Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 135 of 325
Found at i:43439449 original size:40 final size:40
Alignment explanation
Indices: 43439394--43439615 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
43439384 TATTCGGATG
*
43439394 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43439434 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43439474 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43439514 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43439554 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
43439594 ATATCC-GGCTAATTCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
43439616 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.08
40 156 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:43446588 original size:28 final size:28
Alignment explanation
Indices: 43446548--43446604 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
43446538 CATCCATTGC
43446548 TGTTTCTATCAAGTTAATGGCTCAGTAT
1 TGTTTCTATCAAGTTAATGGCTCAGTAT
*
43446576 TGTTTCTATCAAGTTAATGGCTCATTAT
1 TGTTTCTATCAAGTTAATGGCTCAGTAT
43446604 T
1 T
43446605 CTTTATTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.46
Consensus pattern (28 bp):
TGTTTCTATCAAGTTAATGGCTCAGTAT
Found at i:43449033 original size:17 final size:17
Alignment explanation
Indices: 43449011--43449053 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
43449001 AAATATAACT
*
43449011 AAATTAAATAAAAAATA
1 AAATTAAATAAAAAACA
* *
43449028 AAATTAATTTAAAAACA
1 AAATTAAATAAAAAACA
*
43449045 AAATCAAAT
1 AAATTAAAT
43449054 TACACCAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATTAAATAAAAAACA
Found at i:43449039 original size:22 final size:22
Alignment explanation
Indices: 43449014--43449055 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43449004 TATAACTAAA
43449014 TTAAATAA-AAAATAAAATTAAT
1 TTAAA-AACAAAATAAAATTAAT
*
43449036 TTAAAAACAAAATCAAATTA
1 TTAAAAACAAAATAAAATTA
43449056 CACCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
TTAAAAACAAAATAAAATTAAT
Found at i:43454396 original size:49 final size:49
Alignment explanation
Indices: 43454330--43454426 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
43454320 GATGCAAATT
*
43454330 TTAACTAACATGGGAGTTACATAATACATGACATAATTTATGATGCATC
1 TTAACTAACATGAGAGTTACATAATACATGACATAATTTATGATGCATC
* * *
43454379 TTAACTAACATGAGAGTTACATAATGCATGTCATTATTTATGATGCAT
1 TTAACTAACATGAGAGTTACATAATACATGACATAATTTATGATGCAT
43454427 ACTCTCTCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (49 bp):
TTAACTAACATGAGAGTTACATAATACATGACATAATTTATGATGCATC
Found at i:43456400 original size:44 final size:44
Alignment explanation
Indices: 43456346--43456458 Score: 217
Period size: 44 Copynumber: 2.6 Consensus size: 44
43456336 ATACGTGCTG
*
43456346 ATGCATGTCCCAGACATGTCTTACACTAACACAACGCTCAGTCA
1 ATGCATGTCCCAGACACGTCTTACACTAACACAACGCTCAGTCA
43456390 ATGCATGTCCCAGACACGTCTTACACTAACACAACGCTCAGTCA
1 ATGCATGTCCCAGACACGTCTTACACTAACACAACGCTCAGTCA
43456434 ATGCATGTCCCAGACACGTCTTACA
1 ATGCATGTCCCAGACACGTCTTACA
43456459 TTGGCTATCA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.31, C:0.33, G:0.14, T:0.22
Consensus pattern (44 bp):
ATGCATGTCCCAGACACGTCTTACACTAACACAACGCTCAGTCA
Found at i:43456503 original size:47 final size:47
Alignment explanation
Indices: 43456434--43456606 Score: 172
Period size: 47 Copynumber: 3.7 Consensus size: 47
43456424 CGCTCAGTCA
* * *
43456434 ATGCATGTCCCAGACACGTCTTACATTGGCTA-TCATCATCGAGGCCG
1 ATGCATGTCCCAAACAAGTCTTACACTGGC-ACTCATCATCGAGGCCG
* ***
43456481 ATGCATGTCCCAAACAAGTCTTACACTGGCACTCATC-TCTACATCG
1 ATGCATGTCCCAAACAAGTCTTACACTGGCACTCATCATCGAGGCCG
* * * * *
43456527 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-GTGGCCA
1 ATG-CATGTCCCAAACA-AGTCTTACACTGGCACTCATCATCGAGGCCG
* *
43456575 ATGCATGTTCCAAACATGTCTTACACTGGCAC
1 ATGCATGTCCCAAACAAGTCTTACACTGGCAC
43456607 ATAAGTAATC
Statistics
Matches: 103, Mismatches: 19, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
46 24 0.23
47 55 0.53
48 23 0.22
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
ATGCATGTCCCAAACAAGTCTTACACTGGCACTCATCATCGAGGCCG
Found at i:43456559 original size:48 final size:46
Alignment explanation
Indices: 43456294--43456564 Score: 169
Period size: 44 Copynumber: 5.8 Consensus size: 46
43456284 GATAAGTTGC
* * * * * * *
43456294 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATACGT
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGCACTCATCTCTACAT
* * * * *
43456342 GCTGATGCATGTCCCAGACATGTCTTACACT--AACACAACGCT-CAGT
1 -C-GATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCTACA-T
* * * * *
43456388 CAATGCATGTCCCAGACACGTCTTACACT--AACACAACGCT-CAGT
1 CGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCTACA-T
* * * ***
43456432 CAATGCATGTCCCAGACACGTCTTACATTGGCTA-TCATCATCGAGGC
1 CGATGCATGTCCCAGACACGTCTTACACTGGC-ACTCATC-TCTACAT
* *
43456479 CGATGCATGTCCCAAACAAGTCTTACACTGGCACTCATCTCTACAT
1 CGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCTACAT
*
43456525 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCAT
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGCACTCAT
43456565 AATGTGGCCA
Statistics
Matches: 181, Mismatches: 31, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
44 69 0.38
45 2 0.01
46 16 0.09
47 47 0.26
48 29 0.16
49 14 0.08
50 4 0.02
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (46 bp):
CGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCTACAT
Found at i:43462323 original size:688 final size:692
Alignment explanation
Indices: 43461001--43462374 Score: 1794
Period size: 688 Copynumber: 2.0 Consensus size: 692
43460991 TTTATGATAC
* **
43461001 GTGATATTCGTGACAGGTTTTAAATATTTATAATGAATCATTCTTGAATTTAACTATTATCACGA
1 GTGATATTCGTGACAGGTTTTAAATATTCATAATGAATCATTCTTGAAACTAACTATTATCACGA
* *
43461066 TGAAGGCAAGTGTACCTATAAAACAGTAGTATAGCTTTAGCAAGACTAGATTATCAAACCCAAAG
66 TGAAGGAAAGTGTACCTATAAAACAGTAGTATAGCTTTAGCAAGACCAGATTATCAAACCCAAAG
* * * *
43461131 GAGCTAAAAGTACTGGTATCAACTTTCTTTTTATTATCTAGCCTAAAAAAATAAAAGGGTTTTGT
131 GAACTAAAAGTACTAGTATCAACTGTCTTTTTATTATCTAGCCTAAAAAAAT-AAAGGGGTTTGT
* *
43461196 TTGTCTAACTAATTAATTAAACTAAGAAATCACATAAAAGAAATTTGGGAAAAATACTTTTCGGA
195 TTGTCTAACTAACTAATTAAACTAAGAAATCACAGAAAAGAAATTTGGGAAAAATACTTTTCGGA
* * *
43461261 AAACTCGATTGATTAAGAAAATACATAAGGAAAAATCCACCTAGAGTTCACTTTTTATTTGACTC
260 AAACACGATTGATTAAGAAAATACATAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTC
* * * * *
43461326 TTAATTGGACGATTTATTCATTCAACTTGTTCCATAGAGATCCCTAAGTTATATTATTATCTCTC
325 TGAATCGAACGATTTATTCATTCAACTTATTCCATAGAGATCCCTAAGTTATATTATTATCCCTC
* * * *
43461391 TCGAGACTAACAATGTCTAACCCTAGATTGAATAATTGAAATCTCTTTTTAGTTAACGCCCTAGG
390 TCAAGACTAACAACGTCTAACCCTAGATTGAATAATTGAAATCTCTTTTTAATTAACACCCTAGG
***
43461456 GTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGGCAAAATATTGTCA
455 GTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTAAAAAAATATTGTCA
*
43461521 CCCTATCTCTAGGCGTGCAACCAACTCCGCTTAATTATGAAAAAATTACTCTAAGACAGGGTCTA
520 CCCTATCTCTAGGCGTGCAACCAAATCCGCTTAATTATGAAAAAATTACTCTAAGACAGGGTCTA
* * *
43461586 TTCCTCCTCTGACTAAGAGCTTAACTTGAATCAATATCCTGGAATATCAAAACAAGAATTAAGGA
585 TTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATACCCTGGAATATCAAAACAAGAATTAAGAA
*
43461651 CACATAATTACGAACAAGTCAAATATTTATCATACATGATCGT
650 CACATAATTAAGAACAAGTCAAATATTTATCATACATGATCGT
* * *
43461694 GTGATATTGTGTGATAGGTTTTAAATATTCATAATGAATCGTTCTTGAAACTAACTATTATCACG
1 GTGATATT-CGTGACAGGTTTTAAATATTCATAATGAATCATTCTTGAAACTAACTATTATCACG
* ** * * *
43461759 ATGTA-GAAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCAAGACCAGATTGTCGAACCCAAA
65 ATGAAGGAAAGTGTACCTATAAAACAGTAGTATAGCTTTAGCAAGACCAGATTATCAAACCCAAA
* **
43461823 GGAACTAAAAGTACTAGTAATC-ACTGTCTTTTTATTATCTAG-CT-TACGAAT-AAGGAGGTTT
130 GGAACTAAAAGTACTAGT-ATCAACTGTCTTTTTATTATCTAGCCTAAAAAAATAAAGG-GGTTT
* * * *
43461884 G-TT-T-TAACTAACTAATT-AACTAAAGAATTCACAGAAAATAGAA-TTGGG-GAATTACTTTT
193 GTTTGTCTAACTAACTAATTAAACT-AAGAAATCACAGAAAAGA-AATTTGGGAAAAATACTTTT
* * * *
43461943 -GGAAAA-ACGATTGAATTTAGACAATACCTAAGGAAAAATCCACCTAGACTTCCCTTGTTATTC
256 CGGAAAACACGATTG-ATTAAGAAAATACATAAGGAAAAATCCACCTAGACTTCACTTGTTATT-
* * ** * * *
43462006 TGACTCTGAATCGAATGATTTATTCATTTAACTTATTCTGTAGAGATCCCTAGGTTATGTTTTTA
319 TGACTCTGAATCGAACGATTTATTCATTCAACTTATTCCATAGAGATCCCTAAGTTATATTATTA
* * * *
43462071 TCCCTATTCAAGACTAATAACGTCTAATTCCTAGATTGAATAATTGAGA-CT-TTTCTCTAATTA
384 TCCCT-CTCAAGACTAACAACGTCTAA-CCCTAGATTGAATAATTGAAATCTCTTT-T-TAATTA
*
43462134 ACACCCTAGGGTTGCATTAACTTGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTAAAAA
445 ACACCCTAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTAAAAA
* * * **
43462199 AATCTTGTCACCCTATCTCTA-G-GTGCATAATCAAATCTGCTTAATTATG-GCAAATGTACTCT
510 AATATTGTCACCCTATCTCTAGGCGTGC--AACCAAATCCGCTTAATTATGAAAAAAT-TACTCT
*** * * * *
43462261 TTTACAGGGTCTATTCCTCCTCTGAATAGGAGCTTATCTTGAATCAGTACCCTGGGATATCAAAA
572 AAGACAGGGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATACCCTGGAATATCAAAA
* *
43462326 CAAGGATTAAGAACACATAATTAAGAACAAGTTAAATATTTATCATACA
637 CAAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACA
43462375 ATTCAGAAAA
Statistics
Matches: 590, Mismatches: 77, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
684 6 0.01
685 48 0.08
686 78 0.13
687 57 0.10
688 232 0.39
689 6 0.01
690 5 0.01
691 4 0.01
692 2 0.00
693 95 0.16
694 57 0.10
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (692 bp):
GTGATATTCGTGACAGGTTTTAAATATTCATAATGAATCATTCTTGAAACTAACTATTATCACGA
TGAAGGAAAGTGTACCTATAAAACAGTAGTATAGCTTTAGCAAGACCAGATTATCAAACCCAAAG
GAACTAAAAGTACTAGTATCAACTGTCTTTTTATTATCTAGCCTAAAAAAATAAAGGGGTTTGTT
TGTCTAACTAACTAATTAAACTAAGAAATCACAGAAAAGAAATTTGGGAAAAATACTTTTCGGAA
AACACGATTGATTAAGAAAATACATAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCT
GAATCGAACGATTTATTCATTCAACTTATTCCATAGAGATCCCTAAGTTATATTATTATCCCTCT
CAAGACTAACAACGTCTAACCCTAGATTGAATAATTGAAATCTCTTTTTAATTAACACCCTAGGG
TTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTAAAAAAATATTGTCAC
CCTATCTCTAGGCGTGCAACCAAATCCGCTTAATTATGAAAAAATTACTCTAAGACAGGGTCTAT
TCCTCCTCTGAATAAGAGCTTAACTTGAATCAATACCCTGGAATATCAAAACAAGAATTAAGAAC
ACATAATTAAGAACAAGTCAAATATTTATCATACATGATCGT
Found at i:43463072 original size:31 final size:31
Alignment explanation
Indices: 43463034--43463096 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
43463024 GCTTGTCCTC
43463034 AAGCAAAATCCTCAAGTTATAATCAAAATAA
1 AAGCAAAATCCTCAAGTTATAATCAAAATAA
43463065 AAGCAAAATCCTCAAGTTATAATCAAAATAA
1 AAGCAAAATCCTCAAGTTATAATCAAAATAA
43463096 A
1 A
43463097 TCCTTCTCAA
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:0.56, C:0.16, G:0.06, T:0.22
Consensus pattern (31 bp):
AAGCAAAATCCTCAAGTTATAATCAAAATAA
Found at i:43466901 original size:55 final size:55
Alignment explanation
Indices: 43466814--43466935 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 55
43466804 TATATAGACC
* *
43466814 CACGCCCGTGTTAATCTAACAGGTCCGACCACAGGTGCTAGACA-AGGCCGTGTTG
1 CACGCCCGTGTTAATCTAACAGGTCCGACCACAGGTGCAAGACACAGG-AGTGTTG
* * * ** * * * *
43466869 CACGCCCGTGTTAATTTGACAGTTTTGGCCACAGTTTCAAGGCACAGGAGTGTTG
