 AACCCTT
62739300 AACCCTT
1 AACCCTT
62739307 AACC
1 AACC
62739311 TCTATCCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (7 bp):
AACCCTT
Found at i:62739310 original size:21 final size:21
Alignment explanation
Indices: 62739286--62739381 Score: 50
Period size: 21 Copynumber: 4.5 Consensus size: 21
62739276 AATTAATCTA
62739286 AACCCTTAACCCTTAACCCTT
1 AACCCTTAACCCTTAACCCTT
* * * *
62739307 AA-CCTCTATCCCCTAAACCAT
1 AACCCT-TAACCCTTAACCCTT
** * *
62739328 AAAACATAACACTTAACCCCTT
1 AACCCTTAACCCTTAA-CCCTT
* * *
62739350 AATCCCTAAACTCTTAACCCGT
1 AA-CCCTTAACCCTTAACCCTT
*
62739372 ATCCCTTAAC
1 AACCCTTAAC
62739382 TACTAATCAC
Statistics
Matches: 52, Mismatches: 19, Indels: 8
0.66 0.24 0.10
Matches are distributed among these distances:
20 3 0.06
21 29 0.56
22 11 0.21
23 9 0.17
ACGTcount: A:0.34, C:0.39, G:0.01, T:0.26
Consensus pattern (21 bp):
AACCCTTAACCCTTAACCCTT
Found at i:62739417 original size:21 final size:21
Alignment explanation
Indices: 62739393--62739432 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62739383 ACTAATCACT
*
62739393 AACCCCTAAACCTTAAACCCC
1 AACCCCTAAACCGTAAACCCC
*
62739414 AACCCTTAAACCGTAAACC
1 AACCCCTAAACCGTAAACC
62739433 ATAAACCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.42, G:0.03, T:0.15
Consensus pattern (21 bp):
AACCCCTAAACCGTAAACCCC
Found at i:62739430 original size:7 final size:7
Alignment explanation
Indices: 62739420--62739524 Score: 70
Period size: 7 Copynumber: 14.7 Consensus size: 7
62739410 CCCCAACCCT
*
62739420 TAAACCG
1 TAAACCA
62739427 TAAACCA
1 TAAACCA
62739434 TAAACCA
1 TAAACCA
* *
62739441 TAATCCC
1 TAAACCA
62739448 TAAACTCA
1 TAAAC-CA
*
62739456 TAATCCA
1 TAAACCA
*
62739463 TAAACCT
1 TAAACCA
62739470 TAAA--A
1 TAAACCA
*
62739475 TAGCAACTCC
1 TA--AAC-CA
*
62739485 TAAACCT
1 TAAACCA
*
62739492 TAAACCC
1 TAAACCA
62739499 TAAACCA
1 TAAACCA
* *
62739506 TATACCC
1 TAAACCA
62739513 TAAACCA
1 TAAACCA
62739520 TAAAC
1 TAAAC
62739525 AGAAAACGAT
Statistics
Matches: 75, Mismatches: 17, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
5 2 0.03
7 63 0.84
8 8 0.11
10 2 0.03
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:62739473 original size:22 final size:21
Alignment explanation
Indices: 62739420--62739524 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 21
62739410 CCCCAACCCT
*
62739420 TAAACCGTAAACCATAAACCA
1 TAAACCCTAAACCATAAACCA
* *
62739441 TAATCCCTAAACTCATAATCCA
1 TAAACCCTAAAC-CATAAACCA
* *
62739463 TAAACCTTAAA--ATAGCAACTCC
1 TAAACCCTAAACCATA--AAC-CA
* *
62739485 TAAACCTTAAACCCTAAACCA
1 TAAACCCTAAACCATAAACCA
*
62739506 TATACCCTAAACCATAAAC
1 TAAACCCTAAACCATAAAC
62739525 AGAAAACGAT
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
19 3 0.05
21 29 0.44
22 32 0.48
24 2 0.03
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACCA
Found at i:62739502 original size:14 final size:14
Alignment explanation
Indices: 62739396--62739524 Score: 91
Period size: 14 Copynumber: 9.1 Consensus size: 14
62739386 AATCACTAAC
*
62739396 CCCTAAACCTTAAA
1 CCCTAAACCATAAA
* * *
62739410 CCCCAACCCTTAAA
1 CCCTAAACCATAAA
*
62739424 CCGTAAACCATAAA
1 CCCTAAACCATAAA
* * *
62739438 CCATAATCCCTAAA
1 CCCTAAACCATAAA
* *
62739452 CTCATAATCCATAAA
1 C-CCTAAACCATAAA
*
62739467 CCTTAAA--ATAGCAA
1 CCCTAAACCATA--AA
*
62739481 CTCCTAAACCTTAAA
1 C-CCTAAACCATAAA
*
62739496 CCCTAAACCATATA
1 CCCTAAACCATAAA
62739510 CCCTAAACCATAAA
1 CCCTAAACCATAAA
62739524 C
1 C
62739525 AGAAAACGAT
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
12 3 0.03
14 66 0.72
15 21 0.23
17 2 0.02
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (14 bp):
CCCTAAACCATAAA
Found at i:62739910 original size:40 final size:40
Alignment explanation
Indices: 62739842--62739944 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 40
62739832 GTTTTTGCGG
* * *
62739842 CGTTTTTGACAAAGTGCCACTAAAGCTCGATTTATAGCGA
1 CGTTTTTCACAAAGCGCCACTAAAGCTCGATCTATAGCGA
* * * *
62739882 CGTTTTTCAGAAAGCGCCATTAATGCTCGATCTATAGTGGA
1 CGTTTTTCACAAAGCGCCACTAAAGCTCGATCTATAG-CGA
* * *
62739923 -ATTTTTCAAAAAGCGCCGCTAA
1 CGTTTTTCACAAAGCGCCACTAA
62739945 TGACACTAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 49 0.96
41 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (40 bp):
CGTTTTTCACAAAGCGCCACTAAAGCTCGATCTATAGCGA
Found at i:62740110 original size:40 final size:40
Alignment explanation
Indices: 62739997--62740113 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
62739987 TTTTTTGTGA
* * * * *
62739997 CGTTTTTTAAAAAGCGA-CGGTAATGGTCGACCTACAGCGG
1 CGTTTTTAAAAAAGC-ACCGCTAATGCTCGATCTATAGCGG
* * *
62740037 CTTTTTTAAAAAAGCGCCGCTAATGCTCAATCTATAGCGG
1 CGTTTTTAAAAAAGCACCGCTAATGCTCGATCTATAGCGG
* *
62740077 CGTTTTTCAGAAAGCACCGCTAATGCTCGATCTATAG
1 CGTTTTTAAAAAAGCACCGCTAATGCTCGATCTATAG
62740114 AAAAACGCCG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (40 bp):
CGTTTTTAAAAAAGCACCGCTAATGCTCGATCTATAGCGG
Found at i:62744718 original size:40 final size:40
Alignment explanation
Indices: 62744620--62744840 Score: 225
Period size: 40 Copynumber: 5.5 Consensus size: 40
62744610 ACCCAAGTAT
* * * *
62744620 CTTCGGGATTTAG-CCGGATATAATCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
62744658 CTGCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
62744698 CTTCGGGACTTAGCCCGGATATAGAT-GCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-TCACTAGCACAAATGC
** * * * * *
62744738 CTTCGGGTTTTGGCCCGGCTATAGTAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
62744778 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
62744819 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
62744841 CATTCGAATA
Statistics
Matches: 146, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
38 10 0.07
39 19 0.13
40 87 0.60
41 27 0.18
42 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:62748170 original size:27 final size:27
Alignment explanation
Indices: 62748140--62748316 Score: 160
Period size: 27 Copynumber: 6.5 Consensus size: 27
62748130 AAATTGTACA
* *
62748140 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* **
62748167 GCACTCAGTGTGCGAAATGTA-TATGAT-
1 GCACTAAGTGTGCGATTTG-ACTATG-TG
* * *
62748194 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
62748221 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
62748249 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
62748276 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
62748303 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
62748317 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.80
28 24 0.20
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:62748280 original size:82 final size:81
Alignment explanation
Indices: 62748140--62748295 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 81
62748130 AAATTGTACA
* * * *
62748140 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGTATATGATGCACTAAGTGT
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAAGTGT
62748205 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* **
62748221 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTG-ATTACG-TGGCACTAAG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGTA-TACGAT-GCACTAAG
*
62748284 TGTGCGAGTTGA
63 TGTGCGAATTGA
62748296 TTATATAGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
81 16 0.25
82 48 0.75
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62748307 original size:82 final size:81
Alignment explanation
Indices: 62748136--62748316 Score: 195
Period size: 82 Copynumber: 2.2 Consensus size: 81
62748126 GATTAAATTG
* * * * *
62748136 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGTATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAA
62748201 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
62748217 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTG-ATTACG-TGGCAC
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGTA-TACGAT-GCAC
* **
62748280 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
62748299 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62748317 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGTATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62755220 original size:40 final size:40
Alignment explanation
Indices: 62755138--62755358 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
62755128 ACCCAAGTAT
** * *
62755138 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
62755176 CTTCGGGTCTTAGCCTGAATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
62755216 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
62755256 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
62755296 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
62755337 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
62755359 CATTCGAATA
Statistics
Matches: 149, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 13 0.09
40 95 0.64
41 29 0.19
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:62760291 original size:20 final size:19
Alignment explanation
Indices: 62760263--62760300 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
62760253 TTTTAAAGAC
*
62760263 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
62760282 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
62760301 ACATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:62760343 original size:24 final size:24
Alignment explanation
Indices: 62760294--62760344 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
62760284 TACTTTTATC
*
62760294 TTTATTTACATTTTTAAATTACTT
1 TTTATTTACATTTTTAAACTACTT
*
62760318 TTTATTT-TATTTTTAAAACTA-TT
1 TTTATTTACATTTTT-AAACTACTT
62760341 TTTA
1 TTTA
62760345 CTTCATCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATTTACATTTTTAAACTACTT
Found at i:62763205 original size:43 final size:43
Alignment explanation
