Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 235 of 322
Found at i:78264410 original size:35 final size:35
Alignment explanation
Indices: 78264364--78264433 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
78264354 TCACTGAAAT
78264364 GACAAATAATCTGAATGAGTACAAGATGAAGCTAA
1 GACAAATAATCTGAATGAGTACAAGATGAAGCTAA
78264399 GACAAATAATCTGAATGAGTACAAGATGAAGCTAA
1 GACAAATAATCTGAATGAGTACAAGATGAAGCTAA
78264434 CTCAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (35 bp):
GACAAATAATCTGAATGAGTACAAGATGAAGCTAA
Found at i:78268888 original size:3 final size:3
Alignment explanation
Indices: 78268880--78268987 Score: 207
Period size: 3 Copynumber: 36.0 Consensus size: 3
78268870 ACACAAAGCA
78268880 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
78268928 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
78268976 AAT AAC AAT AAT
1 AAT AAT AAT AAT
78268988 TTGTGATATT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 103 1.00
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:78272648 original size:27 final size:27
Alignment explanation
Indices: 78272610--78272661 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
78272600 TAGAACATAT
78272610 TACAAACATTTCATTCTTTTTTTTTTC
1 TACAAACATTTCATTCTTTTTTTTTTC
78272637 TACAAACATTTCATTCTTTTTTTTT
1 TACAAACATTTCATTCTTTTTTTTT
78272662 CCCCATAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (27 bp):
TACAAACATTTCATTCTTTTTTTTTTC
Found at i:78275567 original size:22 final size:22
Alignment explanation
Indices: 78275542--78275585 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
78275532 AATTATTAAC
78275542 ATAATTAAATTTAATTAATTTT
1 ATAATTAAATTTAATTAATTTT
* *
78275564 ATAATTAATTTTGATTAATTTT
1 ATAATTAAATTTAATTAATTTT
78275586 GATTATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATAATTAAATTTAATTAATTTT
Found at i:78277856 original size:39 final size:39
Alignment explanation
Indices: 78277802--78277878 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
78277792 ATGCAGAACA
*
78277802 CATATTAATGATGTTCAAACTATGATATAATTAAAGACT
1 CATATTAATGATGTTCAAACTATGACATAATTAAAGACT
*
78277841 CATATTAATGATGTTCAAACTATGACATTATTAAAGAC
1 CATATTAATGATGTTCAAACTATGACATAATTAAAGAC
78277879 ACAAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (39 bp):
CATATTAATGATGTTCAAACTATGACATAATTAAAGACT
Found at i:78278553 original size:25 final size:25
Alignment explanation
Indices: 78278525--78278575 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
78278515 ATTTTATAAG
78278525 TATGTATGTGCATTAACACATTTGC
1 TATGTATGTGCATTAACACATTTGC
78278550 TATGTATGTGCATTAACACATTTGC
1 TATGTATGTGCATTAACACATTTGC
78278575 T
1 T
78278576 TATTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (25 bp):
TATGTATGTGCATTAACACATTTGC
Found at i:78279792 original size:82 final size:81
Alignment explanation
Indices: 78279678--78279842 Score: 294
Period size: 82 Copynumber: 2.0 Consensus size: 81
78279668 ACCTCCTAGC
*
78279678 AAGAATGCTAATTGAGGAATGAGATCATTGCTTTCCAACAAATGGATGATGAGTCCTTATATGAG
1 AAGAATGCTAATTGAGGAATGAGATCACTGCTTTCCAACAAATGGATGATGAGTCCTTATATGAG
78279743 GCATGGGAAAGGTACA
66 GCATGGGAAAGGTACA
* *
78279759 AAGAATGCTAAGTTGAGGAATGAGATTACTGCTTTCCAACAAATGGATGATGAGTCCTTGTATGA
1 AAGAATGCTAA-TTGAGGAATGAGATCACTGCTTTCCAACAAATGGATGATGAGTCCTTATATGA
78279824 GGCATGGGAAAGGTACA
65 GGCATGGGAAAGGTACA
78279841 AA
1 AA
78279843 TAACTATTAC
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 11 0.14
82 69 0.86
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (81 bp):
AAGAATGCTAATTGAGGAATGAGATCACTGCTTTCCAACAAATGGATGATGAGTCCTTATATGAG
GCATGGGAAAGGTACA
Found at i:78283212 original size:41 final size:41
Alignment explanation
Indices: 78283161--78283242 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
78283151 TCTAGCTAGC
*
78283161 CCGTATCTTAAATTTTGAAACTGTTAAAGATTTATCATGTT
1 CCGTACCTTAAATTTTGAAACTGTTAAAGATTTATCATGTT
78283202 CCGTACCTTAAATTTTGAAACTGTTAAAGATTTATCATGTT
1 CCGTACCTTAAATTTTGAAACTGTTAAAGATTTATCATGTT
78283243 GACATTATTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (41 bp):
CCGTACCTTAAATTTTGAAACTGTTAAAGATTTATCATGTT
Found at i:78285915 original size:31 final size:31
Alignment explanation
Indices: 78285880--78285943 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
78285870 CCTTTTCATA
* *
78285880 TTTCATGTTTCATAACACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
78285911 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
78285942 TT
1 TT
78285944 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:78286243 original size:25 final size:25
Alignment explanation
Indices: 78286162--78286305 Score: 222
Period size: 25 Copynumber: 5.9 Consensus size: 25
78286152 GCCTCTTTTA
*
78286162 ATAACTGGGGCA-AAGCCCTTT-TA
1 ATAACTGGGGCATAAGCCCTTTATC
*
78286185 ATAACTGGGGCATAAGCCCTTT-TA
1 ATAACTGGGGCATAAGCCCTTTATC
78286209 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTATC
* *
78286234 ATAATTGGGGAATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTATC
78286259 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTATC
*
78286284 ATAACTAGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
78286306 TACACTTCCT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
23 12 0.11
24 33 0.29
25 68 0.60
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
ATAACTGGGGCATAAGCCCTTTATC
Found at i:78286381 original size:20 final size:20
Alignment explanation
Indices: 78286356--78286422 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
78286346 TTATGAATAC
78286356 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
78286376 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78286396 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78286416 ACCATGT
1 ATCATGT
78286423 TTATCAAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78286387 original size:11 final size:11
Alignment explanation
Indices: 78286356--78286411 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
78286346 TTATGAATAC
78286356 ATCATGTGCAT
1 ATCATGTGCAT
*
78286367 ATCA--TACAT
1 ATCATGTGCAT
78286376 ATCATGTGCAT
1 ATCATGTGCAT
*
78286387 ATCA--TACAT
1 ATCATGTGCAT
*
78286396 GTCATGTGCAT
1 ATCATGTGCAT
78286407 ATCAT
1 ATCAT
78286412 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:78292545 original size:79 final size:82
Alignment explanation
Indices: 78292434--78292618 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
78292424 GCTACTCGTT
* *
78292434 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
78292497 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
**
78292514 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
78292577 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
78292594 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78292619 CATCATTCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:78292618 original size:40 final size:40
Alignment explanation
Indices: 78292415--78292618 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
78292405 CGGAATTTAA
** *
78292415 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78292455 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
78292495 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
78292534 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
78292574 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
78292614 CCGGA
1 CCGGA
78292619 CATCATTCGA
Statistics
Matches: 143, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 95 0.66
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:78295361 original size:40 final size:40
Alignment explanation
Indices: 78295316--78296436 Score: 1974
Period size: 40 Copynumber: 28.1 Consensus size: 40
78295306 CGAATACACG
* * * * * *
78295316 TCACCAGCATGATTGCTCTTTGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
* * * * * *
78295356 ACACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
* * * * ** * *
78295396 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
* * *
78295436 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295476 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295516 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295556 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295596 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295636 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295676 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295716 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295756 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295796 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295836 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295876 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295916 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295956 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78295996 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78296036 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78296076 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78296116 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78296156 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78296196 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78296236 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78296276 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78296316 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
* * *
78296356 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATAAA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
* * *
78296396 TCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
78296435 TC
1 TC
78296437 GTCGAGACCT
Statistics
Matches: 1056, Mismatches: 25, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
39 3 0.00
40 1053 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTATTCGGGACTTAGCCCGGATACA
Found at i:78296562 original size:38 final size:38
Alignment explanation
Indices: 78296473--78296564 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 38
78296463 CTCCACACAA
* *
78296473 AGCCAGCGAAT-TTTAATCCGGACATAATCTCTGTACAT
1 AGCCAGCGAGTCTTT-ACCCGGACATAATCTCTGTACAT
* * *
78296511 AGCCATCGGGTCTTTACCCGGACATAATCTCT-TCATAT
1 AGCCAGCGAGTCTTTACCCGGACATAATCTCTGT-ACAT
*
78296549 AGTCAGCGAGTCTTTA
1 AGCCAGCGAGTCTTTA
78296565 AACTCGGATT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
37 1 0.02
38 40 0.91
39 3 0.07
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (38 bp):
AGCCAGCGAGTCTTTACCCGGACATAATCTCTGTACAT
Found at i:78305548 original size:31 final size:31
Alignment explanation
