Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 209 of 313
Found at i:64295031 original size:5 final size:5
Alignment explanation
Indices: 64295021--64295046 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
64295011 TATGAAGTGT
64295021 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
64295047 TAGATTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:64295920 original size:13 final size:13
Alignment explanation
Indices: 64295902--64295944 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
64295892 TAGATTTTAC
64295902 CTAAATATTATTA
1 CTAAATATTATTA
64295915 CTAAATA--ATT-
1 CTAAATATTATTA
*
64295925 CTAAATATTATCA
1 CTAAATATTATTA
64295938 CTAAATA
1 CTAAATA
64295945 ATTCAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 2 0.08
13 14 0.54
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:64295932 original size:23 final size:23
Alignment explanation
Indices: 64295902--64295953 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
64295892 TAGATTTTAC
*
64295902 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
64295925 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
64295948 CAAAAT
1 CTAAAT
64295954 TTAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:64306523 original size:19 final size:20
Alignment explanation
Indices: 64306481--64306523 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
64306471 TCATGCTTTC
*
64306481 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
64306501 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
64306519 TATTC
1 TATTC
64306524 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:64306725 original size:38 final size:40
Alignment explanation
Indices: 64306678--64306785 Score: 107
Period size: 38 Copynumber: 2.8 Consensus size: 40
64306668 CGGATATTTT
* **
64306678 GAAGCAAAGTTGACACCCAGTGTCTCATCGGCCTC-A-CC
1 GAAGTAAAGTTGACACCCAGTGTCTCATCGGAATCTATCC
* * *
64306716 GAAGTAAAG-TGATACCCAGTATCTCAT-TGAATCTATCC
1 GAAGTAAAGTTGACACCCAGTGTCTCATCGGAATCTATCC
*
64306754 GAAGTAAAATAGTGACACCCAGTGTCTCATCG
1 GAAGTAAAGT--TGACACCCAGTGTCTCATCG
64306786 ACTTGAAGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
36 3 0.06
37 17 0.31
38 18 0.33
41 16 0.30
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (40 bp):
GAAGTAAAGTTGACACCCAGTGTCTCATCGGAATCTATCC
Found at i:64307499 original size:29 final size:29
Alignment explanation
Indices: 64307451--64307508 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
64307441 TTAATCAATT
64307451 CTAATCAATAATTCTATCAA-ATAAACCC
1 CTAATCAATAATTCTATCAACATAAACCC
* *
64307479 CTAATTCAATCATT-TATTCAACATGAACCC
1 CTAA-TCAATAATTCTA-TCAACATAAACCC
64307509 TACTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (29 bp):
CTAATCAATAATTCTATCAACATAAACCC
Found at i:64307711 original size:16 final size:17
Alignment explanation
Indices: 64307692--64307735 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
64307682 CTTTTTCTCC
64307692 CTGTTTCGTTTCTA-TT
1 CTGTTTCGTTTCTATTT
64307708 CTGTTTC-TTTCTATTT
1 CTGTTTCGTTTCTATTT
*
64307724 CT-TTTTGTTTCT
1 CTGTTTCGTTTCT
64307736 TTTTATGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.05, C:0.18, G:0.09, T:0.68
Consensus pattern (17 bp):
CTGTTTCGTTTCTATTT
Found at i:64312005 original size:15 final size:16
Alignment explanation
Indices: 64311974--64312006 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
64311964 TTTATTTCTT
*
64311974 TTTAATTTATGAATTA
1 TTTAATTTATCAATTA
64311990 TTTAATTT-TCAATTA
1 TTTAATTTATCAATTA
64312005 TT
1 TT
64312007 AGAACCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTAATTTATCAATTA
Found at i:64313396 original size:29 final size:30
Alignment explanation
Indices: 64313296--64313423 Score: 92
Period size: 29 Copynumber: 4.4 Consensus size: 30
64313286 TATTTAAAAA
* *
64313296 TATTAAAATATTGATATAA-AATATTATTAAT
1 TATT-AAATATT-ATTTAACAATATAATTAAT
* *
64313327 T-TTAAATATTATTAAAC-ATACTATTTAAT
1 TATTAAATATTATTTAACAATA-TAATTAAT
64313356 TATT---TA-TATTTAACAATATAATTAAT
1 TATTAAATATTATTTAACAATATAATTAAT
** * * *
64313382 TATT-AATATTATTTATTATTTTAATAAAT
1 TATTAAATATTATTTAACAATATAATTAAT
64313411 TATTAAATATTAT
1 TATTAAATATTAT
64313424 AATTTTATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
26 18 0.23
27 5 0.06
28 9 0.12
29 33 0.42
30 12 0.15
31 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (30 bp):
TATTAAATATTATTTAACAATATAATTAAT
Found at i:64322318 original size:10 final size:10
Alignment explanation
Indices: 64322303--64322340 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
64322293 ACTTGAATTT
64322303 AATTTTTTAG
1 AATTTTTTAG
64322313 AATTTTTTAG
1 AATTTTTTAG
*
64322323 AA-TTTTTAT
1 AATTTTTTAG
64322332 AATTTTTTA
1 AATTTTTTA
64322341 AAAATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:64322330 original size:19 final size:19
Alignment explanation
Indices: 64322306--64322362 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 19
64322296 TGAATTTAAT
* *
64322306 TTTTTAGAATTTTTTAGAA
1 TTTTTATAATTTTTTAAAA
64322325 TTTTTATAATTTTTTAAAA
1 TTTTTATAATTTTTTAAAA
* *
64322344 ATATTATAATTTTTTAAAA
1 TTTTTATAATTTTTTAAAA
64322363 ATATAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTTATAATTTTTTAAAA
Found at i:64322363 original size:19 final size:19
Alignment explanation
Indices: 64322313--64322366 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
64322303 AATTTTTTAG
* * *
64322313 AATTTTTTAGAATTTTTAT
1 AATTTTTTAAAAATATTAT
64322332 AATTTTTTAAAAATATTAT
1 AATTTTTTAAAAATATTAT
64322351 AATTTTTTAAAAATAT
1 AATTTTTTAAAAATAT
64322367 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTTTTTAAAAATATTAT
Found at i:64322372 original size:18 final size:19
Alignment explanation
Indices: 64322313--64322373 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
64322303 AATTTTTTAG
* * * *
64322313 AATTTTTTAGAATTTTTAT
1 AATTTTTTAAAAATATTAA
*
64322332 AATTTTTTAAAAATATTAT
1 AATTTTTTAAAAATATTAA
64322351 AATTTTTTAAAAATA-TAA
1 AATTTTTTAAAAATATTAA
64322369 AATTT
1 AATTT
64322374 AAAAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 7 0.18
19 31 0.82
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
AATTTTTTAAAAATATTAA
Found at i:64322525 original size:17 final size:19
Alignment explanation
Indices: 64322489--64322526 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
64322479 TAGTTGAATT
64322489 ATTCTGAATTATAATATTTG
1 ATTCTGAATTAT-ATATTTG
64322509 ATTC-GAATTAT-TATTTG
1 ATTCTGAATTATATATTTG
64322526 A
1 A
64322527 GTTGATTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (19 bp):
ATTCTGAATTATATATTTG
Found at i:64323773 original size:60 final size:60
Alignment explanation
Indices: 64323700--64323880 Score: 362
Period size: 60 Copynumber: 3.0 Consensus size: 60
64323690 TTGGATTTTC
64323700 AAACCAAGCTTTTATTTAATTATAAAATTAATTTTGTAATATTTTTATATAATAAAAGGA
1 AAACCAAGCTTTTATTTAATTATAAAATTAATTTTGTAATATTTTTATATAATAAAAGGA
64323760 AAACCAAGCTTTTATTTAATTATAAAATTAATTTTGTAATATTTTTATATAATAAAAGGA
1 AAACCAAGCTTTTATTTAATTATAAAATTAATTTTGTAATATTTTTATATAATAAAAGGA
64323820 AAACCAAGCTTTTATTTAATTATAAAATTAATTTTGTAATATTTTTATATAATAAAAGGA
1 AAACCAAGCTTTTATTTAATTATAAAATTAATTTTGTAATATTTTTATATAATAAAAGGA
64323880 A
1 A
64323881 TTTATCAACT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 121 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (60 bp):
AAACCAAGCTTTTATTTAATTATAAAATTAATTTTGTAATATTTTTATATAATAAAAGGA
Found at i:64323883 original size:30 final size:30
Alignment explanation
Indices: 64323729--64323883 Score: 70
Period size: 30 Copynumber: 5.2 Consensus size: 30
64323719 TTATAAAATT
64323729 AATTTTGTAATATTTTTATATAATAAAAGG
1 AATTTTGTAATATTTTTATATAATAAAAGG
**** * * **
64323759 AA--AACCAAGCTTTTATTTA-ATTATAAAATT
1 AATTTTGTAA--TATT-TTTATATAATAAAAGG
64323789 AATTTTGTAATATTTTTATATAATAAAAGG
1 AATTTTGTAATATTTTTATATAATAAAAGG
**** * * **
64323819 AA--AACCAAGCTTTTATTTA-ATTATAAAATT
1 AATTTTGTAA--TATT-TTTATATAATAAAAGG
64323849 AATTTTGTAATATTTTTATATAATAAAAGG
1 AATTTTGTAATATTTTTATATAATAAAAGG
64323879 AATTT
1 AATTT
64323884 ATCAACTGGA
Statistics
Matches: 81, Mismatches: 32, Indels: 24
0.59 0.23 0.18
Matches are distributed among these distances:
28 4 0.05
29 8 0.10
30 57 0.70
31 8 0.10
32 4 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (30 bp):
AATTTTGTAATATTTTTATATAATAAAAGG
Found at i:64325114 original size:119 final size:119
Alignment explanation
Indices: 64324627--64325096 Score: 913
Period size: 119 Copynumber: 3.9 Consensus size: 119
64324617 CAGCAAGAAA
* *
64324627 ATAAAAAAAAAGTCCTAAGAAGCCTTGAAATCGAGAAAGATTTCACAACTCCCTTCAAACGGCTC
1 ATAAAGAAAAAGTCCTAAGAAGCCTTGAAATTGAGAAAGATTTCACAACTCCCTTCAAACGGCTC
64324692 TAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATGACTCCC
66 TAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATGACTCCC
64324746 ATAAAGAAAAAGTCCTAAGAAGCCTTGAAATTGAGAAAGATTTCACAACTCCCTTCAAACGGCTC
1 ATAAAGAAAAAGTCCTAAGAAGCCTTGAAATTGAGAAAGATTTCACAACTCCCTTCAAACGGCTC
64324811 TAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATGACTCCC
66 TAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATGACTCCC
*
64324865 ATAAAGAAAAAGTCTTAAGAAGCCTTGAAATTGAGAAAGATTTCACAACTCCCTTCAAACGGCTC
1 ATAAAGAAAAAGTCCTAAGAAGCCTTGAAATTGAGAAAGATTTCACAACTCCCTTCAAACGGCTC
64324930 TAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATGACTCCC
66 TAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATGACTCCC
64324984 ATAAAGAAAAAGTCCTAAGAAGCCTTGAAATTGAGAAAGATTTCACAACTCCCTTCAAACGGCTC
1 ATAAAGAAAAAGTCCTAAGAAGCCTTGAAATTGAGAAAGATTTCACAACTCCCTTCAAACGGCTC
64325049 TAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATG
66 TAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATG
64325097 GTTCCCACAA
Statistics
Matches: 347, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 347 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (119 bp):
ATAAAGAAAAAGTCCTAAGAAGCCTTGAAATTGAGAAAGATTTCACAACTCCCTTCAAACGGCTC
TAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATGACTCCC
Found at i:64325156 original size:24 final size:24
Alignment explanation
Indices: 64325132--64325178 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
64325122 AAACTACTTC
64325132 TAAAAAAAACTCAAGAGAGAATTCT
1 TAAAAAAAACTCAA-AGAGAATTCT
** *
64325157 TGGAGAAAACTCAAAGAGAATT
1 TAAAAAAAACTCAAAGAGAATT
64325179 TTTCACTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (24 bp):
TAAAAAAAACTCAAAGAGAATTCT
Found at i:64327965 original size:27 final size:27
Alignment explanation
Indices: 64327935--64328067 Score: 128
Period size: 27 Copynumber: 5.0 Consensus size: 27
64327925 CTTTGTAGTG
***
64327935 CAATATGAAAAGAGTGCCTTTGTGGCA
1 CAATATGAAAAGAACACCTTTGTGGCA
***
64327962 CAATATGAAAAGAACA--TTTGTGATG
1 CAATATGAAAAGAACACCTTTGTGGCA
*
64327987 CAATATTAAAAGAACACCTTTGTGGCA
