Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 208 of 325
Found at i:64528232 original size:20 final size:18
Alignment explanation
Indices: 64528132--64528235 Score: 65
Period size: 19 Copynumber: 5.7 Consensus size: 18
64528122 ATGAATTATT
* *
64528132 AAAAATATTACAAAATTAT
1 AAAAATATTA-AAAATCAA
64528151 AAAAATATTCAAAAAT--A
1 AAAAATATT-AAAAATCAA
*
64528168 ATAAA-ATTACAAAA--AA
1 AAAAATATTA-AAAATCAA
*
64528184 AATAAATTATTAAAAATCAT
1 AA-AAA-TATTAAAAATCAA
*
64528204 AAAATTATTAAAAACTGCAA
1 AAAAATATTAAAAA-T-CAA
64528224 AAAAATATTAAA
1 AAAAATATTAAA
64528236 CATTAAGAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 19
0.72 0.07 0.20
Matches are distributed among these distances:
15 1 0.01
16 9 0.13
17 7 0.10
18 13 0.19
19 21 0.31
20 17 0.25
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (18 bp):
AAAAATATTAAAAATCAA
Found at i:64529403 original size:17 final size:17
Alignment explanation
Indices: 64529355--64529396 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
64529345 GAAAGAAGAT
*
64529355 ATTTCGTTTAATTTTTA
1 ATTTTGTTTAATTTTTA
64529372 ATTTTGTTTAATTTTT-
1 ATTTTGTTTAATTTTTA
64529388 ATTTT-TTTA
1 ATTTTGTTTA
64529397 TGATTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.17
16 5 0.21
17 15 0.62
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (17 bp):
ATTTTGTTTAATTTTTA
Found at i:64529499 original size:18 final size:17
Alignment explanation
Indices: 64529472--64529514 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
64529462 ATTTTTATAA
64529472 TTTTACATTTAAGAACATT
1 TTTTA-ATTTAAGAA-ATT
* *
64529491 TTTTAATTTTATAAATT
1 TTTTAATTTAAGAAATT
64529508 TTTTAAT
1 TTTTAAT
64529515 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 7 0.32
19 5 0.23
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTAATTTAAGAAATT
Found at i:64530100 original size:15 final size:16
Alignment explanation
Indices: 64530066--64530103 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
64530056 TGTGCCTCGT
64530066 TAAAACCTTATTAAGA
1 TAAAACCTTATTAAGA
*
64530082 -AAAACCTTA-TAGGA
1 TAAAACCTTATTAAGA
64530096 TAAAACCT
1 TAAAACCT
64530104 AATGAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (16 bp):
TAAAACCTTATTAAGA
Found at i:64531354 original size:18 final size:18
Alignment explanation
Indices: 64531328--64531369 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
64531318 TGGCTTGCCA
*
64531328 GTGTCGGCCCATACGCCT
1 GTGTGGGCCCATACGCCT
64531346 GTGTGGGCCCATACGCCT
1 GTGTGGGCCCATACGCCT
64531364 GTGTGG
1 GTGTGG
64531370 TCCATATGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.31, G:0.36, T:0.24
Consensus pattern (18 bp):
GTGTGGGCCCATACGCCT
Found at i:64533899 original size:20 final size:21
Alignment explanation
Indices: 64533857--64533901 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
64533847 AGCTCCGTCC
* *
64533857 AGCTCAAATCCAGCTTATTTG
1 AGCTCAAATCCAACTTATCTG
*
64533878 AGCTC-AATCCAACTTGTCTG
1 AGCTCAAATCCAACTTATCTG
64533898 AGCT
1 AGCT
64533902 AAACCGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (21 bp):
AGCTCAAATCCAACTTATCTG
Found at i:64534013 original size:30 final size:30
Alignment explanation
Indices: 64533937--64534022 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
64533927 TTCAGCTCAC
* *
64533937 GAGCTAAACCTTAGCTTAACTTCAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
* *
64533967 GAG-TATAATCTCAGCTCAACTTTAGCTTAAG
1 GAGCTA-AACCTTAGCTCAACTTTAGCTT-AG
* *
64533998 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
64534023 CAAACCCGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
29 10 0.22
30 31 0.67
31 5 0.11
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTTAG
Found at i:64543314 original size:80 final size:80
Alignment explanation
Indices: 64543230--64543378 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
64543220 TATGGTAACC
* * * *
64543230 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
64543294 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
64543310 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
64543375 CCGG
66 CCGG
64543379 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:64543320 original size:40 final size:38
Alignment explanation
Indices: 64543271--64543378 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
64543261 ATCACGATTT
*
64543271 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
64543311 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
64543351 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
64543379 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:64551432 original size:80 final size:80
Alignment explanation
Indices: 64551348--64551496 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
64551338 TATGGTAACC
* * * *
64551348 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
64551412 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
64551428 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
64551493 CCGG
66 CCGG
64551497 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:64551438 original size:40 final size:38
Alignment explanation
Indices: 64551389--64551496 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
64551379 ATCACGATTT
*
64551389 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
64551429 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
64551469 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
64551497 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:64555580 original size:21 final size:21
Alignment explanation
Indices: 64555528--64555582 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
64555518 TGTAGTGGAA
* * *
64555528 CTTACAAACCTAACAATATGC
1 CTTACGAACCTCACAATATAC
* * *
64555549 CTTATGGACCTCACAGTATAC
1 CTTACGAACCTCACAATATAC
64555570 CTTACGAACCTCA
1 CTTACGAACCTCA
64555583 TAGTGTAACC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.09, T:0.25
Consensus pattern (21 bp):
CTTACGAACCTCACAATATAC
Found at i:64556454 original size:18 final size:18
Alignment explanation
Indices: 64556431--64556468 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
64556421 TCACTAGGTT
64556431 TTTACTAT-ATGCTAAACC
1 TTTACTATCAT-CTAAACC
*
64556449 TTTACTCTCATCTAAACC
1 TTTACTATCATCTAAACC
64556467 TT
1 TT
64556469 AAATAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (18 bp):
TTTACTATCATCTAAACC
Found at i:64559067 original size:25 final size:24
Alignment explanation
Indices: 64558991--64559074 Score: 141
Period size: 24 Copynumber: 3.5 Consensus size: 24
64558981 GAGGAAGTGC
* *
64558991 AAAAGGGCTATGCCCCAGTTACTG
1 AAAAGGGCTTTGCCCCAGTTACCG
64559015 AAAAGGGCTTTGCCCCAGTTACCG
1 AAAAGGGCTTTGCCCCAGTTACCG
64559039 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAG-TTACCG
64559064 AAAAGGGCTTT
1 AAAAGGGCTTT
64559075 TTCCCCAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
24 40 0.70
25 17 0.30
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTACCG
Found at i:64559092 original size:49 final size:48
Alignment explanation
Indices: 64558991--64559085 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 48
64558981 GAGGAAGTGC
* *
64558991 AAAAGGGCTATGCCCCAGTTACTGAAAAGGGCTTTGCCCCAGTTACCG
1 AAAAGGGCTATGCCCCAGTTACCGAAAAGGGCTTTGCCCCAATTACCG
* *
64559039 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTTTCCCCAATTA
1 AAAAGGGCTATGCCCCAG-TTACCGAAAAGGGC-TTTGCCCCAATTA
64559086 TTAAAAGAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 17 0.41
49 13 0.32
50 11 0.27
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (48 bp):
AAAAGGGCTATGCCCCAGTTACCGAAAAGGGCTTTGCCCCAATTACCG
Found at i:64559353 original size:31 final size:31
Alignment explanation
Indices: 64559307--64559386 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
64559297 TTACAGTAAG
*
64559307 GGCTTCAGCCCAGTGATATAAATAATGAAAA
1 GGCTTCGGCCCAGTGATATAAATAATGAAAA
* * * *
64559338 GGCTTTGGCCTAGTGATATGAATAATGTAAA
1 GGCTTCGGCCCAGTGATATAAATAATGAAAA
64559369 GGCTTCGGCCCAGT-ATAT
1 GGCTTCGGCCCAGTGATAT
64559387 GCTGAGATTG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 4 0.10
31 38 0.90
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (31 bp):
GGCTTCGGCCCAGTGATATAAATAATGAAAA
Found at i:64560952 original size:141 final size:141
Alignment explanation
Indices: 64560744--64561001 Score: 336
Period size: 141 Copynumber: 1.8 Consensus size: 141
64560734 ATCTATTTAG
* * * * * * *
64560744 TATTGAATGTAGCTAAGGACGATACCGGGTCGTTAAGAGGGAAAGGAAAGGTGAGAGTCACTAAC
1 TATTGAATATAGCTAAAGACGACACCGGGTCGTCAAGAGGGAAAAGAAAGGCGAGAATCACTAAC
* *** * *
64560809 GAGTAACTGTGATTCGGGTTTGTACTTTTATGATTCGAGTACAACATATATATGTAGAAATATAT
66 GAGTAACTGCGATTCCAATTTGCACTTTTATGATTAGAGTACAACATATATATGTAGAAATATAT
64560874 ATCTATTGAAT
131 ATCTATTGAAT
* * * * *
64560885 TATTGAATATAGCTAAAGACGACACTGGGTTGTCGAGAGGGAAAAGAAAGGCGAGAATCGCTGAC
1 TATTGAATATAGCTAAAGACGACACCGGGTCGTCAAGAGGGAAAAGAAAGGCGAGAATCACTAAC
* *
64560950 GAGTAATTGCGATTCCAATTTGCACTTTTATGATTAGAGTACAATATATATA
66 GAGTAACTGCGATTCCAATTTGCACTTTTATGATTAGAGTACAACATATATA
64561002 CATATTAATA
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
141 97 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (141 bp):
TATTGAATATAGCTAAAGACGACACCGGGTCGTCAAGAGGGAAAAGAAAGGCGAGAATCACTAAC
GAGTAACTGCGATTCCAATTTGCACTTTTATGATTAGAGTACAACATATATATGTAGAAATATAT
ATCTATTGAAT
Found at i:64569294 original size:27 final size:27
Alignment explanation
Indices: 64569264--64569370 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
64569254 GGCTGCCTGA
* *
64569264 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
64569291 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
64569318 ACAGAAATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
**
64569346 -CAGATAATTGTGGCATTGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
64569371 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.01
27 52 0.74
28 17 0.24
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:64569359 original size:54 final size:54
Alignment explanation
Indices: 64569262--64569370 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
64569252 ATGGCTGCCT
* *
64569262 GAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCA
1 GAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCA
* * **
64569316 GAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATTGCCACCA
1 GAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCA
64569370 G
1 G
64569371 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.17
