Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 140 of 187
Found at i:42197924 original size:101 final size:101
Alignment explanation
Indices: 42197746--42197930 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
42197736 GTTCAGTTCA
* *
42197746 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCAATACACGTAGTAGCCTGCA
42197811 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * *
42197848 CATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCAGTGCACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCAATACACGTAGTAGCCTGCA
42197912 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
42197931 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCAATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:42199141 original size:66 final size:66
Alignment explanation
Indices: 42199059--42199190 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
42199049 AATTACACAA
42199059 AATGCCAAGCCATCATAATCTACTATCTTATTTATAGTCTAATTACCATATAAGCGTCGGAATGC
1 AATGCCAAGCCATCATAATCTACTATCTTATTTATAGTCTAATTACCATATAAGCGTCGGAATGC
42199124 C
66 C
*
42199125 AATGCCAAGCCATCATAATCTACTATCTTATTTATAGTCTAATTACCATATAATCGTCGGAATGC
1 AATGCCAAGCCATCATAATCTACTATCTTATTTATAGTCTAATTACCATATAAGCGTCGGAATGC
42199190 C
66 C
42199191 GACACCCCCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (66 bp):
AATGCCAAGCCATCATAATCTACTATCTTATTTATAGTCTAATTACCATATAAGCGTCGGAATGC
C
Found at i:42202037 original size:6 final size:6
Alignment explanation
Indices: 42202028--42202066 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
42202018 CACCTGCAGA
42202028 CACTAC CACTAC CACTAC CACTAC CACTAC CACTAC CAC
1 CACTAC CACTAC CACTAC CACTAC CACTAC CACTAC CAC
42202067 CACACTGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.15
Consensus pattern (6 bp):
CACTAC
Found at i:42207597 original size:27 final size:27
Alignment explanation
Indices: 42207558--42207914 Score: 371
Period size: 27 Copynumber: 13.3 Consensus size: 27
42207548 ATTCATGGGC
* * * *
42207558 AAATAACCGAAATACCCGCAAAGGATA
1 AAATGACCAAAATACCCTCAAAGGGTA
*
42207585 AAATGACCAAAATGCCCTCAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* * **
42207612 AAAT-ATTCGAAATACCCTTGAAGGGTA
1 AAATGA-CCAAAATACCCTCAAAGGGTA
** * **
42207639 AAATGACTGAAATACCTTTGAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* * *
42207666 AAATGACTAAAATACTCTCGAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* * *
42207693 AAATGACCGAAATGCCCTCGAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
42207720 AAATGACCAAAATA-CCTCTAAAGGGTA
1 AAATGACCAAAATACCCTC-AAAGGGTA
* **
42207747 AAATGACTAAAATACCCTTGAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
42207774 AAATGACTAAAATACCCTTAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
*
42207801 AAATGACTAAAATACCC-CAAAAGGGTA
1 AAATGACCAAAATACCCTC-AAAGGGTA
** *
42207828 AAATGACTGAAATACCCTCAAAGAGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
42207855 AAATGACCAAAATACCCTCGAGGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
*
42207882 AAATGACCAAAATACCC-CATAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
42207908 AAATGAC
1 AAATGAC
42207915 TGTTATACCC
Statistics
Matches: 285, Mismatches: 39, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.06
27 262 0.92
28 5 0.02
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCAAAGGGTA
Found at i:42207704 original size:81 final size:81
Alignment explanation
Indices: 42207577--42207915 Score: 412
Period size: 81 Copynumber: 4.2 Consensus size: 81
42207567 AAATACCCGC
* * * * * *
42207577 AAAGGATAAAATGACCAAAATGCCCTCAAAGGGTAAAAT-ATTCGAAATACCCTTGAAGGGTAAA
1 AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGA-CCAAAATACCCTCGAAGGGTAAA
** *
42207641 ATGACTGAAATACCTTT
65 ATGACCAAAATACCTCT
* * * * *
42207658 GAAGGGTAAAATGACTAAAATACTCTCGAAGGGTAAAATGACCGAAATGCCCTCGAAGGGTAAAA
1 AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAA
42207723 TGACCAAAATACCTCT
66 TGACCAAAATACCTCT
** * **
42207739 AAAGGGTAAAATGACTAAAATACCCTTGAAGGGTAAAATGACTAAAATACCCTTAAAGGGTAAAA
1 AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAA
* * *
42207804 TGACTAAAATACCCCA
66 TGACCAAAATACCTCT
* * *
42207820 AAAGGGTAAAATGACTGAAATACCCTCAAAGAGTAAAATGACCAAAATACCCTCGAGGGGTAAAA
1 AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAA
*
42207885 TGACCAAAATACC-CC
66 TGACCAAAATACCTCT
*
42207900 ATAGGGTAAAATGACT
1 AAAGGGTAAAATGACT
42207916 GTTATACCCT
Statistics
Matches: 223, Mismatches: 34, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
80 16 0.07
81 206 0.92
82 1 0.00
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.19
Consensus pattern (81 bp):
AAAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAA
TGACCAAAATACCTCT
Found at i:42208125 original size:26 final size:26
Alignment explanation
Indices: 42208089--42208165 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 26
42208079 TTGCCACATA
42208089 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * *
42208115 TACTGTCACTGGGCAGCTTTGTTACGT
1 TACTGTTACT-GGCAGCTTTGCTGCGT
* * *
42208142 CACTATTACTGGCAGCTTTACTGC
1 TACTGTTACTGGCAGCTTTGCTGC
42208166 AATATTGGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:42208315 original size:28 final size:30
Alignment explanation
Indices: 42208283--42208352 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
42208273 CTGATTATTG
*
42208283 TATTGGGCTAAGGCTC-C-CACTGTTACTA
1 TATTGGGCTAAGGCACACACACTGTTACTA
*
42208311 TATTGGGCTAAGGCACACACACTGTTACTG
1 TATTGGGCTAAGGCACACACACTGTTACTA
*
42208341 TAATGGGCTAAG
1 TATTGGGCTAAG
42208353 TTCCACACTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 15 0.41
29 1 0.03
30 21 0.57
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (30 bp):
TATTGGGCTAAGGCACACACACTGTTACTA
Found at i:42212388 original size:44 final size:45
Alignment explanation
Indices: 42212339--42212433 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
42212329 TTACACCTCT
* * *
42212339 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
42212383 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
42212428 ATTACA
1 ATTACA
42212434 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:42212433 original size:16 final size:16
Alignment explanation
Indices: 42212414--42212465 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
42212404 GATTTGCTAT
* * *
42212414 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
42212430 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
42212446 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
42212462 TACA
1 TACA
42212466 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:42221152 original size:16 final size:15
Alignment explanation
Indices: 42221128--42221158 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
42221118 TAATATGAAT
42221128 GATATGTGATATATG
1 GATATGTGATATATG
42221143 GATATGGTGATATATG
1 GATAT-GTGATATATG
42221159 CATACCTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
GATATGTGATATATG
Found at i:42223732 original size:46 final size:46
Alignment explanation
Indices: 42223619--42223743 Score: 171
Period size: 46 Copynumber: 2.7 Consensus size: 46
42223609 TCGGAGAGTG
* * *
42223619 CCATGGTGTCTTTCAACCATGGTCTTATTTA-TTCCCGTCTTGATG
1 CCATAGTGTCTTTCAACCATGGTCTTATTTATTTCCCGTCGTGATC
* ** *
42223664 CCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCGTGTTC
1 CCATAGTGTCTTTCAACCATGGTCTTATTTATTTCCCGTCGTGATC
*
42223710 CCATAGTGTCTTTCAACTATGGTCTTATTTATTT
1 CCATAGTGTCTTTCAACCATGGTCTTATTTATTT
42223744 GATTTGTGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 29 0.41
46 41 0.59
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (46 bp):
CCATAGTGTCTTTCAACCATGGTCTTATTTATTTCCCGTCGTGATC
Found at i:42224863 original size:49 final size:49
Alignment explanation
Indices: 42224810--42224908 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
42224800 AACTTATGCG
42224810 ACTTTTAAGATTTAGTCATTTTTCTTTAAGTAACTATCTAAACATTAAA
1 ACTTTTAAGATTTAGTCATTTTTCTTTAAGTAACTATCTAAACATTAAA
*
42224859 ACTTTTAAGATTTAGTCATTTTTCTTTAATTAACTATCTAAACATTAAA
1 ACTTTTAAGATTTAGTCATTTTTCTTTAAGTAACTATCTAAACATTAAA
42224908 A
1 A
42224909 TTTATTAACC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.45
Consensus pattern (49 bp):
ACTTTTAAGATTTAGTCATTTTTCTTTAAGTAACTATCTAAACATTAAA
Found at i:42230830 original size:40 final size:40
Alignment explanation
Indices: 42230775--42231045 Score: 189
Period size: 40 Copynumber: 6.8 Consensus size: 40
42230765 AATACACGTA
* * * * * *
42230775 ACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATATAAC
1 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATC
* *
42230815 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGAAACATC
1 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATC
* * * * *
42230855 ACTAGCATGAATGCTCTTTGGGACTTAGCCCGGTTATATC
1 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATC
* * *
42230895 ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATTTAGTA
1 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA-TC
* * *
42230936 ACTC-GCACCAATGC-CTTCGG-GCTTAGCCCGGA-ATTAGTA
1 AC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-TA-TC
* * * *
42230975 ACTC-GCACAAATGC-CTTCGGATCTTAGTCCGGATATGGTC
1 AC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT-ATC
* * *
42231015 ACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCG
1 AC-CAGCACGAATGCTCTTCGGAACTTAGCCCG
42231046 AACATCATTC
Statistics
Matches: 189, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
39 35 0.19
40 137 0.72
41 17 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATC
Found at i:42230988 original size:80 final size:78
Alignment explanation
Indices: 42230790--42231045 Score: 250
Period size: 80 Copynumber: 3.2 Consensus size: 78
42230780 CATGATTGCT
* * * * * *
42230790 CTTCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGAAACA-T
1 CTTCGGGACTTAGCCCGGTTAT-ACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAGT
*
42230854 CACTAGCATGAATGC
65 CACTAGCA-CAATGC
* *
42230869 TCTTTGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATTTAG
1 -CTTCGGGACTTAGCCCGGTTATA-CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAG
* *
42230934 TAACTCGCACCAATGC
64 TCACTAGCA-CAATGC
* * * * *
42230950 CTTCGGG-CTTAGCCCGGAATTAGTA-ACTCGCACAAATGC-CTTCGGATCTTAGTCCGGATATG