1 CAATATGAAAAGAACACCTTTGTGGCA
* *
64328014 CAATAT-AAAAGGAACGCCTTTGTGGCG
1 CAATATGAAAA-GAACACCTTTGTGGCA
* * *
64328041 CAATATGAAAGGAACGCCTTTGCGGCA
1 CAATATGAAAAGAACACCTTTGTGGCA
64328068 AACTCCGTAA
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
25 21 0.24
26 4 0.05
27 59 0.68
28 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (27 bp):
CAATATGAAAAGAACACCTTTGTGGCA
Found at i:64328748 original size:20 final size:21
Alignment explanation
Indices: 64328704--64328758 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
64328694 CTTTTATAAA
64328704 TATTTTGAA-TTTT-AAAAGT
1 TATTTTGAATTTTTGAAAAGT
* *
64328723 TTTTTTAAATTTTTGAAAA-T
1 TATTTTGAATTTTTGAAAAGT
64328743 TATTTTGAATTATTTG
1 TATTTTGAATT-TTTG
64328759 GTAATTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.24
20 14 0.48
21 8 0.28
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (21 bp):
TATTTTGAATTTTTGAAAAGT
Found at i:64331529 original size:45 final size:45
Alignment explanation
Indices: 64331480--64331882 Score: 296
Period size: 45 Copynumber: 9.1 Consensus size: 45
64331470 CTAGCCACTA
*
64331480 TCTTATTTATTTCCAACAT-GATGCCATAGTGTTTTTCAACTATGG
1 TCTTATTTATTTCCAATATAG-TGCCATAGTGTTTTTCAACTATGG
* * * *
64331525 TCTTATTTATTTTC-ATCATATTTCCATAATGTTTTTCAACTATGG
1 TCTTATTTATTTCCAAT-ATAGTGCCATAGTGTTTTTCAACTATGG
* ** *
64331570 TCTTATTCAATTT-CGGTATAGTGCCAT-GTTGTCTTTCAACTATGG
1 TCTTATT-TATTTCCAATATAGTGCCATAG-TGTTTTTCAACTATGG
** * * * *
64331615 TCTTATTTGAGTTT--GGTATAGTTCCGTATTGTCTTTCAACTATGG
1 TCTTATTT-A-TTTCCAATATAGTGCCATAGTGTTTTTCAACTATGG
* *** *
64331660 TCTTATTCATTTTTGATATAGTGCCATAGTGTCTTTCAACTATGG
1 TCTTATTTATTTCCAATATAGTGCCATAGTGTTTTTCAACTATGG
* * *
64331705 TCTTATTCATTTCCAGTATAGTGTCATAGT-TTCTTTCAACTATGG
1 TCTTATTTATTTCCAATATAGTGCCATAGTGTT-TTTCAACTATGG
** *
64331750 TCTTATTTATTTCCTGTATAGTGTCATAGTGTCTTTT-AACTATGG
1 TCTTATTTATTTCCAATATAGTGCCATAGTGT-TTTTCAACTATGG
* * * * *
64331795 TCTTATTCATTTTCGATATAGTTCCATAGTG----T---CTTTGG
1 TCTTATTTATTTCCAATATAGTGCCATAGTGTTTTTCAACTATGG
* * * * **
64331833 TCTTATTCATTTTCGATATAGTGCCATGGTGTCCTTCAACTATGG
1 TCTTATTTATTTCCAATATAGTGCCATAGTGTTTTTCAACTATGG
64331878 TCTTA
1 TCTTA
64331883 CTCGTTTGAT
Statistics
Matches: 300, Mismatches: 38, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
38 34 0.11
40 1 0.00
42 1 0.00
43 3 0.01
44 3 0.01
45 245 0.82
46 12 0.04
47 1 0.00
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (45 bp):
TCTTATTTATTTCCAATATAGTGCCATAGTGTTTTTCAACTATGG
Found at i:64331652 original size:90 final size:90
Alignment explanation
Indices: 64331501--64331882 Score: 407
Period size: 90 Copynumber: 4.3 Consensus size: 90
64331491 TCCAACATGA
* * * * *
64331501 TGCCATAGTGTTTTTCAACTATGGTCTTATTTATTTTC-ATCATATTTCCATAATGTTTTTCAAC
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGAT-ATAGTTCCATATTGTCTTTCAAC
*
64331565 TATGGTCTTATTCAATTTCGGTATAG
65 TATGGTCTTATTCAATTTCGATATAG
* * * *
64331591 TGCCAT-GTTGTCTTTCAACTATGGTCTTATTTGAGTTT-GGTATAGTTCCGTATTGTCTTTCAA
1 TGCCATAG-TGTCTTTCAACTATGGTCTTA-TTCATTTTCGATATAGTTCCATATTGTCTTTCAA
* *
64331654 CTATGGTCTTATTCATTTTTGATATAG
64 CTATGGTCTTATTCAATTTCGATATAG
*
64331681 TGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTCCAGTATAGTGT-CATAGTT-TCTTTCA
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGA-TATAGT-TCCATA-TTGTCTTTCA
*
64331743 ACTATGGTCTTATT-TATTTCCTG-TATAG
63 ACTATGGTCTTATTCAATTT-C-GATATAG
* * *
64331771 TGTCATAGTGTCTTTTAACTATGGTCTTATTCATTTTCGATATAGTTCCATAGTGTC--T----T
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGATATAGTTCCATATTGTCTTTCAACT
*
64331830 -TGGTCTTATTCATTTTCGATATAG
66 ATGGTCTTATTCAATTTCGATATAG
* *
64331854 TGCCATGGTGTCCTTCAACTATGGTCTTA
1 TGCCATAGTGTCTTTCAACTATGGTCTTA
64331883 CTCGTTTGAT
Statistics
Matches: 249, Mismatches: 28, Indels: 37
0.79 0.09 0.12
Matches are distributed among these distances:
82 1 0.00
83 41 0.16
84 4 0.02
88 4 0.02
89 9 0.04
90 173 0.69
91 17 0.07
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (90 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGATATAGTTCCATATTGTCTTTCAACT
ATGGTCTTATTCAATTTCGATATAG
Found at i:64331687 original size:135 final size:133
Alignment explanation
Indices: 64331504--64331882 Score: 429
Period size: 135 Copynumber: 2.9 Consensus size: 133
64331494 AACATGATGC
* * * *
64331504 CATAGTGTTTTTCAACTATGGTCTTATTTA-TTTTCATCATATTTCCATAATGTTTTTCAACTAT
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTTGAT-ATAGTTCCATAATG-TTTTCAACTAT
64331568 GGTCTTATTCAATTTCGGTATAGTGCCATGTTGTCTTTCAACTATGGTCTTATTTGAGTTT-GGT
64 GGTCTTATTCAATTTCGGTATAGTGCCATGTTGTCTTTCAACTATGGTCTTATTT-A-TTTCGGT
64331632 ATAGT-T
127 ATAGTGT
* * * *
64331638 CCGTATTGTCTTTCAACTATGGTCTTATTCATTTTTGATATAGTGCCATAGTGTCTTTCAACTAT
1 -CATAGTGTCTTTCAACTATGGTCTTATTCATTTTTGATATAGTTCCATAATGT-TTTCAACTAT
* * *
64331703 GGTCTTATTC-ATTTCCAGTATAGTGTCATAGTT-TCTTTCAACTATGGTCTTATTTATTTCCTG
64 GGTCTTATTCAATTT-CGGTATAGTGCCAT-GTTGTCTTTCAACTATGGTCTTATTTATTT-CGG
64331766 TATAGTGT
126 TATAGTGT
* * * *
64331774 CATAGTGTCTTTTAACTATGGTCTTATTCATTTTCGATATAGTTCCAT-A-G-TGT---CTTTGG
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTTGATATAGTTCCATAATGTTTTCAACTATGG
* * * *
64331833 TCTTATTCATTTTCGATATAGTGCCATGGTGTCCTTCAACTATGGTCTTA
66 TCTTATTCAATTTCGGTATAGTGCCATGTTGTCTTTCAACTATGGTCTTA
64331883 CTCGTTTGAT
Statistics
Matches: 210, Mismatches: 25, Indels: 25
0.81 0.10 0.10
Matches are distributed among these distances:
127 2 0.01
128 42 0.20
129 3 0.01
131 2 0.01
133 4 0.02
134 6 0.03
135 141 0.67
136 10 0.05
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (133 bp):
CATAGTGTCTTTCAACTATGGTCTTATTCATTTTTGATATAGTTCCATAATGTTTTCAACTATGG
TCTTATTCAATTTCGGTATAGTGCCATGTTGTCTTTCAACTATGGTCTTATTTATTTCGGTATAG
TGT
Found at i:64331762 original size:21 final size:21
Alignment explanation
Indices: 64331693--64331762 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
64331683 CCATAGTGTC
*
64331693 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTTA
* * * *
64331714 TTTCCAGTATAGTGTCATAGTTTC
1 TTTCAACTAT-G-GTCTTA-TTTA
64331738 TTTCAACTATGGTCTTATTTA
1 TTTCAACTATGGTCTTATTTA
64331759 TTTC
1 TTTC
64331763 CTGTATAGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
21 15 0.41
22 6 0.16
23 6 0.16
24 10 0.27
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.50
Consensus pattern (21 bp):
TTTCAACTATGGTCTTATTTA
Found at i:64331834 original size:38 final size:38
Alignment explanation
Indices: 64331792--64331865 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
64331782 CTTTTAACTA
*
64331792 TGGTCTTATTCATTTTCGATATAGTTCCATAGTGTCTT
1 TGGTCTTATTCATTTTCGATATAGTGCCATAGTGTCTT
*
64331830 TGGTCTTATTCATTTTCGATATAGTGCCATGGTGTC
1 TGGTCTTATTCATTTTCGATATAGTGCCATAGTGTC
64331866 CTTCAACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (38 bp):
TGGTCTTATTCATTTTCGATATAGTGCCATAGTGTCTT
Found at i:64335557 original size:44 final size:44
Alignment explanation
Indices: 64335494--64335583 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
64335484 TTAAGCACGC
*
64335494 CAAAGTTGGATCAATAGTCTAGAAATATTAAACCAATAACTAAG
1 CAAAGTTGGATCAATAGTCTAGAAATATTAAACCAAGAACTAAG
*
64335538 CAAAGTTGGATCAATAGTCTAGAAATATTAAACCAAGAATTAAG
1 CAAAGTTGGATCAATAGTCTAGAAATATTAAACCAAGAACTAAG
64335582 CA
1 CA
64335584 CACATAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.24
Consensus pattern (44 bp):
CAAAGTTGGATCAATAGTCTAGAAATATTAAACCAAGAACTAAG
Found at i:64338285 original size:24 final size:25
Alignment explanation
Indices: 64338237--64338294 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
64338227 TATTTTCAAC
*
64338237 TATGTTA-AATTTGATTAATTATTT
1 TATGTTATAATTTGAATAATTATTT
*
64338261 T-T-TTATAATTTGAGATAATTTTTT
1 TATGTTATAATTTGA-ATAATTATTT
64338285 TATGTTATAA
1 TATGTTATAA
64338295 ATAGGTCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 3 0.11
23 8 0.29
24 10 0.36
25 1 0.04
26 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (25 bp):
TATGTTATAATTTGAATAATTATTT
Found at i:64339596 original size:15 final size:17
Alignment explanation
Indices: 64339554--64339591 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
64339544 TATGCAAACA
*
64339554 GACCGTGTGTGTCACAC
1 GACCGAGTGTGTCACAC
64339571 GACCGAGTGTGTCACAC
1 GACCGAGTGTGTCACAC
64339588 GACC
1 GACC
64339592 ATGTGACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (17 bp):
GACCGAGTGTGTCACAC
Found at i:64340319 original size:38 final size:38
Alignment explanation
Indices: 64340277--64340377 Score: 166
Period size: 38 Copynumber: 2.7 Consensus size: 38
64340267 ACGAAACCTG
*
64340277 CTAGGCACTAAGCCTGAATAACACCGGAATGAAGCCTA
1 CTAGGCACTAAGCCTGAATAACACCAGAATGAAGCCTA
* * *
64340315 CTAGGCATTAAGCTTGAATAACACCAGCATGAAGCCTA
1 CTAGGCACTAAGCCTGAATAACACCAGAATGAAGCCTA
64340353 CTAGGCACTAAGCCTGAATAACACC
1 CTAGGCACTAAGCCTGAATAACACC
64340378 CAATTTGGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.18
Consensus pattern (38 bp):
CTAGGCACTAAGCCTGAATAACACCAGAATGAAGCCTA
Found at i:64341448 original size:139 final size:139
Alignment explanation
Indices: 64341279--64341550 Score: 508
Period size: 139 Copynumber: 2.0 Consensus size: 139
64341269 TGCAATAGTC
*
64341279 ATTGAACAATTATAAATTAAGTCCAATAATTTACCTATTAAGAGCTAATTGATCCATTTAAATAA
1 ATTGAACAATTATAAATTAAGTCCAATAATTTACCTATTAAAAGCTAATTGATCCATTTAAATAA
*
64341344 AAAGAAGCCAACTTTTGTTACTTTTTTCAAATTAATCCTTTTTACTTAATTACTATCTAAACAAT
66 AAAGAAGCCAACTTTTGTTACTTTTTTCAAATTAATCATTTTTACTTAATTACTATCTAAACAAT
64341409 TAATTTATA
131 TAATTTATA
*
64341418 ATTGAACAATTATAAATTAAGTCCAGTAATTTACCTATTAAAAGCTAATTGATCCATTTAAATAA
1 ATTGAACAATTATAAATTAAGTCCAATAATTTACCTATTAAAAGCTAATTGATCCATTTAAATAA
*
64341483 AAAGAAGCCAACTTTTGTTCCTTTTTTCAAATTAATCATTTTTACTTAATTACTATCTAAACAAT
66 AAAGAAGCCAACTTTTGTTACTTTTTTCAAATTAATCATTTTTACTTAATTACTATCTAAACAAT
64341548 TAA
131 TAA
64341551 ATTTCCTAAC
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
139 129 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (139 bp):
ATTGAACAATTATAAATTAAGTCCAATAATTTACCTATTAAAAGCTAATTGATCCATTTAAATAA
AAAGAAGCCAACTTTTGTTACTTTTTTCAAATTAATCATTTTTACTTAATTACTATCTAAACAAT
TAATTTATA
Found at i:64342791 original size:21 final size:21
Alignment explanation
Indices: 64342754--64342797 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
64342744 CTTTTCAAAT
*
64342754 AACCTAAAACCATAAACCTTA
1 AACCTAAAACCATAAACCCTA
*
64342775 AACCTAAATCCCA-AAACCCTA
1 AACCTAAA-ACCATAAACCCTA
64342796 AA
1 AA
64342798 TTTTAAGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (21 bp):
AACCTAAAACCATAAACCCTA
Found at i:64343243 original size:17 final size:19
Alignment explanation
Indices: 64343223--64343268 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
64343213 AATAAAAGTA
64343223 TATAAAAAT-TA-TGAAAT
1 TATAAAAATATAGTGAAAT
