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 226 of 322
Found at i:74821754 original size:398 final size:386
Alignment explanation
Indices: 74821030--74821813 Score: 1216
Period size: 398 Copynumber: 2.0 Consensus size: 386
74821020 GAGCTTTTTC
* *
74821030 TGTAACACCCCGAACCCGAGACCGTCACCGGAGTCGAACACAAGGTGTTAACAGACTTTAGAAAA
1 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGAACACAAGGTGTTAACAGACTTTAAAAAA
74821095 TTTTCCAAACACTGCCAATCTGCGTAATAGTCGCTTTAAAAATCATATCTTGAGTTCAAAAACTC
66 TTTTCCAAACACTGCCAATCTGCGTAATAGTCGCTTTAAAAATCATATCTTGAGTTCAAAAACTC
* *
74821160 GGAATCCAGTTCCGTAAATTTTTCCTGAAACTAGACTCATATGCCCATCTACATGTTTTTTTCTA
131 GAAATCCAGTTCCGTAAATTTTTCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTA
* *
74821225 GAATTTTTGGTCGGGCCAATTAGTACATTTTATTAGTCAAAGTCTCCCATGTTACAGGGATTGAC
196 GAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGAC
*
74821290 TACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGATGCCGT
261 TACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTCCAATACTGATGCCGT
*
74821355 TTGTTTCTATAGAAACTAGACTCAAAGAGGAATCTATACATATATGGCT-TGACTCATAATT
326 TTATTTCTATAGAAACTAGACTCAAAGAGGAATCTATACATATATGG-TATGACTCATAATT
*
74821416 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGAACACGAGGTGTTAACAGACTTTAAACCC
1 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGAACACAAGGTGTTAACAGAC--T------
* *
74821481 CTTATAAAAATATTTCTCAGACACTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGA
58 -TTA-AAAAAT-TTTC-CAAACACTGCCAATCTGCGTAATAGTCGCTTTAAAAATCATATCTTGA
* * *
74821546 GTTTC-ACAACTCGAAAAT-CAGTTTCGT-GATTTTTCCCTGAAACTAGACTCATATGCCCATCT
119 G-TTCAAAAACTCG-AAATCCAGTTCCGTAAATTTTT-CCTGAAACTAGACTCATATGCCCATCT
74821608 ACATATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAT
181 ACATATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAT
* *
74821673 GTTACAGGGATCGACTACCCTGACCTTTGCGCATTACGACTTGGATATCTCCTTGTACAGGGCTC
246 GTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTC
** *
74821738 CAATACTGATGCCGTTTATTTCTATAGAAACTAGACTCAGGGAGGAATCTATCCATATATGGTAT
311 CAATACTGATGCCGTTTATTTCTATAGAAACTAGACTCAAAGAGGAATCTATACATATATGGTAT
*
74821803 GACTCCTAATT
376 GACTCATAATT
74821814 ATCTCTGGTT
Statistics
Matches: 362, Mismatches: 20, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
386 54 0.15
388 1 0.00
395 3 0.01
396 5 0.01
397 11 0.03
398 282 0.78
399 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (386 bp):
TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGAACACAAGGTGTTAACAGACTTTAAAAAA
TTTTCCAAACACTGCCAATCTGCGTAATAGTCGCTTTAAAAATCATATCTTGAGTTCAAAAACTC
GAAATCCAGTTCCGTAAATTTTTCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTA
GAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGAC
TACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTCCAATACTGATGCCGT
TTATTTCTATAGAAACTAGACTCAAAGAGGAATCTATACATATATGGTATGACTCATAATT
Found at i:74822813 original size:40 final size:40
Alignment explanation
Indices: 74822769--74823030 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
74822759 GCTCCTCGTT
* *
74822769 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
74822809 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
74822849 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
74822888 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
74822927 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
74822966 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
74823007 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
74823031 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:74824569 original size:21 final size:22
Alignment explanation
Indices: 74824527--74824570 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
74824517 CTGTTTTTTA
*
74824527 TTATTCATAATTTTATTAATAT
1 TTATTCATAATTTTATCAATAT
* *
74824549 TTATTTATAA-TTTATCCATAT
1 TTATTCATAATTTTATCAATAT
74824570 T
1 T
74824571 GTTTCAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTCATAATTTTATCAATAT
Found at i:74824843 original size:20 final size:20
Alignment explanation
Indices: 74824764--74824846 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
74824754 TTTAGCCCTA
74824764 TATTTTA-TATATATATATAT
1 TATTTTACTATATATAT-TAT
* *
74824784 GTTTTTTACCT-TATTTATTA-
1 -TATTTTA-CTATATATATTAT
* **
74824804 TATTGTAC-AT-TATAAAAT
1 TATTTTACTATATATATTAT
74824822 TATTTTACTATATATATTAT
1 TATTTTACTATATATATTAT
74824842 TATTT
1 TATTT
74824847 ATTATATCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
17 4 0.09
18 9 0.20
19 7 0.15
20 11 0.24
21 8 0.17
22 6 0.13
23 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTACTATATATATTAT
Found at i:74824892 original size:13 final size:13
Alignment explanation
Indices: 74824874--74824906 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
74824864 ACAAATTATT
74824874 ATTATTATTTTAC
1 ATTATTATTTTAC
*
74824887 ATTATTATTTTAT
1 ATTATTATTTTAC
74824900 ATTATTA
1 ATTATTA
74824907 ATATATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:74825588 original size:32 final size:29
Alignment explanation
Indices: 74825525--74825581 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
74825515 GTAGTACTCT
*
74825525 TTTTTGTATGTCATGCATTATTTTATTAC
1 TTTTTGTATATCATGCATTATTTTATTAC
*
74825554 TTTTTGTATATCATGCATTATTTAATTA
1 TTTTTGTATATCATGCATTATTTTATTA
74825582 TTACTTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTTTGTATATCATGCATTATTTTATTAC
Found at i:74825637 original size:2 final size:2
Alignment explanation
Indices: 74825630--74825656 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
74825620 CAATACATGT
74825630 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
74825657 CTTTGTATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74833372 original size:17 final size:19
Alignment explanation
Indices: 74833334--74833482 Score: 184
Period size: 19 Copynumber: 7.9 Consensus size: 19
74833324 AAATTAAATC
*
74833334 TCTAAGATTACAATATCATA
1 TCTAAGATTGC-ATATCATA
74833354 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTGCATATCATA
*
74833376 TTTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
74833394 TCTAATATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
74833411 TCTAAGATTGCATATCAAA
1 TCTAAGATTGCATATCATA
74833430 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
74833448 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
74833465 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
74833483 TGAAGATTAT
Statistics
Matches: 113, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
17 31 0.27
18 29 0.26
19 35 0.31
22 8 0.07
23 10 0.09
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:74833408 original size:35 final size:36
Alignment explanation
Indices: 74833357--74833482 Score: 166
Period size: 35 Copynumber: 3.5 Consensus size: 36
74833347 TATCATATCT
*
74833357 TCTAAGATTGCATATCATATTTAAGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCAATCATA
* *
74833394 TCTAATATTG-TATCATATCTAAGATTGCATATCAAA
1 TCTAAGATTGCTATCATATCTAAGATTGCA-ATCATA
* *
74833430 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
74833465 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
74833483 TGAAGATTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
35 34 0.44
36 19 0.24
37 25 0.32
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
Found at i:74833425 original size:54 final size:54
Alignment explanation
Indices: 74833357--74833482 Score: 225
Period size: 54 Copynumber: 2.3 Consensus size: 54
74833347 TATCATATCT
* *
74833357 TCTAAGATTGCATATCATATTTAAGATTGCAATCATATCTAATATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
74833411 TCTAAGATTGCATATCAAATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
74833465 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
74833483 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:74833480 original size:14 final size:15
Alignment explanation
Indices: 74833389--74833480 Score: 60
Period size: 17 Copynumber: 5.5 Consensus size: 15
74833379 AAGATTGCAA
*
74833389 TCATATCTAATATTG
1 TCATATCTAAGATTG
74833404 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
*
74833421 CATATCAAATCTAAGATTG
1 ----TCATATCTAAGATTG
74833440 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
74833458 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
74833475 -CATATC
1 TCATATC
74833481 ATTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
14 6 0.09
17 30 0.45
18 15 0.22
19 16 0.24
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:74837078 original size:417 final size:417
Alignment explanation
Indices: 74836304--74837089 Score: 1473
Period size: 417 Copynumber: 1.9 Consensus size: 417
74836294 CCGACTTTTG
*
74836304 ATTTTATTAAAAAAGGGAGTCGCCACCGATCTTTTTTCCTAGGTGTGATCGGACACCTAATAAAT
1 ATTTTATTAAAAAAGGGAGTCGCCACCGATCATTTTTCCTAGGTGTGATCGGACACCTAATAAAT
74836369 CCTCTTTTTCAAAAGAAAATTTATTTTTTAAACAAAAAGAAAGCCGAGTTTAGGTCTACGTTTAA
66 CCTCTTTTTCAAAAGAAAATTTATTTTTTAAACAAAAAGAAAGCCGAGTTTAGGTCTACGTTTAA
* * * *
74836434 AGCCAGAGAAATAAATAGGGTTCGGGAGTCGATTACGCGCGAGGAAGGTATTAGCATCCTCGTGA
131 AGCCAGAGAAAAAAATAGGGTTCGGGAGTCGATTACGCACGAGGAAGGTATTAGCACCCTCGCGA
*
74836499 CGCCCAAAATTGATATCTCGTTAAACATGTGTTGTCTTAATTTTCAAAAATACGAGTTCAATGTG
196 CGCCCAAAATTGACATCTCGTTAAACATGTGTTGTCTTAATTTTCAAAAATACGAGTTCAATGTG
74836564 ACATTTAATCATGATCCGATCAAAACACGAGAATTTTTATAATTTCGATTTCTTTTGAAAAGGAC
261 ACATTTAATCATGATCCGATCAAAACACGAGAATTTTTATAATTTCGATTTCTTTTGAAAAGGAC
74836629 GTTCCGTTCTTAACACAAGCCGATTGATATTCACCCAACATAGCCCCTCTAATGAAAACATGTGG
326 GTTCCGTTCTTAACACAAGCCGATTGATATTCACCCAACATAGCCCCTCTAATGAAAACATGTGG
74836694 ATCCTGAAGTTGGAGCGGGTCGGGTTA
391 ATCCTGAAGTTGGAGCGGGTCGGGTTA
*
74836721 ATTTTATTAAAAAAGGGAGTCGCCATCGATCATTTTTCCTAGGTGTGATCGGACACCTAATAAAT
1 ATTTTATTAAAAAAGGGAGTCGCCACCGATCATTTTTCCTAGGTGTGATCGGACACCTAATAAAT
*
74836786 CCTCTTTTTCAAAAGAAAATTTATTTTTTAAACAAAAAGAAGGCCGAGTTTAGGTCTACGTTTAA
66 CCTCTTTTTCAAAAGAAAATTTATTTTTTAAACAAAAAGAAAGCCGAGTTTAGGTCTACGTTTAA
*
74836851 AGCCAGAGAAAAAAATAGGGTTCGGGAGTCGGTTACGCACGAGGAAGGTATTAGCACCCTCGCGA
131 AGCCAGAGAAAAAAATAGGGTTCGGGAGTCGATTACGCACGAGGAAGGTATTAGCACCCTCGCGA
*
74836916 CGCCCAAAATTGGCATCTCGTTAAACATGTGTTGTCTTAATTTTCAAAAATACGAGTTCAATGTG
196 CGCCCAAAATTGACATCTCGTTAAACATGTGTTGTCTTAATTTTCAAAAATACGAGTTCAATGTG
74836981 ACATTTAATCATGATCCGATCAAAACACGAGAATTTTTATAATTTCGATTTCTTTTGAAAAGGAC
261 ACATTTAATCATGATCCGATCAAAACACGAGAATTTTTATAATTTCGATTTCTTTTGAAAAGGAC
*
74837046 GTTCCGTTTTTAACACAAGCCGATTGATATTCACCCAACATAGC
326 GTTCCGTTCTTAACACAAGCCGATTGATATTCACCCAACATAGC
74837090 NNNNNNNNNN
Statistics
Matches: 358, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
417 358 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (417 bp):