1 CTTCGGGACTTAGCCCGG--TTA-TACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
*
42231012 GTCACTTAGCACAAAGC
63 GTCAC-TAGCACAATGC
42231029 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
42231046 AACATCATTC
Statistics
Matches: 147, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
79 46 0.31
80 84 0.57
81 15 0.10
82 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGTTATACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAGTC
ACTAGCACAATGC
Found at i:42231393 original size:29 final size:29
Alignment explanation
Indices: 42231359--42231430 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
42231349 ATCAACCACG
* *
42231359 CACACTTAGTGCCATGTACTTT-AAACTCA
1 CACACTTAGTGCCATGCA-TTTCAAACCCA
* *
42231388 CACACTTAGTGCCATGCATTTCAAGCCCG
1 CACACTTAGTGCCATGCATTTCAAACCCA
42231417 CACACTTAGTGCCA
1 CACACTTAGTGCCA
42231431 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACCCA
Found at i:42231473 original size:43 final size:43
Alignment explanation
Indices: 42231412--42231514 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
42231402 TGCATTTCAA
42231412 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
42231455 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
42231498 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
42231515 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:42234316 original size:29 final size:27
Alignment explanation
Indices: 42234298--42234367 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
42234288 ATATTAAGTC
42234298 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
42234325 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
42234353 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
42234368 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:42234361 original size:28 final size:28
Alignment explanation
Indices: 42234298--42234395 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
42234288 ATATTAAGTC
*
42234298 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
42234325 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42234353 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
42234382 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42234396 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42241321 original size:15 final size:16
Alignment explanation
Indices: 42241301--42241330 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42241291 AAGATCATGA
42241301 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
42241316 AATCATAACCTTACT
1 AATCATAACCTTACT
42241331 GAGGGTACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:42241593 original size:42 final size:41
Alignment explanation
Indices: 42241496--42241604 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 41
42241486 TACCGTACCA
* ****
42241496 ATGCCATATCCTAGATATGGTCTTATTGTGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTATACAAATCTCATATCG
* * *
42241537 ATGCTAATAGCCCAGCTATGGTCTTATACAAAGTCTCATATCG
1 ATGC-CATATCCCAGATATGGTCTTATACAAA-TCTCATATCG
42241580 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
42241605 CAAGTAAATC
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 4 0.07
42 37 0.67
43 14 0.25
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTATACAAATCTCATATCG
Found at i:42246656 original size:11 final size:11
Alignment explanation
Indices: 42246640--42246695 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
42246630 CATAATTGAT
42246640 ATGATATGCAC
1 ATGATATGCAC
*
42246651 ATGATATG--T
1 ATGATATGCAC
42246660 ATGATATGCAC
1 ATGATATGCAC
*
42246671 ATGATATG--T
1 ATGATATGCAC
*
42246680 ATGAAATGCAC
1 ATGATATGCAC
42246691 ATGAT
1 ATGAT
42246696 GAATTCATAA
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:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42246662 original size:20 final size:20
Alignment explanation
Indices: 42246639--42246695 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
42246629 ACATAATTGA
42246639 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
42246659 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
42246679 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
42246696 GAATTCATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:42246774 original size:26 final size:26
Alignment explanation
Indices: 42246745--42246893 Score: 228
Period size: 26 Copynumber: 5.8 Consensus size: 26
42246735 GAGGAAGTGC
*
42246745 AAAGGGCTTATGCCCCAATTTATTGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
42246771 AAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
**
42246797 AAAGGGCTTATGCCCCAGTTTACCGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
42246823 AAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
* **
42246849 AAAGGGCTT-TGCCCCAATTTACCGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
*
42246874 AAAGGGCTTTTGCCCCAGTT
1 AAAGGGCTTATGCCCCAGTT
42246894 ATTAAAGAGG
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 22 0.19
26 91 0.81
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAGGGCTTATGCCCCAGTTTATTGA
Found at i:42246888 original size:51 final size:52
Alignment explanation
Indices: 42246745--42246893 Score: 255
Period size: 52 Copynumber: 2.9 Consensus size: 52
42246735 GAGGAAGTGC
**
42246745 AAAGGGCTTATGCCCCAATTTATTGAAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTTTATTGA
*
42246797 AAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTTTATTGA
*
42246849 AAAGGGCTT-TGCCCCAATTTACCGAAAAGGGCTTTTGCCCCAGTT
1 AAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTT
42246894 ATTAAAGAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 34 0.37
52 58 0.63
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (52 bp):
AAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTTTATTGA
Found at i:42262091 original size:21 final size:23
Alignment explanation
Indices: 42262067--42262110 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
42262057 ATAGGAATTG
42262067 GGTGT-GCCGTTTTCTC-CTTTT
1 GGTGTAGCCGTTTTCTCTCTTTT
* *
42262088 GGTGTAGTCTTTTTCTCTCTTTT
1 GGTGTAGCCGTTTTCTCTCTTTT
42262111 CCTTTCCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.02, C:0.20, G:0.20, T:0.57
Consensus pattern (23 bp):
GGTGTAGCCGTTTTCTCTCTTTT
Found at i:42263310 original size:9 final size:10
Alignment explanation
Indices: 42263298--42263354 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
42263288 TACGTGGGAT
42263298 ATGATAT-AC
1 ATGATATGAC
*
42263307 ATGAT-TGAT
1 ATGATATGAC
42263316 ATGATATGCAC
1 ATGATATG-AC
*
42263327 ATGATATG-T
1 ATGATATGAC
42263336 ATGATATGCAC
1 ATGATATG-AC
42263347 ATGATATG
1 ATGATATG
42263355 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:42263330 original size:20 final size:20
Alignment explanation
Indices: 42263297--42263371 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
42263287 ATACGTGGGA
42263297 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
42263314 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
42263335 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
42263355 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
42263372 GAATTCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:42263332 original size:11 final size:11
Alignment explanation
Indices: 42263316--42263371 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
42263306 CATGATTGAT
42263316 ATGATATGCAC
1 ATGATATGCAC
*
42263327 ATGATATG--T
1 ATGATATGCAC
42263336 ATGATATGCAC
1 ATGATATGCAC
*
42263347 ATGATATG--T
1 ATGATATGCAC
*
42263356 ATGAAATGCAC
1 ATGATATGCAC
42263367 ATGAT
1 ATGAT
42263372 GAATTCATAA
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:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42263477 original size:25 final size:26
Alignment explanation
Indices: 42263421--42263568 Score: 219
Period size: 26 Copynumber: 5.8 Consensus size: 26
42263411 GAGGAAGTGC
42263421 AAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
42263447 AAAGGGCTTATGCCCCAGTTT-TTGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
* **
42263472 AAAGGGCTTATGCCCTAGTTTACCGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
42263498 AAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
* **
42263524 AAAAGGCTT-TGCCCCAGTTTACCGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
*
42263549 AAAGGGCTTTTGCCCCAGTT
1 AAAGGGCTTATGCCCCAGTT
42263569 ATTAAAGAGG
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
25 46 0.42
26 64 0.58
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAGGGCTTATGCCCCAGTTTATTGA
Found at i:42263500 original size:51 final size:52
Alignment explanation
Indices: 42263421--42263568 Score: 237
Period size: 51 Copynumber: 2.9 Consensus size: 52
42263411 GAGGAAGTGC
**
42263421 AAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTT-TTGA
1 AAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGA
*
42263472 AAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGA
* *
42263524 AAAAGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTT
1 AAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
42263569 ATTAAAGAGG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 78 0.87
52 12 0.13
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGA
Found at i:42279732 original size:30 final size:31
Alignment explanation
Indices: 42279684--42279741 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
42279674 TTTTTGAGCC
42279684 TAGGGGCAAAATCATAATTCTG-CAAAGGTT
1 TAGGGGCAAAATCATAATTCTGCCAAAGGTT
*
42279714 TAGGGGCAAAATTC-TAATTTTGCCAAAG
1 TAGGGGCAAAA-TCATAATTCTGCCAAAG
42279742 TTTGAGTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (31 bp):
TAGGGGCAAAATCATAATTCTGCCAAAGGTT
Found at i:42280346 original size:44 final size:44
Alignment explanation
Indices: 42280281--42280367 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
42280271 TTGATATCTC
* *
42280281 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
* *
42280325 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGCAATTAAGGAAGAATTGACGG
42280368 TTAAGGATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 3 0.08
44 35 0.92
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:42280568 original size:47 final size:47
