Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 303 of 322
Found at i:100596772 original size:27 final size:24
Alignment explanation
Indices: 100596733--100596783 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
100596723 GGCCAAAAAA
*
100596733 TATTATATATAAATATAAAGTTACT
1 TATTATATATAAATA-AAAATTACT
100596758 TATTATATAAATAAATAAAAATTACT
1 TATTATAT--ATAAATAAAAATTACT
100596784 GTTTAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 8 0.35
27 7 0.30
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
TATTATATATAAATAAAAATTACT
Found at i:100603170 original size:112 final size:112
Alignment explanation
Indices: 100602952--100603171 Score: 264
Period size: 113 Copynumber: 2.0 Consensus size: 112
100602942 TTCACTGTTG
* * * *
100602952 ATAGCTTTGTGCTTTAGCTGAGCTATCTATATTTGAAATGCATTTGACCTTAAAGTTGAAAGAGT
1 ATAGCTTTGTGCATTAACTGAGCTATCTATATTTGAAATACATTTGACCTTAAAG-TGAAAAAGT
* * *
100603017 AAAAAGCTATACTGTGAGATCTAAAAGGGTTGTTGAGTGCTGACACTT
65 AAAAAGCTATACTGTGAGATCTAAAAGGATAGTTGAATGCTGACACTT
* * * * **
100603065 ATAGTTTTGTGCATTAACTTAGCTATCTATATTTGAAATACGTTTGTCCTTGTAG-GAAAAAAGT
1 ATAGCTTTGTGCATTAACTGAGCTATCTATATTTGAAATACATTTGACCTTAAAGTG-AAAAAGT
* *
100603129 AGAAAA-CTATATTTTGAGATCTAAAAGGATAGTTGAATGCTGA
65 A-AAAAGCTATACTGTGAGATCTAAAAGGATAGTTGAATGCTGA
100603172 AACCTTTTAG
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
111 1 0.01
112 39 0.43
113 50 0.56
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (112 bp):
ATAGCTTTGTGCATTAACTGAGCTATCTATATTTGAAATACATTTGACCTTAAAGTGAAAAAGTA
AAAAGCTATACTGTGAGATCTAAAAGGATAGTTGAATGCTGACACTT
Found at i:100614081 original size:46 final size:48
Alignment explanation
Indices: 100614009--100614107 Score: 139
Period size: 46 Copynumber: 2.1 Consensus size: 48
100613999 GACAGAACAG
* * * *
100614009 GACATAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGAAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
100614055 GACAGAAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGAAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
100614103 GACAG
1 GACAG
100614108 GAATAATTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 27 0.59
47 1 0.02
48 18 0.39
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (48 bp):
GACAGAAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:100621606 original size:18 final size:18
Alignment explanation
Indices: 100621579--100621621 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
100621569 TCAAATTCTT
* *
100621579 GTGAGAGTTAAGAGCATG
1 GTGAGTGTTAAAAGCATG
*
100621597 GTGAGTGTTAAAAGCATT
1 GTGAGTGTTAAAAGCATG
100621615 GTGAGTG
1 GTGAGTG
100621622 AAAGAATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (18 bp):
GTGAGTGTTAAAAGCATG
Found at i:100621851 original size:32 final size:32
Alignment explanation
Indices: 100621810--100621872 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
100621800 TTGGTTAGTG
100621810 GAAACATTATGATTAAGGGTATTAATAAGACC
1 GAAACATTATGATTAAGGGTATTAATAAGACC
100621842 GAAACATTATGATTAAGGGTATTAATAAGAC
1 GAAACATTATGATTAAGGGTATTAATAAGAC
100621873 TGATTGACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (32 bp):
GAAACATTATGATTAAGGGTATTAATAAGACC
Found at i:100624557 original size:18 final size:19
Alignment explanation
Indices: 100624534--100624578 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
100624524 TATTTGATAT
100624534 AGAAATGGAAAATA-AATG
1 AGAAATGGAAAATAGAATG
* *
100624552 AGAAATAG-AACTAGAATG
1 AGAAATGGAAAATAGAATG
100624570 AGAAATGGA
1 AGAAATGGA
100624579 GTACTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.24, T:0.16
Consensus pattern (19 bp):
AGAAATGGAAAATAGAATG
Found at i:100628055 original size:5 final size:5
Alignment explanation
Indices: 100628047--100628083 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
100628037 AAAAAATAAA
100628047 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
100628084 GGTTGGTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:100639590 original size:23 final size:24
Alignment explanation
Indices: 100639554--100639607 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
100639544 TATTGTTTTT
*
100639554 AGCTCATTAAAGCTTACCGTT-TC
1 AGCTCAATAAAGCTTACCGTTATC
* *
100639577 AGCTCAATAGAGCTTACTGTTCATC
1 AGCTCAATAAAGCTTACCGTT-ATC
100639602 AGCTCA
1 AGCTCA
100639608 GGAGGAGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 18 0.69
25 8 0.31
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (24 bp):
AGCTCAATAAAGCTTACCGTTATC
Found at i:100642778 original size:18 final size:19
Alignment explanation
Indices: 100642752--100642791 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
100642742 TGTTCTTTTA
100642752 TTGGACCTTTAGTTTT-GT
1 TTGGACCTTTAGTTTTAGT
* *
100642770 TTGGGCCTTTGGTTTTAGT
1 TTGGACCTTTAGTTTTAGT
100642789 TTG
1 TTG
100642792 CTTTGTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.07, C:0.10, G:0.28, T:0.55
Consensus pattern (19 bp):
TTGGACCTTTAGTTTTAGT
Found at i:100644463 original size:22 final size:21
Alignment explanation
Indices: 100644422--100644464 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
100644412 AATTGAAAAT
*
100644422 AAACAAAAAAAAAGAGTTAAA
1 AAACAAAAAAAAAGAATTAAA
100644443 AAACATAAAAGAAAA-AATTAAA
1 AAACA-AAAA-AAAAGAATTAAA
100644465 TTGCTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (21 bp):
AAACAAAAAAAAAGAATTAAA
Found at i:100645969 original size:7 final size:7
Alignment explanation
Indices: 100645959--100645987 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
100645949 AAAATAAGAT
100645959 ATTATAA
1 ATTATAA
100645966 ATTATAA
1 ATTATAA
100645973 ATTATAA
1 ATTATAA
100645980 ATTATAA
1 ATTATAA
100645987 A
1 A
100645988 AATCGGTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTATAA
Found at i:100646180 original size:15 final size:16
Alignment explanation
Indices: 100646160--100646189 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
100646150 TTTTAAACAA
100646160 AAAATTATAT-TTTTG
1 AAAATTATATATTTTG
100646175 AAAATTATATATTTT
1 AAAATTATATATTTT
100646190 TTAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AAAATTATATATTTTG
Found at i:100646454 original size:8 final size:7
Alignment explanation
Indices: 100646423--100646452 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
100646413 TTTTTTAAAA
100646423 TATTTTT
1 TATTTTT
100646430 TATTTTT
1 TATTTTT
100646437 TATTTTT
1 TATTTTT
*
100646444 AATTTTT
1 TATTTTT
100646451 TA
1 TA
100646453 ATAATTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TATTTTT
Found at i:100648229 original size:7 final size:7
Alignment explanation
Indices: 100648217--100648242 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
100648207 GATCACGTCT
100648217 TCCCACA
1 TCCCACA
100648224 TCCCACA
1 TCCCACA
100648231 TCCCACA
1 TCCCACA
100648238 TCCCA
1 TCCCA
100648243 TTCCCCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.58, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCACA
Found at i:100658219 original size:408 final size:408
Alignment explanation
Indices: 100657463--100658447 Score: 1675
Period size: 408 Copynumber: 2.4 Consensus size: 408
100657453 TTCATCCGGC
*
100657463 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACAATTATAATTACGTTCTTCAACCG
1 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAA-CG
* * * *
100657528 GGAGAAGGATGACTATCATTTGTAATATACATCAATGAAACTTTTTACTATCGTACAGTTGTTAT
65 GGGGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCGTACAGTTGTTAT
* *
100657593 TAATACTCGAATTTATAACAAGCCATATGGAATGTTCAGTTCTTTTTTATTTTAATAACATATGA
130 TAATACTCGAATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACACATGA
* * * *
100657658 ACGATGTCGACATTAATATTTAAGGTAAACTCGTGGATTATATAGTTAATGAAAGTTGGTAATAT
195 ACGATGTCGACATTAATATTTAAGGCAAACTCGTGGATTATACAGTCAATGAAAGTTGGAAATAT
100657723 TGTAAAGTTATTTTTAATACTCGGTTTTATAACAAGCAAACACCAGGAACAAGAAAGTCCAAAAT
260 TGTAAAGTTATTTTTAATACTCGGTTTTATAACAAGCAAACACCAGGAACAAGAAAGTCCAAAAT
*
100657788 CCGCCCTCAACGTTTGCACATTTTTGCATGTAAGTCCTTATACAATTTACATTCGTAACCCGAAG
325 CCACCCTCAACGTTTGCACATTTTTGCATGTAAGTCCTTATACAATTTACATTCGTAACCCGAAG
* *
100657853 GACGTATGAGTATATCTGT
390 GACGTATGAATATATATGT
* *
100657872 TAATACATACTTCATCCGGCTAAATTATGCATTTGATTTATTATTATAATTACGTTCTTCAATCG
1 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAA-CG
* *
100657937 GGGGAAGGATGACTATCCTTTGTAATACACGCCAATGAAACTTTTTAATATC-TACAGTTGTTAT
65 GGGGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCGTACAGTTGTTAT
*
100658001 TAATACTCGGATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACACATGA
130 TAATACTCGAATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACACATGA
100658066 ACGATGTCGACATTAATATTTAAGGCAAACTCGTGGATTATACAGTCAATGAAAGTTGGAAATAT
195 ACGATGTCGACATTAATATTTAAGGCAAACTCGTGGATTATACAGTCAATGAAAGTTGGAAATAT
* *
100658131 TGTAAAGTTGTTTTTAATACTCGGTTTTATAACAAGCAAACACCCGGAACAAGAAAGTCCAAAAT
260 TGTAAAGTTATTTTTAATACTCGGTTTTATAACAAGCAAACACCAGGAACAAGAAAGTCCAAAAT
** * *
100658196 TTACCCTCAACGTTTGCACATTTTTGCATGTAATTCCTTATACAATTTACATTCGTAACCCGGAG
325 CCACCCTCAACGTTTGCACATTTTTGCATGTAAGTCCTTATACAATTTACATTCGTAACCCGAAG
100658261 GACGTATGAATATATATGT
390 GACGTATGAATATATATGT
*
100658280 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAAGTACGTTCTTCAACGA
1 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAACG-
* *
100658345 GGGGAAGGATGACTATCCTTTGTAATATTCGTCAATGAAACTTTTTAATATCGTACAGTTATTAT
65 GGGGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCGTACAGTTGTTAT
*
100658410 TAATACTCGAATTTATAACAAGCCGTATGGAATGTTCA
130 TAATACTCGAATTTATAACAAGCCATATGGAATGTTCA
100658448 TCCTCACACT
Statistics
Matches: 539, Mismatches: 35, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
407 2 0.00
408 383 0.71
409 154 0.29
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (408 bp):
TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAACGG
GGGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCGTACAGTTGTTATT
AATACTCGAATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACACATGAA
CGATGTCGACATTAATATTTAAGGCAAACTCGTGGATTATACAGTCAATGAAAGTTGGAAATATT
GTAAAGTTATTTTTAATACTCGGTTTTATAACAAGCAAACACCAGGAACAAGAAAGTCCAAAATC
CACCCTCAACGTTTGCACATTTTTGCATGTAAGTCCTTATACAATTTACATTCGTAACCCGAAGG
ACGTATGAATATATATGT
Found at i:100660668 original size:31 final size:31
Alignment explanation
Indices: 100660630--100660693 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
100660620 AATCCAAGTT
100660630 GGCACTTAAAATCTAATTGGACTACCACGTA
1 GGCACTTAAAATCTAATTGGACTACCACGTA
* *
100660661 GGCACTTAAAATCTAGTTGGACTGCCACGTA
1 GGCACTTAAAATCTAATTGGACTACCACGTA
100660692 GG
1 GG
100660694 ATTACTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (31 bp):
GGCACTTAAAATCTAATTGGACTACCACGTA
Found at i:100674033 original size:30 final size:29
Alignment explanation