ATTTTATTAAAAAAGGGAGTCGCCACCGATCATTTTTCCTAGGTGTGATCGGACACCTAATAAAT
CCTCTTTTTCAAAAGAAAATTTATTTTTTAAACAAAAAGAAAGCCGAGTTTAGGTCTACGTTTAA
AGCCAGAGAAAAAAATAGGGTTCGGGAGTCGATTACGCACGAGGAAGGTATTAGCACCCTCGCGA
CGCCCAAAATTGACATCTCGTTAAACATGTGTTGTCTTAATTTTCAAAAATACGAGTTCAATGTG
ACATTTAATCATGATCCGATCAAAACACGAGAATTTTTATAATTTCGATTTCTTTTGAAAAGGAC
GTTCCGTTCTTAACACAAGCCGATTGATATTCACCCAACATAGCCCCTCTAATGAAAACATGTGG
ATCCTGAAGTTGGAGCGGGTCGGGTTA
Found at i:74837797 original size:11 final size:11
Alignment explanation
Indices: 74837783--74837878 Score: 63
Period size: 11 Copynumber: 8.5 Consensus size: 11
74837773 TATTTACATA
74837783 ATATAAAAAAT
1 ATATAAAAAAT
*
74837794 ATATGAATAATAT
1 ATAT-AA-AAAAT
*
74837807 GATATTAAAAAT
1 -ATATAAAAAAT
74837819 ATATACATAAAA-
1 ATATA-A-AAAAT
*
74837831 ATATAATAAAT
1 ATATAAAAAAT
*
74837842 ATAT--ATAAT
1 ATATAAAAAAT
*
74837851 ATATATAAAAT
1 ATATAAAAAAT
* *
74837862 GTATAAAATAT
1 ATATAAAAAAT
74837873 ATATAA
1 ATATAA
74837879 TACATACACA
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
9 7 0.11
10 3 0.05
11 30 0.46
12 12 0.18
13 9 0.14
14 4 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:74837804 original size:45 final size:45
Alignment explanation
Indices: 74837743--74837860 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 45
74837733 CAATATAGAC
* * *
74837743 AAAAATATATACATAATGT-AGTATTGAAAATATTTACATAATATA
1 AAAAATATATACATAATATGA-TATTAAAAATATATACATAATATA
74837788 AAAAATATATGA-ATAATATGATATTAAAAATATATACATAAAAATATA
1 AAAAATATAT-ACATAATATGATATTAAAAATATATACAT---AATATA
*
74837836 ATAAATATAT--ATAATAT-ATA-TAAAA
1 AAAAATATATACATAATATGATATTAAAA
74837861 TGTATAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
44 5 0.08
45 35 0.55
46 9 0.14
48 15 0.23
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (45 bp):
AAAAATATATACATAATATGATATTAAAAATATATACATAATATA
Found at i:74837811 original size:25 final size:23
Alignment explanation
Indices: 74837783--74837878 Score: 94
Period size: 25 Copynumber: 4.3 Consensus size: 23
74837773 TATTTACATA
74837783 ATATAAAAAATATATGAATAATAT
1 ATATAAAAAATATAT-AATAATAT
* *
74837807 GATATTAAAAATATATACATAA-AA
1 -ATATAAAAAATATATA-ATAATAT
*
74837831 ATATAATAAATATAT-ATAATAT
1 ATATAAAAAATATATAATAATAT
*
74837853 ATAT--AAAATGTATAA-AATAT
1 ATATAAAAAATATATAATAATAT
74837873 ATATAA
1 ATATAA
74837879 TACATACACA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
20 16 0.27
21 5 0.08
22 5 0.08
23 13 0.22
24 2 0.03
25 18 0.31
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (23 bp):
ATATAAAAAATATATAATAATAT
Found at i:74837866 original size:9 final size:9
Alignment explanation
Indices: 74837828--74837880 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
74837818 TATATACATA
74837828 AAAATATAAT
1 AAAATAT-AT
74837838 AAATATATAT
1 AAA-ATATAT
*
74837848 AATATATAT
1 AAAATATAT
*
74837857 AAAATGTAT
1 AAAATATAT
74837866 AAAATATAT
1 AAAATATAT
*
74837875 ATAATA
1 AAAATA
74837881 CATACACATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
9 26 0.70
10 7 0.19
11 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAATATAT
Found at i:74837981 original size:23 final size:23
Alignment explanation
Indices: 74837936--74837981 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
74837926 AATACCTCAT
* *
74837936 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
74837959 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
74837982 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:74839922 original size:30 final size:30
Alignment explanation
Indices: 74839881--74839979 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
74839871 TAGGTACAAG
74839881 TGGTGGTGGAGCAAGTGTGGATAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGATAGTGGAGT
* * *
74839911 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGATAGTGGAGT
* *
74839941 TGGTGGTTGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGATAGTGGAGT
74839971 TGGTGGTGG
1 TGGTGGTGG
74839980 GAAAGGCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.18, C:0.04, G:0.49, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGATAGTGGAGT
Found at i:74840309 original size:11 final size:11
Alignment explanation
Indices: 74840295--74840392 Score: 65
Period size: 11 Copynumber: 8.5 Consensus size: 11
74840285 TATTTACATA
74840295 ATATAAAAAAT
1 ATATAAAAAAT
*
74840306 ATATGAATAATAT
1 ATAT-AA-AAAAT
*
74840319 GATATTAAAAAT
1 -ATATAAAAAAT
74840331 ATATACATAAAA-
1 ATATA-A-AAAAT
*
74840343 ATATAATAAAT
1 ATATAAAAAAT
* *
74840354 ATATATATAAT
1 ATATAAAAAAT
*
74840365 ATATAGAAAAT
1 ATATAAAAAAT
*
74840376 GA-ATAAAATAT
1 -ATATAAAAAAT
74840387 ATATAA
1 ATATAA
74840393 TACATACACA
Statistics
Matches: 67, Mismatches: 12, Indels: 16
0.71 0.13 0.17
Matches are distributed among these distances:
10 4 0.06
11 37 0.55
12 13 0.19
13 9 0.13
14 4 0.06
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:74840316 original size:45 final size:45
Alignment explanation
Indices: 74840255--74840366 Score: 120
Period size: 45 Copynumber: 2.4 Consensus size: 45
74840245 CAATATAGAC
* * *
74840255 AAAAATATATACATAATGT-AGTATTGAAAATATTTACATAATATA
1 AAAAATATATACATAATATGA-TATTAAAAATATATACATAATATA
74840300 AAAAATATATGA-ATAATATGATATTAAAAATATATACATAAAAATATA
1 AAAAATATAT-ACATAATATGATATTAAAAATATATACAT---AATATA
* *
74840348 ATAAATATATATATAATAT
1 AAAAATATATACATAATAT
74840367 ATAGAAAATG
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
45 32 0.56
46 2 0.04
47 1 0.02
48 22 0.39
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (45 bp):
AAAAATATATACATAATATGATATTAAAAATATATACATAATATA
Found at i:74840323 original size:25 final size:24
Alignment explanation
Indices: 74840255--74840374 Score: 90
Period size: 25 Copynumber: 5.1 Consensus size: 24
74840245 CAATATAGAC
* *
74840255 AAAAATATATACATAATGTAGTATT
1 AAAAATATATACATAATATA-TATA
* *
74840280 GAAAATATTTAC---ATA-ATATA
1 AAAAATATATACATAATATATATA
*
74840300 AAAAATATATGA-ATAATATGATATT
1 AAAAATATAT-ACATAATAT-ATATA
*
74840325 AAAAATATATACATAA-AAATATA
1 AAAAATATATACATAATATATATA
* * *
74840348 ATAAATATATATATAATATATAGA
1 AAAAATATATACATAATATATATA
74840372 AAA
1 AAA
74840375 TGAATAAAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
20 11 0.15
21 2 0.03
22 2 0.03
23 21 0.29
24 9 0.12
25 28 0.38
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (24 bp):
AAAAATATATACATAATATATATA
Found at i:74840412 original size:31 final size:30
Alignment explanation
Indices: 74840329--74840400 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
74840319 GATATTAAAA
*
74840329 ATAT-ATACATA-AAAATATAATAAATATAT
1 ATATAATACATACAAAAT-GAATAAATATAT
* *
74840358 ATATAATATATAGAAAATGAATAAA-ATAT
1 ATATAATACATACAAAATGAATAAATATAT
74840387 ATATAATACATACA
1 ATATAATACATACA
74840401 CATTAGAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 20 0.54
30 12 0.32
31 5 0.14
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (30 bp):
ATATAATACATACAAAATGAATAAATATAT
Found at i:74840495 original size:23 final size:23
Alignment explanation
Indices: 74840450--74840495 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
74840440 AATACCTCAT
* *
74840450 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
74840473 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
74840496 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:74840945 original size:35 final size:35
Alignment explanation
Indices: 74840875--74840945 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
74840865 GAATGTGAAT
* *
74840875 TGTTTGGAAATGTGATTTATGGCATGAATGTTAAA
1 TGTTTGGAAATGTGATCTATGGCATGAATGATAAA
* * *
74840910 TGTTTGGTAATGTGGTCTATTG-ATGAGATGATAAA
1 TGTTTGGAAATGTGATCTATGGCATGA-ATGATAAA
74840945 T
1 T
74840946 TTGTGTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.41
Consensus pattern (35 bp):
TGTTTGGAAATGTGATCTATGGCATGAATGATAAA
Found at i:74841465 original size:11 final size:11
Alignment explanation
Indices: 74841449--74841474 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
74841439 CAAAAAAATA
74841449 TTTTAATAATT
1 TTTTAATAATT
74841460 TTTTAATAATT
1 TTTTAATAATT
74841471 TTTT
1 TTTT
74841475 TGGTGTCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:74864549 original size:19 final size:19
Alignment explanation
Indices: 74864525--74864567 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
74864515 TTTACGTAAA
74864525 TATTTTAATTGAAATAAGG
1 TATTTTAATTGAAATAAGG
*
74864544 TATTTTAATTTAAATAAGG
1 TATTTTAATTGAAATAAGG
*
74864563 CATTT
1 TATTT
74864568 AGACTAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (19 bp):
TATTTTAATTGAAATAAGG
Found at i:74868797 original size:28 final size:28
Alignment explanation
Indices: 74868765--74868825 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
74868755 TATGCTAGAA
74868765 TCAATCTTTTAGTTATAGGATTTACTAG
1 TCAATCTTTTAGTTATAGGATTTACTAG
*
74868793 TCAATCTTTTAGTTATTGGATTTACTAG
1 TCAATCTTTTAGTTATAGGATTTACTAG
74868821 TCAAT
1 TCAAT
74868826 TAAAAGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (28 bp):
TCAATCTTTTAGTTATAGGATTTACTAG
Found at i:74871967 original size:161 final size:161
Alignment explanation
Indices: 74871702--74871997 Score: 565
Period size: 161 Copynumber: 1.8 Consensus size: 161
74871692 AGTTTCCTAG
74871702 TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
1 TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
*
74871767 ATATACCAAGTAAATTTTCAATTTATTTTTATTTCTTTTTCACACTTCTAACAAACTAGAATTCA
66 ATATACCAAGTAAATTTTCAATTCATTTTTATTTCTTTTTCACACTTCTAACAAACTAGAATTCA
74871832 TCTTCACCAAAATACTCACTGCTTCACAAGC
131 TCTTCACCAAAATACTCACTGCTTCACAAGC
74871863 TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
1 TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
* *
74871928 ATATACCAAGTAAATTTTCCATTCATTTTTATTTCTTTTTCACACTTCTAACAAGCTAGAATTCA
66 ATATACCAAGTAAATTTTCAATTCATTTTTATTTCTTTTTCACACTTCTAACAAACTAGAATTCA
74871993 TCTTC
131 TCTTC
74871998 TAATCATTTC
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 132 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (161 bp):
TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
ATATACCAAGTAAATTTTCAATTCATTTTTATTTCTTTTTCACACTTCTAACAAACTAGAATTCA
TCTTCACCAAAATACTCACTGCTTCACAAGC
Found at i:74872333 original size:18 final size:18
Alignment explanation
Indices: 74872302--74872347 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
74872292 TGTGTTATAA
* *
74872302 TATTAATTAATAAAATAT
1 TATTACTTATTAAAATAT
74872320 TATTACTTATTAAAATAT
1 TATTACTTATTAAAATAT
74872338 TATTACTTAT
1 TATTACTTAT
74872348 GATGATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTACTTATTAAAATAT
Found at i:74874185 original size:161 final size:161
Alignment explanation
Indices: 74873920--74874215 Score: 565
