Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 58 of 198
Found at i:17753739 original size:17 final size:17
Alignment explanation
Indices: 17753681--17753740 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
17753671 CGATAACACA
17753681 CCAATCGCTCATAAGAG
1 CCAATCGCTCATAAGAG
* * * *
17753698 CTAATCAACTTGATAACACG
1 CCAATC-GC-TCATAAGA-G
17753718 CCAATCGCTCATAAGAG
1 CCAATCGCTCATAAGAG
17753735 CCAATC
1 CCAATC
17753741 CACCTAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 12 0.38
18 7 0.22
19 7 0.22
20 6 0.19
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (17 bp):
CCAATCGCTCATAAGAG
Found at i:17756247 original size:19 final size:19
Alignment explanation
Indices: 17756223--17756261 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
17756213 TAGAATATCG
17756223 TGTTTCAAGTCTAAATTAT
1 TGTTTCAAGTCTAAATTAT
*
17756242 TGTTTCAAGTCTATATTAT
1 TGTTTCAAGTCTAAATTAT
17756261 T
1 T
17756262 TGAATCACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (19 bp):
TGTTTCAAGTCTAAATTAT
Found at i:17761062 original size:37 final size:35
Alignment explanation
Indices: 17760980--17761107 Score: 125
Period size: 37 Copynumber: 3.5 Consensus size: 35
17760970 CGAGTACACA
* *
17760980 AGTAATCCAACCGA-AACATGCCAATCGCTCATAAG
1 AGTAATCC-ACCGATAACACGCAAATCGCTCATAAG
* *
17761015 AGGTAGTCCACTCGATAACACGTCAAAT-GCTTATAAG
1 A-GTAATCCAC-CGATAACACG-CAAATCGCTCATAAG
*
17761052 AGCTAATCCACCCGATAACACGCCAATCGCTCATAAG
1 AG-TAATCCA-CCGATAACACGCAAATCGCTCATAAG
17761089 AGTGAATCCACCTGATAAC
1 AGT-AATCCACC-GATAAC
17761108 TCGCCAAAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
35 3 0.04
36 17 0.22
37 52 0.68
38 5 0.06
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.20
Consensus pattern (35 bp):
AGTAATCCACCGATAACACGCAAATCGCTCATAAG
Found at i:17762420 original size:16 final size:16
Alignment explanation
Indices: 17762401--17762435 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17762391 GTTGATACAA
17762401 AAACATAAGTTTAATG
1 AAACATAAGTTTAATG
* *
17762417 AAACATAATTTTATTG
1 AAACATAAGTTTAATG
17762433 AAA
1 AAA
17762436 AGGAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (16 bp):
AAACATAAGTTTAATG
Found at i:17763116 original size:39 final size:39
Alignment explanation
Indices: 17763009--17763124 Score: 126
Period size: 39 Copynumber: 2.9 Consensus size: 39
17762999 ATTTACATGG
* * * * *
17763009 TAATCATATTCACTTTTGAGCATGTATCACATTA-TACATA
1 TAATCATA-TAACATTTAAGCATATATCACAATACT-CATA
* * * *
17763049 TAATCACATAACATTTAGGTATACATCACAATACTCATA
1 TAATCATATAACATTTAAGCATATATCACAATACTCATA
17763088 TAATCATATAACATTTAAGCATATATCACAATACTCA
1 TAATCATATAACATTTAAGCATATATCACAATACTCA
17763125 AAAACATGTT
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
39 54 0.87
40 8 0.13
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (39 bp):
TAATCATATAACATTTAAGCATATATCACAATACTCATA
Found at i:17768229 original size:16 final size:16
Alignment explanation
Indices: 17768208--17768239 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17768198 GTTTTGTTGC
*
17768208 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
17768224 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
17768240 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:17768525 original size:51 final size:51
Alignment explanation
Indices: 17768457--17768657 Score: 239
Period size: 51 Copynumber: 4.0 Consensus size: 51
17768447 ATTAATGATA
* * *
17768457 CTGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* *
17768508 CTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * * *
17768559 CTGGTACGCATAGTAGCCTGCACATAGTACTAAACATGCGACCTATC-GT-T
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
*
17768609 CTGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATCACT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
17768658 TTCACTTTCA
Statistics
Matches: 124, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.02
50 41 0.33
51 78 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:17768647 original size:101 final size:102
Alignment explanation
Indices: 17768465--17768649 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
17768455 TACTGGTTCA
* * *
17768465 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGCCTACA
17768530 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
* *
17768567 CATAGTAGCCTGCACATAGTACTAAACATGCGACCTATC-GT-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTAAACATGCGACC-ATCACTATCTGATACACGTAGTAGCCTAC
17768630 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
17768650 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 40 0.52
102 34 0.44
103 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:17768672 original size:101 final size:102
Alignment explanation
Indices: 17768460--17768683 Score: 267
Period size: 101 Copynumber: 2.2 Consensus size: 102
17768450 AATGATACTG
* *
17768460 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGC
* * **
17768525 CTGCACATAGTACTACACACGTGATCGAAGCTATCTG
66 CTACACATAGTACTACACACGTGATCCAAGCTATCAC
* * * *
17768562 GTACGCATAGTAGCCTGCACATAGTACTAAACATGCGACCTATC-GT-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTAAACATGCGACC-ATCACTATCTGATACACGTAGTAG
*
17768625 CCTACACATAGTACTACACACGTGA-CCATCA-CTTTCAC
65 CCTACACATAGTACTACACACGTGATCCA--AGCTATCAC
* * *
17768663 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
17768684 CAGTCCATGC
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
100 2 0.02
101 60 0.58
102 38 0.37
103 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGC
CTACACATAGTACTACACACGTGATCCAAGCTATCAC
Found at i:17768904 original size:15 final size:16
Alignment explanation
Indices: 17768875--17768906 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17768865 AATGCAGTCC
17768875 AAAAATCACATTTTTG
1 AAAAATCACATTTTTG
*
17768891 AAAAATTACATTTTTG
1 AAAAATCACATTTTTG
17768907 CCTCTAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAAATCACATTTTTG
Found at i:17771455 original size:67 final size:67
Alignment explanation
Indices: 17771328--17771455 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 67
17771318 AAGCAATAAA
* * * * * *
17771328 ATCGAGCTAATATGTCAATTATACAATAGTAATGATTAGTAGTATGGGTTAATTCATATATTTCC
1 ATCGAGCTAATAAGTCAATTATACAATAGCAATGATCAGCAGTATGGATTAATCCATATATTTCC
17771393 AC
66 AC
*
17771395 ATCGAGCTAATAAGTCAATTATACAAGTA-CAATGATCAGCAGTATGGATTAATCCTTATAT
1 ATCGAGCTAATAAGTCAATTATACAA-TAGCAATGATCAGCAGTATGGATTAATCCATATAT
17771456 GTCCTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
67 51 0.96
68 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (67 bp):
ATCGAGCTAATAAGTCAATTATACAATAGCAATGATCAGCAGTATGGATTAATCCATATATTTCC
AC
Found at i:17773496 original size:21 final size:20
Alignment explanation
Indices: 17773472--17773510 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
17773462 GTTAAAAATA
17773472 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
17773493 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
17773511 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:17776449 original size:2 final size:2
Alignment explanation
Indices: 17776442--17776480 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
17776432 TATAGTAAAA
*
17776442 AC AC AC AC AC AC AC AC AC AC A- AC AC AC AC AT AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
17776481 CATCATTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:17776467 original size:21 final size:21
Alignment explanation
Indices: 17776441--17776480 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17776431 TTATAGTAAA
17776441 AACACACACACACACACACAC
1 AACACACACACACACACACAC
*
17776462 AACACACACATACACACAC
1 AACACACACACACACACAC
17776481 CATCATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.45, G:0.00, T:0.03
Consensus pattern (21 bp):
AACACACACACACACACACAC
Found at i:17776468 original size:19 final size:19
Alignment explanation
Indices: 17776444--17776480 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17776434 TAGTAAAAAC
17776444 ACACACACACACACACACA
1 ACACACACACACACACACA
*
17776463 ACACACACATACACACAC
1 ACACACACACACACACAC
17776481 CATCATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (19 bp):
ACACACACACACACACACA
Found at i:17779704 original size:31 final size:31
Alignment explanation
Indices: 17779666--17779728 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
17779656 TTAAATTGTG
17779666 ACACCAACTCAATTAACAACAATATTAATAT
1 ACACCAACTCAATTAACAACAATATTAATAT
17779697 ACACCAACTCAATTAACAACAATATTAATAT
1 ACACCAACTCAATTAACAACAATATTAATAT
17779728 A
1 A
17779729 TACAACTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.25
Consensus pattern (31 bp):
ACACCAACTCAATTAACAACAATATTAATAT
Found at i:17797870 original size:14 final size:13
Alignment explanation
Indices: 17797848--17797881 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
17797838 GAAGTATTTT
*
17797848 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
17797862 AAAAATAAAAATA
1 AAAAATAAAAATA
17797875 AAAAATA
1 AAAAATA
17797882 TATTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:17802677 original size:18 final size:17
Alignment explanation
Indices: 17802620--17802677 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
17802610 AATAAAATAA
17802620 AAAT-TATTTAAAAATT
1 AAATATATTTAAAAATT
* *
17802636 ACATATATTAAAAAAATCTT
1 AAATATATT-TAAAAA--TT
17802656 AAATAATATTTAAAAATT
1 AAAT-ATATTTAAAAATT
17802674 AAAT
1 AAAT
17802678 TTAACACTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 3 0.09
17 4 0.12
18 11 0.33
20 10 0.30
21 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATATTTAAAAATT
Found at i:17811423 original size:267 final size:267
Alignment explanation
Indices: 17810942--17811747 Score: 1180
Period size: 267 Copynumber: 3.0 Consensus size: 267
17810932 GTAGCAATGG
* * * * * *
17810942 AAAAGATTGAAGCCACAATGGCGAATCGTATTTCCCTGGCGTTATAGCGGAGTAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* *
17811007 TGACGGCGAATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
* ** *
17811072 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATT-AAGGCCGCAACGGTGAATC
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAA-GCCGCAACGGCGAATC
* * *
17811136 TTACTCCCCTGGCAGTGTAGTGGAATAGATTGAATCTACGACGACGAATCTTGTTTCCTCAACAT
195 TTACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACAT
17811201 TGCCATTA
260 TGCCATTA
** *
17811209 AAAAGATTGAAGCCGCAACGATGAATCTTACTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* * *
17811274 CGATGACGAATCTTATCTCCCTGGCGTTAAGGTTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
*
17811339 GTGGGCAACGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCT
* * *
17811404 TACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCTCAACATT
196 TACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATT
17811469 G-C----
261 GCCATTA
* * * *
17811471 --AATATTGAAGCTGCAACGGCGAATCTTGCTTCCCTAGCGTTGTAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
*
17811534 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
* * * *
17811599 GTGGTCAGCGAATCCTATCTCGTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACAGCAAATCT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCT
* * *
17811664 TACTTCCTTGGTAGTGTAGTGGAACT-GATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACAT
196 TACTTCCCTGGCAGTGTAGTGGAA-TAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACAT
*
17811728 TGCAATTA
260 TGCCATTA
*
17811736 AAAAGACTGAAG
1 AAAAGATTGAAG
17811748 ATGGCGAATC
Statistics
Matches: 480, Mismatches: 50, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
260 236 0.49
266 1 0.00
267 241 0.50
268 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (267 bp):
AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCT
TACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATT
GCCATTA
Found at i:17811613 original size:260 final size:260
Alignment explanation
Indices: 17810947--17811733 Score: 1144
Period size: 260 Copynumber: 3.0 Consensus size: 260
17810937 AATGGAAAAG
* * * * * * * *
17810947 ATTGAAGCCACAATGGCGAATCGTATTTCCCTGGCGTTATAGCGGAGTAGATTGAAGCCATGACG
1 ATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
*
17811012 GCGAATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
66 GCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
* ** *
17811077 CAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATT-AAGGCCGCAACGGTGAATCTTACT
131 CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAA-GCCGCAACGGCGAATCTTACT
* * * *
17811141 CCCCTGGCAGTGTAGTGGAATAGATTGAATCTACGACGACGAATCTTGTTTCCTCAACATTGCCA
195 TCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTG-C-
*
17811206 TTAAAAAG
258 -----AAT
* * *
17811214 ATTGAAGCCGCAACGATGAATCTTACTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCACGATG
1 ATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
* *
17811279 ACGAATCTTATCTCCCTGGCGTTAAGGTTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
66 GCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
*
17811344 CAACGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCTTACTT
131 CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCTTACTT
* *
17811409 CCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCTCAACATTGCAAT
196 CCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTGCAAT
* * * *
17811474 ATTGAAGCTGCAACGGCGAATCTTGCTTCCCTAGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
1 ATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
* *
17811539 GTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGT
66 GCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
* * *
17811604 CAGCGAATCCTATCTCGTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACAGCAAATCTTACTT
131 CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCTTACTT
* * * *
17811669 CCTTGGTAGTGTAGTGGAACTGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAAT
196 CCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTGCAAT
17811734 TAAAAAGACT
Statistics
Matches: 472, Mismatches: 47, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
260 241 0.51
266 1 0.00
267 228 0.48
268 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (260 bp):
ATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
GCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCTTACTT
CCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTGCAAT
Found at i:17811809 original size:44 final size:44
Alignment explanation
Indices: 17811754--17812080 Score: 190
Period size: 44 Copynumber: 7.5 Consensus size: 44
17811744 GAAGATGGCG
17811754 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * **
17811798 AATCCTATCTCCCTGAAGTAGCAATGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* ** ** * *
17811842 GATCTTATCTCTTTGAAGTTGCA-AAGAGCAGATCT-CA-TC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCCAAT
* * * * *
17811882 AGTCTTATCTCCCTGAAGTTGGAGTGGAGCAGACT-AAG-TAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* * * * *****
17811925 AAGTTTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGGTGGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAGCCAAT
*
17811971 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * *
17812015 AATCCTATCTCCCTGAAGTTGCAGCGGAACGGATTAAATCCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* *
17812059 GATCTTATCTCTCTGAAGTTGC
1 AATCTTATCTCCCTGAAGTTGC
17812081 TGTAGAGTAG
Statistics
Matches: 211, Mismatches: 55, Indels: 34
0.70 0.18 0.11
Matches are distributed among these distances:
40 20 0.09
41 7 0.03
42 2 0.01
43 12 0.06
44 138 0.65
45 25 0.12
46 7 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:17811990 original size:45 final size:44
Alignment explanation
Indices: 17811756--17812171 Score: 152
Period size: 44 Copynumber: 9.6 Consensus size: 44
17811746 AGATGGCGAA
* * *
17811756 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAG
* * * * * *
17811800 TCCTATCTCCCTGAAGTAGCAATGGAGCGGATTAA--AATCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG
** ** * *
17811843 ATCTTATCTCTTTGAAGTTGCA-AAGAGCAGATCTCA-T---CTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAG
*
17811884 TCTTATCTCCCTGAAGTTGGAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
* * *
17811928 TTTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGGT-GGCGAA-
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AA-GTAAGC-AAG
* * * *
17811973 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAA-TAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAG
* * * * * **
17812017 TCCTATCTCCCTGAAGTTGCAGCGGAACGGATTAA--ATCCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG
* * * * * * * **
17812060 ATCTTATCTCTCTGAAGTTGCTGTAGAGTAGA-TCA--CATCGGG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
* * *
17812102 TCTTATCTCTCTGAAGTTGCAGTGGAGTAGACTCAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAG
* * *
17812147 TCTTATCCCCCTGAAATTACAGTGG
1 TCTTATCTCCCTGAAGTTGCAGTGG
17812172 GGCAAAAAAA
Statistics
Matches: 279, Mismatches: 65, Indels: 55
0.70 0.16 0.14
Matches are distributed among these distances:
40 24 0.09
41 41 0.15
42 5 0.02
43 17 0.06
44 131 0.47
45 54 0.19
46 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
Found at i:17813570 original size:10 final size:10
Alignment explanation
Indices: 17813547--17813579 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
17813537 TTTAGTCTTT
17813547 TTATTTA-T-
1 TTATTTATTA
17813555 TTATTTATTA
1 TTATTTATTA
17813565 TTATTTATTA
1 TTATTTATTA
17813575 TTATT
1 TTATT
17813580 AAATTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 7 0.30
9 1 0.04
10 15 0.65
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTTATTA
Found at i:17813617 original size:16 final size:16
Alignment explanation
Indices: 17813590--17813623 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17813580 AAATTTGATT
*
17813590 TTATTGTTATTAAGTA
1 TTATTGTTATTAAATA
17813606 TTATTGTTATTAAATA
1 TTATTGTTATTAAATA
17813622 TT
1 TT
17813624 CATTTATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
TTATTGTTATTAAATA
Found at i:17818494 original size:25 final size:26
Alignment explanation
Indices: 17818445--17818501 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
17818435 CCGTTAAGAT
*
17818445 TTTTGACAATTTTACCCTCGGTAAAA
1 TTTTGACAATTTTACCCTCGATAAAA
*
17818471 TTTTGACCATTTTA-CCTCGATAAAA
1 TTTTGACAATTTTACCCTCGATAAAA
17818496 TTTTGA
1 TTTTGA
17818502 GAAAATTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.42
Consensus pattern (26 bp):
TTTTGACAATTTTACCCTCGATAAAA
Found at i:17822350 original size:21 final size:21
Alignment explanation
Indices: 17822326--17822388 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
17822316 CACTTAATTT
17822326 TTAAAAGTTATGTAATAATCA
1 TTAAAAGTTATGTAATAATCA
* * *
17822347 TT-AACGCTTTTG-AAT--T-T
1 TTAAAAG-TTATGTAATAATCA
17822364 TTAAAAGTTATGTAATAATCA
1 TTAAAAGTTATGTAATAATCA
17822385 TTAA
1 TTAA
17822389 CGCTTTTGAG
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
17 6 0.20
18 7 0.23
20 7 0.23
21 10 0.33
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (21 bp):
TTAAAAGTTATGTAATAATCA
Found at i:17822372 original size:38 final size:38
Alignment explanation
Indices: 17822321--17822397 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
17822311 TTTTTCACTT
17822321 AATTTTTAAAAGTTATGTAATAATCATTAACGCTTTTG
1 AATTTTTAAAAGTTATGTAATAATCATTAACGCTTTTG
17822359 AATTTTTAAAAGTTATGTAATAATCATTAACGCTTTTG
1 AATTTTTAAAAGTTATGTAATAATCATTAACGCTTTTG
17822397 A
1 A
17822398 GTTATTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (38 bp):
AATTTTTAAAAGTTATGTAATAATCATTAACGCTTTTG
Found at i:17832728 original size:15 final size:16
Alignment explanation
Indices: 17832705--17832734 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17832695 AAATAAAGGT
17832705 TAAATTGGTAAATAAG
1 TAAATTGGTAAATAAG
17832721 TAAA-TGGTAAATAA
1 TAAATTGGTAAATAA
17832735 AATTTATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (16 bp):
TAAATTGGTAAATAAG
Found at i:17834204 original size:95 final size:94
Alignment explanation
Indices: 17834020--17834195 Score: 277
Period size: 95 Copynumber: 1.9 Consensus size: 94
17834010 ATTTAATCAA
17834020 TAAAAAAACATATATATATATACATACATATATAAATATAGAAAAATATTCCTTAGAGAAAAAAA
1 TAAAAAAACATATATATATATACATACATATATAAATATAGAAAAATATTCCTTAGAGAAAAAAA
*
17834085 TAAATATATATACATGTACATATAATTTT
66 TAAATATACATACATGTACATATAATTTT
* **
17834114 TAAAGAAAACATATATATATATATATACATATAT-AATATAGAAAAATATTTGTT-G-GAAGAAA
1 TAAA-AAAACATATATATATATACATACATATATAAATATAGAAAAATATTCCTTAGAGAA-AAA
17834176 AATAAATATACATACATGTA
64 AATAAATATACATACATGTA
17834196 TGTATATAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
92 3 0.04
93 23 0.30
94 22 0.29
95 28 0.37
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (94 bp):
TAAAAAAACATATATATATATACATACATATATAAATATAGAAAAATATTCCTTAGAGAAAAAAA
TAAATATACATACATGTACATATAATTTT
Found at i:17834261 original size:2 final size:2
Alignment explanation
Indices: 17834256--17834288 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17834246 AAAATATGCG
17834256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17834289 GGAAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17836099 original size:44 final size:44
Alignment explanation
Indices: 17836051--17836168 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 44
17836041 TATTCTGTCT
* * *
17836051 GCTCCACTACAACTTCAGAGAGATAAGATT-T-GTGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATTATAG-G-CTTAAATCC
* * *
17836095 GCTCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTAAATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTAAATCC
17836139 GCTCCACTGCAACTTCAGAGAGATAAGATT
1 GCTCCACTGCAACTTCAGAGAGATAAGATT
17836169 CGCCATTTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 61 0.95
45 2 0.03
46 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTAAATCC
Found at i:17836112 original size:88 final size:89
Alignment explanation
Indices: 17835984--17836233 Score: 274
Period size: 88 Copynumber: 2.8 Consensus size: 89
17835974 GCCAATGGAA
* * * *
17835984 ATAAGATTTGCCATTTTGAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCTGT
1 ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCAGT
17836049 CTGCTCCACTACAACTTCAGAGAG
66 CTGCTCCACTACAACTTCAGAGAG
* ** * * * * *
17836073 ATAAGATTTGTGATTTT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTA--TAGGCTTA