64343240 TATAAAAGATATAGTGAAAT
1 TATAAAA-ATATAGTGAAAT
64343260 T-TAAAAATA
1 TATAAAAATA
64343269 GTTTTGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 7 0.27
20 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (19 bp):
TATAAAAATATAGTGAAAT
Found at i:64348673 original size:18 final size:18
Alignment explanation
Indices: 64348638--64348701 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 18
64348628 GCAATAAGTG
*
64348638 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
64348656 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
*
64348674 AC--TTT----ATGAATT
1 ACGTTTTGAAAATGAATA
64348686 ACGTTTTGAAAATGAA
1 ACGTTTTGAAAATGAA
64348702 CGACACGTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
11 1 0.03
12 6 0.17
14 3 0.08
16 3 0.08
18 22 0.61
19 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:64355010 original size:13 final size:13
Alignment explanation
Indices: 64354952--64355017 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
64354942 TTTAAACCAA
64354952 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
64354965 AGTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
64354978 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
*
64354991 ACATTTCAAAAGC
1 ACTTTTCAAAAGC
64355004 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
64355017 A
1 A
64355018 ATGAAGAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 4 0.09
13 35 0.81
14 4 0.09
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:64355266 original size:27 final size:26
Alignment explanation
Indices: 64355231--64355284 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
64355221 CTTTTTTTGC
*
64355231 TTTTGTTGTTTAATGTTTATTGGTTTT
1 TTTTGTTGTTTAATATTTATT-GTTTT
*
64355258 TTTTGTTGTTTAATATTTGTTGTTTT
1 TTTTGTTGTTTAATATTTATTGTTTT
64355284 T
1 T
64355285 CGTGAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.11, C:0.00, G:0.17, T:0.72
Consensus pattern (26 bp):
TTTTGTTGTTTAATATTTATTGTTTT
Found at i:64367415 original size:32 final size:32
Alignment explanation
Indices: 64367369--64367430 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
64367359 CTTGGCTACT
64367369 CACTTCAAACACATCTCAAACCCATTCATTCC
1 CACTTCAAACACATCTCAAACCCATTCATTCC
*
64367401 CACTTCAAATACATCTCAAACCCATTCATT
1 CACTTCAAACACATCTCAAACCCATTCATT
64367431 TCTTCACTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.27
Consensus pattern (32 bp):
CACTTCAAACACATCTCAAACCCATTCATTCC
Found at i:64376754 original size:17 final size:17
Alignment explanation
Indices: 64376732--64376777 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
64376722 GCACATGGGC
* *
64376732 TGTCACATGGTCGTGTG
1 TGTCACATGGCCGTGTA
64376749 TGTCACATGGCCGTGTA
1 TGTCACATGGCCGTGTA
64376766 TGTCACATGGCC
1 TGTCACATGGCC
64376778 TGGCCACACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.15, C:0.24, G:0.30, T:0.30
Consensus pattern (17 bp):
TGTCACATGGCCGTGTA
Found at i:64379651 original size:78 final size:78
Alignment explanation
Indices: 64379520--64379675 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
64379510 AAATGGGACC
* *
64379520 ATTCAGGAATTTGTTAGCAAGGCCTTAGATGCGTACACGAAAGAAAGAAAAAATCAAGATTCACT
1 ATTCAGGAATTTGTTAGAAAGGCCTTAGATGCGTACACGAAAGAAAGAAAAAATCAAGATTAACT
64379585 TTCTTGTTTTCAA
66 TTCTTGTTTTCAA
* *
64379598 ATTCAGGAATTTGTTAGAAATGCCTTAGATGCGTACACGAAAGAAAGAGAAAATCAAGATTAACT
1 ATTCAGGAATTTGTTAGAAAGGCCTTAGATGCGTACACGAAAGAAAGAAAAAATCAAGATTAACT
64379663 TTCTTGTTTTCAA
66 TTCTTGTTTTCAA
64379676 GAAAATCAAG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (78 bp):
ATTCAGGAATTTGTTAGAAAGGCCTTAGATGCGTACACGAAAGAAAGAAAAAATCAAGATTAACT
TTCTTGTTTTCAA
Found at i:64380239 original size:154 final size:153
Alignment explanation
Indices: 64379959--64380263 Score: 592
Period size: 154 Copynumber: 2.0 Consensus size: 153
64379949 AGTTGGCCTG
*
64379959 ATTTGTAAAAGATTTTAATTGTTTAAATATCTAGTTTAATTTTTAGACTTTAGGATTATTATATG
1 ATTTGTAAAAGATTTTAATTGTTTAAATATCTAGTTTAATTTTTAGACTTTAAGATTATTATATG
64380024 TCAAAATTCGGCCCAAGCAGCCCATTAAAATGCCTTGGCCGAATTTCCCTCTTAATTTATTAATT
66 TCAAAATTCGGCCCAAGCAGCCCATTAAAATGCCTTGGCCGAATTTCCCTCTTAATTTATTAATT
64380089 AGGTTTTTTTTTAAGTTTTCCTCA
131 A-GTTTTTTTTTAAGTTTTCCTCA
64380113 ATTTGTAAAAGATTTTAATTGTTTAAATATCTAGTTTAATTTTTAGACTTTAAGATTATTATATG
1 ATTTGTAAAAGATTTTAATTGTTTAAATATCTAGTTTAATTTTTAGACTTTAAGATTATTATATG
64380178 TCAAAATTCGGCCCAAGCAGCCCATTAAAATGCCTTGGCCGAATTTCCCTCTTAATTTATTAATT
66 TCAAAATTCGGCCCAAGCAGCCCATTAAAATGCCTTGGCCGAATTTCCCTCTTAATTTATTAATT
64380243 AGTTTTTTTTTAAGTTTTCCT
131 AGTTTTTTTTTAAGTTTTCCT
64380264 AATGAGATTA
Statistics
Matches: 150, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
153 20 0.13
154 130 0.87
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (153 bp):
ATTTGTAAAAGATTTTAATTGTTTAAATATCTAGTTTAATTTTTAGACTTTAAGATTATTATATG
TCAAAATTCGGCCCAAGCAGCCCATTAAAATGCCTTGGCCGAATTTCCCTCTTAATTTATTAATT
AGTTTTTTTTTAAGTTTTCCTCA
Found at i:64382723 original size:21 final size:22
Alignment explanation
Indices: 64382678--64382723 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
64382668 CGAGAAAAAT
*
64382678 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
64382700 AAAA-TGAAAAAGGCGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
64382721 AAA
1 AAA
64382724 GCGAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:64394978 original size:14 final size:14
Alignment explanation
Indices: 64394959--64394988 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
64394949 TGAGTTTGGG
64394959 ATGCAAGGGGCGGC
1 ATGCAAGGGGCGGC
64394973 ATGCAAGGGGCGGC
1 ATGCAAGGGGCGGC
64394987 AT
1 AT
64394989 AAGAATGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.47, T:0.10
Consensus pattern (14 bp):
ATGCAAGGGGCGGC
Found at i:64401149 original size:38 final size:38
Alignment explanation
Indices: 64401107--64401181 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
64401097 GGGTTCCGTT
64401107 AGTGAAGGTGTTATGGCTCAAACACAGGATCGAGGAAA
1 AGTGAAGGTGTTATGGCTCAAACACAGGATCGAGGAAA
*
64401145 AGTGAAGGTGTTATGGCTCAAACACGGGATCGAGGAA
1 AGTGAAGGTGTTATGGCTCAAACACAGGATCGAGGAA
64401182 GCTACTTGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (38 bp):
AGTGAAGGTGTTATGGCTCAAACACAGGATCGAGGAAA
Found at i:64404336 original size:27 final size:26
Alignment explanation
Indices: 64404305--64404482 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
64404295 TAAATTGTAC
64404305 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
64404332 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
64404358 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
64404386 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
*
64404414 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
64404441 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
64404468 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64404483 GACTCGATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 24 0.19
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:64404422 original size:82 final size:81
Alignment explanation
Indices: 64404306--64404461 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
64404296 AAATTGTACA
* * *
64404306 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
64404370 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
64404387 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
64404452 TGCGAGTTGA
65 TGCGAATTGA
64404462 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:64404473 original size:82 final size:81
Alignment explanation
Indices: 64404302--64404482 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
64404292 GATTAAATTG
* * *
64404302 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
64404367 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
64404383 TGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
64404447 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
64404465 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
64404483 GACTCGATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:64406190 original size:40 final size:40
Alignment explanation
Indices: 64406106--64406330 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
64406096 TTGAATGATG
* * *
64406106 TCCGGGCTAAGTCCCGAAGGC-TTTGTG-GTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTAAA
* * *
64406146 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64406186 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64406225 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64406265 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64406306 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64406331 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 9 0.05
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64406348 original size:80 final size:80
Alignment explanation
Indices: 64406106--64406363 Score: 235
Period size: 80 Copynumber: 3.2 Consensus size: 80
64406096 TTGAATGATG
* * * * * *
64406106 TCCGGGCTAAGTCCCGAAGGC-TTTGTG-GTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCG--AGTTACTAAATCCGGGCTAAG-TCCCGAAGGCA
** *
64406168 TTTGTGCGAGAT-ACTAAT
63 TTTGAACGAG-TGACTAAA
* *
64406186 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
64406250 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
64406265 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
64406329 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
64406345 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64406364 TACGTGATTT
Statistics
Matches: 154, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.01
79 74 0.48
80 75 0.49
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:64411906 original size:10 final size:10
Alignment explanation
Indices: 64411888--64411918 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
64411878 CAATGAGTTA
*
64411888 GAATCGAGCT
1 GAATTGAGCT
64411898 GAATTGAGCT
1 GAATTGAGCT
64411908 GAATTGAGCT
1 GAATTGAGCT
64411918 G
1 G
64411919 GAATAGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (10 bp):
GAATTGAGCT
Found at i:64416094 original size:39 final size:39
Alignment explanation
Indices: 64416051--64416128 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
64416041 TTTCTTTCCC
64416051 TAATAAGATGATGGACAGATTTGATGGGAAAGAATATGA
1 TAATAAGATGATGGACAGATTTGATGGGAAAGAATATGA
* *
64416090 TAATAAGATGTTGGATAGATTTGATGGGAAAGAATATGA
1 TAATAAGATGATGGACAGATTTGATGGGAAAGAATATGA
64416129 CTACTTCCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.01, G:0.28, T:0.28
Consensus pattern (39 bp):
TAATAAGATGATGGACAGATTTGATGGGAAAGAATATGA
Found at i:64428134 original size:47 final size:47
Alignment explanation
Indices: 64428083--64428182 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 47