Indices: 78305513--78305576 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
78305503 CATTTTCATA
*
78305513 TTTCATGTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
78305544 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
78305575 TT
1 TT
78305577 ATTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:78305847 original size:48 final size:49
Alignment explanation
Indices: 78305770--78305892 Score: 153
Period size: 48 Copynumber: 2.5 Consensus size: 49
78305760 GCTTTATCAT
* *
78305770 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AATCCCTTTTA-
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAC
*
78305818 ATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCCCTTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TAATAACTGGGGCATAAGCCCTTTTA-C
*
78305869 ATAACTGGGGCATAAACCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
78305893 CACTTCCTCC
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
47 8 0.12
48 25 0.38
49 10 0.15
50 1 0.02
51 21 0.32
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (49 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAC
Found at i:78305873 original size:26 final size:24
Alignment explanation
Indices: 78305770--78305892 Score: 151
Period size: 25 Copynumber: 5.0 Consensus size: 24
78305760 GCTTTATCAT
*
78305770 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
78305795 ATAACTGGGGCA-AATCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
78305818 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
78305843 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
78305867 TCATAACTGGGGCATAAACCCTTTTA
1 --ATAACTGGGGCATAAGCCCTTTTA
78305893 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 18 0.21
24 15 0.17
25 31 0.36
26 23 0.26
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:78305966 original size:20 final size:20
Alignment explanation
Indices: 78305941--78306007 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
78305931 TTATGAATAC
78305941 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
78305961 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78305981 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78306001 ACCATGT
1 ATCATGT
78306008 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78305972 original size:11 final size:11
Alignment explanation
Indices: 78305941--78305996 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
78305931 TTATGAATAC
78305941 ATCATGTGCAT
1 ATCATGTGCAT
*
78305952 ATCA--TACAT
1 ATCATGTGCAT
78305961 ATCATGTGCAT
1 ATCATGTGCAT
*
78305972 ATCA--TACAT
1 ATCATGTGCAT
*
78305981 GTCATGTGCAT
1 ATCATGTGCAT
78305992 ATCAT
1 ATCAT
78305997 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:78311293 original size:29 final size:28
Alignment explanation
Indices: 78311257--78311334 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
78311247 TCATGAGATT
78311257 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
78311287 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
78311314 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
78311335 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:78311552 original size:174 final size:174
Alignment explanation
Indices: 78311287--78311614 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
78311277 AAATTGTACA
*
78311287 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGCTTGATTATTAAGCACTATG
* *
78311352 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
78311417 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
78311461 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGCTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGCTTGATTATTAAGCACTATG
78311526 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
78311591 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
78311615 ACCTTGAGTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGCTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:78313564 original size:32 final size:32
Alignment explanation
Indices: 78313520--78313582 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
78313510 TATAATATAA
78313520 ATATGTAAGTGATTGTTATCCTTTGATTTATT
1 ATATGTAAGTGATTGTTATCCTTTGATTTATT
* *
78313552 ATATGTATGTGATTGTTATTCTTTGATTTAT
1 ATATGTAAGTGATTGTTATCCTTTGATTTAT
78313583 GAATATATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.56
Consensus pattern (32 bp):
ATATGTAAGTGATTGTTATCCTTTGATTTATT
Found at i:78315092 original size:49 final size:49
Alignment explanation
Indices: 78315033--78315949 Score: 1744
Period size: 49 Copynumber: 18.5 Consensus size: 49
78315023 TGAATACATG
78315033 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315082 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315131 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
*
78315180 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTCAGATGGTGAGGTCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGT----TGGT--CG-CA
78315236 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315287 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315336 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315385 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315434 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315483 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315532 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315581 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315630 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315679 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315728 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315777 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315826 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315875 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
78315924 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
78315950 TGCGTATCAG
Statistics
Matches: 857, Mismatches: 2, Indels: 18
0.98 0.00 0.02
Matches are distributed among these distances:
49 802 0.94
51 2 0.00
52 1 0.00
53 4 0.00
54 4 0.00
55 1 0.00
56 2 0.00
58 41 0.05
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATTGTTGGTCGCA
Found at i:78316079 original size:27 final size:26
Alignment explanation
Indices: 78316049--78316100 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
78316039 GGGAAAATCG
78316049 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
78316076 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
78316101 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:78323393 original size:99 final size:99
Alignment explanation
Indices: 78323222--78324150 Score: 1840
Period size: 99 Copynumber: 9.4 Consensus size: 99
78323212 TGAATACACG
78323222 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
78323287 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
66 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
78323321 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
78323386 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
66 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
78323420 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
78323485 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
66 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
78323519 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
78323584 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
66 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
78323618 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
78323683 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
66 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
78323717 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
78323782 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
66 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
78323816 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
78323881 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
66 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
78323915 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
78323980 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
66 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
78324014 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
78324079 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
66 GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
* *
78324113 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
78324151 AGCTGCGGCT
Statistics
Matches: 828, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 828 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
GTAGGCTACTACGTGTACCGGATTGTTGGTCGCA
Found at i:78324269 original size:27 final size:26
Alignment explanation
Indices: 78324239--78324290 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
78324229 GGGAAAATCG
78324239 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
78324266 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
78324291 GTTTATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:78327261 original size:25 final size:24
Alignment explanation
Indices: 78327192--78327275 Score: 73
Period size: 23 Copynumber: 3.5 Consensus size: 24
78327182 TTAGCTCGTA
* *
78327192 AGAGCTTATTGTTTTCAGCTC-AT
1 AGAGCTTACTGTTATCAGCTCAAT
**
78327215 CAGAGCTTACCATT-TCAGCTCAAT
1 -AGAGCTTACTGTTATCAGCTCAAT
* *
78327239 AGAGCTTATTGTTCATCAGCTCAAG
1 AGAGCTTACTGTT-ATCAGCTCAAT
78327264 AGGAGCTTACTG
1 A-GAGCTTACTG
78327276 ATCATAGCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 17 0.35
24 12 0.25
25 10 0.21
26 9 0.19
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (24 bp):
AGAGCTTACTGTTATCAGCTCAAT
Found at i:78327284 original size:25 final size:25
Alignment explanation
Indices: 78327229--78327285 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
78327219 GCTTACCATT
* * *
78327229 TCAGCTCAATAGAGCTTATTGTTCA
1 TCAGCTCAAGAGAGCTTACTGATCA
78327254 TCAGCTCAAGAGGAGCTTACTGATCA
1 TCAGCTCAAGA-GAGCTTACTGATCA
78327280 T-AGCTC
1 TCAGCTC
78327286 GGAATAGCGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (25 bp):
TCAGCTCAAGAGAGCTTACTGATCA
Found at i:78328683 original size:20 final size:20
Alignment explanation
Indices: 78328655--78328694 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
78328645 TGCTCTAGGG
* *
78328655 CATCGGATAATGAGACATGA
1 CATCAGATAACGAGACATGA
*
78328675 CATCAGATAACGATACATGA
1 CATCAGATAACGAGACATGA
78328695 AACTCCCACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (20 bp):
CATCAGATAACGAGACATGA
Found at i:78331039 original size:22 final size:19