Alignment explanation
Indices: 42280504--42280724 Score: 212
Period size: 47 Copynumber: 4.6 Consensus size: 47
42280494 GCATTGGCAC
* *
42280504 TAAGACAAGGATACCATGGAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGCAAGACCATGTTTGGAACATGGCATTTGG
* *
42280551 TAAGATAAGGGTACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGCAAGACCATGTTTGGAACATGGCATTTGG
* *** *
42280598 TAAGATAAGGATATCATGCAAGACCATGCCAAGG--CATGGCATTGATAAGTTCTA
1 TAAGATAAGGATACCATGCAAGACCATG-TTTGGAACATGGCATT--T--G----G
* * *
42280652 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTCGG
1 TAAGATAAGGATACCATGCAAGACCATGTTTGGAACATGGCATTTGG
* * *
42280699 TAAGATAAAGATATCATGTAAGACCA
1 TAAGATAAGGATACCATGCAAGACCA
42280725 AGCCAAGGTA
Statistics
Matches: 142, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
46 9 0.06
47 92 0.65
48 3 0.02
50 1 0.01
51 1 0.01
53 2 0.01
54 25 0.18
55 9 0.06
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (47 bp):
TAAGATAAGGATACCATGCAAGACCATGTTTGGAACATGGCATTTGG
Found at i:42280662 original size:54 final size:54
Alignment explanation
Indices: 42280598--42280912 Score: 267
Period size: 54 Copynumber: 6.0 Consensus size: 54
42280588 TGGCATTTGG
* * *
42280598 TAAGATAAGGATATCATGCAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
*** *
42280652 TAAGACAAGGATACCATGTAAGACCATG-TTTGGAACATGGCATTCGGTAAG----A
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGG--CATGGCATT-GATAAGTTCTA
* * *
42280704 T---A-AA-GATATCATGTAAGACCAAGCCAAGGTATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * *
42280753 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
* * * *
42280808 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGAC-AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * *
42280861 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
42280913 AAAAAGGAAA
Statistics
Matches: 212, Mismatches: 33, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
45 5 0.02
46 8 0.04
47 17 0.08
48 4 0.02
49 3 0.01
52 6 0.03
53 46 0.22
54 62 0.29
55 52 0.25
56 9 0.04
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:42280678 original size:101 final size:101
Alignment explanation
Indices: 42280551--42280889 Score: 403
Period size: 101 Copynumber: 3.3 Consensus size: 101
42280541 TGGCATTTGG
* *
42280551 TAAGATAAGGGTACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
*
42280616 CAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* *
42280652 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTCGGTAAGATAAAGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
* *
42280717 TAAGACCAAGCCAAGGTATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * *** ** *
42280753 TAAGGCAAGGAAATCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTACTATAAGGCAAA
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG-ATA
* *
42280817 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
61 --T--CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* *
42280861 TAAGGCAAGGATACCACGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
42280890 CAAGACATGG
Statistics
Matches: 204, Mismatches: 25, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
100 10 0.05
101 121 0.59
102 1 0.00
103 1 0.00
104 7 0.03
105 2 0.01
107 1 0.00
108 27 0.13
109 34 0.17
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (101 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:42280832 original size:55 final size:54
Alignment explanation
Indices: 42280708--42280901 Score: 239
Period size: 55 Copynumber: 3.6 Consensus size: 54
42280698 GTAAGATAAA
* * ** *
42280708 GATATCATGTAAGACCAAGCCAAGGTATGGCATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
* * *
42280762 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAG
* * *
42280818 G-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
* *
42280870 GATACCACGTAAGACCATGTCAAGACATGGCA
1 GATACCATGTAAGACCATGCCAAGACATGGCA
42280902 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 37 0.31
55 43 0.36
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
Found at i:42292295 original size:48 final size:46
Alignment explanation
Indices: 42292224--42292344 Score: 125
Period size: 46 Copynumber: 2.6 Consensus size: 46
42292214 AAGCTAACGC
* * * **
42292224 CATGTCCCAGATAGGTCTTACACTAGCTTCTATCTCGCGCGGCAGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCTAGC-CGCAAGGCAGATG
* * * * * *
42292272 CATGTCCAAGACATGTCTTACACTATCTCTCGCCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTAGCCGCAAGGCAGATG
42292318 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
42292345 ACACAAATGA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
46 33 0.55
47 4 0.07
48 23 0.38
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTAGCCGCAAGGCAGATG
Found at i:42295062 original size:53 final size:53
Alignment explanation
Indices: 42294879--42295085 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
42294869 ATTAGGATTT
* * * * *
42294879 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
42294933 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
42294988 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
42295041 AAGGATACCATGTAAGTCCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
42295086 AAAAAGGAAA
Statistics
Matches: 123, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 45 0.37
54 38 0.31
55 40 0.33
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:42308800 original size:25 final size:24
Alignment explanation
Indices: 42308762--42308831 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
42308752 AGGAAGTGCT
*
42308762 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
42308786 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
42308811 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
42308832 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:42308844 original size:24 final size:24
Alignment explanation
Indices: 42308761--42308844 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
42308751 GAGGAAGTGC
* *
42308761 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
42308786 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
42308810 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
42308834 TAAAAGAGGCT
1 TAAAAG-GGCT
42308845 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:42309036 original size:41 final size:42
Alignment explanation
Indices: 42308979--42309070 Score: 159
Period size: 41 Copynumber: 2.2 Consensus size: 42
42308969 TAGTCTCCCC
*
42308979 AAATGGGCTTGCATACATTCATTGACATGACATGTGATATT-
1 AAATGGGCTTGCATACATCCATTGACATGACATGTGATATTG
*
42309020 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATGACATGTGATATTG
42309062 AAATGGGCT
1 AAATGGGCT
42309071 AAGGGCCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 39 0.81
42 9 0.19
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATGACATGTGATATTG
Found at i:42309131 original size:31 final size:31
Alignment explanation
Indices: 42309092--42309206 Score: 198
Period size: 31 Copynumber: 3.8 Consensus size: 31
42309082 CGTTTATAGT
*
42309092 AAAA-GCTTCAGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
42309122 AAAAGGCTTCGGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
42309153 AAAAGGCTTCGGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
*
42309184 GAAAGGCTTCGGCCCAGT-ATATG
1 AAAAGGCTTCGGCCCAGTGATATG
42309207 CCAAGACTAA
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
30 9 0.11
31 73 0.89
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGATTTATG
Found at i:42313562 original size:147 final size:147
Alignment explanation
Indices: 42313302--42313595 Score: 579
Period size: 147 Copynumber: 2.0 Consensus size: 147
42313292 GACCTATTCC
42313302 TATGTTTGCATGAAATTGATGCCTAGTATGAACATGTCCATTGAGTCTACGGGATTTGTGATTAA
1 TATGTTTGCATGAAATTGATGCCTAGTATGAACATGTCCATTGAGTCTACGGGATTTGTGATTAA
42313367 AGTATCGAATCCATTGGGTCAGTATGTATTAGTAGACAAAGTATGTAAAAATTGTCCTTTGATGA
66 AGTATCGAATCCATTGGGTCAGTATGTATTAGTAGACAAAGTATGTAAAAATTGTCCTTTGATGA
42313432 TTAGAGGTTACTATTTT
131 TTAGAGGTTACTATTTT
42313449 TATGTTTGCATGAAATTGATGCCTAGTATGAACATGTCCATTGAGTCTACGGGATTTGTGATTAA
1 TATGTTTGCATGAAATTGATGCCTAGTATGAACATGTCCATTGAGTCTACGGGATTTGTGATTAA
42313514 AGTATCGAATCCATTGGGTCAGTATGTATTAGTAGACAAAGTATGTAAAAATTGTCCTTTGATGA
66 AGTATCGAATCCATTGGGTCAGTATGTATTAGTAGACAAAGTATGTAAAAATTGTCCTTTGATGA
*
42313579 TTAGAGGTTACTGTTTT
131 TTAGAGGTTACTATTTT
42313596 CTGGCTGATC
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (147 bp):
TATGTTTGCATGAAATTGATGCCTAGTATGAACATGTCCATTGAGTCTACGGGATTTGTGATTAA
AGTATCGAATCCATTGGGTCAGTATGTATTAGTAGACAAAGTATGTAAAAATTGTCCTTTGATGA
TTAGAGGTTACTATTTT
Found at i:42317511 original size:53 final size:53
Alignment explanation
Indices: 42317419--42317523 Score: 124
Period size: 53 Copynumber: 2.0 Consensus size: 53
42317409 ATAAACTACT
* * * * *
42317419 ATAAGGCAAAGATCTCATGTAAGACCATGCTAAGGCATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATCTCACGTAAAACCATGCTAAGACATGGAAATGGTAAGTTC
*
42317472 ATAAGGCAAGGATAC-CACGTAAAACCATG-TCAAGACATGGAAATGGTAAGTT
1 ATAAGGCAAAGAT-CTCACGTAAAACCATGCT-AAGACATGGAAATGGTAAGTT
42317524 AAAAAGGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
52 1 0.02
53 42 0.95
54 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (53 bp):
ATAAGGCAAAGATCTCACGTAAAACCATGCTAAGACATGGAAATGGTAAGTTC
Found at i:42320618 original size:14 final size:13
Alignment explanation
Indices: 42320595--42320626 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
42320585 AGGATATCAA
42320595 AACAATAATTAAG
1 AACAATAATTAAG
42320608 AACACATAATTAAG
1 AACA-ATAATTAAG
42320622 AACAA
1 AACAA
42320627 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:42320887 original size:14 final size:13
Alignment explanation
Indices: 42320864--42320895 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
42320854 AGGATAACAA
42320864 AACAATAATTAAG
1 AACAATAATTAAG
42320877 AACACATAATTAAG
1 AACA-ATAATTAAG
42320891 AACAA
1 AACAA
42320896 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:42320965 original size:269 final size:268
Alignment explanation
Indices: 42320486--42321023 Score: 1040
Period size: 269 Copynumber: 2.0 Consensus size: 268
42320476 GTCACCCTAT
42320486 ATCTGGGCGCACAATCAACTCCACTTAATTATGATAAATGTACTCTTAGACAGGGTCTATTCCTC