1 ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTA---TTC
* *
17836134 AATCTGCTCCACTGCAACTTCAGAGAG
63 AGTCTGCTCCACTACAACTTCAGAGAG
** * * *
17836161 ATAAGATTCGCCATTTTGGGTCTGCCCCACTACAACTTCAGGGGGATAAGACCTGCTTATTCAGT
1 ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCAGT
17836226 CTGCTCCA
66 CTGCTCCA
17836234 TATACATAGA
Statistics
Matches: 128, Mismatches: 26, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
85 2 0.02
87 2 0.02
88 68 0.53
89 53 0.41
90 1 0.01
92 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (89 bp):
ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCAGT
CTGCTCCACTACAACTTCAGAGAG
Found at i:17836637 original size:18 final size:18
Alignment explanation
Indices: 17836616--17836662 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17836606 AAACATGCGT
**
17836616 ATATATATATGGAAATAA
1 ATATATATATAAAAATAA
*
17836634 ATATATACATAAAAATAA
1 ATATATATATAAAAATAA
*
17836652 ATATACATATA
1 ATATATATATA
17836663 TATATAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (18 bp):
ATATATATATAAAAATAA
Found at i:17838392 original size:44 final size:44
Alignment explanation
Indices: 17838344--17838461 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
17838334 TATTCTGTCT
* * * *
17838344 GCTCCACTACAACTTCAGAAAGATAAGATT-T-GTGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATTATAG-G-CTTAAATCC
* * *
17838388 GCTCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTAAATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTAAATCC
17838432 GCTCCACTGCAACTTCAGAGAGATAAGATT
1 GCTCCACTGCAACTTCAGAGAGATAAGATT
17838462 CGCCATTTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 60 0.95
45 2 0.03
46 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTAAATCC
Found at i:17838405 original size:88 final size:89
Alignment explanation
Indices: 17838277--17838526 Score: 265
Period size: 88 Copynumber: 2.8 Consensus size: 89
17838267 GCCAATGGAA
* * * * *
17838277 ATAAGATTTGCCATTTTGAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCTGT
1 ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACTTACTTATTCAGT
17838342 CTGCTCCACTACAACTTCAGAAAG
66 CTGCTCCACTACAACTTCAGAAAG
* ** * * * *
17838366 ATAAGATTTGTGATTTT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTA--TAGGCTTA
1 ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACTTACTTA---TTC
* * *
17838427 AATCTGCTCCACTGCAACTTCAGAGAG
63 AGTCTGCTCCACTACAACTTCAGAAAG
** * * *
17838454 ATAAGATTCGCCATTTTGGGTCTGCCCCACTACAACTTCAGGGGGATAAGACTTGCTTATTCAGT
1 ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACTTACTTATTCAGT
17838519 CTGCTCCA
66 CTGCTCCA
17838527 TATACATAGA
Statistics
Matches: 128, Mismatches: 26, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
85 2 0.02
87 2 0.02
88 67 0.52
89 53 0.41
90 2 0.02
92 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (89 bp):
ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACTTACTTATTCAGT
CTGCTCCACTACAACTTCAGAAAG
Found at i:17838931 original size:18 final size:18
Alignment explanation
Indices: 17838910--17838956 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17838900 AAACATGCGT
**
17838910 ATATATATATGGAAATAA
1 ATATATATATAAAAATAA
*
17838928 ATATATACATAAAAATAA
1 ATATATATATAAAAATAA
*
17838946 ATATACATATA
1 ATATATATATA
17838957 TATATAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (18 bp):
ATATATATATAAAAATAA
Found at i:17840688 original size:44 final size:44
Alignment explanation
Indices: 17840640--17840757 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 44
17840630 TATTCTGTCT
* * *
17840640 GCTCCACTACAACTTCAGAGAGATAAGATT-T-GTGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATTATAG-G-CTTAAATCC
* * *
17840684 GCTCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTAAATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTAAATCC
17840728 GCTCCACTGCAACTTCAGAGAGATAAGATT
1 GCTCCACTGCAACTTCAGAGAGATAAGATT
17840758 CGCCATTTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 61 0.95
45 2 0.03
46 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTAAATCC
Found at i:17840701 original size:88 final size:89
Alignment explanation
Indices: 17840573--17840822 Score: 274
Period size: 88 Copynumber: 2.8 Consensus size: 89
17840563 GCCAATGGAA
* * * *
17840573 ATAAGATTTGCCATTTTGAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCTGT
1 ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCAGT
17840638 CTGCTCCACTACAACTTCAGAGAG
66 CTGCTCCACTACAACTTCAGAGAG
* ** * * * * *
17840662 ATAAGATTTGTGATTTT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTA--TAGGCTTA
1 ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTA---TTC
* *
17840723 AATCTGCTCCACTGCAACTTCAGAGAG
63 AGTCTGCTCCACTACAACTTCAGAGAG
** * * *
17840750 ATAAGATTCGCCATTTTGGGTCTGCCCCACTACAACTTCAGGGGGATAAGACCTGCTTATTCAGT
1 ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCAGT
17840815 CTGCTCCA
66 CTGCTCCA
17840823 TATACATAGA
Statistics
Matches: 128, Mismatches: 26, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
85 2 0.02
87 2 0.02
88 68 0.53
89 53 0.41
90 1 0.01
92 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (89 bp):
ATAAGATTCGCCATTTTGAATCCGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCAGT
CTGCTCCACTACAACTTCAGAGAG
Found at i:17841227 original size:18 final size:18
Alignment explanation
Indices: 17841206--17841252 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17841196 AAACATGCGT
**
17841206 ATATATATATGGAAATAA
1 ATATATATATAAAAATAA
*
17841224 ATATATACATAAAAATAA
1 ATATATATATAAAAATAA
*
17841242 ATATACATATA
1 ATATATATATA
17841253 TATATAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (18 bp):
ATATATATATAAAAATAA
Found at i:17842974 original size:89 final size:88
Alignment explanation
Indices: 17842869--17843258 Score: 348
Period size: 89 Copynumber: 4.5 Consensus size: 88
17842859 GCCAATGGAA
* * * *
17842869 ATAAGATTTGCCATTTTGAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCTGT
1 ATAAGATTTGTCATTTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTAC-TATTCAGT
*
17842934 CTGCTCCACTACAACTTCAGAGAG
65 CTGCTCCACTGCAACTTCAGAGAG
* * * * * *
17842958 ATAAGATTTGTGATTTT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTA-TAGGCTTAA
1 ATAAGATTTGTCATTTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTACTA---TTCA
*
17843020 ATCTGCTCCACTGCAACTTCAGAGAG
63 GTCTGCTCCACTGCAACTTCAGAGAG
* * * * * * *
17843046 ATAAGATTCGCCATTTTGGGTCTGCCCCACTACAACTTCAGGGGGATAAGACCTGCTTATTCAGT
1 ATAAGATTTGTCATTTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTAC-TATTCAGT
*
17843111 CTGCTCCACTGCAACTTCAGGGAG
65 CTGCTCCACTGCAACTTCAGAGAG
* * * * * * * *
17843135 ATAAGACTCG-CTTTCTTGGGTCTGCTCCATTGCAACTTCAGTGAGATAAGACC--CAATGTGA-
1 ATAAGATTTGTCATT-TTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTACTAT-TCAG
*
17843196 TCTGCT-CTCTGCAACTTCAGAGAG
64 TCTGCTCCACTGCAACTTCAGAGAG
* * * **
17843220 ATAAGATCTGTGATTTT-AATCCACTCCACTGCAACTTCA
1 ATAAGATTTGTCATTTTGAGTCTGCTCCACTGCAACTTCA
17843259 AAGAGATAGG
Statistics
Matches: 243, Mismatches: 48, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
84 17 0.07
85 27 0.11
86 10 0.04
87 5 0.02
88 71 0.29
89 110 0.45
90 1 0.00
92 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (88 bp):
ATAAGATTTGTCATTTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTACTATTCAGTC
TGCTCCACTGCAACTTCAGAGAG
Found at i:17843256 original size:44 final size:44
Alignment explanation
Indices: 17842889--17843314 Score: 237
Period size: 44 Copynumber: 9.7 Consensus size: 44
17842879 CCATTTTGAG
* * * * * * * *
17842889 TCTGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATTCT-G
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAA
* *
17842933 TCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* * * * ** *
17842977 TCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATAGGCTTAAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGT-GATTTTAA
** **
17843021 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TCGCCATTTTGGG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGATTTT-AA
* * * * * * * *
17843066 TCTGCCCCACTACAACTTCAGGGGGATAAGACCTGCTTA-TTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-TGATTTTAA
* **
17843110 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTCGCT--TTCTTGGG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-G-TGATT-TT-AA
* * ** * * *
17843155 TCTGCTCCATTGCAACTTCAGTGAGATAAGA-C--CCAATGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
*
17843196 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
** * * * **
17843239 TCCACTCCACTGCAACTTCAAAGAGATAGGAT-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAA
* *
17843283 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT
17843315 TCGCCATCTT
Statistics
Matches: 294, Mismatches: 71, Indels: 34
0.74 0.18 0.09
Matches are distributed among these distances:
40 21 0.07
41 8 0.03
42 1 0.00
43 20 0.07
44 181 0.62
45 61 0.21
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
Found at i:17843350 original size:44 final size:44
Alignment explanation
Indices: 17843301--17843398 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
17843291 ACTGTAACTT
* *
17843301 CAGGGAGATAAGA-TTCGCCATCTTCAACCTATTCCACTGCTGAC
1 CAGGGAGATAAGACTT-ACAATCTTCAACCTATTCCACTGCTGAC
* * *
17843345 TAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGTC
1 CAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGAC
17843389 CAGGGAGATA
1 CAGGGAGATA
17843399 GGGCTGGGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 45 0.96
45 2 0.04
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (44 bp):
CAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGAC
Found at i:17843574 original size:44 final size:44
Alignment explanation
Indices: 17843521--17843664 Score: 137
Period size: 44 Copynumber: 3.3 Consensus size: 44
17843511 ATTGTCGGTG
17843521 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * ** * * ****
17843565 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
*
17843609 CAGGAAGGCAAGATCTGCAATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
*
17843653 CAGGGAGGCAAG
1 CAGGAAGGCAAG
17843665 GCTGGTGTCA
Statistics
Matches: 70, Mismatches: 28, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
43 18 0.26
44 35 0.50
45 17 0.24
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.23
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
Found at i:17843634 original size:176 final size:176
Alignment explanation
Indices: 17843400--17843981 Score: 680
Period size: 176 Copynumber: 3.3 Consensus size: 176
17843390 AGGGAGATAG
* * * * * * * ** *
17843400 GGCTGGGGTCATCGATCTGCTTTGCTGTCGGTGCAGGAAAGTAAAATCTATTATTTTTAACCTGT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * * * *
17843465 TTCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTACGATCTGCTTCATTGTCGGTGCAGGAAGGC
66 TCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTACGATCTGCTTCGTTGTCAGTACAGGAAGGC
* *
17843530 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAA
131 AAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAA
* *