Alignment explanation
Indices: 78331014--78331055 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
78331004 TGATAATCAT
78331014 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
78331036 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
78331055 T
1 T
78331056 CAATTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:78331717 original size:25 final size:25
Alignment explanation
Indices: 78331689--78331737 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
78331679 TTTTCTCCTA
*
78331689 AAATTTT-AATTTTATTTAATTATTT
1 AAATTTTCAA-TTTATTGAATTATTT
78331714 AAATTTTCAATTTATTGAATTATT
1 AAATTTTCAATTTATTGAATTATT
78331738 AATAGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
AAATTTTCAATTTATTGAATTATTT
Found at i:78341564 original size:31 final size:31
Alignment explanation
Indices: 78341526--78341649 Score: 248
Period size: 31 Copynumber: 4.0 Consensus size: 31
78341516 AAAAAAAGTT
78341526 AAGAATGATGTTAATTTTTTTCGTATTTAAG
1 AAGAATGATGTTAATTTTTTTCGTATTTAAG
78341557 AAGAATGATGTTAATTTTTTTCGTATTTAAG
1 AAGAATGATGTTAATTTTTTTCGTATTTAAG
78341588 AAGAATGATGTTAATTTTTTTCGTATTTAAG
1 AAGAATGATGTTAATTTTTTTCGTATTTAAG
78341619 AAGAATGATGTTAATTTTTTTCGTATTTAAG
1 AAGAATGATGTTAATTTTTTTCGTATTTAAG
78341650 TATGAATTTA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 93 1.00
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.48
Consensus pattern (31 bp):
AAGAATGATGTTAATTTTTTTCGTATTTAAG
Found at i:78350566 original size:21 final size:20
Alignment explanation
Indices: 78350532--78350571 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
78350522 GTTATAAAGA
*
78350532 CCACACGAGTGTGTCACCCTT
1 CCACACGAGCGTGT-ACCCTT
*
78350553 CCACACGGGCGTGTACCCT
1 CCACACGAGCGTGTACCCT
78350572 GTTTTCAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (20 bp):
CCACACGAGCGTGTACCCTT
Found at i:78352738 original size:40 final size:40
Alignment explanation
Indices: 78352628--78352738 Score: 204
Period size: 40 Copynumber: 2.8 Consensus size: 40
78352618 GCAAACACAT
*
78352628 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
78352668 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
*
78352708 TTGCCTTCGGGTCTTAGCCCGGATATATCAT
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAT
78352739 AATGCTCATG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
Found at i:78353212 original size:275 final size:275
Alignment explanation
Indices: 78352721--78353270 Score: 1082
Period size: 275 Copynumber: 2.0 Consensus size: 275
78352711 CCTTCGGGTC
*
78352721 TTAGCCCGGATATATCATAATGCTCATGCACACATATATCAATAATCATAACACATCCATATCAT
1 TTAGCCCGGATATATCACAATGCTCATGCACACATATATCAATAATCATAACACATCCATATCAT
78352786 TTCTTCGTTACTAAGGCTCAAACACAAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCC
66 TTCTTCGTTACTAAGGCTCAAACACAAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCC
78352851 ACACACAAAGAGCATAATTTCAATTGGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGT
131 ACACACAAAGAGCATAATTTCAATTGGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGT
78352916 CATAATATGACTAATCATTTCAATATAATTCAAGTAGGGTCATTACTCGAAGACTTACCTCAAAT
196 CATAATATGACTAATCATTTCAATATAATTCAAGTAGGGTCATTACTCGAAGACTTACCTCAAAT
78352981 GTCGTCGAACGACTT
261 GTCGTCGAACGACTT
*
78352996 TTAGCCCGGATATATCCCAATGCTCATGCACACATATATCAATAATCATAACACATCCATATCAT
1 TTAGCCCGGATATATCACAATGCTCATGCACACATATATCAATAATCATAACACATCCATATCAT
78353061 TTCTTCGTTACTAAGGCTCAAACACAAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCC
66 TTCTTCGTTACTAAGGCTCAAACACAAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCC
78353126 ACACACAAAGAGCATAATTTCAATTGGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGT
131 ACACACAAAGAGCATAATTTCAATTGGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGT
78353191 CATAATATGACTAATCATTTCAATATAATTCAAGTAGGGTCATTACTCGAAGACTTACCTCAAAT
196 CATAATATGACTAATCATTTCAATATAATTCAAGTAGGGTCATTACTCGAAGACTTACCTCAAAT
78353256 GTCGTCGAACGACTT
261 GTCGTCGAACGACTT
78353271 CAACGGCTAT
Statistics
Matches: 273, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
275 273 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (275 bp):
TTAGCCCGGATATATCACAATGCTCATGCACACATATATCAATAATCATAACACATCCATATCAT
TTCTTCGTTACTAAGGCTCAAACACAAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCC
ACACACAAAGAGCATAATTTCAATTGGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGT
CATAATATGACTAATCATTTCAATATAATTCAAGTAGGGTCATTACTCGAAGACTTACCTCAAAT
GTCGTCGAACGACTT
Found at i:78364287 original size:56 final size:57
Alignment explanation
Indices: 78364221--78364337 Score: 134
Period size: 56 Copynumber: 2.1 Consensus size: 57
78364211 AGCATGGCTG
* *
78364221 CCAGATACAGA-AAAT-GTGACAGAGTCACCAGATACAGATATTTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGGTGACAGAGCCACCAGA-ACAGATA-ATTTGTGGCA-TAGCCA
* * *
78364278 CCAGA-ACAGATAATTGGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
78364334 CCAG
1 CCAG
78364338 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
55 1 0.02
56 22 0.42
57 15 0.29
58 14 0.27
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (57 bp):
CCAGATACAGATAAATGGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:78364300 original size:28 final size:28
Alignment explanation
Indices: 78364246--78364337 Score: 123
Period size: 28 Copynumber: 3.2 Consensus size: 28
78364236 GTGACAGAGT
*
78364246 CACCAGATACAGATATTTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-ATTTGTGGCAGTGC
* *
78364276 CACCAGAACAGATAATTGGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
78364304 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
78364332 CACCAG
1 CACCAG
78364338 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 42 0.75
29 7 0.12
30 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:78364490 original size:28 final size:28
Alignment explanation
Indices: 78364443--78364509 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
78364433 AAATTAACCC
*
78364443 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
78364471 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
78364499 TAGGGGTATAA
1 TAGGGGTATAA
78364510 TAGTGCATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:78364770 original size:8 final size:8
Alignment explanation
Indices: 78364754--78364785 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
78364744 CCCAAAATAC
78364754 CGGCTTTT
1 CGGCTTTT
*
78364762 CGGCATTT
1 CGGCTTTT
78364770 CGGCTTTT
1 CGGCTTTT
78364778 CGGCTTTT
1 CGGCTTTT
78364786 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:78366830 original size:32 final size:32
Alignment explanation
Indices: 78366789--78366852 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
78366779 TCAAATGACT
78366789 AAATTTATTCACAACACATATACTAAAAAGAA
1 AAATTTATTCACAACACATATACTAAAAAGAA
78366821 AAATTTATTCACAACACATATACTAAAAAGAA
1 AAATTTATTCACAACACATATACTAAAAAGAA
78366853 CAACTCCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (32 bp):
AAATTTATTCACAACACATATACTAAAAAGAA
Found at i:78367041 original size:23 final size:23
Alignment explanation
Indices: 78367013--78367061 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
78367003 AAAGCTTAGT
78367013 AAACTCATATGAAAATAATAAGC
1 AAACTCATATGAAAATAATAAGC
78367036 AAACTCATATGAAAATAATAAGC
1 AAACTCATATGAAAATAATAAGC
78367059 AAA
1 AAA
78367062 ATTCACCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.59, C:0.12, G:0.08, T:0.20
Consensus pattern (23 bp):
AAACTCATATGAAAATAATAAGC
Found at i:78374340 original size:46 final size:43
Alignment explanation
Indices: 78374273--78374382 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 43
78374263 TGTTCCTGAA
* *
78374273 TAAGACATGTGTAGGACATGCATCGGCCT-CGAGATGTAATCCAGTG
1 TAAGACATGTCT-GGACATGCATCAG-CTACGAGATGT-AT-CAGTG
*
78374319 TAAGACATGTCTGGGACATGCATCAGCTACGAGATGTGTCAGTG
1 TAAGACATGTCT-GGACATGCATCAGCTACGAGATGTATCAGTG
*
78374363 TAAGACCATGCCTGGACATG
1 TAAGA-CATGTCTGGACATG
78374383 GCATTTACAC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
44 17 0.30
45 9 0.16
46 31 0.54
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (43 bp):
TAAGACATGTCTGGACATGCATCAGCTACGAGATGTATCAGTG
Found at i:78377960 original size:89 final size:89
Alignment explanation
Indices: 78377803--78377982 Score: 254
Period size: 89 Copynumber: 2.0 Consensus size: 89
78377793 TTATTTATTT
* *
78377803 AGATTAAGATAAACCACAATCAGACTTAAATCAAGGAAAAGCTAAAGCTTTGGATTAGTTTGACT
1 AGATCAAGATAAACCACAATCAGACTTAAATCAAGGAAAAGCTAAAGCTTTGGATTAGTTTGAAT
* *
78377868 CTACTACTACGACCCTAGTTATCG
66 CTACCACTACAACCCTAGTTATCG
* * **
78377892 AGATCAAGATAAACCACAATC-GAACTTAAATCAAGGAAAGGCTAAAGTTTTGTTTTAGTTTGAA
1 AGATCAAGATAAACCACAATCAG-ACTTAAATCAAGGAAAAGCTAAAGCTTTGGATTAGTTTGAA
**
78377956 TCTACCACTACAACTGTAGTTATCG
65 TCTACCACTACAACCCTAGTTATCG
78377981 AG
1 AG
78377983 GTAAGTTCGT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 1 0.01
89 79 0.99
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (89 bp):
AGATCAAGATAAACCACAATCAGACTTAAATCAAGGAAAAGCTAAAGCTTTGGATTAGTTTGAAT
CTACCACTACAACCCTAGTTATCG
Found at i:78380305 original size:42 final size:42
Alignment explanation
Indices: 78380241--78380322 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
78380231 GTTATAAGTG
* *
78380241 ATTTCGTGTAAGACCATATCTGGGATATGACATCAATATGCA
1 ATTTCATGTAAGACCATATCTGGGACATGACATCAATATGCA
* * *
78380283 ATTTCATGTAAGACCCA-GTCTGGGACATGGCATCGATATG
1 ATTTCATGTAAGA-CCATATCTGGGACATGACATCAATATG
78380323 AGATATTGCG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (42 bp):
ATTTCATGTAAGACCATATCTGGGACATGACATCAATATGCA
Found at i:78382493 original size:30 final size:30
Alignment explanation
Indices: 78382450--78382507 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
78382440 CACGAACAGA
*
78382450 GACACGGCCGTGTGTCTCAGCCGTGTGAAG
1 GACACGGCCGTGTGACTCAGCCGTGTGAAG
** **
78382480 GACACGGGTGTGTGACTTGGCCGTGTGA
1 GACACGGCCGTGTGACTCAGCCGTGTGA
78382508 CCCCAAATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.40, T:0.22
Consensus pattern (30 bp):
GACACGGCCGTGTGACTCAGCCGTGTGAAG
Found at i:78388030 original size:30 final size:30
Alignment explanation
Indices: 78387994--78388055 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
78387984 AATCGAAAGT
*
78387994 TTTGGCACTAGGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
78388024 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
78388054 TT
1 TT
78388056 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:78390581 original size:38 final size:38
Alignment explanation
Indices: 78390502--78390580 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