1 ATCTGGGCGCACAATCAACTCCACTTAATTATGATAAATGTACTCTTAGACAGGGTCTATTCCTC
* * *
42320551 TTCTAAAGAAGAGCTTATCTTGAATCAGTATCCTAGGATATCAAAACAATAATTAAGAACACATA
66 TTCTAAAGAAGAGCTTATCTTGAAACAGTATACTAGGATAACAAAACAATAATTAAGAACACATA
42320616 ATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAAAAAGATTCGTCTTAGGTTT
131 ATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAAAAAGATTCGTCTTAGGTTT
42320681 CATTCCCTTTAGGTATTTAGGGAATTTAGTTCATAACTAAATAAGAAAACATCTTGGAATAATAA
196 CATTCCCTTTAGGTATTTAGGGAATTTAGTTCATAACTAAATAAGAAAACATCTTGGAATAATAA
42320746 AGAATACA
261 AGAATACA
42320754 NATCTGGGCGCACAATCAACTCCACTTAATTATGATAAATGTACTCTTAGACAGGGTCTATTCCT
1 -ATCTGGGCGCACAATCAACTCCACTTAATTATGATAAATGTACTCTTAGACAGGGTCTATTCCT
42320819 CTTCTAAAGAAGAGCTTATCTTGAAACAGTATACTAGGATAACAAAACAATAATTAAGAACACAT
65 CTTCTAAAGAAGAGCTTATCTTGAAACAGTATACTAGGATAACAAAACAATAATTAAGAACACAT
42320884 AATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAAAAAGATTCGTCTTAGGTT
130 AATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAAAAAGATTCGTCTTAGGTT
42320949 TCATTCCCTTTAGGTATTTAGGGAATTTAGTTCATAACTAAATAAGAAAACATCTTGGAATAATA
195 TCATTCCCTTTAGGTATTTAGGGAATTTAGTTCATAACTAAATAAGAAAACATCTTGGAATAATA
42321014 AAGAATACA
260 AAGAATACA
42321023 A
1 A
42321024 AATATAAAGA
Statistics
Matches: 266, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
268 1 0.00
269 265 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (268 bp):
ATCTGGGCGCACAATCAACTCCACTTAATTATGATAAATGTACTCTTAGACAGGGTCTATTCCTC
TTCTAAAGAAGAGCTTATCTTGAAACAGTATACTAGGATAACAAAACAATAATTAAGAACACATA
ATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAAAAAGATTCGTCTTAGGTTT
CATTCCCTTTAGGTATTTAGGGAATTTAGTTCATAACTAAATAAGAAAACATCTTGGAATAATAA
AGAATACA
Found at i:42323048 original size:16 final size:17
Alignment explanation
Indices: 42323012--42323050 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
42323002 TTTTAAAAGG
42323012 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
42323029 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
42323046 AAAAC
1 AAAAC
42323051 CTAATAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:42325693 original size:48 final size:48
Alignment explanation
Indices: 42325638--42325733 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
42325628 ATTTGTCCAC
*
42325638 CTCAATCCCTTTACTAGAAATTTTATGCCCTAATACAATACCTTCTTG
1 CTCAATCCCTCTACTAGAAATTTTATGCCCTAATACAATACCTTCTTG
42325686 CTCAATCCCTCTACTAGAAATTTTATGCCCTAATACAATACCTTCTTG
1 CTCAATCCCTCTACTAGAAATTTTATGCCCTAATACAATACCTTCTTG
42325734 AACCATGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.29, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
CTCAATCCCTCTACTAGAAATTTTATGCCCTAATACAATACCTTCTTG
Found at i:42336189 original size:16 final size:16
Alignment explanation
Indices: 42336170--42336200 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42336160 CTTCTTCACT
42336170 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
42336186 TACTTACTTACTTAA
1 TACTCACTTACTTAA
42336201 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:42336206 original size:20 final size:20
Alignment explanation
Indices: 42336167--42336206 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42336157 AAACTTCTTC
* *
42336167 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
42336187 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
42336207 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:42336583 original size:108 final size:110
Alignment explanation
Indices: 42336439--42336635 Score: 308
Period size: 108 Copynumber: 1.8 Consensus size: 110
42336429 ATCCTTTTGA
* **
42336439 AACTTACCAATGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCCTTATGAA-CTAACCAA-
1 AACTTACCAATGCCATGTCTTCACATGGTCTTACATGATATCCTTGCCTTACAAACCTAACCAAT
42336502 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
66 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
42336547 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTACAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTCACATGGTCTTACATGATATCCTTGCCTTACAAACCTAACCAAT
*
42336612 TTCCATGCCTTGGCATGGTCTTAC
66 TGCCATGCCTTGGCATGGTCTTAC
42336636 GTGGTTTCCT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 49 0.62
109 7 0.09
110 23 0.29
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTCACATGGTCTTACATGATATCCTTGCCTTACAAACCTAACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:42336644 original size:55 final size:53
Alignment explanation
Indices: 42336392--42336646 Score: 250
Period size: 55 Copynumber: 4.8 Consensus size: 53
42336382 ACGTGGGTAC
* * * * *
42336392 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAA
* * *
42336441 CTTACCAATGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAA
* * *
42336494 CTAACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA--AA
* * * * *
42336549 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTACAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAA
* * * *
42336602 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACGTGGTTTCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
42336647 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
49 38 0.22
52 4 0.02
53 46 0.27
54 7 0.04
55 72 0.43
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAA
Found at i:42358484 original size:39 final size:40
Alignment explanation
Indices: 42358389--42358650 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
42358379 TTGAATGATG
*
42358389 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
42358427 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
42358468 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
42358507 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
42358546 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
42358585 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
42358624 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42358651 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 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:42369496 original size:42 final size:40
Alignment explanation
Indices: 42369427--42369556 Score: 170
Period size: 41 Copynumber: 3.2 Consensus size: 40
42369417 GATATCTTGT
* *
42369427 ACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGTCATATATAGCCGAAGCTATCTCAAATCGC
* *
42369467 ACACTAAGTGTCATATATATAGCCGAAGCTATCTCAATCTCCC
1 ACACTAAGTGTC--ATATATAGCCGAAGCTATCTCAA-ATCGC
* *
42369510 ACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATCGC
1 ACACTAAGTGTCATATATAGCCGAAGCTATCTCAAATCGC
*
42369550 ATACTAA
1 ACACTAA
42369557 ATGCCACATA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 21 0.27
41 22 0.28
42 21 0.27
43 14 0.18
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGTCATATATAGCCGAAGCTATCTCAAATCGC
Found at i:42369538 original size:41 final size:40
Alignment explanation
Indices: 42369427--42369569 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 40
42369417 GATATCTTGT
* * * *
42369427 ACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCCC
* *
42369467 ACACTAAGTGTCATATATATAGCCGAAGCTATCTCAATCTCCC
1 ACACTAAGTG-C-CATATATAGCCGAAGCTATCTCAA-ATCCC
* *
42369510 ACACTAAGTGCCATATATAGCCGAAGCTATGTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCCC
* * *
42369550 ATACTAAATGCCACATATAG
1 ACACTAAGTGCCATATATAG
42369570 TTGATTTGTC
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 30 0.34
41 22 0.25
42 22 0.25
43 13 0.15
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCCC
Found at i:42374522 original size:26 final size:26
Alignment explanation
Indices: 42374471--42374525 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
42374461 ATAAGTACGA
*
42374471 ATATATAACAAATTTTCTTTAAAAAT
1 ATATATAACAAATTTTCTATAAAAAT
*
42374497 ATATATAACAAA-TTTGTATAATAAAT
1 ATATATAACAAATTTTCTATAA-AAAT
42374523 ATA
1 ATA
42374526 CTTATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (26 bp):
ATATATAACAAATTTTCTATAAAAAT
Found at i:42378525 original size:61 final size:61
Alignment explanation
Indices: 42378399--42378537 Score: 152
Period size: 61 Copynumber: 2.3 Consensus size: 61
42378389 GTCATTCTAG
* * * * * * * ** *
42378399 ATTGCCCGAAAACAATGACTGCCATCCTAGGTTGTCCAGAAACAATGGCTTACCACCTTGG
1 ATTGCTCGACAACGATGACTGCCATCCCAAGTTGCCCAGAAACAATAGCTTACCACCCCGA
* * *
42378460 ATTGCTTGACAACGATGACTGCCATCCCAAGTTGCCCAGTAACAGTAGCTTACCACCCCGA
1 ATTGCTCGACAACGATGACTGCCATCCCAAGTTGCCCAGAAACAATAGCTTACCACCCCGA
*
42378521 ATTGCTCGACAATGATG
1 ATTGCTCGACAACGATG
42378538 GTTTCTAAAT
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (61 bp):
ATTGCTCGACAACGATGACTGCCATCCCAAGTTGCCCAGAAACAATAGCTTACCACCCCGA
Found at i:42379560 original size:15 final size:14
Alignment explanation
Indices: 42379540--42379574 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
42379530 TTTACATTTC
*
42379540 AATTTTAAATTTTAA
1 AATTTTAAA-ATTAA
42379555 AATTTTAAAATTAA
1 AATTTTAAAATTAA
42379569 AATTTT
1 AATTTT
42379575 CATAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTTTAAAATTAA
Found at i:42381948 original size:28 final size:28
Alignment explanation
Indices: 42381908--42381991 Score: 159
Period size: 28 Copynumber: 3.0 Consensus size: 28
42381898 ACCATAGGCC
42381908 CATGTGTGACATATAGTCGTATGGCTAA
1 CATGTGTGACATATAGTCGTATGGCTAA
42381936 CATGTGTGACATATAGTCGTATGGCTAA
1 CATGTGTGACATATAGTCGTATGGCTAA
*
42381964 CATGTGTGACATATAGTCGTGTGGCTAA
1 CATGTGTGACATATAGTCGTATGGCTAA
42381992 GCCATGTGGC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
CATGTGTGACATATAGTCGTATGGCTAA
Found at i:42394650 original size:6 final size:6
Alignment explanation
Indices: 42394639--42394670 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
42394629 CCTTTTTCAG
*
42394639 TTCCAT TTCCAT TTCCAT TTCCAT TTCTAT TT
1 TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TT
42394671 TTTGAGAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (6 bp):
TTCCAT
Found at i:42399754 original size:225 final size:224
Alignment explanation
Indices: 42399334--42399782 Score: 772
Period size: 225 Copynumber: 2.0 Consensus size: 224
42399324 GTTTTTGCTG
* *
42399334 GGCATTATCAAGCTAGTTATAGAAGACTATCGAGCCATCGTAGCCTGACCTCTGAACATGTCTTC
1 GGCATTATCAAGCTAGTTATAGAAGACTATCGAGCCATCGTAGCCTAACCTCCGAACATGTCTTC