1 CACGCCCGTGTTAATCTAACAGGTCCGACCACAGGTGCAAGACACAGGAGTGTTG
43466924 CACGCCCGTGTT
1 CACGCCCGTGTT
43466936 GTTTTGGCAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 52 0.95
56 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (55 bp):
CACGCCCGTGTTAATCTAACAGGTCCGACCACAGGTGCAAGACACAGGAGTGTTG
Found at i:43469911 original size:12 final size:13
Alignment explanation
Indices: 43469887--43469916 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
43469877 AAAAAAGAAG
43469887 AATTAGTAATAAA
1 AATTAGTAATAAA
43469900 AATTAG-AATAAA
1 AATTAGTAATAAA
43469912 AATTA
1 AATTA
43469917 AATTGCAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
AATTAGTAATAAA
Found at i:43473424 original size:28 final size:28
Alignment explanation
Indices: 43473392--43473446 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
43473382 CAGTACTGTC
* *
43473392 TGGGCCTTAGCCCTATACAGTAACAGTG
1 TGGGCCTAAGCCCAATACAGTAACAGTG
*
43473420 TGGGCCTAAGCCCAATACAGTATCAGT
1 TGGGCCTAAGCCCAATACAGTAACAGT
43473447 ACAGTGTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (28 bp):
TGGGCCTAAGCCCAATACAGTAACAGTG
Found at i:43473452 original size:33 final size:33
Alignment explanation
Indices: 43473373--43473453 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 33
43473363 CTTTAACCCT
* * * * *
43473373 ATACAATATCAGTACTGTCTGGGCCTTAGCCCT
1 ATACAGTATCAGTACAGTGTGGGCCTAAGCCCA
43473406 ATACAG--T-A--ACAGTGTGGGCCTAAGCCCA
1 ATACAGTATCAGTACAGTGTGGGCCTAAGCCCA
43473434 ATACAGTATCAGTACAGTGT
1 ATACAGTATCAGTACAGTGT
43473454 AATGCAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
28 22 0.58
30 2 0.05
31 2 0.05
33 12 0.32
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (33 bp):
ATACAGTATCAGTACAGTGTGGGCCTAAGCCCA
Found at i:43473627 original size:27 final size:27
Alignment explanation
Indices: 43473597--43473653 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
43473587 AGCATAGCTG
43473597 CCAAAAACAATAAATGTGGCAAAGCCA
1 CCAAAAACAATAAATGTGGCAAAGCCA
* * * * *
43473624 CCAATATCAGTAATTGTGGCATAGCCA
1 CCAAAAACAATAAATGTGGCAAAGCCA
43473651 CCA
1 CCA
43473654 GTACAGTACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.18
Consensus pattern (27 bp):
CCAAAAACAATAAATGTGGCAAAGCCA
Found at i:43492718 original size:50 final size:50
Alignment explanation
Indices: 43492643--43492874 Score: 220
Period size: 50 Copynumber: 4.6 Consensus size: 50
43492633 GTGAATAACG
* *
43492643 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * ** *
43492693 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * * *
43492744 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
** * * * *
43492794 TGTGTAGTACTAAGTAAAGGCTACTACGTGTATCAGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* *
43492843 TGTGTAGTACTAAGTGCAGGCTATTATGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA
43492875 TAAGACAGCT
Statistics
Matches: 151, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 35 0.23
50 73 0.48
51 34 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:43492998 original size:27 final size:26
Alignment explanation
Indices: 43492968--43493019 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
43492958 GGGAAAATCG
43492968 ATAAAGTGGTAATATGTG-AAATTTATT
1 ATAAAGTGG--ATATGTGCAAATTTATT
*
43492995 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAATTTAT
43493020 GTTTATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAATTTATT
Found at i:43500211 original size:50 final size:50
Alignment explanation
Indices: 43500136--43500361 Score: 201
Period size: 50 Copynumber: 4.5 Consensus size: 50
43500126 GTGAATAACG
* *
43500136 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * ** *
43500186 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * ** * *
43500237 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGA-TGGCGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * * *
43500287 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATTGTT--GTTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAG-TCACA
*
43500336 TGTATAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
43500362 TGCATATTAG
Statistics
Matches: 142, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 28 0.20
50 70 0.49
51 34 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:43500491 original size:27 final size:26
Alignment explanation
Indices: 43500461--43500512 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
43500451 GGGAAAATCG
43500461 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
43500488 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
43500513 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:43511442 original size:30 final size:30
Alignment explanation
Indices: 43511408--43511467 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
43511398 CCTTAACTCG
43511408 AACTTTTGCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* * *
43511438 AACTTTTGCATATTTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
43511468 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:43526384 original size:47 final size:45
Alignment explanation
Indices: 43526272--43526542 Score: 208
Period size: 47 Copynumber: 5.8 Consensus size: 45
43526262 GATTACTTAT
* * **
43526272 GTGCCAGTGTAAGACATGTCTGGGAGAGGCATCGGCCACT-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CA-TGAAATGA
*
43526318 GTGCCAGTGTAAGACCATGTCTGGGACATGGGATCGGCATAGAAATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT-GAAATGA
** * * *
43526366 GTGCCAGTGTAAGACATGTCCAGGACATGCATCAGCCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-GA-AATGA
* * *
43526413 -TAGCCAGTGTAAGACGTGCCTGGGACATGCATCGGC-TGAGAAT-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATGA-AATGA
* * * * *
43526457 GTGCTAGTGTAAGGCATGTCTGGGACATGCATCAGCACGTATAAATAA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--T-GAAATGA
* *
43526505 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
43526543 CTCTATGATG
Statistics
Matches: 181, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
44 29 0.16
45 5 0.03
46 26 0.14
47 63 0.35
48 37 0.20
49 14 0.08
50 7 0.04
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATGAAATGA
Found at i:43526436 original size:94 final size:91
Alignment explanation
Indices: 43526272--43526640 Score: 257
Period size: 94 Copynumber: 3.9 Consensus size: 91
43526262 GATTACTTAT
* * * * *
43526272 GTGCCAGTGTAAGACATGTCTGGGAGAGGCATCGGCCACTTTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCCAGTGTAAGACCATG
* *
43526337 TCTGGGACATGGGATCGGCAT-AGAAATGA
66 CCTGGGACAT-GCATCGGC-TGAG-AAT-A
** * *
43526366 GTGCCAGTGTAAGACATGTCCAGGACATGCATCAGCCTCGATGATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGT-GCCAGTGTAAGACCA
*
43526429 TGCCTGGGACATGCATCGGCTGAGAATT
64 TGCCTGGGACATGCATCGGCTGAGAATA
* * * * * *
43526457 GTGCTAGTGTAAGGCATGTCTGGGACATGCATCAG-CACGTATAAATAAGAGCTAGTGTAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC--AT-GATGAGTGCCAGTGTAAGACC
* *
43526521 ATGTCTGGGACATGGCATCGGCCTCTATGATGATA
63 ATGCCTGGGACAT-GCATCGG-CT-GA-GA--ATA
* * * * ** *
43526556 G-G-CAGTATAATACCATGTCTGGGACATGGCATCGGCCTCTATGATGA-TAGGTAGTATAAGAC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATGATGAGT-GCCAGTGTAAGAC
*
43526618 CATGTCTGGGACATGGCATCGGC
62 CATGCCTGGGACAT-GCATCGGC
43526641 AACTTATCCC
Statistics
Matches: 221, Mismatches: 37, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
90 2 0.01
91 33 0.15
92 18 0.08
93 21 0.10
94 53 0.24
95 19 0.09
96 1 0.00
97 9 0.04
98 51 0.23
99 12 0.05
100 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCCAGTGTAAGACCATG
CCTGGGACATGCATCGGCTGAGAATA
Found at i:43526571 original size:49 final size:49
Alignment explanation
Indices: 43526276--43526640 Score: 239
Period size: 49 Copynumber: 7.7 Consensus size: 49
43526266 ACTTATGTGC
* * * * *
43526276 CAGTGTAAGA-CATGTCTGGGAGA-GGCATCGGCCACT-TTATGAGT-GC
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCTATGATGA-TAGG
* * * ** * *
43526322 CAGTGTAAGACCATGTCTGGGACATGGGATCGGCATAGA-AATGAGT-GC
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCTATGATGA-TAGG
* ** * * *
43526370 CAGTGTAAGA-CATGTCCAGGACAT-GCATCAGCCTCGATGATGATAGC
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCTATGATGATAGG
* * * * *
43526417 CAGTGTAAGA-CGTGCCTGGGACAT-GCATCGG-CT-GA-GA--ATTGTG
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCTATGATGATAG-G
* * * * *
43526460 CTAGTGTAAG-GCATGTCTGGGACAT-GCATCAGCAC-GTAT-A-AATAAGAG
1 C-AGTATAAGACCATGTCTGGGACATGGCATCGGC-CTCTATGATGAT-AG-G
*
43526508 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTATGATGATAGG
1 C-AGTATAAGACCATGTCTGGGACATGGCATCGGCCTCTATGATGATAGG
*
43526558 CAGTATAATACCATGTCTGGGACATGGCATCGGCCTCTATGATGATAGG
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCTATGATGATAGG
*
43526607 TAGTATAAGACCATGTCTGGGACATGGCATCGGC
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGC
43526641 AACTTATCCC
Statistics
Matches: 265, Mismatches: 35, Indels: 35
0.79 0.10 0.10
Matches are distributed among these distances:
42 3 0.01
43 1 0.00
44 28 0.11
45 2 0.01
46 25 0.09
47 58 0.22
48 38 0.14
49 93 0.35
50 12 0.05
51 3 0.01
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
CAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCTATGATGATAGG
Found at i:43532901 original size:37 final size:37
Alignment explanation
Indices: 43532849--43532932 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 37
43532839 TGTGAGTACG
* * * *
43532849 TGTATGACCATAGCTGGGCTATGGCATCGTAATGACA
1 TGTAAGACCAAAGCTGGGCTATAGCATCGTAATCACA
* * *
43532886 TGTAAGACCAAAGCTGGGCTATAGCATTGTGATCCCA
1 TGTAAGACCAAAGCTGGGCTATAGCATCGTAATCACA
43532923 TGTAAGACCA
1 TGTAAGACCA
43532933 TGTCTGGGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (37 bp):
TGTAAGACCAAAGCTGGGCTATAGCATCGTAATCACA
Found at i:43532974 original size:48 final size:48
Alignment explanation
Indices: 43532913--43533140 Score: 359
Period size: 48 Copynumber: 4.8 Consensus size: 48
43532903 GCTATAGCAT
*
43532913 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
43532961 TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
43533009 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
43533057 TGTGATCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCATCGTTA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
43533105 TGTGAT-TCATGTAAGACCATGTTTAGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
43533141 CAATATGAGA
Statistics
Matches: 167, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 25 0.15
48 142 0.85
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:43539291 original size:40 final size:39
Alignment explanation
Indices: 43539221--43539305 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
43539211 AAACCAAGTA
* *
43539221 CCTTCGGGATTTAACCAGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAACCAGATATAGCTACTCGCACAAATG
* *
43539260 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTA-ACCAGATATAGCT-ACTCGCACAAATG
43539300 CCTTCG
1 CCTTCG
43539306 TTATCATCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 13 0.32
40 27 0.68
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCAGATATAGCTACTCGCACAAATG
Found at i:43544110 original size:30 final size:30
Alignment explanation
Indices: 43544076--43544136 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43544066 TTCCTGAGCC
43544076 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
43544106 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
43544136 T
1 T
43544137 GAATTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:43544748 original size:64 final size:64
Alignment explanation
Indices: 43544671--43544914 Score: 278
Period size: 64 Copynumber: 3.8 Consensus size: 64
43544661 ATTATGAGGC
* * *
43544671 AGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATATATGT
1 AGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAATGT
43544735 AGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAATGT
1 AGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAATGT
* * * * * * * * *
43544799 AGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATACA-
1 AGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
43544863 GT
63 GT
* * * *
43544865 GGCTAGGTCACATGGGTGGTACTAAGTGATA-ACCATGT-GTACAAGAGAGC
1 AGCTAGGTCGCATGGGTGATACTATGTG-TACACCATGTAG-ACAAGAGAGC
43544915 CAAAATTATG
Statistics
Matches: 152, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
63 18 0.12
64 78 0.51
65 8 0.05
66 17 0.11
67 31 0.20
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (64 bp):
AGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAATGT
Found at i:43546282 original size:20 final size:21
Alignment explanation
Indices: 43546246--43546284 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
43546236 TTACTTTTAT
43546246 GGGTTATTCTATTGTTCAAAA
1 GGGTTATTCTATTGTTCAAAA
*
43546267 GGGTTA-TCTTTTGTTCAA
1 GGGTTATTCTATTGTTCAA
43546285 TCTTGCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (21 bp):
GGGTTATTCTATTGTTCAAAA
Found at i:43557565 original size:46 final size:46
Alignment explanation
Indices: 43557514--43557606 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
43557504 GCTATAAAGC
43557514 TTAGTATAATTCACATACATACCTGTACAAGCTCATATCAATCTCA
1 TTAGTATAATTCACATACATACCTGTACAAGCTCATATCAATCTCA
* *
43557560 TTAGTATAATTCACGTACGTACCTGTACAAGCTCATATCAATCTCA
1 TTAGTATAATTCACATACATACCTGTACAAGCTCATATCAATCTCA
43557606 T
1 T
43557607 ACTCATCCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (46 bp):
TTAGTATAATTCACATACATACCTGTACAAGCTCATATCAATCTCA
Found at i:43561225 original size:33 final size:34
Alignment explanation
Indices: 43561160--43561225 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
43561150 CTAAAATGTT
*
43561160 AAACGGGCTTAGGCCCAGACTCATACTGTTACTG
1 AAACGGGCTTAGGCCCAGACTCATACTATTACTG
*
43561194 AAACGGGC-TCGGCCCAGACTGC-TACTATTACT
1 AAACGGGCTTAGGCCCAGACT-CATACTATTACT
43561226 TAAATAAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 20 0.69
34 9 0.31
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (34 bp):
AAACGGGCTTAGGCCCAGACTCATACTATTACTG
Found at i:43579989 original size:23 final size:23
Alignment explanation
Indices: 43579940--43579995 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
43579930 TAGCTACTAT
*
43579940 GAGCTTACTG-TTCAGCTCGTCA
1 GAGCTTACTGTTTCAGCTCATCA
*
43579962 AAGCTTACTGTTTCAGCTCAAT-A
1 GAGCTTACTGTTTCAGCTC-ATCA
43579985 GAGCTTACTGT
1 GAGCTTACTGT
43579996 CCATCAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.31
23 19 0.66
24 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCATCA
Found at i:43586146 original size:28 final size:28
Alignment explanation
Indices: 43586083--43586236 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
43586073 ATATTAAGTC
* *
43586083 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43586110 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
43586138 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
43586166 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
43586194 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
43586222 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43586237 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:43594303 original size:28 final size:28
Alignment explanation
Indices: 43594240--43594390 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
43594230 ATATTAAGTC
*
43594240 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
43594267 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
43594295 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
43594323 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43594351 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
43594380 CGCACACTTAG
1 CGCACACTTAG
43594391 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43598191 original size:40 final size:40
Alignment explanation
Indices: 43598063--43598281 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
43598053 AACCCAAGTA
* *
43598063 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
43598102 CCTTCGGGTCTTAGCCCGGATATAGTCACTAG-GCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43598141 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43598181 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43598221 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-G
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43598260 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43598282 CATCCGAATA
Statistics
Matches: 168, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
38 17 0.10
39 55 0.33
40 95 0.57
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:43598194 original size:79 final size:80
Alignment explanation
Indices: 43598063--43598281 Score: 340
Period size: 79 Copynumber: 2.8 Consensus size: 80
43598053 AACCCAAGTA
* * *
43598063 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
43598126 GTCACTAG-GCAAATG
65 GTCACTAGCACAAAGG
*
43598141 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
43598206 TCACTAGCACAAAGG
66 TCACTAGCACAAAGG
43598221 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-GCCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
43598282 CATCCGAATA
Statistics
Matches: 131, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
78 30 0.23
79 58 0.44
80 43 0.33
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAAGG
Found at i:43606067 original size:40 final size:40
Alignment explanation
Indices: 43605990--43606211 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
43605980 AACCCAAGTA
* * *
43605990 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
43606029 CCTTCGGGTCTTAGCCCAGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
43606069 CCTTTGGGACTTAACCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43606109 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43606149 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43606189 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43606212 CATCCGAATA
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 153 0.92
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:43610958 original size:3 final size:3
Alignment explanation
Indices: 43610946--43611338 Score: 125
Period size: 3 Copynumber: 131.3 Consensus size: 3
43610936 GACGAAAACG
* * * * *
43610946 ATA A-A ATA ATA ATA TTG ATA ATA ATA ATA GAAA ATA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * *
43610991 ATA AT- ATA GA-A ATA GTA ATA GTA ATA A-A A-A AGA A-A AT- ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
43611031 ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA AAA AGGT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA
* * * * * *
43611076 ATA AT- ATA TTA GATA GTA AAA AAA ATA AAA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
43611121 A-A AAA ATG ATA AT- GTG ATA TTA GTA GTA ATA ATA ATA ATA GGA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA
* * * * * *
43611165 ATA ATA ATA TTA TATA CTA ATA ACA ACA ATA AT- ATGA AAA ATA AGAA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA A-TA
* * * * *
43611212 ATA ACA ATA CACTA ATA AGA ATA CTA ATAA ATCA CTA ATA ATA ATA GTA
1 ATA ATA ATA -A-TA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA ATA ATA
* * * * ** * * *
43611261 A-A AAA ACTA AAA ATA ATA AT- ATA TTA CTA AGG GTA ATG ATG ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
43611305 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
43611339 CATCTTAGAT
Statistics
Matches: 283, Mismatches: 78, Indels: 58
0.68 0.19 0.14
Matches are distributed among these distances:
2 27 0.10
3 232 0.82
4 21 0.07
5 3 0.01
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:43611016 original size:23 final size:23
Alignment explanation
Indices: 43610963--43611066 Score: 77
Period size: 23 Copynumber: 4.4 Consensus size: 23
43610953 AATAATATTG
* **
43610963 ATAATAATAATAGA-AAATAAAA
1 ATAATAATAATATAGAAATAGTA
*
43610985 ATAAAAATAATATAGAAATAGTA
1 ATAATAATAATATAGAAATAGTA
* * *
43611008 ATAGTAATAAAAAAGAAAATA-TA
1 ATAATAATAATATAG-AAATAGTA
* *
43611031 ATAATAATAGTAATAATACAATAGTA
1 ATAATAATAAT-AT-AGA-AATAGTA
43611057 ATAATAATAA
1 ATAATAATAA
43611067 AAAGGTATAA
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
22 12 0.19
23 27 0.44
24 7 0.11
25 5 0.08
26 11 0.18
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (23 bp):
ATAATAATAATATAGAAATAGTA
Found at i:43611016 original size:29 final size:28
Alignment explanation
Indices: 43610984--43611046 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
43610974 AGAAAATAAA
* * *
43610984 AATAAAAATAATATAGAAATAGTAATAGT
1 AATAAAAAGAAAATA-AAATAATAATAGT
*
43611013 AATAAAAAAGAAAATATAATAATAATAGT
1 AAT-AAAAAGAAAATAAAATAATAATAGT
43611042 AATAA
1 AATAA
43611047 TACAATAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 2 0.07
29 17 0.59
30 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (28 bp):
AATAAAAAGAAAATAAAATAATAATAGT
Found at i:43611045 original size:49 final size:47
Alignment explanation
Indices: 43610963--43611069 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 47
43610953 AATAATATTG
*
43610963 ATAATAATAATAGAAAATAAAAATAAAAATAAT-ATAGAAATAGTAATA
1 ATAATAA-AAAAGAAAATAAAAATAAAAATAATAATA-AAATAGTAATA
* * * *
43611011 GTAATAAAAAAGAAAATATAATAATAATAGTAATAATACAATAGTAATA
1 ATAATAAAAAAGAAAATA-AA-AATAAAAATAATAATAAAATAGTAATA
43611060 ATAATAAAAA
1 ATAATAAAAA
43611070 GGTATAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 10 0.20
48 8 0.16
49 29 0.58
50 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.07, T:0.25
Consensus pattern (47 bp):
ATAATAAAAAAGAAAATAAAAATAAAAATAATAATAAAATAGTAATA
Found at i:43611048 original size:20 final size:20
Alignment explanation
Indices: 43611025--43611337 Score: 63
Period size: 20 Copynumber: 16.2 Consensus size: 20
43611015 TAAAAAAGAA
* *
43611025 AATATAATAATAATAGTAAT
1 AATACAATAATAATAATAAT
*
43611045 AATACAATAGTAATAATAAT
1 AATACAATAATAATAATAAT
43611065 AA-A-AAGGT-ATAATAAT-AT
1 AATACAA--TAATAATAATAAT
* * *
43611083 ATTA-GATAGTAA-AA-AA-
1 AATACAATAATAATAATAAT
*
43611099 AATA-AA-AATAATAATAGT
1 AATACAATAATAATAATAAT
* * * *
43611117 AATAAAAAAATGATAAT-GT
1 AATACAATAATAATAATAAT
* * * *
43611136 GATATTAGTAGTAATAATAAT
1 AATA-CAATAATAATAATAAT
** *
43611157 AATAGGA-AATAATAATATT