78390492 AAAAATTATA
* * **
78390502 TTTAATACAATAAAATATTTATTATATTTATTTTTGTT
1 TTTAATACAATAAAACATTTATTATATTTAATTGAGTT
* *
78390540 TTTAATATAATAGAACATTTATTATATGTTAATTGAGTT
1 TTTAATACAATAAAACATTTATTATAT-TTAATTGAGTT
78390579 TT
1 TT
78390581 AGCTTGATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 24 0.71
39 10 0.29
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (38 bp):
TTTAATACAATAAAACATTTATTATATTTAATTGAGTT
Found at i:78402214 original size:22 final size:22
Alignment explanation
Indices: 78402181--78402239 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
78402171 TAAATACATT
78402181 TGGCACCA-AGCCATAGTCAAGA
1 TGGCA-CAGAGCCATAGTCAAGA
** * * *
78402203 TGGCACAGAGCCATTTTTAGGT
1 TGGCACAGAGCCATAGTCAAGA
78402225 TGGCACAGAGCCATA
1 TGGCACAGAGCCATA
78402240 ATCAGATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (22 bp):
TGGCACAGAGCCATAGTCAAGA
Found at i:78402589 original size:27 final size:27
Alignment explanation
Indices: 78402559--78403054 Score: 353
Period size: 27 Copynumber: 18.5 Consensus size: 27
78402549 GGGCAAAATA
78402559 GTAATTTTACAAACTAAGGGTATTTTG
1 GTAATTTTACAAACTAAGGGTATTTTG
* * * * *
78402586 GTAATTTTATAATCTGAGGCTATTTCG
1 GTAATTTTACAAACTAAGGGTATTTTG
* *
78402613 GTAATTTTACAAACTAGGGGTATTTTA
1 GTAATTTTACAAACTAAGGGTATTTTG
* *
78402640 GTAATTTTACAATCTGAA-GGTATTTCG
1 GTAATTTTACAAACT-AAGGGTATTTTG
* * * *
78402667 ATAATTTAACAAACT-GGGAGTCTTTTG
1 GTAATTTTACAAACTAAGG-GTATTTTG
* * *
78402694 GTAATTTTATAAACTAGGGGTATTTCG
1 GTAATTTTACAAACTAAGGGTATTTTG
* * *
78402721 GTAATTTTACAATCAAAGGGTATTTTA
1 GTAATTTTACAAACTAAGGGTATTTTG
* * *
78402748 ATAATTTTACAATC-AGAAGGTATTTTG
1 GTAATTTTACAAACTA-AGGGTATTTTG
* *
78402775 GTAATTTTACAAACTGAGGGTATTTTT
1 GTAATTTTACAAACTAAGGGTATTTTG
* * ** **
78402802 GTAATTTTATAAATTGGGGGTATTTCA
1 GTAATTTTACAAACTAAGGGTATTTTG
** * ***
78402829 GTAATTTTACAATTTGAGGGTATTCCA
1 GTAATTTTACAAACTAAGGGTATTTTG
* * *
78402856 ATAATTTTACAAACCAAGGGTATTTTA
1 GTAATTTTACAAACTAAGGGTATTTTG
* * *
78402883 GTAATTTTAC-AACTAGGGGTACTTCG
1 GTAATTTTACAAACTAAGGGTATTTTG
* * * **
78402909 ATAATTTTACAAATTATGGGTATTTCA
1 GTAATTTTACAAACTAAGGGTATTTTG
* * **
78402936 ATAATTTTACAATCCGAGGGTATTTTG
1 GTAATTTTACAAACTAAGGGTATTTTG
* *
78402963 GTAATTTTACAATC-AGAGGGTA-TTTC
1 GTAATTTTACAAACTA-AGGGTATTTTG
** *
78402989 G--ATTTTACAAA-TCGGGGGTATTTCG
1 GTAATTTTACAAACT-AAGGGTATTTTG
* * *
78403014 ATAATTTTACAATCCAAGGGTATTTTG
1 GTAATTTTACAAACTAAGGGTATTTTG
78403041 GTAATTTTACAAAC
1 GTAATTTTACAAAC
78403055 CAGGGTCTTA
Statistics
Matches: 364, Mismatches: 91, Indels: 28
0.75 0.19 0.06
Matches are distributed among these distances:
24 14 0.04
25 2 0.01
26 26 0.07
27 318 0.87
28 4 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGGGTATTTTG
Found at i:78402697 original size:81 final size:80
Alignment explanation
Indices: 78402559--78403052 Score: 412
Period size: 81 Copynumber: 6.2 Consensus size: 80
78402549 GGGCAAAATA
* * * * * * * *
78402559 GTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAATCTGAGGCTATTTCGGTAATTTTACA
1 GTAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAACTG-GGGTATTTCGATAATTTTACA
*
78402624 AACTAGGGGTATTTTA
65 AACTAGGGGTATTTTG
* * * * * *
78402640 GTAATTTTACAATCTGAAGGTATTTCGATAATTTAACAAACTGGGAGTCTTTTGGTAATTTTATA
1 GTAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAACTGGG-GTATTTCGATAATTTTACA
*
78402705 AACTAGGGGTATTTCG
65 AACTAGGGGTATTTTG
** ** * * * * *
78402721 GTAATTTTACAATCAAAGGGTATTTTAATAATTTTACAATCAGAAGGTATTTTGGTAATTTTACA
1 GTAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAACTG-GGGTATTTCGATAATTTTACA
*
78402786 AACT-GAGGGTATTTTT
65 AACTAG-GGGTATTTTG
* * ** * *
78402802 GTAATTTTATAAAT-TGGGGGTATTTC-AGTAATTTTACAATTTGAGGGTATTCCAATAATTTTA
1 GTAATTTTA-CAATCTGAGGGTATTTCGA-TAATTTTACAAACTG-GGGTATTTCGATAATTTTA
* * *
78402865 CAAACCAAGGGTATTTTA
63 CAAACTAGGGGTATTTTG
* * * *
78402883 GTAATTTTACAA-CT-AGGGGTACTTCGATAATTTTACAAATTATGGGTATTTCAATAATTTTAC
1 GTAATTTTACAATCTGA-GGGTATTTCGATAATTTTACAAACT-GGGGTATTTCGATAATTTTAC
* *
78402946 AATC-CGAGGGTATTTTG
64 AAACTAG-GGGTATTTTG
* *
78402963 GTAATTTTACAATCAGAGGGTATTTCG---ATTTTACAAATCGGGGGTATTTCGATAATTTTACA
1 GTAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAA-CTGGGGTATTTCGATAATTTTACA
* * *
78403025 ATCCAAGGGTATTTTG
65 AACTAGGGGTATTTTG
78403041 GTAATTTTACAA
1 GTAATTTTACAA
78403053 ACCAGGGTCT
Statistics
Matches: 338, Mismatches: 60, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
78 55 0.16
80 71 0.21
81 207 0.61
82 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (80 bp):
GTAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAACTGGGGTATTTCGATAATTTTACAA
ACTAGGGGTATTTTG
Found at i:78409975 original size:57 final size:57
Alignment explanation
Indices: 78409884--78409995 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
78409874 GTAGCGCAAC
*
78409884 AGATTTTCAAATACTCACAGAGTCAGAAAGCATACTTGGAACTAACGTCCCAACAGA
1 AGATTTTCAAATACTCACAGAGTCAGAAAGCATACTTGCAACTAACGTCCCAACAGA
* *
78409941 AGATTTTCAAATACTCATAGAGTC-GAAAATCATACTTGCAACTAACGTCCCAACA
1 AGATTTTCAAATACTCACAGAGTCAG-AAAGCATACTTGCAACTAACGTCCCAACA
78409996 AACATAACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 1 0.02
57 50 0.98
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (57 bp):
AGATTTTCAAATACTCACAGAGTCAGAAAGCATACTTGCAACTAACGTCCCAACAGA
Found at i:78413470 original size:41 final size:41
Alignment explanation
Indices: 78413417--78413500 Score: 134
Period size: 41 Copynumber: 2.0 Consensus size: 41
78413407 TTAACAGAGA
78413417 TGGAATTATAACAACCCAATTTTCAGTGGTGTC-GAAAACAG
1 TGGAATTATAACAACCCAATTTTCAGTGGTGTCAG-AAACAG
* *
78413458 TGGAATTGTAACAGCCCAATTTTCAGTGGTGTCAGAAACAG
1 TGGAATTATAACAACCCAATTTTCAGTGGTGTCAGAAACAG
78413499 TG
1 TG
78413501 ATTTGAGATC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 39 0.98
42 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (41 bp):
TGGAATTATAACAACCCAATTTTCAGTGGTGTCAGAAACAG
Found at i:78416128 original size:68 final size:66
Alignment explanation
Indices: 78416056--78416232 Score: 173
Period size: 67 Copynumber: 2.7 Consensus size: 66
78416046 CATCATGTGT
* * *
78416056 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGAT-CTAGTGAAGGACACC
78416118 ATGTAG
61 ATGTAG
** *
78416124 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATCTA-GTGAAGGACACCATGT
78416189 AG
65 AG
* * * * *
78416191 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGG
78416233 TACTGAATGT
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
64 23 0.24
65 5 0.05
66 21 0.22
67 32 0.34
68 13 0.14
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATCTAGTGAAGGACACCATGTA
G
Found at i:78416161 original size:64 final size:64
Alignment explanation
Indices: 78416080--78416263 Score: 189
Period size: 67 Copynumber: 2.8 Consensus size: 64
78416070 AGACATTATG
* *
78416080 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
78416144 ATGTAGCTAGGTCGCATGCGTGGCT-CTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
78416208 TAA
62 TAA
* * *
78416211 AT-TGGCTAGGTCACATGGGTGGTACTGAATGT-T-CACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT--ATGTGTACACCATGTAG-ACAAGAGAGC
78416264 CGAACTCTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 23 0.23
65 4 0.04
66 21 0.21
67 32 0.32
68 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:78418545 original size:105 final size:101
Alignment explanation
Indices: 78418367--78418559 Score: 253
Period size: 105 Copynumber: 1.9 Consensus size: 101
78418357 GACGGATAAT
* ** *
78418367 ACCATGGTTGGACCATGGAAATATTTAAATGTAAGACTATAGCTAGGCTATGGCATTTTAGTGAA
1 ACCATGGTTGGACCATGGAAATATTTAAATGTAAGACCATAGCTAGGCTATGGCATCCTAATGAA
78418432 AAGACCATAAC-TGGTTTATGGCACCGTGAACGTAAG
66 AAGACCATAACTTGG-TTATGGCACCGTGAACGTAAG
* * * *
78418468 ACCATGGTTGGATCATGGCAGTATATGTATAAGTGTAAGACCATAGCTGGGCTATGGCATCCTAA
1 ACCATGGTTGGACCATGG-A-AATAT-T-TAAATGTAAGACCATAGCTAGGCTATGGCATCCTAA
*
78418533 TGATAAGACCATAACTTGGTTATGGCA
62 TGAAAAGACCATAACTTGGTTATGGCA
78418560 TTACGAGTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 17 0.22
102 1 0.01
103 4 0.05
104 1 0.01
105 52 0.67
106 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
ACCATGGTTGGACCATGGAAATATTTAAATGTAAGACCATAGCTAGGCTATGGCATCCTAATGAA
AAGACCATAACTTGGTTATGGCACCGTGAACGTAAG
Found at i:78418573 original size:33 final size:32
Alignment explanation
Indices: 78418499--78418626 Score: 96
Period size: 33 Copynumber: 3.9 Consensus size: 32
78418489 TATATGTATA
* * *
78418499 AGTGTAAGACCATAGCTGGGCTATGGCATCCT
1 AGTGTAAGACCATAACTGGGCTATGGCATACG
* * *
78418531 AATGATAAGACCATAACTTGGTTATGGCATTACG
1 AGTG-TAAGACCATAACTGGGCTATGGCA-TACG
* * * *
78418565 AGTGTAAGACCATGACAGGGCCATGGCAATA-T
1 AGTGTAAGACCATAACTGGGCTATGGC-ATACG
** *
78418597 ATGTGTAAGACCATAGTTGGACTATGGCAT
1 A-GTGTAAGACCATAACTGGGCTATGGCAT
78418627 CAATAAAACG
Statistics
Matches: 73, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
32 6 0.08
33 61 0.84
34 6 0.08
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (32 bp):
AGTGTAAGACCATAACTGGGCTATGGCATACG
Found at i:78418590 original size:105 final size:99
Alignment explanation
Indices: 78418396--78418627 Score: 223
Period size: 105 Copynumber: 2.3 Consensus size: 99
78418386 AATATTTAAA
* * ** * **
78418396 TGTAAGACTATAGCTAGGCTATGGCATTTTAGTGAAAAGACCATAACTGGTTTATGGCACCGTGA
1 TGTAAGACCATAGCTGGGCTATGGCATCCTAATGAAAAGACCATAACTGGTTTATGGCACCACGA
*** *
78418461 ACGTAAGACCATGGTTGGATCATGGCAGTATATGTATAAG
66 ACGTAAGACCATGACAGGACCATGGCA--ATA--TAT--G
* **
78418501 TGTAAGACCATAGCTGGGCTATGGCATCCTAATGATAAGACCATAACTTGG-TTATGGCATTACG
1 TGTAAGACCATAGCTGGGCTATGGCATCCTAATGAAAAGACCATAAC-TGGTTTATGGCACCACG
** *
78418565 AGTGTAAGACCATGACAGGGCCATGGCAATATATG
65 AACGTAAGACCATGACAGGACCATGGCAATATATG
* *
78418600 TGTAAGACCATAGTTGGACTATGGCATC
1 TGTAAGACCATAGCTGGGCTATGGCATC
78418628 AATAAAACGA
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
99 27 0.25
101 3 0.03
103 3 0.03
105 71 0.66
106 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (99 bp):
TGTAAGACCATAGCTGGGCTATGGCATCCTAATGAAAAGACCATAACTGGTTTATGGCACCACGA
ACGTAAGACCATGACAGGACCATGGCAATATATG
Found at i:78423112 original size:18 final size:17
Alignment explanation
Indices: 78423077--78423109 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
78423067 CTTTTTATTC
78423077 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
78423094 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
78423110 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:78426377 original size:39 final size:40
Alignment explanation
Indices: 78426282--78426543 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