Period size: 161 Copynumber: 1.8 Consensus size: 161
74873910 AGTCTCCTAG
74873920 TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
1 TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
*
74873985 ATATACCAAGTAAATTTTCAATTTATTTTTATTTCTTTTTCACACTTCTAACAAACTAGAATTCA
66 ATATACCAAGTAAATTTTCAATTCATTTTTATTTCTTTTTCACACTTCTAACAAACTAGAATTCA
74874050 TCTTCACCAAAATACTCACTGCTTCACAAGC
131 TCTTCACCAAAATACTCACTGCTTCACAAGC
74874081 TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
1 TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
* *
74874146 ATATACCAAGTAAATTTTCCATTCATTTTTATTTCTTTTTCACACTTCTAACAAGCTAGAATTCA
66 ATATACCAAGTAAATTTTCAATTCATTTTTATTTCTTTTTCACACTTCTAACAAACTAGAATTCA
74874211 TCTTC
131 TCTTC
74874216 TAATCATTTC
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 132 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (161 bp):
TATCATTTAGCATTAATATTACACAAAGTGGCCAATGTTCTCTACTTTCCCTTTAACATGGCCAA
ATATACCAAGTAAATTTTCAATTCATTTTTATTTCTTTTTCACACTTCTAACAAACTAGAATTCA
TCTTCACCAAAATACTCACTGCTTCACAAGC
Found at i:74874551 original size:18 final size:18
Alignment explanation
Indices: 74874520--74874565 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
74874510 TGTGTTATAA
* *
74874520 TATTAATTAATAAAATAT
1 TATTACTTATTAAAATAT
74874538 TATTACTTATTAAAATAT
1 TATTACTTATTAAAATAT
74874556 TATTACTTAT
1 TATTACTTAT
74874566 GATGATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTACTTATTAAAATAT
Found at i:74878696 original size:178 final size:180
Alignment explanation
Indices: 74878390--74879332 Score: 927
Period size: 178 Copynumber: 5.2 Consensus size: 180
74878380 AAGATTGAAG
* *
74878390 ATCTTATCTCCATGTATCGGTAATGGAGCAGATTTTACTACCAAGCCTTATCTCTCT-AAGGTAG
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAA-GTAG
* *
74878454 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAGAATTG
65 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGAATTG
* *
74878519 AAGATTTTATTTCCCTGAAGTTGTAGCGGAGCAGATCTTCGTAGAT-G-GA
130 AAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGTAGATGGTGA
* * *
74878568 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCACCACCAAGCTTTATCTCTCTGAGGTAGC
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAAGTAGC
* * * *
74878633 GAGAGAGCAGGCTGAAGAATAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCATACTAAGAATTGA
66 AAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGAATTGA
*
74878698 AGATTTTATCTCCCTGAAGTTGCAGCGGATCAGATCTTCGCAAATCTTCACAGATGGTGA
131 AGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCG-------T---AGATGGTGA
* * * *
74878758 ATCTCATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAGGTCTTATCTCTCTGAAGTAGT
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAAGTAGC
* * * *
74878823 AGGAGAGCAGGTTGAAGTATGAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGAC-AGAGATTTG
66 AAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA-AGAATTG
* *
74878887 GAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGTGA
130 AAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGTAGATGGTGA
* * * * * * * *
74878938 ATCTTATCTCCATGTATCAGCAGTGGAACAAATTTTACCACTAAACCTTATCTCCCTGAAGAAGC
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAAGTAGC
* * *
74879003 AAGAGAGCAAGTTGAAG-ATGGTAGTCTTATTTTCCTGAGGTAGCAAGGAAGTAGACTGAAGATT
66 AAGAGAGCAGGTTGAAGAAT-G-AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT--A-A--
* ** * * *
74879067 GAAGATTGAAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAG---GTCG-AGGATGGTGA
124 G-A-ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGTA-GATGGTGA
* * * * * * *
74879122 ATCTTATCTCCATGAATCGGTAATGGAGTAGATTTTAACTATCGA-CCTTATCTCTCTGAGGTAG
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTT-ACCACCAAGCCTTATCTCTCTGAAGTAG
* ** * * *
74879186 CAAGCGAGCAGGTTGGCGATTGTAGTCTTATCTT-CTAGAGGT-GACAAAGAAACAGACTGAAG-
65 CAAGAGAGCAGGTTGAAGAATG-AGTCTTATCTTCCT-GAGGTAG-CAAGGAAGCAGACT-AAGA
* ** * * *
74879248 ATTGAAGATTTTATCCCCCTG-AGATTGCAGTAGAACAGA--TT-GAAAAT-G-GA
126 ATTGAAGATTTTATCTCCCTGAAG-TTGCAGCGGAGCAGATCTTCGTAGATGGTGA
* * *
74879298 ATGTCATCTCCATGTATCGGTAATGGAGCAGATTT
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
74879333 AATCTCATCT
Statistics
Matches: 639, Mismatches: 94, Indels: 66
0.80 0.12 0.08
Matches are distributed among these distances:
176 33 0.05
177 21 0.03
178 166 0.26
179 5 0.01
180 79 0.12
181 31 0.05
182 1 0.00
183 5 0.01
184 101 0.16
185 6 0.01
186 1 0.00
187 14 0.02
188 21 0.03
189 2 0.00
190 153 0.24
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (180 bp):
ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAAGTAGC
AAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGAATTGA
AGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGTAGATGGTGA
Found at i:74878896 original size:190 final size:181
Alignment explanation
Indices: 74878748--74879277 Score: 456
Period size: 184 Copynumber: 2.9 Consensus size: 181
74878738 CAAATCTTCA
* * *
74878748 CAGATGGTGAATCTCATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAGGTCTTATCTCT
1 CAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCT
* * * *
74878813 CTGAAGTAGTAGGAGAGCAGGTTGAAGTATGAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGAC
66 CTGAAGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* *
74878878 AGAGATTTGGAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCG-
131 AGAGAATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGT
* * * * * * *
74878928 CAGATGGTGAATCTTATCTCCATGTATCAGCAGTGGAACAAATTTTACCACTAAACCTTATCTCC
1 CAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCT
* * * *
74878993 CTGAAGAAGCAAGAGAGCAAGTTGAAG-ATGGTAGTCTTATTTTCCTGAGGTAGCAAGGAAGTAG
66 CTGAAGTAGCAAGAGAGCAGGTTGAAGAAT-G-AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAG
* ** * * *
74879057 ACTGAAGATTGAAGATTGAAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAG---GTCG-
129 AC---AGA--G-A-ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGT
* * * * * *
74879112 -AGGATGGTGAATCTTATCTCCATGAATCGGTAATGGAGTAGATTTTAACTATCGA-CCTTATCT
1 CA-GATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTT-ACCACCAAGCCTTATCT
* * ** * * *
74879175 CTCTGAGGTAGCAAGCGAGCAGGTTGGCGATTGTAGTCTTATCTT-CTAGAGGT-GACAAAGAAA
64 CTCTGAAGTAGCAAGAGAGCAGGTTGAAGAATG-AGTCTTATCTTCCT-GAGGTAG-CAAGGAAG
* *
74879238 CAGACTGA-AGATTGAAGATTTTATCCCCCTG-AGATTGCAG
126 CAGACAGAGA-ATTGAAGATTTTATCTCCCTGAAG-TTGCAG
74879278 TAGAACAGAT
Statistics
Matches: 280, Mismatches: 54, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
177 22 0.08
178 3 0.01
179 2 0.01
180 79 0.28
181 33 0.12
183 4 0.01
184 100 0.36
185 5 0.02
186 1 0.00
187 14 0.05
188 17 0.06
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (181 bp):
CAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCT
CTGAAGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
AGAGAATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGT
Found at i:74888636 original size:37 final size:37
Alignment explanation
Indices: 74888525--74888614 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 37
74888515 CCTGGAAGAC
*
74888525 AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAG
1 AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAA
** *
74888562 AAAAGACAAAGATGAATAGTAATAATTCTCTACAAAA
1 AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAA
74888599 AAAAGACGGAGATGAA
1 AAAAGACGGAGATGAA
74888615 CAATAACGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (37 bp):
AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAA
Found at i:74889067 original size:3 final size:3
Alignment explanation
Indices: 74889059--74889101 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
74889049 GTTAAAGTTG
74889059 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
74889102 ACAAAAAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:74889563 original size:14 final size:14
Alignment explanation
Indices: 74889544--74889581 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
74889534 TGTTTCACTG
74889544 AAAATGACTTCCGA
1 AAAATGACTTCCGA
* *
74889558 AAAATGATTTCTGA
1 AAAATGACTTCCGA
74889572 AAAATGACTT
1 AAAATGACTT
74889582 ACTTTTCTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (14 bp):
AAAATGACTTCCGA
Found at i:74899658 original size:37 final size:37
Alignment explanation
Indices: 74899611--74899681 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
74899601 CTAATTCCAT
74899611 CACCCTACTAAACCATCCACTACCTCCATCACCCTCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCTCA
*
74899648 CACCCTACTAAACCATCCACTACCTCTATCACCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCC
74899682 CCACTAACTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.51, G:0.00, T:0.20
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCTCA
Found at i:74899687 original size:18 final size:18
Alignment explanation
Indices: 74899664--74899699 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
74899654 ACTAAACCAT
* *
74899664 CCACTACCTCTATCACCC
1 CCACTAACTCCATCACCC
74899682 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
74899700 TACTTGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.56, G:0.00, T:0.19
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:74900104 original size:60 final size:60
Alignment explanation
Indices: 74899984--74900108 Score: 150
Period size: 59 Copynumber: 2.1 Consensus size: 60
74899974 TTTATTTTTG
* *
74899984 TTATTTTACTGTTAAATTAATTAATTTGAGCTCTATTCTCATTATTTTTATATTTTTTTA
1 TTATTTTACTATTAAATTAATTAATTTGAGCTCTATTCTCATTATTTTTATATTTATTTA
* *
74900044 TTATTTT-CTATTAATTTAATTAATTTGAG-T-TATGTTTC-TTATTATTATATTATTTATTTA
1 TTATTTTACTATTAAATTAATTAATTTGAGCTCTAT-TCTCATTATT-TT-TA-TATTTATTTA
74900104 TTATT
1 TTATT
74900109 ATATATTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
57 8 0.14
58 6 0.11
59 22 0.39
60 21 0.37
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (60 bp):
TTATTTTACTATTAAATTAATTAATTTGAGCTCTATTCTCATTATTTTTATATTTATTTA
Found at i:74900106 original size:19 final size:18
Alignment explanation
Indices: 74900082--74900119 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
74900072 GTTATGTTTC
74900082 TTATTATTATATTATTTAT
1 TTATTATTATA-TATTTAT
74900101 TTATTATTATATATTTAT
1 TTATTATTATATATTTAT
74900119 T
1 T
74900120 ATGTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTATTATATATTTAT
Found at i:74900110 original size:63 final size:60
Alignment explanation
Indices: 74899974--74900110 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 60
74899964 TTAACCCCTT
* * *
74899974 TTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTCTATTCTCATTATTTTTA
1 TTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTATATTCTCATTATTTTTA
* * * *
74900034 TATT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAGTTATGTTTCTTATTATTATATTA
1 T-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTAT-ATTCTCATTATT-T-TTA
74900096 TTTATTTATTATTAT
1 TTTATTT-TTATTAT
74900111 ATATTTATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
59 22 0.34
60 23 0.36
61 5 0.08
62 7 0.11
63 7 0.11
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (60 bp):
TTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTATATTCTCATTATTTTTA
Found at i:74900118 original size:11 final size:12
Alignment explanation
Indices: 74900082--74900121 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
74900072 GTTATGTTTC
74900082 TTATTAT-TATA
1 TTATTATATATA
*
74900093 TTATT-TATTTA
1 TTATTATATATA
74900104 TTATTATATAT-
1 TTATTATATATA
74900115 TTATTAT
1 TTATTAT
74900122 GTAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 1 0.04
11 20 0.80
12 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATATATA
Found at i:74900131 original size:17 final size:14
Alignment explanation
Indices: 74900091--74900121 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
74900081 CTTATTATTA
*
74900091 TATTATTTATTTAT
1 TATTATATATTTAT
74900105 TATTATATATTTAT
1 TATTATATATTTAT
74900119 TAT
1 TAT
74900122 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:74900349 original size:21 final size:21
Alignment explanation
Indices: 74900325--74900366 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
74900315 CCATATATAA
74900325 TGTTATCATCAACATATTTTT
1 TGTTATCATCAACATATTTTT
* * *
74900346 TGTTATTATCATCATGTTTTT
1 TGTTATCATCAACATATTTTT
74900367 AATATTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.57
Consensus pattern (21 bp):
TGTTATCATCAACATATTTTT
Found at i:74906967 original size:50 final size:50
Alignment explanation
Indices: 74906896--74907080 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
74906886 ACATGCCAAA
74906896 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
74906946 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
74906996 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
74907046 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
74907081 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:74907196 original size:13 final size:13
Alignment explanation
Indices: 74907175--74907206 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
74907165 GCTTGGATCA
*
74907175 TCATCAAATAAAT
1 TCATAAAATAAAT
74907188 TCATAAAATAAAT
1 TCATAAAATAAAT
74907201 TCATAA
1 TCATAA
74907207 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:74907454 original size:30 final size:30
Alignment explanation
Indices: 74907418--74907475 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
74907408 CCTCGACTCT
*
74907418 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
74907448 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
74907476 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:74914821 original size:51 final size:51
Alignment explanation
Indices: 74914749--74914983 Score: 470
Period size: 51 Copynumber: 4.6 Consensus size: 51
74914739 ACATGCCAAA
74914749 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
74914800 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
74914851 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
74914902 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
74914953 GCCATGTCCCAGACATGGTCTTACATGGGAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAT
74914984 CTCTTTACCC
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 184 1.00
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCAT
Found at i:74915103 original size:13 final size:13
Alignment explanation
Indices: 74915082--74915113 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
74915072 GCTTGGATCA
*
74915082 TCATCAAATAAAT
1 TCATAAAATAAAT
74915095 TCATAAAATAAAT
1 TCATAAAATAAAT
74915108 TCATAA
1 TCATAA
74915114 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:74915360 original size:29 final size:30
Alignment explanation
Indices: 74915323--74915382 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
74915313 GCCCTCGACT
*
74915323 CTAACTTTTT-CAAAATTACAATTTTGCCC
1 CTAAATTTTTACAAAATTACAATTTTGCCC
* *
74915352 CTAAATTTTTACATAATTACATTTTTGCCC
1 CTAAATTTTTACAAAATTACAATTTTGCCC
74915382 C
1 C
74915383 AAGTCTCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.43
Consensus pattern (30 bp):
CTAAATTTTTACAAAATTACAATTTTGCCC
Found at i:74920718 original size:28 final size:28
Alignment explanation
Indices: 74920664--74920718 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
74920654 ATAAAAATTC
* * *
74920664 ATTATAGTTTGAATATTAATATCAATAT
1 ATTATAATTTAAATAATAATATCAATAT
* *
74920692 ATTATAATTTAAATAATATTATTAATA
1 ATTATAATTTAAATAATAATATCAATA
74920719 ATTTCTTACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (28 bp):
ATTATAATTTAAATAATAATATCAATAT
Found at i:74921460 original size:14 final size:15
Alignment explanation
Indices: 74921441--74921473 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
74921431 AAAAAAGTAA
74921441 AATTTT-AATAATTT
1 AATTTTGAATAATTT
*
74921455 AATTTTGAATACTTT
1 AATTTTGAATAATTT
74921470 AATT
1 AATT
74921474 AAAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
AATTTTGAATAATTT
Found at i:74922470 original size:15 final size:16
Alignment explanation
Indices: 74922450--74922480 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
74922440 ATGAAAATTA
74922450 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
74922465 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
74922481 AAATAAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:74922624 original size:27 final size:27
Alignment explanation
Indices: 74922573--74922629 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
74922563 AATAGGTATG
*
74922573 TTTAAATATATTGAAAAATACAAT-AT
1 TTTAAATATATTGAAAAATAAAATAAT
*
74922599 TTTAAATATTTTTG-AAAATAAAAATAAT
1 TTTAAATA-TATTGAAAAAT-AAAATAAT
74922627 TTT
1 TTT
74922630 TTTATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 13 0.50
27 8 0.31
28 5 0.19
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
TTTAAATATATTGAAAAATAAAATAAT
Found at i:74930575 original size:46 final size:45
Alignment explanation
Indices: 74930519--74930694 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
74930509 TATTTGGGCA
74930519 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
74930565 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
74930612 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
74930658 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
74930695 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:74930674 original size:93 final size:93
Alignment explanation
Indices: 74930515--74930686 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
74930505 AGGATATTTG
* * *
74930515 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
74930580 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
74930608 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
74930673 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
74930687 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:74938442 original size:64 final size:64
Alignment explanation
Indices: 74938341--74938468 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
74938331 TCATTCATAA
*
74938341 CACATCTAATTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * *
74938405 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGTATCCTAATTATTTGGCATAAGCAT
1 CACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
74938469 AGATATATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (64 bp):
CACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:74938838 original size:177 final size:177
Alignment explanation
Indices: 74938530--74939096 Score: 920
Period size: 177 Copynumber: 3.2 Consensus size: 177
74938520 CATCGGTGAA
* * * * * *
74938530 AATTACGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTACCTCCA
1 AATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAATTGGCGGGTCTTATCTCTA
*
74938595 TGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAACAGGT
66 TGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
* *
74938660 TGAAGATACAAATCTTATCTTCCTGAAGTTGCATGAAGCAGACTGAG
131 TGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAG
*
74938707 AATTACAGATCTTATTTCCATGTATCGGCTATAGAGCAGATCGAAATTGGCGGGTCTTATCTCTA
1 AATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAATTGGCGGGTCTTATCTCTA
* *
74938772 TGTATCGACTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
* *
74938837 TGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAG
131 TGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAG
* * *
74938884 AATTACAAATCTTATCTCCATGTATCGGCTATAAAGCAGATCAAAATTGGCGGGTCTTATCTCTA
1 AATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAATTGGCGGGTCTTATCTCTA
* * *
74938949 TGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAATGTAGCAAGAGAGCAGGC
66 TGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
*
74939014 TGAAGATACAAGTCTTATCTT-CTGAAGTTGCAAGAAGCAGACTGAA
131 TGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAG
* *
74939060 AATCACAGATCTTATCTCCATGTATCGGCTATGGAGC
1 AATTACAGATCTTATCTCCATGTATCGGCTATAGAGC
74939097 GGACTTTAGC
Statistics
Matches: 361, Mismatches: 29, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
176 55 0.15
177 306 0.85
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (177 bp):
AATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAATTGGCGGGTCTTATCTCTA
TGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
TGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAG
Found at i:74939059 original size:42 final size:45
Alignment explanation
Indices: 74938983--74939077 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 45
74938973 AGCCACCAGC
* *
74938983 CTTATCTCTCTAATGTAGCAAGAGAGCAGGCTGAAGAT-ACA-AGT
1 CTTATCTCTCTAATGTAGCAAGAGAGCAGACTGAAAATCACAGA-T
*
74939027 CTTATCT-TCTGAA-GTTGCAAGA-AGCAGACTGAAAATCACAGAT
1 CTTATCTCTCT-AATGTAGCAAGAGAGCAGACTGAAAATCACAGAT
74939070 CTTATCTC
1 CTTATCTC
74939078 CATGTATCGG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
42 12 0.27
43 22 0.50
44 10 0.23
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (45 bp):
CTTATCTCTCTAATGTAGCAAGAGAGCAGACTGAAAATCACAGAT
Found at i:74939088 original size:131 final size:132
Alignment explanation
Indices: 74938938--74939232 Score: 439
Period size: 131 Copynumber: 2.2 Consensus size: 132
74938928 AATTGGCGGG
*
74938938 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAATGTAGCA
1 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
*