Consensus pattern (54 bp):
GAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCA
Found at i:64571355 original size:40 final size:40
Alignment explanation
Indices: 64571319--64571544 Score: 357
Period size: 40 Copynumber: 5.7 Consensus size: 40
64571309 GGATATAGCT
*
64571319 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
64571359 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
64571399 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
64571439 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
64571479 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
64571519 ACTAGCACAAATGCCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
64571545 CCCCCGTTAT
Statistics
Matches: 178, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 176 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:64571445 original size:80 final size:79
Alignment explanation
Indices: 64571293--64571544 Score: 366
Period size: 80 Copynumber: 3.2 Consensus size: 79
64571283 AAACCAAGTA
* * *
64571293 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
**
64571356 GTAGTTCGCACAAATG
64 GTAACTCGCACAAATG
64571372 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
64571437 TAACTCGCACAAATG
65 TAACTCGCACAAATG
*
64571452 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
* *
64571516 GTCACTAGCACAAATG
64 GTAACTCGCACAAATG
64571532 CCTTCGGGACTTA
1 CCTTCGGGACTTA
64571545 CCCCCGTTAT
Statistics
Matches: 160, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
79 14 0.09
80 144 0.90
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTCGCACAAATG
Found at i:64573358 original size:39 final size:40
Alignment explanation
Indices: 64573315--64573481 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
64573305 CGGAATATAA
64573315 CCGGATATAACCACGT-GCACAAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
64573354 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
64573394 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
64573434 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
64573474 CCGGATAT
1 CCGGATAT
64573482 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
38 1 0.01
39 24 0.23
40 78 0.76
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:64581371 original size:40 final size:40
Alignment explanation
Indices: 64581326--64581493 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
64581316 CGGAATATAA
*
64581326 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
64581366 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
64581406 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
64581446 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
64581486 CCGGATAT
1 CCGGATAT
64581494 CATTCAATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 102 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:64581476 original size:80 final size:80
Alignment explanation
Indices: 64581342--64581493 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
64581332 ATAAGCATGT
* *
64581342 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
64581407 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
64581422 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
64581485 CCCGGATAT
64 CCCGGATAT
64581494 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:64587746 original size:18 final size:19
Alignment explanation
Indices: 64587712--64587753 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
64587702 AACTTTAAAA
*
64587712 AAAAATCAAAATAATTTTT
1 AAAAATCAAAATAATTTAT
*
64587731 AAAATTCAAAAT-ATTTAT
1 AAAAATCAAAATAATTTAT
64587749 AAAAA
1 AAAAA
64587754 ATTTAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATCAAAATAATTTAT
Found at i:64587766 original size:12 final size:11
Alignment explanation
Indices: 64587751--64587795 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
64587741 ATATTTATAA
64587751 AAAATTTAAAAG
1 AAAATTT-AAAG
64587763 AAAATTCTAAAG
1 AAAATT-TAAAG
* *
64587775 AATATATAAAG
1 AAAATTTAAAG
64587786 AAAATTTAAA
1 AAAATTTAAA
64587796 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 13 0.46
12 14 0.50
13 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (11 bp):
AAAATTTAAAG
Found at i:64588411 original size:2 final size:2
Alignment explanation
Indices: 64588404--64588430 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
64588394 ATAAGGAAGC
64588404 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
64588431 TCTTCTCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64593206 original size:40 final size:41
Alignment explanation
Indices: 64593156--64593240 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 41
64593146 ATCAATTTTT
* *
64593156 TTATTTAATTAAATATTTATCTAAATT-TTTAAAAAAATTA
1 TTATCTAATTAAATATTTATCTAAATTATTTAAAAAAAATA
* *
64593196 TTATCTAATTAAATATTTATTTAATTTAATTTAAAAAAAATA
1 TTATCTAATTAAATATTTATCTAAATT-ATTTAAAAAAAATA
64593238 TTA
1 TTA
64593241 ACCATGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 24 0.62
42 15 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (41 bp):
TTATCTAATTAAATATTTATCTAAATTATTTAAAAAAAATA
Found at i:64594594 original size:5 final size:5
Alignment explanation
Indices: 64594584--64594624 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
64594574 CTTAAGACCT
64594584 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
64594625 GTATATATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:64595096 original size:22 final size:22
Alignment explanation
Indices: 64595007--64595097 Score: 68
Period size: 22 Copynumber: 4.3 Consensus size: 22
64594997 TACAAGGAGA
*
64595007 AAAAAATT-GACTTACATGGA-
1 AAAAAATTAGAATTACATGGAC
* *
64595027 AAAGAA-T-GAACTACATGGAC
1 AAAAAATTAGAATTACATGGAC
* *
64595047 AAAAAAATTAGAATTATAGGGATC
1 -AAAAAATTAGAATTACATGGA-C
64595071 -AAAAATTCA-AATTACATGGAC
1 AAAAAATT-AGAATTACATGGAC
64595092 AAAAAA
1 AAAAAA
64595098 AGACGAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
19 11 0.20
20 5 0.09
21 6 0.11
22 22 0.40
23 10 0.18
24 1 0.02
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (22 bp):
AAAAAATTAGAATTACATGGAC
Found at i:64597186 original size:32 final size:33
Alignment explanation
Indices: 64597119--64597190 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 33
64597109 TGAAAAAGTT
*
64597119 AATATTTTCTGGTGTTTGGATAGATCTGTGTAA
1 AATATTTTCTGGTGTTTGGATAGATCTCTGTAA
* *
64597152 AATATTTTCTGTTGTTT-GATAGATTTCT-TAAA
1 AATATTTTCTGGTGTTTGGATAGATCTCTGT-AA
64597184 AATATTT
1 AATATTT
64597191 CATAAAAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 1 0.03
32 18 0.51
33 16 0.46
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (33 bp):
AATATTTTCTGGTGTTTGGATAGATCTCTGTAA
Found at i:64597599 original size:19 final size:19
Alignment explanation
Indices: 64597575--64597611 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
64597565 TATTATTAAT
*
64597575 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
64597594 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
64597612 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:64597677 original size:16 final size:16
Alignment explanation
Indices: 64597646--64597682 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
64597636 ATGTAAATAA
64597646 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
64597662 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
64597678 TATTA
1 TATTA
64597683 AAATAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:64597742 original size:22 final size:22
Alignment explanation
Indices: 64597708--64597749 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
64597698 ATTAAATAAA
64597708 TTATTAAAATAATAAATTATAT
1 TTATTAAAATAATAAATTATAT
* * *
64597730 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAAATTAT
64597750 TAATATGACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAT
Found at i:64604590 original size:35 final size:35
Alignment explanation
Indices: 64604549--64604619 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
64604539 CATCTTCGGA
*
64604549 GCTTGGAAAATATGGAAA-GTAATCTTCAAAGATAT
1 GCTTGGAAAATAT-GAAAGGGAATCTTCAAAGATAT
*
64604584 GCTTGGAAAATATGAAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATGAAAGGGAATCTTCAAAGATAT
64604619 G
1 G
64604620 TGATCCTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (35 bp):
GCTTGGAAAATATGAAAGGGAATCTTCAAAGATAT
Found at i:64606568 original size:21 final size:18
Alignment explanation
Indices: 64606530--64606582 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
64606520 GGAAGAATAA
64606530 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
64606548 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
64606569 A-AAA-GAAAAAAAAA
1 AGAAATGAAAAAAAAA
64606583 GTGTTATTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 7 0.22
19 6 0.19
20 7 0.22
21 5 0.16
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:64607772 original size:29 final size:28
Alignment explanation
Indices: 64607739--64607830 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 28
64607729 TGACGAGATT
*
64607739 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAA-ATAA
*
64607768 GGCACTAAGTGTGCATGCTGGAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAATAA
* * * *
64607796 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAATAA
64607825 GGCACT
1 GGCACT
64607831 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (28 bp):
GGCACTAAGTGTGCATGCTGGAAAATAA
Found at i:64607810 original size:28 final size:28
Alignment explanation
Indices: 64607741--64607820 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
64607731 ACGAGATTGG
* *
64607741 CACTAAGTGTGCGTGCTGGAAATATAAGG
1 CACTAAGTGTGCATGCTGGAAA-ATAAGA
*
64607770 CACTAAGTGTGCATGCTGGAAAATATGA
1 CACTAAGTGTGCATGCTGGAAAATAAGA
* *
64607798 CACTATGTGTGCAAGCTGGAAAA
1 CACTAAGTGTGCATGCTGGAAAA
64607821 ATACGGCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 25 0.54
29 21 0.46
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (28 bp):
CACTAAGTGTGCATGCTGGAAAATAAGA
Found at i:64607843 original size:29 final size:29
Alignment explanation
Indices: 64607739--64607843 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 29
64607729 TGACGAGATT
* *
64607739 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
64607768 GGCACTAAGTGTGC-ATGCTGG-AAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
64607796 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