78426272 TTGAATGATG
*
78426282 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
78426320 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
78426361 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
78426400 TCTGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
78426439 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
78426478 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
78426517 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
78426544 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
39 128 0.64
40 59 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78426576 original size:79 final size:79
Alignment explanation
Indices: 78426334--78426568 Score: 239
Period size: 78 Copynumber: 3.0 Consensus size: 79
78426324 GGACTAAGAT
* * **
78426334 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGAT-ACTA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACTA
* * * *
78426398 ATTCTGGGCT-AAGC
65 AATCCGGGTTAAATC
* ** *
78426412 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
78426477 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
78426491 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTACGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
*
78426553 CTATATCC-GGTTAAAT
62 CTAAATCCGGGTTAAAT
78426569 TTCGAAGGTA
Statistics
Matches: 137, Mismatches: 14, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 71 0.52
79 40 0.29
80 25 0.18
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:78434408 original size:39 final size:40
Alignment explanation
Indices: 78434313--78434574 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
78434303 TTGAATGATG
*
78434313 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
78434351 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
78434392 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
78434431 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
78434470 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
78434509 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
78434548 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
78434575 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78439971 original size:18 final size:17
Alignment explanation
Indices: 78439936--78439968 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
78439926 CTTTTTATTC
78439936 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
78439953 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
78439969 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:78442389 original size:11 final size:11
Alignment explanation
Indices: 78442373--78442418 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
78442363 ACATTATAAA
78442373 AAATAATTTTT
1 AAATAATTTTT
78442384 AAATAATTTTGT
1 AAATAATTTT-T
78442396 --ATAATTTTT
1 AAATAATTTTT
*
78442405 TAATAATTATTT
1 AAATAATT-TTT
78442417 AA
1 AA
78442419 GAAATTCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 1 0.03
10 8 0.27
11 16 0.53
12 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
AAATAATTTTT
Found at i:78443385 original size:21 final size:20
Alignment explanation
Indices: 78443344--78443389 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
78443334 AACATATACT
78443344 ATTTCTTTTCATTAACCTTC
1 ATTTCTTTTCATTAACCTTC
* * *
78443364 ATTTCTATTTCTTTTACTTTC
1 ATTTCT-TTTCATTAACCTTC
78443385 ATTTC
1 ATTTC
78443390 CTTTATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTCTTTTCATTAACCTTC
Found at i:78450209 original size:62 final size:62
Alignment explanation
Indices: 78450134--78450258 Score: 234
Period size: 62 Copynumber: 2.0 Consensus size: 62
78450124 GAGCGAATAC
78450134 TTATTTGTAAGGGCTCAACTAAATTC-AAGCACATACGAAACATACCTCAATGTTGGGATGTT
1 TTATTTGTAAGGGCTCAACT-AATTCAAAGCACATACGAAACATACCTCAATGTTGGGATGTT
78450196 TTATTTGTAAGGGCTCAACTAATTCAAAGCACATACGAAACATACCTCAATGTTGGGATGTT
1 TTATTTGTAAGGGCTCAACTAATTCAAAGCACATACGAAACATACCTCAATGTTGGGATGTT
78450258 T
1 T
78450259 CAAGCGTATT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 5 0.08
62 57 0.92
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (62 bp):
TTATTTGTAAGGGCTCAACTAATTCAAAGCACATACGAAACATACCTCAATGTTGGGATGTT
Found at i:78450391 original size:40 final size:40
Alignment explanation
Indices: 78450347--78450531 Score: 223
Period size: 40 Copynumber: 4.7 Consensus size: 40
78450337 GCTACTCGTT
* * *
78450347 CAAATGCCTTCGGGACATAGCTCGGTTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
78450387 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
78450427 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
78450466 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
78450507 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78450532 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:78450491 original size:79 final size:80
Alignment explanation
Indices: 78450349--78450531 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
78450339 TACTCGTTCA
* * **
78450349 AATGCCTTCGGGACATAGCTCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
78450414 TTAGT-AGC-TCGCACC
66 ATAGTCA-CTTAGCA-C
**
78450429 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
*
78450492 TATGGTCACTTAGCAC
65 TATAGTCACTTAGCAC
*
78450508 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
78450532 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTCACTTAGCAC
Found at i:78458447 original size:40 final size:39
Alignment explanation
Indices: 78458257--78458440 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
78458247 CGAATGATGT
* * * *
78458257 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
78458297 CCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* * *
78458337 CCGGGCTAAG-CCCGAAGGCGTTGGTGCGAGCTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
78458375 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
78458416 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
78458441 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 32 0.27
40 78 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78458471 original size:79 final size:79
Alignment explanation
Indices: 78458295--78458473 Score: 186
Period size: 79 Copynumber: 2.3 Consensus size: 79
78458285 AAGTGACCAT
* * * *
78458295 ATCCGGACTAAGA-TCCGAAGGTATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCGTT
1 ATCCGGATTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATT
**
78458359 GGTGCGAGCTACTAA
65 GGAACGAGCTACTAA
* * * *
78458374 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 ATCCGGATTAAATTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
* *
78458438 TTGAACGAG-TAGCTAT
64 TGGAACGAGCTA-CTAA
78458454 ATCC-GATTAAATTCCGAAGG
1 ATCCGGATTAAATTCCGAAGG
78458474 TATGTGATTC
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
78 2 0.02
79 56 0.69
80 23 0.28
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGATTAAATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTG
GAACGAGCTACTAA
Found at i:78466551 original size:40 final size:39
Alignment explanation
Indices: 78466361--78466544 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
78466351 CGAATGATGT
* * * *
78466361 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
78466401 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
78466441 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGCTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
78466479 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
78466520 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
78466545 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78466566 original size:79 final size:79
Alignment explanation
Indices: 78466413--78466577 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
78466403 GGACTAAGAT
* **
78466413 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGCTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGCTACTAA
*
78466478 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
78466492 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGCTA-C
* *
78466555 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
78466571 CCGAAGG
1 CCGAAGG
78466578 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGCTACTAA
ATCCGGGTTAAATC
Found at i:78468071 original size:58 final size:58
Alignment explanation
Indices: 78467997--78468111 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
78467987 ACACAGAGTA
78467997 GGAGGCAAGGAATTACTCAAAGAAAACCGATTGATCCATCTCAGAAGCCGGATTCATT
1 GGAGGCAAGGAATTACTCAAAGAAAACCGATTGATCCATCTCAGAAGCCGGATTCATT
* *
78468055 GGAGGCAAGGAATTACTCAATGAAAACCGATTGATCCATCTCAGAAGCTGGATTCAT
1 GGAGGCAAGGAATTACTCAAAGAAAACCGATTGATCCATCTCAGAAGCCGGATTCAT
78468112 CGTTCAAGAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (58 bp):
GGAGGCAAGGAATTACTCAAAGAAAACCGATTGATCCATCTCAGAAGCCGGATTCATT
Found at i:78474194 original size:47 final size:49
Alignment explanation
Indices: 78474125--78474253 Score: 154
Period size: 47 Copynumber: 2.7 Consensus size: 49
78474115 TATAATGTCA
* * * *
78474125 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACG-T-TAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCCCACGATCCAAGTCG
** *
78474172 ATGCCATGTCCCAGACATGGTCTTACACTGACTCCCACGCATCCGTGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCCCACG-ATCCAAGTCG
* *
78474222 ATGCCATGTTCCAGACATGGTCTTATACTGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC
78474254 ACATCATGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
47 36 0.51
49 1 0.01
50 33 0.47
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCCCACGATCCAAGTCG
Found at i:78479128 original size:47 final size:47
Alignment explanation
Indices: 78478925--78479265 Score: 207
Period size: 47 Copynumber: 7.2 Consensus size: 47
78478915 TGCTGCCATA
* * *
78478925 TCCCAGACATGGTTTTACGCTGGCTATC-TCCATCGAGGCCGATGCCATG
1 TCCCAGACAT-GTCTTACACTAGCTATCAT-CATCGAGGCCGATG-CATG
* * ** * * *
78478974 TCGCAGACATGGTCTTACACTAGCTCTTGTGTATACG-TGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTAGCTATCAT-CAT-CGAGGCCGATGCATG
* ** * *
78479023 TCCCAGACATGTCTTATACTAGC-A-CGAAAAT-TA-GCCGAGGCATG
1 TCCCAGACATGTCTTACACTAGCTATC-ATCATCGAGGCCGATGCATG
*
78479067 TCCCAGACACGTCTTACACTAGCTATCATCATCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATGCATG
* * * *
78479114 TCCCAAACATGTCTTACACTGGC-ACTCATC-TCTACGCCGATGCCATG
1 TCCCAGACATGTCTTACACTAGCTA-TCATCATCGAGGCCGATG-CATG
* * * * * **
78479161 TCCCAGACATGGCCTTACACTGGCTATCTTAAT-GTGGATGATGCATG
1 TCCCAGACAT-GTCTTACACTAGCTATCATCATCGAGGCCGATGCATG
* ** * * *