Indices: 62763137--62763303 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
62763127 AGCTCGTACA
* * * * * *
62763137 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATTG
1 ATGCCAATGTCCCAGACATGATCTTACACGTAATCACATATCG
* * * *
62763179 ATGCCAATGTCTCAGACATGATCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGATCTTACACGTAATCACATATCG
* *
62763222 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGATCTTACACGTAATCACATAT-CG
* *
62763265 ATTCCAATGTCCCAGACATGATCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGATCTTACACGTAATCACAT
62763304 CTCGGTAATT
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 6 0.06
43 97 0.94
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGATCTTACACGTAATCACATATCG
Found at i:62766785 original size:13 final size:13
Alignment explanation
Indices: 62766767--62766794 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62766757 GATTTGAATA
62766767 ATGTATTGATGAT
1 ATGTATTGATGAT
62766780 ATGTATTGATGAT
1 ATGTATTGATGAT
62766793 AT
1 AT
62766795 AAATGTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (13 bp):
ATGTATTGATGAT
Found at i:62780230 original size:15 final size:15
Alignment explanation
Indices: 62780212--62780242 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62780202 AAACTCGCAC
62780212 AAACCAAATTCACAT
1 AAACCAAATTCACAT
*
62780227 AAACCAAATTCGCAT
1 AAACCAAATTCACAT
62780242 A
1 A
62780243 CTTGAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (15 bp):
AAACCAAATTCACAT
Found at i:62783636 original size:56 final size:56
Alignment explanation
Indices: 62783553--62783658 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 56
62783543 GTAACCACAT
* *
62783553 ATATTGATGCCAACGTACTAGACGTGGTCTTACTCGCACACATATATCGAAATCAC
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
* *
62783609 ATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCAGACATATATCGA
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGA
62783659 TGCCATGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (56 bp):
ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
Found at i:62786595 original size:24 final size:23
Alignment explanation
Indices: 62786561--62786613 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
62786551 GTAGATCACA
* *
62786561 AAAAGTTGAAAAGCCGGAAAGTC
1 AAAAGTCGAAAAGCCGAAAAGTC
*
62786584 GAAAAGTCGAAATGCCGAAAAGTC
1 -AAAAGTCGAAAAGCCGAAAAGTC
62786608 AAAAGT
1 AAAAGT
62786614 TTGGCTGCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.49, C:0.13, G:0.25, T:0.13
Consensus pattern (23 bp):
AAAAGTCGAAAAGCCGAAAAGTC
Found at i:62786613 original size:7 final size:8
Alignment explanation
Indices: 62786561--62786613 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 8
62786551 GTAGATCACA
*
62786561 AAAAGTTG
1 AAAAGTCG
*
62786569 AAAAGCCG
1 AAAAGTCG
*
62786577 GAAAGTCG
1 AAAAGTCG
62786585 AAAAGTCG
1 AAAAGTCG
* *
62786593 AAATGCCG
1 AAAAGTCG
62786601 AAAAGTC-
1 AAAAGTCG
62786608 AAAAGT
1 AAAAGT
62786614 TTGGCTGCGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
7 6 0.17
8 30 0.83
ACGTcount: A:0.49, C:0.13, G:0.25, T:0.13
Consensus pattern (8 bp):
AAAAGTCG
Found at i:62786854 original size:29 final size:29
Alignment explanation
Indices: 62786821--62786940 Score: 145
Period size: 29 Copynumber: 4.2 Consensus size: 29
62786811 GCGAGCATGA
* * * *
62786821 ATATGCATGTGATTTGTGTCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* *
62786850 ATATGAATATGAATTGGGCCTAATGGGCT
1 ATATGAATGTGAATTGGGCCTAATGGGCC
*
62786879 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
*
62786908 ATATGAATGAG-ATTGGGCC-AAGTGGGCC
1 ATATGAATGTGAATTGGGCCTAA-TGGGCC
62786936 ATATG
1 ATATG
62786941 CACATATGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 1 0.01
28 19 0.24
29 59 0.75
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAATGGGCC
Found at i:62791100 original size:16 final size:17
Alignment explanation
Indices: 62791079--62791117 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
62791069 GTTGTAACGC
* *
62791079 CCCAAAAATTCTGAAA-
1 CCCAAAAATCCCGAAAT
62791095 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAT
62791112 CCCAAA
1 CCCAAA
62791118 CTTTCTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.49, C:0.33, G:0.05, T:0.13
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:62792643 original size:29 final size:28
Alignment explanation
Indices: 62792611--62792692 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
62792601 TGCATGTGAT
*
62792611 TTGGGTGTAATGGGCCATATGAATATGAA
1 TTGGGT-TGATGGGCCATATGAATATGAA
* *
62792640 TTGGGCTTGATGGGCTATATGAATGTGAA
1 TTGGG-TTGATGGGCCATATGAATATGAA
* *
62792669 TTGGGCCTGATGGGCGATATGAAT
1 TTGGG-TTGATGGGCCATATGAAT
62792693 GAGATTGGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 46 0.98
30 1 0.02
ACGTcount: A:0.26, C:0.09, G:0.34, T:0.32
Consensus pattern (28 bp):
TTGGGTTGATGGGCCATATGAATATGAA
Found at i:62792693 original size:29 final size:29
Alignment explanation
Indices: 62792620--62792693 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
62792610 TTTGGGTGTA
* *
62792620 ATGGGCCATATGAATATGAATTGGGCTTG
1 ATGGGCCATATGAATGTGAATTGGGCCTG
*
62792649 ATGGGCTATATGAATGTGAATTGGGCCTG
1 ATGGGCCATATGAATGTGAATTGGGCCTG
*
62792678 ATGGGCGATATGAATG
1 ATGGGCCATATGAATG
62792694 AGATTGGACC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.09, G:0.34, T:0.30
Consensus pattern (29 bp):
ATGGGCCATATGAATGTGAATTGGGCCTG
Found at i:62795691 original size:27 final size:26
Alignment explanation
Indices: 62795660--62795837 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
62795650 TAAATTGTAC
62795660 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
62795687 TGCACTAAGTGCGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
62795713 ATGCACTAAGTGTGCGGATTGACCATGC
1 A-GCACTAAGTGTGC-GATTGACTATGT
*
62795741 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
62795769 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
62795796 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
62795823 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62795838 GGCTCAACAT
Statistics
Matches: 126, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 98 0.78
28 26 0.21
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:62795774 original size:82 final size:81
Alignment explanation
Indices: 62795661--62795810 Score: 212
Period size: 82 Copynumber: 1.8 Consensus size: 81
62795651 AAATTGTACA
* *
62795661 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGCGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGCGCGAAATGAATACGTA-GCACTAAGTG
62795725 TGCGGATTGACCATGCG
65 TGCGGATTGACCATGCG
* * ** *
62795742 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGCGCGAAATGAATACGTAGCACTAAGTG
62795807 TGCG
65 TGCG
62795811 AGTTGATTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 15 0.25
82 44 0.73
83 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGCGCGAAATGAATACGTAGCACTAAGTGT
GCGGATTGACCATGCG
Found at i:62795828 original size:82 final size:81
Alignment explanation
Indices: 62795657--62795837 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
62795647 GATTAAATTG
* *
62795657 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGCGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGCGCGAAATGAATACGATGCACTAA
62795722 GTGTGCGGATTGACCA
66 GTGTGCGGATTGACCA
* * * * ** *
62795738 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGCGCGAAATGAATACGAT-GCACT
**
62795802 AAGTGTGC-GAGTTGATTA
64 AAGTGTGCGGA-TTGACCA
* *
62795820 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62795838 GGCTCAACAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGCGCGAAATGAATACGATGCACTAA
GTGTGCGGATTGACCA
Found at i:62816988 original size:27 final size:26
Alignment explanation
Indices: 62816957--62817133 Score: 176
Period size: 27 Copynumber: 6.6 Consensus size: 26
62816947 TAAATTGTAC
62816957 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
62816984 TGCACTAAGTGTCCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
62817010 ATGCACTAAGTGTGCGATTGACCATGC
1 A-GCACTAAGTGTGCGATTGACTATGT
*
62817037 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
62817065 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
62817092 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
62817119 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62817134 GGCTCAACAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 22 0.17
27 79 0.63
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:62817072 original size:81 final size:81
Alignment explanation
Indices: 62816958--62817112 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
62816948 AAATTGTACA
* *
62816958 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTCCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTCCGAAATGAATACGTA-GCACTAAGTG
62817022 TGCGA-TTGACCATGCG
65 TGCGAGTTGACCATGCG
* * ** *
62817038 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTCCGAAATGAATACGTAGCACTAAGTG
62817103 TGCGAGTTGA
65 TGCGAGTTGA
62817113 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 15 0.23
81 45 0.69
82 5 0.08
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTCCGAAATGAATACGTAGCACTAAGTGT
GCGAGTTGACCATGCG
Found at i:62824368 original size:26 final size:26
Alignment explanation
Indices: 62824338--62824388 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
62824328 ACGAGACTTG
62824338 GCATACCAGTGGTGGAATACTCTCAA
1 GCATACCAGTGGTGGAATACTCTCAA
62824364 GCATACCAGTGGTGGAATACTCTCA
1 GCATACCAGTGGTGGAATACTCTCA
62824389 TGTTTGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (26 bp):
GCATACCAGTGGTGGAATACTCTCAA
Found at i:62829217 original size:27 final size:26
Alignment explanation
Indices: 62829187--62829690 Score: 414
Period size: 27 Copynumber: 18.7 Consensus size: 26