64428073 GATTTTATGA
*
64428083 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGT
*
64428130 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGT
64428177 GATGAA
1 GATGAA
64428183 CGTGGAAGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGT
Found at i:64428215 original size:47 final size:47
Alignment explanation
Indices: 64428083--64428222 Score: 158
Period size: 47 Copynumber: 3.0 Consensus size: 47
64428073 GATTTTATGA
* *
64428083 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGT
* * **
64428130 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGT
* * * *
64428177 GATGAACGTGGAA-GTGTATATATGTGGCGAA-GCCGAATGGCTAATG
1 GATGAACGT-GAACATGCATATATGT-GAGAAGGCCGAATGGCCAATG
64428223 CGAAATGTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 75 0.93
48 6 0.07
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGT
Found at i:64428260 original size:46 final size:46
Alignment explanation
Indices: 64428210--64428378 Score: 266
Period size: 46 Copynumber: 3.7 Consensus size: 46
64428200 GTGGCGAAGC
* *
64428210 CGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGT
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
*
64428256 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
64428302 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
* * * **
64428348 CGAGTGGCTAATGTGAGATATGTATGAGATG
1 CGAATGGCTAATGCGAAACGTGTATGAGATG
64428379 TGTTATATAT
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.34, C:0.08, G:0.33, T:0.24
Consensus pattern (46 bp):
CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
Found at i:64437873 original size:16 final size:16
Alignment explanation
Indices: 64437852--64437888 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
64437842 AGGCAAATCT
64437852 TGAAATGCCGAAAAGC
1 TGAAATGCCGAAAAGC
*
64437868 TGAAATGCTGAAAAGC
1 TGAAATGCCGAAAAGC
*
64437884 CGAAA
1 TGAAA
64437889 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (16 bp):
TGAAATGCCGAAAAGC
Found at i:64439141 original size:29 final size:29
Alignment explanation
Indices: 64439065--64439183 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
64439055 TACATACATG
*
64439065 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* * **
64439093 CAAATGGCCCATCTA-ACCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAAATCATATT
* * *
64439122 CTTATGGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* *
64439151 AATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAAATCATATT
64439180 -ATAT
1 CATAT
64439184 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 20 0.27
29 53 0.73
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATCATATT
Found at i:64443674 original size:29 final size:28
Alignment explanation
Indices: 64443578--64443676 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 28
64443568 ACCCCTACAT
*
64443578 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
** * * *
64443606 TTATTCAAATGGCCCATCT-GGCCTAGTC
1 ACATTCATATGGCCCA-CTAGGCCCAATC
*
64443634 -CATTTTCTTATGGCCCACTAGGCCCAAATC
1 ACA--TTCATATGGCCCACTAGGCCC-AATC
64443664 ACATTCATATGGC
1 ACATTCATATGGC
64443677 TTATTATGTA
Statistics
Matches: 53, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
27 1 0.02
28 21 0.40
29 26 0.49
30 3 0.06
31 2 0.04
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCCAATC
Found at i:64445112 original size:19 final size:18
Alignment explanation
Indices: 64445073--64445115 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
64445063 ATTTATTATG
*
64445073 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
64445091 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
64445110 TTTTTG
1 TTTTTG
64445116 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:64450998 original size:27 final size:27
Alignment explanation
Indices: 64450979--64451135 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
64450969 ATTGCCAAAG
* *
64450979 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCATTT
*
64451006 TACCCTTAATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCATTT
* * *
64451033 TACCCTCGATTTATAGAATTGCCATTT
1 TACCCTCAATTTACAGAATTACCATTT
64451060 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCATTT
* *
64451087 TACCCTTAATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCATTT
** *
64451114 TACCCTTGATTTACAAAATTAC
1 TACCCTCAATTTACAGAATTAC
64451136 TAAAATACCC
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCATTT
Found at i:64451017 original size:54 final size:54
Alignment explanation
Indices: 64450966--64451269 Score: 209
Period size: 54 Copynumber: 5.6 Consensus size: 54
64450956 CTCAATTTGT
* *
64450966 AAAATTGCCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* *** * * * *
64451020 AGAATTACCATTTTACCCTCGATTTATAGAATTGCCATTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* *** ** *
64451074 AGAATTACCATTTTACCCTTAATTTACAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* * * * **** * * **
64451128 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* ** *** * **
64451182 AAAATTACCAAAATACCACT-GGTTTGTA-AATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* *
64451235 AAAATTACCAAAATACCC-CTGATTTATAAAATTAC
1 AAAATTACCAAAATACCCTC-GATTTACAGAATTAC
64451270 AGAAATACCC
Statistics
Matches: 204, Mismatches: 42, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
52 1 0.00
53 44 0.22
54 157 0.77
55 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
Found at i:64451144 original size:27 final size:27
Alignment explanation
Indices: 64450966--64451337 Score: 171
Period size: 27 Copynumber: 13.7 Consensus size: 27
64450956 CTCAATTTGT
* * *
64450966 AAAATTGCCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **** *
64450993 AGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *** * *
64451020 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTTGATTTAC
* * *** **
64451047 AGAATTGCCATTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *** *
64451074 AGAATTACCATTTTACCCTTAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* ****
64451101 AGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *
64451128 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **
64451155 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTAC
* *
64451182 AAAATTACCAAAATACCAC-TGGTTT-G
1 AAAATTACCAAAATACC-CTTGATTTAC
* * ** **
64451208 TAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGATTTAC
* *
64451235 AAAATTACCAAAATACCCCTGATTTAT
1 AAAATTACCAAAATACCCTTGATTTAC
64451262 AAAATTA-CAGAAATACCCTTGACTTT-C
1 AAAATTACCA-AAATACCCTTGA-TTTAC
* * *
64451289 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACCA-AAATACCCTTGATTTAC
**
64451318 AAAATTACTGAAATACCCTT
1 AAAATTACCAAAATACCCTT
64451338 AGTTTGTAGA
Statistics
Matches: 282, Mismatches: 52, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.00
26 20 0.07
27 233 0.83
28 8 0.03
29 20 0.07
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTAC
Found at i:64451145 original size:81 final size:81
Alignment explanation
Indices: 64450966--64451164 Score: 254
Period size: 81 Copynumber: 2.5 Consensus size: 81
64450956 CTCAATTTGT
* * *
64450966 AAAATTGCCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAGAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTACCAT
*
64451031 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* * *** * *
64451047 AGAATTGCCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTACCAT
*
64451112 TTTACCCTTGATTTAC
66 TTTACCCTCGATTTAC
* * * *
64451128 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCA
64451165 AAATACCCCT
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:64451172 original size:81 final size:81
Alignment explanation
Indices: 64450966--64451252 Score: 209
Period size: 81 Copynumber: 3.6 Consensus size: 81
64450956 CTCAATTTGT
* * * * ****
64450966 AAAATTGCCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAGAATTACCAT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTAATTTACAGAATTACCAT
*
64451031 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* * *** * *** *
64451047 AGAATTGCCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTAATTTACAGAATTACCAT
*
64451112 TTTACCCTTGATTTAC
66 TTTACCCTCGATTTAC
* *** * * ** * *
64451128 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTAATTTACAGAATTACCAT
** * *
64451193 AATACCACT-GGTTT-G
66 TTTACC-CTCGATTTAC
* * **
64451208 TAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCC
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCC
64451253 CTGATTTATA
Statistics
Matches: 164, Mismatches: 41, Indels: 3
0.79 0.20 0.01
Matches are distributed among these distances:
80 37 0.23
81 125 0.76
82 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTAATTTACAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:64451475 original size:25 final size:27
Alignment explanation
Indices: 64451373--64451475 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
64451363 TTGTACGATG
** *
64451373 AAATGACTAAAATACCCCT-AATAGGTA
1 AAATGACTGTAATACCCCTGTAT-GGTA
* * *
64451400 AAAAGACCGTAA-AGCCCCTGTAGGGTA
1 AAATGACTGTAATA-CCCCTGTATGGTA
*
64451427 AAGTGACTGTAATACCCCTGTATGGTA
1 AAATGACTGTAATACCCCTGTATGGTA
64451454 AAATGA-TG-AATACGCCCT-TATG
1 AAATGACTGTAATAC-CCCTGTATG
64451476 TTCCGTATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
25 9 0.15
26 7 0.11
27 43 0.70
28 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
AAATGACTGTAATACCCCTGTATGGTA
Found at i:64451802 original size:21 final size:22
Alignment explanation
Indices: 64451768--64451811 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
64451758 TTTCGTGCAC
64451768 GATGGTAAGTTGGGCCTCAATGG
1 GATGGTAAGTTGGGCCT-AATGG
64451791 GATGG-AA-TTGGGCCTAATGG
1 GATGGTAAGTTGGGCCTAATGG
64451811 G
1 G
64451812 CTTTCGGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 2 0.10
23 5 0.24
ACGTcount: A:0.23, C:0.11, G:0.41, T:0.25
Consensus pattern (22 bp):
GATGGTAAGTTGGGCCTAATGG
Found at i:64451832 original size:17 final size:17
Alignment explanation
Indices: 64451810--64451845 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
64451800 GGGCCTAATG
64451810 GGCTTTCGGACCCATTT
1 GGCTTTCGGACCCATTT
64451827 GGCTTTCGGACCCATTT
1 GGCTTTCGGACCCATTT
64451844 GG
1 GG
64451846 GTAAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.28, G:0.28, T:0.33
Consensus pattern (17 bp):
GGCTTTCGGACCCATTT
Found at i:64452197 original size:18 final size:20
Alignment explanation
Indices: 64452174--64452270 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
64452164 TGATACGTGG
64452174 GATATGATA-G-ACATGATT
1 GATATGATATGCACATGATT
64452192 GATATGATATGCACATGATAT
1 GATATGATATGCACATGAT-T
* *
64452213 G-TATAAAATGCACATGATAT
1 GATATGATATGCACATGAT-T
*
64452233 G-TATGAAATGCACATGATAT
1 GATATGATATGCACATGAT-T