17843576 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
17843641 TCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC-ATTGATCTGCTTCGTTGTCAATACAGGAAGG
66 TCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTA-CGATCTGCTTCGTTGTCAGTACAGGAAGG
* * * ** * *
17843705 CAAGGTCTGTTATCTTCAGTCTGCTCCACTGCAACCTAGGAAGGCAA
130 CAAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAA
* ** * * **
17843752 GACTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * * ** * * * * * * *
17843817 TCCACTGTAATCTTGGGAGGCAAGACTGGTGTCTTCGATTTGCTTTGTTGTCTGTACAAGAAGGT
66 TCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTACGATCTGCTTCGTTGTCAGTACAGGAAGGC
* *
17843882 AAGATCTGCTATTTTCAACTTGCTCCACTGCAACCGAGGGAGGCAA
131 AAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAA
* * *
17843928 GGCTGGTGTCTTTGATCTGCTTCGCTGGCCGTACAGGAAGGCAAGATCTGCTAT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTAT
17843982 CTTCAATGAT
Statistics
Matches: 342, Mismatches: 62, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
175 1 0.00
176 341 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (176 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTACGATCTGCTTCGTTGTCAGTACAGGAAGGC
AAGATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAA
Found at i:17843706 original size:44 final size:43
Alignment explanation
Indices: 17843565--17843796 Score: 148
Period size: 44 Copynumber: 5.3 Consensus size: 43
17843555 CGCTGCAACC
* ** *
17843565 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTT-GATCTGCTTCGCTGTCAATA
* * * * * * **
17843609 CAGGAAGGCAAGATCTGCAAT-TTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG-GCTG--GTGTCTTGATCTGCTTCGCTGTCAATA
* *
17843653 CAGGGAGGCAAGGCTGGTGTCATTGATCTGCTTCGTTGTCAATA
1 CAGGAAGGCAAGGCTGGTGTC-TTGATCTGCTTCGCTGTCAATA
* * * * * *
17843697 CAGGAAGGCAAGGTCTGTTATCTTCAGTCTGCTCCACTG-CAA-C
1 CAGGAAGGCAAGG-CTGGTGTCTTGA-TCTGCTTCGCTGTCAATA
* * *
17843740 CTAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTTAGTA
1 C-AGGAAGGCAAGGCTGGTGTCTT-GATCTGCTTCGCTGTCAATA
17843785 CAGGAAGGCAAG
1 CAGGAAGGCAAG
17843797 ATCTGCTATC
Statistics
Matches: 138, Mismatches: 38, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 34 0.25
44 68 0.49
45 30 0.22
46 3 0.02
47 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (43 bp):
CAGGAAGGCAAGGCTGGTGTCTTGATCTGCTTCGCTGTCAATA
Found at i:17843819 original size:264 final size:264
Alignment explanation
Indices: 17843469--17843986 Score: 685
Period size: 264 Copynumber: 2.0 Consensus size: 264
17843459 ACCTGTTTCG
* * * * *
17843469 CTGCAACCCAGGGAGGCAAGGCTAGTGTCTACGATCTGCTTCATTGTCGGTGCAGGAAGGCAAGA
1 CTGCAACCCAGGAAGGCAAGACTAGTGTCTACGATCTGCTTCACTGTCAGTACAGGAAGGCAAGA
* * * *
17843534 TCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC
66 TCTGCTATCTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTC
* * * *
17843599 GCTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAA
131 GCTGTCGGTACAAGAAGGCAAGATCTGCAATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAA
* * * *
17843664 GGCTGGTGTCATTGATCTGCTTCGTTGTCAATACAGGAAGGCAAGGTCTGTTATCTTCAGTCTGC
196 GGCTGGTGTCATTGATCTGCTTCGCTGGCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
17843729 TCCA
261 TCCA
* * * * *
17843733 CTGCAACCTAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGA
1 CTGCAACCCAGGAAGGCAAGACTAGTGTCTACGATCTGCTTCACTGTCAGTACAGGAAGGCAAGA
** * * ** * *
17843798 TCTGCTATCTTCAGTCTGCTCCACTGTAATCTTGGGAGGCAAGACTGGTGTCTTCGATTTGCTTT
66 TCTGCTATCTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTC
* * * * * *
17843863 GTTGTCTGTACAAGAAGGTAAGATCTGCTATTTTCAACTTGCTCCACTGCAACCGAGGGAGGCAA
131 GCTGTCGGTACAAGAAGGCAAGATCTGCAATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAA
* **
17843928 GGCTGGTGTCTTTGATCTGCTTCGCTGGCCGTACAGGAAGGCAAGATCTGCTATCTTCA
196 GGCTGGTGTCATTGATCTGCTTCGCTGGCAATACAGGAAGGCAAGATCTGCTATCTTCA
17843987 ATGATCTGTT
Statistics
Matches: 215, Mismatches: 39, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
264 215 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (264 bp):
CTGCAACCCAGGAAGGCAAGACTAGTGTCTACGATCTGCTTCACTGTCAGTACAGGAAGGCAAGA
TCTGCTATCTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTC
GCTGTCGGTACAAGAAGGCAAGATCTGCAATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAA
GGCTGGTGTCATTGATCTGCTTCGCTGGCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
TCCA
Found at i:17843838 original size:44 final size:44
Alignment explanation
Indices: 17843698--17843841 Score: 141
Period size: 44 Copynumber: 3.3 Consensus size: 44
17843688 TTGTCAATAC
* * * *
17843698 AGGAAGGCAAGGTCTGTTATCTTCAGTCTGCTCCACTGCAACCT
1 AGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTAATCT
* * * * *
17843742 AGGAAGGCAAGA-CTGGTGTCTTC-GATCTGCTTCGCTGTTAGTAC-
1 AGGAAGGCAAGATCTGCTATCTTCAG-TCTGCTCCACTG-TAAT-CT
17843786 AGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTAATCT
1 AGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTAATCT
* *
17843830 TGGGAGGCAAGA
1 AGGAAGGCAAGA
17843842 CTGGTGTCTT
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
42 1 0.01
43 20 0.25
44 37 0.47
45 20 0.25
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (44 bp):
AGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTAATCT
Found at i:17843987 original size:88 final size:88
Alignment explanation
Indices: 17843469--17843987 Score: 603
Period size: 88 Copynumber: 5.9 Consensus size: 88
17843459 ACCTGTTTCG
* * ** * *
17843469 CTGCAACCCAGGGAGGCAAGGCTAGTGTCTACGATCTGCTTCATTGTCGGTGCAGGAAGGCAAGA
1 CTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
* * * *
17843534 TCTGCTATTTTTAACCTGCTCCG
66 TCTGCTATCTTCAACTTGCTCCA
* *
17843557 CTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGA
1 CTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
* * * * *
17843622 TCTGCAATTTTTAACCTGCTCCG
66 TCTGCTATCTTCAACTTGCTCCA
* *
17843645 CTGCAACCCAGGGAGGCAAGGCTGGTGTCATT-GATCTGCTTCGTTGTCAATACAGGAAGGCAAG
1 CTGCAACCCAGGGAGGCAAGGCTGGTGTC-TTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
* * *
17843709 GTCTGTTATCTTC-AGTCTGCTCCA
65 ATCTGCTATCTTCAACT-TGCTCCA
* * * *
17843733 CTGCAACCTAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGA
1 CTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
*
17843798 TCTGCTATCTTC-AGTCTGCTCCA
66 TCTGCTATCTTCAACT-TGCTCCA
* * ** * * * * * * *
17843821 CTGTAATCTTGGGAGGCAAGACTGGTGTCTTCGATTTGCTTTGTTGTCTGTACAAGAAGGTAAGA
1 CTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
*
17843886 TCTGCTATTTTCAACTTGCTCCA
66 TCTGCTATCTTCAACTTGCTCCA
* * * *
17843909 CTGCAACCGAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGGCCGTACAGGAAGGCAAGA
1 CTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
17843974 TCTGCTATCTTCAA
66 TCTGCTATCTTCAA
17843988 TGATCTGTTC
Statistics
Matches: 375, Mismatches: 52, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
87 3 0.01
88 368 0.98
89 4 0.01
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
CTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
TCTGCTATCTTCAACTTGCTCCA
Found at i:17845351 original size:14 final size:15
Alignment explanation
Indices: 17845328--17845360 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17845318 ATCGATGCTT
17845328 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
17845342 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
17845357 TTCC
1 TTCC
17845361 CAACTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:17846231 original size:26 final size:27
Alignment explanation
Indices: 17846179--17846234 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
17846169 AAGAAAATCC
* **
17846179 AAAAGAATGAAAGAATAATTATTTCAA
1 AAAAGAATGAAAAAATAATTAGCTCAA
*
17846206 AAAAGAATGAAAAAAT-ATTGGCTCAA
1 AAAAGAATGAAAAAATAATTAGCTCAA
17846232 AAA
1 AAA
17846235 TAAATGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.21
Consensus pattern (27 bp):
AAAAGAATGAAAAAATAATTAGCTCAA
Found at i:17850456 original size:95 final size:94
Alignment explanation
Indices: 17850272--17850447 Score: 277
Period size: 95 Copynumber: 1.9 Consensus size: 94
17850262 ATTTAATCAA
17850272 TAAAAAAACATATATATATATACATACATATATAAATATAGAAAAATATTCCTTAGAGAAAAAAA
1 TAAAAAAACATATATATATATACATACATATATAAATATAGAAAAATATTCCTTAGAGAAAAAAA
*
17850337 TAAATATATATACATGTACATATAATTTT
66 TAAATATACATACATGTACATATAATTTT
* **
17850366 TAAAGAAAACATATATATATATATATACATATAT-AATATAGAAAAATATTTGTT-G-GAAGAAA
1 TAAA-AAAACATATATATATATACATACATATATAAATATAGAAAAATATTCCTTAGAGAA-AAA
17850428 AATAAATATACATACATGTA
64 AATAAATATACATACATGTA
17850448 TGTATATAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
92 3 0.04
93 23 0.30
94 22 0.29
95 28 0.37
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (94 bp):
TAAAAAAACATATATATATATACATACATATATAAATATAGAAAAATATTCCTTAGAGAAAAAAA
TAAATATACATACATGTACATATAATTTT
Found at i:17852782 original size:24 final size:24
Alignment explanation
Indices: 17852744--17852797 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
17852734 ATCCAAGCAA
* * *
17852744 GCTTTGTGCCGGTGTATTTATTGG
1 GCTTTGGGCCAGTGTATTTATCGG
*
17852768 GCTTTGGGCCAGTGTGTTTATCGG
1 GCTTTGGGCCAGTGTATTTATCGG
17852792 GCTTTG
1 GCTTTG
17852798 TGCCTAGCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.07, C:0.15, G:0.35, T:0.43
Consensus pattern (24 bp):
GCTTTGGGCCAGTGTATTTATCGG
Found at i:17853222 original size:13 final size:13
Alignment explanation
Indices: 17853204--17853249 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
17853194 GAACTTTGTT
17853204 ATTTAATTTTATA
1 ATTTAATTTTATA
17853217 ATTTAATTTT-T-
1 ATTTAATTTTATA
17853228 ATTTAATTTTATA
1 ATTTAATTTTATA
*
17853241 ATTTTATTT
1 ATTTAATTT
17853250 GTTATGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.33
12 2 0.07
13 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTAATTTTATA
Found at i:17853234 original size:24 final size:25
Alignment explanation
Indices: 17853198--17853263 Score: 107
Period size: 24 Copynumber: 2.6 Consensus size: 25
17853188 GGATAGGAAC
17853198 TTTGTTATTTAATTTTATAATTTAA
1 TTTGTTATTTAATTTTATAATTTAA
*
17853223 TTT-TTATTTAATTTTATAATTTTA
1 TTTGTTATTTAATTTTATAATTTAA
17853247 TTTGTTATGTTAATTTT
1 TTTGTTAT-TTAATTTT
17853264 TGTAAGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
24 23 0.61
25 7 0.18
26 8 0.21
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (25 bp):
TTTGTTATTTAATTTTATAATTTAA
Found at i:17853262 original size:13 final size:11
Alignment explanation
Indices: 17853202--17853264 Score: 63
Period size: 13 Copynumber: 5.2 Consensus size: 11
17853192 AGGAACTTTG
17853202 TTATTTAATTT
1 TTATTTAATTT
17853213 TATAATTTAATTT
1 T-T-ATTTAATTT
17853226 TTATTTAATTT
1 TTATTTAATTT
*
17853237 TATAATTTTATTT
1 T-T-ATTTAATTT
17853250 GTTATGTTAATTT
1 -TTAT-TTAATTT
17853263 TT
1 TT
17853265 GTAAGATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
11 11 0.25
12 7 0.16
13 25 0.57
14 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTATTTAATTT
Found at i:17862734 original size:48 final size:48
Alignment explanation
Indices: 17862659--17862804 Score: 177
Period size: 48 Copynumber: 3.1 Consensus size: 48
17862649 TACTATGCGT
* * * *