* *
42399399 TAGTTTATCCAGAATTACTTTGGCAATATTGCAGCTCTTCAGCTGCTTATATAAAGTGTTGGTTA
66 TAGTTTATCCAGAATCACTTTGGCAATATTACAGCTCTTCAGCTGCTTATATAAAGTGTTGGTTA
*
42399464 TGCTTGCCAGCATATAGTAATGAGCTATCTGATCAGACTCCTTGCAACATTGTCTAGCCTCAATT
131 TGCTTGCCAGCATATAGCAATGAGCTATCTGATCAGACTCCTTGCAACATTGTCTAGCCTCAATT
42399529 TGAGTAACCGGTGGGCGCTTATTATCAAA
196 TGAGTAACCGGTGGGCGCTTATTATCAAA
42399558 GGCATTCATCAAGCTAGTTATAGAAGACTATCGAGCCATCGTAGCCTAACCTCCGAACATGTCTT
1 GGCATT-ATCAAGCTAGTTATAGAAGACTATCGAGCCATCGTAGCCTAACCTCCGAACATGTCTT
*
42399623 CTAGTTTATCCAGAATCATTTTGGCAATATTACAGCTCTTCAGCTGCTTATATAAAGTGTTGGTT
65 CTAGTTTATCCAGAATCACTTTGGCAATATTACAGCTCTTCAGCTGCTTATATAAAGTGTTGGTT
* * * * *
42399688 ATGCTTGCCAGCATATAGCAATGAGCTATCTGATCATACTTCTTGCAGCATTGTTTAGCTTCAAT
130 ATGCTTGCCAGCATATAGCAATGAGCTATCTGATCAGACTCCTTGCAACATTGTCTAGCCTCAAT
* *
42399753 TTGAGTAGCTGGTGGGCGCTTATTATCAAA
195 TTGAGTAACCGGTGGGCGCTTATTATCAAA
42399783 AACTATTTTA
Statistics
Matches: 211, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
224 6 0.03
225 205 0.97
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (224 bp):
GGCATTATCAAGCTAGTTATAGAAGACTATCGAGCCATCGTAGCCTAACCTCCGAACATGTCTTC
TAGTTTATCCAGAATCACTTTGGCAATATTACAGCTCTTCAGCTGCTTATATAAAGTGTTGGTTA
TGCTTGCCAGCATATAGCAATGAGCTATCTGATCAGACTCCTTGCAACATTGTCTAGCCTCAATT
TGAGTAACCGGTGGGCGCTTATTATCAAA
Found at i:42400254 original size:23 final size:23
Alignment explanation
Indices: 42400224--42400273 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
42400214 GTTACATAAC
*
42400224 CATGAACTTAACACCT-ATCGCAT
1 CATGAACTCAACA-CTGATCGCAT
*
42400247 CATGAACTCAACATTGATCGCAT
1 CATGAACTCAACACTGATCGCAT
42400270 CATG
1 CATG
42400274 CACAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (23 bp):
CATGAACTCAACACTGATCGCAT
Found at i:42414411 original size:29 final size:29
Alignment explanation
Indices: 42414356--42414445 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
42414346 CCTGTATCTA
* *
42414356 GCCCATTAAGCCC-AATCATAT-TCATATG
1 GCCCATTAGGCCCAAATCACATAT-ATATG
*
42414384 GCCCATTAGGCCCAAATCACCTATATATG
1 GCCCATTAGGCCCAAATCACATATATATG
* * * *
42414413 GCTCATTTGGTCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATATATATG
42414442 GCCC
1 GCCC
42414446 GCTAGGCCTA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.24
29 38 0.75
30 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATATATATG
Found at i:42414569 original size:10 final size:9
Alignment explanation
Indices: 42414536--42414560 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
42414526 AGCCCATCAG
42414536 GCCCATTTA
1 GCCCATTTA
42414545 GCCCATTTA
1 GCCCATTTA
42414554 GCCCATT
1 GCCCATT
42414561 CTGGCCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.36, G:0.12, T:0.32
Consensus pattern (9 bp):
GCCCATTTA
Found at i:42414694 original size:8 final size:8
Alignment explanation
Indices: 42414678--42414760 Score: 60
Period size: 8 Copynumber: 10.4 Consensus size: 8
42414668 GTAGCCAAAC
*
42414678 TTTCAGCT
1 TTTCGGCT
42414686 TTTCGGCT
1 TTTCGGCT
* *
42414694 TTTCGACA
1 TTTCGGCT
**
42414702 TTTCAACT
1 TTTCGGCT
*
42414710 TTTCAGCT
1 TTTCGGCT
*
42414718 TTTCGGCA
1 TTTCGGCT
42414726 TTTCGGCAT
1 TTTCGGC-T
*
42414735 TTT-GGGT
1 TTTCGGCT
* *
42414742 TTTCAGCA
1 TTTCGGCT
42414750 TTTCGGCT
1 TTTCGGCT
42414758 TTT
1 TTT
42414761 GCCGATACAT
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
7 4 0.07
8 51 0.88
9 3 0.05
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.48
Consensus pattern (8 bp):
TTTCGGCT
Found at i:42414711 original size:24 final size:24
Alignment explanation
Indices: 42414678--42414729 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
42414668 GTAGCCAAAC
* *
42414678 TTTCAGCTTTTCGGCTTTTCGACA
1 TTTCAACTTTTCAGCTTTTCGACA
*
42414702 TTTCAACTTTTCAGCTTTTCGGCA
1 TTTCAACTTTTCAGCTTTTCGACA
42414726 TTTC
1 TTTC
42414730 GGCATTTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.13, C:0.25, G:0.13, T:0.48
Consensus pattern (24 bp):
TTTCAACTTTTCAGCTTTTCGACA
Found at i:42414715 original size:32 final size:32
Alignment explanation
Indices: 42414678--42414760 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
42414668 GTAGCCAAAC
42414678 TTTCAGCTTTTCGGCTTTTCGACATTTCAACT
1 TTTCAGCTTTTCGGCTTTTCGACATTTCAACT
* * ****
42414710 TTTCAGCTTTTCGGCATTTCGGCATTTTGGGT
1 TTTCAGCTTTTCGGCTTTTCGACATTTCAACT
*
42414742 TTTCAGCATTTCGGCTTTT
1 TTTCAGCTTTTCGGCTTTT
42414761 GCCGATACAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.48
Consensus pattern (32 bp):
TTTCAGCTTTTCGGCTTTTCGACATTTCAACT
Found at i:42414744 original size:24 final size:23
Alignment explanation
Indices: 42414717--42414761 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
42414707 ACTTTTCAGC
*
42414717 TTTTCGGCATTTCGGCATTTTGGG
1 TTTTCAGCATTTCGGC-TTTTGGG
42414741 TTTTCAGCATTTCGGCTTTTG
1 TTTTCAGCATTTCGGCTTTTG
42414762 CCGATACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.49
Consensus pattern (23 bp):
TTTTCAGCATTTCGGCTTTTGGG
Found at i:42417851 original size:18 final size:17
Alignment explanation
Indices: 42417818--42417851 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
42417808 AGCCTTGTTT
*
42417818 AAAACATTTGATTTAAG
1 AAAACATTTCATTTAAG
42417835 AAAACATTATCATTTAA
1 AAAACATT-TCATTTAA
42417852 AAATTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (17 bp):
AAAACATTTCATTTAAG
Found at i:42418886 original size:29 final size:29
Alignment explanation
Indices: 42418828--42418942 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
42418818 TACCTGTATC
* * * *
42418828 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCTATTAGGCCCAAATCACATACATA
* *
42418856 TGGCCTATTAGGCCCAAATCACCTACGTA
1 TGGCCTATTAGGCCCAAATCACATACATA
* * **
42418885 TGGCCCATTAGGCCCAAATAACATTTATA
1 TGGCCTATTAGGCCCAAATCACATACATA
* *
42418914 TGGCCTGTTAGGCCC-AATCACATTCATA
1 TGGCCTATTAGGCCCAAATCACATACATA
42418942 T
1 T
42418943 TCATATGCTT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 25 0.36
29 45 0.64
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCTATTAGGCCCAAATCACATACATA
Found at i:42420313 original size:16 final size:16
Alignment explanation
Indices: 42420292--42420323 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
42420282 AAGTTCGGGA
42420292 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
42420308 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
42420324 GCGTTACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:42429439 original size:61 final size:61
Alignment explanation
Indices: 42429344--42429526 Score: 357
Period size: 61 Copynumber: 3.0 Consensus size: 61
42429334 TGCTTAATAA
42429344 CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
1 CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
*
42429405 CATATAAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
1 CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
42429466 CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
1 CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
42429527 TTGCCTCGAT
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 120 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (61 bp):
CATATGAACTTACCTCGAATTAGTATGGAGAAAATCTACTGATCAATCCACTACTTTATCT
Found at i:42436995 original size:8 final size:9
Alignment explanation
Indices: 42436968--42436997 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
42436958 AACATTTTGG
42436968 TGATAGTTTT
1 TGAT-GTTTT
42436978 TGATGTTTT
1 TGATGTTTT
42436987 TGATGTTTT
1 TGATGTTTT
42436996 TG
1 TG
42436998 CGATCCGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.13, C:0.00, G:0.23, T:0.63
Consensus pattern (9 bp):
TGATGTTTT
Found at i:42442284 original size:39 final size:41
Alignment explanation
Indices: 42442189--42442372 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
42442179 TTGAATGATG
*
42442189 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
42442228 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
42442268 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
42442307 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
42442347 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42442373 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:42442324 original size:79 final size:81
Alignment explanation
Indices: 42442189--42442372 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
42442179 TTGAATGATG
42442189 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
42442252 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
42442267 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
42442328 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
42442347 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42442373 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:42442394 original size:79 final size:79
Alignment explanation
Indices: 42442241--42442405 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
42442231 GGACTAAGAT
* ** *
42442241 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
42442306 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
42442320 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
42442382 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
42442399 CCGAAGG
1 CCGAAGG
42442406 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:42446556 original size:109 final size:109
Alignment explanation
Indices: 42446365--42446582 Score: 366
Period size: 109 Copynumber: 2.0 Consensus size: 109
42446355 GGTATCCGCA
*
42446365 TCGGGTATTCGAGCTGACCTGAGCAAAATTTCAGCCATACTTAACTGGAAGCCTCCAAGAAATAT
1 TCGGGTATTCGAGCTGACCCGAGCAAAATTTCAGCCATACTTAACTGGAAGCCTCCAAGAAATAT
*
42446430 TACCGAAGTTCGGAGCTTCCT-GGGACTCGCCGATTATTACCGAC
66 TACCGAAGTCCGGAGCTTCCTAGGG-CTCGCCGATTATTACCGAC
* * *
42446474 TCGGGTATTCGAGTTGACCCGAGCAAAATTTCAGCCATACTTAACTGGAAGCCTCCGAGAAATGT
1 TCGGGTATTCGAGCTGACCCGAGCAAAATTTCAGCCATACTTAACTGGAAGCCTCCAAGAAATAT
*
42446539 TACCGAAGTCCGGAGCTTTCTAGGGCTCGCCGATTATTACCGAC
66 TACCGAAGTCCGGAGCTTCCTAGGGCTCGCCGATTATTACCGAC
42446583 GATTTGTCAA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
109 99 0.97
110 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (109 bp):
TCGGGTATTCGAGCTGACCCGAGCAAAATTTCAGCCATACTTAACTGGAAGCCTCCAAGAAATAT