1 AATACAATAATAATAATAAT
* *
43611176 ATATACTAATAACAACAATAAT
1 A-ATAC-AATAATAATAATAAT
* *
43611198 -ATGA-AA-AATAAGAAATAAC
1 AAT-ACAATAATAA-TAATAAT
* * *
43611217 AATACACTAATAAGAATACT
1 AATACAATAATAATAATAAT
*
43611237 AATA-AATCACTAATAATAAT
1 AATACAAT-AATAATAATAAT
* * * *
43611257 AGTAAAAAAACTAAAAATAAT
1 AATACAATAA-TAATAATAAT
* * * ***
43611278 AATATATTACTAAGGGTAAT
1 AATACAATAATAATAATAAT
* *
43611298 GAT--GATAATAATAATAAT
1 AATACAATAATAATAATAAT
43611316 -A-ACAATAATAATAATAAT
1 AATACAATAATAATAATAAT
43611334 AATA
1 AATA
43611338 ACATCTTAGA
Statistics
Matches: 205, Mismatches: 61, Indels: 54
0.64 0.19 0.17
Matches are distributed among these distances:
15 4 0.02
16 6 0.03
17 6 0.03
18 39 0.19
19 39 0.19
20 75 0.37
21 27 0.13
22 9 0.04
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.28
Consensus pattern (20 bp):
AATACAATAATAATAATAAT
Found at i:43611055 original size:14 final size:13
Alignment explanation
Indices: 43611024--43611063 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
43611014 ATAAAAAAGA
43611024 AAATA-TAATAAT
1 AAATAGTAATAAT
43611036 -AATAGTAATAAT
1 AAATAGTAATAAT
43611048 ACAATAGTAATAAT
1 A-AATAGTAATAAT
43611062 AA
1 AA
43611064 TAAAAAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 1 0.04
14 13 0.52
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (13 bp):
AAATAGTAATAAT
Found at i:43611108 original size:27 final size:25
Alignment explanation
Indices: 43610948--43611125 Score: 91
Period size: 25 Copynumber: 6.9 Consensus size: 25
43610938 CGAAAACGAT
* *
43610948 AAAATAATAATATTGATAATAATAATA
1 AAAATAATAATAGTAATAA-AA-AATA
43610975 GAAAATAA-AA-A-TAA-AAATAATATA
1 -AAAATAATAATAGTAATAAA-AA-ATA
* * *
43610999 GAAATAGTAATAGTAATAAAAAAGA
1 AAAATAATAATAGTAATAAAAAATA
* * *
43611024 AAATATAATAATAATAGT-AATAAT-
1 AAA-ATAATAATAGTAATAAAAAATA
* * *
43611048 ACAATAGTAATAATAATAAAAAGGTATA
1 AAAATAATAATAGTAATAAAAA---ATA
*
43611076 ATAATATATTAGATAGTAA-AAAAAATA
1 A-AA-ATAATA-ATAGTAATAAAAAATA
43611103 AAAATAATAATAGTAATAAAAAA
1 AAAATAATAATAGTAATAAAAAA
43611126 ATGATAATGT
Statistics
Matches: 116, Mismatches: 18, Indels: 35
0.69 0.11 0.21
Matches are distributed among these distances:
23 19 0.16
24 20 0.17
25 22 0.19
26 19 0.16
27 11 0.09
28 8 0.07
29 1 0.01
30 10 0.09
31 6 0.05
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAATAATAATAGTAATAAAAAATA
Found at i:43613159 original size:88 final size:88
Alignment explanation
Indices: 43613047--43613384 Score: 466
Period size: 88 Copynumber: 3.8 Consensus size: 88
43613037 TGATTTCAAC
* *
43613047 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCATCCTGTTACCCTA-TGGCTTAGG
1 CTGCTCCACTACTGCTTAGAGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACT-GCTTAGG
*
43613111 GGGTTAAGGCCCATCGTCTTTGAT
65 GGGTTAAGGCCCATCGTCTTCGAT
* * * * *
43613135 CCGCTCCACTACTACTTAGAGAGACAAGATCTGTAATTTTCAGCCTGTTAACTTATTGCTTAGGG
1 CTGCTCCACTACTGCTTAGAGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
* *
43613200 GGTTAAGGCCCTTCATCTTCGAT
66 GGTTAAGGCCCATCGTCTTCGAT
* *
43613223 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCTTGTTACCCTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGAGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
43613288 GGTTAAGG-CCATTCGTCTTCGAT
66 GGTTAAGGCCCA-TCGTCTTCGAT
* * * * **
43613311 TTGCTCCACTACTGGTTAGAGAGATAAGATCTGTAACTTTT-AACCTGCCACCCTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGAGAGACAAGATCTGTAA-TTTTCAGCCTGTTACCCTACTGCTTAGG
43613375 GGGTTAAGGC
65 GGGTTAAGGC
43613385 TTACGAATCC
Statistics
Matches: 220, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
87 2 0.01
88 213 0.97
89 5 0.02
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (88 bp):
CTGCTCCACTACTGCTTAGAGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
GGTTAAGGCCCATCGTCTTCGAT
Found at i:43613323 original size:44 final size:43
Alignment explanation
Indices: 43613191--43613329 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 43
43613181 GTTAACTTAT
*
43613191 TGCTTAGGGGGTTAAGGCCCTTCATCTTCGATCTGCTCCACTAC
1 TGCTTAGGGGGTTAAGG-CCTTCATCTTCGATTTGCTCCACTAC
* ** ** * * * *
43613235 TGCTTAGGGAGACAAGATCTGTAATTTTC-AGCTTGTTACC-CTAC
1 TGCTTAGGGGGTTAAGGCCT-TCATCTTCGA-TTTGCT-CCACTAC
*
43613279 TGCTTAGGGGGTTAAGGCCATTCGTCTTCGATTTGCTCCACTAC
1 TGCTTAGGGGGTTAAGGCC-TTCATCTTCGATTTGCTCCACTAC
*
43613323 TGGTTAG
1 TGCTTAG
43613330 AGAGATAAGA
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
43 5 0.07
44 59 0.87
45 4 0.06
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.34
Consensus pattern (43 bp):
TGCTTAGGGGGTTAAGGCCTTCATCTTCGATTTGCTCCACTAC
Found at i:43621449 original size:9 final size:9
Alignment explanation
Indices: 43621431--43621462 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
43621421 TGCAATGCTG
43621431 ATGC-ATGA
1 ATGCAATGA
43621439 ATGCAATGA
1 ATGCAATGA
43621448 ATGCAATGA
1 ATGCAATGA
43621457 ATGCAA
1 ATGCAA
43621463 AAAAGGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:43621869 original size:22 final size:22
Alignment explanation
Indices: 43621827--43621869 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
43621817 TAGCGCTGCC
* *
43621827 TTAAGTTCTTCTATCTTCTCTT
1 TTAAGTTCTTCAATCTGCTCTT
43621849 TTAA-TTCTTCAATTCTGCTCT
1 TTAAGTTCTTCAA-TCTGCTCT
43621870 GACTAGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.56
Consensus pattern (22 bp):
TTAAGTTCTTCAATCTGCTCTT
Found at i:43624797 original size:3 final size:3
Alignment explanation
Indices: 43624791--43625191 Score: 125
Period size: 3 Copynumber: 133.7 Consensus size: 3
43624781 GACGAAAACG
* * * * *
43624791 ATA ATA ATA ATA ATA ATA TTG ATA AAA ATA ATA GAAA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * *
43624837 A-A ATA ATA CAGAA ATA GTA ATA A-A AAA AGA A-A AT- ATA ATA ATA
1 ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
43624880 ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA AAA AGGT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA
* * *
43624925 AT- ATA TTA GATA GTA A-A AAA ATA A-A A-A ATA A-A ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
43624966 ATA ATA GTA ATA GTA ATA GTA ATA A-A AAA ATG ATA ATA GTG ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** *
43625013 ATA GTA ATA ATA ATA GGA-A ACA ATA ATA ATA TATA CTA GTA GCA ACA
1 ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * *
43625060 ATA AT- ATGA AAA ATA AGAA ATA ACA ATA CACTA ATA AGA ATA GTA ATA
1 ATA ATA AT-A ATA ATA A-TA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
* * * **
43625108 GATCA CTA ATA ATA ATA GCA-A ATA ATA ATA ATA ATA A-A TTA CTA AGG
1 -AT-A ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
43625155 GTA ATG ATA ATA AAA ATA GTA AT- ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
43625192 GATGATGATG
Statistics
Matches: 287, Mismatches: 78, Indels: 66
0.67 0.18 0.15
Matches are distributed among these distances:
2 29 0.10
3 232 0.81
4 20 0.07
5 6 0.02
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:43624876 original size:80 final size:82
Alignment explanation
Indices: 43624791--43624993 Score: 209
Period size: 83 Copynumber: 2.5 Consensus size: 82
43624781 GACGAAAACG
* *
43624791 ATAATAATAATAATAATATTGATA-AA-AATAATAGAAAATAAAAA-TAAAATAATACA-GAAAT
1 ATAATAATAATAATAATAATAATACAATAATAATA-AAAATAAAAAGTAAAATAATACATGAAAT
43624852 AGTAATAAAAA-AAGAAAAT
65 AGTAA-AAAAATAA-AAAAT
* * * * * * *
43624871 ATAATAATAATAATAGTAATAATACAATAGTAATAATAATAAAAAGGTATAATAATATATTAGAT
1 ATAATAATAATAATAATAATAATACAATAATAATAAAAATAAAAA-GTAAAATAATACATGAAAT
43624936 AGTAAAAAAATAAAAAAT
65 AGTAAAAAAATAAAAAAT
* * * *
43624954 AAAATAATAATAATAATAGTAATAGTAATAGTAATAAAAA
1 ATAATAATAATAATAATAATAATA-CAATAATAATAAAAA
43624994 AATGATAATA
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
80 21 0.21
81 11 0.11
82 6 0.06
83 41 0.40
84 23 0.23
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.27
Consensus pattern (82 bp):
ATAATAATAATAATAATAATAATACAATAATAATAAAAATAAAAAGTAAAATAATACATGAAATA
GTAAAAAAATAAAAAAT
Found at i:43624899 original size:14 final size:14
Alignment explanation
Indices: 43624868--43624908 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
43624858 AAAAAAAGAA
*
43624868 AATA-TAATAATAAT
1 AATAGTAATAAT-AC
43624882 AATAGTAATAATAC
1 AATAGTAATAATAC
43624896 AATAGTAATAATA
1 AATAGTAATAATA
43624909 ATAAAAAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (14 bp):
AATAGTAATAATAC
Found at i:43624996 original size:38 final size:38
Alignment explanation
Indices: 43624879--43625053 Score: 140
Period size: 38 Copynumber: 4.5 Consensus size: 38
43624869 ATATAATAAT
* *
43624879 AATAATAGTAATAATA-CAATAGTAATAATAATAAAAA
1 AATAATAATAATAATAGTAATAGTAATAATAATAAAAA
** * * *
43624916 GGT-ATAATAAT-ATATTAGATAGTAAAAAAATAAAAAATAA
1 AATAATAATAATAATAGTA-ATAGT--AATAATAATAAA-AA
*
43624956 AATAATAATAATAATAGTAATAGTAATAGTAATAAAAA
1 AATAATAATAATAATAGTAATAGTAATAATAATAAAAA
* * * * *
43624994 AATGATAATAGTGATATTAATAGTAATAATAATAGGAAAC
1 AATAATAATAATAATAGTAATAGTAATAATAATA--AAAA
*
43625034 AATAATAATATATACTAGTA
1 AATAATAATA-ATAATAGTA
43625054 GCAACAATAA
Statistics
Matches: 105, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
35 3 0.03
36 8 0.08
37 6 0.06
38 31 0.30
39 19 0.18
40 15 0.14
41 18 0.17
42 5 0.05
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (38 bp):
AATAATAATAATAATAGTAATAGTAATAATAATAAAAA
Found at i:43625698 original size:17 final size:17
Alignment explanation
Indices: 43625676--43625709 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43625666 TCATTTTTAC
43625676 TTCATTCTCTTCAAAAA
1 TTCATTCTCTTCAAAAA
43625693 TTCATTCTCTTCAAAAA
1 TTCATTCTCTTCAAAAA
43625710 ATAAAAGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (17 bp):
TTCATTCTCTTCAAAAA
Found at i:43631084 original size:23 final size:23
Alignment explanation
Indices: 43631054--43631100 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
43631044 CCTCGGGATA
43631054 TACAAGCTAGTGTAAGACCTGTC
1 TACAAGCTAGTGTAAGACCTGTC
43631077 TACAAGCTAGTGTAAGACCTGTC
1 TACAAGCTAGTGTAAGACCTGTC
43631100 T
1 T
43631101 GGGACATGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (23 bp):
TACAAGCTAGTGTAAGACCTGTC
Found at i:43638795 original size:8 final size:9
Alignment explanation
Indices: 43638774--43638798 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43638764 CCCTAAGGGG
43638774 TTTTTATTA
1 TTTTTATTA
43638783 TTTTTATTA
1 TTTTTATTA
43638792 TTTTTAT
1 TTTTTAT
43638799 GAGGTTATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTA
Found at i:43640094 original size:47 final size:44
Alignment explanation
Indices: 43639924--43640244 Score: 137
Period size: 47 Copynumber: 6.9 Consensus size: 44
43639914 ATTGGGTTAT
* * * *
43639924 GTGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGA
1 GTGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-GTAA
* * ** * * * *
43639971 GATGAGGGCTAGTGTAAGATGTGTCTAGGACATGCATTAGCCGCATCA
1 G-TGAGTGCCAGTGTAAGACATGTCTGGGACATGCA-T--CGGCGTAA
* * *
43640019 -TGA-TGGCCCGTGTAAGACCACGTCTGGGACATGGCATCGGTGTAGA
1 GTGAGT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCGTA-A
* * *
43640065 GGTGAGTGCCAGTGTAAGACATGTTTGGGACATACATCGGCCTCAA