74939003 AGAGAGCAGGCTGAAGATACAAGTCTTATCTT-CTGAAGTTGCAAGAAGCAGACTGAAAATCACA
66 AGAGAGAAGGCTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAAAATCACA
74939067 GA
131 GA
* * * * * *
74939069 TCTTATCTCCATGTATCGGCTATGGAGCGGACTTTAGCCACCAGCCTTATCTTTCTGAGGTAGTA
1 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * * * *
74939134 AGAGAGAAGGTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTATA
66 AGAGAGAAGGCTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAAAATCACA
74939199 GA
131 GA
** *
74939201 AATTATCTCTATGTATCGACTATGGAGCAGAT
1 TCTTATCTCTATGTATCGGCTATGGAGCAGAT
74939233 CAAAAATGGC
Statistics
Matches: 144, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
131 87 0.60
132 57 0.40
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (132 bp):
TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
AGAGAGAAGGCTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAAAATCACA
GA
Found at i:74939128 original size:308 final size:310
Alignment explanation
Indices: 74938761--74939384 Score: 869
Period size: 308 Copynumber: 2.0 Consensus size: 310
74938751 AATTGGCGGG
* * *
74938761 TCTTATCTCTATGTATCGACTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGACTATGGAGCAGACTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
* *
74938826 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAGAATTACA
66 AGAGAGAAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* * * ** * *
74938891 -AATCTTATCTCCATGTATCGGCTATAAAGCAGATCAAAATTGGCGGGTCTTATCTCTATGTATC
131 GAA-ATTATCTCCATGTATCGACTATAAAGCAGATCAAAAATGGCAAGTCTTACCTCCATGTATC
* * * * * *
74938955 GGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAATGTAGCAAGAGAGCAGGCTGAAGA
195 GGCAATGGAGCAGATTTTAGCCACAAGCCTTACCTCTCTAAGGTAGCAAGAGAGCAAGCTGAAAA
*
74939020 TACAAGTCTTATCTT-CTGAA-GTTGCAA-GAAGCAGACTGAAAATCACAGA
260 TACAAGTCTTATCTTCCT-AAGGTAGCAAGGAAGCAGACTGAAAATCACAGA
* * * *
74939069 TCTTATCTCCATGTATCGGCTATGGAGCGGACTTTAGCCACCAGCCTTATCTTTCTGAGGTAGTA
1 TCTTATCTCCATGTATCGACTATGGAGCAGACTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
* * *
74939134 AGAGAGAAGGTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTATA
66 AGAGAGAAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* **
74939199 GAAATTATCTCTATGTATCGACTATGGAGCAGATCAAAAATGGCAAGTCTTACCTCCATGTATCG
131 GAAATTATCTCCATGTATCGACTATAAAGCAGATCAAAAATGGCAAGTCTTACCTCCATGTATCG
* * *
74939264 GCAATGGAGTAGATTTTAGCCACAAGCCTTACCTCTCTGAGGTAGCAAGAGAGCAAGTTGAAAAT
196 GCAATGGAGCAGATTTTAGCCACAAGCCTTACCTCTCTAAGGTAGCAAGAGAGCAAGCTGAAAAT
* * * **
74939329 ACAAGTCTTATTTTCCTAAGGTAGCAAGGAAGTAGACTGAAGATTGCAGA
261 ACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATCACAGA
74939379 TCTTAT
1 TCTTAT
74939385 TTTCCTAAGC
Statistics
Matches: 275, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
308 241 0.88
309 10 0.04
310 24 0.09
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (310 bp):
TCTTATCTCCATGTATCGACTATGGAGCAGACTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
AGAGAGAAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
GAAATTATCTCCATGTATCGACTATAAAGCAGATCAAAAATGGCAAGTCTTACCTCCATGTATCG
GCAATGGAGCAGATTTTAGCCACAAGCCTTACCTCTCTAAGGTAGCAAGAGAGCAAGCTGAAAAT
ACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATCACAGA
Found at i:74941161 original size:31 final size:31
Alignment explanation
Indices: 74941123--74941181 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
74941113 TTTTATGTAA
*
74941123 ATATTTTCTTCTAAACTTATT-ATATATATAT
1 ATATTTTCTT-TAAAATTATTCATATATATAT
74941154 ATATTTTCTTTAAAATTATTCATATATA
1 ATATTTTCTTTAAAATTATTCATATATA
74941182 ATTTGGCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (31 bp):
ATATTTTCTTTAAAATTATTCATATATATAT
Found at i:74941171 original size:27 final size:29
Alignment explanation
Indices: 74941123--74941185 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 29
74941113 TTTTATGTAA
74941123 ATATTTTCTTCTAAACTTATTATAT-ATATAT
1 ATATTTTCTTCTAAA--TATTAT-TCATATAT
74941154 ATATTTTCTT-TAAA-ATTATTCATATAT
1 ATATTTTCTTCTAAATATTATTCATATAT
74941181 A-ATTT
1 ATATTT
74941186 GGCTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 5 0.16
27 12 0.39
30 4 0.13
31 10 0.32
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (29 bp):
ATATTTTCTTCTAAATATTATTCATATAT
Found at i:74946059 original size:22 final size:21
Alignment explanation
Indices: 74946031--74946089 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
74946021 AATATTTTAA
*
74946031 ATATAAATATTTATTTTATTTT
1 ATATAAATATTT-GTTTATTTT
74946053 ATATAAATATTTGTTTATTTTT
1 ATATAAATATTTGTTTA-TTTT
* *
74946075 ATTTATATATTTGTT
1 ATATAAATATTTGTT
74946090 CGTTAACGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 4 0.12
22 29 0.88
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
ATATAAATATTTGTTTATTTT
Found at i:74946231 original size:29 final size:29
Alignment explanation
Indices: 74946198--74946255 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
74946188 GTGAGTATGT
74946198 AAGCCACTTGATATTGTCTTGGAACATAG
1 AAGCCACTTGATATTGTCTTGGAACATAG
74946227 AAGCCACTTGATATTGTCTTGGAACATAG
1 AAGCCACTTGATATTGTCTTGGAACATAG
74946256 TCAACTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (29 bp):
AAGCCACTTGATATTGTCTTGGAACATAG
Found at i:74950811 original size:17 final size:15
Alignment explanation
Indices: 74950780--74950813 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
74950770 TTTAATATTT
74950780 TAAAATTATTTTTTA
1 TAAAATTATTTTTTA
74950795 TAAATATTATATTTTTA
1 TAAA-ATTAT-TTTTTA
74950812 TA
1 TA
74950814 GGTTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAAAATTATTTTTTA
Found at i:74951471 original size:9 final size:9
Alignment explanation
Indices: 74951457--74951508 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
74951447 TTTGGTTAAA
74951457 AATTACCCG
1 AATTACCCG
74951466 AATTACCCG
1 AATTACCCG
74951475 AATTACCCG
1 AATTACCCG
*
74951484 AATTAACCG
1 AATTACCCG
*
74951493 AATTAACCG
1 AATTACCCG
74951502 AATTACC
1 AATTACC
74951509 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:74952539 original size:17 final size:17
Alignment explanation
Indices: 74952514--74952546 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
74952504 TTTCTCATTC
*
74952514 TTCCGTTCTTCATCCAG
1 TTCCCTTCTTCATCCAG
74952531 TTCCCTTCTTCATCCA
1 TTCCCTTCTTCATCCA
74952547 TTTTGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.39, G:0.06, T:0.42
Consensus pattern (17 bp):
TTCCCTTCTTCATCCAG
Found at i:74954590 original size:20 final size:20
Alignment explanation
Indices: 74954545--74954590 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
74954535 CATCCAAACA
74954545 CCAGAAAAATAAATCATTTT
1 CCAGAAAAATAAATCATTTT
*
74954565 -CAGAAAAGTAAATCATTTT
1 CCAGAAAAATAAATCATTTT
74954584 CCAGAAA
1 CCAGAAA
74954591 TCATTTTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (20 bp):
CCAGAAAAATAAATCATTTT
Found at i:74955790 original size:15 final size:15
Alignment explanation
Indices: 74955770--74955816 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
74955760 TTCTCTCATG
74955770 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
* **
74955785 TTATATTTGAAATA-
1 TTATATTTTAGTTAT
*
74955799 TTATATTTTAGTCAT
1 TTATATTTTAGTTAT
74955814 TTA
1 TTA
74955817 CGTTATTGTG
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (15 bp):
TTATATTTTAGTTAT
Found at i:74960376 original size:21 final size:21
Alignment explanation
Indices: 74960329--74960376 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
74960319 TAATTATTTG
74960329 AAATAATT-AATTATATTATAA
1 AAAT-ATTAAATTATATTATAA
74960350 AAATATTAAATTA-ATTAATAA
1 AAATATTAAATTATATT-ATAA
*
74960371 CAATAT
1 AAATAT
74960377 GAGAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATATTAAATTATATTATAA
Found at i:74963262 original size:6 final size:6
Alignment explanation
Indices: 74963251--74963285 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
74963241 GAATCCGTAA
74963251 AAATAT AAATAT AAATAT AAATAT AAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATA
74963286 AAGACATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:74968272 original size:13 final size:14
Alignment explanation
Indices: 74968243--74968275 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
74968233 AATCTTATGT
*
74968243 GAAATAATTTAAAA
1 GAAAAAATTTAAAA
74968257 GAAAAAATTT-AAA
1 GAAAAAATTTAAAA
74968270 GAAAAA
1 GAAAAA
74968276 TGAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (14 bp):
GAAAAAATTTAAAA
Found at i:74975760 original size:19 final size:19
Alignment explanation
Indices: 74975736--74975774 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
74975726 TATAGAGACA
74975736 TAACTTTCAAGGTGTATTT
1 TAACTTTCAAGGTGTATTT
*
74975755 TAACTTTCAAGTTGTATTT
1 TAACTTTCAAGGTGTATTT
74975774 T
1 T
74975775 CTGAATAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (19 bp):
TAACTTTCAAGGTGTATTT
Found at i:74977236 original size:29 final size:29
Alignment explanation
Indices: 74977170--74977259 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 29
74977160 CACATACCTG
* * * *
74977170 TATATGGTCCACTAGACCCAATT-ATATT
1 TATATGGCCCATTAGGCCCAATTCACATT
* *
74977198 CACATGGCCCATTAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAATTCACATT
*
74977227 TATATGGCCCATTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAATTCACATT
74977255 TATAT
1 TATAT
74977260 TCATGCTCAC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 24 0.46
29 28 0.54
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAATTCACATT
Found at i:74997731 original size:28 final size:28
Alignment explanation
Indices: 74997691--74997757 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
74997681 CGTGTCCTTG
74997691 GCCCGTGTCCTTCACACGACCATGACAC
1 GCCCGTGTCCTTCACACGACCATGACAC
*
74997719 GCCCGTGTCCTTCACACGGCCATGACAC
1 GCCCGTGTCCTTCACACGACCATGACAC
*
74997747 ACCCGTGTCCT
1 GCCCGTGTCCT
74997758 AGCTTATGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.18, C:0.43, G:0.19, T:0.19
Consensus pattern (28 bp):
GCCCGTGTCCTTCACACGACCATGACAC
Found at i:74998854 original size:46 final size:45
Alignment explanation
Indices: 74998720--74998939 Score: 137
Period size: 46 Copynumber: 4.8 Consensus size: 45
74998710 GGGGTCAGGT
* *
74998720 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACA-CATCTTGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CATCGTCTCG-AG
** * *
74998766 TTCGATGCATGTCCCAGACATGTCTCACACTGGCTTAT-GTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ATCGTCTCGAG
* * *
74998812 GCCGATGCATGTCCCAGACAAGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCA-TCGTCTCGAG
* * * * * *
74998858 GTCGATGCCATGTCCCAGAC-TCGGTCTTACACTGGCTTTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT--GTCTTACACTAGC-ATCGT-CTCGAG