62829177 TACTAAAATG
*
62829187 CCCTCGACTTGTAAAATTACCGTTTTA
1 CCCTCGA-TTTTAAAATTACCGTTTTA
*
62829214 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
62829241 CCCTCGATTTTTAAAATTACCGTTTTA
1 CCCTCGA-TTTTAAAATTACCGTTTTA
** *
62829268 CCCTCGATTTATTGAATTATCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
* *
62829295 CCCTC-AGTTTATAGAATTACTGTTTTA
1 CCCTCGA-TTT-TAAAATTACCGTTTTA
62829322 CCCTCGA-TTTACAGAATTACCGTTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
* *
62829349 CCCTC-AGTTTACAGAATTACTGTTTT-
1 CCCTCGATTTTA-A-AATTACCGTTTTA
*
62829375 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
*
62829402 CCCTCGATTTGTAAAATTACCATTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
*
62829429 CCCTCGA-TTTACAGAATTACTGTTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
* * * *
62829456 CACTC-AGTTTACAGAACTACCATTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
* * *
62829483 CCCTCAATTTATAGAATTATCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
* **
62829510 CCCTC-AATTTACAGAATTACTATTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
*
62829537 CCCTCGA-TTTACAGAATTATCGTTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
*
62829564 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
* *
62829591 CCCTTGA-TTTACAGAATTACTGTTTTA
1 CCCTCGATTTTA-A-AATTACCGTTTTA
* * *
62829618 CCCTCAATTTACAAAATTATCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
*
62829645 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTT-TAAAATTACCGTTTTA
* * *
62829672 CCTTCGATTGTGAAATTAC
1 CCCTCGATTTTAAAATTAC
62829691 TGAAATACCC
Statistics
Matches: 396, Mismatches: 56, Indels: 51
0.79 0.11 0.10
Matches are distributed among these distances:
25 8 0.02
26 42 0.11
27 325 0.82
28 16 0.04
29 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (26 bp):
CCCTCGATTTTAAAATTACCGTTTTA
Found at i:62829256 original size:54 final size:54
Alignment explanation
Indices: 62829187--62829680 Score: 591
Period size: 54 Copynumber: 9.2 Consensus size: 54
62829177 TACTAAAATG
* *
62829187 CCCTCGACTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
* * *
62829241 CCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTATTGAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
* * *
62829295 CCCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
* * *
62829349 CCCTC-AGTTTACAGAATTACTGTTTT-CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
* * * *
62829402 CCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
* * * * * * *
62829456 CACTC-AGTTTACAGAACTACCATTTTACCCTCAATTTATAGAATTATCGTTTTA
1 CCCTCGA-TTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
* * * ** * *
62829510 CCCTCAATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
* * * * *
62829564 CCCTCAATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
* * *
62829618 CCCTCAATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
*
62829672 CCTTCGATT
1 CCCTCGATT
62829681 GTGAAATTAC
Statistics
Matches: 386, Mismatches: 49, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
53 47 0.12
54 338 0.88
55 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
CCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTA
Found at i:62829309 original size:81 final size:81
Alignment explanation
Indices: 62829201--62829680 Score: 628
Period size: 81 Copynumber: 5.9 Consensus size: 81
62829191 CGACTTGTAA
* * *
62829201 AATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTT
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
**
62829266 TACCCTCGATTTATTG
66 TACCCTCGATTTACAG
* * * *
62829282 AATTA-TCGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGT
1 AATTACT-GTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGT
62829345 TTTACCCTC-AGTTTACAG
64 TTTACCCTCGA-TTTACAG
* * *
62829363 AATTACTGTTTT-CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCATTT
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
62829427 TACCCTCGATTTACAG
66 TACCCTCGATTTACAG
* * * * * *
62829443 AATTACTGTTTTACACTC-AGTTTACAGAACTACCATTTTACCCTCAATTTATAGAATTATCGTT
1 AATTACTGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTT
*
62829507 TTACCCTCAATTTACAG
65 TTACCCTCGATTTACAG
* * * *
62829524 AATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTGTAAAATTACCGTTT
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
*
62829589 TACCCTTGATTTACAG
66 TACCCTCGATTTACAG
* * * *
62829605 AATTACTGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
*
62829670 TACCTTCGATT
66 TACCCTCGATT
62829681 GTGAAATTAC
Statistics
Matches: 350, Mismatches: 40, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
80 74 0.21
81 274 0.78
82 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (81 bp):
AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTT
TACCCTCGATTTACAG
Found at i:62829720 original size:27 final size:27
Alignment explanation
Indices: 62829685--62829879 Score: 214
Period size: 27 Copynumber: 7.2 Consensus size: 27
62829675 TCGATTGTGA
62829685 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
62829712 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
62829739 AATTACTAAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
62829766 AATTACCGAAATACCCCTGTATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
62829793 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
62829820 AAATAC-CAAGATACCCCTGTAGGGTAG
1 AATTACTGAA-ATACCCCTGTAGGGTAG
* * * * *
62829847 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
62829874 AATTAC
1 AATTAC
62829880 CATTTTGCCC
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 137 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:62829780 original size:81 final size:81
Alignment explanation
Indices: 62829685--62829878 Score: 246
Period size: 81 Copynumber: 2.4 Consensus size: 81
62829675 TCGATTGTGA
* * *
62829685 AATTACTGAAATACCCCTGTAGGGTAGAATT-TCTGAAATACCCCTATAGGGTAGAATTACTAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATC-GAAATACCCCTATAGGGTAGAAATACCAAA
*
62829749 ATACCCTTATAGGATAG
65 ATACCCCTATAGGATAG
* * * *
62829766 AATTACCGAAATACCCCTGTATGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCAAGA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCAAAA
* *
62829831 TACCCCTGTAGGGTAG
66 TACCCCTATAGGATAG
* * * *
62829847 AATTACCGAGATACCCTTGTGGGGTAAAATTA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTA
62829879 CCATTTTGCC
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 95 0.98
82 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCAAAA
TACCCCTATAGGATAG
Found at i:62830117 original size:27 final size:26
Alignment explanation
Indices: 62830079--62830161 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
62830069 CGGAGGAAGC
*
62830079 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
62830106 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
62830132 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
62830159 GTT
1 GTT
62830162 GATCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:62830281 original size:22 final size:22
Alignment explanation
Indices: 62830249--62830307 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
62830239 CCCGTTATTA
*
62830249 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
62830271 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
62830293 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
62830308 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:62830527 original size:27 final size:26
Alignment explanation
Indices: 62830472--62830545 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
62830462 TAGGTGGGTT
* **
62830472 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATATCTG-TTCTGGTGAATC
*
62830499 TGCCACAATGTCTGTATCTGGTGAATC
1 TGCCACAATATCTGT-TCTGGTGAATC
* *
62830526 TGTCACGATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
62830546 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.15
27 33 0.85
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGAATC
Found at i:62830672 original size:6 final size:6
Alignment explanation
Indices: 62830663--62830818 Score: 135
Period size: 6 Copynumber: 25.8 Consensus size: 6
62830653 TTGCATTCAC
* * *
62830663 ATTCTG ATTCTA ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
62830711 -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG ATTCTA
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
62830760 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
62830808 ATTCTG ATTCT
1 ATTCTG ATTCT
62830819 CATTTTGGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
5 10 0.08
6 101 0.83
7 8 0.07
8 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:62830697 original size:30 final size:30
Alignment explanation
Indices: 62830663--62830818 Score: 189
Period size: 30 Copynumber: 5.4 Consensus size: 30
62830653 TTGCATTCAC
*
62830663 ATTCTGATTCTAATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
62830693 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* **
62830717 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
* *
62830748 ATTCTGATTCTAATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
62830778 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
62830808 ATTCTGATTCT
1 ATTCTGATTCT
62830819 CATTTTGGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
24 23 0.21
26 1 0.01
29 1 0.01
30 62 0.57
31 22 0.20
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:62830804 original size:85 final size:85
Alignment explanation
Indices: 62830663--62830818 Score: 303
Period size: 85 Copynumber: 1.8 Consensus size: 85
62830653 TTGCATTCAC
62830663 ATTCTGATTCTAATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
1 ATTCTGATTCTAATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
62830728 GATTCTGTCACCTAATTTTG