64607825 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
64607844 CGAGGGTATG
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
28 22 0.35
29 41 0.65
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:64615681 original size:29 final size:29
Alignment explanation
Indices: 64615648--64615740 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
64615638 TGACGAGATT
* *
64615648 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
64615677 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
64615706 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
64615735 GGCACT
1 GGCACT
64615741 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:64615753 original size:29 final size:29
Alignment explanation
Indices: 64615648--64615753 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
64615638 TGACGAGATT
* *
64615648 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
64615677 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
64615706 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
64615735 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
64615754 CGGAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:64618593 original size:21 final size:20
Alignment explanation
Indices: 64618567--64618606 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
64618557 ATTAAAATTA
64618567 AAATATTATTT-ACTATAAATC
1 AAATATT-TTTGACTA-AAATC
64618588 AAATATTTTTGACTAAAAT
1 AAATATTTTTGACTAAAAT
64618607 TTTTGGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATATTTTTGACTAAAATC
Found at i:64622301 original size:40 final size:41
Alignment explanation
Indices: 64622202--64622361 Score: 205
Period size: 41 Copynumber: 3.9 Consensus size: 41
64622192 CGATTCTTAG
*
64622202 CACTGACTCAAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
1 CACTGGCTC-AAAAGCCCTTCGAGACCAAGCTCGGATTATGA
* * * * * * * *
64622244 CATTGGCCCGAAGGCCCTTCGAAACTAGGTTCGG-TTATGA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
64622284 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
**
64622325 CACTGGCTCAAAAGCCCTTAAAGACCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATT
64622362 TAAACCCGAT
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
40 32 0.33
41 60 0.61
42 6 0.06
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGA
Found at i:64628751 original size:20 final size:21
Alignment explanation
Indices: 64628713--64628751 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
64628703 AATGCTCATG
*
64628713 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
*
64628734 GATGA-TTACGAGTCACTT
1 GATGATTTAAGAGTCACTT
64628752 GTTGTTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:64629278 original size:28 final size:28
Alignment explanation
Indices: 64629245--64629375 Score: 208
Period size: 28 Copynumber: 4.7 Consensus size: 28
64629235 ATTGCATGAC
*
64629245 TATGAATGTGATTGAGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
64629273 TATGAATGTGATTAGGCCTGAAGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
64629301 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
64629329 TATGAATGTGATTGGGTCTGATGGGCTA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
64629357 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
64629376 AAAGGGGCCA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 94 1.00
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:64634091 original size:26 final size:26
Alignment explanation
Indices: 64634055--64634108 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
64634045 GAGCTAAACC
64634055 TTAGGCAACATAGGTGGGTGGAATTA
1 TTAGGCAACATAGGTGGGTGGAATTA
64634081 TTAGGCAACATAGGTGGGTGGAATTA
1 TTAGGCAACATAGGTGGGTGGAATTA
64634107 TT
1 TT
64634109 GAAGGATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (26 bp):
TTAGGCAACATAGGTGGGTGGAATTA
Found at i:64637243 original size:28 final size:28
Alignment explanation
Indices: 64637210--64637284 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
64637200 GATTGTACGA
*
64637210 CTATGAATGTGATTGGGCCGGACGGGCC
1 CTATGAATGTGATTGGGCCCGACGGGCC
* *
64637238 CTATGAAAGTGATTGGGCCCGATGGGCC
1 CTATGAATGTGATTGGGCCCGACGGGCC
* *
64637266 ATATGAATGAGATTGGGCC
1 CTATGAATGTGATTGGGCC
64637285 TAAAGGGGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.23
Consensus pattern (28 bp):
CTATGAATGTGATTGGGCCCGACGGGCC
Found at i:64638563 original size:18 final size:18
Alignment explanation
Indices: 64638540--64638592 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
64638530 CTCAAAGAAG
64638540 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
64638558 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
* *
64638576 GGTTTTCGATAAAAACA
1 GGTTTTCAATGAAAACA
64638593 CTTCAATGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:64641659 original size:28 final size:28
Alignment explanation
Indices: 64641590--64641690 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
64641580 GACAAGATTG
* * * *
64641590 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
64641620 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64641648 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
64641677 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
64641691 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64644801 original size:40 final size:40
Alignment explanation
Indices: 64644600--64644787 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
64644590 TATTCGGATG
* *
64644600 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64644640 A-ATTCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
64644679 ATATCCGGGCTAAGTCTCGAAGGCATTTGTTCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64644719 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
64644759 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
64644788 AGCAAGTAGC
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 35 0.26
40 98 0.74
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:64644801 original size:80 final size:80
Alignment explanation
Indices: 64644600--64644826 Score: 284
Period size: 79 Copynumber: 2.9 Consensus size: 80
64644590 TATTCGGATG
* *
64644600 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCTGGGCTAAG-CCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGG
*
64644662 CATTTGTGCGAGTTACT
64 CACTTGTGCGAGTTACT
* * * * *
64644679 ATATCCGGGCTAAGTCTCGAAGGCATTTGTTCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAGTCCCGAAGGC
64644743 ACTTGTGCGAGTTACT
65 ACTTGTGCGAGTTACT
* * * *
64644759 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGGCA
64644823 CTTG
66 CTTG
64644827 GTTTGGGAAT
Statistics
Matches: 127, Mismatches: 16, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
79 64 0.50
80 63 0.50
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGGCA
CTTGTGCGAGTTACT
Found at i:64653935 original size:40 final size:40
Alignment explanation
Indices: 64653901--64654109 Score: 291
Period size: 40 Copynumber: 5.2 Consensus size: 40
64653891 CTTCGGGACA
*
64653901 TAGCCCGG-TTATAGTAGCTCGCACAAATGCCTTCGGGA-CT
1 TAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCT
*
64653941 TATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCT
*
64653981 TAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCT
*
64654021 TAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCT
* * *
64654061 TAGTCCGGATTTAGTCACTTAGCACAAA-GCCTTCGGGA-CT
1 TAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTC-GGATCT
64654101 TAGCCCGGA
1 TAGCCCGGA
64654110 CATCATTCGA
Statistics
Matches: 158, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 3 0.02
40 142 0.90
41 13 0.08
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCT
Found at i:64662019 original size:39 final size:40
Alignment explanation
Indices: 64661916--64662119 Score: 296
Period size: 39 Copynumber: 5.2 Consensus size: 40
64661906 CGGATGATAA
64661916 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
64661955 CCGGGCTAAG-CCCGAAGGCATTTGTGC-AGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
64661993 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
64662033 CCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTTACTATAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
64662072 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
64662112 CC-GGCTAA
1 CCGGGCTAA
64662120 ATTCAGAAGG
Statistics
Matches: 153, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
37 2 0.01
38 33 0.22
39 73 0.48
40 45 0.29
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:64662110 original size:79 final size:77
Alignment explanation
Indices: 64661916--64662119 Score: 297
Period size: 79 Copynumber: 2.6 Consensus size: 77
64661906 CGGATGATAA
*
64661916 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTA-ATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATA-TCCGGGCTAAGCCCGAAGGCATTTGT
*
64661980 GCAGTTACTATAT
65 GCAGTTACTATAG
* *
64661993 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA-TTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATCCGGGCTAAG-CCCGAAGGCATTTG
64662057 TGCTAGTTACTATAG
64 TGC-AGTTACTATAG
*
64662072 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CTATATCCGGGCTAA
64662120 ATTCAGAAGG
Statistics
Matches: 116, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
77 30 0.26
78 29 0.25
79 57 0.49
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATATCCGGGCTAAGCCCGAAGGCATTTGTG
CAGTTACTATAG
Found at i:64665130 original size:2 final size:2
Alignment explanation
Indices: 64665123--64665147 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
64665113 TAAAATTTTA
64665123 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
64665148 GGTTTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64672292 original size:29 final size:27
Alignment explanation
Indices: 64672258--64672360 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
64672248 TACTCAATCA
*
64672258 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
64672287 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
64672316 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
64672345 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
64672361 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:64674312 original size:40 final size:40
Alignment explanation
Indices: 64674254--64674477 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
64674244 TATTCGGATG