* *
74998906 GCTGATGCATGTCCCAAACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
74998940 TCACACAAGT
Statistics
Matches: 136, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 63 0.46
47 23 0.17
48 21 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCGTCTCGAG
Found at i:75017050 original size:40 final size:40
Alignment explanation
Indices: 75017004--75017228 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
75016994 CTTGCACAAG
* * *
75017004 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
75017044 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
75017084 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
75017124 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
75017164 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
75017205 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
75017229 CATTCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:75017099 original size:80 final size:80
Alignment explanation
Indices: 75016968--75017228 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
75016958 CTCAAGTAAT
* * * * * * *
75016968 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
75017031 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
75017046 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
75017110 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
75017126 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
75017191 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
75017207 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
75017229 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:75019318 original size:44 final size:45
Alignment explanation
Indices: 75019244--75019429 Score: 193
Period size: 44 Copynumber: 4.2 Consensus size: 45
75019234 TATGTGGTTG
*
75019244 AAGCCACCAA-ATTCGTAGACAAGCTGCCATGTAGGTTATGGACA
1 AAGCCACCAATATTCGTAGACAAGCTGCCATGTAGGTTGTGGACA
* * * * *
75019288 AAGCCAACAATATTCGTAGAC-AGTTTCCATGTAAGTTGTGGATA
1 AAGCCACCAATATTCGTAGACAAGCTGCCATGTAGGTTGTGGACA
* * * * *
75019332 AA-CCACCAATATTTGAAGACAAGCTACCATGTAGGTTGCGGATA
1 AAGCCACCAATATTCGTAGACAAGCTGCCATGTAGGTTGTGGACA
* * * * *
75019376 AA-CAACCAAT-TTTGCAGACAAGTTGCCATGTAGGTTGTGGACG
1 AAGCCACCAATATTCGTAGACAAGCTGCCATGTAGGTTGTGGACA
75019419 AAGCCACCAAT
1 AAGCCACCAAT
75019430 TCTTCCTCTT
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
43 44 0.37
44 64 0.54
45 10 0.08
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (45 bp):
AAGCCACCAATATTCGTAGACAAGCTGCCATGTAGGTTGTGGACA
Found at i:75020619 original size:13 final size:13
Alignment explanation
Indices: 75020581--75020627 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
75020571 TGTCGATTTC
*
75020581 TTCTTCCTCTCTTT
1 TTCTTCCT-TTTTT
*
75020595 TTCCTCCATTTTTT
1 TTCTTCC-TTTTTT
75020609 TTCTTCCTTTTTT
1 TTCTTCCTTTTTT
75020622 TTCTTC
1 TTCTTC
75020628 TAGCCGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.41
14 16 0.55
15 1 0.03
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (13 bp):
TTCTTCCTTTTTT
Found at i:75034947 original size:51 final size:45
Alignment explanation
Indices: 75034831--75034949 Score: 130
Period size: 45 Copynumber: 2.5 Consensus size: 45
75034821 TAGATACAAG
*
75034831 TCTTATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATGGCAAA
* * * *
75034876 TCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAGGCTACTAGCAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAG--A-T-G--GCAAA
*
75034927 TCTTATCTCTCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
75034950 ACAGCAGATT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
45 32 0.53
47 1 0.02
48 1 0.02
49 1 0.02
51 25 0.42
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATGGCAAA
Found at i:75035088 original size:44 final size:44
Alignment explanation
Indices: 75035021--75035104 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
75035011 CATGGCGAAT
* * *
75035021 CTTATCTCCCTGAAATCGCAGTGGAGCAGATTGAAGTCACAAAC
1 CTTATCTCCCTGAAATCGAAGTGGAGAAGATTGAAATCACAAAC
*
75035065 CTTATCTCCCTGAAGAT-GAAGTGGAGAAGGTTGAAATCAC
1 CTTATCTCCCTGAA-ATCGAAGTGGAGAAGATTGAAATCAC
75035105 CAAGTCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
44 33 0.94
45 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (44 bp):
CTTATCTCCCTGAAATCGAAGTGGAGAAGATTGAAATCACAAAC
Found at i:75047393 original size:40 final size:40
Alignment explanation
Indices: 75047295--75047597 Score: 380
Period size: 40 Copynumber: 7.6 Consensus size: 40
75047285 TCCTCGTTCA
* * * ** *
75047295 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
75047334 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
75047374 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
75047414 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
75047454 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
75047494 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
75047534 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
75047574 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
75047598 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:75055374 original size:40 final size:40
Alignment explanation
Indices: 75055282--75055584 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
75055272 TCCTCGTTCA
* * * * *
75055282 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCAC-CG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
75055321 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
75055361 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
75055401 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
75055441 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
75055481 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
75055521 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
75055561 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
75055585 CAGCATTCAA
Statistics
Matches: 242, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
39 36 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:75055593 original size:41 final size:41
Alignment explanation
Indices: 75055516--75055593 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
75055506 TTAGTATCTC
* * *
75055516 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
75055557 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
75055594 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:75060631 original size:51 final size:45
Alignment explanation
Indices: 75060515--75060633 Score: 130
Period size: 45 Copynumber: 2.5 Consensus size: 45
75060505 TAGATACAAG
*
75060515 TCTTATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATGGCAAA
* * * *
75060560 TCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAGGCTACTAGCAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAG--A-T-G--GCAAA
*
75060611 TCTTATCTCTCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
75060634 ACAGCAGATT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
45 32 0.53
47 1 0.02
48 1 0.02
49 1 0.02
51 25 0.42
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATGGCAAA
Found at i:75060772 original size:44 final size:44
Alignment explanation
Indices: 75060705--75060788 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
75060695 CATGGCGAAT
* * *
75060705 CTTATCTCCCTGAAATCGCAGTGGAGCAGATTGAAGTCACAAAC
1 CTTATCTCCCTGAAATCGAAGTGGAGAAGATTGAAATCACAAAC
*
75060749 CTTATCTCCCTGAAGAT-GAAGTGGAGAAGGTTGAAATCAC
1 CTTATCTCCCTGAA-ATCGAAGTGGAGAAGATTGAAATCAC
75060789 CAAGTCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
44 33 0.94
45 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (44 bp):
CTTATCTCCCTGAAATCGAAGTGGAGAAGATTGAAATCACAAAC
Found at i:75065043 original size:23 final size:23
Alignment explanation
Indices: 75064982--75065053 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
75064972 AGACTATGAT
*
75064982 ACATAGGCTTAGCA-AATTATGCC
1 ACATAAGCTTAGCAGAA-TATGCC
* *** *
75065005 ACAAAAGGAAAACAGAATATGCC
1 ACATAAGCTTAGCAGAATATGCC
* *
75065028 ACATAAGCTTAGCAGATTACGCC
1 ACATAAGCTTAGCAGAATATGCC
75065051 ACA
1 ACA
75065054 GATCCCAAAC
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
23 33 0.94
24 2 0.06
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (23 bp):
ACATAAGCTTAGCAGAATATGCC
Found at i:75065622 original size:25 final size:25
Alignment explanation
Indices: 75065549--75065623 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
75065539 GACTCCACAA
*
75065549 CTCGTGAGAGCATACTAATTTAGAG
1 CTCGTGAGAGCATACTAATTTATAG
**
75065574 CTCGTGAGAGCATACCGATTTATAG
1 CTCGTGAGAGCATACTAATTTATAG
*
75065599 CTCGTGAGAGCATACTAATCTATAG
1 CTCGTGAGAGCATACTAATTTATAG
75065624 TTCAAGTGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (25 bp):
CTCGTGAGAGCATACTAATTTATAG
Found at i:75065653 original size:50 final size:50
Alignment explanation
Indices: 75065544--75065663 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
75065534 GCGAAGACTC
* **
75065544 CACAACTCGTGAGAGCATACTAATTTAGAGCTCGTGAGAGCATACCGATT
1 CACAACTCGTGAGAGCATACTAATCTAGAGCTCAAGAGAGCATACCGATT
* * * * * *
75065594 TATAGCTCGTGAGAGCATACTAATCTATAGTTCAAGTGAGCATACCGATT
1 CACAACTCGTGAGAGCATACTAATCTAGAGCTCAAGAGAGCATACCGATT
75065644 CACAACTCGT-ATGAGCATAC
1 CACAACTCGTGA-GAGCATAC
75065664 ATGTACATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 1 0.02
50 56 0.98
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
CACAACTCGTGAGAGCATACTAATCTAGAGCTCAAGAGAGCATACCGATT
Found at i:75068789 original size:39 final size:40
Alignment explanation
Indices: 75068744--75068915 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
75068734 GCTCCTCGTT
* * *
75068744 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
75068784 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
75068823 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
75068863 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
75068903 CAAATGCCTTCGG
1 CAAATGCCTTCGG
75068916 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:75068844 original size:40 final size:39
Alignment explanation
Indices: 75068746--75068968 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
75068736 TCCTCGTTCA
* * * *
75068746 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
75068785 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
75068824 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
75068864 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
75068904 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
75068945 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
75068969 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:75068928 original size:80 final size:79