66 GATTCTGTCACCTAATTTTG
*
62830748 ATTCTGATTCTAATTCTGTTACTAATATTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
1 ATTCTGATTCTAATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
62830813 GATTCT
66 GATTCT
62830819 CATTTTGGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTAATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
GATTCTGTCACCTAATTTTG
Found at i:62833487 original size:15 final size:17
Alignment explanation
Indices: 62833462--62833494 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
62833452 TTGAATGGAA
62833462 TTATATTTGAAT-TATT
1 TTATATTTGAATATATT
62833478 TTAT-TTTGAATATATT
1 TTATATTTGAATATATT
62833494 T
1 T
62833495 AGATCAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTATATTTGAATATATT
Found at i:62833867 original size:43 final size:43
Alignment explanation
Indices: 62833796--62833915 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
62833786 TAGGATTTAT
*
62833796 GATATGTGATTGCGTGTAAGACCATGTCTGGGACA-TCGGCATC
1 GATATGTGATTGCGTGTAAGACCATGTCTGGGACAGT-GACATC
* *
62833839 GTATATGTGATT-CGTGTAAGACCTTGTCTGGGATAGTGACATC
1 G-ATATGTGATTGCGTGTAAGACCATGTCTGGGACAGTGACATC
* ** * *
62833882 GATATGTGATTACAAGTAAGACCACGTTTGGGAC
1 GATATGTGATTGCGTGTAAGACCATGTCTGGGAC
62833916 GTTGGCATTG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 10 0.15
43 44 0.68
44 11 0.17
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
GATATGTGATTGCGTGTAAGACCATGTCTGGGACAGTGACATC
Found at i:62837731 original size:37 final size:37
Alignment explanation
Indices: 62837681--62837783 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
62837671 GGAAATATAT
62837681 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62837718 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62837755 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
62837784 GGACTATTCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:62841014 original size:27 final size:27
Alignment explanation
Indices: 62840999--62841324 Score: 361
Period size: 27 Copynumber: 12.1 Consensus size: 27
62840989 CCAAAGTACT
*
62840999 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* *
62841026 CTCAATTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* *
62841053 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
*
62841080 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* * *
62841107 CT-TAGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCATTTTACC
* *
62841134 CTCGATTTACAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
** *
62841161 CTC-AGTTTACAGAATTACTGTTTTATC
1 CTCGA-TTTACAGAATTACCATTTTACC
62841188 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
** * *
62841215 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* ***
62841242 CTTGATTTACAGAATTACTGGTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
* * * *
62841269 CTC-AGTTCACAAAATTATCGTTTTACC
1 CTCGA-TTTACAGAATTACCATTTTACC
*
62841296 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCATTTTACC
62841323 CT
1 CT
62841325 TAATTATGAA
Statistics
Matches: 251, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.01
27 245 0.98
28 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCATTTTACC
Found at i:62841042 original size:54 final size:55
Alignment explanation
Indices: 62840999--62841324 Score: 405
Period size: 54 Copynumber: 6.0 Consensus size: 55
62840989 CCAAAGTACT
* *
62840999 CTCGA-TTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACTATTTTACC
1 CTCGAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACC
* *
62841053 CTCGA-TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACC
1 CTCGAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACC
* * ** * *
62841107 CT-TAGTTTATAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACC
1 CTCGAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACC
* *
62841161 CTC-AGTTTACAGAATTACTGTTTTATCCTCGATTTACAGAATTACCATTTTACC
1 CTCGAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACC
* * ***
62841215 CTCGATTTGTA-A-AATTACCGTTTTACCCTTGATTTACAGAATTACTGGTTTACC
1 CTCGAGTT-TACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACC
* * * *
62841269 CTC-AGTTCACAAAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACC
1 CTCGAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACC
62841323 CT
1 CT
62841325 TAATTATGAA
Statistics
Matches: 240, Mismatches: 26, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
52 1 0.00
53 5 0.02
54 228 0.95
55 4 0.02
56 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (55 bp):
CTCGAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACC
Found at i:62841092 original size:81 final size:81
Alignment explanation
Indices: 62840999--62841324 Score: 449
Period size: 81 Copynumber: 4.0 Consensus size: 81
62840989 CCAAAGTACT
*
62840999 CTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATTTATA
1 CTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATTTACA
62841064 GAATTACCGTTTTACC
66 GAATTACCGTTTTACC
* * *
62841080 CTCGATTTACAGAATTACCGTTTTACCCTTAGTTTATAGAATTACTATTTTACCCTCGATTTACA
1 CTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATTTACA
*
62841145 GAATTATCGTTTTACC
66 GAATTACCGTTTTACC
* * * * **
62841161 CTC-AGTTTACAGAATTACTGTTTTATCCTCGATTTACAGAATTACCATTTTACCCTCGATTTGT
1 CTCGA-TTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATTTAC
*
62841225 AAAATTACCGTTTTACC
65 AGAATTACCGTTTTACC
* * * * * * *
62841242 CTTGATTTACAGAATTACTGGTTTACCCTCAGTTCACAAAATTA-TCGTTTTACCCTCGATTTAC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACT-ATTTTACCCTCGATTTAC
62841306 AGAATTACCGTTTTACC
65 AGAATTACCGTTTTACC
62841323 CT
1 CT
62841325 TAATTATGAA
Statistics
Matches: 214, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
80 1 0.00
81 212 0.99
82 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (81 bp):
CTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATTTACA
GAATTACCGTTTTACC
Found at i:62841364 original size:27 final size:27
Alignment explanation
Indices: 62841342--62841511 Score: 232
Period size: 27 Copynumber: 6.3 Consensus size: 27
62841332 GAAATTATTA
* *
62841342 AAATACCCCTATAGGGTAGAATTTCTG
1 AAATACCCCTATAGGGTAGAATTACCG
*
62841369 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTATAGGGTAGAATTACCG
* *
62841396 AAATACCCTTATAGGATAGAATTACCG
1 AAATACCCCTATAGGGTAGAATTACCG
* *
62841423 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTATAGGGTAGAATTACCG
* * *
62841450 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTATAGGGTAGAATTACCG
*
62841477 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTATAGGGTAGAATTACCG
*
62841504 AGATACCC
1 AAATACCC
62841512 TTGTGGGGGT
Statistics
Matches: 129, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAGAATTACCG
Found at i:62841767 original size:27 final size:26
Alignment explanation
Indices: 62841729--62841811 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
62841719 CGGAGGAAGC
*
62841729 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
62841756 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
62841782 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
62841809 GTT
1 GTT
62841812 GATCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:62842144 original size:27 final size:27
Alignment explanation
Indices: 62842122--62842195 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
62842112 TAGGTGGGTT
*
62842122 TGCCACATTATCTG-ATTCTGGTGACTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
62842149 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
* *
62842176 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
62842196 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:62842322 original size:6 final size:6
Alignment explanation
Indices: 62842313--62842473 Score: 127
Period size: 6 Copynumber: 26.5 Consensus size: 6
62842303 TTGCATTCAC
* * *
62842313 ATTCTG ATTCTG ATTCTG -TCACATA ATTCTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
62842362 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
62842411 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
*
62842459 ATTCTG ATTTTG ATT
1 ATTCTG ATTCTG ATT
62842474 GTCATTTTGG
Statistics
Matches: 124, Mismatches: 17, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
5 9 0.07
6 104 0.84
7 8 0.06
8 3 0.02
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:62842408 original size:61 final size:61
Alignment explanation
Indices: 62842313--62842482 Score: 261
Period size: 61 Copynumber: 2.8 Consensus size: 61
62842303 TTGCATTCAC
*
62842313 ATTCTGATTCTGATTCTGTCACATAATTCTGATTCTGATTCTGATTTTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTTTGTTACTAATACTG
* *
62842374 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTTTGTTACTAATACTG
* * * * *
62842435 ATTCTGATTCTGATTCTGTTA-CTGATTCTGATTTTGATTGTCATTTTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTTTG
62842483 GTTCCAATTC
Statistics
Matches: 100, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
60 22 0.22
61 78 0.78
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (61 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTTTGTTACTAATACTG
Found at i:62852749 original size:40 final size:40
Alignment explanation
Indices: 62852699--62852807 Score: 143
Period size: 40 Copynumber: 2.7 Consensus size: 40
62852689 CTTGATATAT
*
62852699 TATATATCCGGGTTAAATC-CTGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCTC-GCAGGCTTAGTGCTGGTAA
*
62852739 TATATATCCGGGTTAAATCTCGCAGGCTTAGTGCTGGTAC
1 TATATATCCGGGTTAAATCTCGCAGGCTTAGTGCTGGTAA
*
62852779 TATAT-T-CGGGCTTAAAGTTTCGCAGGCTT
1 TATATATCCGGG-TTAAA-TCTCGCAGGCTT
62852808 TGAGCTAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 4 0.06
39 6 0.10
40 52 0.83
41 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCTCGCAGGCTTAGTGCTGGTAA