17862659 ACCGATAATCTGTTATGACACACGGGTGGGACGGTCTGTGTGCAAGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * *
17862707 ACCGATATTCTGTTGTGACACAAGGGTGGCACGGACTATGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * * *
17862755 ACCAAGAATCTGTTATTACACGA-GGTGGTACGGACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
17862802 ACC
1 ACC
17862805 AAGAAATTTG
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 25 0.30
48 58 0.70
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (48 bp):
ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
Found at i:17872003 original size:21 final size:22
Alignment explanation
Indices: 17871962--17872004 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17871952 TCAAGCTCTT
17871962 CAATGCAATGTTCTGAAAATAC
1 CAATGCAATGTTCTGAAAATAC
17871984 CAATGCAATGTTCT-AAAATAC
1 CAATGCAATGTTCTGAAAATAC
17872005 AACTAAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (22 bp):
CAATGCAATGTTCTGAAAATAC
Found at i:17897350 original size:18 final size:17
Alignment explanation
Indices: 17897327--17897362 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17897317 ATAACCAACG
*
17897327 AATAAAAATAACTAAAAA
1 AATAAAAA-AAATAAAAA
17897345 AATAAAAAAAATAAAAA
1 AATAAAAAAAATAAAAA
17897362 A
1 A
17897363 TGAATCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AATAAAAAAAATAAAAA
Found at i:17900863 original size:16 final size:16
Alignment explanation
Indices: 17900844--17900880 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17900834 TATTTTATTA
*
17900844 TTTTATTATTCCGAAT
1 TTTTATTATTCCAAAT
*
17900860 TTTTATTATTCTAAAT
1 TTTTATTATTCCAAAT
17900876 TTTTA
1 TTTTA
17900881 ATAATTATTA
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:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTATTATTCCAAAT
Found at i:17903548 original size:18 final size:19
Alignment explanation
Indices: 17903505--17903542 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17903495 TAACATATAG
17903505 TTAAT-AATTTTAAAATTT
1 TTAATAAATTTTAAAATTT
*
17903523 TTAATAAATTTTTAAATTT
1 TTAATAAATTTTAAAATTT
17903542 T
1 T
17903543 ACTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAATAAATTTTAAAATTT
Found at i:17911079 original size:32 final size:32
Alignment explanation
Indices: 17911038--17911102 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
17911028 CAACCCATAA
*
17911038 TACCTAGATCCTATCTAAAAATGCGTTACAAG
1 TACCTAGATCCTATCTAAAAAAGCGTTACAAG
17911070 TACCTAGATCCTATCTAAAAAAGCGTTACAAG
1 TACCTAGATCCTATCTAAAAAAGCGTTACAAG
17911102 T
1 T
17911103 TTATCAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (32 bp):
TACCTAGATCCTATCTAAAAAAGCGTTACAAG
Found at i:17911536 original size:49 final size:49
Alignment explanation
Indices: 17911464--17911562 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
17911454 CCTATAATTC
17911464 AATACAAATAAAAAATAACCCAACACTAAGCCATATATTGAATCCAACT
1 AATACAAATAAAAAATAACCCAACACTAAGCCATATATTGAATCCAACT
*
17911513 AATACAAATAAATAATAACCCAACACTAAGCCATATATTGAATCCAACT
1 AATACAAATAAAAAATAACCCAACACTAAGCCATATATTGAATCCAACT
17911562 A
1 A
17911563 GTAATAACAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.53, C:0.22, G:0.04, T:0.21
Consensus pattern (49 bp):
AATACAAATAAAAAATAACCCAACACTAAGCCATATATTGAATCCAACT
Found at i:17911560 original size:24 final size:24
Alignment explanation
Indices: 17911483--17911560 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
17911473 AAAAAATAAC
17911483 CCAACACTAAGCCATATATTGAAT
1 CCAACACTAAGCCATATATTGAAT
* *** * * *
17911507 CCAACTAATACAAATAAATAAT-AAC
1 CCAAC-ACTA-AGCCATATATTGAAT
17911532 CCAACACTAAGCCATATATTGAAT
1 CCAACACTAAGCCATATATTGAAT
17911556 CCAAC
1 CCAAC
17911561 TAGTAATAAC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
23 6 0.16
24 15 0.41
25 10 0.27
26 6 0.16
ACGTcount: A:0.47, C:0.26, G:0.05, T:0.22
Consensus pattern (24 bp):
CCAACACTAAGCCATATATTGAAT
Found at i:17911575 original size:49 final size:49
Alignment explanation
Indices: 17911464--17911577 Score: 176
Period size: 49 Copynumber: 2.3 Consensus size: 49
17911454 CCTATAATTC
* *
17911464 AATACAAATAAAAAATAACCCAACACTAAGCCATATATTGAATCCAACT
1 AATACAAACAAATAATAACCCAACACTAAGCCATATATTGAATCCAACT
*
17911513 AATACAAATAAATAATAACCCAACACTAAGCCATATATTGAATCCAACT
1 AATACAAACAAATAATAACCCAACACTAAGCCATATATTGAATCCAACT
*
17911562 AGTA-ATAACAAATAAT
1 AATACA-AACAAATAAT
17911578 GAGGGAATTC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 1 0.02
49 60 0.98
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (49 bp):
AATACAAACAAATAATAACCCAACACTAAGCCATATATTGAATCCAACT
Found at i:17911812 original size:22 final size:22
Alignment explanation
Indices: 17911784--17911841 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
17911774 TTTATTGTTC
17911784 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
*
17911806 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTG
**
17911828 AGCCATGAGAGCTT
1 AAACATGAGAGCTT
17911842 CACACAGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:17918027 original size:54 final size:54
Alignment explanation
Indices: 17917939--17918053 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
17917929 TTCAATCTGC
* *
17917939 TCCACTGCAACTTCAGAAAGATAAGATCTGTCATAATTTGTTACTTTAATCAGT
1 TCCACTGCAACTTCAGAAAGATAAGATCTATCATAATTTGTTACATTAATCAGT
* * * *
17917993 TCCATTGCAACTTTAGGAAGATAAGATCTATCATAATTTGTTGCATTAATCAGT
1 TCCACTGCAACTTCAGAAAGATAAGATCTATCATAATTTGTTACATTAATCAGT
17918047 TCCACTG
1 TCCACTG
17918054 TAATGCCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (54 bp):
TCCACTGCAACTTCAGAAAGATAAGATCTATCATAATTTGTTACATTAATCAGT
Found at i:17918150 original size:197 final size:197
Alignment explanation
Indices: 17917813--17918185 Score: 570
Period size: 197 Copynumber: 1.9 Consensus size: 197
17917803 CGACTTCAGA
* * * *
17917813 AAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAATGCTAGGGAAATAAGATT
1 AAGATAAGATCCACCATAATTTGTAGCATTAATCAGTTCCACTGCAATGCCAGGGAAATAAGATT
* * **
17917878 CTCTGTCTTCAGTCTACTCTGCTACAACATTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCA
66 CACTGTCTTCAGTCTACTCCGCTACAACATTAGGGAGATAACACTGGTGGCTTCAATCTGCTCCA
* *
17917943 CTGCAACTTCAGAAAGATAAGATCTGTCATAATTTGTTA-CTTTAATCAGTTCCATTGCAACTTT
131 CTGAAACTTCAGAAAGATAAGATCTGTAATAATTTG-TAGCTTTAATCAGTTCCATTGCAACTTT
17918007 AGG
195 AGG
* * * *
17918010 AAGATAAGATCTATCATAATTTGTTGCATTAATCAGTTCCACTGTAATGCCAGGGAAATAAGATT
1 AAGATAAGATCCACCATAATTTGTAGCATTAATCAGTTCCACTGCAATGCCAGGGAAATAAGATT
* *
17918075 CACTGTCTTCAGTCTGCTCCGCTGCAAC-TTCAGGGAGATAACACTGGTGGCTTCAATCTGCTCC
66 CACTGTCTTCAGTCTACTCCGCTACAACATT-AGGGAGATAACACTGGTGGCTTCAATCTGCTCC
17918139 ACTGAAACTTCAGAAAGATAAGATCTGTAATAATTTGTAGCTTTAAT
130 ACTGAAACTTCAGAAAGATAAGATCTGTAATAATTTGTAGCTTTAAT
17918186 ATGTTCTGCT
Statistics
Matches: 158, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
196 4 0.03
197 154 0.97
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (197 bp):
AAGATAAGATCCACCATAATTTGTAGCATTAATCAGTTCCACTGCAATGCCAGGGAAATAAGATT
CACTGTCTTCAGTCTACTCCGCTACAACATTAGGGAGATAACACTGGTGGCTTCAATCTGCTCCA
CTGAAACTTCAGAAAGATAAGATCTGTAATAATTTGTAGCTTTAATCAGTTCCATTGCAACTTTA
GG
Found at i:17918268 original size:143 final size:143
Alignment explanation
Indices: 17917993--17918519 Score: 670
Period size: 143 Copynumber: 3.7 Consensus size: 143
17917983 TTTAATCAGT
* * * * * * * **
17917993 TCCATTGCAACTTTAGGAAGATAAGATCTA-TCATAATTTGTTGCATTAATCAGTTCCACTGTAA
1 TCCACTGCAACTTCAGAAAGATAAGAT-TAGCCATAATTTGTAGCTTTAATCTGTTCCACTACAA
* * * **
17918057 TGCCAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAACACTGG
65 CGCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGGCTGG
17918122 TGGCTTCAATCTGC
130 TGGCTTCAATCTGC
* ** * **
17918136 TCCACTGAAACTTCAGAAAGATAAGATCT-GTAATAATTTGTAGCTTTAATATGTTCTGCTACAA
1 TCCACTGCAACTTCAGAAAGATAAGAT-TAGCCATAATTTGTAGCTTTAATCTGTTCCACTACAA
* *
17918200 CGCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTTCGC-GACAACTTCAAGGAGATAAGGCTA
65 CGCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTG-CAACTTCAAGGAGATAAGGCTG
17918264 GTGGCTTCAATCTGC
129 GTGGCTTCAATCTGC
*
17918279 TCCATTGCAACTTCA-AGAAGATAAGATTAGCCATAATTTGTAGCTTTAATCTGTTCCACTACAA
1 TCCACTGCAACTTCAGA-AAGATAAGATTAGCCATAATTTGTAGCTTTAATCTGTTCCACTACAA
* * *
17918343 CGGC-AGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTGCAACTTC-AGGTAGATAAGGTT
65 C-GCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGG-AGATAAGGCT
17918406 GGTGGCTTCAATCTGC
128 GGTGGCTTCAATCTGC
* ** *
17918422 TCCACTGCAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGTAAT
1 TCCACTGCAACTTCAGAAAGATAAGATTAGCCATAATTTGTAGCTTTAATCTGTTCCACTACAAC
* *
17918487 GCTAGGGAAATAAGATTCGCCGTCTTCAGTCTG
66 GCTAGGGAAATAAGATTCACTGTCTTCAGTCTG
17918520 TTTCGCTAGA
Statistics
Matches: 336, Mismatches: 39, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
142 8 0.02
143 324 0.96
144 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (143 bp):
TCCACTGCAACTTCAGAAAGATAAGATTAGCCATAATTTGTAGCTTTAATCTGTTCCACTACAAC
GCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGT
GGCTTCAATCTGC
Found at i:17918337 original size:286 final size:286
Alignment explanation
Indices: 17917993--17918525 Score: 782
Period size: 286 Copynumber: 1.9 Consensus size: 286
17917983 TTTAATCAGT
* * * * ** *
17917993 TCCATTGCAACTTTAGGAAGATAAGATCTATCATAATTTGTTGCATTAATCAGTTCCACTGTAAT
1 TCCATTGCAACTTCAAGAAGATAAGATCTACCATAATTTGTAGCATTAATCAGTTCCACTACAAC
*
17918058 GCCAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAACACTGGT
66 GCCAGGGAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAACACTGGT
*
17918123 GGCTTCAATCTGCTCCACTGAAACTTCAGAAAGATAAGA-TCTGTAATAATTTGTAGCTTTAATA
131 GGCTTCAATCTGCTCCACTGAAACTTCAGAAAGATAAGATTC-GCAATAATTTGTAGCTTTAATA
** *
17918187 TGTTCTGCTACAACGCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTTCGCGACAACTTCAAG
195 TGTTCCACTACAACGCTAGGGAAATAAGATTCACCGTCTTCAGTCTGCTTCGCGACAACTTCAAG
17918252 GAGATAAGGCTAGTGGCTTCAATCTGC
260 GAGATAAGGCTAGTGGCTTCAATCTGC
* *
17918279 TCCATTGCAACTTCAAGAAGATAAGAT-TAGCCATAATTTGTAGCTTTAATCTGTTCCACTACAA
1 TCCATTGCAACTTCAAGAAGATAAGATCTA-CCATAATTTGTAGCATTAATCAGTTCCACTACAA
* * * ***
17918343 CGGCAGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTGCAACTTCAGGTAGATAAGGTTGG
65 CGCCAGGGAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAACACTGG
* * *
17918408 TGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATC
130 TGGCTTCAATCTGCTCCACTGAAACTTCAGAAAGATAAGATTCGCAATAATTTGTAGCTTTAATA
** * * *
17918473 TGTTCCACTGTAATGCTAGGGAAATAAGATTCGCCGTCTTCAGTCTGTTTCGC
195 TGTTCCACTACAACGCTAGGGAAATAAGATTCACCGTCTTCAGTCTGCTTCGC
17918526 TAGAGATAAG
Statistics
Matches: 217, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
285 2 0.01
286 213 0.98
287 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (286 bp):
TCCATTGCAACTTCAAGAAGATAAGATCTACCATAATTTGTAGCATTAATCAGTTCCACTACAAC
GCCAGGGAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAACACTGGT
GGCTTCAATCTGCTCCACTGAAACTTCAGAAAGATAAGATTCGCAATAATTTGTAGCTTTAATAT
GTTCCACTACAACGCTAGGGAAATAAGATTCACCGTCTTCAGTCTGCTTCGCGACAACTTCAAGG
AGATAAGGCTAGTGGCTTCAATCTGC
Found at i:17926484 original size:14 final size:14
Alignment explanation
Indices: 17926465--17926512 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