Alignment explanation
Indices: 75068744--75068968 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
75068734 GCTCCTCGTT
* * * * *
75068744 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
75068808 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
75068823 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
75068888 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
75068903 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
75068967 GA
63 GA
75068969 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:75068977 original size:41 final size:41
Alignment explanation
Indices: 75068900--75068977 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
75068890 TTTGTATCTC
* * *
75068900 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
75068941 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
75068978 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:75070674 original size:30 final size:30
Alignment explanation
Indices: 75070638--75070697 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
75070628 CTGCGCACAA
75070638 AGAGTAAAACTTCACAATAAGTATGCAATG
1 AGAGTAAAACTTCACAATAAGTATGCAATG
* *
75070668 AGAGTAAAACTTCACGATATGTATGCAATG
1 AGAGTAAAACTTCACAATAAGTATGCAATG
75070698 CCATGTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (30 bp):
AGAGTAAAACTTCACAATAAGTATGCAATG
Found at i:75070874 original size:20 final size:18
Alignment explanation
Indices: 75070846--75070887 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
75070836 ATAATTAATT
75070846 AAATAATTAAAAATATATTA
1 AAATAATTAAAAAT-T-TTA
*
75070866 AAATCATTAAAAATTTTA
1 AAATAATTAAAAATTTTA
75070884 AAAT
1 AAAT
75070888 TATAAAACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
20 13 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATAATTAAAAATTTTA
Found at i:75079555 original size:48 final size:48
Alignment explanation
Indices: 75079484--75079718 Score: 274
Period size: 48 Copynumber: 4.9 Consensus size: 48
75079474 AGGGTAAGAT
* **
75079484 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA-AGTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA-TAAAG
* * *
75079532 GCCGATGCCATGTCCCAAACATGGTCTTACGCTAGCTCTCATATAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAG
* * * * **
75079580 GCCGGTGCCATGTTCCAAATATGGTCTTACACTAGTTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAG
* * * *
75079628 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAG
* * * *
75079676 GCCGATGCCATGTTCCAAACATGGTCTTAAATTGGCTCACATA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
75079719 ACCCTAGTAT
Statistics
Matches: 154, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
48 153 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAG
Found at i:75079716 original size:96 final size:97
Alignment explanation
Indices: 75079482--75079718 Score: 361
Period size: 96 Copynumber: 2.5 Consensus size: 97
75079472 AAAGGGTAAG
* * *
75079482 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA-AGTCGAGGCCGATGCCATGTC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAGTCGAGGCCAATGCCATGTC
*
75079546 CCAAACATGGTCTTACGCTAGCTCTCATATAA
66 CCAAACATGGTCTTACACTAGCTCTCATATAA
* * *
75079578 ATGCCGGTGCCATGTTCCAAATATGGTCTTACACTAGTTCACATA-TCGAGGCCAATGCCATGTC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAGTCGAGGCCAATGCCATGTC
*
75079642 CCAGACATGGTCTTACACTAGCTCTCATATAA
66 CCAAACATGGTCTTACACTAGCTCTCATATAA
* * *
75079674 ATGCCGATGCCATGTTCCAAACATGGTCTTAAATTGGCTCACATA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
75079719 ACCCTAGTAT
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 125 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (97 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAGTCGAGGCCAATGCCATGTC
CCAAACATGGTCTTACACTAGCTCTCATATAA
Found at i:75084353 original size:15 final size:15
Alignment explanation
Indices: 75084333--75084370 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
75084323 CACCATAATC
75084333 ATTTAATTTAACATA
1 ATTTAATTTAACATA
75084348 ATTTAATTTAACATA
1 ATTTAATTTAACATA
*
75084363 ATTCAATT
1 ATTTAATT
75084371 AATTCACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAATTTAACATA
Found at i:75094253 original size:13 final size:13
Alignment explanation
Indices: 75094235--75094293 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
75094225 TAGGGACACA
*
75094235 CCCGTGTCCTATG
1 CCCGTGTCCCATG
75094248 CCCGTGTCCCATG
1 CCCGTGTCCCATG
* *
75094261 CCTGTATCCCACT-
1 CCCGTGTCCCA-TG
*
75094274 CCTGTGTCCCATG
1 CCCGTGTCCCATG
75094287 CCCGTGT
1 CCCGTGT
75094294 GAATTAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
12 1 0.03
13 37 0.95
14 1 0.03
ACGTcount: A:0.08, C:0.42, G:0.20, T:0.29
Consensus pattern (13 bp):
CCCGTGTCCCATG
Found at i:75106637 original size:41 final size:41
Alignment explanation
Indices: 75106580--75106662 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
75106570 GTTGAAAGCA
*
75106580 TTACTGACAGAGGCACCAGTGTTAGTTTAGCCTGAATCAGG
1 TTACTGACAGAGGCACCAGTGTTAGTTCAGCCTGAATCAGG
*
75106621 TTACTGATAGAGGCACCAGTGTTAGTTCAGCCTGAATCAGG
1 TTACTGACAGAGGCACCAGTGTTAGTTCAGCCTGAATCAGG
75106662 T
1 T
75106663 AAAGAATTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (41 bp):
TTACTGACAGAGGCACCAGTGTTAGTTCAGCCTGAATCAGG
Found at i:75109690 original size:23 final size:23
Alignment explanation
Indices: 75109663--75109709 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
75109653 AAAGAATGGT
75109663 TGATTAAATAAGTTAATTCTGAA
1 TGATTAAATAAGTTAATTCTGAA
*
75109686 TGATTAAATAAGTTAATTTTGAA
1 TGATTAAATAAGTTAATTCTGAA
75109709 T
1 T
75109710 TCATATAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.43
Consensus pattern (23 bp):
TGATTAAATAAGTTAATTCTGAA
Found at i:75112604 original size:40 final size:40
Alignment explanation
Indices: 75112558--75112653 Score: 133
Period size: 40 Copynumber: 2.4 Consensus size: 40
75112548 TATCTTTGTA
*
75112558 TCGCACACTTAGTGCCTCA-TAGAGCCGAAGCTATTCCAAT
1 TCGCACACTAAGTGCCT-ATTAGAGCCGAAGCTATTCCAAT
* *
75112598 TCGCACACTAAGTG-CTATTTATAGCTGAAGCTATTCCAAT
1 TCGCACACTAAGTGCCTA-TTAGAGCCGAAGCTATTCCAAT
75112638 TCGCACACTAAGTGCC
1 TCGCACACTAAGTGCC
75112654 AAACATAGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 46 0.92
41 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (40 bp):
TCGCACACTAAGTGCCTATTAGAGCCGAAGCTATTCCAAT
Found at i:75116330 original size:17 final size:17
Alignment explanation
Indices: 75116308--75116382 Score: 51
Period size: 17 Copynumber: 4.1 Consensus size: 17
75116298 CCAATTGGGA
75116308 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACACGGG
* * *
75116325 CGTGTGGGAATCTAGACCAGGC
1 CGTGTGGG---CCACA-C-GGG
*
75116347 CGTGTGTGCCACACGGG
1 CGTGTGGGCCACACGGG
*
75116364 CTTGTGGGCTCACACGGG
1 CGTGTGGGC-CACACGGG
75116382 C
1 C
75116383 AAGCCACATG
Statistics
Matches: 43, Mismatches: 9, Indels: 11
0.68 0.14 0.17
Matches are distributed among these distances:
17 17 0.40
18 10 0.23
19 3 0.07
20 3 0.07
21 1 0.02
22 9 0.21
ACGTcount: A:0.15, C:0.28, G:0.40, T:0.17
Consensus pattern (17 bp):
CGTGTGGGCCACACGGG
Found at i:75116832 original size:38 final size:38
Alignment explanation
Indices: 75116738--75116834 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 38
75116728 CGGTACCTTA
* * * *
75116738 TGGTGTGTAGGGTTGGATGGGTTTATTTATCCCCATACT
1 TGGTGTGTAGGGCTGGGTGGGTTGATTTATCCCCA-ACG
75116777 TGGTGTGTAGGGCTGGGTGGGTTGATTTTATCCCC-ACG
1 TGGTGTGTAGGGCTGGGTGGGTTGA-TTTATCCCCAACG
*
75116815 TGGTGTGTAGGGGTGGGTGG
1 TGGTGTGTAGGGCTGGGTGG
75116835 AGATGGTGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 21 0.40
39 22 0.42
40 9 0.17
ACGTcount: A:0.11, C:0.11, G:0.41, T:0.36
Consensus pattern (38 bp):
TGGTGTGTAGGGCTGGGTGGGTTGATTTATCCCCAACG
Found at i:75124315 original size:39 final size:40
Alignment explanation
Indices: 75124270--75124437 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
75124260 CGGGGTTTAG
* * *
75124270 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
75124309 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
75124349 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
75124389 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
75124430 CCGGATAT
1 CCGGATAT
75124438 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:75124420 original size:41 final size:40
Alignment explanation
Indices: 75124293--75124437 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
75124283 CTCGCACAAG
* * * * *
75124293 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
75124333 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
75124373 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
75124414 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
75124438 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:75129189 original size:128 final size:128
Alignment explanation
Indices: 75128791--75129435 Score: 990
Period size: 129 Copynumber: 5.0 Consensus size: 128
75128781 CGACTTGAAA
* * * *
75128791 AACTAGATTAACAAACTTGAATGAGCTAAACCCAAATTAACTCGACTAAAAATATCTTAAAATTC
1 AACTCGATTAACAAACTTGAATGAGCTAAACCCAAATTGACTCGACCAAAAATAACTTAAAATTC
*
75128856 AAAATGATTAAAAAAA-TAAAATTCGAATTTACCCTAAACAATTCATAATACCATAACTTCAT
66 AAAATGATTAAAAAAATTAAAATCCGAATTTACCCTAAACAATTCATAATACCATAACTTCAT
* * *
75128918 AACTTGATTAACAAACTTGAATGAGCTAAACCCAAATTTG-CTTGACCAAAAAAAACTTAAAATT
1 AACTCGATTAACAAACTTGAATGAGCTAAACCCAAA-TTGACTCGACCAAAAATAACTTAAAATT
*
75128982 CAAAATGATTAAAAAAGTTTAAAATCCGAATTTACCCTAAACAATTCATAATACCATAACTTCAT
65 CAAAATGATTAAAAAA-ATTAAAATCCGAATTTACCCTAAACAATTCATAATACCATAACTTCAT
* * *
75129047 AACTCGATTAACAAACCTGAATGAGCTAAACCCAAATTGGCTCGATCAAAAATAACTTAAAATTC
1 AACTCGATTAACAAACTTGAATGAGCTAAACCCAAATTGACTCGACCAAAAATAACTTAAAATTC
* ** **
75129112 AAAATGATTAAAAAAATTAAAATCCGAATTTACCTTATGCAATTCATTTTACCATAACTTCAT
66 AAAATGATTAAAAAAATTAAAATCCGAATTTACCCTAAACAATTCATAATACCATAACTTCAT
75129175 AACTCGATTAACAAACTTGAATGAGCTAAACCCAAATTGACTCGACCAAAAATAACTTAAAATTC
1 AACTCGATTAACAAACTTGAATGAGCTAAACCCAAATTGACTCGACCAAAAATAACTTAAAATTC
*
75129240 AAAATGATTAAAAAAAAGTTTAAAATTCGAATTTACCCTAAACAATTCATAATACCATAACTTCA
66 AAAATGATT-AAAAAAA--TTAAAATCCGAATTTACCCTAAACAATTCATAATACCATAACTTCA
75129305 T
128 T
* *
75129306 AACTCGATTAACAAACTTGAATGAGCTAAACCCAAAATGACTCGATCAAAAGA-AACTTAAAATT
1 AACTCGATTAACAAACTTGAATGAGCTAAACCCAAATTGACTCGACCAAAA-ATAACTTAAAATT
***
75129370 CAAAATGATTAAAAAAATTTTAAAATAAAAATTTACCCTAAACAATTCATAATACCATAACTTCA
65 CAAAATGATTAAAAAAA--TTAAAATCCGAATTTACCCTAAACAATTCATAATACCATAACTTCA
75129435 T
128 T
75129436 CATTAAGTGT
Statistics
Matches: 476, Mismatches: 34, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
127 71 0.15
128 118 0.25
129 123 0.26
130 52 0.11
131 111 0.23