TACCGAAGTCCGGAGCTTCCTAGGGCTCGCCGATTATTACCGAC
Found at i:42450279 original size:39 final size:41
Alignment explanation
Indices: 42450184--42450327 Score: 160
Period size: 39 Copynumber: 3.6 Consensus size: 41
42450174 TTGAATGATG
*
42450184 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
42450223 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
42450263 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
42450302 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42450328 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 6, Indels: 15
0.81 0.05 0.13
Matches are distributed among these distances:
38 2 0.02
39 50 0.55
40 27 0.30
41 11 0.12
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:42450341 original size:40 final size:39
Alignment explanation
Indices: 42450264--42450346 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
42450254 GATACTAATT
** *
42450264 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
42450303 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
42450343 CCGG
1 CCGG
42450347 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 10 0.27
40 27 0.73
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:42454702 original size:51 final size:51
Alignment explanation
Indices: 42454647--42454745 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
42454637 CTATAATGGG
*
42454647 CATTAAGATGTTGAACTTAAGAAATTAGAAGTAAATGAACTTGATAGTGGT
1 CATTAAGATGGTGAACTTAAGAAATTAGAAGTAAATGAACTTGATAGTGGT
42454698 CATTAAGATGGTGAACTTAAGAAATTAGAAGTAAATGAACTTGATAGT
1 CATTAAGATGGTGAACTTAAGAAATTAGAAGTAAATGAACTTGATAGT
42454746 ATTTAAGAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (51 bp):
CATTAAGATGGTGAACTTAAGAAATTAGAAGTAAATGAACTTGATAGTGGT
Found at i:42455475 original size:28 final size:28
Alignment explanation
Indices: 42455418--42456297 Score: 1694
Period size: 28 Copynumber: 31.5 Consensus size: 28
42455408 TAAATTGTGC
*
42455418 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455445 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455473 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455501 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455529 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455557 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455585 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455613 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455641 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455669 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455697 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455725 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455753 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455781 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455809 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455837 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455865 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455893 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455921 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455949 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42455977 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42456005 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42456033 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42456061 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42456089 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42456117 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42456145 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42456173 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
42456201 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
42456228 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
42456256 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
42456283 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42456298 GACTTAATAT
Statistics
Matches: 847, Mismatches: 4, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
27 66 0.08
28 781 0.92
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:42456852 original size:212 final size:211
Alignment explanation
Indices: 42456479--42456900 Score: 682
Period size: 212 Copynumber: 2.0 Consensus size: 211
42456469 CACGTACATA
* * *
42456479 AAATTTATCGTAGGATGGGTGAAAGGCCGTTTAGTCGTTTGATTGTAACGAAAATAAATTGAATT
1 AAATTTATCGTAGAATGGGTGAAAGGCCGTTTAGTCGTATGATTGTAACGAAAATAAAATGAATT
** * *
42456544 ATGAAAATGTTTCAATGTCCTATTGATGAGTATATGGAATGTGAATGCATGAATTGATATGAAAT
66 ATGAAAATGCCTCAATATCCTATTGATGAGTATATGGAATGTGAATGCATAAATTGATATGAAAT
* ** *
42456609 TGAATTGATAGGTTGGAGGAACTATGGTATGGTTCGGAATGGATGGAGTAATTAGCCTCGTTCCA
131 TAAACCGATAGGTCGGAGGAACTATGGTATGGTTCGGAATGGATGGAGTAATTAGCCTCGTTCCA
42456674 TTTTGTTTTCTCTTGG
196 TTTTGTTTTCTCTTGG
* * *
42456690 AAATTTATCGTAGAATGGGTGAAAGGCCGTTTAGTTGTATGTTTGTAACGAAAATAAAATGATTT
1 AAATTTATCGTAGAATGGGTGAAAGGCCGTTTAGTCGTATGATTGTAACGAAAATAAAATGAATT
* * *
42456755 ATGAAAATGCCTCGAATATCCTATTGATGAGTATGTGGATTGTGAATGCATAAATTGGTATGAAA
66 ATGAAAATGCCTC-AATATCCTATTGATGAGTATATGGAATGTGAATGCATAAATTGATATGAAA
42456820 TTAAACCGATAGGTCGGAGGAACTATGGTATGGTTCGGAATGGATGGAGTAATTAGCCTCGTTCC
130 TTAAACCGATAGGTCGGAGGAACTATGGTATGGTTCGGAATGGATGGAGTAATTAGCCTCGTTCC
42456885 ATTTTGTTTTCTCTTG
195 ATTTTGTTTTCTCTTG
42456901 TGATAATGTT
Statistics
Matches: 193, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
211 70 0.36
212 123 0.64
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.35
Consensus pattern (211 bp):
AAATTTATCGTAGAATGGGTGAAAGGCCGTTTAGTCGTATGATTGTAACGAAAATAAAATGAATT
ATGAAAATGCCTCAATATCCTATTGATGAGTATATGGAATGTGAATGCATAAATTGATATGAAAT
TAAACCGATAGGTCGGAGGAACTATGGTATGGTTCGGAATGGATGGAGTAATTAGCCTCGTTCCA
TTTTGTTTTCTCTTGG
Found at i:42461371 original size:70 final size:70
Alignment explanation
Indices: 42461257--42461397 Score: 237
Period size: 70 Copynumber: 2.0 Consensus size: 70
42461247 GTCATTTGCA
* * *
42461257 ATCTTTTGCAAGTTTAACTTTAATTTGATTAAACTCATCATAGTTAATGATTGAGTTGCTGGACT
1 ATCTTTTGCAAGCTGAACTTTAATTTGATTAAACTCATCATAGTTAATAATTGAGTTGCTGGACT
42461322 TTATT
66 TTATT
* *
42461327 ATCTTTTGCAAGCTGAACTTTAATTTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGACT
1 ATCTTTTGCAAGCTGAACTTTAATTTGATTAAACTCATCATAGTTAATAATTGAGTTGCTGGACT
42461392 TTATT
66 TTATT
42461397 A
1 A
42461398 AACTCATCTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.45
Consensus pattern (70 bp):
ATCTTTTGCAAGCTGAACTTTAATTTGATTAAACTCATCATAGTTAATAATTGAGTTGCTGGACT
TTATT
Found at i:42461395 original size:40 final size:40
Alignment explanation
Indices: 42461351--42461429 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
42461341 GAACTTTAAT
42461351 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
*
42461391 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGTTGGA
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGA
42461430 TTCTATTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.44
Consensus pattern (40 bp):
TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
Found at i:42463268 original size:17 final size:17
Alignment explanation
Indices: 42463246--42463287 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
42463236 AAATTGAGAG
42463246 AAGAAAAATGAAA-GAAA
1 AAGAAAAA-GAAACGAAA
42463263 AAGAAAAAGAAATCGAAA
1 AAGAAAAAGAAA-CGAAA
42463281 AAGAAAA
1 AAGAAAA
42463288 TGAGAGTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
18 11 0.48
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (17 bp):
AAGAAAAAGAAACGAAA
Found at i:42465646 original size:70 final size:70
Alignment explanation
Indices: 42465533--42465780 Score: 397
Period size: 70 Copynumber: 3.4 Consensus size: 70
42465523 GTCATTTGCA
42465533 ATCTTTTGCAAGCTAAACTTTAATTTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGGCT
1 ATCTTTTGCAAGCTAAACTTTAATTTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGGCT
42465598 TTATT
66 TTATT
42465603 ATCTTTTGCAAGCTAAACTTTAATTTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGGCT
1 ATCTTTTGCAAGCTAAACTTTAATTTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGGCT
42465668 TTATT
66 TTATT
* * * *
42465673 ATCTTTTGCAAGCTGAACTTTAATTTTATTAAATTCATCTTATTTAATAATTGAGTTGTTGGACC
1 ATCTTTTGCAAGCTAAACTTTAATTTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGG---
42465738 TTATGCTTTATT
63 ----GCTTTATT
42465750 ATCTTTTGCAAGCTAAACTTTAATTTTATTA
1 ATCTTTTGCAAGCTAAACTTTAATTTTATTA
42465781 TTATCTTTTG
Statistics
Matches: 166, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
70 128 0.77
77 38 0.23
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (70 bp):
ATCTTTTGCAAGCTAAACTTTAATTTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGGCT
TTATT
Found at i:42465785 original size:33 final size:33
Alignment explanation
Indices: 42465745--42465813 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
42465735 ACCTTATGCT
42465745 TTATTATCTTTTGCAAGCTAAACTTTAATTTTA
1 TTATTATCTTTTGCAAGCTAAACTTTAATTTTA
*
42465778 TTATTATCTTTTGCAAGCTGAACTTTAATTTTA
1 TTATTATCTTTTGCAAGCTAAACTTTAATTTTA
42465811 TTA
1 TTA
42465814 AATTCATCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (33 bp):
TTATTATCTTTTGCAAGCTAAACTTTAATTTTA
Found at i:42465852 original size:40 final size:40
Alignment explanation
Indices: 42465808--42465892 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
42465798 AACTTTAATT
* * *
42465808 TTATTAAATTCATCTTATTTAATAATTGAGTTGTTGGACC
1 TTATTAAACTCATCTTAGTTAATAATTGAGTTGTTGAACC
*
42465848 TTATTAAACTCATCTTAGTTAATAATTGAGTTGTTGAACT
1 TTATTAAACTCATCTTAGTTAATAATTGAGTTGTTGAACC
42465888 TTATT
1 TTATT
42465893 TTTATTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (40 bp):
TTATTAAACTCATCTTAGTTAATAATTGAGTTGTTGAACC
Found at i:42465892 original size:110 final size:109
Alignment explanation
Indices: 42465628--42465892 Score: 328
Period size: 110 Copynumber: 2.4 Consensus size: 109
42465618 AACTTTAATT
* *
42465628 TTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGGCTTTATTATCTTTTGCAAGCTGAACTT
1 TTATTAAACTCATCTTAGTTAATAATTGAGTTG-TTGACTTTATTATCTTTTGCAAGCTGAACTT
42465693 TAATTTTATTAAATTCATCTTATTTAATAATTGAGTTGTTGGACC
65 TAATTTTATTAAATTCATCTTATTTAATAATTGAGTTGTTGGACC
** * * *
42465738 TTATGCTTTA-TTATCTT--TTGCAAGCTAAACTTTAATT-TT-A--TTATTATCTTTTGCAAGC