Found at i:62854302 original size:47 final size:47
Alignment explanation
Indices: 62854231--62854544 Score: 208
Period size: 46 Copynumber: 6.7 Consensus size: 47
62854221 TTAATTGTGT
* * *
62854231 GCTATTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATGATGAGA
*
62854277 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA-ATGA-GACGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATGATGA-G--A
* * *
62854325 GCTAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCCTCAAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATGATG-AGA
* * * * *
62854371 GCCAGCGTAAGA-CATGTCTGGGACAT-GCATCGGATACAAGATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATGATGAGA
* * * *
62854416 TC-AGTGTAAGACCATTTCTGGGACATGGCTTCAGCACGGAT-ATGTCAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--ATGATG--AGA
* * * *
62854465 GTTAGTGTAAGACCATGTCTAGGACATGGCATTGACTTA-ATGGAT-A-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC--ACAT-GATGAGA
*
62854512 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
62854545 AGCATTATAC
Statistics
Matches: 211, Mismatches: 35, Indels: 43
0.73 0.12 0.15
Matches are distributed among these distances:
44 8 0.04
45 18 0.09
46 66 0.31
47 61 0.29
48 24 0.11
49 3 0.01
50 28 0.13
51 2 0.01
52 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATGATGAGA
Found at i:62855723 original size:21 final size:20
Alignment explanation
Indices: 62855697--62855736 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
62855687 GTCATAAAGA
62855697 CCACACAGGCATGTTACCCTT
1 CCACACAGGCATGTT-CCCTT
* *
62855718 CCACACGGGCGTGTTCCCT
1 CCACACAGGCATGTTCCCT
62855737 ATTTCCAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.17, C:0.40, G:0.20, T:0.23
Consensus pattern (20 bp):
CCACACAGGCATGTTCCCTT
Found at i:62856872 original size:31 final size:31
Alignment explanation
Indices: 62856799--62856875 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
62856789 TCAGAACTAA
* *
62856799 AATCAAAAACAGAATCAGAATCAGGTGACAG
1 AATCAAAATCAGAATCAGAATCAGGTAACAG
* ** *
62856830 AATTAGGATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGAATCAGGTAACAG
62856861 AATCAAAATCAGAAT
1 AATCAAAATCAGAAT
62856876 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (31 bp):
AATCAAAATCAGAATCAGAATCAGGTAACAG
Found at i:62857054 original size:27 final size:27
Alignment explanation
Indices: 62857012--62857086 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
62857002 GCTCAGTTAT
* *
62857012 CAGATATTGTGACAGAGTCACCA-AATA
1 CAGATATTGTGGCAGAGCCACCAGAA-A
62857039 CAGATATTGTGGCAGAGCCACCAGAAA
1 CAGATATTGTGGCAGAGCCACCAGAAA
* *
62857066 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
62857087 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGAAA
Found at i:62857279 original size:22 final size:22
Alignment explanation
Indices: 62857245--62857309 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
62857235 GCAAATACGT
*
62857245 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
62857267 TTGGTACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
62857289 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
62857310 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:62857796 original size:27 final size:27
Alignment explanation
Indices: 62857736--62857902 Score: 212
Period size: 27 Copynumber: 6.3 Consensus size: 27
62857726 GGGGCAAAAT
* * * *
62857736 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
62857762 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
62857789 GGTCATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
62857816 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
62857843 GGTAATTCT-CCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
62857869 GACATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
62857896 GGTAATT
1 GGTAATT
62857903 TTGTAAATCG
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
26 37 0.31
27 83 0.69
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:62857801 original size:53 final size:53
Alignment explanation
Indices: 62857736--62857902 Score: 219
Period size: 53 Copynumber: 3.1 Consensus size: 53
62857726 GGGGCAAAAT
* * * *
62857736 GGTAATTTTACCCCACAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* *
62857789 GGTCATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAA-GGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * * *
62857843 GGTAATTCT-CCCTACAGGGGTATTTCGACATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACA-AGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
62857896 GGTAATT
1 GGTAATT
62857903 TTGTAAATCG
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
53 60 0.60
54 40 0.40
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:62857916 original size:27 final size:26
Alignment explanation
Indices: 62857886--62858216 Score: 119
Period size: 27 Copynumber: 12.2 Consensus size: 26
62857876 CTACCCTACA
*
62857886 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTT-GGTAATTTTATAAATCG
** * * * *
62857913 AGGGTAAAATGATAATTCTGTAAATCA
1 AGGGT-ATTTGGTAATTTTATAAATCG
* * *
62857940 ATGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTA-TTTGGTAATTTTATAAATCG
** * **
62857967 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTT-GGTAATTTTATAAATCG
** * *
62857994 AGGGTATTTTAATAGTTTTCAGAAATC-
1 AGGGTA-TTTGGTAATTTT-ATAAATCG
* *
62858021 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTA-TTTGGTAATTTTATAAATCG
* * * *
62858048 ATGGGTATTTTAGTAATGTTACAAA-CC
1 A-GGGTA-TTTGGTAATTTTATAAATCG
* * *
62858075 AGGAGTATTTTGGTAATTTTGTAAACCA
1 AGG-GTA-TTTGGTAATTTTATAAATCG
*** * * *
62858103 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGT-ATTTGGTAATTTTATAAATCG
**
62858130 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGT-ATTTGGTAATTTTATAAATCG
** *
62858157 AGGGTAAAATGGTAATTTTATAAATTG
1 AGGGT-ATTTGGTAATTTTATAAATCG
** *
62858184 AGGGTAAAATGGTAATTTTATAAATTG
1 AGGGT-ATTTGGTAATTTTATAAATCG
62858211 AGGGTA
1 AGGGTA
62858217 AAACAGTAAT
Statistics
Matches: 247, Mismatches: 47, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
26 8 0.03
27 210 0.85
28 29 0.12
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
AGGGTATTTGGTAATTTTATAAATCG
Found at i:62857929 original size:80 final size:81
Alignment explanation
Indices: 62857764--62857931 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 81
62857754 GGTATCTCGG
* **
62857764 TAATTCTACCCTACAGGGGTATTTCGGTCATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGACATTCTACCCTACAAGGGTATTTCGATAATTCTACAA
*** *
62857829 TACAGGGGTATTTTGG
66 TACAGGGGTAAAATGA
* *
62857845 TAATTCT-CCCTACAGGGGTATTTC-GACATTTCTACCCTACAAGGGTATTTCGGTAATTTTGTA
1 TAATTCTACCCTACAGGGGTATTTCGGACA-TTCTACCCTACAAGGGTATTTCGATAA--TTCTA
62857908 -AAT-C-GAGGGTAAAATGA
63 CAATACAG-GGGTAAAATGA
62857925 TAATTCT
1 TAATTCT
62857932 GTAAATCAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
79 4 0.05
80 58 0.78
81 8 0.11
82 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGACATTCTACCCTACAAGGGTATTTCGATAATTCTACAA
TACAGGGGTAAAATGA
Found at i:62858174 original size:81 final size:81
Alignment explanation
Indices: 62858085--62858297 Score: 273
Period size: 81 Copynumber: 2.6 Consensus size: 81
62858075 AGGAGTATTT
* * * ** *
62858085 TGGTAATTTTGTAAACCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA
1 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
*
62858150 TAAATCGAGGGTAAAA
66 TAAATCGAGGGAAAAA
* * * * * *
62858166 TGGTAATTTTATAAATTGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACAGTAATTCTA
1 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
*
62858231 TAAATTGAGGGAAAAA
66 TAAATCGAGGGAAAAA
* * *
62858247 TGGTAATTCTATAAATCGAGAGTAAAACGATAATTCTGTAAATCGGGGGTA
1 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
62858298 CTTTGATAAT
Statistics
Matches: 109, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (81 bp):
TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
TAAATCGAGGGAAAAA
Found at i:62858217 original size:27 final size:27
Alignment explanation
Indices: 62858085--62858297 Score: 237
Period size: 27 Copynumber: 7.9 Consensus size: 27
62858075 AGGAGTATTT
* * *
62858085 TGGTAATTTTGTAAACCAAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* * * *
62858112 CGATAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
62858139 TGGTAATTTTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
*
62858166 TGGTAATTTTATAAATTGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
*
62858193 TGGTAATTTTATAAATTGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
** * * *
62858220 CAGTAATTCTATAAATTGAGGGAAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* *
62858247 TGGTAATTCTATAAATCGAGAGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAA
* * * * *
62858274 CGATAATTCTGTAAATCGGGGGTA
1 TGGTAATTTTATAAATCGAGGGTA
62858298 CTTTGATAAT
Statistics
Matches: 162, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (27 bp):
TGGTAATTTTATAAATCGAGGGTAAAA
Found at i:62858308 original size:54 final size:54
Alignment explanation
Indices: 62858085--62858297 Score: 275
Period size: 54 Copynumber: 3.9 Consensus size: 54
62858075 AGGAGTATTT
* * * *
62858085 TGGTAATTTTGTAAACCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
* * * *
62858139 TGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
* * *
62858193 TGGTAATTTTATAAATTGAGGGTAAAAC-AGTAATTCTATAAATTGAGGGAAAAA
1 TGGTAATTTTATAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAA
* * * *
62858247 TGGTAATTCTATAAATCGAGAGTAAAACGATAATTCTGTAAATCGGGGGTA
1 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
62858298 CTTTGATAAT
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
54 136 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (54 bp):
TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