*
64452253 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
64452271 GTATTCATAA
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
18 9 0.12
19 1 0.01
20 61 0.84
21 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (20 bp):
GATATGATATGCACATGATT
Found at i:64452209 original size:20 final size:20
Alignment explanation
Indices: 64452184--64452270 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
64452174 GATATGATAG
*
64452184 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
64452204 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
64452224 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
64452244 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
64452264 ACATGAT
1 ACATGAT
64452271 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:64452349 original size:26 final size:26
Alignment explanation
Indices: 64452320--64452455 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
64452310 GAGGAAGTGC
*
64452320 AAAAGGGCTTATGCCCCAGTCTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
64452346 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
64452372 AAAATGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
64452398 AAAAGGGATT-TGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
64452423 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
64452446 AAAAGAGGCT
1 AAAAG-GGCT
64452456 AGGCCTTCAG
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 28 0.30
26 54 0.57
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:64452403 original size:52 final size:51
Alignment explanation
Indices: 64452320--64452455 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 51
64452310 GAGGAAGTGC
* *
64452320 AAAAGGGCTTATGCCCCAGTCTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAATTTACCG
* *
64452372 AAAATGGCTTATGCCCCAGTTTATTGAAAAGGGATTTGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
64452423 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
64452456 AGGCCTTCAG
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
48 5 0.06
49 8 0.10
50 8 0.10
51 23 0.30
52 33 0.43
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
Found at i:64452647 original size:42 final size:42
Alignment explanation
Indices: 64452588--64452679 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
64452578 TAGTCTCCCC
* ** *
64452588 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
64452630 AAATGGGCTTTCATACATCCATTGACATTACATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
64452672 AAATGGGC
1 AAATGGGC
64452680 CTGTGGCCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:64452730 original size:32 final size:31
Alignment explanation
Indices: 64452694--64452773 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
64452684 GGCCCATACC
64452694 ATTTACAATAAAGGCTTCAGCCCAGTGATATG
1 ATTTACAA-AAAGGCTTCAGCCCAGTGATATG
** * * *
64452726 ATTTATGAAAAGGCTTCGGCCTAGTGGTATG
1 ATTTACAAAAAGGCTTCAGCCCAGTGATATG
**
64452757 ATTTATGAAAAGGCTTC
1 ATTTACAAAAAGGCTTC
64452774 GGCCTAGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 37 0.86
32 6 0.14
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (31 bp):
ATTTACAAAAAGGCTTCAGCCCAGTGATATG
Found at i:64452774 original size:31 final size:31
Alignment explanation
Indices: 64452703--64452781 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
64452693 CATTTACAAT
* *
64452703 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
*
64452734 AAAGGCTTCGGCCTAGTGGTATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
64452765 AAAGGCTTCGGCCTAGT
1 AAAGGCTTCGGCCTAGT
64452782 AACCATTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCTAGTGATATGATTTATGA
Found at i:64453593 original size:28 final size:28
Alignment explanation
Indices: 64453561--64453619 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
64453551 CATCTTGACA
64453561 ACCTAATGTCATGACATTCGTATCCGAT
1 ACCTAATGTCATGACATTCGTATCCGAT
64453589 ACCTAATGTCATGACATTCGTATCCGAT
1 ACCTAATGTCATGACATTCGTATCCGAT
64453617 ACC
1 ACC
64453620 ATTCCTATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (28 bp):
ACCTAATGTCATGACATTCGTATCCGAT
Found at i:64464967 original size:28 final size:28
Alignment explanation
Indices: 64464934--64465032 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
64464924 ATGAATATAT
64464934 GCACTATGTGTGCGAAATTATTAACCAA
1 GCACTATGTGTGCGAAATTATTAACCAA
* * ** *
64464962 GCACTATGTGTGCTAGATCGGGTGT-A--AG
1 GCACTATGTGTGCGAAAT--TAT-TAACCAA
*
64464990 GCACTATGTGTGCGAAATTATTAACCGA
1 GCACTATGTGTGCGAAATTATTAACCAA
*
64465018 GCATTATGTGTGCGA
1 GCACTATGTGTGCGA
64465033 GATCGGGTGT
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
28 47 0.89
30 2 0.04
31 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAAATTATTAACCAA
Found at i:64464998 original size:56 final size:56
Alignment explanation
Indices: 64464934--64465069 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
64464924 ATGAATATAT
*
64464934 GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCTAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCGAGATCGGGTGTAAG
* *
64464990 GCACTATGTGTGCGAAATTATTAACCGAGCATTATGTGTGCGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCGAGATCGGGTGTAAG
*
64465046 GCACTGTGTGTGTGCGAAATTATT
1 GCAC--TATGTGTGCGAAATTATT
64465070 TAAGGAATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
56 57 0.77
58 17 0.23
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (56 bp):
GCACTATGTGTGCGAAATTATTAACCAAGCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:64465055 original size:28 final size:28
Alignment explanation
Indices: 64464962--64465057 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 28
64464952 TATTAACCAA
*
64464962 GCACTATGTGTGCTAGATCGGGTGTAAG
1 GCACTATGTGTGCGAGATCGGGTGTAAG
* **
64464990 GCACTATGTGTGCGAAAT--TAT-TAACCG
1 GCACTATGTGTGCGAGATCGGGTGTAA--G
*
64465017 AGCATTATGTGTGCGAGATCGGGTGTAAG
1 -GCACTATGTGTGCGAGATCGGGTGTAAG
*
64465046 GCACTGTGTGTG
1 GCACTATGTGTG
64465058 TGCGAAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 42 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:64468431 original size:22 final size:22
Alignment explanation
Indices: 64468406--64468447 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
64468396 TAAGATATAC
64468406 ATTGAATTTTATTGCCTCGATA
1 ATTGAATTTTATTGCCTCGATA
64468428 ATTGAATTTTATTGCCTCGA
1 ATTGAATTTTATTGCCTCGA
64468448 CAATCACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTGAATTTTATTGCCTCGATA
Found at i:64468783 original size:14 final size:14
Alignment explanation
Indices: 64468764--64468798 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
64468754 TGGGAATGGC
64468764 ATTTTTTTATGTTT
1 ATTTTTTTATGTTT
*
64468778 ATTTTTTTTTGTTT
1 ATTTTTTTATGTTT
64468792 -TTTTTTT
1 ATTTTTTT
64468799 CACTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.86
Consensus pattern (14 bp):
ATTTTTTTATGTTT
Found at i:64476345 original size:36 final size:36
Alignment explanation
Indices: 64476252--64476328 Score: 120
Period size: 36 Copynumber: 2.1 Consensus size: 36
64476242 ATTGTTGCTA
* *
64476252 AAGAAGAAGAAGTCGT-TGAAAATGAGAAAGAAAAAG
1 AAGAAGAAGAAGT-TTCTAAAAATGAGAAAGAAAAAG
64476288 AAGAAGAAGAAGTTTCTAAAAATGAGAAAGAAAAAG
1 AAGAAGAAGAAGTTTCTAAAAATGAGAAAGAAAAAG
64476324 AAGAA
1 AAGAA
64476329 TAAAATTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.61, C:0.03, G:0.25, T:0.12
Consensus pattern (36 bp):
AAGAAGAAGAAGTTTCTAAAAATGAGAAAGAAAAAG
Found at i:64477920 original size:66 final size:66
Alignment explanation
Indices: 64477798--64477921 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 66
64477788 TTATTGCATT
* * * *
64477798 AATGTCGTTGCATGACTTAATCCCAGATTGAGTCCAGAATTGTCGCTGCACCTAACAGCTGCCCG
1 AATGTCGCTGCATAACTTAATCCCAGATTGAGTCCAAAATTGTCGCCGCACCTAACAGCTGCCCG
64477863 C
66 C
* * * * *
64477864 AATGTCGCTGCATAAGTTAATTCCAGATTGCA-TCCAAAATTGTTGCCGTACTTAACAG
1 AATGTCGCTGCATAACTTAATCCCAGATTG-AGTCCAAAATTGTCGCCGCACCTAACAG
64477922 TTGTCTGGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
66 47 0.98
67 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (66 bp):
AATGTCGCTGCATAACTTAATCCCAGATTGAGTCCAAAATTGTCGCCGCACCTAACAGCTGCCCG
C
Found at i:64501885 original size:5 final size:5
Alignment explanation
Indices: 64501875--64501901 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
64501865 TAAGTTCCCT
64501875 TTTTG TTTTG TTTTG TTTTG TTTTG TT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TT
64501902 CATGCCTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:64508746 original size:68 final size:68
Alignment explanation
Indices: 64508637--64508773 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 68
64508627 GAACAAATTT
64508637 TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACGC-AGGCATAGT
1 TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACGCGA-GCATAGT
64508701 TGAG
65 TGAG
*
64508705 TAACGTTAGTGCCTAAATTAAAAAAATTTAAAGTAGGTGACCAAAACATGAACGCGAGCATAGTT
1 TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACGCGAGCATAGTT
64508770 GAG
66 GAG
64508773 T
1 T
64508774 GACCATTTGT
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
68 66 0.99
69 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.23
Consensus pattern (68 bp):
TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACGCGAGCATAGTT
GAG
Found at i:64510577 original size:16 final size:17
Alignment explanation
Indices: 64510545--64510577 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64510535 TCTCTTAGGG
*
64510545 TTAGGGTTTTTATTTTA
1 TTAGGGTTTTTAGTTTA
64510562 TTAGGGTTTTT-GTTTA
1 TTAGGGTTTTTAGTTTA
64510578 GGGTTTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (17 bp):
TTAGGGTTTTTAGTTTA
Found at i:64513070 original size:39 final size:39
Alignment explanation
Indices: 64513027--64513105 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
64513017 ATCAATGGCT
* *
64513027 ACAATTAAAAGCTGCATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGATGCATACAATTAGAACTATAAGATTAC
* *
64513066 ACAATTAGAAGATGTATACAATTAGAACTATAAGATTAC
1 ACAATTAAAAGATGCATACAATTAGAACTATAAGATTAC
64513105 A
1 A
64513106 TAATCATATC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (39 bp):
ACAATTAAAAGATGCATACAATTAGAACTATAAGATTAC
Found at i:64516389 original size:39 final size:39
Alignment explanation
Indices: 64516346--64516424 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
64516336 ATCAATGGCT
* * *
64516346 ACAATTAAAAGCTGTATATAATTAGTACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAAATCTAAGATTAC
*
64516385 ACAATTAGAAGCTGTATACAATTAGAAATCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAAATCTAAGATTAC
64516424 A
1 A
64516425 TAATCATATC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAAATCTAAGATTAC
Found at i:64524070 original size:18 final size:20
Alignment explanation
Indices: 64524033--64524071 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
64524023 CTATTTACAC
64524033 AAAAAAATTATAATTATAAT
1 AAAAAAATTATAATTATAAT
64524053 AAAAAAATTA-AATT-TAAT
1 AAAAAAATTATAATTATAAT
64524071 A
1 A
64524072 TTATTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 4 0.21
20 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAAATTATAATTATAAT
Found at i:64524267 original size:9 final size:9
Alignment explanation
Indices: 64524255--64524325 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
64524245 TATTAAAAAA
64524255 GAGAGAGTT
1 GAGAGAGTT
64524264 GAGAG-GCTT
1 GAGAGAG-TT
*
64524273 GAGAGACTT
1 GAGAGAGTT
*
64524282 GAGAGGGTTT
1 GAGAGAG-TT
*
64524292 GAGAGAATTT
1 GAGAG-AGTT
* *
64524302 AAGAGAATT
1 GAGAGAGTT
64524311 GAGAGAGTT
1 GAGAGAGTT
64524320 GAGAGA
1 GAGAGA
64524326 AGGATGTGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 1 0.02
9 35 0.71
10 13 0.27
ACGTcount: A:0.35, C:0.03, G:0.39, T:0.23
Consensus pattern (9 bp):
GAGAGAGTT
Found at i:64524895 original size:19 final size:19
Alignment explanation
Indices: 64524852--64524912 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
64524842 TTTGAAATTT
**
64524852 AAAATATAAAAAATTAAAAA
1 AAAATAT-AAAAATTAACTA
64524872 TAAAATATAAAAATTAACTA
1 -AAAATATAAAAATTAACTA
*
64524892 AAAATATAGAAACTT-ACTA
1 AAAATATA-AAAATTAACTA
64524911 AA
1 AA
64524913 TATTTTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 14 0.39
20 15 0.42
21 7 0.19
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATATAAAAATTAACTA
Found at i:64525647 original size:2 final size:2
Alignment explanation
Indices: 64525640--64525668 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
64525630 GTACAAGCAA
64525640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64525669 AATTTCAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64530930 original size:13 final size:14
Alignment explanation
Indices: 64530905--64530933 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
64530895 TCGAATCCAA
64530905 AAATTCAACACAAC
1 AAATTCAACACAAC
64530919 AAATTC-ACACAAC
1 AAATTCAACACAAC
64530932 AA
1 AA
64530934 TACATCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATTCAACACAAC
Found at i:64535566 original size:28 final size:27
Alignment explanation
Indices: 64535491--64535566 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
64535481 CCTTTACGGT
*
64535491 AGTCTATGAAATAGAAGCCTTTGTGGC
1 AGTCTATGAAATAGAAGTCTTTGTGGC
*
64535518 AGTCTATAAAATAGAAGTCTTTGTGG-
1 AGTCTATGAAATAGAAGTCTTTGTGGC
64535544 AGATCTATGGAAAT-GAATGTCTT
1 AG-TCTAT-GAAATAGAA-GTCTT
64535567 CATGGCACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 32 0.74
28 9 0.21
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (27 bp):
AGTCTATGAAATAGAAGTCTTTGTGGC
Found at i:64535697 original size:26 final size:26
Alignment explanation
Indices: 64535668--64535718 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
64535658 CAAACCCTGG
*
64535668 AAGAATGATATGTATGGCT-AACTTTA
1 AAGAATGATAGGTATGG-TAAACTTTA
*
64535694 AAGAATGGTAGGTATGGTAAACTTT
1 AAGAATGATAGGTATGGTAAACTTT
64535719 GAGAGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (26 bp):
AAGAATGATAGGTATGGTAAACTTTA
Found at i:64547343 original size:87 final size:87
Alignment explanation
Indices: 64547234--64547422 Score: 288
Period size: 87 Copynumber: 2.2 Consensus size: 87
64547224 TCATTTATCT
* * * *
64547234 GAGATAGCAACAAAGGCATCCTTTTAACAGAGATAGCCACAAATGCATCCTTTTAACAAAGATTG
1 GAGATAGCAACAAAGACATCCTTTTAACAAAGATAGCCACAAAGGCATCCTTTTAACAAAGATCG
*
64547299 CCACAAAGGTTTCCTTTTAATA
66 CCACAAAGGCTTCCTTTTAATA
* * * *
64547321 GAGACAGCAACAAAGACATCCTTTTAACAAAGATAGTCACAAAGGCATCCTTTTAATAGAGATCG
1 GAGATAGCAACAAAGACATCCTTTTAACAAAGATAGCCACAAAGGCATCCTTTTAACAAAGATCG
64547386 CCACAAAGGCTTCCTTTTAATA
66 CCACAAAGGCTTCCTTTTAATA
*
64547408 GAGATAGCCACAAAG
1 GAGATAGCAACAAAG
64547423 GCTCACTTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (87 bp):
GAGATAGCAACAAAGACATCCTTTTAACAAAGATAGCCACAAAGGCATCCTTTTAACAAAGATCG
CCACAAAGGCTTCCTTTTAATA
Found at i:64547425 original size:29 final size:29
Alignment explanation
Indices: 64547183--64547424 Score: 243
Period size: 29 Copynumber: 8.4 Consensus size: 29
64547173 TTAGAGTCTC
* * * *
64547183 GCCATAAAGGCGTCCTTTTAACAGAGTTT
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * * * * *
64547212 GCCA-TAAGACATTCATTTATCTGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
*
64547240 GCAACAAAGGCATCCTTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
64547269 GCCACAAATGCATCCTTTTAACAAAGATT
1 GCCACAAAGGCATCCTTTTAACAGAGATA
** * *
64547298 GCCACAAAGGTTTCCTTTTAATAGAGACA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
64547327 GCAACAAAGACATCCTTTTAACAAAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
64547356 GTCACAAAGGCATCCTTTTAATAGAGATC
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* *
64547385 GCCACAAAGGCTTCCTTTTAATAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
64547414 GCCACAAAGGC
1 GCCACAAAGGC
64547425 TCACTTATGC
Statistics
Matches: 169, Mismatches: 43, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
28 18 0.11
29 151 0.89
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
GCCACAAAGGCATCCTTTTAACAGAGATA
Found at i:64561747 original size:40 final size:39
Alignment explanation
Indices: 64561649--64561911 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
64561639 TCCTCGTTCA
* * * *
64561649 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
64561688 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
64561727 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
64561767 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
64561807 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
64561847 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
64561888 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
64561912 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:64561871 original size:120 final size:119
Alignment explanation
Indices: 64561649--64561911 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
64561639 TCCTCGTTCA
* * *
64561649 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
64561714 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
64561767 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
64561832 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
64561888 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
64561912 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:64561920 original size:41 final size:41
Alignment explanation
Indices: 64561843--64561920 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
64561833 TTTGTATCTC
* * *
64561843 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
64561884 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
64561921 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:64569696 original size:40 final size:40
Alignment explanation
Indices: 64569598--64569940 Score: 451
Period size: 40 Copynumber: 8.6 Consensus size: 40
64569588 TCCTCGTTCA
* * * ** *
64569598 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
64569637 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
64569677 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
64569717 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
64569757 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
64569797 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
64569837 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
64569877 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
64569917 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
64569941 CAGCATTCAA
Statistics
Matches: 279, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
39 37 0.13
40 234 0.84
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:64573094 original size:30 final size:30
Alignment explanation
Indices: 64573025--64573082 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
64573015 TATAAAAAGA
64573025 AACGAGCTGAATGTAAGTTCAAATGAGCTC
1 AACGAGCTGAATGTAAGTTCAAATGAGCTC
*
64573055 AACGAGCTGAAT-TAAGTTCCAATGAGCT
1 AACGAGCTGAATGTAAGTTCAAATGAGCT
64573083 GAATGGAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (30 bp):
AACGAGCTGAATGTAAGTTCAAATGAGCTC
Found at i:64577215 original size:75 final size:75
Alignment explanation
Indices: 64577087--64577227 Score: 192
Period size: 75 Copynumber: 1.9 Consensus size: 75
64577077 GAACGAGTTT
* * * * *
64577087 ACCTGAAACAAATGGTTGGTAGGCCTTCACAACGTTGTCTAAAGACACACAGTCTTCTTCTGTGG
1 ACCTGAAACAAATGGCTGGTAGGCCTTCACAACATTGTCCAAAGACACACAGTCTCCTCCTGTGG
64577152 GATCCATGCC
66 GATCCATGCC
* * * * *
64577162 ACCTGAAATAGATGGCTGGTGGGCCTTCGCAACATTGTCCAAAGACACGCAGTCTCCTCCTGTGG
1 ACCTGAAACAAATGGCTGGTAGGCCTTCACAACATTGTCCAAAGACACACAGTCTCCTCCTGTGG
64577227 G
66 G
64577228 GTTTGATGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 56 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (75 bp):
ACCTGAAACAAATGGCTGGTAGGCCTTCACAACATTGTCCAAAGACACACAGTCTCCTCCTGTGG
GATCCATGCC
Found at i:64578071 original size:21 final size:21
Alignment explanation
Indices: 64578035--64578086 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
64578025 CAACGGTGGT
*
64578035 GGTGAGATTAGTTACTATAGC
1 GGTGAGATTAGATACTATAGC
* *
64578056 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTAGATACTATAGC
* *
64578077 GATGACATTA
1 GGTGAGATTA
64578087 AAAACAGTGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (21 bp):
GGTGAGATTAGATACTATAGC
Found at i:64581829 original size:7 final size:7
Alignment explanation
Indices: 64581817--64581846 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
64581807 ATGCTTGTGA
64581817 TATATGG
1 TATATGG
64581824 TATATGG
1 TATATGG
64581831 TATATGG
1 TATATGG
64581838 TATATGG
1 TATATGG
64581845 TA
1 TA
64581847 CTAACCCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (7 bp):
TATATGG
Found at i:64591490 original size:29 final size:29
Alignment explanation
Indices: 64591401--64591492 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
64591391 TCCAGGCACC
* * * *
64591401 GGTGATTACAATTTTAGGTACTTTGTAACT
1 GGTGATTATAGTTTCAGGTACTATGT-ACT
* * * * *
64591431 -GTG-TTATAGTTCCAGGCACTCTGTGCC
1 GGTGATTATAGTTTCAGGTACTATGTACT
64591458 GGTGATTATAGTTTCAGGTACTATGTACT
1 GGTGATTATAGTTTCAGGTACTATGTACT
64591487 GGTGAT
1 GGTGAT
64591493 GGATACCATA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
27 1 0.02
28 18 0.38
29 28 0.60
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (29 bp):
GGTGATTATAGTTTCAGGTACTATGTACT
Found at i:64596467 original size:19 final size:19
Alignment explanation