17926455 GAGTTATAAC
17926465 TATTTAAATAATAT
1 TATTTAAATAATAT
*
17926479 TATTTAAATAGTAT
1 TATTTAAATAATAT
*
17926493 AATATTAAATGAATAAT
1 TAT-TTAAAT-AAT-AT
17926510 TAT
1 TAT
17926513 GTTTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 15 0.56
15 6 0.22
16 2 0.07
17 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (14 bp):
TATTTAAATAATAT
Found at i:17931026 original size:32 final size:32
Alignment explanation
Indices: 17930990--17931051 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
17930980 ATTTTTTGAA
17930990 AAATAATTATAACTATTTAAAT-AAT-ATTATTT
1 AAATAATTATAA-TA-TTAAATGAATAATTATTT
*
17931022 AAATAGTTATAATATTAAATGAATAATTAT
1 AAATAATTATAATATTAAATGAATAATTAT
17931052 GTGTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 6 0.22
31 5 0.19
32 16 0.59
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (32 bp):
AAATAATTATAATATTAAATGAATAATTATTT
Found at i:17935508 original size:27 final size:27
Alignment explanation
Indices: 17935490--17935778 Score: 328
Period size: 27 Copynumber: 10.7 Consensus size: 27
17935480 AATGCCCCCA
* *
17935490 TAGGGTAAAATAACCGAAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * * *
17935517 TAAGGCATAAT-ACCGAAATACCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
* *
17935543 TAAGGTAAAATGATCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * *
17935570 TAGGGTAAAATGATCGTAATGCCCTTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * *
17935597 TAGGATAAAGTAACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* *
17935624 TAGGGTAAAATGTCCGTAATGCCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
17935651 TAGGGTAAAATGACCGTAATGCCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
17935678 TAGGATAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* *
17935705 TAGGGTAAAATGATCGTAATGCCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* ** * *
17935732 TACGGTAAAATGATGGTAATACCCTTA
1 TAGGGTAAAATGACCGTAATACCCCTG
*
17935759 TAGGGTAAAATGACAGTAAT
1 TAGGGTAAAATGACCGTAAT
17935779 GCCCTGGTGG
Statistics
Matches: 224, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.10
27 201 0.90
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:17935894 original size:24 final size:23
Alignment explanation
Indices: 17935819--17935900 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
17935809 CTCGAGGTCA
* *
17935819 AATGATT-ATTTTGTCTGTGGTTA
1 AATGATTGATTTT-TCTGTGTTTG
* *
17935842 AATGACTGATTTGTCTGTGTTTGG
1 AATGATTGATTTTTCTGTGTTT-G
*
17935866 TATGATTGATTTTTCTGTGATTTG
1 AATGATTGATTTTTCTGTG-TTTG
17935890 AATGATTGATT
1 AATGATTGATT
17935901 ATGAGGATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 14 0.29
24 31 0.65
25 3 0.06
ACGTcount: A:0.21, C:0.05, G:0.23, T:0.51
Consensus pattern (23 bp):
AATGATTGATTTTTCTGTGTTTG
Found at i:17936024 original size:27 final size:27
Alignment explanation
Indices: 17935972--17936036 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
17935962 AGTACTGTAT
* *
17935972 TGGTGGCTCTG-CACAATCACTGTTAC
1 TGGTGGCTTTGCCACAATCACTATTAC
17935998 TGGTGGCTTTGCCACATAT-ACTATTAC
1 TGGTGGCTTTGCCACA-ATCACTATTAC
**
17936025 TGGCAGCTTTGC
1 TGGTGGCTTTGC
17936037 TGCGATACTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.30
27 21 0.64
28 2 0.06
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TGGTGGCTTTGCCACAATCACTATTAC
Found at i:17936053 original size:26 final size:26
Alignment explanation
Indices: 17936015--17936065 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
17936005 TTTGCCACAT
17936015 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* * *
17936041 ATACTGTTGCTGGCAGTTTTGCTGC
1 ATACTATTACTGGCAGCTTTGCTGC
17936066 AATGCCACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:17936113 original size:32 final size:32
Alignment explanation
Indices: 17936072--17936307 Score: 198
Period size: 32 Copynumber: 7.4 Consensus size: 32
17936062 CTGCAATGCC
*
17936072 ACTGATGGCTTTGTGTCGATCATAGTACCGTT
1 ACTGATGGCTTTGTGCCGATCATAGTACCGTT
* *
17936104 ACTGATGGCTTTGTGCCAATCATAGTACCATT
1 ACTGATGGCTTTGTGCCGATCATAGTACCGTT
* * *
17936136 ACTGATGGCTTTGTGCTGATCATATTATCGTT
1 ACTGATGGCTTTGTGCCGATCATAGTACCGTT
* * * *
17936168 A-TCGATGGCTGTGTACCGATCAT-TTCACTGTT
1 ACT-GATGGCTTTGTGCCGATCATAGT-ACCGTT
* *
17936200 ACTGATGGCTGTGTGCC-AGTCATA-TCACTC-CT
1 ACTGATGGCTTTGTGCCGA-TCATAGT-AC-CGTT
* *
17936232 ACTGATGGCTTTATGCCGATCAT-GTTACTGTT
1 ACTGATGGCTTTGTGCCGATCATAG-TACCGTT
* * * *
17936264 GCTGATGGCTGTGTGCCGATCATA-TCACTGCT
1 ACTGATGGCTTTGTGCCGATCATAGT-ACCGTT
17936296 ACTGATGGCTTT
1 ACTGATGGCTTT
17936308 TTGCTAATCA
Statistics
Matches: 166, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
31 5 0.03
32 158 0.95
33 3 0.02
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (32 bp):
ACTGATGGCTTTGTGCCGATCATAGTACCGTT
Found at i:17936202 original size:64 final size:64
Alignment explanation
Indices: 17936072--17936336 Score: 211
Period size: 64 Copynumber: 4.2 Consensus size: 64
17936062 CTGCAATGCC
* * * * * **
17936072 ACTGATGGCTTTGTG-TCGATCATAGTACCGTTACTGATGGCTTTGTGCCAATCATAGTACCATT
1 ACTGATGGCTGTGTGCT-GATCATATTATCGTTACTGATGGCTTTGTGCCGATCATATTACTGTT
* * *
17936136 ACTGATGGCTTTGTGCTGATCATATTATCGTTA-TCGATGGCTGTGTACCGATCAT-TTCACTGT
1 ACTGATGGCTGTGTGCTGATCATATTATCGTTACT-GATGGCTTTGTGCCGATCATATT-ACTGT
17936199 T
64 T
* * * * *
17936200 ACTGATGGCTGTGTGC-CAGTCATATCACTC-CTACTGATGGCTTTATGCCGATCATGTTACTGT
1 ACTGATGGCTGTGTGCTGA-TCATATTA-TCGTTACTGATGGCTTTGTGCCGATCATATTACTGT
17936263 T
64 T
* * * * * ** *
17936264 GCTGATGGCTGTGTGCCGATCATATCA-CTGCTACTGATGGCTTTTTGCTAATCACATTACTG-T
1 ACTGATGGCTGTGTGCTGATCATATTATC-GTTACTGATGGCTTTGTGCCGATCATATTACTGTT
*
17936327 ACTTATGGCT
1 ACTGATGGCT
17936337 TGTAGCCATT
Statistics
Matches: 167, Mismatches: 24, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 12 0.07
64 147 0.88
65 7 0.04
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (64 bp):
ACTGATGGCTGTGTGCTGATCATATTATCGTTACTGATGGCTTTGTGCCGATCATATTACTGTT
Found at i:17936239 original size:96 final size:96
Alignment explanation
Indices: 17936073--17936305 Score: 260
Period size: 96 Copynumber: 2.4 Consensus size: 96
17936063 TGCAATGCCA
* ** * * *
17936073 CTGATGGCTTTGTGTCGATCATAGT-ACCGTTACTGATGGCTTTGTGCCAATCATAGTACCATTA
1 CTGATGGCTGTGTACCGATCATA-TCACTGTTACTGATGGCTGTGTGCCAATCATAGTACCACTA
* *
17936137 CTGATGGCTTTGTGCTGATCATATTA-TCGTT-
65 CTGATGGCTTTATGCCGATCATATTACT-GTTG
* * *
17936168 ATCGATGGCTGTGTACCGATCATTTCACTGTTACTGATGGCTGTGTGCCAGTCATA-TCACTC-C
1 CT-GATGGCTGTGTACCGATCATATCACTGTTACTGATGGCTGTGTGCCAATCATAGT-AC-CAC
*
17936231 TACTGATGGCTTTATGCCGATCATGTTACTGTTG
63 TACTGATGGCTTTATGCCGATCATATTACTGTTG
* *
17936265 CTGATGGCTGTGTGCCGATCATATCACTGCTACTGATGGCT
1 CTGATGGCTGTGTACCGATCATATCACTGTTACTGATGGCT
17936306 TTTTGCTAAT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
95 3 0.03
96 110 0.95
97 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (96 bp):
CTGATGGCTGTGTACCGATCATATCACTGTTACTGATGGCTGTGTGCCAATCATAGTACCACTAC
TGATGGCTTTATGCCGATCATATTACTGTTG
Found at i:17936354 original size:22 final size:21
Alignment explanation
Indices: 17936329--17936393 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
17936319 ATTACTGTAC
17936329 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* *
17936351 TTATAGCTTATAGCTA-TCTTGT
1 TTATGGCTT-TAGCCATTC-TGT
*
17936373 TTACGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
17936394 ACTATTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 29 0.85
23 3 0.09
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:17936416 original size:26 final size:26
Alignment explanation
Indices: 17936387--17936439 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17936377 GGCTCTTAGC
* * *
17936387 CATTCTGACTATTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAGCTATGCTG
*
17936413 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACTACTGGCAGCTATGCTG
17936439 C
1 C
17936440 GATATTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATGCTG
Found at i:17939256 original size:13 final size:13
Alignment explanation
Indices: 17939238--17939264 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17939228 TATTAATAGT
17939238 TCAATATTCAAAA
1 TCAATATTCAAAA
17939251 TCAATATTCAAAA
1 TCAATATTCAAAA
17939264 T
1 T
17939265 TTCTAGAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TCAATATTCAAAA
Found at i:17941668 original size:13 final size:13
Alignment explanation
Indices: 17941650--17941675 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17941640 ACCTTAAAAC
17941650 CTTCTTCCAATGT
1 CTTCTTCCAATGT
17941663 CTTCTTCCAATGT
1 CTTCTTCCAATGT
17941676 GAAACCTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
CTTCTTCCAATGT
Found at i:17945828 original size:11 final size:11
Alignment explanation
Indices: 17945814--17945844 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
17945804 AAAAACACTG
17945814 TTTTCACACCA
1 TTTTCACACCA
17945825 TTTTCACACCA
1 TTTTCACACCA
17945836 TTTTCACAC
1 TTTTCACAC
17945845 TACCTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (11 bp):
TTTTCACACCA
Found at i:17949827 original size:51 final size:48
Alignment explanation
Indices: 17949768--17949905 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 48
17949758 TTTTCAGTTC
* * *
17949768 ACATAGTAGCTTGCACATAGTACTACACACGTGATCGAAAC-TATCCGGT
1 ACATAGTAGCCTGCAAATAGTACTACACACGTGA-CCAAACAT-TCCGGT
* * * *
17949817 ATGCATAGTAGCCTGCATATAGTACTACACATGTGACCTATCATTCCGGT
1 A--CATAGTAGCCTGCAAATAGTACTACACACGTGACCAAACATTCCGGT
17949867 ACAAGTAGTAGCCTGCAAATAGTACTACACACGTGACCA
1 AC-A-TAGTAGCCTGCAAATAGTACTACACACGTGACCA
17949906 TCACTTTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
48 1 0.01
49 2 0.03
50 41 0.55
51 31 0.41
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (48 bp):
ACATAGTAGCCTGCAAATAGTACTACACACGTGACCAAACATTCCGGT
Found at i:17950392 original size:41 final size:41
Alignment explanation
Indices: 17950345--17950429 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
17950335 TTCATCGAAA
*
17950345 ATTACTTAGTACAAATCGTTTATCACACTCCAAACATTCAT
1 ATTACTTAGTACAAATCGTTTATCACACGCCAAACATTCAT
*
17950386 ATTACTTATTACAAATCGTTTATCACACGCCAAACATTCAT
1 ATTACTTAGTACAAATCGTTTATCACACGCCAAACATTCAT
17950427 ATT
1 ATT
17950430 CTTCCATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (41 bp):
ATTACTTAGTACAAATCGTTTATCACACGCCAAACATTCAT
Found at i:17965704 original size:51 final size:49
Alignment explanation
Indices: 17965624--17965769 Score: 164
Period size: 42 Copynumber: 3.1 Consensus size: 49
17965614 TCACTGTGAT
*
17965624 TTGCCTGTCCTATTTACATCTCATCGGAGGCTACACCATGAGTGTTCTTA
1 TTGCCTGT-CTATTTACATCTCATAGGAGGCTACACCATGAGTGTTCTTA
*
17965674 TATGCCTGTCTGATTTACATCTAATAGGAGGCTACACCATGA----TC---
1 T-TGCCTGTCT-ATTTACATCTCATAGGAGGCTACACCATGAGTGTTCTTA
* *
17965718 -TGCCTGTCCAATTTACATCTCATTGGAGGCTACACCATGAGTGTTCTTA
1 TTGCCTGT-CTATTTACATCTCATAGGAGGCTACACCATGAGTGTTCTTA
17965767 TTG
1 TTG
17965770 TCACCCTAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 22
0.75 0.05 0.21
Matches are distributed among these distances:
42 35 0.44
43 1 0.01
46 2 0.03
47 2 0.03
50 5 0.06
51 35 0.44
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (49 bp):