1 -GTGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGT-AA
** *
43640111 -TGATGTTAGCCAGTGTAAGATGTGTCTGGGACATGCATCGG-TTAA
1 GTGA-G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAA
** * * * *
43640156 GTTTCGTGCTAGTGTAAGACGTGTTTGGGACATGCATCAGCACGTATA
1 G-TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-GCGTA-A
* * *
43640204 CATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 -GTGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
43640245 ACCTCGATGG
Statistics
Matches: 206, Mismatches: 44, Indels: 46
0.70 0.15 0.16
Matches are distributed among these distances:
44 31 0.15
45 8 0.04
46 28 0.14
47 69 0.33
48 48 0.23
49 17 0.08
50 5 0.02
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (44 bp):
GTGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAA
Found at i:43640594 original size:40 final size:40
Alignment explanation
Indices: 43640539--43640659 Score: 242
Period size: 40 Copynumber: 3.0 Consensus size: 40
43640529 GAAGTTGTCG
43640539 TTGTATATATATTTATATGCAACTTACTAAGCTTTATGCT
1 TTGTATATATATTTATATGCAACTTACTAAGCTTTATGCT
43640579 TTGTATATATATTTATATGCAACTTACTAAGCTTTATGCT
1 TTGTATATATATTTATATGCAACTTACTAAGCTTTATGCT
43640619 TTGTATATATATTTATATGCAACTTACTAAGCTTTATGCT
1 TTGTATATATATTTATATGCAACTTACTAAGCTTTATGCT
43640659 T
1 T
43640660 ACTCTCTTTC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (40 bp):
TTGTATATATATTTATATGCAACTTACTAAGCTTTATGCT
Found at i:43643569 original size:25 final size:26
Alignment explanation
Indices: 43643538--43643587 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
43643528 TTACCATCTT
* *
43643538 AGCTCAATA-GAGCTTACTGTTCATC
1 AGCTCAAGAGGAGCTTACTGATCATC
43643563 AGCTCAAGAGGAGCTTACTGATCAT
1 AGCTCAAGAGGAGCTTACTGATCAT
43643588 GGCTCGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCTCAAGAGGAGCTTACTGATCATC
Found at i:43645187 original size:46 final size:48
Alignment explanation
Indices: 43645084--43645400 Score: 201
Period size: 46 Copynumber: 6.7 Consensus size: 48
43645074 ATTGCGAGAG
* * * *** *
43645084 CCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACAAAAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAT
* *
43645132 CTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGTAAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAT
*
43645178 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATGT-GT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAAT
* * * *
43645223 -CAATATAAGACCATGTCTGGGACATGGCATCGG--TACGTATAGTGGT-GT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CG-AGA-T-GTAAT
* * * * *
43645271 -CAGTGTAAGACCATATCTGGGACATGGTATCGGCAC-GGATATGTAAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-A-AT
* * ** * * ** *
43645320 CTAGTGTAAGACCATGTTTGAAACATGGCATCGACCTCAATTTCGATAGT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-G-TAAT
43645370 -CAGTGTAAGACCATGTCTGGGACATGGCATC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC
43645401 AGCATTATAC
Statistics
Matches: 215, Mismatches: 38, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
44 8 0.04
45 21 0.10
46 63 0.29
47 15 0.07
48 46 0.21
49 29 0.13
50 30 0.14
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAT
Found at i:43645284 original size:48 final size:50
Alignment explanation
Indices: 43645179--43645400 Score: 173
Period size: 48 Copynumber: 4.6 Consensus size: 50
43645169 AGATGTAATC
*
43645179 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG---A-G-ATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-TACGTATATGTAGGTGT
* *
43645223 CAATATAAGACCATGTCTGGGACATGGCATCGGTACGTATA-GT-GGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGTATATGTAGGTGT
* * * * * *
43645271 CAGTGTAAGACCATATCTGGGACATGGTATCGGCACGGATATGTAAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGTATATGTAGGTGT
* ** * * * *
43645320 CTAGTGTAAGACCATGTTTGAAACATGGCATC-G-ACCTCA-ATTTCGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGT-ATATGTAGGT-GT
43645370 CAGTGTAAGACCATGTCTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
43645401 AGCATTATAC
Statistics
Matches: 140, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 8 0.06
45 18 0.13
46 7 0.05
48 46 0.33
49 33 0.24
50 28 0.20
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGTATATGTAGGTGT
Found at i:43646440 original size:13 final size:13
Alignment explanation
Indices: 43646422--43646450 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43646412 ACGGAGACGA
43646422 GCAATAGGCATGG
1 GCAATAGGCATGG
43646435 GCAATAGGCATGG
1 GCAATAGGCATGG
43646448 GCA
1 GCA
43646451 TGTTTCAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.38, T:0.14
Consensus pattern (13 bp):
GCAATAGGCATGG
Found at i:43648743 original size:47 final size:48
Alignment explanation
Indices: 43648661--43648877 Score: 145
Period size: 46 Copynumber: 4.6 Consensus size: 48
43648651 GCACCGAAGT
**
43648661 CATG-TCCTAGACATGGTCTTACACT-AGCTCACATCTC-AATTTGATG
1 CATGTTCC-AGACATGGTCTTACACTGAGCTCACATCTCGAAGCTGATG
* *
43648707 CCATGTTCCAGACATGGTCTAACACTGA-CT-ATCATCTCGTAGCTGATG
1 -CATGTTCCAGACATGGTCTTACACTGAGCTCA-CATCTCGAAGCTGATG
* * ** **
43648755 CATGTCCCAGACAT-GTCTTACACTG-GCTTATGTCTC-AAGGCCAATG
1 CATGTTCCAGACATGGTCTTACACTGAGCTCACATCTCGAA-GCTGATG
* * *
43648801 CATGTCCCAGACAT-GTCTTACACT-AGCTCTCATCTC-AATGCCGATG
1 CATGTTCCAGACATGGTCTTACACTGAGCTCACATCTCGAA-GCTGATG
* *
43648847 CCATG-TCCTAGATATGATCTTACACTG-GCTC
1 -CATGTTCC-AGACATGGTCTTACACTGAGCTC
43648878 TCATAATATG
Statistics
Matches: 138, Mismatches: 20, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
45 1 0.01
46 63 0.46
47 51 0.37
48 23 0.17
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (48 bp):
CATGTTCCAGACATGGTCTTACACTGAGCTCACATCTCGAAGCTGATG
Found at i:43648804 original size:46 final size:47
Alignment explanation
Indices: 43648752--43648915 Score: 201
Period size: 46 Copynumber: 3.5 Consensus size: 47
43648742 CTCGTAGCTG
43648752 ATGCATGTCCCAGACATGTCTTACACTGGCT-T-ATGTCTCAAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-TCTCAAGGCCA
* * *
43648798 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCA-TCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATTCTCAAGGCCA
* * ** *
43648844 ATGCCATGTCCTAGATATGATCTTACACTGGCTCTCATAAT-ATGGCCA
1 ATG-CATGTCCCAGACATG-TCTTACACTGGCTCTCATTCTCAAGGCCA
43648892 ATGCATGTCCCAGACATGTCTTAC
1 ATGCATGTCCCAGACATGTCTTAC
43648916 GCTAGCCAAC
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
46 48 0.48
47 27 0.27
48 24 0.24
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATTCTCAAGGCCA
Found at i:43648913 original size:140 final size:140
Alignment explanation
Indices: 43648661--43648915 Score: 336
Period size: 140 Copynumber: 1.8 Consensus size: 140
43648651 GCACCGAAGT
* ** *
43648661 CATGTCCTAGACATGGTCTTACACTAGCTCACATCTCAATTTGATGCCATGTTCCAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAATCCGATGCCATGTTCCAGACATGATC
* * **
43648726 TAACACTGACTATCATCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTC
66 TAACACTGACTATCATATCATAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTC
43648791 AAGGCCAATG
131 AAGGCCAATG
* *
43648801 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATGCCGATGCCATG-TCCTAGATATGA
1 CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAT-CCGATGCCATGTTCC-AGACATGA
* * * *
43648864 TCTTACACTGGCTCTCATAAT-ATGGCCAATGCATGTCCCAGACATGTCTTAC
64 TCTAACACTGACTATCAT-ATCATAGCCAATGCATGTCCCAGACATGTCTTAC
43648916 GCTAGCCAAC
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
139 27 0.28
140 70 0.71
141 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAATCCGATGCCATGTTCCAGACATGATC
TAACACTGACTATCATATCATAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTC
AAGGCCAATG
Found at i:43655792 original size:46 final size:46
Alignment explanation
Indices: 43655646--43656001 Score: 253
Period size: 46 Copynumber: 7.5 Consensus size: 46
43655636 ATTTGTGTGT
* * *
43655646 CAGTGTAAGACATGTTTGGGACATGCATCGGCAAC-ATTATGAGAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCATCGA-GATGAGAGC
* * *
43655692 CAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGAGATGAGAGC
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGATGAGAGC
* * * *
43655740 TAGTGTAAGACATGTCTAGGACATGAATCGGCCTCGAGATGTA-AGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATG-AGAGC
* * *
43655786 CAGTGTAAGACATGTCTGGAACATGCATCGGC-TACGAGAT--GTGT
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGATGAGAGC
* * *
43655830 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCA-CGGATATGTGAGAGG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATC-GAGA--TGAGAGC
* * * * ** * *
43655880 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATTTTGATAGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGA-GATGAGAGC
* *
43655929 CAGTGTAAGACCATGTCTGGGACATGGCATTGGC-T--TGATGGATGAGC
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAT-GA-GAGC
43655976 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGA-CATGTCTGGGACATG
43656002 GCTTCAGCAT
Statistics
Matches: 254, Mismatches: 38, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 73 0.29
47 54 0.21
48 27 0.11
49 37 0.15
50 34 0.13
51 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGAGAGC
Found at i:43655877 original size:140 final size:142
Alignment explanation
Indices: 43655646--43656003 Score: 417
Period size: 140 Copynumber: 2.5 Consensus size: 142
43655636 ATTTGTGTGT
* * * *
43655646 CAGTGTAAGACATGTTTGGGACATGCATCGGCAAC-ATTATGAGAGCCAGTGTAAGACCATGTTT
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGATGAT--GAGCCAGTGTAAGACCATGTCT
**
43655710 GGGACATGGCATTGGCATTGAGATGAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GAATCGGCC
64 GGGACATGGCATTGGCACGGAGATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGAATCGGCC
43655773 TCGAGA-TGT-A-AGC
129 TC-A-ATTGTGATAGC
* * *
43655786 CAGTGTAAGACATGTCTGGAACATGCATCGGCTACGA-GATGTGTCAGTGTAAGACCATGTCTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGATGATGAGCCAGTGTAAGACCATGTCTGG
* * * * *
43655850 GACATGGCATTGGCACGGATATGTGAGAGGTAGTGTAAGACCATGTTTGGGACATGGCATCGGCC
66 GACATGGCATTGGCACGGAGA--TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGAATCGGCC
* *
43655915 TCAATTTTGATAGT
129 TCAATTGTGATAGC
* *
43655929 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCT-TGATGGATGAGCCAGTGTAAGACCATGTC
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAT-GATGAGCCAGTGTAAGACCATGTC
43655993 TGGGACATGGC
63 TGGGACATGGC
43656004 TTCAGCATTA
Statistics
Matches: 185, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
138 39 0.21
140 51 0.28
141 16 0.09
142 11 0.06
143 12 0.06
144 15 0.08
145 8 0.04
146 33 0.18
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (142 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGATGATGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATTGGCACGGAGATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGAATCGGCCTC
AATTGTGATAGC
Found at i:43655940 original size:99 final size:96
Alignment explanation
Indices: 43655688--43656003 Score: 271
Period size: 96 Copynumber: 3.3 Consensus size: 96
43655678 AACATTATGA
* * * ** ** *