Found at i:62860294 original size:6 final size:6
Alignment explanation
Indices: 62860276--62860363 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
62860266 AAGAAACATT
* *
62860276 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
62860325 ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
62860364 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:62860297 original size:18 final size:18
Alignment explanation
Indices: 62860276--62860363 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
62860266 AAGAAACATT
62860276 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
62860294 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* * *
62860311 GTGACAGAATCAGGATTAGA
1 AT--CAGAATCAGAATCAGA
*
62860331 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
62860350 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
62860364 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
17 3 0.06
18 23 0.43
19 26 0.48
20 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:62860323 original size:31 final size:31
Alignment explanation
Indices: 62860285--62860363 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
62860275 TATCAGAACT
*
62860285 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
62860316 AGAATCAGGATTAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
62860347 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
62860364 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:62860542 original size:27 final size:26
Alignment explanation
Indices: 62860500--62860601 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
62860490 GCTCAGTTAT
* *
62860500 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
62860527 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
62860553 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
62860581 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
62860602 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:62861306 original size:27 final size:27
Alignment explanation
Indices: 62861267--62861517 Score: 306
Period size: 27 Copynumber: 9.3 Consensus size: 27
62861257 TACCACACAA
* * * *
62861267 GGTATCTCAGTAATTGTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
62861294 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
62861321 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
62861348 GGTATTTTGGTAATTCTACCATATATG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
62861375 GGTATTTCAGTAATTTTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
62861402 GGTATTTTGGTAATTTTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
62861429 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
62861456 GGTATTTCGGTAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
62861483 GATATTTC-GTCATTTCTACCCTACAAG
1 GGTATTTCGGT-AATTCTACCCTACAGG
62861510 GGTATTTC
1 GGTATTTC
62861518 AATAATTTTG
Statistics
Matches: 192, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 190 0.99
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:62861594 original size:27 final size:27
Alignment explanation
Indices: 62861564--62861666 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 27
62861554 GTAAATCAAT
* *
62861564 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTATTTTAGTAATTTTACAAGTCGAA
* *
62861591 GGTATTTTAATAATTTTACAGGTCG-A
1 GGTATTTTAGTAATTTTACAAGTCGAA
* * *
62861617 GGATATTTCAGTAATTTTCACAAATC-AGG
1 GG-TATTTTAGTAATTTT-ACAAGTCGA-A
*
62861646 GGTATTTTGGTAATTTTACAA
1 GGTATTTTAGTAATTTTACAA
62861667 ACAAGGGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.05
27 38 0.62
28 18 0.30
29 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTACAAGTCGAA
Found at i:62861729 original size:27 final size:27
Alignment explanation
Indices: 62861627--62861730 Score: 138
Period size: 27 Copynumber: 3.8 Consensus size: 27
62861617 GGATATTTCA
* * *
62861627 GTAATTTTCACAAATCAGGGGTATTTTG
1 GTAATTTT-ATAAACCAAGGGTATTTTG
*
62861655 GTAATTTTACAAA-CAAGGGGTATTTTG
1 GTAATTTTATAAACCAA-GGGTATTTTG
62861682 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTATAAACCAAGGGTATTTTG
*
62861709 GTAATTTTGTAAACCAAGGGTA
1 GTAATTTTATAAACCAAGGGTA
62861731 AAACGATAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
26 2 0.03
27 58 0.82
28 11 0.15
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GTAATTTTATAAACCAAGGGTATTTTG
Found at i:62861740 original size:27 final size:27
Alignment explanation
Indices: 62861681--62861946 Score: 273
Period size: 27 Copynumber: 9.9 Consensus size: 27
62861671 GGGGTATTTT
* * ****
62861681 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
62861708 GGTAATTTTGTAAACCAAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * * *
62861735 GATAATTCTATAAATTGATGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
*
62861762 GGTAATTTTATAAATCGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
*
62861789 GGTAATTTTATAAA-CTGAGGGTAAAAT
1 GGTAATTTTATAAATC-GAGGGTAAAAC
* *
62861816 GGTAATTTTATAAATTGAGGGTAAAAA
1 GGTAATTTTATAAATCGAGGGTAAAAC
*
62861843 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
62861870 GGTAATTCTATAAATTGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
62861897 GGTAATTCTATAAATTGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
62861924 GGTAATTCTGTAAATCGGGGGTA
1 GGTAATTTTATAAATCGAGGGTA
62861947 CTTTGATAAT
Statistics
Matches: 208, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.00
27 207 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.33
Consensus pattern (27 bp):
GGTAATTTTATAAATCGAGGGTAAAAC
Found at i:62861772 original size:81 final size:81
Alignment explanation
Indices: 62861681--62861946 Score: 343
Period size: 81 Copynumber: 3.3 Consensus size: 81
62861671 GGGGTATTTT
* * *** * ** * *
62861681 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTAAAACGATAATTCTAT
1 GGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAATGGTAATTCTAT
* *
62861746 AAATTGATGGTAAAAC
66 AAATTGAGGGTAAAAA
*
62861762 GGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAATGGTAATTTTAT
1 GGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAATGGTAATTCTAT
62861827 AAATTGAGGGTAAAAA
66 AAATTGAGGGTAAAAA
* * * *
62861843 GGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTAT
1 GGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAATGGTAATTCTAT
*
62861908 AAATTGAGGGTAAAAT
66 AAATTGAGGGTAAAAA
* * *
62861924 GGTAATTCTGTAAATCGGGGGTA
1 GGTAATTTTATAAATCGAGGGTA
62861947 CTTTGATAAT
Statistics
Matches: 164, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 164 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.33
Consensus pattern (81 bp):
GGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAATGGTAATTCTAT
AAATTGAGGGTAAAAA
Found at i:62869922 original size:27 final size:26
Alignment explanation
Indices: 62869891--62870068 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
62869881 TAAATTGTAC
62869891 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
62869918 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
62869944 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
62869972 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
62870000 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
62870027 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
62870054 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62870069 GGCTCAACAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:62870007 original size:82 final size:81
Alignment explanation
Indices: 62869892--62870047 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
62869882 AAATTGTACA
* *
62869892 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
62869956 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
62869973 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
62870038 TGCGAGTTGA
65 TGCGAATTGA
62870048 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62870059 original size:82 final size:81
Alignment explanation
Indices: 62869888--62870068 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
62869878 GATTAAATTG
* *
62869888 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
62869953 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
62869969 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
62870033 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62870051 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62870069 GGCTCAACAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62889590 original size:47 final size:46
Alignment explanation
Indices: 62889524--62889691 Score: 146
Period size: 47 Copynumber: 3.5 Consensus size: 46
62889514 TGTGTGCTAC
*
62889524 TGTAAGA-CATGTCTAGGACATGCGCCGGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATG-GCCGGCCACATTATGAGAGCCAG
* * *
62889570 TGTAAGACCATGTCTGGGACATGGCATCGG-CATGGATATGTGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGC--CGGCCA--CAT-TATGAGAGCCAG
* ** *
62889620 TGTAAGACCAGGTCTGGGACATGG-CATCGAC-TTAATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCCGGCCACATT-AT-GA-GAGCCAG
*
62889667 TGTAAGGCCATGTCTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
62889692 ATCAGCATTA
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 11 0.11
47 45 0.46
48 4 0.04
49 2 0.02
50 33 0.34
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGGCCGGCCACATTATGAGAGCCAG
Found at i:62889692 original size:47 final size:50
Alignment explanation
Indices: 62889560--62889694 Score: 188
Period size: 50 Copynumber: 2.8 Consensus size: 50
62889550 GGCCACATTA
*
62889560 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATATG
* * *
62889610 TGAGAGTCAGTGTAAGACCAGGTCTGGGACATGGCATCGAC-T-TA-ATG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATATG
*
62889657 -GATGAGCCAGTGTAAGGCCATGTCTGGGACATGGCATC