Indices: 100673999--100674062 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
100673989 ATGAATCGGA
*
100673999 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATCT-AACT
100674029 AGCTTTGGCACTAAGTGTGCGATCTAACT
1 AGCTTTGGCACTAAGTGTGCGATCTAACT
100674058 AGCTT
1 AGCTT
100674063 CGGCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATCTAACT
Found at i:100675545 original size:163 final size:163
Alignment explanation
Indices: 100675361--100675688 Score: 484
Period size: 164 Copynumber: 2.0 Consensus size: 163
100675351 TTTTGCTTCC
* *
100675361 CCTGTTTCTTTTATGTGAAAATAGACTCAATAA-ACTTTAATTACAT-ATTTTATTTTAAATTTA
1 CCTGTTTCTTTTATATGAAAATAGACTCAATAATA-TTTAATTACATAATTTT-TTTGAAATTTA
* * * * *
100675424 ATT-AGCTTCCACAATTTTTGGTAAATTTTCATATTCATGCACTGCTACTGTCCAACACTGATT-
64 ATTCAACTTACACAATTTTTGGTAAATTTTCAAAGTCATACACTGCTACTGTCCAACACT-ATTG
*
100675487 TACTACTAAAGTTCACTTTTGCACAATTTCACTTAAT
128 TACTACTAAAGTTCACTTTTACACAA-TTCACTTAAT
* *
100675524 CCTGTTTCTTTTATATGAAAATAGACTCATTAATATTTAATTCCATAATTTTTTTGAAATTTAAT
1 CCTGTTTCTTTTATATGAAAATAGACTCAATAATATTTAATTACATAATTTTTTTGAAATTTAAT
* *
100675589 TCAACTTACACAATTTTTGGTAAATTTTCAAAGTCATACACTGCTGCTGTTCAACACTATTGTAC
66 TCAACTTACACAATTTTTGGTAAATTTTCAAAGTCATACACTGCTACTGTCCAACACTATTGTAC
100675654 TACTAAAGTTCACTTTTACACAATTCACTTAAT
131 TACTAAAGTTCACTTTTACACAATTCACTTAAT
100675687 CC
1 CC
100675689 ATTCCATTTT
Statistics
Matches: 149, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
163 69 0.46
164 80 0.54
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (163 bp):
CCTGTTTCTTTTATATGAAAATAGACTCAATAATATTTAATTACATAATTTTTTTGAAATTTAAT
TCAACTTACACAATTTTTGGTAAATTTTCAAAGTCATACACTGCTACTGTCCAACACTATTGTAC
TACTAAAGTTCACTTTTACACAATTCACTTAAT
Found at i:100676017 original size:50 final size:48
Alignment explanation
Indices: 100675899--100676074 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 48
100675889 CTGGTACGCA
* * *
100675899 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTAT-CGATACACG
* **
100675948 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-GATACACG
* * *
100675998 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAAGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGA-TACACG
100676049 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
100676075 NNNNNNNNNN
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
49 31 0.28
50 44 0.40
51 35 0.32
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGATACACG
Found at i:100686432 original size:27 final size:26
Alignment explanation
Indices: 100686401--100686759 Score: 153
Period size: 27 Copynumber: 13.6 Consensus size: 26
100686391 TTAGTTTACC
* *
100686401 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
*
100686428 AAATTACCAAAGTACCC-CTGATTTATA
1 AAATTACCAAA-TACCCTC-GATTTGTA
*
100686455 AAATTATCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCTCGATTTGTA
* *
100686482 AAATTACGAAATA----AGA----TA
1 AAATTACCAAATACCCTCGATTTGTA
* ** *
100686500 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCA-AATACCCTCGATTTGTA
* *** **
100686527 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACC-AAATACCCTCGATTTGTA
* ** *
100686554 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCA-AATACCCTCGATTTGTA
* ** *
100686581 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCA-AATACCCTCGATTTGTA
* ** ** **
100686608 GAATTACCATTTTACCCTTAATTTACA
1 AAATTACCA-AATACCCTCGATTTGTA
* * * *
100686635 AAATTACTGAAATACCCTTGGTTTATA
1 AAATTAC-CAAATACCCTCGATTTGTA
**
100686662 AAATTACCAAAATACCCTCGATTAATA
1 AAATTACC-AAATACCCTCGATTTGTA
* *
100686689 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACC-AAATACCCTCGATTTGTA
*
100686716 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACC-AAATACCCTC-GATTTGTA
100686743 AAATTACCAAAATACCC
1 AAATTACC-AAATACCC
100686760 CTATAGGATA
Statistics
Matches: 277, Mismatches: 37, Indels: 36
0.79 0.11 0.10
Matches are distributed among these distances:
18 9 0.03
19 2 0.01
22 2 0.01
23 2 0.01
26 10 0.04
27 245 0.88
28 7 0.03
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTGTA
Found at i:100686641 original size:54 final size:54
Alignment explanation
Indices: 100686497--100686625 Score: 240
Period size: 54 Copynumber: 2.4 Consensus size: 54
100686487 ACGAAATAAG
*
100686497 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTT
*
100686551 ACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTT
100686605 ATAGAATTACCATTTTACCCT
1 ATAGAATTACCATTTTACCCT
100686626 TAATTTACAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTT
Found at i:100686651 original size:54 final size:53
Alignment explanation
Indices: 100686497--100686695 Score: 218
Period size: 54 Copynumber: 3.7 Consensus size: 53
100686487 ACGAAATAAG
*
100686497 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTA-CGATTTACCCTCGATTT
* *
100686551 ACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACGA-TTTACCCTCGATTT
** * * ** * *
100686605 ATAGAATTACCATTTTACCCTTAATTTACAAAATTACTGAAATACCCTTGGTTT
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTAC-GATTTACCCTCGATTT
* *** * *
100686659 ATAAAATTACCAAAATACCCTCGATTAATAAAATTAC
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTAC
100686696 CAAAATACCC
Statistics
Matches: 122, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (53 bp):
ATAGAATTACCATTTTACCCTCGATTTATAGAATTACGATTTACCCTCGATTT
Found at i:100686651 original size:81 final size:81
Alignment explanation
Indices: 100686497--100686697 Score: 251
Period size: 81 Copynumber: 2.5 Consensus size: 81
100686487 ACGAAATAAG
* * *
100686497 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACC
**
100686562 ATTTTACCCTCGATTT
66 ATAATACCCTCGATTT
*
100686578 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACT
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTAC-
* * *
100686643 GA-AATACCCTTGGTTT
65 CATAATACCCTCGATTT
* *** * *
100686659 ATAAAATTACCAAAATACCCTCGATTAATAAAATTACCA
1 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCA
100686698 AAATACCCTT
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 103 0.99
82 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (81 bp):
ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACC
ATAATACCCTCGATTT
Found at i:100686702 original size:54 final size:54
Alignment explanation
Indices: 100686512--100686759 Score: 201
Period size: 54 Copynumber: 4.6 Consensus size: 54
100686502 ATTACCATTT
* **** * * * * ***
100686512 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* *** * * * ***
100686566 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
** * **
100686620 TACCCTTAATTTACAAAATTACTGAAATACCCTTGGTTTATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* *
100686674 TACCCTCGATTAATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* *
100686728 TACCC-CTGATTTGTGAAATTACCAAAATACCC
1 TACCCTC-GATTTATAAAATTACCAAAATACCC
100686760 CTATAGGATA
Statistics
Matches: 166, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 1 0.01
54 165 0.99
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
Found at i:100686705 original size:81 final size:81
Alignment explanation
Indices: 100686547--100686759 Score: 210
Period size: 81 Copynumber: 2.6 Consensus size: 81
100686537 TTTACCCTCG
* *** * * *** * *
100686547 ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAAT
1 ATTTACAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGATTAATAAAAT
***
100686612 TACCATTTTACCCTTA
66 TACCAAAATACCCTTA
** *
100686628 ATTTACAAAATTACTGAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGATTAATAAAAT
1 ATTTACAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGATTAATAAAAT
*
100686693 TACCAAAATACCCTTG
66 TACCAAAATACCCTTA
* ** * * *
100686709 GTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCC
1 ATTTACAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCC
100686760 CTATAGGATA
Statistics
Matches: 105, Mismatches: 27, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 105 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (81 bp):
ATTTACAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGATTAATAAAAT
TACCAAAATACCCTTA
Found at i:100686760 original size:27 final size:27
Alignment explanation
Indices: 100686568--100686761 Score: 158
Period size: 27 Copynumber: 7.1 Consensus size: 27
100686558 TACCATTTTA
* ***
100686568 CCCTCGATTTATAGAATTACCATTTTA-
1 CCCT-GATTTATAAAATTACCAAAATAC
* ***
100686595 CCCTCGATTTATAGAATTACCATTTTAC
1 CCCT-GATTTATAAAATTACCAAAATAC
* * * **
100686623 CCTTAATTTACAAAATTACTGAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
* *
100686650 CCTTGGTTTATAAAATTACCAAAATA-
1 CCCTGATTTATAAAATTACCAAAATAC
*
100686676 CCCTCGATTAATAAAATTACCAAAATAC
1 CCCT-GATTTATAAAATTACCAAAATAC
* * *
100686704 CCTTGGTTTGTAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
* *
100686731 CCCTGATTTGTGAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
100686758 CCCT
1 CCCT
100686762 ATAGGATAGA
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.02
27 131 0.94
28 6 0.04
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
CCCTGATTTATAAAATTACCAAAATAC
Found at i:100686774 original size:27 final size:27
Alignment explanation
Indices: 100686717--100686886 Score: 164
Period size: 27 Copynumber: 6.3 Consensus size: 27
100686707 TGGTTTGTAA
**
100686717 AATTACCAAAATACCCCTGAT-TTGT-G
1 AATTACCAAAATACCCCT-ATAGGGTAG
*
100686743 AAATTACCAAAATACCCCTATAGGATAG
1 -AATTACCAAAATACCCCTATAGGGTAG
* **
100686771 AATTACCGAAATACCATTATAGGGTAG
1 AATTACCAAAATACCCCTATAGGGTAG
** *
100686798 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTATAGGGTAG
* *
100686825 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTATAGGGTAG
* * * * *
100686852 AATTACCAAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCCCTATAGGGTAG
100686879 AATTACCA
1 AATTACCA
100686887 TTTTTCCCCT
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 121 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (27 bp):
AATTACCAAAATACCCCTATAGGGTAG
Found at i:100686775 original size:54 final size:52
Alignment explanation
Indices: 100686663--100686840 Score: 151
Period size: 54 Copynumber: 3.3 Consensus size: 52
100686653 TGGTTTATAA
* * * ** *
100686663 AATTACCAAAATACCCTCGATTAATAAAATTACCAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCT-GATTAGTGAAATTACCAAAATACCCCT-GTAGGTAG
* *
100686717 AATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCCTATAGGATAG
1 AATTACCAAAATA-CCCTGATTAGTGAAATTACCAAAATACCCCTGTAGG-TAG
* * * * **
100686771 AATTACCGAAATACCATTA-TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTGATTAGTG-A-AATTACCAAAATACCCCTGTA-GGTAG
*
100686825 AATTACCGAAATACCC
1 AATTACCAAAATACCC
100686841 CTGTAGGGTA
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
52 3 0.03
53 7 0.07
54 86 0.84
55 6 0.06