43655688 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGA-GATGAGAG-CTAGTGTAAGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTTGATAGTC-AGTGTAAGAC
* * *
43655750 CATGTCTAGGACAT-GAATCGGCCTCGAGAT-G-T
65 CATGTCTGGGACATGGCATTGG-C-CG-GATGGAT
* * * **
43655782 AAGCCAGTGTAAGA-CATGTCTGGAACAT-GCATCGG-CTACGA-GATG-T-GTCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CAATTTTGATAGTCAGTGTAAGAC
43655841 CATGTCTGGGACATGGCATTGGCACGGATATGTGA-
65 CATGTCTGGGACATGGCATTGGC-CGG--ATG-GAT
** *
43655876 GAGGTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATTTTGATAGTCAGTGTAAGACC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTTGATAGTCAGTGTAAGACC
**
43655941 ATGTCTGGGACATGGCATTGGCTTGATGGAT
66 ATGTCTGGGACATGGCATTGGCCGGATGGAT
43655972 GAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGC
43656004 TTCAGCATTA
Statistics
Matches: 182, Mismatches: 24, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
90 11 0.06
91 18 0.10
92 19 0.10
93 12 0.07
94 25 0.14
95 14 0.08
96 41 0.23
97 4 0.02
98 2 0.01
99 36 0.20
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTTGATAGTCAGTGTAAGACC
ATGTCTGGGACATGGCATTGGCCGGATGGAT
Found at i:43661249 original size:16 final size:18
Alignment explanation
Indices: 43661214--43661250 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43661204 TTTTTCAATG
*
43661214 AAAATTATATAAATACAT
1 AAAATAATATAAATACAT
43661232 AAAATAATA-AAATA-AT
1 AAAATAATATAAATACAT
43661248 AAA
1 AAA
43661251 TATTGTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 8 0.44
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATAATATAAATACAT
Found at i:43662614 original size:20 final size:20
Alignment explanation
Indices: 43662577--43662637 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
43662567 ACTAATTATA
*
43662577 TTGTCTCTTTTCTTTTCTTT
1 TTGTCTCTTTCCTTTTCTTT
43662597 TTGT-TCTTTCCTTGTTCTTT
1 TTGTCTCTTTCCTT-TTCTTT
**
43662617 ATT-TC-CTTTGTTTTTCTTT
1 -TTGTCTCTTTCCTTTTCTTT
43662636 TT
1 TT
43662638 ATATTTTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.06
19 14 0.40
20 17 0.49
21 2 0.06
ACGTcount: A:0.02, C:0.18, G:0.07, T:0.74
Consensus pattern (20 bp):
TTGTCTCTTTCCTTTTCTTT
Found at i:43676006 original size:19 final size:19
Alignment explanation
Indices: 43675969--43676006 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
43675959 ACCTATCAGA
*
43675969 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
43675988 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
43676007 TAAGTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:43677959 original size:26 final size:26
Alignment explanation
Indices: 43677927--43677976 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
43677917 AAGAAGAAAA
43677927 AATTATTCTAACACATGCATGCTAAG
1 AATTATTCTAACACATGCATGCTAAG
43677953 AATTATTCTAACACATGCATGCTA
1 AATTATTCTAACACATGCATGCTA
43677977 TTGTGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (26 bp):
AATTATTCTAACACATGCATGCTAAG
Found at i:43687545 original size:28 final size:27
Alignment explanation
Indices: 43687488--43687539 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
43687478 TAAAACTACT
* *
43687488 TTTTATTTTTATTATTAGATTTTAGAA
1 TTTTATTTTTATTATCAGATTTCAGAA
43687515 TTTTATTTTTAATTATCA-ATTTCAG
1 TTTTATTTTT-ATTATCAGATTTCAG
43687540 TTATTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (27 bp):
TTTTATTTTTATTATCAGATTTCAGAA
Found at i:43694871 original size:56 final size:56
Alignment explanation
Indices: 43694785--43694960 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
43694775 ACAAGGGATG
43694785 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
43694841 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATCGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
43694897 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
43694953 ATGGGCAA
1 ATGGGCAA
43694961 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:43696221 original size:40 final size:40
Alignment explanation
Indices: 43696137--43696361 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
43696127 TCGAATGATG
* * * *
43696137 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43696177 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43696217 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43696256 TCCGGG-TGAAGTCCCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43696296 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
43696337 -CCGGGCTATGACCCGAAAGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43696362 AATGAGTAGC
Statistics
Matches: 160, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.21
40 115 0.72
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43699464 original size:16 final size:16
Alignment explanation
Indices: 43699445--43699475 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43699435 CTTCTTCACT
43699445 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
43699461 TACTTACTTACTTAA
1 TACTCACTTACTTAA
43699476 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:43699481 original size:20 final size:20
Alignment explanation
Indices: 43699442--43699481 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43699432 AAACTTCTTC
* *
43699442 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
43699462 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
43699482 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:43699801 original size:53 final size:53
Alignment explanation
Indices: 43699667--43699919 Score: 241
Period size: 54 Copynumber: 4.8 Consensus size: 53
43699657 ACACGGGTAC
* * * *
43699667 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTA---T-CCTTTTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAA
* * *
43699716 CTTACCATTTCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATGAAA
* * * *
43699769 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTT-TAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTAT-GAAA
* * * **
43699823 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAA
* *
43699875 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
43699920 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
49 35 0.21
52 6 0.04
53 57 0.34
54 65 0.39
55 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAA
Found at i:43707361 original size:53 final size:54
Alignment explanation
Indices: 43707232--43707486 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 54
43707222 ACACAGGTAC
* * * *
43707232 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
43707281 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
43707334 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * ** * * *
43707389 CTTATCAATGTCATATCTTGACATGGTCTTACATGATTTTCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
43707442 CCTTACCAATTGCCATGCATTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
43707487 AAACCCTAAT
Statistics
Matches: 165, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.30
54 10 0.06
55 65 0.39
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:43707422 original size:55 final size:53
Alignment explanation
Indices: 43707279--43707423 Score: 166
Period size: 53 Copynumber: 2.7 Consensus size: 53
43707269 ATCCTTTTGA
* * * *
43707279 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG
1 AACTCACCAATGCCATATCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG
** *
43707332 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATATCTTGACATGGTCTTACATGGGAGCC-TTGCCTTAT-G
* * *
43707386 TAACTTATCAATGTCATATCTTGACATGGTCTTACATG
1 -AACTCACCAATGCCATATCTTGACATGGTCTTACATG
43707424 ATTTTCTTGC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.03
53 44 0.56
54 1 0.01
55 31 0.40
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (53 bp):
AACTCACCAATGCCATATCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG
Found at i:43723010 original size:43 final size:43
Alignment explanation
Indices: 43722948--43723204 Score: 155
Period size: 43 Copynumber: 6.1 Consensus size: 43
43722938 ACATATCGTA
* * *
43722948 CAATGCCAACATTCCAGACGTGGTCTTATATGTAATCACATAT
1 CAATGCCAACATTCCAGACGTCGTCTTACACGTAATCACATAT
*
43722991 CAATGCCAAC-TTCTTAGACGTCGTCTTACACGTAATCACATAT
1 CAATGCCAACATTC-CAGACGTCGTCTTACACGTAATCACATAT
* *
43723034 CAATGCC-AC-TGTCCCAAACAG--G--GTACACGTAATCACATAT
1 CAATGCCAACAT-T-CCAGAC-GTCGTCTTACACGTAATCACATAT
* * * *
43723074 CGATGCC-AC-TGTCTCGGATAG-GGTCTTACACGTAATCACATAT
1 CAATGCCAACAT-TC-CAGA-CGTCGTCTTACACGTAATCACATAT
* ** * * *
43723117 CGATGCCAATGTCCCAAACGTGGTCTTACACGTAATCACATAT
1 CAATGCCAACATTCCAGACGTCGTCTTACACGTAATCACATAT
* * *
43723160 CGATGCC-AC-TGTGCTAGACAG-GGTCTTACAC-TAATCACATAT
1 CAATGCCAACAT-T-CCAGAC-GTCGTCTTACACGTAATCACATAT
43723202 CAA
1 CAA
43723205 AAATCCTATG
Statistics
Matches: 177, Mismatches: 22, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
39 1 0.01
40 31 0.18
41 2 0.01
42 22 0.12
43 115 0.65
44 5 0.03
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
CAATGCCAACATTCCAGACGTCGTCTTACACGTAATCACATAT
Found at i:43723181 original size:126 final size:126
Alignment explanation
Indices: 43722969--43723202 Score: 319
Period size: 126 Copynumber: 1.8 Consensus size: 126
43722959 TTCCAGACGT
* * ** *
43722969 GGTCTTATATGTAATCACATATCAATGCCAACTTCTTAGACGTCGTCTTACACGTAATCACATAT
1 GGTCTTACACGTAATCACATATCAATGCCAACTTCCCAAACGTCGTCTTACACGTAATCACATAT
43723034 CAATGCCACTGTCCCAAACAGGG-TACACGTAATCACATATCGATGCCACTGTCTCGGATAG
66 CAATGCCACTGTCCCAAACAGGGTTACAC-TAATCACATATCGATGCCACTGTCTCGGATAG
* *
43723095 GGTCTTACACGTAATCACATATCGATGCCAA-TGTCCCAAACGTGGTCTTACACGTAATCACATA
1 GGTCTTACACGTAATCACATATCAATGCCAACT-TCCCAAACGTCGTCTTACACGTAATCACATA
* * * *
43723159 TCGATGCCACTGTGCTAGACAGGGTCTTACACTAATCACATATC
65 TCAATGCCACTGTCCCAAACAGGG--TTACACTAATCACATATC
43723203 AAAAATCCTA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
125 1 0.01
126 75 0.81
128 12 0.13
129 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (126 bp):
GGTCTTACACGTAATCACATATCAATGCCAACTTCCCAAACGTCGTCTTACACGTAATCACATAT
CAATGCCACTGTCCCAAACAGGGTTACACTAATCACATATCGATGCCACTGTCTCGGATAG
Found at i:43724017 original size:6 final size:6
Alignment explanation
Indices: 43724006--43724031 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
43723996 TGAATGTTTC
43724006 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
43724032 GGTATTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:43732391 original size:48 final size:48
Alignment explanation
Indices: 43732339--43732524 Score: 230
Period size: 48 Copynumber: 3.9 Consensus size: 48
43732329 GTGTTCCAAG
* *
43732339 CATGGTCTTATAGTAGCTCACATATCGATGCCGATGCCATGTCCCACA
1 CATGGTCTTACAGTAGCTCACATATCGAGGCCGATGCCATGTCCCACA
* *
43732387 CATGGTCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCACA
1 CATGGTCTTACAGTAGCTCACATATCGAGGCCGATGCCATGTCCCACA
* ** * **
43732435 CATGGTCTTACACT-GCCTCACATATCGAGGCTAATGCCATGTCTCGGA
1 CATGGTCTTACAGTAG-CTCACATATCGAGGCCGATGCCATGTCCCACA
* * * *
43732483 CATGTTCTTACAGTAGCTCTCATATCAATGCCGATGCCATGT
1 CATGGTCTTACAGTAGCTCACATATCGAGGCCGATGCCATGT
43732525 TCCTTTACAC
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.01