1 TTAT--TAAACTCATCTTAGTT--AA--T-AA-TTGAGTTGTTGACTTTATTATCTTTTGCAAGC
42465796 TGAACTTTAATTTTATTAAATTCATCTTATTTAATAATTGAGTTGTTGGACC
58 TGAACTTTAATTTTATTAAATTCATCTTATTTAATAATTGAGTTGTTGGACC
42465848 TTATTAAACTCATCTTAGTTAATAATTGAGTTGTTGAACTTTATT
1 TTATTAAACTCATCTTAGTTAATAATTGAGTTGTTG-ACTTTATT
42465893 TTTATTAAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 32
0.74 0.07 0.19
Matches are distributed among these distances:
105 5 0.04
106 4 0.03
107 1 0.01
108 3 0.02
109 10 0.08
110 83 0.65
111 10 0.08
112 2 0.02
113 2 0.02
114 2 0.02
115 5 0.04
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (109 bp):
TTATTAAACTCATCTTAGTTAATAATTGAGTTGTTGACTTTATTATCTTTTGCAAGCTGAACTTT
AATTTTATTAAATTCATCTTATTTAATAATTGAGTTGTTGGACC
Found at i:42465996 original size:9 final size:9
Alignment explanation
Indices: 42465975--42466030 Score: 67
Period size: 11 Copynumber: 5.7 Consensus size: 9
42465965 AACTTAATAA
42465975 GTGTTTAAAT
1 GTGTTT-AAT
42465985 GTGTTTAAT
1 GTGTTTAAT
42465994 GTGTTTAAT
1 GTGTTTAAT
42466003 GTGTTTTTAAT
1 GTG--TTTAAT
42466014 GTGTTTTTAAT
1 GTG--TTTAAT
42466025 GTGTTT
1 GTGTTT
42466031 GATTGTAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
9 18 0.41
10 6 0.14
11 20 0.45
ACGTcount: A:0.20, C:0.00, G:0.21, T:0.59
Consensus pattern (9 bp):
GTGTTTAAT
Found at i:42466013 original size:11 final size:11
Alignment explanation
Indices: 42465988--42466030 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
42465978 TTTAAATGTG
42465988 TTTAATGTG--
1 TTTAATGTGTT
42465997 TTTAATGTGTT
1 TTTAATGTGTT
42466008 TTTAATGTGTT
1 TTTAATGTGTT
42466019 TTTAATGTGTT
1 TTTAATGTGTT
42466030 T
1 T
42466031 GATTGTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 9 0.28
11 23 0.72
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.63
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:42478424 original size:18 final size:18
Alignment explanation
Indices: 42478403--42478441 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
42478393 AAAGAAAGAC
42478403 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
42478421 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
42478439 AGA
1 AGA
42478442 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:42482428 original size:33 final size:34
Alignment explanation
Indices: 42482382--42482445 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
42482372 TTTCTTAATT
*
42482382 TCTTTCTTCACTCG-TTTCTTTTGCAGACTCTTTC
1 TCTTTCTTCACTCGATTTCTTTT-CAAACTCTTTC
42482416 TCTTTC-TCACTCGATTTCTTTTCAAACTCT
1 TCTTTCTTCACTCGATTTCTTTTCAAACTCT
42482446 CCTTCATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.12, C:0.30, G:0.06, T:0.52
Consensus pattern (34 bp):
TCTTTCTTCACTCGATTTCTTTTCAAACTCTTTC
Found at i:42483579 original size:10 final size:10
Alignment explanation
Indices: 42483564--42483588 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42483554 ACAATGATGC
42483564 AATTTATTTG
1 AATTTATTTG
42483574 AATTTATTTG
1 AATTTATTTG
42483584 AATTT
1 AATTT
42483589 TTTTTAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (10 bp):
AATTTATTTG
Found at i:42492903 original size:39 final size:38
Alignment explanation
Indices: 42492806--42492909 Score: 127
Period size: 39 Copynumber: 2.7 Consensus size: 38
42492796 TGTCCTAAAC
* * * *
42492806 TATGACATAATTAAAACCCTTATTAATGCTGTTCAAAT
1 TATGACATAATTAAAACTCATACTAATGATGTTCAAAT
* *
42492844 TATGACACAATTAAAAACTCATACTAATGATGTTCGAAT
1 TATGACATAATT-AAAACTCATACTAATGATGTTCAAAT
*
42492883 TATGACATAATTAAAGACTCAAACTAA
1 TATGACATAATTAAA-ACTCATACTAA
42492910 ATTAACTAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 14 0.25
39 42 0.75
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (38 bp):
TATGACATAATTAAAACTCATACTAATGATGTTCAAAT
Found at i:42496996 original size:92 final size:91
Alignment explanation
Indices: 42496886--42497089 Score: 275
Period size: 92 Copynumber: 2.2 Consensus size: 91
42496876 TAATATGGAG
* * * * *
42496886 CATGCACCTGATTATGCATGAATA-TCGGGAGTTGTTTTTTAGCTGGACATTCATGTATCTTCCA
1 CATGCACCTGATTGTGCATGAA-AGTC-GGAGCTATTTTTTAGCTGAACATACATGTATCTTCCA
* *
42496950 AATTCAATGAAGCTACTTTAATGAAGAA
64 AATTCAACGAAGCTACTTTAAAGAAGAA
* * *
42496978 CATGCACCTGATTGTGCATGAAAGTTCGGAGCTATTTTTTAGCTGAATATACATGTATCTTCTAG
1 CATGCACCTGATTGTGCATGAAAG-TCGGAGCTATTTTTTAGCTGAACATACATGTATCTTCCAA
42497043 ATTCAACGAAGCTACTTTAAAGAAGAA
65 ATTCAACGAAGCTACTTTAAAGAAGAA
*
42497070 CATGCACCCGATTGTGCATG
1 CATGCACCTGATTGTGCATG
42497090 TATTTTGAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
91 1 0.01
92 96 0.97
93 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (91 bp):
CATGCACCTGATTGTGCATGAAAGTCGGAGCTATTTTTTAGCTGAACATACATGTATCTTCCAAA
TTCAACGAAGCTACTTTAAAGAAGAA
Found at i:42498614 original size:16 final size:16
Alignment explanation
Indices: 42498575--42498616 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
42498565 AATGAGCCAT
*
42498575 ATCCATGAATCCAGCC
1 ATCCATGTATCCAGCC
42498591 ATCCATGTATCCAGCC
1 ATCCATGTATCCAGCC
*
42498607 ATTCATGTAT
1 ATCCATGTAT
42498617 GCTCCCATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.29
Consensus pattern (16 bp):
ATCCATGTATCCAGCC
Found at i:42500202 original size:44 final size:44
Alignment explanation
Indices: 42500153--42500244 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
42500143 ATATAAGTCT
42500153 TTAATATGCTTTGTCTTTGCTGAATTAAATATGTCCGGATTTAA
1 TTAATATGCTTTGTCTTTGCTGAATTAAATATGTCCGGATTTAA
*
42500197 TTAATATGCTTTGTCTTTGCTGAATTAAATATGTCCTGATTTAA
1 TTAATATGCTTTGTCTTTGCTGAATTAAATATGTCCGGATTTAA
42500241 TTAA
1 TTAA
42500245 GTTTGTCTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (44 bp):
TTAATATGCTTTGTCTTTGCTGAATTAAATATGTCCGGATTTAA
Found at i:42501587 original size:21 final size:22
Alignment explanation
Indices: 42501543--42501584 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
42501533 TACGAAAAAA
*
42501543 TTCGTATTTAAAAAAAAAGAAG
1 TTCGAATTTAAAAAAAAAGAAG
42501565 TTCGAATTTAAAAAAAAAGA
1 TTCGAATTTAAAAAAAAAGA
42501585 GTTGCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.26
Consensus pattern (22 bp):
TTCGAATTTAAAAAAAAAGAAG
Found at i:42501594 original size:22 final size:22
Alignment explanation
Indices: 42501548--42501595 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
42501538 AAAAATTCGT
*
42501548 ATTTAAAAAAAAAGAAGTTCGA
1 ATTTAAAAAAAAAGAAGTTCAA
42501570 ATTTAAAAAAAAAG-AGTTGCAA
1 ATTTAAAAAAAAAGAAGTT-CAA
42501592 ATTT
1 ATTT
42501596 GTGAATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.27
Consensus pattern (22 bp):
ATTTAAAAAAAAAGAAGTTCAA
Found at i:42508252 original size:11 final size:10
Alignment explanation
Indices: 42508226--42508251 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
42508216 AGAAAATATC
42508226 AAAAAATTGA
1 AAAAAATTGA
42508236 AAAAAATTGA
1 AAAAAATTGA
42508246 AAAAAA
1 AAAAAA
42508252 AGTTCATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (10 bp):
AAAAAATTGA
Found at i:42509472 original size:39 final size:39
Alignment explanation
Indices: 42509429--42509535 Score: 126
Period size: 39 Copynumber: 2.7 Consensus size: 39
42509419 AAATGAAAAA
* * *
42509429 GAAAAAGAAATTGAATTAAAAGAAAAAGAAAAATAGATT
1 GAAAAAGAAATTGAATGAAAAGAAAAAGAAAAAGACATT
* *
42509468 GAAAAATAAATTGAAAGAAAAGAAAAAGAAAAAGACATT
1 GAAAAAGAAATTGAATGAAAAGAAAAAGAAAAAGACATT
* * *
42509507 G-TAAAGAAAATGAGTGAAAAGGAAAAAGA
1 GAAAAAGAAATTGAATGAAAA-GAAAAAGA
42509536 GCTTGAACAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 14 0.25
39 43 0.75
ACGTcount: A:0.66, C:0.01, G:0.19, T:0.14
Consensus pattern (39 bp):
GAAAAAGAAATTGAATGAAAAGAAAAAGAAAAAGACATT
Found at i:42509526 original size:33 final size:33
Alignment explanation
Indices: 42509489--42509564 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
42509479 TGAAAGAAAA
42509489 GAAAAAGAAAAAGA-CATTGTAA-AGAAAAT-GAGT
1 GAAAAAGAAAAAGAGC-TTG-AACA-AAAATCGAGT
* *
42509522 GAAAAGGAAAAAGAGCTTGAACATAAATCGAGT
1 GAAAAAGAAAAAGAGCTTGAACAAAAATCGAGT
42509555 GAAAAAGAAA
1 GAAAAAGAAA
42509565 GAAAGTTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 6 0.16
33 30 0.81
34 1 0.03
ACGTcount: A:0.59, C:0.05, G:0.22, T:0.13
Consensus pattern (33 bp):
GAAAAAGAAAAAGAGCTTGAACAAAAATCGAGT
Found at i:42517965 original size:12 final size:13
Alignment explanation
Indices: 42517948--42517991 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
42517938 TTATATTCTT
42517948 TTTTTTTAC-AAA
1 TTTTTTTACGAAA
42517960 TTTTTTTACGAAA
1 TTTTTTTACGAAA
* *
42517973 -TTTTTTATGAAG
1 TTTTTTTACGAAA
42517985 TTTTTTT
1 TTTTTTT
42517992 CAGCTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTTTTTACGAAA
Found at i:42524058 original size:11 final size:11
Alignment explanation
Indices: 42524044--42524086 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
42524034 TTTTCTTCTT
42524044 TTTCTTTTCCA
1 TTTCTTTTCCA
42524055 TTTC-TTTCCA
1 TTTCTTTTCCA
*
42524065 TTTCTTTTTCAA
1 TTTC-TTTTCCA
42524077 TGTTCTTTTC
1 T-TTCTTTTC
42524087 TCGCTCACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 10 0.36
11 4 0.14
12 11 0.39
13 3 0.11
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTCTTTTCCA
Found at i:42525153 original size:15 final size:13
Alignment explanation
Indices: 42525132--42525165 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
42525122 AAATAAACTC
42525132 TTTTTTTTCGAATT
1 TTTTTTTTCG-ATT
42525146 TCTTTTTTTCGATT
1 T-TTTTTTTCGATT
42525160 TTTTTT
1 TTTTTT
42525166 CAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 5 0.26
15 9 0.47
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTTTTCGATT
Found at i:42525181 original size:12 final size:11
Alignment explanation
Indices: 42525148--42525181 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
42525138 TTCGAATTTC
*
42525148 TTTTTTTCGAT
1 TTTTTTTCAAT
42525159 TTTTTTTCAAT
1 TTTTTTTCAAT
42525170 TTTTTTTACAAT
1 TTTTTTT-CAAT
42525182 CTCGTAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTTTTTCAAT
Found at i:42526508 original size:22 final size:21
Alignment explanation
Indices: 42526483--42526525 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
42526473 TTTAACACTT
* *
42526483 AACTAAATTAATTAAATATTTA
1 AACTAAACTAACTAAA-ATTTA
42526505 AACTAAACTAACTAAAATTTA