78479208 TCCCAGATATGTCTTACACTAGCCCTCGTC-TCAATGCCGATGCCATG
1 TCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATG-CATG
*
78479255 TCCCAAACATG
1 TCCCAGACATG
78479266 GTATTATACT
Statistics
Matches: 223, Mismatches: 54, Indels: 32
0.72 0.17 0.10
Matches are distributed among these distances:
44 30 0.13
45 5 0.02
46 34 0.15
47 74 0.33
48 32 0.14
49 37 0.17
50 9 0.04
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
TCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATGCATG
Found at i:78479209 original size:94 final size:93
Alignment explanation
Indices: 78478962--78479267 Score: 305
Period size: 94 Copynumber: 3.3 Consensus size: 93
78478952 CTCCATCGAG
* * * *
78478962 GCCGATGCCATGTCGCAGACATGGTCTTACACTAGCTCTTGTGTATACGT-GCTGATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATCT-TA-ATGTGGCTGATGCATGTCC
* ** **
78479026 CAGACATGTCTTATACTAGCACGAAAAT-TA
63 CAGACATGTCTTACACTAGCACTCATCTCTA
* * * * * *
78479056 GCCGA-GGCATGTCCCAGACA-CGTCTTACACTAGCTATCATCATCGAGGCCGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCTTAAT-GTGGCTGATGCATGTCCCA
* *
78479119 AACATGTCTTACACTGGCACTCATCTCTA
65 GACATGTCTTACACTAGCACTCATCTCTA
* * *
78479148 CGCCGATGCCATGTCCCAGACATGGCCTTACACTGGCTATCTTAATGTGGATGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCTTAATGTGGCTGATGCATGTCCCA
* * * *
78479213 GATATGTCTTACACTAGCCCTCGTCTCAA
65 GACATGTCTTACACTAGCACTCATCTCTA
*
78479242 TGCCGATGCCATGTCCCAAACATGGT
1 -GCCGATGCCATGTCCCAGACATGGT
78479268 ATTATACTCA
Statistics
Matches: 171, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
89 1 0.01
90 2 0.01
91 35 0.20
92 16 0.09
93 18 0.11
94 81 0.47
95 18 0.11
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCTTAATGTGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCATCTCTA
Found at i:78483570 original size:33 final size:33
Alignment explanation
Indices: 78483533--78483595 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
78483523 CATTTACTCC
*
78483533 GCATTCGCCCAAGTGGCGTCTCTCACATTGCCG
1 GCATTCGCCCAAGTGGCGTCTCCCACATTGCCG
78483566 GCATTCGCCCAAGTGGCGTCTCCCACATTG
1 GCATTCGCCCAAGTGGCGTCTCCCACATTG
78483596 TAGACACTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.16, C:0.37, G:0.24, T:0.24
Consensus pattern (33 bp):
GCATTCGCCCAAGTGGCGTCTCCCACATTGCCG
Found at i:78492480 original size:25 final size:25
Alignment explanation
Indices: 78492435--78492506 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 25
78492425 GGCTATGTAA
78492435 CGGGAAGC-T-CATAAGAGCCATAAT
1 CGGGAAGCTTACA-AAGAGCCATAAT
* *
78492459 GGGGAAG-TTCACAAAGAACCAT-AT
1 CGGGAAGCTT-ACAAAGAGCCATAAT
78492483 CGGGAAGCTTACAAAGAGCCATAA
1 CGGGAAGCTTACAAAGAGCCATAA
78492507 AACGGTAGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
24 26 0.67
25 11 0.28
26 2 0.05
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (25 bp):
CGGGAAGCTTACAAAGAGCCATAAT
Found at i:78492714 original size:24 final size:24
Alignment explanation
Indices: 78492681--78492728 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
78492671 ACAAGAATTG
*
78492681 TATAATGGGAAGCTCG-AGAGAGCT
1 TATAACGGGAAGCTCGTA-AGAGCT
*
78492705 TATAACGGGACGCTCGTAAGAGCT
1 TATAACGGGAAGCTCGTAAGAGCT
78492729 GTGGTGTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (24 bp):
TATAACGGGAAGCTCGTAAGAGCT
Found at i:78493830 original size:24 final size:24
Alignment explanation
Indices: 78493803--78493876 Score: 121
Period size: 24 Copynumber: 3.0 Consensus size: 24
78493793 AAGGCTGTCA
78493803 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
78493827 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
78493851 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
78493876 G
1 G
78493877 AGCAGGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 42 0.93
25 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:78498914 original size:24 final size:24
Alignment explanation
Indices: 78498887--78498960 Score: 121
Period size: 24 Copynumber: 3.0 Consensus size: 24
78498877 AAGGCTGTTA
78498887 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
78498911 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
78498935 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
78498960 G
1 G
78498961 AACAGGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 42 0.93
25 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:78515502 original size:25 final size:25
Alignment explanation
Indices: 78515468--78515522 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
78515458 CGGTTAAAGA
*
78515468 ATTCACACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
78515493 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
78515518 ATTCG
1 ATTCG
78515523 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:78522049 original size:15 final size:15
Alignment explanation
Indices: 78522029--78522058 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78522019 TAGCTCATTT
78522029 ATAGTGGTATCAGAA
1 ATAGTGGTATCAGAA
*
78522044 ATAGTGGTTTCAGAA
1 ATAGTGGTATCAGAA
78522059 CCACAATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (15 bp):
ATAGTGGTATCAGAA
Found at i:78522962 original size:5 final size:5
Alignment explanation
Indices: 78522949--78522981 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
78522939 AATATAAAGG
78522949 AATATA AATAA AATAA AATAA AATAA AATAA AA
1 AATA-A AATAA AATAA AATAA AATAA AATAA AA
78522982 CAAACACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:78526518 original size:14 final size:14
Alignment explanation
Indices: 78526499--78526528 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78526489 CTCATCGAAT
78526499 TAATAGTTTCAAAA
1 TAATAGTTTCAAAA
*
78526513 TAATAGTTTTAAAA
1 TAATAGTTTCAAAA
78526527 TA
1 TA
78526529 CAAAATTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (14 bp):
TAATAGTTTCAAAA
Found at i:78538628 original size:68 final size:68
Alignment explanation
Indices: 78538461--78538636 Score: 157
Period size: 68 Copynumber: 2.6 Consensus size: 68
78538451 TAGTACCACT
* * * * *
78538461 CATGCGACCTAGCT-GAT-T-TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
*
78538523 CACG
65 CACA
* * *
78538527 CATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGCGACCTAGCTACATATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
78538589 ATCACA
63 ATCACA
* *
78538595 CATGTGACCTAGCTACTATATAGTATCTCGTAGCTTTCTTGT
1 CATGCGACCTAGCTAC-ATATA-TATCTCGTAGCTCTCTTGT
78538637 ACACATGATG
Statistics
Matches: 91, Mismatches: 11, Indels: 14
0.78 0.09 0.12
Matches are distributed among these distances:
66 14 0.15
67 2 0.02
68 35 0.38
69 8 0.09
70 6 0.07
71 26 0.29
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:78540551 original size:23 final size:24
Alignment explanation
Indices: 78540501--78540553 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
78540491 CTTATAATGG
* *
78540501 GAAGCTCACAAAGAGCCATATCGA
1 GAAGCTAACAAAAAGCCATATCGA
*
78540525 GAAGCTAACAAAAAGCC-TATCGC
1 GAAGCTAACAAAAAGCCATATCGA
78540548 GAAGCT
1 GAAGCT
78540554 TATCCAGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.13
Consensus pattern (24 bp):
GAAGCTAACAAAAAGCCATATCGA
Found at i:78540600 original size:24 final size:24
Alignment explanation
Indices: 78540571--78540643 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
78540561 GCTATATAAC
78540571 GGGAAGCTCATAAGAGCCATAATT
1 GGGAAGCTCATAAGAGCCATAATT
* * *
78540595 GGGAAGTTCACAAAGAACCAT-ATT
1 GGGAAGCTCA-TAAGAGCCATAATT
* *
78540619 AGGAAGCTCATGAAAAGCCTATAAT
1 GGGAAGCTCAT-AAGAGCC-ATAAT
78540644 CATGGTGCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
24 25 0.68
25 10 0.27
26 2 0.05
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (24 bp):
GGGAAGCTCATAAGAGCCATAATT
Found at i:78568515 original size:46 final size:45
Alignment explanation
Indices: 78568272--78568626 Score: 156
Period size: 46 Copynumber: 7.5 Consensus size: 45
78568262 ATGCCAATGA
* * *
78568272 CATGTCCCATACATGATCTTACACTGGC-T-CATCCATCAAGTCGATG
1 CATGTCCCAGACATG-TCTTACACTGGCTTACAT-CA-CAGGCCGATG
* * * *
78568318 CCATGTCCCAGACATGGTCTTACATTGACTATCGAAATCGA-A-GCCGACG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-T--ACATC-ACAGGCCGATG
* *
78568367 CTATGTCCCAGACATGGTCTTACACTGGCTCTCACAT-ATCCGTGCTGATG
1 C-ATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATCA-CAG-GCCGATG
* * * * ** * *
78568417 CCATGTCCCAGACACGGTTTTATACTGAC--ACATC-TTGTAGCTGAGG
1 -CATGTCCCAGACA-TGTCTTACACTGGCTTACATCACAG--GCCGATG
78568463 CATGTCCCAGACATGTCTTACACTGGCTTACATCACGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCAC-AGGCCGATG
* * * * **
78568509 CATGTCCTAGACATGTCTTTCACTAGCTCT-CATCTCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCAC-AGGCCGATG
* *
78568555 TCATGTCCCAGACATGGCCTTACACTGGCTCTTACAAT-A-TGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGG--CTTAC-ATCACAGGCCGATG
*
78568603 CATGTCACAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
78568627 AGCACACAAT
Statistics
Matches: 234, Mismatches: 47, Indels: 55
0.70 0.14 0.16
Matches are distributed among these distances:
44 10 0.04
45 14 0.06
46 67 0.29
47 50 0.21
48 21 0.09
49 34 0.15
50 31 0.13
51 4 0.02
52 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCACAGGCCGATG
Found at i:78570764 original size:52 final size:50
Alignment explanation
Indices: 78570682--78570815 Score: 173
Period size: 50 Copynumber: 2.6 Consensus size: 50
78570672 GTTGTGAGAA
* *
78570682 CACATGTGTAGTACTATGTGCGGGCTACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-ACAGATTGTTAGGT
* *
78570734 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATTGTTAGGT
*
78570784 CGCATGTGTAGTACTAAGTGCAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
78570816 CGTACCCAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
48 3 0.04
49 3 0.04
50 37 0.50
52 31 0.42
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATTGTTAGGT
Found at i:78570977 original size:137 final size:145
Alignment explanation
Indices: 78570728--78571109 Score: 503
Period size: 137 Copynumber: 2.6 Consensus size: 145
78570718 TAAGACAGTT
* *
78570728 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTGATAGGTCGCATGTGT
*
78570793 AGTACTAAGTGCAGGCTACTATGCGTACCCAATAGTTTCGATCAC-GTGT-G-T-A-GTA-CTAC
66 AGTACTAAGTGTAGGCTACTATGCGTACCCAATAGTTTCGATCACGGTGTAGATAAGGTAGCTAC
78570852 -A-TGTATCAGATGG
131 TACTGTATCAGATGG
** *
78570865 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTGTTATGTGTACCGGATTGATAGGTTGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTGATAGGTCGCATGTGT
* * *
78570930 AGTACTAAGTGTAGGATACTATGCATACCCAATAGTTTCGATTACGTGTGTAGTACTAAGTGTAG
66 AGTACTAAGTGTAGGCTACTATGCGTACCCAATAGTTTCGATCACG-GTGTAG-A-TAAG-GTA-