48 117 0.98
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CATGGTCTTACAGTAGCTCACATATCGAGGCCGATGCCATGTCCCACA
Found at i:43732475 original size:96 final size:96
Alignment explanation
Indices: 43732270--43732524 Score: 246
Period size: 96 Copynumber: 2.6 Consensus size: 96
43732260 AGAGTAAGAT
* * ** * * *
43732270 GCTAATGCCATGTCCCAGACATGGCCTTACACTGGCTCTCATATATCG-GTGTTGATGTCGTGTT
1 GCTAATGCCATGTCCCAGACATGGTCTTACACTGG--CTCACATATCGAG-GCCGATGCCATGTC
* * *
43732334 CCAAGCATGGTCTTATAGTAGCTCACATATCGAT
63 CCAAGCATGGTCTTACACTAGCTCACATATCGAG
** * *
43732368 GCCGATGCCATGTCCCACACATGGTCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCA
1 GCTAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCA
43732433 CA-CATGGTCTTACACT-GCCTCACATATCGAG
66 -AGCATGGTCTTACACTAG-CTCACATATCGAG
* * * * * * * *
43732464 GCTAATGCCATGTCTCGGACATGTTCTTACAGTAGCTCTCATATCAATGCCGATGCCATGT
1 GCTAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGT
43732525 TCCTTTACAC
Statistics
Matches: 129, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
95 1 0.01
96 96 0.74
97 2 0.02
98 30 0.23
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (96 bp):
GCTAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCA
AGCATGGTCTTACACTAGCTCACATATCGAG
Found at i:43736063 original size:91 final size:90
Alignment explanation
Indices: 43735908--43736085 Score: 302
Period size: 91 Copynumber: 2.0 Consensus size: 90
43735898 TTGCTTATGA
*
43735908 GTTGGGTTTTTAAAGCAAGATACTTCTCTAATGTGGATTTTTTGCGGGAGGAACTGGGATCTCAC
1 GTTGGGTTTTTAAAGCAAGATACTTCTCTAATGTGGATTTTTTACGGGAGGAACTGGGATCTCAC
43735973 CTGTTTTATACCTAGCGTAGCATTTG
66 CTGTTTTATACCTAGC-TAGCATTTG
* * * *
43735999 GTTGGGTTTTTAAAGTAAGATACTTTTCTAATGTGGATTTTTTATGGGTGGAACTGGGATCTCAC
1 GTTGGGTTTTTAAAGCAAGATACTTCTCTAATGTGGATTTTTTACGGGAGGAACTGGGATCTCAC
43736064 CTGTTTTATACCTAGCTAGCAT
66 CTGTTTTATACCTAGCTAGCAT
43736086 CTAGTGCTTT
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 6 0.07
91 76 0.93
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.39
Consensus pattern (90 bp):
GTTGGGTTTTTAAAGCAAGATACTTCTCTAATGTGGATTTTTTACGGGAGGAACTGGGATCTCAC
CTGTTTTATACCTAGCTAGCATTTG
Found at i:43739676 original size:6 final size:6
Alignment explanation
Indices: 43739643--43739675 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
43739633 TAATTTAGCC
*
43739643 TTTTTA TTTTCA TTTTCA TTTTCA TTTT-A TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
43739676 TTTGTTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTCA
Found at i:43745629 original size:21 final size:21
Alignment explanation
Indices: 43745599--43745658 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
43745589 AATGCAAACA
*
43745599 AGGGC-ACACACTCGTGTGAG
1 AGGGCGACACACCCGTGTGAG
*
43745619 AGGGCGACACACCCGTGTGGG
1 AGGGCGACACACCCGTGTGAG
*
43745640 AGGGCGACACGCCCGTGTG
1 AGGGCGACACACCCGTGTG
43745659 TCCTCTTAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 5 0.14
21 31 0.86
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCGACACACCCGTGTGAG
Found at i:43746968 original size:48 final size:48
Alignment explanation
Indices: 43746847--43747128 Score: 289
Period size: 48 Copynumber: 5.9 Consensus size: 48
43746837 GGTAAGATGC
* * * *
43746847 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATC-AGTGT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACAT-ATCAAG-GT
* * * * *
43746896 TGATACCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
* * * * *
43746944 CGATGCCATG-TCCTAGACATGGTCTTACACTAGTTCTCATATAAATGT
1 CGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATATCAAGGT
* * * *
43746992 TGATGCCATGTTCCAAACATGGTCTTTCACTGGCTCACATATCAAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
* * * * * *
43747040 CGATGCCATGTCCCAGACATGGTCTTACCCTAGCTCTCATATAAATGT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
* *
43747088 CGATGTCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
43747129 ACCCTAGTAT
Statistics
Matches: 187, Mismatches: 43, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
47 3 0.02
48 146 0.78
49 38 0.20
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
Found at i:43747044 original size:96 final size:96
Alignment explanation
Indices: 43746845--43747128 Score: 424
Period size: 96 Copynumber: 2.9 Consensus size: 96
43746835 AGGGTAAGAT
* * * *
43746845 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCAGTGTTGATACCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATAAATGTTGATGCCATGTTCC
* * * *
43746910 AAACATGGTCTTACACTAGCCCACATGTCGAG
65 AAACATGGTCTTACACTGGCTCACATATCAAG
* * *
43746942 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGTTCTCATATAAATGTTGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCA
*
43747007 AACATGGTCTTTCACTGGCTCACATATCAAG
66 AACATGGTCTTACACTGGCTCACATATCAAG
* * *
43747038 GCCGATGCCATGTCCCAGACATGGTCTTACCCTAGCTCTCATATAAATGTCGATGTCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCA
43747103 AACATGGTCTTACACTGGCTCACATA
66 AACATGGTCTTACACTGGCTCACATA
43747129 ACCCTAGTAT
Statistics
Matches: 168, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 130 0.77
97 38 0.23
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTTGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCACATATCAAG
Found at i:43747109 original size:144 final size:145
Alignment explanation
Indices: 43746848--43747118 Score: 341
Period size: 144 Copynumber: 1.9 Consensus size: 145
43746838 GTAAGATGCC
* * ** *
43746848 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCAGTGTTGATACCATGTTCCAAA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAATCAGTGCCGATACCATGTCCCAAA
* ** *
43746913 CATGGTCTTACACTAGCCCACATGTCGAGGTCGATGCCATGTCCTAGACATGGTCTTACACTAGT
66 CATGGTCTTACACTAGCCCACATATAAAGGTCGATGCCATGTCCTAAACATGGTCTTACACTAGT
43746978 TCTCATATAAATGTT
131 TCTCATATAAATGTT
* * * *
43746993 GATGCCATGTTCCAAACATGGTCTTTCACTGGCTCACAT-ATCAAG-GCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAATC-AGTGCCGATACCATGTCCCAA
* * * * *
43747056 ACATGGTCTTACCCTAGCTCTCATATAAATGTCGATGTCATGTTCC-AAACATGGTCTTACACT
65 ACATGGTCTTACACTAGCCCACATATAAAGGTCGATGCCATG-TCCTAAACATGGTCTTACACT
43747119 GGCTCACATA
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
144 66 0.62
145 40 0.38
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (145 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAATCAGTGCCGATACCATGTCCCAAA
CATGGTCTTACACTAGCCCACATATAAAGGTCGATGCCATGTCCTAAACATGGTCTTACACTAGT
TCTCATATAAATGTT
Found at i:43749863 original size:28 final size:27
Alignment explanation
Indices: 43749804--43749900 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
43749794 TAAATTGTAC
*
43749804 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
43749831 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
* *
43749859 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
43749886 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43749901 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 39 0.61
28 25 0.39
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:43758007 original size:27 final size:27
Alignment explanation
Indices: 43757976--43758153 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
43757966 TAAATTGTAC
*
43757976 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
43758003 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
43758029 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
43758057 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
43758084 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
43758112 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
43758139 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43758154 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:43758037 original size:54 final size:55
Alignment explanation
Indices: 43757976--43758153 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
43757966 TAAATTGTAC
* **
43757976 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
43758031 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
43758084 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
43758139 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43758154 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:43760581 original size:48 final size:48
Alignment explanation
Indices: 43760517--43760734 Score: 276
Period size: 48 Copynumber: 4.5 Consensus size: 48
43760507 ACATGGCCTT
* * *
43760517 ACATATCGGTGTCGATGCCATGTTCCA-AGCATGGTCTTATACTAGCTC
1 ACATATCGATGCCGATGCCATGTTCCACA-CATGGTCTTACACTAGCTC
* * *
43760565 ACATATCGATGCCGATGCCATGTCCCATACAGGGTCTTACACTAGCTC
1 ACATATCGATGCCGATGCCATGTTCCACACATGGTCTTACACTAGCTC
* * *
43760613 ACATATCGAGGCCAATGCCATGTCCCACACATGGTCTTACACTAGCTC
1 ACATATCGATGCCGATGCCATGTTCCACACATGGTCTTACACTAGCTC
* * * * *
43760661 ACATATCGAGGCTGATGCCATGTCCCAGACATGTTCTTACACTAGCTC
1 ACATATCGATGCCGATGCCATGTTCCACACATGGTCTTACACTAGCTC
* *
43760709 TCATATCAATGCCGATGCCATGTTCC
1 ACATATCGATGCCGATGCCATGTTCC
43760735 TTTACACTGG
Statistics
Matches: 151, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
48 150 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
ACATATCGATGCCGATGCCATGTTCCACACATGGTCTTACACTAGCTC
Found at i:43768287 original size:48 final size:48
Alignment explanation
Indices: 43768162--43768638 Score: 445
Period size: 48 Copynumber: 9.9 Consensus size: 48
43768152 AGGGTAAGAT
* * * * *
43768162 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATATC-AG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTC--ACATATCAAG
* * * * * *
43768211 TGTCAATGTCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAG
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * * *
43768260 GCTGATGCCATG-TCTAAGACATGGTCTTACACAAGCTCTCATATTAAT
1 GCCGATGCCATGTTCCAA-ACATGGTCTTACACTAGCTCACATATCAAG
* * * * **
43768308 GCCGATGCCATGTTCCAAATATGATCTTACACTGGCTCACATGTTGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * *
43768356 GCTGATGCCATGTTCTAGACATGGTCTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * *
43768404 GCCAATGCCATGTTCCAAACATGGTTTTATACTGGCTCACATATCGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * * *
43768452 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAG
* ** *
43768500 GCCGATGTCATGTTCTGAACATGGTCTTACACTAGCTCACATATCGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * * *
43768548 GCCAATGGCATGTCCCAAACATGGTTTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAG
* *
43768596 GCCGATGCCATGTTCCAAATATGGTCTTACACTGGCTCACATA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
43768639 ACCCTAGTAT
Statistics
Matches: 334, Mismatches: 90, Indels: 8
0.77 0.21 0.02
Matches are distributed among these distances:
47 4 0.01
48 294 0.88
49 6 0.02
50 30 0.09
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAG
Found at i:43768357 original size:96 final size:96
Alignment explanation
Indices: 43768168--43768638 Score: 611
Period size: 96 Copynumber: 4.9 Consensus size: 96
43768158 AGATGCCGAC
* * * * * * *
43768168 GCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATATCAGTGTCAATGTCATGTTCCAAACA
1 GCCATGTCCAAGACATGGTCTTACACTAGCTCTCATAT-T-AATGCCGATGCCATGTTCCAAACA