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (52 bp):
AATTACCAAAATACCCTGATTAGTGAAATTACCAAAATACCCCTGTAGGTAG
Found at i:100686775 original size:81 final size:81
Alignment explanation
Indices: 100686634--100686884 Score: 226
Period size: 81 Copynumber: 3.1 Consensus size: 81
100686624 CTTAATTTAC
* * * * *
100686634 AAAATTACTGAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGATTA--ATAAAATTACC
1 AAAATTACTGAAATACCCCT-GTTTGTGAAATTACCAAAATACCC-CTA-TAGGATAGAATTACC
* **
100686697 AAAATACCCTTGGT-TTGT
63 AAAATACCCTTGATAGGGT
** *
100686715 AAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCCTATAGGATAGAATTACCGA
1 AAAATTACTGAAATACCCCTG-TTTGTGAAATTACCAAAATACCCCTATAGGATAGAATTACCAA
*
100686780 AATACCATT-ATAGGGT
65 AATACCCTTGATAGGGT
* * * * * *
100686796 AGAATTACTGAAATACCCCTG-TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCA
1 AAAATTACTGAAATACCCCTGTTTGTG-A-AATTACCAAAATACCCCTATAGGATAGAATTACCA
* *
100686860 AGATACCCTTG-TGGGGT
64 AAATACCCTTGATAGGGT
100686877 AAAATTAC
1 AAAATTAC
100686885 CATTTTTCCC
Statistics
Matches: 138, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
79 5 0.04
80 5 0.04
81 128 0.93
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.27
Consensus pattern (81 bp):
AAAATTACTGAAATACCCCTGTTTGTGAAATTACCAAAATACCCCTATAGGATAGAATTACCAAA
ATACCCTTGATAGGGT
Found at i:100690510 original size:27 final size:29
Alignment explanation
Indices: 100690450--100690513 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 29
100690440 AGATATGTGT
100690450 GTGTGTCTCAGCCGTATGTGACACATGACC
1 GTGTGTCTCAGCCGTATGTGA-ACATGACC
*
100690480 GTGTGTCTCAGCCG-ATGTG-ACATGGCC
1 GTGTGTCTCAGCCGTATGTGAACATGACC
100690507 GTGTGTC
1 GTGTGTC
100690514 CCCTGTAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 14 0.42
29 5 0.15
30 14 0.42
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (29 bp):
GTGTGTCTCAGCCGTATGTGAACATGACC
Found at i:100691046 original size:20 final size:18
Alignment explanation
Indices: 100691003--100691047 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
100690993 TGTTCTTTGT
* *
100691003 TTTGTGAAAGAAATCAGA
1 TTTGTGAAACAAATCAAA
100691021 TTTGTGAAACATAATCAAA
1 TTTGTGAAACA-AATCAAA
100691040 CTTTGTGA
1 -TTTGTGA
100691048 GGATTCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 6 0.26
20 7 0.30
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (18 bp):
TTTGTGAAACAAATCAAA
Found at i:100696331 original size:20 final size:20
Alignment explanation
Indices: 100696306--100696345 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
100696296 ACTTTAAAAT
100696306 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATGATTTTAAC
100696326 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATGATTTTAAC
100696346 AAATCAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
CAAGTTAAAATGATTTTAAC
Found at i:100699908 original size:20 final size:18
Alignment explanation
Indices: 100699883--100699919 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
100699873 ATTGCTAAGT
100699883 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
100699903 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
100699920 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:100716615 original size:35 final size:36
Alignment explanation
Indices: 100716548--100716618 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
100716538 CAATGATATG
*
100716548 CAATCTTAGATATGATATGCCATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
100716584 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
100716619 TGCAATCCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 18 0.53
36 16 0.47
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:100716637 original size:17 final size:19
Alignment explanation
Indices: 100716540--100716630 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
100716530 ATAATCTTCA
100716540 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
100716559 ATGATATGCCATCTTAGAT
1 ATGATATGCAATCTTAGAT
100716578 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100716595 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
100716613 ATGATATGCAATCCTAGA
1 ATGATATGCAATCTTAGA
100716631 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.24
19 35 0.53
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:100716937 original size:17 final size:17
Alignment explanation
Indices: 100716912--100716947 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
100716902 TGTTTCCCTG
*
100716912 AATTTTTTTATATATTTT
1 AATTTTTTAATA-ATTTT
100716930 AATTTTTTAATAATTTT
1 AATTTTTTAATAATTTT
100716947 A
1 A
100716948 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTTTAATAATTTT
Found at i:100720998 original size:75 final size:75
Alignment explanation
Indices: 100720875--100721013 Score: 269
Period size: 75 Copynumber: 1.9 Consensus size: 75
100720865 TCTTGTTACT
*
100720875 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGTTTACAATCATCTATTATTTTTTAT
1 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTAT
100720940 TAACAAAAAA
66 TAACAAAAAA
100720950 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTA
1 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTA
100721014 ATAAAGCATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (75 bp):
CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTAT
TAACAAAAAA
Found at i:100725561 original size:89 final size:87
Alignment explanation
Indices: 100725433--100725594 Score: 207
Period size: 89 Copynumber: 1.8 Consensus size: 87
100725423 ATTCGACGGA
* ** * *
100725433 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATTGAAGTAGATCCAAGATG
1 GAGCAGATCAAAGACATAGCAGATCTAACCTTCACATG-TTT-ACACTGAAGCAGATCCAAGATG
100725498 ATTTGGCATCCTTGCGTTTACAAG
64 ATTTGGCATCCTTGCGTTTACAAG
* ** * * *
100725522 GAGCAGATCAAAGACATAGCAGATTTGGCTTTCACATGTTTACGCTGAAGCAGATCTAAGATGAT
1 GAGCAGATCAAAGACATAGCAGATCTAACCTTCACATGTTTACACTGAAGCAGATCCAAGATGAT
100725587 TTGGCATC
66 TTGGCATC
100725595 TCTGTACTGT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
87 28 0.45
88 3 0.05
89 31 0.50
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (87 bp):
GAGCAGATCAAAGACATAGCAGATCTAACCTTCACATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAG
Found at i:100725706 original size:219 final size:220
Alignment explanation
Indices: 100725354--100725934 Score: 990
Period size: 219 Copynumber: 2.7 Consensus size: 220
100725344 CACCGAAGTG
* ** *
100725354 GATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCT
1 GATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCT
*
100725419 CCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATTGAA
66 CCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAA
* *
100725484 GTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAGATCAAAGACATAGCAGATTTG
131 GTAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGAAGCAGATCAAAGACATAGCAGATTTG
*
100725549 GCTTTCACATGTTTACGCTGAAGCA
196 GCTTTCACATGTTTACGCTAAAGCA
*
100725574 GATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAA-AGATTTGGCATTT
1 GATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCT
*
100725638 CCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAA
66 CCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAA
100725703 GTAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGAAGCAGATCAAAGACATAGCAGATTTG
131 GTAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGAAGCAGATCAAAGACATAGCAGATTTG
*
100725768 GCTTTCACGTGTTTACGCTAAAGCA
196 GCTTTCACATGTTTACGCTAAAGCA
*
100725793 AATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCT
1 GATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCT
* *
100725858 CCATATTCTACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTC--ATGTGTTT-ACATCGA
66 CCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGT-TTTCACATCGA
*
100725920 AGCAGATCCAAGATG
130 AGTAGATCCAAGATG
100725935 CCAGATTTGG
Statistics
Matches: 342, Mismatches: 17, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
218 25 0.07
219 214 0.63
220 103 0.30
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (220 bp):
GATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCT
CCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAA
GTAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGAAGCAGATCAAAGACATAGCAGATTTG
GCTTTCACATGTTTACGCTAAAGCA
Found at i:100726406 original size:35 final size:37
Alignment explanation
Indices: 100726335--100726432 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
100726325 ATAATCTTCA
100726335 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
100726373 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
100726408 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
100726433 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:100726432 original size:17 final size:19
Alignment explanation
Indices: 100726335--100726425 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
100726325 ATAATCTTCA
100726335 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100726354 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100726373 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100726390 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100726408 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
100726426 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:100726451 original size:22 final size:22
Alignment explanation
Indices: 100726335--100726448 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
100726325 ATAATCTTCA
100726335 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
100726354 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
100726373 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
100726390 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
100726408 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
100726430 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
100726449 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:100726739 original size:17 final size:17
Alignment explanation
Indices: 100726713--100726749 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
100726703 CATGTTTCCC
*
100726713 TAATTTTTTTATATATTT
1 TAATTTTTTAATA-ATTT
100726731 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
100726748 TA
1 TA
100726750 GTATCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:100738405 original size:43 final size:44
Alignment explanation
Indices: 100738350--100738475 Score: 147
Period size: 41 Copynumber: 3.0 Consensus size: 44
100738340 ATTCCATACA
100738350 ATGCCAAC-ATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACTATCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
100738393 ATGCC-ACTATCCCAGATAG-GGTCTTACATG-AATCAAATA-CG
1 ATGCCAACTATCCCAGA-CGTGGTCTTACATGTAATCACATATCG