TTGCCTGTCTATTTACATCTCATAGGAGGCTACACCATGAGTGTTCTTA
Found at i:17975304 original size:27 final size:27
Alignment explanation
Indices: 17975274--17975575 Score: 345
Period size: 27 Copynumber: 11.2 Consensus size: 27
17975264 GGATATAACA
17975274 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * ** **
17975301 GTCATTTTACCTTGTGGCAGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
17975328 GTCATTGTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
17975355 GTCATTCTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** *
17975382 GTCATTTTATGCTATGGGGGT-TTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
17975408 GTAATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
17975435 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** * *
17975462 GTCATTTTACATTATAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
17975489 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
17975516 ATCATTCTACCCTATGGGGTTTATTTTG
1 GTCATTTTACCCTATGGGG-GTATTTCG
* * *
17975544 GACATTCTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
17975571 GTCAT
1 GTCAT
17975576 AATAGTGTAA
Statistics
Matches: 228, Mismatches: 45, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
26 22 0.10
27 182 0.80
28 24 0.11
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:17975458 original size:134 final size:135
Alignment explanation
Indices: 17975272--17975575 Score: 371
Period size: 134 Copynumber: 2.3 Consensus size: 135
17975262 AGGGATATAA
* *
17975272 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTGTGGCAGTATTTTAGTCATTGTA
1 CAGTAATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTGTGGCAGTATTTCAGTCATTGTA
* * * * **
17975337 CCCTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCGGTCATTTTATGCTATGGGGG
66 CACTATAGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCGATCATTCTACCCTATGGGGG
17975402 TT-TT
131 TTATT
* * *
17975406 CAGTAATTTTACCCTATGGGGGTATTTCGGTCATTTTATCCTATG-GG-GGTATTTCGGTCATTT
1 CAGTAATTTTACCCTATGGGGGTATTTCGGTCATTTTA-CCT-TGTGGCAGTATTTCAGTCATTG
* * * *
17975469 TACATTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGATCATTCTACCCTATGGG
64 TACACTATAGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCGATCATTCTACCCTATGGG
*
17975534 GTTTATT
129 GGTTATT
** * * *
17975541 TTGGACATTCTACCCTATGGGGGTATTTCAGTCAT
1 CAGTA-ATTTTACCCTATGGGGGTATTTCGGTCAT
17975576 AATAGTGTAA
Statistics
Matches: 145, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
134 107 0.74
135 9 0.06
136 29 0.20
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (135 bp):
CAGTAATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTGTGGCAGTATTTCAGTCATTGTA
CACTATAGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCGATCATTCTACCCTATGGGGG
TTATT
Found at i:17976178 original size:22 final size:22
Alignment explanation
Indices: 17976150--17976252 Score: 134
Period size: 22 Copynumber: 4.7 Consensus size: 22
17976140 TTTATTGTTC
*
17976150 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
17976172 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
17976194 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
17976216 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
17976238 AAACATGAGAGCTTA
1 AAACATGAGAGCTTA
17976253 CAACTCTACC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:17985788 original size:24 final size:25
Alignment explanation
Indices: 17985756--17985803 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
17985746 AAGGAAATGA
* *
17985756 AGAACAATGAAAGGGAA-TGAAGAG
1 AGAAAAATGAAAGAGAAGTGAAGAG
*
17985780 AGAAAAATGAGAGAGAAGTGAAGA
1 AGAAAAATGAAAGAGAAGTGAAGA
17985804 AATGAATGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.56, C:0.02, G:0.33, T:0.08
Consensus pattern (25 bp):
AGAAAAATGAAAGAGAAGTGAAGAG
Found at i:17986242 original size:19 final size:19
Alignment explanation
Indices: 17986218--17986256 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17986208 TATATTATGA
17986218 ATTAATACACATAGTTTGG
1 ATTAATACACATAGTTTGG
17986237 ATTAATACACATAGTTTGG
1 ATTAATACACATAGTTTGG
17986256 A
1 A
17986257 CTGTCTTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATTAATACACATAGTTTGG
Found at i:17999183 original size:15 final size:15
Alignment explanation
Indices: 17999163--17999201 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
17999153 ACACATGGTC
17999163 GTGTCACCTGGCCAT
1 GTGTCACCTGGCCAT
17999178 GTGTCACACCTGGCCAT
1 GTGT--CACCTGGCCAT
17999195 GTGTCAC
1 GTGTCAC
17999202 ACATGGTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.32
17 15 0.68
ACGTcount: A:0.15, C:0.33, G:0.26, T:0.26
Consensus pattern (15 bp):
GTGTCACCTGGCCAT
Found at i:17999189 original size:17 final size:17
Alignment explanation
Indices: 17999167--17999203 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
17999157 ATGGTCGTGT
17999167 CACCTGGCCATGTGTCA
1 CACCTGGCCATGTGTCA
17999184 CACCTGGCCATGTGTCA
1 CACCTGGCCATGTGTCA
17999201 CAC
1 CAC
17999204 ATGGTAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.38, G:0.22, T:0.22
Consensus pattern (17 bp):
CACCTGGCCATGTGTCA
Found at i:18003192 original size:48 final size:48
Alignment explanation
Indices: 18003121--18003235 Score: 167
Period size: 48 Copynumber: 2.4 Consensus size: 48
18003111 ACACCAGCTT
* * *
18003121 GTGGACAAGCCACCACAGAGATACCGATGAACGGTCACATAGCACATC
1 GTGGATAAACCACCACATAGATACCGATGAACGGTCACATAGCACATC
* * *
18003169 GTGGATAAACCACCACATAGATACCGATGAGCTGTCACATAGCATATC
1 GTGGATAAACCACCACATAGATACCGATGAACGGTCACATAGCACATC
*
18003217 GTGCATAAACCACCACATA
1 GTGGATAAACCACCACATA
18003236 ATTGTCGGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (48 bp):
GTGGATAAACCACCACATAGATACCGATGAACGGTCACATAGCACATC
Found at i:18014736 original size:17 final size:17
Alignment explanation
Indices: 18014714--18014746 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18014704 GTACATGAGT
*
18014714 AAAATATTGTGTTTTTC
1 AAAATATTATGTTTTTC
18014731 AAAATATTATGTTTTT
1 AAAATATTATGTTTTT
18014747 TCTGCTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (17 bp):
AAAATATTATGTTTTTC
Found at i:18015403 original size:18 final size:18
Alignment explanation
Indices: 18015368--18015403 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18015358 CAAGTACGTA
*
18015368 AACCCTTACTTTTATATG
1 AACCCTTACCTTTATATG
*
18015386 AACCCTTACCTTTGTATG
1 AACCCTTACCTTTATATG
18015404 CAAACCTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (18 bp):
AACCCTTACCTTTATATG
Found at i:18015438 original size:17 final size:17
Alignment explanation
Indices: 18015398--18015449 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
18015388 CCCTTACCTT
*
18015398 TGTATGCAAACCTTTATA
1 TGTATGCAAACC-CTATA
* *
18015416 TATATGTAAACCCTATA
1 TGTATGCAAACCCTATA
*
18015433 TGTATGCGAACCCTATA
1 TGTATGCAAACCCTATA
18015450 CGCATGCAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (17 bp):
TGTATGCAAACCCTATA
Found at i:18015932 original size:23 final size:22
Alignment explanation
Indices: 18015906--18016005 Score: 101
Period size: 23 Copynumber: 4.4 Consensus size: 22
18015896 AACGTATGCT
*
18015906 ACAAAGGCTATACAGAATACGCC
1 ACAAAGGCT-TATAGAATACGCC
* **
18015929 ACAAAGGCTTCATAGATTAAACC
1 ACAAAGGCTT-ATAGAATACGCC
*
18015952 ACAAAGGCTTTATAGAATACGCT
1 ACAAAGGC-TTATAGAATACGCC
* *
18015975 ATACAGGCTTCATAGAATACGCC
1 ACAAAGGCTT-ATAGAATACGCC
18015998 ACAAAGGC
1 ACAAAGGC
18016006 ATTACAGAGA
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
22 3 0.05
23 56 0.92
24 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (22 bp):
ACAAAGGCTTATAGAATACGCC
Found at i:18015956 original size:46 final size:46
Alignment explanation
Indices: 18015906--18016013 Score: 128
Period size: 46 Copynumber: 2.3 Consensus size: 46
18015896 AACGTATGCT
*
18015906 ACAAAGGCTATACAGAATACGCCACAAAGGCTTCATAGATTAAACC
1 ACAAAGGCTATACAGAATACGCCACAAAGGCTTCATAGAATAAACC
* * * * * **
18015952 ACAAAGGCTTTATAGAATACGCTATACAGGCTTCATAGAATACGCC
1 ACAAAGGCTATACAGAATACGCCACAAAGGCTTCATAGAATAAACC
18015998 ACAAAGGC-ATTACAGA
1 ACAAAGGCTA-TACAGA
18016014 GAATTACTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (46 bp):
ACAAAGGCTATACAGAATACGCCACAAAGGCTTCATAGAATAAACC
Found at i:18026453 original size:50 final size:50
Alignment explanation
Indices: 18026385--18026505 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 50
18026375 CCAAATATTT
* ** * *
18026385 TCTTACATGGGAGTTCTCATATCGGTGCCCATGCAATGTCCCAGACATGG
1 TCTTACAGGGGACCTCTCATATCGGTGCCAACGCAATGTCCCAGACATGG
* * *
18026435 TCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGG
1 TCTTACAGGGGACCTCTCATATCGGTGCCAACGCAATGTCCCAGACATGG
* *
18026485 TTTTACATGGGACCTCTCATA
1 TCTTACAGGGGACCTCTCATA
18026506 ACCTCAATAA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TCTTACAGGGGACCTCTCATATCGGTGCCAACGCAATGTCCCAGACATGG
Found at i:18030932 original size:19 final size:18
Alignment explanation
Indices: 18030891--18030933 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18030881 AATTTTTGTC
* *
18030891 ATAAAATAATTAATTTTT
1 ATAAAATAATTAAATTAT
18030909 ATAAAATAATTAAATTAT
1 ATAAAATAATTAAATTAT
18030927 ATTAAAA
1 A-TAAAA
18030934 ATTTGAGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAATAATTAAATTAT
Found at i:18039973 original size:94 final size:94
Alignment explanation
Indices: 18039754--18039976 Score: 261
Period size: 94 Copynumber: 2.4 Consensus size: 94
18039744 GTCGTTCCAG
* * * * * *
18039754 TATGGTAGATTCAATCTAACCCACTGAAACTTCAGGGGTTGAGAATTAGTAGCTTCAATCTACTC
1 TATGGTAGATTTAATCCAACCCACTGAAACTTGAAGGGTTAAGAATTAGTAACTTCAATCTACTC
* * * * *
18039819 GACTGTAACTTCCGGGAGGTAAGATTCGC
66 CACTGCAACTTCAGGGAGATAAGATTCAC
* * * *
18039848 TATCGTAGATTTAATCCGACCCACT-ATAACTTGAAGGGTATAAG-ATTTGTAACTTCAATCTGC
1 TATGGTAGATTTAATCCAACCCACTGA-AACTTGAAGGGT-TAAGAATTAGTAACTTCAATCTAC
18039911 TCCACTGCAACTTCAGGGAGATAAGATTCAC
64 TCCACTGCAACTTCAGGGAGATAAGATTCAC
* *
18039942 TATGGTAGATTTAATCCAACCCATTGCAACTTGAA
1 TATGGTAGATTTAATCCAACCCACTGAAACTTGAA
18039977 AGCTCTAAGA
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
93 1 0.01
94 103 0.96
95 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (94 bp):
TATGGTAGATTTAATCCAACCCACTGAAACTTGAAGGGTTAAGAATTAGTAACTTCAATCTACTC
CACTGCAACTTCAGGGAGATAAGATTCAC
Found at i:18040434 original size:14 final size:14
Alignment explanation
Indices: 18040415--18040441 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18040405 GTGCTCCAGT
18040415 TGAACTGAACCGAG
1 TGAACTGAACCGAG
18040429 TGAACTGAACCGA
1 TGAACTGAACCGA
18040442 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:18055186 original size:17 final size:18
Alignment explanation
Indices: 18055166--18055208 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
18055156 TTCCTAAAGC
*
18055166 ATAAAAAAATATAAAT-A
1 ATAAAAAAATAAAAATAA
*
18055183 ATAAATAAATAAAAATAA
1 ATAAAAAAATAAAAATAA
18055201 ATAAAAAA
1 ATAAAAAA
18055209 GAAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAAAAAAATAAAAATAA
Found at i:18055190 original size:21 final size:21
Alignment explanation
Indices: 18055166--18055222 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
18055156 TTCCTAAAGC
*
18055166 ATAAAAAAATATAAATAATAA