1 TGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
62889695 AGCATTATAC
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
46 2 0.03
47 35 0.45
48 1 0.01
49 1 0.01
50 38 0.49
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (50 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATATG
Found at i:62892547 original size:15 final size:15
Alignment explanation
Indices: 62892529--62892559 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62892519 AAACTCGCAC
62892529 AAACCAAATTCACAT
1 AAACCAAATTCACAT
*
62892544 AAACCAAATTCGCAT
1 AAACCAAATTCACAT
62892559 A
1 A
62892560 CTTGAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (15 bp):
AAACCAAATTCACAT
Found at i:62902116 original size:46 final size:46
Alignment explanation
Indices: 62902063--62902238 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
62902053 TATTTGGGCA
62902063 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*** * * * *
62902109 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
62902156 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * **
62902202 CCCGAGCTCGTTGAGTTGAAACCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62902239 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 71 0.66
47 37 0.34
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:62902218 original size:93 final size:93
Alignment explanation
Indices: 62902059--62902230 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
62902049 GGGATATTTG
* *
62902059 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
**
62902124 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAAACCGAGTTCGAGAGATGTAACTA
* *
62902152 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62902217 TTGAAACCGAGTTC
66 TTGAAACCGAGTTC
62902231 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAAACCGAGTTCGAGAGATGTAACTA
Found at i:62906206 original size:18 final size:18
Alignment explanation
Indices: 62906180--62906217 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
62906170 CACGTTGTCA
*
62906180 CGACATCATGATCTTCCT
1 CGACATCATGATCCTCCT
*
62906198 CGACGTCATGATCCTCCT
1 CGACATCATGATCCTCCT
62906216 CG
1 CG
62906218 TCGTAACATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.37, G:0.16, T:0.29
Consensus pattern (18 bp):
CGACATCATGATCCTCCT
Found at i:62908708 original size:51 final size:51
Alignment explanation
Indices: 62908631--62908813 Score: 210
Period size: 52 Copynumber: 3.6 Consensus size: 51
62908621 CGGATACCCG
* ** *
62908631 GTGGCCTGCACATAGTGTCACCCTTGTAGTCAAAGCT-TCCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTG-AGTCAAAGCTATCCTTCTTCACAAA
* * * *
62908682 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGAG-TCAAAGCTATCCTTCTTCACAAA
* * * * *
62908734 CTGGCCTTCACATAGTACCACACTTGCGACCAAGCTAT-C-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGAGTCAAAGCTATCCTTCTTCACAAA
62908783 GTGGCCTTCACATAGTACCACACTTGAGTCA
1 GTGGCCTTCACATAGTACCACACTTGAGTCA
62908814 CTAGTGACAT
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 35 0.32
50 1 0.01
51 37 0.33
52 38 0.34
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGAGTCAAAGCTATCCTTCTTCACAAA
Found at i:62908747 original size:52 final size:51
Alignment explanation
Indices: 62908661--62908808 Score: 214
Period size: 52 Copynumber: 2.9 Consensus size: 51
62908651 CCCTTGTAGT
* *
62908661 CAAAGCT-TCCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGAC
1 CAAAGCTATCTTTCTTCA-AAAGTGGCCTTCACATAGTACCACACTTGCGAC
*
62908712 CAAAGCTATCTTTCTTCAAAAACTGGCCTTCACATAGTACCACACTTGCGAC
1 CAAAGCTATCTTTCTTC-AAAAGTGGCCTTCACATAGTACCACACTTGCGAC
62908764 C-AAGCTATCTCTTC-TC-AAAGTGGCCTTCACATAGTACCACACTTG
1 CAAAGCTATCT-TTCTTCAAAAGTGGCCTTCACATAGTACCACACTTG
62908809 AGTCACTAGT
Statistics
Matches: 90, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
49 28 0.31
51 18 0.20
52 43 0.48
53 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (51 bp):
CAAAGCTATCTTTCTTCAAAAGTGGCCTTCACATAGTACCACACTTGCGAC
Found at i:62912584 original size:40 final size:40
Alignment explanation
Indices: 62912523--62912769 Score: 336
Period size: 40 Copynumber: 6.2 Consensus size: 40
62912513 CGGAATTTAG
* * * *
62912523 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
62912563 CCGGGT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
62912603 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
62912643 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
62912683 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
62912723 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
62912763 CCGGATA
1 CCGGATA
62912770 TCATTCAAAT
Statistics
Matches: 189, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 183 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:62919500 original size:37 final size:37
Alignment explanation
Indices: 62919450--62919528 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62919440 TTATTATGAA
* * *
62919450 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
62919487 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
62919524 GTCTT
1 GTCTT
62919529 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:62919792 original size:47 final size:47
Alignment explanation
Indices: 62919647--62919837 Score: 285
Period size: 47 Copynumber: 4.1 Consensus size: 47
62919637 CCCTTCGGGA
* * * * * * *
62919647 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62919694 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62919740 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62919787 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62919834 CTTA
1 CTTA
62919838 CTATCATTTC
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 40 0.31
47 91 0.69
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62919806 original size:93 final size:94
Alignment explanation
Indices: 62919647--62919837 Score: 285
Period size: 93 Copynumber: 2.0 Consensus size: 94
62919637 CCCTTCGGGA
* * * * * *
62919647 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
62919712 TTTCACATTCA-CACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
62919740 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
62919805 TTTCACATTCATCACATCGGCCATTAGGT
66 TTTCACATTCATCACATCGGCCATTAGGC
62919834 CTTA
1 CTTA
62919838 CTATCATTTC
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
93 67 0.77
94 20 0.23
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:62924992 original size:21 final size:22
Alignment explanation
Indices: 62924953--62924993 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62924943 AAATGCCCAA
*
62924953 AATGTGTTTGTGTATTAAATTG
1 AATGTGTTGGTGTATTAAATTG
62924975 AATGTGTTGGTG-ATTAAAT
1 AATGTGTTGGTGTATTAAAT
62924994 AAGTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (22 bp):
AATGTGTTGGTGTATTAAATTG
Found at i:62927878 original size:62 final size:62
Alignment explanation
Indices: 62927808--62927933 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
62927798 GTCTTTATTA
*
62927808 AAACGATCATAACTTGAGCTCTCGAACTCAAAATCAAATAATTCAAAGTGCATTTTGAAGCT
1 AAACGATCATAACTTGAGCTCTCGAACTCAAAATCAAATAATTCAAAGTGCATTTCGAAGCT
* ** * *
62927870 AAACGATCATAACTTGAGCTCTTGAACTCAAAATTGAATGATTCAAAGTGCGTTTCGAAGCT
1 AAACGATCATAACTTGAGCTCTCGAACTCAAAATCAAATAATTCAAAGTGCATTTCGAAGCT
62927932 AA
1 AA
62927934 GAATTGATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (62 bp):
AAACGATCATAACTTGAGCTCTCGAACTCAAAATCAAATAATTCAAAGTGCATTTCGAAGCT
Found at i:62930161 original size:20 final size:20
Alignment explanation
Indices: 62930136--62930176 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
62930126 TATTAAGTTT
*
62930136 CACATTTGCCTTGTTGAAAC
1 CACATTTGCCTTATTGAAAC
*
62930156 CACATTTTCCTTATTGAAAC
1 CACATTTGCCTTATTGAAAC
62930176 C
1 C
62930177 TATGGAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (20 bp):
CACATTTGCCTTATTGAAAC
Found at i:62934961 original size:5 final size:5
Alignment explanation
Indices: 62934951--62934982 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
62934941 AATTTGTGAA
62934951 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
62934983 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:62934976 original size:9 final size:9
Alignment explanation
Indices: 62934952--62934982 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
62934942 ATTTGTGAAA
62934952 AAATAAAAT
1 AAATAAAAT
62934961 AAAATAAAAT
1 -AAATAAAAT
62934971 AAATAAAAT
1 AAATAAAAT
62934980 AAA
1 AAA
62934983 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:62942344 original size:24 final size:24
Alignment explanation
Indices: 62942317--62942365 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
62942307 ACATCCTAAA
62942317 ATAATTTACAGTCATTAGAAATAG
1 ATAATTTACAGTCATTAGAAATAG
* *
62942341 ATAATTTACTGTCATTAGAAGTAG
1 ATAATTTACAGTCATTAGAAATAG
62942365 A
1 A
62942366 ATTTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (24 bp):
ATAATTTACAGTCATTAGAAATAG
Found at i:62942997 original size:20 final size:20
Alignment explanation
Indices: 62942958--62943023 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
62942948 TAAATTTTAA
* * *
62942958 TAAAAATATTTAAAAGTTAT
1 TAAAAATAGTAAAAAATTAT
*
62942978 TAAGAATTAG-AAAAAATTA-
1 TAA-AAATAGTAAAAAATTAT
*
62942997 TAAAAATCGTAAAAAATTAT
1 TAAAAATAGTAAAAAATTAT
62943017 TAAAAAT
1 TAAAAAT
62943024 GCAAAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 17 0.46
21 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAAAATAGTAAAAAATTAT
Found at i:62943010 original size:19 final size:19
Alignment explanation
Indices: 62942988--62943058 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
62942978 TAAGAATTAG
62942988 AAAAAATTATAAAAATCGT
1 AAAAAATTATAAAAATCGT
*
62943007 AAAAAATTATTAAAAAT-GC
1 AAAAAATTA-TAAAAATCGT
**
62943026 AAAATTTTATAAAAAATCGT
1 AAAAAATTAT-AAAAATCGT