* * * *
100738434 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAATCACATATC
1 ATGCCAACTATCCCAGACGTGGTCTTACATGTAATCACATATC
100738476 ATTAATCCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
41 25 0.36
42 19 0.27
43 25 0.36
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAACTATCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:100741493 original size:414 final size:414
Alignment explanation
Indices: 100740723--100741550 Score: 1656
Period size: 414 Copynumber: 2.0 Consensus size: 414
100740713 AAAATGAAAT
100740723 ATTATGAAATTATACTTGAAATAATGAGATGAATTATGCATGTTGAATGAATACAAGTTGTGGAA
1 ATTATGAAATTATACTTGAAATAATGAGATGAATTATGCATGTTGAATGAATACAAGTTGTGGAA
100740788 AGCATATGTGCTTGGAAACTTGATTTTTGTTGAGCCTATATATGTTTTGATGTTAATATGAAATA
66 AGCATATGTGCTTGGAAACTTGATTTTTGTTGAGCCTATATATGTTTTGATGTTAATATGAAATA
100740853 TATGACTAACAAGGGCAACGAGAATGTTTGTAGGGATTGAGATCAAATTAATTGATTATGCCTTA
131 TATGACTAACAAGGGCAACGAGAATGTTTGTAGGGATTGAGATCAAATTAATTGATTATGCCTTA
100740918 CATAGTTACCTCAAAATAGAATGAATGGTAAGTTAAGTACCATGTTATACGAACTTACTAAACAT
196 CATAGTTACCTCAAAATAGAATGAATGGTAAGTTAAGTACCATGTTATACGAACTTACTAAACAT
100740983 TTTATGCTTACTTAGTTTTATTTCCCTGATTTAGAGTAAATCAAAAGCTCATTGAATTGGAACTC
261 TTTATGCTTACTTAGTTTTATTTCCCTGATTTAGAGTAAATCAAAAGCTCATTGAATTGGAACTC
100741048 GGGGGAGATCACTCACACTATCCATCGACCCATGTCAGTACAATATGGTAAATCAATTATGGTTA
326 GGGGGAGATCACTCACACTATCCATCGACCCATGTCAGTACAATATGGTAAATCAATTATGGTTA
100741113 TAATGGCATGTACAGGATATATTG
391 TAATGGCATGTACAGGATATATTG
100741137 ATTATGAAATTATACTTGAAATAATGAGATGAATTATGCATGTTGAATGAATACAAGTTGTGGAA
1 ATTATGAAATTATACTTGAAATAATGAGATGAATTATGCATGTTGAATGAATACAAGTTGTGGAA
100741202 AGCATATGTGCTTGGAAACTTGATTTTTGTTGAGCCTATATATGTTTTGATGTTAATATGAAATA
66 AGCATATGTGCTTGGAAACTTGATTTTTGTTGAGCCTATATATGTTTTGATGTTAATATGAAATA
100741267 TATGACTAACAAGGGCAACGAGAATGTTTGTAGGGATTGAGATCAAATTAATTGATTATGCCTTA
131 TATGACTAACAAGGGCAACGAGAATGTTTGTAGGGATTGAGATCAAATTAATTGATTATGCCTTA
100741332 CATAGTTACCTCAAAATAGAATGAATGGTAAGTTAAGTACCATGTTATACGAACTTACTAAACAT
196 CATAGTTACCTCAAAATAGAATGAATGGTAAGTTAAGTACCATGTTATACGAACTTACTAAACAT
100741397 TTTATGCTTACTTAGTTTTATTTCCCTGATTTAGAGTAAATCAAAAGCTCATTGAATTGGAACTC
261 TTTATGCTTACTTAGTTTTATTTCCCTGATTTAGAGTAAATCAAAAGCTCATTGAATTGGAACTC
100741462 GGGGGAGATCACTCACACTATCCATCGACCCATGTCAGTACAATATGGTAAATCAATTATGGTTA
326 GGGGGAGATCACTCACACTATCCATCGACCCATGTCAGTACAATATGGTAAATCAATTATGGTTA
100741527 TAATGGCATGTACAGGATATATTG
391 TAATGGCATGTACAGGATATATTG
100741551 GCCATATTGG
Statistics
Matches: 414, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
414 414 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (414 bp):
ATTATGAAATTATACTTGAAATAATGAGATGAATTATGCATGTTGAATGAATACAAGTTGTGGAA
AGCATATGTGCTTGGAAACTTGATTTTTGTTGAGCCTATATATGTTTTGATGTTAATATGAAATA
TATGACTAACAAGGGCAACGAGAATGTTTGTAGGGATTGAGATCAAATTAATTGATTATGCCTTA
CATAGTTACCTCAAAATAGAATGAATGGTAAGTTAAGTACCATGTTATACGAACTTACTAAACAT
TTTATGCTTACTTAGTTTTATTTCCCTGATTTAGAGTAAATCAAAAGCTCATTGAATTGGAACTC
GGGGGAGATCACTCACACTATCCATCGACCCATGTCAGTACAATATGGTAAATCAATTATGGTTA
TAATGGCATGTACAGGATATATTG
Found at i:100744361 original size:20 final size:21
Alignment explanation
Indices: 100744321--100744361 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
100744311 CGAGACTAAA
* *
100744321 TCAATAACTTAGGAAACTTTT
1 TCAATAACTTAGAAAAATTTT
100744342 TCAA-AACTTAGAAAAATTTT
1 TCAATAACTTAGAAAAATTTT
100744362 CCATAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (21 bp):
TCAATAACTTAGAAAAATTTT
Found at i:100746473 original size:21 final size:20
Alignment explanation
Indices: 100746445--100746484 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
100746435 CAAAACTTAT
100746445 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
100746465 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
100746485 AAAGCACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:100749902 original size:46 final size:47
Alignment explanation
Indices: 100749808--100749966 Score: 149
Period size: 46 Copynumber: 3.2 Consensus size: 47
100749798 CATAGTAAAA
* ** * *
100749808 CTATGGTCTTGCACATAGTCACATATCACACACTGAAGCCATAGCCCAG
1 CTATGGTCTTACACGGAATCACATAT--CACACTGATGCCATAGCCCAG
* *
100749857 CCATGGTCTTACACGG-ATCACATATCACACTGATGCCATATCCCAG
1 CTATGGTCTTACACGGAATCACATATCACACTGATGCCATAGCCCAG
* * *
100749903 ATATGGTCTTATACGGAAGCACATAATCACATATCTCTGATGCCATAGCCCAG
1 CTATGGTCTTACACGGAATCACAT-ATCAC--A---CTGATGCCATAGCCCAG
100749956 CTATGGTCTTA
1 CTATGGTCTTA
100749967 TATGGAAATC
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
46 32 0.36
47 6 0.07
48 13 0.14
49 12 0.13
50 1 0.01
53 26 0.29
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (47 bp):
CTATGGTCTTACACGGAATCACATATCACACTGATGCCATAGCCCAG
Found at i:100750038 original size:31 final size:31
Alignment explanation
Indices: 100750003--100750096 Score: 154
Period size: 31 Copynumber: 3.0 Consensus size: 31
100749993 TTGTAGCCGA
100750003 AGCTACCACTTTTTACTGATCAGGTAGTCGG
1 AGCTACCACTTTTTACTGATCAGGTAGTCGG
100750034 AGCTACCA-TTTTTCACTGATCAGGTAGTCGG
1 AGCTACCACTTTTT-ACTGATCAGGTAGTCGG
* *
100750065 AGCTACCACTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTTACTGATCAGGTAGTCGG
100750096 A
1 A
100750097 ACATTCATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.08
31 50 0.85
32 4 0.07
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (31 bp):
AGCTACCACTTTTTACTGATCAGGTAGTCGG
Found at i:100754249 original size:26 final size:27
Alignment explanation
Indices: 100754206--100754263 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
100754196 GAAGTACTGA
* *
100754206 ACTGGTGACTATGCCACATTTATTATT
1 ACTGGTGACTATGCCACACTTACTATT
* *
100754233 ACTGGTGGCT-TGCCACACTTACTGTT
1 ACTGGTGACTATGCCACACTTACTATT
100754259 ACTGG
1 ACTGG
100754264 CAGCTACGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (27 bp):
ACTGGTGACTATGCCACACTTACTATT
Found at i:100760762 original size:20 final size:19
Alignment explanation
Indices: 100760739--100760797 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
100760729 AAGTGTAGGC
100760739 AGAGGCACCAATGTGCAATT
1 AGAGGCACCAA-GTGCAATT
*
100760759 AGAGGCACCGAAGTGCAAAT
1 AGAGGCACC-AAGTGCAATT
*
100760779 AGGGGCACCAAAGTGCAAT
1 AGAGGCACC-AAGTGCAAT
100760798 CTTGTACAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.37, C:0.20, G:0.29, T:0.14
Consensus pattern (19 bp):
AGAGGCACCAAGTGCAATT
Found at i:100760786 original size:40 final size:40
Alignment explanation
Indices: 100760718--100760797 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
100760708 AGATGCATAA
* ** *
100760718 TAGAGGCACCGAAGTGTAGGCAGAGGCACCAATGTGCAAT
1 TAGAGGCACCGAAGTGCAAACAGAGGCACCAAAGTGCAAT
* *
100760758 TAGAGGCACCGAAGTGCAAATAGGGGCACCAAAGTGCAAT
1 TAGAGGCACCGAAGTGCAAACAGAGGCACCAAAGTGCAAT
100760798 CTTGTACAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.31, T:0.14
Consensus pattern (40 bp):
TAGAGGCACCGAAGTGCAAACAGAGGCACCAAAGTGCAAT
Found at i:100767127 original size:35 final size:35
Alignment explanation
Indices: 100767079--100767237 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 35
100767069 GTATGTACAT
100767079 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
100767114 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * ** * *
100767149 ATGTGATGTTTTATTGAGCTTGTATATTCAGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
100767184 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
100767219 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
100767238 CTTGAGTATT
Statistics
Matches: 98, Mismatches: 26, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 98 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:100772436 original size:53 final size:53
Alignment explanation
Indices: 100772367--100772471 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
100772357 AGCTGAAATC
* * *
100772367 GGAAAATATCAGGTTGTGGACAAAATGGTAAAAATGGCCATTTTCGCATACGG
1 GGAAAATACCAAGTTGTGGACAAAATGGTAAAAATAGCCATTTTCGCATACGG
* *
100772420 GGAAAATACCAAGTTGTGGACGAAATGGTAAAAGTAGCCATTTTCGCATACG
1 GGAAAATACCAAGTTGTGGACAAAATGGTAAAAATAGCCATTTTCGCATACG
100772472 AGGTAAGTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (53 bp):
GGAAAATACCAAGTTGTGGACAAAATGGTAAAAATAGCCATTTTCGCATACGG
Found at i:100802234 original size:15 final size:13
Alignment explanation
Indices: 100802208--100802268 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
100802198 CTTATTCTTC
100802208 TTATTATTATTTT
1 TTATTATTATTTT
100802221 TTATGTATTAATTTT
1 TTAT-TATT-ATTTT
100802236 TTA-TATTATTCTT
1 TTATTATTATT-TT
* *
100802249 TTTTTCTTA-TTT
1 TTATTATTATTTT
100802261 TTATTATT
1 TTATTATT
100802269 TTAGCACTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 11 0.28
13 13 0.32
14 8 0.20
15 8 0.20
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:100802248 original size:48 final size:48
Alignment explanation
Indices: 100802178--100802271 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
100802168 CCTTTTCTTT
* *
100802178 TATTTATTTATTATATTCTTCTTATTCTTCTTATTATTATT-TTTTATG
1 TATTAATTTATTATATTATTCTT-TTCTTCTTATTATTATTATTTTATG
* * *
100802226 TATTAATTTTTTATATTATTCTTTTTTTCTTATTTTTATTATTTTA
1 TATTAATTTATTATATTATTCTTTTCTTCTTATTATTATTATTTTA
100802272 GCACTGTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 15 0.38
48 25 0.62
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.71
Consensus pattern (48 bp):
TATTAATTTATTATATTATTCTTTTCTTCTTATTATTATTATTTTATG
Found at i:100803813 original size:24 final size:25
Alignment explanation
Indices: 100803786--100803839 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
100803776 TTTTTCTTTT
*
100803786 ATTTTTATTTTTT-AGACTA-ATTTC
1 ATTTTTATTTTTTGA-ACTATATTTA
100803810 ATTTTTATTTTTTGAACTATATTTA
1 ATTTTTATTTTTTGAACTATATTTA
100803835 ATTTT
1 ATTTT
100803840 ATGGTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (25 bp):
ATTTTTATTTTTTGAACTATATTTA
Found at i:100803821 original size:25 final size:24
Alignment explanation
Indices: 100803786--100803839 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
100803776 TTTTTCTTTT
* *
100803786 ATTTTTATTTTTTAGACTA-ATTTC
1 ATTTTTATTTTTGA-ACTATATTTA
100803810 ATTTTTATTTTTTGAACTATATTTA
1 ATTTTTA-TTTTTGAACTATATTTA
100803835 ATTTT
1 ATTTT
100803840 ATGGTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTTATTTTTGAACTATATTTA
Found at i:100814604 original size:46 final size:45
Alignment explanation
Indices: 100814459--100814627 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 45
100814449 TTATTATGAG
* * * * *
100814459 CTAGCGTAAGACATATTTGGGACATGCATCGGCCA-C-AGTATGAGAA
1 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CATCGAG-ATAAG-T
* * * *
100814505 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGATGAGT
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGATAAGT
*
100814552 GCTAGTGTAAGACGTGTCTGGGACATGCATCGGCATCGAGACGTAAGT
1 -CTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA--TAAGT
100814600 -TAGTGTAAGACATGTCTGGGACATGCAT
1 CTAGTGTAAGACATGTCTGGGACATGCAT
100814628 TGGCTACGAG
Statistics
Matches: 105, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
46 50 0.48
47 27 0.26
48 26 0.25
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATAAGT
Found at i:100822463 original size:53 final size:53
Alignment explanation
Indices: 100822266--100822469 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 53
100822256 TAGGGTTTAC
* * * *
100822266 GGATACCAAGTAAGGCCATG-CTAAGACATGGCATTCGTAAGTTCATAAGGCAA
1 GGATACCATGTAAGACCATGTC-AAGACATGGCAATGGTAAGTTCATAAGGCAA
* * ** * *
100822319 GGATATCATGTAAGACCATGTCAAGACATGGCATTGACAAACTACTATAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATG-GTAAGTTC-ATAAGGCAA
* * * * * * *
100822374 AGATCCCATGTAATACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGACAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
* * *
100822427 GGATACCACGTAAGACCATGTCAAGACAGGGAAATGGTAAGTT
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
100822470 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 30, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
53 72 0.61
54 8 0.07
55 38 0.32
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
Found at i:100823345 original size:50 final size:50
Alignment explanation
Indices: 100823270--100823369 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
100823260 TCCGATTTCT
100823270 GTATAATAAGATAATCAATTTTTAGTGAAGAGAGGTCAGGTCCACTGAAC
1 GTATAATAAGATAATCAATTTTTAGTGAAGAGAGGTCAGGTCCACTGAAC
100823320 GTATAATAAGATAATCAATTTTTAGTGAAGAGAGGTCAGGTCCACTGAAC
1 GTATAATAAGATAATCAATTTTTAGTGAAGAGAGGTCAGGTCCACTGAAC
100823370 TACAAAATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (50 bp):
GTATAATAAGATAATCAATTTTTAGTGAAGAGAGGTCAGGTCCACTGAAC
Found at i:100823865 original size:56 final size:56
Alignment explanation
Indices: 100823779--100823898 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
100823769 ACAAGGGATG
100823779 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
100823835 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
100823891 ATGGGCAA
1 ATGGGCAA
100823899 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:100825382 original size:25 final size:25
Alignment explanation
Indices: 100825354--100825429 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
100825344 GTGATTGATG
100825354 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
* * *
100825379 TG-A-ATG-GCCA-ATGTGATGAATG-
1 TGAACATGCG-TATGTGTGAT-AAGGC
100825401 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
100825426 TGAA
1 TGAA
100825430 TGGCCAATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 9 0.24
23 8 0.21
24 8 0.21
25 13 0.34
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.28
Consensus pattern (25 bp):
TGAACATGCGTATGTGTGATAAGGC
Found at i:100825393 original size:47 final size:48
Alignment explanation
Indices: 100825342--100825442 Score: 188
Period size: 47 Copynumber: 2.1 Consensus size: 48
100825332 TTAGGATTTT
100825342 ATGTGATTG-ATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATTGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
100825389 ATGTGA-TGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATTGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
100825436 ATGTGAT
1 ATGTGAT
100825443 GGATAGATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
46 2 0.04
47 50 0.96
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.30
Consensus pattern (48 bp):
ATGTGATTGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
Found at i:100825607 original size:220 final size:220
Alignment explanation
Indices: 100825225--100825625 Score: 775
Period size: 220 Copynumber: 1.8 Consensus size: 220
100825215 TTGGAAAATA
* *
100825225 ATAGATGTAGATTTAGCCAAGACAGTGTGTATACGTGAAAGTATATGTGGTATGTGAAGTATATT
1 ATAGATGTAGATTCAGCCAAGACAGTGTATATACGTGAAAGTATATGTGGTATGTGAAGTATATT
*
100825290 TGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATTGATGT
66 TGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGT
100825355 GAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
131 GAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
100825420 TAAGGCTGAATGGCCAATGTGATGG
196 TAAGGCTGAATGGCCAATGTGATGG
100825445 ATAGATGTAGATTCAGCCAAGACAGTGTATATACGTGAAAGTATATGTGGTATGTGAAGTATATT
1 ATAGATGTAGATTCAGCCAAGACAGTGTATATACGTGAAAGTATATGTGGTATGTGAAGTATATT
100825510 TGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGT
66 TGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGT
100825575 GAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAC
131 GAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAC
100825626 CCATATATAT
Statistics
Matches: 178, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
220 178 1.00
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.35
Consensus pattern (220 bp):
ATAGATGTAGATTCAGCCAAGACAGTGTATATACGTGAAAGTATATGTGGTATGTGAAGTATATT
TGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGT
GAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
TAAGGCTGAATGGCCAATGTGATGG
Found at i:100825613 original size:47 final size:47
Alignment explanation
Indices: 100825562--100825758 Score: 241
Period size: 47 Copynumber: 4.1 Consensus size: 47
100825552 TTAGGATTTT
* * *
100825562 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
100825609 ATGTGATGAATGTGAACCCATATATATATGTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATA--TGTGTGATAAGGCCGAATGGCCA
* *
100825662 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
100825709 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
100825756 ATG
1 ATG
100825759 CGAAACGTGT
Statistics
Matches: 129, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
47 81 0.63
49 5 0.04
51 5 0.04
53 38 0.29
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:100825821 original size:46 final size:46
Alignment explanation
Indices: 100825732--100825822 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
100825722 GAACATGAAT
* * * *
100825732 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
100825778 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
100825823 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:100826149 original size:37 final size:37
Alignment explanation
Indices: 100825967--100826148 Score: 319
Period size: 37 Copynumber: 4.9 Consensus size: 37
100825957 GGAAATATAT
100825967 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
100826004 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
100826041 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
100826078 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
100826115 TCCAGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
100826149 TCGTCTGAGC
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 140 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:100828607 original size:40 final size:40
Alignment explanation
Indices: 100827404--100828595 Score: 2177
Period size: 40 Copynumber: 29.8 Consensus size: 40
100827394 GAGAATTGAG
* * * *
100827404 AGTGATATATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
100827444 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
100827484 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827524 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827564 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827604 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827644 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827684 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827724 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827764 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827804 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827844 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827884 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827924 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100827964 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828004 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828044 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828084 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828124 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828164 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828204 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828244 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828284 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828324 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828364 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
100828404 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
100828444 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * ** * *
100828484 AGTGATGTATCCGGGCTAAGTTTCGAAGAGCATTCATGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * ** *
100828524 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
100828564 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCA
100828596 ATCATGCTGG
Statistics
Matches: 1127, Mismatches: 25, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 1127 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (40 bp):
AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:100828876 original size:58 final size:57
Alignment explanation
Indices: 100828807--100828915 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
100828797 CGAATGATTA
* * *
100828807 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGAGCGAAATCGGTAATT
* * *
100828865 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGAGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGAGCGAAATCG
100828916 ATCAGTGGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 25 0.56
58 20 0.44
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGAGCGAAATCGGTAATT
Found at i:100832328 original size:47 final size:47
Alignment explanation
Indices: 100832277--100832567 Score: 393
Period size: 47 Copynumber: 6.1 Consensus size: 47
100832267 TTAGGATTTT
* *
100832277 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** * *
100832324 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGACA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
100832377 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
100832424 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
100832471 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
100832518 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
100832565 ATG
1 ATG
100832568 CGAAACGTGT
Statistics
Matches: 218, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