1 ATAAAAAAATATAAATAAAAA
18055187 ATAAATAAAA-ATAAATAAAAA
1 ATAAA-AAAATATAAATAAAAA
*
18055208 AGAAAAAAAATATAA
1 A-TAAAAAAATATAA
18055223 TTTGGGGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (21 bp):
ATAAAAAAATATAAATAAAAA
Found at i:18055198 original size:10 final size:10
Alignment explanation
Indices: 18055166--18055207 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
18055156 TTCCTAAAGC
18055166 ATAAA-AAAA
1 ATAAATAAAA
18055175 TATAAATAATAA
1 -ATAAATAA-AA
18055187 ATAAATAAAA
1 ATAAATAAAA
18055197 ATAAATAAAA
1 ATAAATAAAA
18055207 A
1 A
18055208 AGAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 18 0.60
11 10 0.33
12 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:18055199 original size:14 final size:15
Alignment explanation
Indices: 18055176--18055205 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18055166 ATAAAAAAAT
18055176 ATAAATAATAAATAA
1 ATAAATAATAAATAA
18055191 ATAAA-AATAAATAA
1 ATAAATAATAAATAA
18055205 A
1 A
18055206 AAAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAAATAATAAATAA
Found at i:18055849 original size:10 final size:10
Alignment explanation
Indices: 18055831--18055877 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
18055821 ATTTTAGGAT
18055831 TTTAT-TTTA
1 TTTATCTTTA
18055840 TTTATCTTTA
1 TTTATCTTTA
18055850 TTTATCTTTA
1 TTTATCTTTA
* * *
18055860 ATTA-ATGTA
1 TTTATCTTTA
18055869 TTTATCTTT
1 TTTATCTTT
18055878 TTGAGAGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 11 0.37
10 19 0.63
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:18063455 original size:144 final size:143
Alignment explanation
Indices: 18063233--18063497 Score: 333
Period size: 144 Copynumber: 1.8 Consensus size: 143
18063223 TCTGATCCAC
* * ** *
18063233 TGTAACTTCAGGGATATAGGAGTTGTAGCTTATCTTGCTCCACTGTAATTTCAAGGAGATAAGAT
1 TGTAACTTCAGGGATATAGGAATTATAGCTTATCTTGCTCCACTACAACTTCAAGGAGATAAGAT
* *
18063298 GCTCTATAGTAAATTCA-ATCCAACCCACTGCAATTTCAGGGGT-GTAGGATTTGTAGTTGTAGC
66 GCTCTATAGTAAATT-AGATCCAACCCACTGCAACTTCAGGGGTAATA-GATTTGTAGTTGTAGC
18063361 TTTATTTTAACCCAT
129 TTTATTTTAACCCAT
*
18063376 TGTAACTTCAGGGTTATAGGAATTATAGCTTCATCTTGCTCCACTACAACTTC-AGAGAGATAAG
1 TGTAACTTCAGGGATATAGGAATTATAGCTT-ATCTTGCTCCACTACAACTTCAAG-GAGATAAG
* ** *
18063440 ATTCAT-TAT-GTTAAATTAGATCTGACCCACTGCGACTTCAGGGGTAATAGATTTGTAG
64 ATGC-TCTATAG-TAAATTAGATCCAACCCACTGCAACTTCAGGGGTAATAGATTTGTAG
18063498 CTTCATCTTG
Statistics
Matches: 104, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
143 32 0.31
144 69 0.66
145 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (143 bp):
TGTAACTTCAGGGATATAGGAATTATAGCTTATCTTGCTCCACTACAACTTCAAGGAGATAAGAT
GCTCTATAGTAAATTAGATCCAACCCACTGCAACTTCAGGGGTAATAGATTTGTAGTTGTAGCTT
TATTTTAACCCAT
Found at i:18063506 original size:94 final size:93
Alignment explanation
Indices: 18063369--18063760 Score: 434
Period size: 94 Copynumber: 4.2 Consensus size: 93
18063359 GCTTTATTTT
* * * * * * *
18063369 AACCCATTGTAACTTCAGGGTTATAGGAATTATAGCTTC-ATCTTGCTCCACTACAACTTCAGAG
1 AACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGGG
* * *
18063433 AGATAAGATTCATTATGTTAAATTAGATCT
66 AGATAAGATTCACTATG-TAGATTA-ATCC
* *
18063463 GACCCACTGCGACTTCAGGGGTAATA-GATTTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGG
1 AACCCACTGCAACTTCAGGGGT-ATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGG
** *
18063526 GAGATAAGATTTGCTATGGTAGATCCAATCC
65 GAGATAAGATTCACTAT-GTAGAT-TAATCC
**
18063557 AACCCACTAAAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAGGG
1 AACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGGG
*
18063621 AGGTAAGATTCACTATAGTAGATTAAATCC
66 AGATAAGATTCACTAT-GTAGATT-AATCC
* * *
18063651 AACCCACTGCAACTTGAAGGGTATAGGATTTGTAGCTTCAATC-TGCTCCCCTGCAACTTCAGGG
1 AACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGGG
** *
18063715 AGATAAGATTTGCTATGGTAGATTTAATTC
66 AGATAAGATTCACTAT-GTAGA-TTAATCC
* *
18063745 GACCCATTGCAACTTC
1 AACCCACTGCAACTTC
18063761 TAGGCTCTAA
Statistics
Matches: 253, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
93 3 0.01
94 241 0.95
95 9 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (93 bp):
AACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGGG
AGATAAGATTCACTATGTAGATTAATCC
Found at i:18063536 original size:44 final size:44
Alignment explanation
Indices: 18063466--18063726 Score: 147
Period size: 44 Copynumber: 5.6 Consensus size: 44
18063456 TAGATCTGAC
* *
18063466 CCACTGCGACTTCAGGGG-TAATAGATTTGTAGCTTC-ATCTTGCT
1 CCACTGCAACTTCAGGGGAT-A-AGATTTGTAGCTTCAATCCTGCT
* **
18063510 CCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGATCCAATCCAAC-
1 CCACTGCAACTTCAGGG-GATAAGATTTG-TA-GCT---T-CAATCCTGCT
** * *
18063560 CCACTAAAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-TTGCT
1 CCACTGCAACTTCAGGGG-ATAAGATTTGTAGCTTCAATCCTGCT
* * * **
18063604 CCACTGCAACTTCAGGGAGGTAAGATTCACTATAGTAGATTAAATCCAAC-
1 CCACTGCAACTTCAGGG-GATAAGA-T---T-T-GTAGCTTCAATCCTGCT
* * *
18063654 CCACTGCAACTTGAAGGGTATAGGATTTGTAGCTTCAAT-CTGCT
1 CCACTGCAACTT-CAGGGGATAAGATTTGTAGCTTCAATCCTGCT
*
18063698 CCCCTGCAACTTCAGGGAGATAAGATTTG
1 CCACTGCAACTTCAGGG-GATAAGATTTG
18063727 CTATGGTAGA
Statistics
Matches: 162, Mismatches: 33, Indels: 44
0.68 0.14 0.18
Matches are distributed among these distances:
43 7 0.04
44 75 0.46
45 8 0.05
46 4 0.02
48 3 0.02
49 6 0.04
50 50 0.31
51 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGGATAAGATTTGTAGCTTCAATCCTGCT
Found at i:18063658 original size:188 final size:188
Alignment explanation
Indices: 18063379--18063737 Score: 519
Period size: 188 Copynumber: 1.9 Consensus size: 188
18063369 AACCCATTGT
*
18063379 AACTTCAGGGTTATAGGAATTATAGCTTCATCTTGCTCCACTACAACTTCAGAGAGATAAGATTC
1 AACTTCAGGGGTATAGGAATTATAGCTTCATCTTGCTCCACTACAACTTCAGAGAGATAAGATTC
* * ** * *
18063444 ATTATGTTAAATTAGATCTGACCCACTGCGACTTCAGGGGTAATA-GATTTGTAGCTTC-ATCTT
66 ACTATGTTAAATTAAATCCAACCCACTGCAACTTCAAGGGT-ATAGGATTTGTAGCTTCAATC-T
18063507 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGATCCAATCCAACCCACTAA
129 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGATCCAATCCAACCCACTAA
* * * * *
18063567 AACTTCAGGGGTATAGGATTTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAGGGAGGTAAGATT
1 AACTTCAGGGGTATAGGAATTATAGCTTC-ATCTTGCTCCACTACAACTTCAGAGAGATAAGATT
* *
18063631 CACTATAG-TAGATTAAATCCAACCCACTGCAACTTGAAGGGTATAGGATTTGTAGCTTCAATCT
65 CACTAT-GTTAAATTAAATCCAACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCAATCT
*
18063695 GCTCCCCTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGAT
129 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGAT
18063738 TTAATTCGAC
Statistics
Matches: 152, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
187 3 0.02
188 143 0.94
189 6 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (188 bp):
AACTTCAGGGGTATAGGAATTATAGCTTCATCTTGCTCCACTACAACTTCAGAGAGATAAGATTC
ACTATGTTAAATTAAATCCAACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCAATCTGC
TCCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGATCCAATCCAACCCACTAA
Found at i:18073910 original size:22 final size:22
Alignment explanation
Indices: 18073880--18073924 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18073870 TGTTTCATTT
*
18073880 TTTTTGTTGTGTTTGCATTGCA
1 TTTTGGTTGTGTTTGCATTGCA
* *
18073902 TTTTGGTTGTTTTTGCGTTGCA
1 TTTTGGTTGTGTTTGCATTGCA
18073924 T
1 T
18073925 CCAATCACGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.07, C:0.09, G:0.24, T:0.60
Consensus pattern (22 bp):
TTTTGGTTGTGTTTGCATTGCA
Found at i:18089602 original size:31 final size:31
Alignment explanation
Indices: 18089505--18089604 Score: 105
Period size: 31 Copynumber: 3.3 Consensus size: 31
18089495 TGTTTTAATG
*
18089505 AATTTAATATTTATCTAGATAATATTTTATT
1 AATTTAATATTTATCTTGATAATATTTTATT
* * * * **
18089536 AATTTTATATTAAT-ATGA-GATATTAAATTT
1 AATTTAATATTTATCTTGATAATATTTTA-TT
*
18089566 AATTTAACATTTATCTTGATAATATTTTATT
1 AATTTAATATTTATCTTGATAATATTTTATT
18089597 AATTTAAT
1 AATTTAAT
18089605 GTTAATATGA
Statistics
Matches: 51, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 6 0.12
30 15 0.29
31 24 0.47
32 6 0.12
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (31 bp):
AATTTAATATTTATCTTGATAATATTTTATT
Found at i:18093327 original size:25 final size:25
Alignment explanation
Indices: 18093289--18093347 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
18093279 CATTTATTTA
* *
18093289 AGTGTTATAGTGATGAAAGTGTTAC
1 AGTGATATAATGATGAAAGTGTTAC
18093314 AGTGATATAATGATGAAAGTGTTAC
1 AGTGATATAATGATGAAAGTGTTAC
*
18093339 AATGATATA
1 AGTGATATA
18093348 TGTGCTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (25 bp):
AGTGATATAATGATGAAAGTGTTAC
Found at i:18094269 original size:17 final size:17
Alignment explanation
Indices: 18094232--18094271 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
18094222 TGAATTTTAT
*
18094232 TTTATATATTTTTAGATA
1 TTTA-ATATTTTTAGAAA
*
18094250 TTTAATATTTTTATAAA
1 TTTAATATTTTTAGAAA
18094267 TTTAA
1 TTTAA
18094272 AGTTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTAATATTTTTAGAAA
Found at i:18094313 original size:22 final size:21
Alignment explanation
Indices: 18094274--18094318 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
18094264 AAATTTAAAG
*
18094274 TTATATTTATCAAATAATTTAT
1 TTATATTTAACAAATAA-TTAT
**
18094296 TTATATTTAACACTTAATTAT
1 TTATATTTAACAAATAATTAT
18094317 TT
1 TT
18094319 TTTAAATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATTTAACAAATAATTAT
Found at i:18099182 original size:23 final size:22
Alignment explanation
Indices: 18099139--18099182 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
18099129 TTCTAAGTCG
18099139 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
18099162 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
18099183 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:18099290 original size:45 final size:45
Alignment explanation
Indices: 18099226--18099320 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
18099216 TAACAGATAC
* * * * *
18099226 TCGGTGGATTCAGCACATAGTAACCACCTTATTAATCAATGATGT
1 TCGGTGGAATCAACACATAGCAACCACCTTACTAATAAATGATGT
*
18099271 TCGGTGGAATCAACACATAGCAACTACCTTACTAATAAATGATGT
1 TCGGTGGAATCAACACATAGCAACCACCTTACTAATAAATGATGT
18099316 TCGGT
1 TCGGT
18099321 TCACATAGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (45 bp):
TCGGTGGAATCAACACATAGCAACCACCTTACTAATAAATGATGT
Found at i:18099384 original size:51 final size:52
Alignment explanation
Indices: 18099317--18099461 Score: 190
Period size: 50 Copynumber: 2.8 Consensus size: 52
18099307 AAATGATGTT
* * *
18099317 CGGTTCACATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCA-TC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTC
* * *
18099368 TGAG-ACACGTAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTC
1 CG-GTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTC
*
18099418 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAT
18099462 CACTTTCACT
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
49 5 0.06
50 39 0.49
51 35 0.44
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (52 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTC
Done.