64674254 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
64674294 ATATCCGAGTTAACTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
64674337 ATACCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
64674377 ATATCCGGGCTAAGTCCCGAAAGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
64674417 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
64674457 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
64674478 ATACTTGGGT
Statistics
Matches: 154, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.08
40 107 0.69
41 1 0.01
43 33 0.21
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:64674397 original size:83 final size:80
Alignment explanation
Indices: 64674258--64674477 Score: 248
Period size: 83 Copynumber: 2.7 Consensus size: 80
64674248 CGGATGATAT
* * * * **
64674258 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGAGTTAACTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAATCCCGAAGGCATTCA
64674323 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* * * *
64674341 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAATCCCGAAGGCATTCA
*
64674406 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
64674421 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAATCCCGAAG
64674478 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
79 15 0.13
80 43 0.36
81 2 0.02
83 59 0.50
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAATCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:64687152 original size:345 final size:345
Alignment explanation
Indices: 64686521--64687154 Score: 1205
Period size: 345 Copynumber: 1.8 Consensus size: 345
64686511 TCAAAGTGAG
64686521 CAAGAAGAACCAATTGAGCCAGAAACTGAGGAGTCAATAAATGAAACTGAAACTCAATCAATTAC
1 CAAGAAGAACCAATTGAGCCAGAAACTGAGGAGTCAATAAATGAAACTGAAACTCAATCAATTAC
*
64686586 AGCCACTGAAGAAGAAGAATCTAATAAGGAACCAAATAGTCCTAAACCAGTTGAAAGATCTGAAA
66 AGCCACTGAAGAAGAAGAATCTAATAAGAAACCAAATAGTCCTAAACCAGTTGAAAGATCTGAAA
64686651 ACCCTGAACCAAGGGTTAAGCCAGAAGAAGAACCAGTCAACCTAAGTGTTGAACTTGAATATAAA
131 ACCCTGAACCAAGGGTTAAGCCAGAAGAAGAACCAGTCAACCTAAGTGTTGAACTTGAATATAAA
64686716 ACTCCCATGCCAACTTCTACAAGTACTTCAAGGAAATCAGAGTTGTCAATTTTGATGGATATGTG
196 ACTCCCATGCCAACTTCTACAAGTACTTCAAGGAAATCAGAGTTGTCAATTTTGATGGATATGTG
64686781 CAAATTCATGCACAATCAACAGCAAACTTACTAGATATATGCAAAAATTAGAGATGATTCAATTT
261 CAAATTCATGCACAATCAACAGCAAACTTACTAGATATATGCAAAAATTAGAGATGATTCAATTT
64686846 GAAATACTTTTAAGAATATC
326 GAAATACTTTTAAGAATATC
* * *
64686866 CAAGAAGAACCAATTGAGCCAGAAATTGAGGAGTCAATAAATGAAACTGAAACTGAATCAATTAT
1 CAAGAAGAACCAATTGAGCCAGAAACTGAGGAGTCAATAAATGAAACTGAAACTCAATCAATTAC
64686931 AGCCACTGAAGAAGAAGAATCTAATAAGAAACCAAATAGTCCTAAACCAGTTGAAAGATCTGAAA
66 AGCCACTGAAGAAGAAGAATCTAATAAGAAACCAAATAGTCCTAAACCAGTTGAAAGATCTGAAA
* **
64686996 ACCCTGAACCAAGGGTTGAGTTAGAAGAAGAACCAGTCAACCTAAGTGTTGAACTTGAATATAAA
131 ACCCTGAACCAAGGGTTAAGCCAGAAGAAGAACCAGTCAACCTAAGTGTTGAACTTGAATATAAA
64687061 ACTCCCATGCCAACTTCTACAAGTACTTCAAGGAAATCAGAGTTGTCAATTTTGATGGATATGTG
196 ACTCCCATGCCAACTTCTACAAGTACTTCAAGGAAATCAGAGTTGTCAATTTTGATGGATATGTG
64687126 CAAATTCATGCACAATCAACAGCAAACTT
261 CAAATTCATGCACAATCAACAGCAAACTT
64687155 TTGTTCCTGA
Statistics
Matches: 282, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
345 282 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (345 bp):
CAAGAAGAACCAATTGAGCCAGAAACTGAGGAGTCAATAAATGAAACTGAAACTCAATCAATTAC
AGCCACTGAAGAAGAAGAATCTAATAAGAAACCAAATAGTCCTAAACCAGTTGAAAGATCTGAAA
ACCCTGAACCAAGGGTTAAGCCAGAAGAAGAACCAGTCAACCTAAGTGTTGAACTTGAATATAAA
ACTCCCATGCCAACTTCTACAAGTACTTCAAGGAAATCAGAGTTGTCAATTTTGATGGATATGTG
CAAATTCATGCACAATCAACAGCAAACTTACTAGATATATGCAAAAATTAGAGATGATTCAATTT
GAAATACTTTTAAGAATATC
Found at i:64693731 original size:39 final size:39
Alignment explanation
Indices: 64693635--64693895 Score: 318
Period size: 39 Copynumber: 6.7 Consensus size: 39
64693625 TCGAATGATG
* *
64693635 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACT-AA
* *
64693675 TTCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
*
64693714 TCCGGACTAAGATCCGAAGGCA-TTGTGCAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT-AA
64693753 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
*
64693792 TCCGGACTAAGATCCGAAGGCATTTGTCCGAGTTACTAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
*
64693831 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTATA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
* * * *
64693871 ACCGGGCTATG-TCCGAAGGTATTTG
1 TCCGGACTAAGATCCGAAGGCATTTG
64693896 AACGAGTAGC
Statistics
Matches: 199, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
38 14 0.07
39 131 0.66
40 47 0.24
41 7 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:64693926 original size:78 final size:77
Alignment explanation
Indices: 64693687--64693928 Score: 235
Period size: 78 Copynumber: 3.1 Consensus size: 77
64693677 CGGACTAAGA
* * * *
64693687 TCCGAAGGCAATTGTGCGAGTTACTAATCCGGACTAAGATCCGAAGGCATTGTG--CAAGTTACT
1 TCCGAAGGCATTTGTGCGAGCTACTAAACCGGACTAAGATCCGAAGGCATT-TGAACGAGTTACT
*
64693750 AAATCC-GGACTAAGA
65 -AATCCGGGA-TAA-C
* * **
64693765 TCCGAAGGCATTTGTGCGAGTTACTAATCCGGACTAAGATCCGAAGGCATTTGTCCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGCTACTAAACCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
*
64693830 ATCCGGGATAAG
66 ATCCGGGATAAC
* * *
64693842 TCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATG-TCCGAAGGTATTTGAACGAG-TAG
1 T-CCGAAGGCATTTGTGCGAGCTACTA-AACCGGACTAAGATCCGAAGGCATTTGAACGAGTTA-
*
64693905 CTATATCC-GGTTAAAC
63 CTA-ATCCGGGAT-AAC
64693921 TCCGAAGG
1 TCCGAAGG
64693929 TACGTGATTC
Statistics
Matches: 144, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
77 5 0.03
78 112 0.78
79 27 0.19
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (77 bp):
TCCGAAGGCATTTGTGCGAGCTACTAAACCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
ATCCGGGATAAC
Found at i:64699375 original size:40 final size:39
Alignment explanation
Indices: 64699293--64699483 Score: 134
Period size: 40 Copynumber: 4.8 Consensus size: 39
64699283 TCAAATGATG
* ** * * *
64699293 TCCGGGCTAAGTCCGAAGGC-TTTGTGTTAAGTGACTATA
1 TCCGGGCTAAGTCCGAAGGCATTCGTG-CGAGTTAATAAA
* *
64699332 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
64699372 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * * * *
64699411 CCCGGGTTAAGTCCCGAAGGGATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
64699452 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
64699484 CGTTATATCC
Statistics
Matches: 121, Mismatches: 27, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
39 42 0.35
40 72 0.60
41 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:64699392 original size:39 final size:39
Alignment explanation
Indices: 64699345--64699483 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 39
64699335 GGACTAGGAT
*
64699345 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGTC
* * *
64699384 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGTC
* * **
64699424 CCGAAGGGATTCGTGCGAGTCACTATAACCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGCTAAGTC
* *
64699464 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
64699484 CGTTATATCC
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 33 0.40
40 48 0.58
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGCTAAGTC
Found at i:64699428 original size:79 final size:81
Alignment explanation
Indices: 64699293--64699476 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 81
64699283 TCAAATGATG
* * * * *
64699293 TCCGGGCTAAGTCCGAAGGC-TTTGTGTTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGCCCGAAGGCATTTGTGTCAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
*
64699357 GTGCGAGTTAATA-AA
66 GTGCGAGTCAATATAA
* ** *
64699372 TCCGGGCTAAGCCCGAAGGCATTTGTG-CAAGTTACTAAACCCGGGTTAAG-TCCCGAAGGGATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGTCAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
64699435 CGTGCGAGTCACTATAA
65 CGTGCGAGTCAATATAA
**
64699452 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
64699477 AGCGAGTCGT
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 65 0.74
80 22 0.25
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGTCAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTCAATATAA
Found at i:64701142 original size:39 final size:39
Alignment explanation
Indices: 64701088--64701248 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
64701078 ATGTGATGAA
64701088 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
64701127 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
64701166 TGTGC-AGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
64701204 TGTGC-AAGTTGTGATATCCGGGTTAAGTCTGAAGGCATT
1 TGTGCGAA-TTGTGATATCCGGGCTAAGCCCGAAGGCAAT
64701243 TGTGCG
1 TGTGCG
64701249 GGTTACCATA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
38 36 0.33
39 74 0.67
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:64701238 original size:77 final size:77
Alignment explanation
Indices: 64701099--64701247 Score: 246
Period size: 77 Copynumber: 1.9 Consensus size: 77
64701089 GTGCGAATTG
64701099 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
64701164 ATTGTGCAGCTA
66 ATTGTGCAGCTA
* * *
64701176 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AAGTTGTGATATCCGGGTTAAGTCTGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAA-TTGTGATATCCGGGCTAAGCCCGAAGGC
*
64701240 ATTTGTGC
65 AATTGTGC
64701248 GGGTTACCAT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 2 0.03
77 65 0.97
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (77 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
ATTGTGCAGCTA
Found at i:64701736 original size:15 final size:15
Alignment explanation
Indices: 64701712--64701759 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
64701702 AGGAAACCGA
64701712 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
64701727 ATAGAGAAAT-CTAG
1 ATAAAGAAATCCAAG
*
64701741 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
64701757 ATA
1 ATA
64701760 CGATACTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:64704771 original size:45 final size:46
Alignment explanation
Indices: 64704707--64704829 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
64704697 AACCCTCCCC
* *
64704707 TAAGTGAACTCAGACTCAACTCAACGAGCTT-G-GCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAG-TTCGAACATTCGCATCCA
* *
64704752 TAAGTGAAATCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCA
64704798 TAAGTGAACTCAGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCG
64704830 GATGCTCAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
44 2 0.03
45 27 0.39
46 41 0.59
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCA
Found at i:64707233 original size:25 final size:25
Alignment explanation
Indices: 64707159--64707236 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
64707149 CTCGGCCCTG
64707159 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
64707184 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
64707206 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
64707231 TCACAT
1 TCACAT
64707237 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:64707282 original size:49 final size:47
Alignment explanation
Indices: 64707108--64707424 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
64707098 CCCTTCGGGA
* * * * * *
64707108 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
64707155 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
64707202 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
64707249 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
64707298 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
64707347 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
64707394 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
64707425 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 18, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
46 2 0.01
47 150 0.62
48 2 0.01
49 87 0.36
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:64707305 original size:96 final size:94
Alignment explanation
Indices: 64707108--64707424 Score: 442
Period size: 96 Copynumber: 3.3 Consensus size: 94
64707098 CCCTTCGGGA
* * * * * * * *
64707108 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
64707173 CTTCACATTCATCACATTGGCTATTCA-GC
66 CTTCACATTCATCACATCGGCCATT-AGGC
64707202 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGCCTTATCAC--ATATATA
*
64707266 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
64707298 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATA
64707362 CACCTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
*
64707394 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
64707425 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
94 57 0.28
95 2 0.01
96 108 0.53
97 2 0.01
98 32 0.16
99 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:64711208 original size:43 final size:43
Alignment explanation
Indices: 64711147--64711625 Score: 832
Period size: 43 Copynumber: 11.1 Consensus size: 43
64711137 CCTTGCTCGA
** * *
64711147 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
64711190 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* *
64711233 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
64711276 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCCAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* *
64711319 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGACCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
64711362 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
64711405 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* * *
64711448 ATCACTGGCACAAAGCCTGCTAGGCTCGAAGGACCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
64711491 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
64711534 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
64711577 ATCACTGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
64711620 ATCACC
1 ATCACC
64711626 AGCATGACTG
Statistics
Matches: 414, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 414 1.00
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:64711799 original size:42 final size:42
Alignment explanation
Indices: 64711608--64711819 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
64711598 AGGCACGAAG
* * * * * * *
64711608 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
64711650 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
64711690 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
64711730 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
64711770 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
64711812 GCCCGGAT
1 GCCCGGAT
64711820 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:64713869 original size:25 final size:25
Alignment explanation
Indices: 64713795--64713872 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
64713785 CTCGGCCCTG
64713795 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
64713820 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
64713842 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
64713867 TCACAT
1 TCACAT
64713873 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:64713918 original size:49 final size:47
Alignment explanation
Indices: 64713744--64714060 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
64713734 CCCTTCGGGA
* * * * * *
64713744 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
64713791 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
64713838 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
64713885 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
64713934 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
64713983 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
64714030 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
64714061 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 18, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
46 2 0.01
47 150 0.62
48 2 0.01
49 87 0.36
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:64713941 original size:96 final size:94
Alignment explanation
Indices: 64713744--64714060 Score: 442
Period size: 96 Copynumber: 3.3 Consensus size: 94
64713734 CCCTTCGGGA
* * * * * * * *
64713744 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
64713809 CTTCACATTCATCACATTGGCTATTCA-GC
66 CTTCACATTCATCACATCGGCCATT-AGGC
64713838 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGCCTTATCAC--ATATATA
*
64713902 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
64713934 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATA
64713998 CACCTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
*
64714030 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
64714061 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
94 57 0.28
95 2 0.01
96 108 0.53
97 2 0.01
98 32 0.16
99 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:64719167 original size:27 final size:28
Alignment explanation
Indices: 64719127--64719238 Score: 137
Period size: 27 Copynumber: 4.2 Consensus size: 28
64719117 AGGAAGTGTC
*
64719127 CTGGTGGCTATGCCACAATTATCT-TAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
64719154 CTGGTGGCTCTGCCACATATT-TCTGT-T
1 CTGGTGGCTCTGCCACA-ATTATCTGTAT
*
64719181 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
* *
64719209 CTGGTGACTCTG-CAC-ATTATCTAT-T
1 CTGGTGGCTCTGCCACAATTATCTGTAT
64719234 CTGGT
1 CTGGT
64719239 AGCCATGCTA
Statistics
Matches: 77, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.08
26 11 0.14
27 44 0.57
28 16 0.21
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.38
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATTATCTGTAT
Found at i:64719225 original size:54 final size:53
Alignment explanation
Indices: 64719127--64719238 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 53
64719117 AGGAAGTGTC
* * *
64719127 CTGGTGGCTATGCCACAATTATCTTATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTTATCTGGTGACTCTGCCACAT-TATCTATT
* *
64719181 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTG-CACATTATCTATT
1 CTGGTGGCTATGCCACAATTATCT-TATCTGGTGACTCTGCCACATTATCTATT
64719234 CTGGT
1 CTGGT
64719239 AGCCATGCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
53 11 0.21
54 27 0.52
55 14 0.27
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTTATCTGGTGACTCTGCCACATTATCTATT
Found at i:64725320 original size:2 final size:2
Alignment explanation
Indices: 64725313--64725345 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
64725303 GAGACTAGTC
64725313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64725346 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64729876 original size:27 final size:28
Alignment explanation
Indices: 64729836--64729947 Score: 137
Period size: 27 Copynumber: 4.2 Consensus size: 28
64729826 AGGAAGTGTC
*
64729836 CTGGTGGCTATGCCACAATTATCT-TAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
64729863 CTGGTGGCTCTGCCACATATT-TCTGT-T
1 CTGGTGGCTCTGCCACA-ATTATCTGTAT
*
64729890 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
* *
64729918 CTGGTGACTCTG-CAC-ATTATCTAT-T
1 CTGGTGGCTCTGCCACAATTATCTGTAT
64729943 CTGGT
1 CTGGT
64729948 AGCCATGCTA
Statistics
Matches: 77, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.08
26 11 0.14
27 44 0.57
28 16 0.21
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.38
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATTATCTGTAT
Found at i:64729934 original size:54 final size:53
Alignment explanation
Indices: 64729836--64729947 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 53
64729826 AGGAAGTGTC
* * *
64729836 CTGGTGGCTATGCCACAATTATCTTATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTTATCTGGTGACTCTGCCACAT-TATCTATT
* *
64729890 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTG-CACATTATCTATT
1 CTGGTGGCTATGCCACAATTATCT-TATCTGGTGACTCTGCCACATTATCTATT
64729943 CTGGT
1 CTGGT
64729948 AGCCATGCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
53 11 0.21
54 27 0.52
55 14 0.27
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTTATCTGGTGACTCTGCCACATTATCTATT
Found at i:64736994 original size:27 final size:26
Alignment explanation
Indices: 64736954--64737056 Score: 91
Period size: 27 Copynumber: 3.8 Consensus size: 26
64736944 AGGAAGCGTC
*
64736954 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATTTGAT
*
64736981 CTGGTGGCTCTGCCACA-TATTTCTAT
1 CTGGTGGCTCTGCCACATTATTT-GAT
* * *
64737007 CCTAGTGGCTCTACCACGATTATCTGTAT
1 -CTGGTGGCTCTGCCAC-ATTATTTG-AT
* *
64737036 CTGGTGACTCTGTCACATTAT
1 CTGGTGGCTCTGCCACATTAT
64737057 CTGTTCTAGC
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
25 5 0.08
26 3 0.05
27 34 0.56
28 13 0.21
29 6 0.10
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATTTGAT
Found at i:64746493 original size:39 final size:39