47 175 0.80
48 1 0.00
52 1 0.00
53 41 0.19
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:100832404 original size:23 final size:23
Alignment explanation
Indices: 100832377--100832451 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
100832367 CGAATGGACA
100832377 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
100832400 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
100832424 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
100832447 ATGTG
1 ATGTG
100832452 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:100832630 original size:46 final size:46
Alignment explanation
Indices: 100832541--100832631 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
100832531 GAACATGAAT
* * * *
100832541 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
100832587 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
100832632 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:100832638 original size:141 final size:140
Alignment explanation
Indices: 100832288--100832616 Score: 369
Period size: 141 Copynumber: 2.3 Consensus size: 140
100832278 TGTGATGGAT
* * **
100832288 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATAT
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAA-C---ATGCATAT
* ** *
100832353 ATGCGTGATAAGGCCGAATGGACAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAA
62 AT--GAGATAAGGCCGAATGGACAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAA
* *
100832418 TGGCCAATGTGATGAAT
125 TGGCCAATGCGA-GAAC
* **
100832435 GTGAACATGCGTATGTGTGATAAGGCCGGATGGCCAATGTGATGAATGTGAACATGCATATATGA
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGA
* * *
100832500 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
66 GATAAGGCCGAATGGACAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
100832565 ATGCGA-AAC
131 ATGCGAGAAC
* *
100832574 GTGTATGAGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
1 GTG-A--ACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
100832617 GATATGTACG
Statistics
Matches: 161, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
139 5 0.03
140 19 0.12
141 67 0.42
142 10 0.06
143 8 0.05
146 1 0.01
147 51 0.32
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (140 bp):
GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGA
GATAAGGCCGAATGGACAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
ATGCGAGAAC
Found at i:100832824 original size:37 final size:37
Alignment explanation
Indices: 100832774--100832881 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
100832764 GGAAATATAT
100832774 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
*
100832811 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
* *
100832848 TCCGGGTAAGACCCGATAACT-TCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTAT-GTGTGGAGATT
100832882 TCGTCTGAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
Found at i:100837058 original size:39 final size:39
Alignment explanation
Indices: 100836963--100837965 Score: 1811
Period size: 39 Copynumber: 25.6 Consensus size: 39
100836953 TTGAATGATG
*
100836963 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
100837001 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
100837042 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837081 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837120 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837159 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837198 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837237 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837276 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837315 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837354 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837393 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837432 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837471 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837510 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837549 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837588 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837627 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837666 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837705 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837744 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837783 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
100837822 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
100837861 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
100837900 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
100837939 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
100837966 AACGAGGAGC
Statistics
Matches: 943, Mismatches: 14, Indels: 13
0.97 0.01 0.01
Matches are distributed among these distances:
39 873 0.93
40 58 0.06
41 11 0.01
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:100839391 original size:23 final size:23
Alignment explanation
Indices: 100839342--100839393 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
100839332 AAGCTCTTTT
*
100839342 GAGCTGAATCACTAAGCTCCAAT
1 GAGCTGAATCACTAAGCTCCAAC
* *
100839365 GAGCTGAATTAGTAAGCT-CATAC
1 GAGCTGAATCACTAAGCTCCA-AC
100839388 GAGCTG
1 GAGCTG
100839394 TGGTGAGTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (23 bp):
GAGCTGAATCACTAAGCTCCAAC
Found at i:100864960 original size:38 final size:38
Alignment explanation
Indices: 100864911--100864984 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
100864901 GAGAGGTCCT
100864911 TATGTTGTTATTTGACCATTAAACTTATGAATGGACCA
1 TATGTTGTTATTTGACCATTAAACTTATGAATGGACCA
* *
100864949 TATGTTTTTATTTGACCATTGAACTTATGAATGGAC
1 TATGTTGTTATTTGACCATTAAACTTATGAATGGAC
100864985 ATTAATGGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (38 bp):
TATGTTGTTATTTGACCATTAAACTTATGAATGGACCA
Found at i:100866989 original size:18 final size:18
Alignment explanation
Indices: 100866963--100867006 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
100866953 CAACTCCTTG
*
100866963 TAATTACAATGAAAATAA
1 TAATAACAATGAAAATAA
** *
100866981 TAATAACAATTCAAGTAA
1 TAATAACAATGAAAATAA
100866999 TAATAACA
1 TAATAACA
100867007 TAATGAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (18 bp):
TAATAACAATGAAAATAA
Found at i:100867942 original size:29 final size:29
Alignment explanation
Indices: 100867903--100867978 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
100867893 ATCATATTCC
*
100867903 TATGGCCCATTAGGCCCAAACCACCTGTA
1 TATGGCCCATTAGGCCCAAACCACATGTA
* * *
100867932 TATGGCCCATTAGGGCCAAATCACATTTA
1 TATGGCCCATTAGGCCCAAACCACATGTA
* *
100867961 TATGGTCCGTTAGGCCCA
1 TATGGCCCATTAGGCCCA
100867979 GTTACATTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAACCACATGTA
Found at i:100867977 original size:58 final size:57
Alignment explanation
Indices: 100867868--100867978 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
100867858 AAATTCACAT
* * * * *
100867868 ACCTGTATCTGGCCCATTATGCCCAATCATATTCCTATGGCCCATTAGGCCCAAACC
1 ACCTGTATATGGCCCATTAGGCCAAATCACATTCATATGGCCCATTAGGCCCAAACC
* * *
100867925 ACCTGTATATGGCCCATTAGGGCCAAATCACATTTATATGGTCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTA-GGCCAAATCACATTCATATGGCCCATTAGGCCCA
100867979 GTTACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 18 0.40
58 27 0.60
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAGGCCAAATCACATTCATATGGCCCATTAGGCCCAAACC
Found at i:100868227 original size:16 final size:16
Alignment explanation
Indices: 100868206--100868252 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
100868196 CAAACTTTCG
*
100868206 GCTTTTTGGTATTTTA
1 GCTTTTTGGCATTTTA
* *
100868222 GCTTTTCGGCATTTTG
1 GCTTTTTGGCATTTTA
*
100868238 GCATTTTGGC-TTTTA
1 GCTTTTTGGCATTTTA
100868253 CCGATTCATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.11, C:0.13, G:0.21, T:0.55
Consensus pattern (16 bp):
GCTTTTTGGCATTTTA
Found at i:100868228 original size:24 final size:24
Alignment explanation
Indices: 100868201--100868251 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
100868191 GAAGCCAAAC
* *
100868201 TTTCGGCTTTTTGGTATTTTAGCT
1 TTTCGGCATTTTGGCATTTTAGCT
*
100868225 TTTCGGCATTTTGGCATTTTGGCT
1 TTTCGGCATTTTGGCATTTTAGCT
100868249 TTT
1 TTT
100868252 ACCGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.14, G:0.22, T:0.57
Consensus pattern (24 bp):
TTTCGGCATTTTGGCATTTTAGCT
Found at i:100868882 original size:52 final size:51
Alignment explanation
Indices: 100868826--100868926 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 51
100868816 AGTGAAACAA
* * *
100868826 AGAAATCAGCACAAGGAAAA-TAAGAAAGAGAACAAGGGTTTTCGACTTTTGG
1 AGAAATCAGCACAAAGAAAAGGAAGAAA-ACAA-AAGGGTTTTCGACTTTTGG
* * *
100868878 AGAAATCGGCAGAAAGAAAAGGAAGAAAACAAAAGGGTTTTCGGCTTTT
1 AGAAATCAGCACAAAGAAAAGGAAGAAAACAAAAGGGTTTTCGACTTTT
100868927 AAGGAAGATG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 16 0.38
52 20 0.48
53 6 0.14
ACGTcount: A:0.45, C:0.11, G:0.26, T:0.19
Consensus pattern (51 bp):
AGAAATCAGCACAAAGAAAAGGAAGAAAACAAAAGGGTTTTCGACTTTTGG
Found at i:100872622 original size:40 final size:40
Alignment explanation
Indices: 100872542--100872760 Score: 327
Period size: 40 Copynumber: 5.5 Consensus size: 40
100872532 TTCGGATGAC
* *
100872542 ATCCGGGCTAAGTCCTGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
100872581 ATCCGGGCTAAGTCCCGAAGGAAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
100872621 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
100872661 ATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
100872701 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
* *
100872741 AT-CTGGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
100872761 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.22
40 127 0.77
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:100880784 original size:40 final size:40
Alignment explanation
Indices: 100880704--100880882 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
100880694 TTCGGAAGAC
*
100880704 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* * *
100880743 ATCCGGGCTAACTCTCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
100880783 ATCCGGGCTATGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
100880823 ATCCGCGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
100880863 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
100880883 TACTTGGGTT
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.28
40 88 0.70
41 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:100888416 original size:40 final size:40
Alignment explanation
Indices: 100888336--100888554 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
100888326 TTCGGATGAC