*
62943046 -GAAAATTATAAAA
1 AAAAAATTATAAAA
62943059 TATATAGAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 5 0.12
19 29 0.69
20 8 0.19
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (19 bp):
AAAAAATTATAAAAATCGT
Found at i:62943021 original size:10 final size:10
Alignment explanation
Indices: 62942940--62943023 Score: 55
Period size: 10 Copynumber: 8.5 Consensus size: 10
62942930 TAAAATTTGT
62942940 AAAATTATTA
1 AAAATTATTA
** *
62942950 AATTTTAATA
1 AAAATTATTA
62942960 AAAA-TATTTA
1 AAAATTA-TTA
*
62942970 AAAGTTATTA
1 AAAATTATTA
* **
62942980 AGAATTAGAA
1 AAAATTATTA
62942990 AAAATTA-TA
1 AAAATTATTA
** *
62942999 AAAATCGTAA
1 AAAATTATTA
62943009 AAAATTATTA
1 AAAATTATTA
62943019 AAAAT
1 AAAAT
62943024 GCAAAATTTT
Statistics
Matches: 52, Mismatches: 19, Indels: 6
0.68 0.25 0.08
Matches are distributed among these distances:
9 8 0.15
10 42 0.81
11 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (10 bp):
AAAATTATTA
Found at i:62943130 original size:20 final size:20
Alignment explanation
Indices: 62943102--62943139 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62943092 TTATAAAGTC
* *
62943102 GTAAGAAAATTGTAAAAAAT
1 GTAAAAAAATTATAAAAAAT
62943122 GTAAAAAAATTATAAAAA
1 GTAAAAAAATTATAAAAA
62943140 TTATCGTGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAAAT
Found at i:62944447 original size:20 final size:20
Alignment explanation
Indices: 62944419--62944461 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
62944409 CTAACATACT
* * *
62944419 TATCTACGTGGCACGTCTTA
1 TATCCACGTCGCACGTCATA
*
62944439 TATCCACGTCGCATGTCATA
1 TATCCACGTCGCACGTCATA
62944459 TAT
1 TAT
62944462 TAGCTTCTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (20 bp):
TATCCACGTCGCACGTCATA
Found at i:62944682 original size:9 final size:9
Alignment explanation
Indices: 62944643--62944687 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
62944633 TTTTCTAACA
*
62944643 TATAAAATT
1 TATAATATT
62944652 TATAATTATTT
1 TATAA-TA-TT
62944663 TATATATATT
1 TATA-ATATT
62944673 TATAATATT
1 TATAATATT
62944682 TATAAT
1 TATAAT
62944688 TTATATTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 16 0.50
10 7 0.22
11 8 0.25
12 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATAATATT
Found at i:62945347 original size:19 final size:20
Alignment explanation
Indices: 62945309--62945349 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
62945299 TAGAAAAATC
62945309 TTATTATGTATAAATTATAA
1 TTATTATGTATAAATTATAA
62945329 TTATTA-GT-TAAATTTATAA
1 TTATTATGTATAAA-TTATAA
62945348 TT
1 TT
62945350 TTCAGATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTATTATGTATAAATTATAA
Found at i:62946325 original size:25 final size:25
Alignment explanation
Indices: 62946291--62946342 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
62946281 GCTTCAGATG
*
62946291 TATTGACCTTCAAACTAAAATTATC
1 TATTGACCTTCAAACTAAAACTATC
62946316 TATTGACCTTCAAACTAAAACTATC
1 TATTGACCTTCAAACTAAAACTATC
62946341 TA
1 TA
62946343 CTAGCTTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (25 bp):
TATTGACCTTCAAACTAAAACTATC
Found at i:62947933 original size:16 final size:16
Alignment explanation
Indices: 62947914--62947944 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62947904 CTTCTTCACT
62947914 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
62947930 TACTTACTTACTTAA
1 TACTCACTTACTTAA
62947945 TCAAATTTAT
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:62947950 original size:20 final size:20
Alignment explanation
Indices: 62947911--62947950 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62947901 AAACTTCTTC
* *
62947911 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
62947931 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
62947951 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:62948326 original size:55 final size:53
Alignment explanation
Indices: 62948136--62948390 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
62948126 ACGCGGGTAC
* * * * *
62948136 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
62948185 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
62948238 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
62948293 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * *
62948346 CCTTACCAATTCCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTT
62948391 AAACCCTAAT
Statistics
Matches: 173, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 11 0.06
55 70 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:62948327 original size:108 final size:110
Alignment explanation
Indices: 62948183--62948383 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
62948173 ATCCTTTTGA
* *
62948183 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* *
62948246 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTCCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
62948291 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
62948356 TCCCATGCCTTAGCATGGTCTTACATGG
66 TCCCATGCCTTAGCATGGTCTTACATGG
62948384 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 7 0.08
110 26 0.31
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TCCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:62963667 original size:43 final size:43
Alignment explanation
Indices: 62963612--62963947 Score: 281
Period size: 43 Copynumber: 7.7 Consensus size: 43
62963602 GACGAAGGGC
62963612 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
** * * * **
62963655 CTTAGTCCCCTAAGCAGTAGGG-AA-AGAGATCGAAGATGA-AGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCT-GAA-TTTACA-GAT
*
62963699 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
*** * * * *** * **
62963742 CTTAGTTCCCTAAGCAGTAGGGAAATA-GATCGAAGACAAAGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA-GAT
62963786 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * * **
62963829 CTTAACGCCCTAAGCAGTAGAGAAACA-GATCGAA--GACGAAGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTAC--A-GAT
62963873 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
*
62963916 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
62963948 GAAATCAAAT
Statistics
Matches: 223, Mismatches: 53, Indels: 34
0.72 0.17 0.11
Matches are distributed among these distances:
41 4 0.02
42 8 0.04
43 115 0.52
44 84 0.38
45 8 0.04
46 4 0.02
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
Found at i:62963742 original size:87 final size:87
Alignment explanation
Indices: 62963591--62963943 Score: 582
Period size: 87 Copynumber: 4.1 Consensus size: 87
62963581 AGAATGGTGT
62963591 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
62963656 TTAGTCCCCTAAGCAGTAGGGA
66 TTAGTCCCCTAAGCAGTAGGGA
* * *
62963678 AAGAGATCGAAGATGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
*
62963743 TTAGTTCCCTAAGCAGTAGGGA
66 TTAGTCCCCTAAGCAGTAGGGA
* *
62963765 AATAGATCGAAGACAAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
* *
62963830 TTA-ACGCCCTAAGCAGTAGAGA
66 TTAGTC-CCCTAAGCAGTAGGGA
62963852 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
** * *
62963917 TTAACCCCCTAAGTAGTAGGGT
66 TTAGTCCCCTAAGCAGTAGGGA
62963939 AACAG
1 AACAG
62963944 GCTGGAAATC
Statistics
Matches: 247, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
87 246 1.00
88 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (87 bp):
AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
TTAGTCCCCTAAGCAGTAGGGA
Found at i:62963892 original size:44 final size:44
Alignment explanation
Indices: 62963591--62963900 Score: 210
Period size: 44 Copynumber: 7.1 Consensus size: 44
62963581 AGAATGGTGT
*
62963591 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGT
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGA
* * ** **
62963635 AACAG-GCTGAATTTAC--A-GATCTTAGTCCCCTAAGCAGTAGGGA
1 AACAGATC-GAA--GACGAAGGGCCTTAACCCCCTAAGCAGTAGGGA
* * *
62963678 AAGAGATCGAAGATGAAGGGCCTTAACCCCCTAAGCAGTAGGGT
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGA
* *** ** ***
62963722 AACAG-GCTGAA-TTTATA-GATCTTAGTTCCCTAAGCAGTAGGGA
1 AACAGATC-GAAGACGA-AGGGCCTTAACCCCCTAAGCAGTAGGGA
* * *
62963765 AATAGATCGAAGACAAAGGGCCTTAACCCCCTAAGCAGTAGGGT
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGA
* * ** * *
62963809 AACAG-GCTGAATTTAC--A-GATCTTAACGCCCTAAGCAGTAGAGA
1 AACAGATC-GAA--GACGAAGGGCCTTAACCCCCTAAGCAGTAGGGA
*
62963852 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGT
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGA
62963896 AACAG
1 AACAG
62963901 GCTGAATTTA
Statistics
Matches: 195, Mismatches: 52, Indels: 38
0.68 0.18 0.13
Matches are distributed among these distances:
41 3 0.02
43 92 0.47
44 96 0.49
46 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (44 bp):
AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGA
Found at i:62964590 original size:20 final size:20
Alignment explanation
Indices: 62964565--62964609 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
62964555 AATTTTGAAA
62964565 GAAAAGAGGGATTGTATTTT
1 GAAAAGAGGGATTGTATTTT
* * *
62964585 GAAAAGGGGGGTTTTATTTT
1 GAAAAGAGGGATTGTATTTT
*
62964605 TAAAA
1 GAAAA
62964610 AAAAAGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (20 bp):
GAAAAGAGGGATTGTATTTT
Found at i:62965181 original size:3 final size:3
Alignment explanation
Indices: 62965175--62965266 Score: 80
Period size: 3 Copynumber: 30.7 Consensus size: 3
62965165 CATCATCATC
*
62965175 ATT ATT ATT GA-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
62965220 ACTT TTT GTC ACT ATT GTC ATT ATT A-T ATT ATT ACT ATT ATT ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
62965265 AT
1 AT
62965267 ACTTATATTC
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.04
3 64 0.91
4 3 0.04
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Done.