1 AACTAAACTAACTAAAATTTA
42526526 TTTAAGCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (21 bp):
AACTAAACTAACTAAAATTTA
Found at i:42526538 original size:19 final size:20
Alignment explanation
Indices: 42526514--42526560 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
42526504 AAACTAAACT
42526514 AACTAAAATT-TATT-TAAGC
1 AACTAAAATTGTATTCT-AGC
42526533 AACT-AAATTGTATTCTAGC
1 AACTAAAATTGTATTCTAGC
42526552 AACTAAAAT
1 AACTAAAAT
42526561 GCATGAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.20
19 15 0.60
20 5 0.20
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (20 bp):
AACTAAAATTGTATTCTAGC
Found at i:42527287 original size:91 final size:92
Alignment explanation
Indices: 42527123--42527292 Score: 198
Period size: 91 Copynumber: 1.9 Consensus size: 92
42527113 GCATGAATCT
* * ** * * **
42527123 TTCATTAACTAGCTTCAATATATCGGCAAGATACATGAACATTCAGCTGAATAATAGCTCCCTTC
1 TTCATTAAATAGCTTCAATATATCAGCAAGATACATGAACATTCAAATGAAAAACAGCTCCCAAC
* *
42527188 ATTCATGCAGAATTAGGTACGTTACTC
66 ATTAATGCACAATTAGGTACGTTACTC
* * * **
42527215 TTCATTAAATAGCTT-AATGTATCAGCTAGGTACATGAATGTTCAAATGAAAAACAGCTCCCAAC
1 TTCATTAAATAGCTTCAATATATCAGCAAGATACATGAACATTCAAATGAAAAACAGCTCCCAAC
42527279 ATTAATGCACAATT
66 ATTAATGCACAATT
42527293 CGGGTGCACG
Statistics
Matches: 63, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
91 49 0.78
92 14 0.22
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (92 bp):
TTCATTAAATAGCTTCAATATATCAGCAAGATACATGAACATTCAAATGAAAAACAGCTCCCAAC
ATTAATGCACAATTAGGTACGTTACTC
Found at i:42529439 original size:19 final size:19
Alignment explanation
Indices: 42529393--42529432 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
42529383 TCTTCACTCG
42529393 TTTC-TTTTTCAAGCTCTC
1 TTTCTTTTTTCAAGCTCTC
42529411 TTTCTTTTTTCACA-CTCTC
1 TTTCTTTTTTCA-AGCTCTC
42529430 TTT
1 TTT
42529433 TGTTTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 15 0.75
20 1 0.05
ACGTcount: A:0.10, C:0.28, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTCTTTTTTCAAGCTCTC
Found at i:42529590 original size:7 final size:6
Alignment explanation
Indices: 42529569--42529612 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
42529559 TCTTTCATTT
* *
42529569 TTTTCA TTTTCA TTTTCA ATTTCC TTTTC- TTATTCA TTTTCA TT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TT-TTCA TTTTCA TT
42529613 CTTTTTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 2 0.06
6 29 0.88
7 2 0.06
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTTCA
Found at i:42529623 original size:24 final size:22
Alignment explanation
Indices: 42529545--42529633 Score: 78
Period size: 24 Copynumber: 4.0 Consensus size: 22
42529535 CTCGCACTCT
42529545 TTTTCTTTCTCTTTTC--TTTCA
1 TTTT-TTTCTCTTTTCATTTTCA
*
42529566 TTTTTTTC-ATTTTCATTTTCAA
1 TTTTTTTCTCTTTTCATTTTC-A
*
42529588 TTTCCTTTTCT-TATTCATTTTCA
1 TTT--TTTTCTCTTTTCATTTTCA
42529611 TTCTTTTTCTCTTATTCATTTTC
1 TT-TTTTTCTCTT-TTCATTTTC
42529634 TCTCAACTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
19 5 0.09
20 4 0.07
21 8 0.14
22 10 0.18
23 4 0.07
24 25 0.45
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTTTCTCTTTTCATTTTCA
Found at i:42531186 original size:47 final size:49
Alignment explanation
Indices: 42531129--42531224 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 49
42531119 TGTCGAAATT
* *
42531129 ATTTAAGCAACTAAA-ATAAA-AAAAA-AACTTAATTCATTAAACTAATG
1 ATTTAAGCAACTAAAGA-AAATAAAAACAAATTAATTAATTAAACTAATG
42531176 ATTTAAGCAACTAAAGAAAATTAAAAACAAATTAATTAATTAAACTAAT
1 ATTTAAGCAACTAAAGAAAA-TAAAAACAAATTAATTAATTAAACTAAT
42531225 TTAACTAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
47 18 0.42
48 1 0.02
49 5 0.12
50 19 0.44
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.28
Consensus pattern (49 bp):
ATTTAAGCAACTAAAGAAAATAAAAACAAATTAATTAATTAAACTAATG
Found at i:42531228 original size:47 final size:46
Alignment explanation
Indices: 42531129--42531223 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 46
42531119 TGTCGAAATT
* *
42531129 ATTTAAGCAACTAAAATAAAAAAAAAACTTAATTCATTAAACTAATG
1 ATTTAAGCAACTAAAATAAAAAAAAAAATTAATTAATTAAACTAA-G
42531176 ATTTAAGCAACTAAAGA-AAATTAAAAACAAATTAATTAATTAAACTAA
1 ATTTAAGCAACTAAA-ATAAA--AAAAA-AAATTAATTAATTAAACTAA
42531224 TTTAACTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
47 18 0.43
48 1 0.02
49 5 0.12
50 18 0.43
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.27
Consensus pattern (46 bp):
ATTTAAGCAACTAAAATAAAAAAAAAAATTAATTAATTAAACTAAG
Found at i:42551477 original size:116 final size:114
Alignment explanation
Indices: 42551332--42551892 Score: 612
Period size: 116 Copynumber: 4.9 Consensus size: 114
42551322 GGTGATTTCC
* *
42551332 AGAAAGCGCCGC--AAAAAACCTAAGCCCAACGACGTCGTTTACCGAGCTTTCAGGGATTTAGCG
1 AGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTT-CTGAGCTTTCAGGGATTTAGCG
* * * *
42551395 GCATTTTCAAGAAAGCGTCGCTAATGCTCAGGGCTTTTGCGACGTTTTTG
65 GCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * * * *
42551445 AGAAAGCGCCACAAAAAAAAACCGAAGCCCAACGACGCCATTTTTTGAGCTTTCTGGGATTTAGC
1 AGAAAGCGCCGC-AAAAAAAACCTAAGCCCAACGACGCC-GTTTCTGAGCTTTCAGGGATTTAGC
* * **
42551510 GGCATTTTTAATAAAGCGCCGCTAATGCTCAGGGATAAAGCGGCGTTTTTG
64 GGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * * *
42551561 AAAAAGCGTCGC-AAAAAAACCTAAGCCCAACGACGCCAATTTCTGAGCTTTCCA-GGATTTAGT
1 AGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCC-GTTTCTGAGCTTT-CAGGGATTTAGC
* * * * *
42551624 GACTTTTTTAATAAAGCGCAGCTAATGCTCAGGGCTTTTAGCGGTGTTTTTG
64 GGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC-TTTAGCGGCGTTTTTG
* * * *
42551676 AGAAAGCGCCGCAAAAAAAACCTAGGCCCAACAACGCCGTTTCCTGAGTTTTCGGGGATTTAGCG
1 AGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTT-CTGAGCTTTCAGGGATTTAGCG
*** * *
42551741 TTGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTT-
65 GCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * * ** * *
42551790 AGGAAAGCCCCGGAAGAAAAA-CTAAGCCCAACGGTGCCGTTTACTGTGCTTTCGGGGATTTAGC
1 A-GAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTT-CTGAGCTTTCAGGGATTTAGC
* * *
42551854 GGCGTTTTTAAGAAAGCGTCGCTAATGCTCAGGGATTTA
64 GGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTA
42551893 AAATAATTTA
Statistics
Matches: 377, Mismatches: 61, Indels: 19
0.82 0.13 0.04
Matches are distributed among these distances:
113 11 0.03
114 146 0.39
115 57 0.15
116 160 0.42
117 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (114 bp):
AGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTCTGAGCTTTCAGGGATTTAGCGG
CATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
Found at i:42551750 original size:230 final size:230
Alignment explanation
Indices: 42551334--42551887 Score: 663
Period size: 230 Copynumber: 2.4 Consensus size: 230
42551324 TGATTTCCAG
* *
42551334 AAAGCGCCGC-AAAAAACCTAAGCCCAACGACGTCGTTTACCGAGCTTT-CAGGGATTTAGCGGC
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCCA-GGATTTAGCGGC
*
42551397 ATTTTCAAGAAAGCGTCGCTAATGCTCAGGGCTTTTGCGACGTTTTTGAGAAAGCGCCACAAAAA
65 ATTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTTGCGACGTTTTTGAGAAAGCGCCACAAAAA
* ** * *
42551462 AAAACCGAAGCCCAACGACGCCATTTTTTGAGCTTTCTGGGATTTAGCGGCATTTTTAATAAAGC
130 AAAACCGAAGCCCAACAACGCCATTTCCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGC
*
42551527 GCCGCTAATGCTCAGGGATAAAGCGGCGTTTTT-GAA
195 GCCGCTAATGCTCAGGGATAAAGCGGCATTTTTAG-A
* * * *
42551563 AAAGCGTCGCAAAAAAACCTAAGCCCAACGACGCCAATTT-CTGAGCTTTCCAGGATTTAGTGAC
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCC-GTTTACTGAGCTTTCCAGGATTTAGCGGC
* * ** *
42551627 TTTTTTAATAAAGCG-CAGCTAATGCTCAGGGCTTTTAGCGGTGTTTTTGAGAAAGCGCCGC-AA
65 ATTTTTAAGAAAGCGTC-GCTAATGCTCAGGGCTTTT-GCGACGTTTTTGAGAAAGCGCCACAAA
* * * * *** *
42551690 AAAAAACCTAGGCCCAACAACGCCGTTTCCTGAGTTTTCGGGGATTTAGCGTTGTTTTTAAGGAA
128 AAAAAACCGAAGCCCAACAACGCCATTTCCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAA
* ** *
42551755 GCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTAGG
193 GCGCCGCTAATGCTCAGGGATAAAGCGGCATTTTTAGA
* * ** * **
42551793 AAAGCCCCGGAAGAAAAA-CTAAGCCCAACGGTGCCGTTTACTGTGCTTTCGGGGATTTAGCGGC
1 AAAGCGCCGCAA-AAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCCAGGATTTAGCGGC
*
42551857 GTTTTTAAGAAAGCGTCGCTAATGCTCAGGG
65 ATTTTTAAGAAAGCGTCGCTAATGCTCAGGG
42551888 ATTTAAAATA
Statistics
Matches: 273, Mismatches: 43, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
229 13 0.05
230 227 0.83
231 33 0.12
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (230 bp):
AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTTTCCAGGATTTAGCGGCA
TTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTTGCGACGTTTTTGAGAAAGCGCCACAAAAAA
AAACCGAAGCCCAACAACGCCATTTCCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCG
CCGCTAATGCTCAGGGATAAAGCGGCATTTTTAGA
Found at i:42552172 original size:45 final size:43
Alignment explanation
Indices: 42552117--42552255 Score: 142
Period size: 38 Copynumber: 3.5 Consensus size: 43
42552107 TTTAGGGTTT
* *
42552117 GGGATTTAAGGTTTAGGGGTTAGGTGTTATGCTTTATGGGTTAAG
1 GGGATTTAAGGGTTA-GGGTTAGG-GTTATGCTTTAGGGGTTAAG
42552162 GGGATTTAAGGGTTA----T-GGGTTATGCTTTAGGGGTTAAG
1 GGGATTTAAGGGTTAGGGTTAGGGTTATGCTTTAGGGGTTAAG
42552200 GGGATTTAAGGGTTA----T-GGGTTATGCTTTAGGGGTTAA-
1 GGGATTTAAGGGTTAGGGTTAGGGTTATGCTTTAGGGGTTAAG
42552237 -GGATTT-AGGGTTTAGGGTT
1 GGGATTTAAGGG-TTAGGGTT
42552256 TCAATGGTTA
Statistics
Matches: 87, Mismatches: 2, Indels: 15
0.84 0.02 0.14
Matches are distributed among these distances:
35 4 0.05
36 9 0.10
38 56 0.64
39 2 0.02
40 2 0.02
45 14 0.16
ACGTcount: A:0.20, C:0.02, G:0.39, T:0.39
Consensus pattern (43 bp):
GGGATTTAAGGGTTAGGGTTAGGGTTATGCTTTAGGGGTTAAG
Found at i:42552174 original size:17 final size:17
Alignment explanation
Indices: 42552149--42552214 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
42552139 GGTGTTATGC
*
42552149 TTTATGGGTTAAGGGGA
1 TTTAAGGGTTAAGGGGA
* *
42552166 TTTAAGGGTTATGGGTTATGC
1 TTTAAGGGTTAAGGG----GA
*
42552187 TTTAGGGGTTAAGGGGA
1 TTTAAGGGTTAAGGGGA
42552204 TTTAAGGGTTA
1 TTTAAGGGTTA
42552215 TGGGTTATGC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 24 0.63
21 14 0.37
ACGTcount: A:0.23, C:0.02, G:0.38, T:0.38
Consensus pattern (17 bp):
TTTAAGGGTTAAGGGGA
Done.