*
78570995 GCTACTACGTGTATCCGATGG
126 GCTACTAC-TGTATCAGATGG
* * *
78571016 ATAAGTCACGTGTGTAGCACTAAGTGCAGGCTACTATGTGTA-CGAGATTGATAGGTCGCATGTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCG-GATTGATAGGTCGCATGTG
* *
78571080 TAGTACTAATTGTAGGCTCCTATGCGTACC
65 TAGTACTAAGTGTAGGCTACTATGCGTACC
78571110 AGAGGGCTTC
Statistics
Matches: 210, Mismatches: 20, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
137 101 0.48
139 4 0.02
140 1 0.00
143 1 0.00
144 1 0.00
146 3 0.01
148 4 0.02
149 1 0.00
150 2 0.01
151 92 0.44
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (145 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTGATAGGTCGCATGTGT
AGTACTAAGTGTAGGCTACTATGCGTACCCAATAGTTTCGATCACGGTGTAGATAAGGTAGCTAC
TACTGTATCAGATGG
Found at i:78571051 original size:101 final size:101
Alignment explanation
Indices: 78570872--78571053 Score: 240
Period size: 101 Copynumber: 1.8 Consensus size: 101
78570862 TGGTTAGGTC
** * * * ** *
78570872 ACGTGTGTAGTACTAAGTGCAGGCTGTTATGTGTACCGGATTGATAGGTTGCATGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATGGATAAGTCACATGTGTAGCACTA
*
78570937 AGTGTAGGATACTATGCATACCCAATAGTTTCGATT
66 AGTGCAGGATACTATGCATACCCAATAGTTTCGATT
* *
78570973 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCC-GATGGATAAGTCACGTGTGTAGCACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGGATGGATAAGTCACATGTGTAGCACT
*
78571037 AAGTGCAGGCTACTATG
65 AAGTGCAGGATACTATG
78571054 TGTACGAGAT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
101 66 0.97
102 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (101 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATGGATAAGTCACATGTGTAGCACTA
AGTGCAGGATACTATGCATACCCAATAGTTTCGATT
Found at i:78571080 original size:50 final size:51
Alignment explanation
Indices: 78570866--78571109 Score: 210
Period size: 50 Copynumber: 4.8 Consensus size: 51
78570856 ATCAGATGGT
* **
78570866 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTGTTATGTGTACCG-GATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGAGATTGA
** * * ** * * *
78570916 TAGGTTGCATGTGTAGTACTAAGTGTAGGATACTATGCATACCCA-ATAGTT
1 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGAGATTG-A
* * * * *
78570967 TCGATTACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCC--GATGGA
1 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTA-CCGAGATTGA
* * *
78571017 TAAGTCACGTGTGTAGCACTAAGTGCAGGCTACTATGTGTA-CGAGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGAGATTGA
* * * * *
78571067 TAGGTCGCATGTGTAGTACTAATTGTAGGCTCCTATGCGTACC
1 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACC
78571110 AGAGGGCTTC
Statistics
Matches: 149, Mismatches: 38, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
48 1 0.01
50 109 0.73
51 37 0.25
52 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGAGATTGA
Found at i:78571333 original size:16 final size:16
Alignment explanation
Indices: 78571312--78571343 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
78571302 AGAATGGAGT
78571312 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
78571328 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
78571344 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:78574561 original size:28 final size:28
Alignment explanation
Indices: 78574527--78574583 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
78574517 ATTTAGTTCT
78574527 AGTGGGCTTGAATGATGTATTCTTCTGG
1 AGTGGGCTTGAATGATGTATTCTTCTGG
78574555 AGTGGGCTTGAATGATGTATTCTTCTGG
1 AGTGGGCTTGAATGATGTATTCTTCTGG
78574583 A
1 A
78574584 CTTCTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.19, C:0.11, G:0.32, T:0.39
Consensus pattern (28 bp):
AGTGGGCTTGAATGATGTATTCTTCTGG
Found at i:78576682 original size:27 final size:27
Alignment explanation
Indices: 78576644--78576726 Score: 107
Period size: 28 Copynumber: 3.1 Consensus size: 27
78576634 GTCACTAGAT
*
78576644 ACAGATA-ATGTGGCAGAGCCACCAGA
1 ACAGATATTTGTGGCAGAGCCACCAGA
*
78576670 ACAGATATTTGTGGC-GTAGCCACCAAAA
1 ACAGATATTTGTGGCAG-AGCCACC-AGA
*
78576698 ACAGATATTTGTGGCATAGCCACCAGA
1 ACAGATATTTGTGGCAGAGCCACCAGA
78576725 AC
1 AC
78576727 TCTTCCTCCA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
26 8 0.16
27 17 0.35
28 24 0.49
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGAGCCACCAGA
Found at i:78576886 original size:27 final size:26
Alignment explanation
Indices: 78576828--78576891 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
78576818 CAAAATTAAC
* *
78576828 CCTAGGGGTATAATGGTCATTTTGCA
1 CCTAGGGGTATAATGGTAATTTTACA
* *
78576854 CCTAGGGGTATGATGGTAATTTTTATA
1 CCTAGGGGTATAATGGTAA-TTTTACA
*
78576881 CTTAGGGGTAT
1 CCTAGGGGTAT
78576892 TTTAGTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (26 bp):
CCTAGGGGTATAATGGTAATTTTACA
Found at i:78581160 original size:101 final size:101
Alignment explanation
Indices: 78580975--78581202 Score: 255
Period size: 101 Copynumber: 2.3 Consensus size: 101
78580965 TTTAGGTCAC
* * **
78580975 GTGTGTAGTACTAAGTGCAGGCTACTAATTGTACCAGATTGTTAGGTTGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTAATTGTACCAAATGGTTAGGTCACATGTGTAGTACTAAG
*
78581040 TGCAGGCTACTATGCGTACCCGATAGTTTCGATCAT
66 TGCAGGCTACTATCCGTACCCGATAGTTTCGATCAT
* * * * *
78581076 GTGTGTAGTAGTAAGTGTAGGCTATTACA-TGTATCAAATGGTTAGGTCACGTGTGTAGTACTAA
1 GTGTGTAGTACTAAGTGCAGGCTACTA-ATTGTACCAAATGGTTAGGTCACATGTGTAGTACTAA
* * * * * **
78581140 GTGCAGGCTACTA-CCTGTACCGGATTG-ATAGGTCGC
65 GTGCAGGCTACTATCC-GTACCCGATAGTTTCGATCAT
*
78581176 ATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
78581203 TGCGTACCCG
Statistics
Matches: 104, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
100 28 0.27
101 75 0.72
102 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (101 bp):
GTGTGTAGTACTAAGTGCAGGCTACTAATTGTACCAAATGGTTAGGTCACATGTGTAGTACTAAG
TGCAGGCTACTATCCGTACCCGATAGTTTCGATCAT
Found at i:78581210 original size:50 final size:50
Alignment explanation
Indices: 78580924--78581210 Score: 249
Period size: 50 Copynumber: 5.7 Consensus size: 50
78580914 TGAGAACACA
* * *
78580924 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACA-ATT-TTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCG--T-A-CCAGATTGTTAGGTCACG
* ** *
78580976 TGTGTAGTACTAAGTGCAGGCTACTAAT-TGTACCAGATTGTTAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACT-ATGCGTACCAGATTGTTAGGTCACG
* * * * *
78581026 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTG-TTAGGTCACG
* * * *** * * *
78581077 TGTGTAGTAGTAAGTGTAGGCTATTACATGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGTTAGGTCACG
* * * * *
78581127 TGTGTAGTACTAAGTGCAGGCTACTA-CCTGTACCGGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGC-GTACCAGATTGTTAGGTCACG
78581177 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
78581211 CGATAGTTTT
Statistics
Matches: 188, Mismatches: 40, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
48 2 0.01
49 6 0.03
50 117 0.62
51 35 0.19
52 26 0.14
53 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGTTAGGTCACG
Found at i:78583615 original size:49 final size:49
Alignment explanation
Indices: 78583490--78584540 Score: 1929
Period size: 49 Copynumber: 21.6 Consensus size: 49
78583480 CCCTTCGGGA
* * * * *
78583490 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78583537 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78583584 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78583633 CTTATCACATATATATATACACTTTCACACTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78583684 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78583731 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78583780 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78583829 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78583878 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78583927 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78583976 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584025 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584074 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584123 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584172 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584221 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584270 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584319 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584368 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584417 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78584466 CTTATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78584515 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
78584541 CACAATTATC
Statistics
Matches: 979, Mismatches: 17, Indels: 16
0.97 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 94 0.10
49 838 0.86
51 46 0.05
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78592076 original size:27 final size:26
Alignment explanation
Indices: 78592011--78592124 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 26
78592001 CAGCATGGCT
* *
78592011 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
* *
78592037 ACTAGATATAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
78592065 ACCAGAACAGATATATGTGGTAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
*
78592092 ACCA-AATCAGATAATTTGTGGCATAGCC
1 ACCAGAA-CAGATAA--TGTGGCAGAGCC
78592120 ACCAG
1 ACCAG
78592125 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
26 8 0.11
27 34 0.47
28 30 0.42
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:78592121 original size:55 final size:54
Alignment explanation
Indices: 78592011--78592124 Score: 133
Period size: 55 Copynumber: 2.1 Consensus size: 54
78592001 CAGCATGGCT
* *
78592011 ACCAGAACAGATAATGTGACAGAGTCACTAGATATAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGATATAGATAATCGTGGCAGAGCC
** * *
78592065 ACCAGAACAGATATATGTGGTAGAGCCACCA-A-ATCAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGATAT-AGATAA-TCGTGGCAGAGCC
78592120 ACCAG
1 ACCAG
78592125 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.04
54 20 0.39
55 29 0.57
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGATATAGATAATCGTGGCAGAGCC
Found at i:78595534 original size:40 final size:40
Alignment explanation
Indices: 78595479--78595630 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
78595469 ATAACCACAA
* * *
78595479 GCACAATTGCCTTCGGGTCTTAACCTGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
78595519 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
78595559 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