*
100888336 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
100888375 ATCCGGGCTAAGTCTCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
100888415 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
100888455 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
100888495 ATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
100888535 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
100888555 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 36 0.22
40 128 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:100899857 original size:15 final size:15
Alignment explanation
Indices: 100899837--100899867 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100899827 AAATATGAAA
100899837 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
100899852 GATATGTTTTGTATT
1 GATATGTTTTGGATT
100899867 G
1 G
100899868 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:100900543 original size:56 final size:55
Alignment explanation
Indices: 100900482--100900671 Score: 281
Period size: 56 Copynumber: 3.4 Consensus size: 55
100900472 CATGGCGTCA
* * *
100900482 ATATATGTATGTGAGTAAGACCACGTTTTATACGTTGGCATTGATATGTGACATCG
1 ATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGAC-TCG
*
100900538 ATATATGTGTTCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTTCG
1 ATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGAC-TCG
* * *
100900594 ATATATATGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACTCTA
1 ATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC-G
*
100900650 ATATATGTGTACGAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
100900672 CTGTCTGGGA
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
55 2 0.02
56 120 0.98
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (55 bp):
ATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTCG
Found at i:100900689 original size:56 final size:55
Alignment explanation
Indices: 100900479--100900700 Score: 228
Period size: 56 Copynumber: 4.0 Consensus size: 55
100900469 GACCATGGCG
*
100900479 TCAATATATGTATGT-GAGTAAGACCAC-GTTTTATACGTTGGCATTGATATGTGACA
1 TCAATATATG--TGTCGAGTAAGACCACTG-TTTATACGTTGGCATCGATATGTGACA
* *
100900535 TCGATATATGTGTTCGAGTAAGACCAC-GTTTTATACGTTGGCATCGATATGTGACT
1 TCAATATATGTG-TCGAGTAAGACCACTG-TTTATACGTTGGCATCGATATGTGACA
100900591 TCGATATATATGTG-CGAGTAAGACCACAT-TTTATACGTTGGCATCGATATGTGAC-
1 TC-A-ATATATGTGTCGAGTAAGACCAC-TGTTTATACGTTGGCATCGATATGTGACA
*
100900646 TCTAATATATGTGTACGAGTAAGACC-CTGTCTGGGATA-G-TGGCATCGATATGTGA
1 TC-AATATATGTGT-CGAGTAAGACCACTGT-T--TATACGTTGGCATCGATATGTGA
100900701 TTACATGTAA
Statistics
Matches: 148, Mismatches: 6, Indels: 24
0.83 0.03 0.13
Matches are distributed among these distances:
54 12 0.08
55 6 0.04
56 117 0.79
57 1 0.01
58 12 0.08
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (55 bp):
TCAATATATGTGTCGAGTAAGACCACTGTTTATACGTTGGCATCGATATGTGACA
Found at i:100900689 original size:112 final size:112
Alignment explanation
Indices: 100900494--100900700 Score: 296
Period size: 112 Copynumber: 1.8 Consensus size: 112
100900484 ATATGTATGT
* * * *
100900494 GAGTAAGACCACGTTTTATACGTTGGCATTGATATGTGACATCGATATATGTGTTCGAGTAAGAC
1 GAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACATCAATATATGTGTACGAGTAAGAC
**
100900559 CACGTTTTATACGTTGGCATCGATATGTGACTTCGATATATATGTGC
66 CACGTTGGATACGTTGGCATCGATATGTGACTTCGATATATATGTGC
100900606 GAGTAAGACCACATTTTATACGTTGGCATCGATATGTGAC-TCTAATATATGTGTACGAGTAAGA
1 GAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACATC-AATATATGTGTACGAGTAAGA
100900670 CC-CTGTCTGGGATA-G-TGGCATCGATATGTGA
65 CCAC-GT-T-GGATACGTTGGCATCGATATGTGA
100900701 TTACATGTAA
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
111 3 0.04
112 77 0.91
113 2 0.02
114 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (112 bp):
GAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACATCAATATATGTGTACGAGTAAGAC
CACGTTGGATACGTTGGCATCGATATGTGACTTCGATATATATGTGC
Found at i:100909064 original size:37 final size:37
Alignment explanation
Indices: 100909014--100909092 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
100909004 TTATTACGAA
* *
100909014 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
100909051 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
100909088 GTCTT
1 GTCTT
100909093 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:100909340 original size:49 final size:48
Alignment explanation
Indices: 100909211--100909698 Score: 786
Period size: 49 Copynumber: 10.1 Consensus size: 48
100909201 CCCTTCGGGA
* * * * * * *
100909211 CTTATCAC-ATTTATGCACTTTCACATGCATCACGTTGGCCACTCGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
100909258 CCTGTCAC-ATATATACACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100909305 CTTATCAC-ATATATACACTTTCACACATTCATCACATCGGCCATTAGGC
1 CTTATCACAATATATACACTTT--CACATTCATCACATCGGCCATTAGGC
100909354 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100909403 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100909452 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100909501 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100909550 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100909599 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100909648 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100909695 CTTA
1 CTTA
100909699 CTATCATTTC
Statistics
Matches: 424, Mismatches: 13, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 99 0.23
49 312 0.74
51 13 0.03
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (48 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:100915808 original size:19 final size:19
Alignment explanation
Indices: 100915784--100915823 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
100915774 AGATGGATTG
100915784 ATATGATATATATATGTAT
1 ATATGATATATATATGTAT
100915803 ATATGATATATATATGTAT
1 ATATGATATATATATGTAT
100915822 AT
1 AT
100915824 GATAAGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (19 bp):
ATATGATATATATATGTAT
Found at i:100917724 original size:2 final size:2
Alignment explanation
Indices: 100917717--100917741 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100917707 TTTCTTTTCA
100917717 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
100917742 TCCAATTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:100927898 original size:28 final size:26
Alignment explanation
Indices: 100927866--100927923 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
100927856 TTTATTCAAT
* *
100927866 TTAATTAATTAATTTAAAACCTAAATTA
1 TTAATGAAATAATTTAAAA--TAAATTA
*
100927894 TTAATGAAATATTTTAAAATAAATTA
1 TTAATGAAATAATTTAAAATAAATTA
100927920 TTAA
1 TTAA
100927924 ATATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.41
28 16 0.59
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (26 bp):
TTAATGAAATAATTTAAAATAAATTA
Found at i:100930461 original size:46 final size:46
Alignment explanation
Indices: 100930411--100930582 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
100930401 TTGAGCATCT
* *
100930411 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTCC
* * *
100930457 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GA-GTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CGTCC
* * * *
100930503 GAACTCGTTGAGTTGTGTCCGAGTTCACTCATGGATGTGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTCC
* * *
100930549 GAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100930583 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 3 0.03
43 2 0.02
44 1 0.01
45 2 0.02
46 86 0.84
47 2 0.02
48 1 0.01
49 2 0.02
50 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTCC
Found at i:100930562 original size:92 final size:92
Alignment explanation
Indices: 100930405--100930575 Score: 261
Period size: 92 Copynumber: 1.9 Consensus size: 92
100930395 GGATGGTTGA
* * * *
100930405 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
100930470 TGAGTCCGAGTTCGTGAGAGTAACTAG
66 TGAGTCCGAGTTCGTGAGAGTAACTAG
* ** *
100930497 GCATCCGAACTCGTTGAGTTGTGTCCGAGTTCACTCATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
100930562 TGAGTTCGAGTTCG
66 TGAGTCCGAGTTCG
100930576 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGAGTAACTAG
Found at i:100933570 original size:14 final size:15
Alignment explanation
Indices: 100933521--100933570 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
100933511 GTATCTTGGG
*
100933521 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
100933536 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
100933551 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
100933565 TTTCTT
1 TTTCTT
100933571 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:100936010 original size:46 final size:46
Alignment explanation
Indices: 100935960--100936127 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
100935950 TGGTTGAGCA
* *
100935960 TCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATG
* * ** *
100936006 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATATAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAA--ATG
* *
100936051 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATG
* *
100936099 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
100936128 GCTTTTGGGC
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 54 0.55
47 28 0.28
48 4 0.04
50 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATG
Found at i:100936116 original size:93 final size:93
Alignment explanation
Indices: 100935957--100936128 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
100935947 GGATGGTTGA
* * *
100935957 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTCAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGT
100936022 TGAGTCCGAGTTCGTGAGATATAACTAG
66 TGAGTCCGAGTTCGTGAGATATAACTAG
* * *
100936050 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTCAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGT
100936115 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
100936129 CTTTTGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTCAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATATAACTAG
Found at i:100939810 original size:11 final size:11
Alignment explanation
Indices: 100939774--100939829 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
100939764 CATGGTATGT
100939774 ATGATATGCAC
1 ATGATATGCAC
* *
100939785 ATGACATG--T
1 ATGATATGCAC
100939794 ATGATATGCAC
1 ATGATATGCAC
*
100939805 ATGATATG--T
1 ATGATATGCAC
100939814 ATGATATGCAC
1 ATGATATGCAC
100939825 ATGAT
1 ATGAT
100939830 GTAATCATAA
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:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:100939829 original size:20 final size:20
Alignment explanation