Alignment explanation
Indices: 64746394--64746584 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
64746384 CGAATGATGC
* * * *
64746394 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTA-AA
* * *
64746434 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
64746473 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
64746512 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
** * *
64746553 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
64746585 CGTTATATCC
Statistics
Matches: 123, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 34 0.28
40 80 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:64746532 original size:79 final size:81
Alignment explanation
Indices: 64746394--64746577 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
64746384 CGAATGATGC
* * *
64746394 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
*
64746458 GTGCGAGTTAATA-AA
66 GTGCGAGTCAATATAA
* **
64746473 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
64746535 TCGTGCGAGTCACTATAA
64 TCGTGCGAGTCAATATAA
**
64746553 CCGGGCTTCGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
64746578 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTCAATATAA
Found at i:64746608 original size:79 final size:79
Alignment explanation
Indices: 64746445--64746610 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
64746435 CGGACTAGGA
* * *
64746445 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
*
64746510 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * ** * **
64746524 CCCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGT
1 TCCGAAGGCATTCGTGCGAGTCAATA-AATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCAC
* *
64746588 TATATCC-GGTTAAAT
64 TAAACCCGGGTTAAAT
64746603 TCCGAAGG
1 TCCGAAGG
64746611 TACGTGATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 45 0.63
80 26 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
AACCCGGGTTAAAT
Found at i:64750981 original size:38 final size:39
Alignment explanation
Indices: 64750937--64751030 Score: 118
Period size: 38 Copynumber: 2.4 Consensus size: 39
64750927 CTAGGATCCG
* *
64750937 AAGGCATTCATGCGAGTTAATAAATCCGGGTAAG-CCCA
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGTAAGTCCCA
* * * * *
64750975 AAGGCATTTGTGCAAGTTACTAAACCCGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGTAAGTCCCA
64751014 AAGGCATTCGTGCGAGT
1 AAGGCATTCGTGCGAGT
64751031 CACTATAACC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 28 0.61
39 18 0.39
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (39 bp):
AAGGCATTCGTGCGAGTTAATAAACCCGGGTAAGTCCCA
Found at i:64752703 original size:27 final size:28
Alignment explanation
Indices: 64752673--64752736 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
64752663 CATTACACGT
* *
64752673 ACTGATACTGTAT-TGGCTTAGGCCCAC
1 ACTGATACTGTATAGGGCTAAGGCCCAC
* *
64752700 ACTGTTACTGTATAGGGCTAAGGCCCAG
1 ACTGATACTGTATAGGGCTAAGGCCCAC
64752728 ACT-ATACTG
1 ACTGATACTG
64752737 ATACTGAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (28 bp):
ACTGATACTGTATAGGGCTAAGGCCCAC
Found at i:64754594 original size:98 final size:100
Alignment explanation
Indices: 64754483--64754723 Score: 266
Period size: 108 Copynumber: 2.4 Consensus size: 100
64754473 GAAGCTATCT
*
64754483 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCAC-CA-A-TAATT-T-GGTACACGTAGTA
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCACGCAGACCAATTATCGGTACAC---GTA
*
64754543 GCCTGCACTTA-TACTACACTCGTGATCACAATTTTCAG
63 G-CTGCACTTAGTACTACACACGTGATCACAATTTTCAG
*
64754581 GTACGCATAGTAGCCTGCACTTAGTACTACACACTTAGTACTGCATGCGACCAATTATCCGGTAC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACA--T-GCAC-GCA---GACCAATTAT-CGGTAC
*
64754646 ACGTAGCTGCACTTAGTACTACACACGTGATCACAATTTTCGG
58 ACGTAGCTGCACTTAGTACTACACACGTGATCACAATTTTCAG
64754689 GTACG--T-GTAGCCCTGCACTTAGTACTACACATGCA
1 GTACGCATAGTAG-CCTGCACTTAGTACTACACATGCA
64754724 ATTACCGTAC
Statistics
Matches: 123, Mismatches: 5, Indels: 25
0.80 0.03 0.16
Matches are distributed among these distances:
98 33 0.27
100 1 0.01
101 3 0.02
103 4 0.03
104 1 0.01
105 4 0.03
106 21 0.17
107 10 0.08
108 38 0.31
109 1 0.01
111 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCACGCAGACCAATTATCGGTACACGTAGCT
GCACTTAGTACTACACACGTGATCACAATTTTCAG
Found at i:64754598 original size:50 final size:48
Alignment explanation
Indices: 64754483--64754612 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 48
64754473 GAAGCTATCT
64754483 GTACGCATAGTAGCCTGCACTTAGTACTACA-CATGCACCAATAATTTG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACCATGCACCAAT-ATTTG
* * *
64754531 GTACACGTAGTAGCCTGCACTTA-TACTACACTCGTG-ATCACAAT-TTTCAG
1 GTACGCATAGTAGCCTGCACTTAGTACTACAC-CATGCA-C-CAATATTT--G
64754581 GTACGCATAGTAGCCTGCACTTAGTACTACAC
1 GTACGCATAGTAGCCTGCACTTAGTACTACAC
64754613 ACTTAGTACT
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
47 7 0.10
48 25 0.36
49 4 0.06
50 26 0.37
51 8 0.11
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (48 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACCATGCACCAATATTTG
Found at i:64754715 original size:49 final size:48
Alignment explanation
Indices: 64754648--64754774 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 48
64754638 TCCGGTACAC
* *
64754648 GTAG-CTGCACTTAGTACTACACACGTGATCACAATTTTCGGGTACGT-
1 GTAGCCTGCACTTAGTACTACACACGTGATCACAATTTAC-CGTACGTA
64754695 GTAGCCCTGCACTTAGTACTACACA--TG----CAA-TTACCGTACGTA
1 GTAG-CCTGCACTTAGTACTACACACGTGATCACAATTTACCGTACGTA
64754737 GTAGCCTGCACTTAGTACTACACACGTGACCTCACAAT
1 GTAGCCTGCACTTAGTACTACACACGTGA--TCACAAT
64754775 AGTTCATTTG
Statistics
Matches: 66, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
41 26 0.39
42 7 0.11
43 5 0.08
47 6 0.09
49 22 0.33
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
GTAGCCTGCACTTAGTACTACACACGTGATCACAATTTACCGTACGTA
Found at i:64757270 original size:15 final size:15
Alignment explanation
Indices: 64757221--64757276 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
64757211 CAAGAAAATC
64757221 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
64757236 -AGATAGAA-AAA-CCTA
1 GA-ATA-AAGAAATCC-A
64757251 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
64757266 GAATAAAGAAA
1 GAATAAAGAAA
64757277 CCCAAGACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.14
15 25 0.71
16 5 0.14
ACGTcount: A:0.62, C:0.11, G:0.14, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:64761205 original size:40 final size:40
Alignment explanation
Indices: 64760919--64761177 Score: 416
Period size: 40 Copynumber: 6.5 Consensus size: 40
64760909 GGGCTAAGTC
*
64760919 CCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGAT
* *
64760959 CCGAAGGCAATTATGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
64760999 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
* *
64761039 CCGAAGGCAATTATGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
*
64761079 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
64761119 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA-TAAG-T
1 CCGAAGGCATTTGTGCGAGTTACTAAATCC-GGACTAAGAT
64761158 CTCGAAGGCATTTGTGCGAG
1 C-CGAAGGCATTTGTGCGAG
64761178 CTGCTATAAC
Statistics
Matches: 205, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 195 0.95
41 8 0.04
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
Found at i:64761211 original size:40 final size:40
Alignment explanation
Indices: 64760908--64761211 Score: 254
Period size: 40 Copynumber: 7.6 Consensus size: 40
64760898 GAATGATGTT
* * *
64760908 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATC
1 CGGGATAAGTCCCGAAGGCATTTGTGC-GAGCTACTAAATC
* * *
64760948 C-GGACTAAGAT-CCGAAGGCAATTATGCGAGTTACTAAATC
1 CGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATC
*
64760988 C-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATC
* * *
64761028 C-GGACTAAGAT-CCGAAGGCAATTATGCGAGTTACTAAATC
1 CGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATC
* *
64761068 C-GGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAATC
1 CGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATC
*
64761108 C-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATC
* *
64761148 CGGGATAAGTCTCGAAGGCATTTGTGCGAGCTGCTATAA-C
1 CGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATC
* * *
64761188 CGGGCTATGTCCCGAAGGTATTTG
1 CGGGATAAGTCCCGAAGGCATTTG
64761212 AATGAGTAGC
Statistics
Matches: 239, Mismatches: 19, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.01
40 225 0.94
41 11 0.05
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (40 bp):
CGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATC
Found at i:64761230 original size:120 final size:120
Alignment explanation
Indices: 64760939--64761218 Score: 383
Period size: 120 Copynumber: 2.3 Consensus size: 120
64760929 TGTGCTAAGT
64760939 TACTAAATCCGGACTAAGATCCGAAGGCAATTATG--CGAGTTACTAAATCCGGACTAAGATCCG
1 TACTAAATCCGGACTAAGATCCGAAGGC-ATT-TGAACGAGTTACTAAATCCGGACTAAGATCCG
*
64761002 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTATGCGAGT
64 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTATGCGAGC
*
64761059 TACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAA
1 TACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAATCCGGACTAAGATCCGAA
* *
64761124 GGCATTTGTGCGAGTTACTAAATCCGGGA-TAAG-TCTCGAAGGCATTTGTGCGAGC
66 GGCATTTGTGCGAGTTACTAAATCC-GGACTAAGATC-CGAAGGCAATTATGCGAGC
* * * * *
64761179 TGCTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAATGAGT
1 TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
64761219 AGCTATATCC
Statistics
Matches: 145, Mismatches: 9, Indels: 12
0.87 0.05 0.07
Matches are distributed among these distances:
118 2 0.01
119 6 0.04
120 132 0.91
121 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (120 bp):
TACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAATCCGGACTAAGATCCGAA
GGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTATGCGAGC
Found at i:64763837 original size:49 final size:48
Alignment explanation
Indices: 64763765--64764205 Score: 431
Period size: 49 Copynumber: 8.9 Consensus size: 48
64763755 CAAAGCTATC
* *
64763765 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATAATT
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT-ATT
* * *
64763814 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT-TT
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATATT
* * * * *
64763863 CGGGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 -TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAA-TATT
* * * * *
64763913 CGGTACACGTAGTAGCCTGGACTTAGTACTACACACGTGATCACAGT-TT
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATATT
* * *
64763962 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 T--GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAA-TATT
* * *
64764013 CGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT-TT
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATATT
*
64764062 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT-TT
1 T--GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATATT
* * *
64764113 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 T--GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAA-TATT
* * *
64764164 CGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
64764206 TCACAATAGT
Statistics
Matches: 328, Mismatches: 47, Indels: 34
0.80 0.11 0.08
Matches are distributed among these distances:
48 2 0.01
49 152 0.46
50 44 0.13
51 130 0.40
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAATATT
Found at i:64764099 original size:151 final size:149
Alignment explanation
Indices: 64763761--64764205 Score: 612
Period size: 151 Copynumber: 3.0 Consensus size: 149
64763751 TAGCCAAAGC
* * * * *
64763761 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGA-C-CAATAATTT--GGTACAC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT--TTTCGGGTACGC
* * * * * * *
64763822 GTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT-TCGGGTACGCATTGTAGCCTGCAC
64 ATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTACACATAGTAGCCTGCAC
* *
64763886 TTAGTACTACACATGCGACCAAT
127 TTAGTACTACACACGTGACCAAT
* * *
64763909 TATCCGGTACACGTAGTAGCCTGGACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCAT
64763974 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAG
66 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAG
*
64764039 TACTACACACGTGATCACAGT
131 TACTACACACGTGA-C-CAAT
* *
64764060 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCAT
*
64764125 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAG
66 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAG
64764190 TACTACACACGTGACC
131 TACTACACACGTGACC
64764206 TCACAATAGT
Statistics
Matches: 266, Mismatches: 24, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
148 45 0.17
149 40 0.15
150 40 0.15
151 141 0.53
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (149 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCAT
AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAG
TACTACACACGTGACCAAT
Found at i:64764203 original size:100 final size:100
Alignment explanation
Indices: 64763766--64764198 Score: 638
Period size: 100 Copynumber: 4.3 Consensus size: 100
64763756 AAAGCTATCT
* * ** *
64763766 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATAATTTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCC
64763831 TGCACTTAGTACTACACACGTGATCACAG-TTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
64763865 GGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCC
*
64763930 TGGACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
64763965 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCC
64764030 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * * * * *
64764065 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTACACATAGTAG
* * * * *
64764130 CCTGCACTTAGTACTACACATGCGA-C-CAATTATCC
64 CCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
64764165 GGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
64764199 CGTGACCTCA
Statistics
Matches: 309, Mismatches: 22, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
99 88 0.28
100 177 0.57
101 2 0.01
102 42 0.14
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:64767249 original size:13 final size:13
Alignment explanation
Indices: 64767231--64767257 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64767221 GCTTGGCAGG
64767231 GACACGCCCGTGT
1 GACACGCCCGTGT
64767244 GACACGCCCGTGT
1 GACACGCCCGTGT
64767257 G
1 G
64767258 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:64776663 original size:56 final size:56
Alignment explanation
Indices: 64776597--64776706 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
64776587 CCATGGCATC
* *
64776597 GATATATGTGTGTGAGTAAGACCACATTTAATACATTGGCATTGATATGTGATTCA
1 GATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCA
* *
64776653 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
1 GATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATT
64776707 ACATGTAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.35
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCA
Found at i:64778935 original size:41 final size:41
Alignment explanation
Indices: 64778862--64778975 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 41
64778852 GAATATCTCG
* * * * *
64778862 CACATTAAGTGCCAAAGCATAGCCGAAACTATTATAATATCA
1 CACACTAAGTG-CAAAACATAGCGGAAGCTATTATAACATCA
* * *
64778904 CCCACTAAGTGCAAAACATAGCGGAAGCTATTATAACCTCG
1 CACACTAAGTGCAAAACATAGCGGAAGCTATTATAACATCA
**
64778945 CACACTAAGTGCATTACATAGCTGG-AGCTAT
1 CACACTAAGTGCAAAACATAGC-GGAAGCTAT
64778976 CTCGATCTGG
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 49 0.82
42 11 0.18
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.23
Consensus pattern (41 bp):
CACACTAAGTGCAAAACATAGCGGAAGCTATTATAACATCA
Found at i:64781734 original size:6 final size:6
Alignment explanation
Indices: 64781704--64781797 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
64781694 AAGAAACATT
* * *
64781704 ATCAGA A-CTAGA ATCAAA ATTAGA ATCAGA ATTAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
64781752 ATTAGGTA AT-AGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA AT
64781798 GTGAATGTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
5 6 0.08
6 55 0.77
7 6 0.08
8 4 0.06
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:64781767 original size:25 final size:25
Alignment explanation
Indices: 64781712--64781797 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 25
64781702 TTATCAGAAC
* *
64781712 TAGAATCAAAATTAGAATCA-G-AA
1 TAGAATCAGAATCAGAATCAGGTAA
*
64781735 TTAGAATCAGAATCAGAATTAGGTAA
1 -TAGAATCAGAATCAGAATCAGGTAA
*
64781761 TAGAATCAGAATCAGTATCAGGTAA
1 TAGAATCAGAATCAGAATCAGGTAA
*
64781786 CAGAATCAGAAT
1 TAGAATCAGAAT
64781798 GTGAATGTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
24 17 0.31
25 35 0.65
26 2 0.04
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.23
Consensus pattern (25 bp):
TAGAATCAGAATCAGAATCAGGTAA
Found at i:64781985 original size:2 final size:2
Alignment explanation
Indices: 64781978--64782017 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
64781968 ACCAGAACAG
64781978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64782018 GTGGCGAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64782366 original size:27 final size:27
Alignment explanation
Indices: 64782336--64782800 Score: 527
Period size: 27 Copynumber: 17.2 Consensus size: 27
64782326 AACACCCTAG
** * * *
64782336 GGGTAAAATGGTAATTTTATAAATCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
64782363 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
64782390 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * * * *
64782417 GAGTAAAATAATAATTTTGAAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
64782444 GGGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
64782471 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
64782498 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
** *
64782525 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
64782552 GGGTAAAACAATAATTCTATAAATCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
64782579 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
64782606 GGGTAAAAC-GTTAATTTTATAAATCGA
1 GGGTAAAACAG-TAATTCTGTAAATCGA
* *
64782633 GGGTAAAACAATAACTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
64782660 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
64782687 GGGTAAAACAATAATTCTGTATATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
64782714 GGGTAAAACAGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
**
64782741 GGGTAAAACAGTAATTCTGTAAATTTA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
64782768 GGGTAAAACAATAATTTTTGTAATTCGA
1 GGGTAAAACAGTAA-TTCTGTAAATCGA
64782796 GGGTA
1 GGGTA
64782801 CTTTGATAAT
Statistics
Matches: 372, Mismatches: 63, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 357 0.96
28 14 0.04
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTGTAAATCGA
Found at i:64782394 original size:54 final size:54
Alignment explanation
Indices: 64782336--64782800 Score: 581
Period size: 54 Copynumber: 8.6 Consensus size: 54
64782326 AACACCCTAG
** * * *
64782336 GGGTAAAATGGTAATTTTATAAATCAAGGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * * * *
64782390 GGGTAAAACAGTAATTTTGTAAATCGAGAGTAAAATAATAATTTTGAAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * * *
64782444 GGGTAAAATAGTAATTCTATCAATCGAGGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* ** *
64782498 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * * * *
64782552 GGGTAAAACAATAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* *
64782606 GGGTAAAAC-GTTAATTTTATAAATCGAGGGTAAAACAATAACTCTGTAAATCGA
1 GGGTAAAACAG-TAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * *
64782660 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTATATCGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
**
64782714 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATTTA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * *
64782768 GGGTAAAACAATAATTTTTGTAATTCGAGGGTA
1 GGGTAAAACAGTAA-TTTTATAAATCGAGGGTA
64782801 CTTTGATAAT
Statistics
Matches: 352, Mismatches: 56, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
54 335 0.95
55 17 0.05
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (54 bp):
GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
Found at i:64782865 original size:54 final size:53
Alignment explanation
Indices: 64782793--64782946 Score: 159
Period size: 54 Copynumber: 2.9 Consensus size: 53
64782783 TTTTGTAATT
* ** *
64782793 CGAGGGTACTTT-GATAATTTTACATGTCGAGAGTATTTTAGTAATTTTACAAAC
1 CGAGGGTA-TTTCGGTAATTTTACAAATCGAG-GTATTTCAGTAATTTTACAAAC
* ** *