132 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (128 bp):
AACTCGATTAACAAACTTGAATGAGCTAAACCCAAATTGACTCGACCAAAAATAACTTAAAATTC
AAAATGATTAAAAAAATTAAAATCCGAATTTACCCTAAACAATTCATAATACCATAACTTCAT
Found at i:75130722 original size:126 final size:131
Alignment explanation
Indices: 75130246--75131029 Score: 665
Period size: 140 Copynumber: 5.9 Consensus size: 131
75130236 CATACTATTG
* ** * *
75130246 GACAAAACCAACTCTTATTTAAGTGTTGTCTTAGGCATGCATAT-C-CAACCCTTATACATAGAG
1 GACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCTCAACCCTTATACAAAGAG
* * * *
75130309 TTGGCCAAAGCATACGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAG-TGTT--G
66 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTG-T-CCA-AGTTCTTAGG
75130371 ----
128 ACCA
* * *
75130371 GACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGTATATCC-CAACCCTTATAC-AA-AG
1 GACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCTCAACCCTTATACAAAGAG
* * * * * *
75130433 TTGGCCAAAAGGGTATGTCGACAAGTCTGTCCCAATAATTAGGAAAGTGTCGACCCAAAAGTGTC
66 TTGGCC-AAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT----CC--AAGT-T-
* * *
75130498 GGCATAGTG-TCG
122 --CTTAG-GACCA
* * * * * *
75130510 GATAAAGCCGACTCTTATTTAAGCGTTGCCTTAAGCAAGCATATCCT-AACCATTATACAAAGAG
1 GACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCTCAACCCTTATACAAAGAG
* *
75130574 TTGGCCAAAGCGTACGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGT-C-A-TT-TTAGGACC
66 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCCAAGTTCTTAGGACC
*
75130635 G
131 A
* *
75130636 GACAAAGCCAACTCTTATTTAAGCATTGCCGTAGGCATGCATA-CCTCAACCTTTATACAAAGAG
1 GACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCTCAACCCTTATACAAAGAG
* **
75130700 TTGGCCAAAACGTATGTTGGCAAGTCTATCTGAACACTTAGGAAAGTGTCGCCCTAGAAGTGTTG
66 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT---CC---AA--G-T-
*
75130765 TCTTAGGACTA
121 TCTTAGGACCA
* * * *
75130776 GACAAAGCCAATTCTTATTTAAGCATTGTCTTAGGCATTCATAT-CACAACCCTTATACAAAGAG
1 GACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCTCAACCCTTATACAAAGAG
* *
75130840 TTAGCCAAAGCGTATGTTGGCAAGTTTATCCCAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCT
66 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT----CC--AA--G--T
*
75130905 TCTTAGGACTA
121 TCTTAGGACCA
* * ** * *
75130916 AACAAAGGCAACTCTTATTTAAGTGTTGCCTTAGACATGCATATCC-CAACCCTTATACAAAAAG
1 GACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCTCAACCCTTATACAAAGAG
75130980 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTC
66 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTC
75131030 ACCCCAAAAG
Statistics
Matches: 547, Mismatches: 71, Indels: 71
0.79 0.10 0.10
Matches are distributed among these distances:
124 9 0.02
125 78 0.14
126 115 0.21
127 1 0.00
128 2 0.00
129 1 0.00
130 3 0.01
131 1 0.00
132 1 0.00
133 1 0.00
134 1 0.00
135 1 0.00
136 2 0.00
138 1 0.00
139 53 0.10
140 264 0.48
141 13 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (131 bp):
GACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCTCAACCCTTATACAAAGAG
TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCCAAGTTCTTAGGACC
A
Found at i:75130873 original size:266 final size:264
Alignment explanation
Indices: 75130246--75131043 Score: 897
Period size: 266 Copynumber: 3.0 Consensus size: 264
75130236 CATACTATTG
* * *
75130246 GACAAAACCAACTCTTATTTAAGTGTTGTCTTAGGCATGCATATCCAACCCTTATACATAGAGTT
1 GACAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATATCCAACCCTTATACAAAGAGTT
* ***** *
75130311 GGCCAAAGCATACGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG-TTGGACA
66 GGCCAAAGCGTACGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCATTTTAG-GACTGGACA
* *
75130375 AAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGTATATCCCAACCCTTATAC-AAAGTTGGCC
130 AAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAAGTTGGCC
* * * * * *
75130439 AAAAGGGTATGTCGACAAGTCTGTCCCAATAATTAGGAAAGTGTCGACCCAAAAGTGTCGGCATA
195 AAAA-CGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGTGTCGGCATA
* *
75130504 GTGTCG
259 GTGACA
* * * * * *
75130510 GATAAAGCCGACTCTTATTTAAGCGTTGCCTTAAGCAAGCATATCCTAACCATTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATATCC-AACCCTTATACAAAGAGT
* *
75130575 TGGCCAAAGCGTACGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCATTTTAGGACCGGACA
65 TGGCCAAAGCGTACGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCATTTTAGGACTGGACA
* * *
75130640 AAGCCAACTCTTATTTAAGCATTGCCGTAGGCATGCATA-CCTCAACCTTTATACAAAGAGTTGG
130 AAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCC-CAACCCTTATACAAA-AGTTGG
** * * * *
75130704 CCAAAACGTATGTTGGCAAGTCTATCTGAACACTTAGGAAAGTGTCG-CCCTAGAAGTGTTGTCT
193 CCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCC-AAAAGTGTCGGCA
75130768 TAG-GACTA
257 TAGTGAC-A
* * *
75130776 GACAAAGCCAATTCTTATTTAAGCATTGTCTTAGGCATTCATATCACAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATATC-CAACCCTTATACAAAGAGT
* * *
75130841 TAGCCAAAGCGTATGTTGGCAAGTTTATCCCAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCTT
65 TGGCCAAAGCGTACGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGT-----C---A-----TT
** * * *
75130906 CTTAGGACTAAACAAAGGCAACTCTTATTTAAGTGTTGCCTTAGACATGCATATCCCAACCCTTA
117 -TTAGGACTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTA
*
75130971 TACAAAAAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTC-ACCCC
181 TAC-AAAAGTTGGCCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGA-CCC
75131035 AAAAGTGTC
244 AAAAGTGTC
75131044 ATCTTAGGCT
Statistics
Matches: 444, Mismatches: 64, Indels: 36
0.82 0.12 0.07
Matches are distributed among these distances:
264 42 0.09
265 121 0.27
266 145 0.33
267 13 0.03
271 1 0.00
274 1 0.00
279 2 0.00
280 111 0.25
281 8 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (264 bp):
GACAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATATCCAACCCTTATACAAAGAGTT
GGCCAAAGCGTACGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCATTTTAGGACTGGACAA
AGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAAGTTGGCCA
AAACGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGTGTCGGCATAGT
GACA
Found at i:75131148 original size:123 final size:123
Alignment explanation
Indices: 75130929--75131163 Score: 407
Period size: 123 Copynumber: 1.9 Consensus size: 123
75130919 AAAGGCAACT
*
75130929 CTTATTTAAGTGTTGCCTTAGACATGCATATCCCAACCCTTATACAAAAAGTTGGCCAAAGCGTA
1 CTTATTTAAGCGTTGCCTTAGACATGCATATCCCAACCCTTATACAAAAAGTTGGCCAAAGCGTA
* *
75130994 TGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCACCCCAAAAGTGTCATCTTAGG
66 TGTTAGCAAGTCTATCCCAACACTTAAGAAAGTGTCACCCCAAAAGTGTCATCTTAGG
75131052 CTTATTTAAGCGTTGCCTTAGACATGCATATCCCAACCCTTATACAAAAAGTTGGCCAAAGCGTA
1 CTTATTTAAGCGTTGCCTTAGACATGCATATCCCAACCCTTATACAAAAAGTTGGCCAAAGCGTA
* * **
75131117 TGTTAGTAAGTTTATCCCAACACTTAAGAAAGTGTTGCCCCAAAAGT
66 TGTTAGCAAGTCTATCCCAACACTTAAGAAAGTGTCACCCCAAAAGT
75131164 ATTGTCTTAT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 105 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (123 bp):
CTTATTTAAGCGTTGCCTTAGACATGCATATCCCAACCCTTATACAAAAAGTTGGCCAAAGCGTA
TGTTAGCAAGTCTATCCCAACACTTAAGAAAGTGTCACCCCAAAAGTGTCATCTTAGG
Found at i:75133214 original size:21 final size:21
Alignment explanation
Indices: 75133173--75133214 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
75133163 AACTTTAGTT
* *
75133173 TTATTATTTATTTATAATTAA
1 TTATTATTTAGTCATAATTAA
*
75133194 TTATTATTTAGTCATATTTAA
1 TTATTATTTAGTCATAATTAA
75133215 ATAAAACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTATTTAGTCATAATTAA
Found at i:75133420 original size:23 final size:21
Alignment explanation
Indices: 75133378--75133420 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
75133368 AAATTTTGAT
*
75133378 TAATTATTTTAAATTAAATTA
1 TAATTATTTTAAATCAAATTA
*
75133399 TAATTATATTTAGATCACAATT
1 TAATTAT-TTTAAATCA-AATT
75133421 TAGTAATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
TAATTATTTTAAATCAAATTA
Found at i:75137100 original size:28 final size:29
Alignment explanation
Indices: 75137061--75137119 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
75137051 AGTTTTTAGA
75137061 AAAATTAAATTAAAATTTTATTATTT-TT
1 AAAATTAAATTAAAATTTTATTATTTATT
*
75137089 AAAATTAAATTATAATTTTATTATTTATT
1 AAAATTAAATTAAAATTTTATTATTTATT
75137118 AA
1 AA
75137120 CTTAAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
AAAATTAAATTAAAATTTTATTATTTATT
Found at i:75137118 original size:23 final size:25
Alignment explanation
Indices: 75137063--75137133 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 25
75137053 TTTTTAGAAA
75137063 AATTAAATTAAAATTTTATTATTTTT
1 AATTAAATTAAAATTTTATTA-TTTT
*
75137089 AAAATTAAATTATAATTTTATTA-TTT
1 --AATTAAATTAAAATTTTATTATTTT
*
75137115 -ATTAACTTAAAATTGTTAT
1 AATTAAATTAAAATT-TTAT
75137134 CAACTTTCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 12 0.31
24 4 0.10
26 3 0.08
28 20 0.51
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
AATTAAATTAAAATTTTATTATTTT
Found at i:75140121 original size:4 final size:4
Alignment explanation
Indices: 75140112--75140184 Score: 137
Period size: 4 Copynumber: 18.2 Consensus size: 4
75140102 TGTTCAACAC
*
75140112 ACAT ACAT ACAT ACAC ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
75140160 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
75140185 ATTCACTAGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:75150879 original size:30 final size:30
Alignment explanation
Indices: 75150845--75150915 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
75150835 TGGGTAGAGG
* *
75150845 CACGGGCGTGTGTCTTAGCCGTGTACGACA
1 CACGGGCATGTGTCTCAGCCGTGTACGACA
75150875 CACGGGCATGTGTCTCAGCCGTGTACGACA
1 CACGGGCATGTGTCTCAGCCGTGTACGACA
*
75150905 CACGGTCATGT
1 CACGGGCATGT
75150916 TACACGGTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.23
Consensus pattern (30 bp):
CACGGGCATGTGTCTCAGCCGTGTACGACA
Found at i:75150922 original size:13 final size:13
Alignment explanation
Indices: 75150904--75150928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75150894 CGTGTACGAC
75150904 ACACGGTCATGTT
1 ACACGGTCATGTT
75150917 ACACGGTCATGT
1 ACACGGTCATGT
75150929 GTCCCCTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:75151741 original size:26 final size:26
Alignment explanation
Indices: 75151692--75151761 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
75151682 ACATTCCGAC
* * *
75151692 CCACAACTCGTGTGAGTAGGCCCATT
1 CCACAGCTCGTGTGAGCAGACCCATT
* *
75151718 CCATAGCTCGTATGAGCAGACCCATT
1 CCACAGCTCGTGTGAGCAGACCCATT
* *
75151744 TCACAGCTTGTGTGAGCA
1 CCACAGCTCGTGTGAGCA
75151762 ACAATGTAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (26 bp):
CCACAGCTCGTGTGAGCAGACCCATT
Done.