78595599 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
78595631 CATTCAAATG
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 96 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:78595607 original size:80 final size:80
Alignment explanation
Indices: 78595479--78595630 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
78595469 ATAACCACAA
* * * * * *
78595479 GCACAATTGCCTTCGGGTCTTAACCTGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAGCAACTAGCACAAATGCCTTCGGGACTTAGCC
78595544 CGGATATATCAACTC
66 CGGATATATCAACTC
* * *
78595559 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-AAAGCAACTAGCACAAATGCCTTCGGGACTTAGC
78595623 CCGGATAT
65 CCGGATAT
78595631 CATTCAAATG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 59 0.95
81 3 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAGCAACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATATATCAACTC
Found at i:78602478 original size:28 final size:28
Alignment explanation
Indices: 78602438--78602493 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
78602428 CCATACTCAT
78602438 GCCGTTTGTTTCTAATGAAACTAGACTC
1 GCCGTTTGTTTCTAATGAAACTAGACTC
78602466 GCCGTTTGTTTCTAATGAAACTAGACTC
1 GCCGTTTGTTTCTAATGAAACTAGACTC
78602494 AAAGGGGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (28 bp):
GCCGTTTGTTTCTAATGAAACTAGACTC
Found at i:78603577 original size:40 final size:40
Alignment explanation
Indices: 78603502--78603712 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
78603492 TCTTCAGAAT
* * * *
78603502 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
78603541 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
78603581 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
78603621 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
78603661 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
78603701 TTAGCCCGGATA
1 TTAGCCCGGATA
78603713 TCATTCAAAT
Statistics
Matches: 154, Mismatches: 15, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
39 5 0.03
40 145 0.94
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:78605092 original size:5 final size:5
Alignment explanation
Indices: 78605082--78605179 Score: 74
Period size: 5 Copynumber: 18.2 Consensus size: 5
78605072 TGAATCCTCC
*
78605082 TATTT TATTT TA-TT TATTCT TATTTT TATTT T-CTT TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TA-TTT
* *
78605128 TATTTT TCTTT TGATTTT TATTT TCATTT CAATTT TATTAT TATTT TATTT
1 TA-TTT TATTT T-A-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT
78605179 T
1 T
78605180 GAAAGACATA
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
4 7 0.09
5 34 0.44
6 30 0.39
7 6 0.08
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:78605123 original size:26 final size:25
Alignment explanation
Indices: 78605090--78605139 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
78605080 CCTATTTTAT
78605090 TTTATTTATTCTTATTTTTATTTTC
1 TTTATTTATTCTTATTTTTATTTTC
* *
78605115 TTTATTTTATTTTTATTTTTCTTTT
1 TTTA-TTTATTCTTATTTTTATTTT
78605140 GATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTATTTATTCTTATTTTTATTTTC
Found at i:78605137 original size:35 final size:38
Alignment explanation
Indices: 78605082--78605174 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 38
78605072 TGAATCCTCC
78605082 TATTTTA-TTTTATTTATTC-TT-ATTTTTATTTTC-TT
1 TATTTTATTTTTATTT-TTCTTTGATTTTTATTTTCATT
78605117 TATTTTATTTTTATTTTTCTTTTGATTTTTATTTTCATT
1 TATTTTATTTTTATTTTTC-TTTGATTTTTATTTTCATT
*
78605156 TCAATTTTATTATTATTTT
1 T--ATTTTATTTTTATTTT
78605175 ATTTTGAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
35 10 0.20
36 8 0.16
37 2 0.04
38 12 0.24
39 3 0.06
41 15 0.30
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.75
Consensus pattern (38 bp):
TATTTTATTTTTATTTTTCTTTGATTTTTATTTTCATT
Found at i:78605146 original size:7 final size:6
Alignment explanation
Indices: 78605094--78605179 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
78605084 TTTTATTTTA
* * * *
78605094 TTTATT CTTATT TTTATT TTCTTTAT TTTATT TTTATT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TT-TAT-T TTTATT TTTATT TTTATT TTTATT
* * * *
78605144 TTTATT TTCA-T TTCAAT TTTATT ATTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
78605180 GAAAGACATA
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
5 9 0.14
6 47 0.75
7 4 0.06
8 3 0.05
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:78608311 original size:50 final size:50
Alignment explanation
Indices: 78608231--78608359 Score: 177
Period size: 50 Copynumber: 2.6 Consensus size: 50
78608221 CACGCGATCA
* *
78608231 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGATAAGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTC
* * **
78608281 ACGTGTGTAGTACTAAGTGCAGGCTTCTACGTGTACCAGATTGATTGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTC
* * *
78608331 GCATGCGTAGTACTAAGTGCAGGCTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTA
78608360 TGCATACCAG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (50 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTC
Found at i:78608591 original size:16 final size:16
Alignment explanation
Indices: 78608570--78608600 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78608560 AGAATGGAGT
78608570 AAGTGAAATTATGTAG
1 AAGTGAAATTATGTAG
*
78608586 AAGTGAAATTTTGTA
1 AAGTGAAATTATGTA
78608601 ATAAAACAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
AAGTGAAATTATGTAG
Found at i:78615455 original size:56 final size:56
Alignment explanation
Indices: 78615369--78615519 Score: 203
Period size: 56 Copynumber: 2.7 Consensus size: 56
78615359 GAAGTATGTG
* * * *
78615369 GCATCGATATGCGACTCCTATATATATGTGCGAGTAAGTCCACGTTTAATACGTTA
1 GCATCGATATGTGACTCCAATATATATGTGCGAGTAAGACCACGTTTAATACATTA
* * * *
78615425 GCATCGATATGTGACTCCGATATATGTGTGCAAGTAAGACCACGTTTAATACATTG
1 GCATCGATATGTGACTCCAATATATATGTGCGAGTAAGACCACGTTTAATACATTA
* * *
78615481 GCATCAATATATGACTCCAATATATATGTACGAGTAAGA
1 GCATCGATATGTGACTCCAATATATATGTGCGAGTAAGA
78615520 TGATATGTGA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 82 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (56 bp):
GCATCGATATGTGACTCCAATATATATGTGCGAGTAAGACCACGTTTAATACATTA
Found at i:78617748 original size:25 final size:25
Alignment explanation
Indices: 78617712--78617780 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
78617702 CTCTTTTAAT
*
78617712 AACT-GGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
78617736 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
78617761 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
78617781 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 4 0.10
25 38 0.90
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:78617755 original size:24 final size:24
Alignment explanation
Indices: 78617699--78617780 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
78617689 CTGGAGCCCT
*
78617699 AGCCTCTTTTAAT-AACT-GGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
78617722 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
*
78617747 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
78617772 AGCCCTTTT
1 AGCCCTTTT
78617781 AGCACTTCCT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.02
23 10 0.19
24 8 0.15
25 34 0.64
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:78618004 original size:27 final size:28
Alignment explanation
Indices: 78617942--78618005 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
78617932 CAGTCACTTG
*
78617942 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
78617970 CCC-TAAGGGCAAAATTGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
78617996 CCCACAAGGG
1 CCCACAAGGG
78618006 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.19
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:78618123 original size:27 final size:27
Alignment explanation
Indices: 78617986--78618180 Score: 160
Period size: 27 Copynumber: 7.2 Consensus size: 27
78617976 GGGCAAAATT
* * * * **
78617986 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
78618013 GTAATTCTACCCTACAGGGTTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
* ** **
78618040 GTATTTCTACCCTACAAAGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
78618067 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
78618094 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* ** *
78618121 GTAATTTTA-CAAACCATGGGTATTTTA
1 GTAATTCTACCCTA-CAGGGGTATTTTA
* **
78618148 GTAATTTTA-CAAACCAGGGGTATTTTA
1 GTAATTCTACCCTA-CAGGGGTATTTTA
78618175 GTAATT
1 GTAATT
78618181 TTACTGATCA
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 142 0.99
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:78618152 original size:81 final size:81
Alignment explanation
Indices: 78618003--78618234 Score: 204
Period size: 81 Copynumber: 2.9 Consensus size: 81
78617993 TACCCCACAA
* * * ** * *
78618003 GGGTATCTCGGTAATTCTACCCTACAGGGTTATTTTGGT-ATTTCTACCCTA-CAAAGGTATTTC
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTT-TA-CAAACCAAGGGTATTTT
* ** *
78618066 GGTAATTCTACCCTA-TAG
64 AGTAATTCTA-CAAACCAG
* *
78618084 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTACAAACCATGGGTATTTTAG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
*
78618149 TAATTTTACAAACCAG
66 TAATTCTACAAACCAG
* * * * **
78618165 GGGTATTTTAGTAATTTTA--CTGATCAAGGGTATTTTGGTACTTTTGTAAACCAAGGGTATTTT
1 GGGTATTTCAGTAATTCTACCCT-A-CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
78618228 AGTAATT
64 AGTAATT
78618235 TTGTAAATTG
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
79 2 0.02
80 5 0.04
81 113 0.91
82 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (81 bp):
GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
TAATTCTACAAACCAG
Found at i:78618181 original size:27 final size:27
Alignment explanation
Indices: 78618082--78618236 Score: 168
Period size: 27 Copynumber: 5.7 Consensus size: 27
78618072 TCTACCCTAT
* * **
78618082 AGGGGTATTTCAGTAATTCTACCCTA-C
1 AGGGGTATTTTAGTAATTTTA-CAAACC
78618109 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTAGTAATTTTACAAACC
*
78618136 ATGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTAGTAATTTTACAAACC
** *
78618163 AGGGGTATTTTAGTAATTTTACTGATC
1 AGGGGTATTTTAGTAATTTTACAAACC
* * * **
78618190 AAGGGTATTTTGGTACTTTTGTAAACC
1 AGGGGTATTTTAGTAATTTTACAAACC
*
78618217 AAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTAGTAATTTT
78618237 GTAAATTGAG
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
26 2 0.02
27 106 0.98
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTAGTAATTTTACAAACC
Done.