Indices: 64596445--64596482 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64596435 CGATTTGGGT
64596445 TCTCAAGCCCAATTTTCAA
1 TCTCAAGCCCAATTTTCAA
*
64596464 TCTCAAGTCCAATTTTCAA
1 TCTCAAGCCCAATTTTCAA
64596483 GTCCAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (19 bp):
TCTCAAGCCCAATTTTCAA
Found at i:64596482 original size:13 final size:13
Alignment explanation
Indices: 64596466--64596490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64596456 ATTTTCAATC
64596466 TCAAGTCCAATTT
1 TCAAGTCCAATTT
64596479 TCAAGTCCAATT
1 TCAAGTCCAATT
64596491 ACCTATTGGG
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:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (13 bp):
TCAAGTCCAATTT
Found at i:64601875 original size:3 final size:3
Alignment explanation
Indices: 64601867--64601896 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
64601857 TTCATCTGCA
64601867 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
64601897 AAAATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:64602290 original size:44 final size:44
Alignment explanation
Indices: 64602240--64602327 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
64602230 CTTATTTTAA
64602240 ATACGAAATGGTATTTTGGTAATTTTCCTAACTGAGTTAGTGCT
1 ATACGAAATGGTATTTTGGTAATTTTCCTAACTGAGTTAGTGCT
*
64602284 ATACGAAATGTTATTTTGGTAATTTTCCTAACTGAGTTAGTGCT
1 ATACGAAATGGTATTTTGGTAATTTTCCTAACTGAGTTAGTGCT
64602328 CTGTTGACTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (44 bp):
ATACGAAATGGTATTTTGGTAATTTTCCTAACTGAGTTAGTGCT
Found at i:64603276 original size:22 final size:22
Alignment explanation
Indices: 64603246--64603301 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
64603236 ATTTCCTCTC
**
64603246 AATTCCTCTCAATTTACTTTTAA
1 AATT-CTCTCAATTTACTTCCAA
*
64603269 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTACTTCCAA
64603291 AATTCTCTCAA
1 AATTCTCTCAA
64603302 ATCTATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTCTCTCAATTTACTTCCAA
Found at i:64603328 original size:51 final size:51
Alignment explanation
Indices: 64603273--64603376 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
64603263 TTTTAAAATT
* * *
64603273 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTCAATTTC
1 CTCTCAATTCCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
64603324 CTCTCAATTCCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTCCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
64603375 CT
1 CT
64603377 TTTTTAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (51 bp):
CTCTCAATTCCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:64603557 original size:26 final size:26
Alignment explanation
Indices: 64603528--64603583 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
64603518 AATTTTTAAA
* *
64603528 TATTATTTA-AGAATTTTTTATTTAT
1 TATTATTTAGAGAATTATTAATTTAT
*
64603553 GTATT-TTTAGATAATTATTAATTTAT
1 -TATTATTTAGAGAATTATTAATTTAT
64603579 TATTA
1 TATTA
64603584 GTTATAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTATTTAGAGAATTATTAATTTAT
Found at i:64604533 original size:7 final size:7
Alignment explanation
Indices: 64604521--64604545 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
64604511 ATTTGATTGA
64604521 TATTTAG
1 TATTTAG
64604528 TATTTAG
1 TATTTAG
64604535 TATTTAG
1 TATTTAG
64604542 TATT
1 TATT
64604546 ATGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:64605222 original size:18 final size:18
Alignment explanation
Indices: 64605196--64605230 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64605186 AGGTGCGTTT
*
64605196 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
64605214 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
64605231 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:64605702 original size:44 final size:45
Alignment explanation
Indices: 64605653--64605739 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
64605643 ATATTTTGAA
*
64605653 TATTTTGATATTATTTTATGTAAAAAAATAGAAA-TTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATA-AAAGTTTATTTGAGT
*
64605697 TATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAAAAGTTTATTTGA
64605740 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 3 0.08
44 31 0.79
45 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAAAAGTTTATTTGAGT
Found at i:64605799 original size:30 final size:30
Alignment explanation
Indices: 64605765--64605870 Score: 109
Period size: 30 Copynumber: 3.7 Consensus size: 30
64605755 AACCTAATTT
64605765 AACCCTAAACCCTAACTTAAAATAATTAAA
1 AACCCTAAACCCTAACTTAAAATAATTAAA
* * **
64605795 AACCCAAAACCATAACTTAATTTAATTAAA
1 AACCCTAAACCCTAACTTAAAATAATTAAA
*
64605825 AACCCT-AA-CCTAA-TT----CAATTAAA
1 AACCCTAAACCCTAACTTAAAATAATTAAA
64605848 AACCCTAAACCCTTAACTTAAAA
1 AACCCTAAACCC-TAACTTAAAA
64605871 ACCCTAACCT
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
23 13 0.21
24 2 0.03
25 2 0.03
26 3 0.05
27 4 0.07
28 4 0.07
29 2 0.03
30 31 0.51
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (30 bp):
AACCCTAAACCCTAACTTAAAATAATTAAA
Found at i:64605816 original size:53 final size:54
Alignment explanation
Indices: 64605747--64605868 Score: 131
Period size: 53 Copynumber: 2.3 Consensus size: 54
64605737 TGATGTAATA
* * ** *
64605747 AAAACCCTAACCTAATTTAACCCTAAACCCTAACTTAAAAT-AATTAAAAACCC-
1 AAAACCATAACTTAATTTAACCAAAAACCCTAACCT-AAATCAATTAAAAACCCT
** *
64605800 AAAACCATAACTTAATTTAATTAAAAACCCTAACCTAATTCAATTAAAAACCCT
1 AAAACCATAACTTAATTTAACCAAAAACCCTAACCTAAATCAATTAAAAACCCT
* *
64605854 AAACCCTTAACTTAA
1 AAAACCATAACTTAA
64605869 AAACCCTAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
52 3 0.05
53 41 0.72
54 13 0.23
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (54 bp):
AAAACCATAACTTAATTTAACCAAAAACCCTAACCTAAATCAATTAAAAACCCT
Found at i:64605891 original size:28 final size:23
Alignment explanation
Indices: 64605800--64607748 Score: 1727
Period size: 23 Copynumber: 81.4 Consensus size: 23
64605790 TTAAAAACCC
* *
64605800 AAAACCATAACTTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64605823 AAAACCCTAACCTAATTCAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64605846 AAAACCCTAAACC---CTTAACTTA
1 AAAACCCT-AACCTAATTTAA-TTA
64605868 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64605891 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
64605914 AAAACCCTAAACCCTTAA-TTAA--A
1 AAAACCCT-AA-CC-TAATTTAATTA
*
64605937 AACCCTAACCCTAACCTAATTCAATTA
1 AA----AACCCTAACCTAATTTAATTA
*
64605964 AAAACCCTAAACC---CTTAACTTA
1 AAAACCCT-AACCTAATTTAA-TTA
64605986 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
64606009 AAAACCCTAGCCTAACCTAATTTAATTA
1 AAAA--C---CCTAACCTAATTTAATTA
64606037 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
64606060 AAAACCCTAGCCTAAATTAATTA
1 AAAACCCTAACCTAATTTAATTA
64606083 AAAACCCTAAACCCTTAA-TTAA--A
1 AAAACCCT-AA-CC-TAATTTAATTA
*
64606106 AACCCTAACCCTAACCTAATTCAATTA
1 AA----AACCCTAACCTAATTTAATTA
* *
64606133 AAAAGCCTAAACC---CTTAACTTA
1 AAAACCCT-AACCTAATTTAA-TTA
64606155 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
64606178 AAAACCCTAGCTTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
64606200 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64606223 AAAATCCTAACCTAATTTAATTAAAAA
1 AAAACCCTAACCTAATTTAATT----A
*
64606250 CCATAAACCCTAACATAATTTAATTA
1 --A-AAACCCTAACCTAATTTAATTA
*
64606276 AAAA-CCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
64606297 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64606320 AAAATCCTAACCTAATTTAATTAAAAA
1 AAAACCCTAACCTAATTTAATT----A
*
64606347 CCATAAACCCTAACATAATTTAATTA
1 --A-AAACCCTAACCTAATTTAATTA
*
64606373 AAAA-CCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
64606394 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64606417 AAAATCCTAACCTAATTTAATTAAAAA
1 AAAACCCTAACCTAATTTAATT----A
*
64606444 CCATAAACCCTAACATAATTTAATTA
1 --A-AAACCCTAACCTAATTTAATTA
*
64606470 AAAA-CCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
64606491 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64606514 AAAATCCTAACCTAATTTAATTAAAAA
1 AAAACCCTAACCTAATTTAATT----A
*
64606541 CCATAAACCCTAACATAATTTAATTA
1 --A-AAACCCTAACCTAATTTAATTA
*
64606567 AAAA-CCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
64606588 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64606611 AAAATCCTAACCTAATTTAATTAAAAA
1 AAAACCCTAACCTAATTTAATT----A
*
64606638 CCATAAACCCTAACATAATTTAATTA
1 --A-AAACCCTAACCTAATTTAATTA
*
64606664 AAAA-CCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
64606685 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64606708 AAAATCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* **
64606731 AAAACCATAAACCCTAACATAATTTA
1 AAAACCCT-AA-CCTAATTTAA-TTA
64606757 ATTAAA----AACCT-ATTTAATTA
1 A--AAACCCTAACCTAATTTAATTA
64606777 AAAACCCTAGCCTAACCTAATTTAATTA
1 AAAA--C---CCTAACCTAATTTAATTA
64606805 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64606828 AAAGCCCTAGCCTAACCTAATTTAATTA
1 AAA-----ACCCTAACCTAATTTAATTA
*
64606856 AAAACCCTAACCTAATTCAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
64606879 AAAATCCTAACC---CTTAACTTA
1 AAAACCCTAACCTAATTTAA-TTA
64606900 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* * *
64606923 AAAACCTTAGCCTAATTTAATCA
1 AAAACCCTAACCTAATTTAATTA
*
64606946 AAAACCCTACCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64606969 AAAACCCTAAACC---CTTAACTTTA
1 AAAACCCT-AACCTAATTTAA--TTA
*
64606992 AAAACCCTAACCTAATTTACTTA
1 AAAACCCTAACCTAATTTAATTA
*
64607015 AAAACCCTAGCCTAACCAAATTTAATTA
1 AAAA--C---CCTAACCTAATTTAATTA
*
64607043 AAAACCCTAACCTAATTTACTTA
1 AAAACCCTAACCTAATTTAATTA
*
64607066 AAAACCCTAGCCTAACCAAATTTAATTA
1 AAAA--C---CCTAACCTAATTTAATTA
64607094 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
64607117 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64607140 AAAACCCTAAACC---CTTAATTA
1 AAAACCCT-AACCTAATTTAATTA
** *
64607161 AAAACCCTAACCCTAACCCTAACATA
1 AAAACCCTAA-CCTAA-TTTAA-TTA
***** *
64607187 ATTGAATTAAAAACCTTAAACCCTTAACTTA
1 A---AAACCCTAACC-T-AA--TTTAA-TTA
64607218 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
64607241 AAAACCCTAGTCTAACCTAATTTAATTA
1 AAAA-CC----CTAACCTAATTTAATTA
64607269 AAAACCCTAAACCCTTAA-TTAA--A
1 AAAACCCT-AA-CC-TAATTTAATTA
*
64607292 AACCCTAACCCTAACCTAATTCAATTA
1 AA----AACCCTAACCTAATTTAATTA
*
64607319 AAAATCCTAAACC---TTTAACTTA
1 AAAACCCT-AACCTAATTTAA-TTA
64607341 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
64607364 AAAACTCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64607387 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64607410 AAAACACTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
64607433 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64607456 AAAACCCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