Indices: 100939763--100939829 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
100939753 ATTTTGATAA
*
100939763 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
100939783 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
100939803 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
100939823 ACATGAT
1 ACATGAT
100939830 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:100939981 original size:24 final size:23
Alignment explanation
Indices: 100939880--100940019 Score: 165
Period size: 23 Copynumber: 6.0 Consensus size: 23
100939870 AGGAAGTGAA
* * *
100939880 AAAGGGTTTACGCCACAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
100939903 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
100939926 AAAGGGCTTATGCACCTGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
100939949 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
100939972 AAAAGGGCTTTTGCCCCGGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
100939996 GAAAGAGG-TTAGGCCTCCAGTTAT
1 -AAAG-GGCTTATGCC-CCAGTTAT
100940020 ATGATAAAGC
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
23 62 0.61
24 30 0.30
25 9 0.09
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:100940247 original size:31 final size:31
Alignment explanation
Indices: 100940212--100940275 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
100940202 CGTTTACAGT
100940212 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
100940243 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
100940274 AA
1 AA
100940276 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:100945474 original size:37 final size:37
Alignment explanation
Indices: 100945368--100945476 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
100945358 AGCTCAGACG
* * *
100945368 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
100945405 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
100945442 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
100945477 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:100945747 original size:48 final size:48
Alignment explanation
Indices: 100945623--100945807 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
100945613 GCACATCGCC
* *
100945623 TACATATTTCACACTAGCCATTCGTCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
100945673 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
100945721 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
100945769 TTCATATTTCGCATTAGCCATTCAGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
100945808 TACATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
48 81 0.65
49 2 0.02
50 41 0.33
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:100945750 original size:98 final size:96
Alignment explanation
Indices: 100945623--100945806 Score: 289
Period size: 98 Copynumber: 1.9 Consensus size: 96
100945613 GCACATCGCC
* *
100945623 TACATATTTCACACTAGCCATTCGTCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T-CATATTTCACATT
*
100945688 -GACCATTCGGCTTTACCACATATGCATATCTCA
64 AG-CCATTCAGCTTTACCACATATGCATATCTCA
* *
100945721 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCGCATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACATTAG
100945786 CCATTCAGCTTTACCACATAT
66 CCATTCAGCTTTACCACATAT
100945807 ATACATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
96 31 0.39
97 2 0.03
98 47 0.59
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACATTAG
CCATTCAGCTTTACCACATATGCATATCTCA
Found at i:100949924 original size:40 final size:40
Alignment explanation
Indices: 100949892--100950163 Score: 382
Period size: 40 Copynumber: 6.8 Consensus size: 40
100949882 CCAGCATGAT
* * *
100949892 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
100949932 TGCTCTTCGGGGTTTAGCACGGGTATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
100949972 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
100950012 TGCTCTTCGGGACTTAGTCCAGATATATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
100950052 TGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
100950092 TGCTCTTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
100950132 TGCTCTTCGGAACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
100950164 CTCAATTCTC
Statistics
Matches: 200, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 200 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:100950325 original size:38 final size:38
Alignment explanation
Indices: 100950274--100950349 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
100950264 CAGTTCCATA
*
100950274 GCCACATACAAAAATGACATTTATAGTCATAACACTCT
1 GCCACATACAAAAATCACATTTATAGTCATAACACTCT
100950312 GCCACATACAAAAATCACATTTATAGTCATAACACTCT
1 GCCACATACAAAAATCACATTTATAGTCATAACACTCT
100950350 TTCAAAATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (38 bp):
GCCACATACAAAAATCACATTTATAGTCATAACACTCT
Found at i:100951513 original size:37 final size:37
Alignment explanation
Indices: 100951463--100951577 Score: 158
Period size: 37 Copynumber: 3.1 Consensus size: 37
100951453 ACCTTTAGCT
* * * *
100951463 CAGACGAAATCTCCACATGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
100951500 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * * *
100951537 CGGACATAATCTTCACACGTAGTCATTGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
100951574 CAGA
1 CAGA
100951578 ATATATTTCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:100951840 original size:98 final size:96
Alignment explanation
Indices: 100951724--100951907 Score: 280
Period size: 98 Copynumber: 1.9 Consensus size: 96
100951714 GCACATCGCC
*
100951724 TACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
*
100951789 -GACCATTCGGCTTTACCACATATGCATATCTCA
64 AG-CCATTCAGCTTTACCACATATGCATATCTCA
* * * *
100951822 TACATATTTCACATTAGCCATTCGGCTTTACCACATGTACATATCTCATGCATATTTCGCATTAG
1 TACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
100951887 CCATTCAGCTTTACCACATAT
66 CCATTCAGCTTTACCACATAT
100951908 ATACATGTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
96 33 0.42
97 1 0.01
98 45 0.57
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (96 bp):
TACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCAGCTTTACCACATATGCATATCTCA
Found at i:100951848 original size:48 final size:48
Alignment explanation
Indices: 100951724--100951908 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
100951714 GCACATCGCC
*
100951724 TACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
100951774 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
100951822 TACATATTTCACATTAGCCATTCGGCTTTACCACATGTACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
100951870 TGCATATTTCGCATTAGCCATTCAGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
100951909 TACATGTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
48 79 0.64
49 2 0.02
50 42 0.34
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:100955041 original size:19 final size:19
Alignment explanation
Indices: 100955017--100955056 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
100955007 AGCTCCCATG
100955017 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
100955036 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
100955055 TA
1 TA
100955057 TTAGCTCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:100957080 original size:77 final size:77
Alignment explanation
Indices: 100956953--100957105 Score: 288
Period size: 77 Copynumber: 2.0 Consensus size: 77
100956943 CCAAGGACTA
100956953 AGCCTTAATGAATCTGCTTACAAAATTACGAGAAAAGTTAAGAGAGGTAAAAGGCAAGAGAGCAT
1 AGCCTTAATGAATCTGCTTACAAAATTACGAGAAAAGTTAAGAGAGGTAAAAGGCAAGAGAGCAT
100957018 GAGCGCATTCGG
66 GAGCGCATTCGG
* *
100957030 AGCCTTAATGAATCTGCTTACGAAATTACGAGAAAAGTTAAGAGAGGTAAAAGGCAAGAGAGCGT
1 AGCCTTAATGAATCTGCTTACAAAATTACGAGAAAAGTTAAGAGAGGTAAAAGGCAAGAGAGCAT
100957095 GAGCGCATTCG
66 GAGCGCATTCG
100957106 AGGGGAGGTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (77 bp):
AGCCTTAATGAATCTGCTTACAAAATTACGAGAAAAGTTAAGAGAGGTAAAAGGCAAGAGAGCAT
GAGCGCATTCGG
Found at i:100962085 original size:19 final size:19
Alignment explanation
Indices: 100962061--100962100 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
100962051 AGCTCCCATG
100962061 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
100962080 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
100962099 TA
1 TA
100962101 TTAGCTCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:100963410 original size:14 final size:14
Alignment explanation
Indices: 100963386--100963428 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
100963376 CATTCATATT
100963386 CCTTT-GTTCCTAC
1 CCTTTCGTTCCTAC
100963399 CCTTTCGTTCCTAC
1 CCTTTCGTTCCTAC
* * *
100963413 CATTCCGTTCATAC
1 CCTTTCGTTCCTAC
100963427 CC
1 CC
100963429 CTCTTTCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.12, C:0.42, G:0.07, T:0.40
Consensus pattern (14 bp):
CCTTTCGTTCCTAC
Found at i:100964269 original size:46 final size:46
Alignment explanation
Indices: 100964216--100964529 Score: 418
Period size: 46 Copynumber: 6.8 Consensus size: 46
100964206 TATTTGGGCA
100964216 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
**
100964262 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
100964308 TCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
100964354 TCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
100964400 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * * *
100964447 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
100964493 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100964530 GCGGGTTACA
Statistics
Matches: 240, Mismatches: 21, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
43 1 0.00
44 3 0.01
45 1 0.00
46 198 0.82
47 32 0.13
48 1 0.00
49 3 0.01
50 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:100967480 original size:15 final size:15
Alignment explanation
Indices: 100967460--100967528 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
100967450 GTATCTTGGG
100967460 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
100967475 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
100967490 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
100967505 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
100967520 TTTCTTTAT
1 TTTCTTTAT
100967529 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:100967529 original size:30 final size:30
Alignment explanation
Indices: 100967451--100967538 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
100967441 CATAGTATCG
* * * *
100967451 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
100967481 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
100967511 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
100967539 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Done.