64782847 TGAGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTATTTCGGTAATTTTACAAATCGAGG-TATTTCAGTAATTTTACAAAC
* * *
64782901 CGGGGGTACTTCGGTAATTTTACAACT-GAGGGTATTTCAGTAATTT
1 CGAGGGTATTTCGGTAATTTTACAAATCGA-GGTATTTCAGTAATTT
64782947 GGTAAACTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
53 18 0.21
54 66 0.79
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (53 bp):
CGAGGGTATTTCGGTAATTTTACAAATCGAGGTATTTCAGTAATTTTACAAAC
Found at i:64782916 original size:27 final size:27
Alignment explanation
Indices: 64782793--64782946 Score: 141
Period size: 27 Copynumber: 5.7 Consensus size: 27
64782783 TTTTGTAATT
* ***
64782793 CGAGGGTACTTT-GATAATTTTACATGT
1 CGAGGGTA-TTTCGGTAATTTTACAAAC
* **
64782820 CGAGAGTATTTTAGTAATTTTACAAAC
1 CGAGGGTATTTCGGTAATTTTACAAAC
* *
64782847 TGAGGGTATTTCGGTAATTTTACAAAT
1 CGAGGGTATTTCGGTAATTTTACAAAC
* * *
64782874 CGAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTATTTCGGTAATTTTACAAAC
* *
64782901 CGGGGGTACTTCGGTAATTTTAC-AAC
1 CGAGGGTATTTCGGTAATTTTACAAAC
* *
64782927 TGAGGGTATTTCAGTAATTT
1 CGAGGGTATTTCGGTAATTT
64782947 GGTAAACTAA
Statistics
Matches: 101, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
26 22 0.22
27 79 0.78
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (27 bp):
CGAGGGTATTTCGGTAATTTTACAAAC
Found at i:64783770 original size:15 final size:15
Alignment explanation
Indices: 64783750--64783788 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
64783740 CCCATGCTCA
64783750 AGGCCCAAAACTTCT
1 AGGCCCAAAACTTCT
64783765 AGGCCCAAAACTTCT
1 AGGCCCAAAACTTCT
64783780 AGGCCCAAA
1 AGGCCCAAA
64783789 TTCAGGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.33, G:0.15, T:0.15
Consensus pattern (15 bp):
AGGCCCAAAACTTCT
Found at i:64784906 original size:18 final size:17
Alignment explanation
Indices: 64784878--64784911 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
64784868 GGCCTTAGCC
64784878 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
64784895 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
64784912 TAAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:64784911 original size:6 final size:6
Alignment explanation
Indices: 64784899--64784998 Score: 78
Period size: 6 Copynumber: 16.3 Consensus size: 6
64784889 AAGAAACATT
* * * * * *
64784899 ATCAGA ATTAGA ATAAAA ATGAGA ATCAGA ATCAGA ATTAGA ATCAAA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
64784947 ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
64784997 AT
1 AT
64784999 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
5 4 0.05
6 63 0.85
7 4 0.05
8 3 0.04
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:64784995 original size:25 final size:25
Alignment explanation
Indices: 64784931--64784998 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
64784921 GAATCAGAAT
* * *
64784931 CAGAATTAGAATCAAAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
64784956 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
64784981 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
64784999 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:64785165 original size:27 final size:26
Alignment explanation
Indices: 64785117--64785176 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
64785107 GCGAGGCTGC
* *
64785117 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
64785144 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
64785170 CAGATAT
1 CAGATAT
64785177 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:64785191 original size:2 final size:2
Alignment explanation
Indices: 64785186--64785217 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
64785176 TATATATATA
64785186 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
64785218 GCGAAGCCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:64785573 original size:27 final size:27
Alignment explanation
Indices: 64785543--64785995 Score: 522
Period size: 27 Copynumber: 16.8 Consensus size: 27
64785533 AGGGTAAATG
* *
64785543 GTAATTTTATAAATCGA-GGTAAAAACA
1 GTAATTCTGTAAATCGAGGGT-AAAACA
**
64785570 GTAATTCTGTAAATTAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
64785597 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
64785624 GTAATTTTGTCAATAGAGGGT-AAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
64785650 GTAATTCTATAAATCGTGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* **
64785677 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACA
64785704 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
64785731 ATAATTCTATAAATCGAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
64785757 GATAATTTTGTAAATCGAGGGTAAAAC-
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* *
64785784 GTTAATTTTATAAATCGAGGGTAAAACA
1 G-TAATTCTGTAAATCGAGGGTAAAACA
64785812 GTAATTCTGTAAA-CTGAGGGTAAAACA
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
64785839 GTAACTCTGTAAATGGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
64785866 ATAATTCTATAAATCGAGGGT-AAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * **
64785892 GTAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
64785919 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
64785946 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
64785973 ATAATTTTTGTAATTCGAGGGTA
1 GTAA-TTCTGTAAATCGAGGGTA
64785996 CTTTGATAAT
Statistics
Matches: 364, Mismatches: 54, Indels: 15
0.84 0.12 0.03
Matches are distributed among these distances:
26 42 0.12
27 302 0.83
28 20 0.05
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:64785952 original size:134 final size:134
Alignment explanation
Indices: 64785543--64785995 Score: 601
Period size: 134 Copynumber: 3.4 Consensus size: 134
64785533 AGGGTAAATG
* * ** * *
64785543 GTAATTTTATAAATCGA-GGTAAAAACAGTAATTCTGTAAATTAAGGGTAAAACAGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGT-AAAACAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTAT
** * * *
64785607 AAATCGAGGGTAAAATAGTAATTTTGTCAAT-AGAGGGTAAACA-GTAATTCTATAAATCGTGGG
65 AAATCGAGGGTAAAACGGTAATTTTGTAAATCA-AGGGTAAA-AGGTAATTTTATAAATCGAGGG
*
64785670 TAAAATA
128 TAAAACA
* **
64785677 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTATA
* * *
64785742 AATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGTTAATTTTATAAATCGAGGGTA
66 AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAA-GGTAATTTTATAAATCGAGGGTA
64785807 AAACA
130 AAACA
* *
64785812 GTAATTCTGTAAA-CTGAGGGTAAAACAGTAACTCTGTAAATGGAGGGTAAAACAATAATTCTAT
1 GTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTAT
64785876 AAATCGAGGGT-AAACGGTAATTTTGTAAATCAAGGGTAAAATGGTAATTTTATAAATCGAGGGT
65 AAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAA-GGTAATTTTATAAATCGAGGGT
64785940 AAAACA
129 AAAACA
* * *
64785946 GTAATTCTGTAAATCGAGGGTAAAACAATAATTTTTGTAATTCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAA-TTCTGTAAATCGAGGGTA
64785996 CTTTGATAAT
Statistics
Matches: 282, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
133 1 0.00
134 172 0.61
135 109 0.39
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (134 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTATA
AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAAGGTAATTTTATAAATCGAGGGTAA
AACA
Found at i:64786046 original size:27 final size:27
Alignment explanation
Indices: 64786016--64786141 Score: 155
Period size: 27 Copynumber: 4.7 Consensus size: 27
64786006 TTTACATGTC
*
64786016 GAGGGTATTTTAGTAATTTTTCAAACT
1 GAGGGTATTTTAGTAATTTTACAAACT
* *
64786043 GAGGGTATTTCAGTAATTTTACAAATT
1 GAGGGTATTTTAGTAATTTTACAAACT
* ** *
64786070 GAGGATATTTGGGTAATTTTATAAACT
1 GAGGGTATTTTAGTAATTTTACAAACT
* *
64786097 GGGGGTATTTTGGTAATTTTAC-AACT
1 GAGGGTATTTTAGTAATTTTACAAACT
*
64786123 GGGGGTATTTTAGTAATTT
1 GAGGGTATTTTAGTAATTT
64786142 GGTAAACTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.26
27 64 0.74
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.43
Consensus pattern (27 bp):
GAGGGTATTTTAGTAATTTTACAAACT
Found at i:64786065 original size:54 final size:53
Alignment explanation
Indices: 64785989--64786141 Score: 157
Period size: 54 Copynumber: 2.8 Consensus size: 53
64785979 TTTGTAATTC
* **
64785989 GAGGGTACTTTGA-TAATTTTACATGTCGAGGGTATTTTAGTAATTTT-TCAAACT
1 GAGGGTA-TTTCAGTAATTTTACAAAT-GAGGGTATTTTAGTAATTTTAT-AAACT
* **
64786043 GAGGGTATTTCAGTAATTTTACAAATTGAGGATATTTGGGTAATTTTATAAACT
1 GAGGGTATTTCAGTAATTTTACAAA-TGAGGGTATTTTAGTAATTTTATAAACT
* ** * *
64786097 GGGGGTATTTTGGTAATTTTACAACTGGGGGTATTTTAGTAATTT
1 GAGGGTATTTCAGTAATTTTACAAATGAGGGTATTTTAGTAATTT
64786142 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
53 20 0.24
54 60 0.73
55 2 0.02
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (53 bp):
GAGGGTATTTCAGTAATTTTACAAATGAGGGTATTTTAGTAATTTTATAAACT
Found at i:64786129 original size:26 final size:26
Alignment explanation
Indices: 64785989--64786141 Score: 137
Period size: 27 Copynumber: 5.7 Consensus size: 26
64785979 TTTGTAATTC
* **
64785989 GAGGGTACTTT-GATAATTTTACATGT
1 GAGGGTATTTTAG-TAATTTTACAACT
*
64786015 CGAGGGTATTTTAGTAATTTTTCAAACT
1 -GAGGGTATTTTAGTAATTTTAC-AACT
* *
64786043 GAGGGTATTTCAGTAATTTTACAAATT
1 GAGGGTATTTTAGTAATTTTAC-AACT
* ** *
64786070 GAGGATATTTGGGTAATTTTATAAACT
1 GAGGGTATTTTAGTAATTTTA-CAACT
* *
64786097 GGGGGTATTTTGGTAATTTTACAACT
1 GAGGGTATTTTAGTAATTTTACAACT
*
64786123 GGGGGTATTTTAGTAATTT
1 GAGGGTATTTTAGTAATTT
64786142 GGTAAACTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.21
27 81 0.76
28 3 0.03
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (26 bp):
GAGGGTATTTTAGTAATTTTACAACT
Found at i:64801740 original size:42 final size:42
Alignment explanation
Indices: 64801693--64801799 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
64801683 TATTGGTCTC
64801693 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
64801735 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
64801777 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
64801800 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:64801864 original size:27 final size:28
Alignment explanation
Indices: 64801807--64801876 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
64801797 AAAATTGTAC
**
64801807 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
64801835 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
64801862 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64801877 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Done.