64607478 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64607501 AAAACCCAAAACCCTTAA-TTAA--A
1 AAAACCC-TAA-CC-TAATTTAATTA
64607524 AACCCTAACCCTAACCTAATTTAATTA
1 AA----AACCCTAACCTAATTTAATTA
* *
64607551 AAAACCCTAGCTTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
64607573 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64607596 AAAATCCTAACCTAATTTAATTAAAAA
1 AAAACCCTAACCTAATTTAATT----A
*
64607623 CCATAAACCCTAACATAATTTAATTA
1 --A-AAACCCTAACCTAATTTAATTA
*
64607649 AAAA-CCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
64607670 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64607693 CAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
64607716 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
64607739 AAAACCCTAA
1 AAAACCCTAA
64607749 ACCCTTAACT
Statistics
Matches: 1615, Mismatches: 131, Indels: 360
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.00
20 9 0.01
21 92 0.06
22 296 0.18
23 723 0.45
24 76 0.05
25 63 0.04
26 39 0.02
27 49 0.03
28 129 0.08
29 11 0.01
30 116 0.07
31 9 0.01
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (23 bp):
AAAACCCTAACCTAATTTAATTA
Found at i:64606299 original size:97 final size:98
Alignment explanation
Indices: 64605869--64607748 Score: 1593
Period size: 97 Copynumber: 19.6 Consensus size: 98
64605859 CTTAACTTAA
* *
64605869 AAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACC---CTTA
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATT-AAAACCCT-AACCTAATTTA
** **
64605931 ATTAAAAACCCTAACCCTAACCTAATTCAATTA--A-
64 ATTAAAAACCCTAA-CCTAATTTAATT-AAAAACCAT
*** *
64605965 AAACCCTAA-A-CCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTA
1 AAACCCTAACATAATTTAA-TTAAAAACCCTAGCCTAATTTAATT-AAAA--C---CCTAACCTA
*
64606028 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
59 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCAT
* * *
64606068 --AGCCT---A-AA-TTAATTAAAAACCCTAAACCCTTAA-TTAA-AAACCCTAACCCTAACCTA
1 AAACCCTAACATAATTTAATTAAAAACCCT--AGCC-TAATTTAATTAA----AACCCTAACCTA
* * *
64606124 ATTCAATTAAAAAGCCTAAACC---CTTAACTT----A--A-
59 ATTTAATTAAAAACCCT-AACCTAATTTAA-TTAAAAACCAT
* *
64606156 AAACCCTAACCTAATTTAATTAAAAACCCTAGCTTAATTTAATTAAAACCCTAACCTAATTTAAT
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
*
64606221 TAAAAATCCTAACCTAATTTAATTAAAAACCAT
66 TAAAAACCCTAACCTAATTTAATTAAAAACCAT
64606254 AAACCCTAACATAATTTAATTAAAAA-CCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
*
64606318 TAAAAATCCTAACCTAATTTAATTAAAAACCAT
66 TAAAAACCCTAACCTAATTTAATTAAAAACCAT
64606351 AAACCCTAACATAATTTAATTAAAAA-CCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
*
64606415 TAAAAATCCTAACCTAATTTAATTAAAAACCAT
66 TAAAAACCCTAACCTAATTTAATTAAAAACCAT
64606448 AAACCCTAACATAATTTAATTAAAAA-CCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
*
64606512 TAAAAATCCTAACCTAATTTAATTAAAAACCAT
66 TAAAAACCCTAACCTAATTTAATTAAAAACCAT
64606545 AAACCCTAACATAATTTAATTAAAAA-CCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
*
64606609 TAAAAATCCTAACCTAATTTAATTAAAAACCAT
66 TAAAAACCCTAACCTAATTTAATTAAAAACCAT
64606642 AAACCCTAACATAATTTAATTAAAAA-CCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
*
64606706 TAAAAATCCTAACCTAATTTAATTAAAAACCAT
66 TAAAAACCCTAACCTAATTTAATTAAAAACCAT
** *
64606739 AAACCCTAACATAATTTAATTAAAAA-CCTA-TTTAA-TTAA--AAACCCTAGCCTAACCTAATT
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATTAAA----ACCCTAACCTAATT
* *
64606799 TAATTAAAAACCCTAACCTAATTTAATTAAAAGCCCT
62 TAATTAAAAACCCTAACCTAATTTAATTAAAAACCAT
* * * * * *
64606836 --AGCCTAACCTAATTTAATTAAAAACCCTAACCTAATTCAATTAAAAATCCTAACC---CTTAA
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAA
64606896 CTTAAAAACCCTAACCTAATTTAATTAAAAACC-T
65 -TTAAAAACCCTAACCTAATTTAATTAAAAACCAT
* * * * *
64606930 ------TAGCCTAATTTAATCAAAAACCCTACCCTAATTTAATTAAAAACCCTAAACC---CTTA
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATT-AAAACCCT-AACCTAATTTA
* *
64606986 ACTTTAAAAACCCTAACCTAATTTACTTAAAAACCCT
64 A--TTAAAAACCCTAACCTAATTTAATTAAAAACCAT
* * * *
64607023 --AGCCTAACCA-AATTTAATTAAAAACCCTAACCTAATTTACTTAAAAACCCTAGCCTAACCAA
1 AAACCCTAA-CATAATTTAATTAAAAACCCTAGCCTAATTTAATT-AAAA--C---CCTAACCTA
64607085 ATTTAATTAAAAACCCTAACCTAATTTAATT----A--A-
59 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCAT
* * * *
64607118 AAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAACCCTAACCCTAA
1 AAACCCTAACATAATTTAATTAAAAACCCT--AGCC-TAATT--TAA--TTAA----AACCCTAA
* * * *
64607183 CATAATTGAATTAAAAACCTTAAACC---CTTAACTT----A--A-
55 CCTAATTTAATTAAAAACCCT-AACCTAATTTAA-TTAAAAACCAT
*
64607219 AAACCCTAACCTAATTTAATTAAAAACCCTAGTCTAACCTAATTTAATTAAAAACCCTAAACC--
1 AAACCCTAACATAATTTAATTAAAAACCCTAG-----CCTAATTTAATT-AAAACCCT-AACCTA
* ** **
64607282 -CTTAATTAAAAACCCTAACCCTAACCTAATTCAATTA--A-
59 ATTTAATTAAAAACCCTAA-CCTAATTTAATT-AAAAACCAT
* ** * * *
64607320 AAATCCTAA-A-CCTTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACTCTAGCCTAATTTA
1 AAACCCTAACATAATTTAA-TTAAAAACCCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTA
*
64607383 ATTAAAAACCCTAGCCTAATTTAATTAAAAA-C--
64 ATTAAAAACCCTAACCTAATTTAATTAAAAACCAT
* * *
64607415 --A--CTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAA
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAA
64607476 TT-AAAACCCTAACCTAATTTAATTAAAAACCCA-
65 TTAAAAACCCTAACCTAATTTAATTAAAAA-CCAT
* * *
64607509 AAACCCT----TAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAGCTTAAT
1 AAACCCTAACATAATTTAATTAAA----AACCCTAGCCTAATTTAATT-AAAACCCTAACCTAAT
64607567 TTAATT-AAAACCCTAACCTAATTTAATTAAAAATCC-T
61 TTAATTAAAAACCCTAACCTAATTTAATTAAAAA-CCAT
** ** * * * *
64607604 -AA-CCTAATTTAA-TTAAAAACCATAAACCCTAACATAATTTAATTAAAAACCTAGCCTAATTT
1 AAACCCTAACATAATTTAATTA--A-AAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTT
64607666 AATT-AAAACCCTAACCTAATTTAATT----A-C--
63 AATTAAAAACCCTAACCTAATTTAATTAAAAACCAT
*
64607694 AAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAA
1 AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATT-AAAACCCTAA
64607749 ACCCTTAACT
Statistics
Matches: 1544, Mismatches: 109, Indels: 267
0.80 0.06 0.14
Matches are distributed among these distances:
89 4 0.00
90 92 0.06
91 57 0.04
92 93 0.06
93 32 0.02
94 40 0.03
95 198 0.13
96 60 0.04
97 697 0.45
98 55 0.04
99 25 0.02
100 32 0.02
101 70 0.05
102 68 0.04
103 11 0.01
104 7 0.00
105 1 0.00
107 2 0.00
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (98 bp):
AAACCCTAACATAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAAT
TAAAAACCCTAACCTAATTTAATTAAAAACCAT
Found at i:64606785 original size:17 final size:16
Alignment explanation
Indices: 64606752--64606782 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
64606742 CCCTAACATA
64606752 ATTTAATTAAAAACCT
1 ATTTAATTAAAAACCT
64606768 ATTTAATTAAAAACC
1 ATTTAATTAAAAACC
64606783 CTAGCCTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTTAATTAAAAACCT
Found at i:64607189 original size:56 final size:57
Alignment explanation
Indices: 64607119--64607229 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 57
64607109 TTTAATTAAA
* *
64607119 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACCCTAACCCT
1 AACCCTAACATAATTGAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCT
*
64607175 AACCCTAACATAATTGAATTAAAAACCTTAAACCCTTAACTTAAAAACCCTAACC
1 AACCCTAACATAATTGAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACC
64607230 TAATTTAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 36 0.71
57 15 0.29
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (57 bp):
AACCCTAACATAATTGAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCT
Found at i:64607291 original size:129 final size:119
Alignment explanation
Indices: 64607087--64607783 Score: 686
Period size: 118 Copynumber: 5.8 Consensus size: 119
64607077 CTAACCAAAT
64607087 TTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACC-CTAACCTAATTTAATTAAAAACCCTAA
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTCTAACCTAATTTAATTAAAAACCCTAA
*
64607150 ACCCTTAATTAAAAACCCTAACCCTAACCCTAACATAATTGAATTAAAAA-CCTTAAACCC
66 ACCCTTAATTAAAAACCCTAACCCTAA--C---C-TAATTCAATTAAAAATCC-TAAACCC
64607210 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGTCTAACCTAATTTAATTAAAAACC
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAA-CC---TCTAACCTAATTTAATTAAAAACC
*
64607275 CTAAACCCTTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAATCCTAAACCT
62 CTAAACCCTTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAATCCTAAACCC
*
64607333 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAA-CTCTAGCCTAATTTAATTAAAAACCCT--
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTCTAACCTAATTTAATTAAAAACCCTAA
* * * * *
64607395 AGCC-TAATTTAATTAAA----AACACTAACCTAATTTAATTAAAAACCCT-AACCTAAT
66 ACCCTTAA-TTAA--AAACCCTAACCCTAACCTAATTCAATTAAAAATCCTAAACC---C
* *
64607449 TTAA-TTAAAAACCCTAGCCTAATTTAATT-AAAACC-CTAACCTAATTTAATTAAAAACCCAAA
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTCTAACCTAATTTAATTAAAAACCCTAA
* * *
64607511 ACCCTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT--A-GC
66 ACCCTTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAATCCTAAACCC
* * *
64607562 TTAATTTAATTAAAACCCTAACCTAATTTAATTAAAAATC-CTAACCTAATTTAATTAAAAACCA
1 TTAACTT-A--AAAACCCTAACCTAATTTAATTAAAAACCTCTAACCTAATTTAATTAAAAACCC
* * **** * * * * *
64607626 TAAACCC-TAACATAATTTAATTAAAAACCTAGCCTAATTTAATT-AAAACCCT-AACCTAAT
63 TAAACCCTTAA-TTAA--AAACCCTAACCCTAACCTAATTCAATTAAAAATCCTAAACC---C
* *
64607686 TTAA-TTACAAACCCTAACCTAATTTAATTAAAAACC-CTAGCCTAATTTAATTAAAAACCCTAA
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTCTAACCTAATTTAATTAAAAACCCTAA
* * *
64607749 ACCCTTAACTTTAAAAAGCCTAACCTTAACGTAAT
66 ACCCTTAA--TTAAAAACCCTAACCCTAACCTAAT
64607784 GTTAGATTTC
Statistics
Matches: 495, Mismatches: 43, Indels: 75
0.81 0.07 0.12
Matches are distributed among these distances:
113 8 0.02
114 58 0.12
115 29 0.06
116 19 0.04
117 28 0.06
118 93 0.19
119 8 0.02
120 89 0.18
121 4 0.01
122 4 0.01
123 61 0.12
124 37 0.07
125 2 0.00
127 1 0.00
129 54 0.11
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.29
Consensus pattern (119 bp):
TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTCTAACCTAATTTAATTAAAAACCCTAA
ACCCTTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAATCCTAAACCC
Found at i:64607762 original size:23 final size:21
Alignment explanation
Indices: 64607736--64607778 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
64607726 CCTAATTTAA
64607736 TTAAAAACCCTAAACCCTTAACT
1 TTAAAAACCCT-AA-CCTTAACT
*
64607759 TTAAAAAGCCTAACCTTAAC
1 TTAAAAACCCTAACCTTAAC
64607779 GTAATGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.44, C:0.28, G:0.02, T:0.26
Consensus pattern (21 bp):
TTAAAAACCCTAACCTTAACT
Done.