* * *
43768233 TGGTCTTACACTAGCCCACATGTCGAGGCTGAT
64 TGGTCTTACACTGGCTCACATATCGAGGCTGAT
* * *
43768266 GCCATGTCTAAGACATGGTCTTACACAAGCTCTCATATTAATGCCGATGCCATGTTCCAAATATG
1 GCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATTAATGCCGATGCCATGTTCCAAACATG
* * *
43768331 ATCTTACACTGGCTCACATGTTGAGGCTGAT
66 GTCTTACACTGGCTCACATATCGAGGCTGAT
* * * *
43768362 GCCATGTTCTAGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGCCATGTTCCAAACATG
1 GCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATTAATGCCGATGCCATGTTCCAAACATG
* *
43768427 GTTTTATACTGGCTCACATATCGAGGCTGAT
66 GTCTTACACTGGCTCACATATCGAGGCTGAT
* * **
43768458 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATTAATGCCGATGTCATGTTCTGAACATG
1 GCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATTAATGCCGATGCCATGTTCCAAACATG
* **
43768523 GTCTTACACTAGCTCACATATCGAGGCCAAT
66 GTCTTACACTGGCTCACATATCGAGGCTGAT
* * * *
43768554 GGCATGTCCCAA-ACATGGTTTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAATAT
1 GCCATGT-CCAAGACATGGTCTTACACTAGCTCTCATATTAATGCCGATGCCATGTTCCAAACAT
43768618 GGTCTTACACTGGCTCACATA
65 GGTCTTACACTGGCTCACATA
43768639 ACCCTAGTAT
Statistics
Matches: 325, Mismatches: 47, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
96 288 0.89
97 4 0.01
98 33 0.10
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (96 bp):
GCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATTAATGCCGATGCCATGTTCCAAACATG
GTCTTACACTGGCTCACATATCGAGGCTGAT
Found at i:43774841 original size:19 final size:19
Alignment explanation
Indices: 43774728--43774852 Score: 65
Period size: 19 Copynumber: 6.3 Consensus size: 19
43774718 AAGATAAAAA
43774728 ATAAAAATCAATAAAAG-TT
1 ATAAAAATC-ATAAAAGATT
***
43774747 ATAAAAAAT-ATTAAATTTTT
1 AT-AAAAATCA-TAAAAGATT
*
43774767 ATTAAAAATTAGTAAAAAGAATT
1 A-TAAAAATCA-T-AAAAG-ATT
**
43774790 ATAAAAATCATAAAAGAAA
1 ATAAAAATCATAAAAGATT
** **
43774809 ATAAAAATTGTAAAATTTT
1 ATAAAAATCATAAAAGATT
*
43774828 ATAAAAATCATAAAAAATT
1 ATAAAAATCATAAAAGATT
*
43774847 ACAAAA
1 ATAAAA
43774853 TATAAAAAAA
Statistics
Matches: 79, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
18 1 0.01
19 40 0.51
20 20 0.25
21 4 0.05
22 11 0.14
23 3 0.04
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAAAAATCATAAAAGATT
Found at i:43774867 original size:38 final size:38
Alignment explanation
Indices: 43774769--43774870 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 38
43774759 AAATTTTTAT
*
43774769 TAAAAATTAGTAAAAAGAATTATAAAAATCATAAAAGAAAA
1 TAAAAATTA--AAAAA-ATTTATAAAAATCATAAAAGAAAA
** * *
43774810 TAAAAATTGTAAAATTTTATAAAAATCAT-AAA-AAAT
1 TAAAAATTAAAAAAATTTATAAAAATCATAAAAGAAAA
43774846 TACAAAATATAAAAAAATTTATAAA
1 TA-AAAAT-TAAAAAAATTTATAAA
43774871 GTTGTAAGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
36 5 0.10
37 8 0.16
38 26 0.51
39 4 0.08
41 8 0.16
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (38 bp):
TAAAAATTAAAAAAATTTATAAAAATCATAAAAGAAAA
Found at i:43774890 original size:28 final size:28
Alignment explanation
Indices: 43774859--43774930 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 28
43774849 AAAATATAAA
*
43774859 AAAATTTATAAAGTT-GTAAGAA-AATGAT
1 AAAA-TTATAAAATTCGTAA-AAGAATGAT
* *
43774887 AAAAATATAAAATTCGTAAAAGAATTAT
1 AAAATTATAAAATTCGTAAAAGAATGAT
43774915 AAAAATTATAGAAATT
1 -AAAATTATA-AAATT
43774931 ATCATATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 10 0.28
28 13 0.36
29 8 0.22
30 5 0.14
ACGTcount: A:0.58, C:0.01, G:0.10, T:0.31
Consensus pattern (28 bp):
AAAATTATAAAATTCGTAAAAGAATGAT
Found at i:43774921 original size:9 final size:9
Alignment explanation
Indices: 43774786--43774932 Score: 59
Period size: 9 Copynumber: 15.7 Consensus size: 9
43774776 TAGTAAAAAG
43774786 AATTATAAA
1 AATTATAAA
*
43774795 AATCATAAA
1 AATTATAAA
**
43774804 AGAAAATAAA
1 A-ATTATAAA
*
43774814 AATTGTAAA
1 AATTATAAA
*
43774823 ATTTTATAAA
1 A-ATTATAAA
*
43774833 AATCATAAAA
1 AATTAT-AAA
*
43774843 AATTA-CAA
1 AATTATAAA
*
43774851 AATATAAAAA
1 AAT-TATAAA
43774861 AATT-TATAA
1 AATTATA-AA
* *
43774870 AGTTGTAAGAA
1 AATTAT-A-AA
*
43774881 AATGATAAA
1 AATTATAAA
43774890 AA-TAT-AA
1 AATTATAAA
*
43774897 AATTCGTAAAA
1 AATT-AT-AAA
43774908 GAATTATAAA
1 -AATTATAAA
*
43774918 AATTATAGA
1 AATTATAAA
43774927 AATTAT
1 AATTAT
43774933 CATATCAAAA
Statistics
Matches: 102, Mismatches: 23, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
7 4 0.04
8 9 0.09
9 45 0.44
10 31 0.30
11 9 0.09
12 4 0.04
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (9 bp):
AATTATAAA
Found at i:43777621 original size:33 final size:33
Alignment explanation
Indices: 43777574--43777638 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
43777564 CCCATTCTCT
*
43777574 AAACTGAAGGAGACTAAAAAGAGATATTTCAAA
1 AAACAGAAGGAGACTAAAAAGAGATATTTCAAA
43777607 AAACAGAAGGAGACTAAAAAGAGATATTTCAA
1 AAACAGAAGGAGACTAAAAAGAGATATTTCAA
43777639 CTCAACAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.17
Consensus pattern (33 bp):
AAACAGAAGGAGACTAAAAAGAGATATTTCAAA
Found at i:43779562 original size:190 final size:176
Alignment explanation
Indices: 43779212--43779568 Score: 480
Period size: 190 Copynumber: 1.9 Consensus size: 176
43779202 TTATTATTAT
* *
43779212 TTTTATATATTAAATAATTTATAAAAAAATAAAATATATAATATTGGAATGTAAATATAAAAAAA
1 TTTTATATATTAAATAATTTATAAAAAAATAAAATATATAATAGTGCAATGTAAATATAAAAAAA
* **
43779277 TGTGTTATCTATGGTTAAAATTTTCATAAAACAAAAGGCATATAAAAATTTTAAACATTAAATTA
66 TGCGTTATCTATGGTTAAAATTTTCATAAAACAAAAAACATATAAAAATTTTAAACATTAAATTA
* *
43779342 AAAATAATATACTTTTTTAAAGAATTTAAAAAGAATATATTTTTTA
131 AAAATAATATAATTTTTAAAAGAATTTAAAAAGAATATATTTTTTA
* *
43779388 TTTTATATATTATATAATTTATATAAAATTAAATTAAATATATAATAGTGCAATGTAGATATATA
1 TTTTATATATTAAATAA-TT-TATAAAA--AAATAAAATATATAATAGTGCAATGTA-A-ATATA
*
43779453 AAAAAATTGCGTTAAATTGTTTATGGTTAAAATTTTCATAAAACAAAAAACATATAAAAAAATTT
60 AAAAAA-TGCGTT--A---TCTATGGTTAAAATTTTCATAAAACAAAAAACATAT--AAAAATTT
* *
43779518 TAAACATTAAATTCAAAATAATATAATTTTTAAAAGAATTTAAAAATAATA
117 TAAACATTAAATTAAAAATAATATAATTTTTAAAAGAATTTAAAAAGAATA
43779569 ATATAGGTTG
Statistics
Matches: 155, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
176 16 0.10
177 2 0.01
178 7 0.05
180 24 0.15
181 1 0.01
182 11 0.07
183 5 0.03
185 1 0.01
188 33 0.21
190 55 0.35
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (176 bp):
TTTTATATATTAAATAATTTATAAAAAAATAAAATATATAATAGTGCAATGTAAATATAAAAAAA
TGCGTTATCTATGGTTAAAATTTTCATAAAACAAAAAACATATAAAAATTTTAAACATTAAATTA
AAAATAATATAATTTTTAAAAGAATTTAAAAAGAATATATTTTTTA
Found at i:43788599 original size:21 final size:21
Alignment explanation
Indices: 43788566--43788609 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
43788556 TGTTCTTTAC
*
43788566 TTCTCTTTGTTTTACGTTTCT
1 TTCTCTTTCTTTTACGTTTCT
* * *
43788587 TTCTTTTTCTTTTTCTTTTCT
1 TTCTCTTTCTTTTACGTTTCT
43788608 TT
1 TT
43788610 TGCTTGTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.18, G:0.05, T:0.75
Consensus pattern (21 bp):
TTCTCTTTCTTTTACGTTTCT
Found at i:43790966 original size:15 final size:16
Alignment explanation
Indices: 43790942--43790974 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
43790932 GTTTTTAGTT
43790942 TTGCTCTCTCT-TTCC
1 TTGCTCTCTCTGTTCC
*
43790957 TTGCTTTCTCTGTTCC
1 TTGCTCTCTCTGTTCC
43790973 TT
1 TT
43790975 TTTTCTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.00, C:0.33, G:0.09, T:0.58
Consensus pattern (16 bp):
TTGCTCTCTCTGTTCC
Found at i:43799482 original size:21 final size:21
Alignment explanation
Indices: 43799456--43799521 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
43799446 TCATTTTTAG
43799456 CAACTTTTCCTTCTTCAGCAA
1 CAACTTTTCCTTCTTCAGCAA
*
43799477 CAAC--TTCC-TCTTCTGCAA
1 CAACTTTTCCTTCTTCAGCAA
* *
43799495 CAACTTCAT-CTTCTACAGCAA
1 CAACTT-TTCCTTCTTCAGCAA
43799516 CAACTT
1 CAACTT
43799522 CCTTCTCAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 13 0.35
19 4 0.11
20 1 0.03
21 19 0.51
ACGTcount: A:0.27, C:0.35, G:0.05, T:0.33
Consensus pattern (21 bp):
CAACTTTTCCTTCTTCAGCAA
Found at i:43799488 original size:18 final size:19
Alignment explanation
Indices: 43799462--43799527 Score: 89
Period size: 18 Copynumber: 3.4 Consensus size: 19
43799452 TTAGCAACTT
43799462 TTCCTTCTTCAGCAACAAC
1 TTCCTTCTTCAGCAACAAC
*
43799481 TTCC-TCTTCTGCAACAAC
1 TTCCTTCTTCAGCAACAAC
*
43799499 TTCATCTTCTACAGCAACAAC
1 TTC--CTTCTTCAGCAACAAC
43799520 TTCCTTCT
1 TTCCTTCT
43799528 CAACAATAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 16 0.39
19 9 0.22
20 1 0.02
21 15 0.37
ACGTcount: A:0.24, C:0.36, G:0.05, T:0.35
Consensus pattern (19 bp):
TTCCTTCTTCAGCAACAAC
Found at i:43803612 original size:47 final size:47
Alignment explanation
Indices: 43803546--43803783 Score: 431
Period size: 47 Copynumber: 5.1 Consensus size: 47
43803536 GAAATGATAG
43803546 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
43803593 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
43803640 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
43803687 TAAGGCCTAATGGCCGAAGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
43803734 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43803781 TAA
1 TAA
43803784 TGTATATATG
Statistics
Matches: 184, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 184 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:43803709 original size:94 final size:94
Alignment explanation
Indices: 43803546--43803988 Score: 535
Period size: 94 Copynumber: 4.5 Consensus size: 94
43803536 GAAATGATAG
* *
43803546 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAA
43803611 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
43803640 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAA
*
43803705 GTGATGAATGTGAAAGTGTATATGTGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * **
43803734 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGTATATATGTGATA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA-A--TG---
* *
43803799 AGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60 -G-CC-GA-AG-TGA--TG---AATGTGAAAGTGTATATATGTGA
* * * *
43803844 TAAGGCCTAATAGCCGATGTGATGAATTTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAA
43803909 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
43803938 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43803989 TCCCGAAGGG
Statistics
Matches: 301, Mismatches: 32, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
94 203 0.67
95 1 0.00
97 4 0.01
99 2 0.01
100 1 0.00
101 2 0.01
102 4 0.01
103 2 0.01
104 2 0.01
105 2 0.01
107 4 0.01
109 1 0.00
110 73 0.24
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAA
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:43803780 original size:16 final size:16
Alignment explanation
Indices: 43803759--43803799 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
43803749 GATGTGATGA
43803759 ATGTGA-AAGTGTATAT
1 ATGTGATAA-TGTATAT
43803775 ATGTGATAATGTATAT
1 ATGTGATAATGTATAT
43803791 ATGTGATAA
1 ATGTGATAA
43803800 GCCCTAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (16 bp):
ATGTGATAATGTATAT
Found at i:43803780 original size:63 final size:63
Alignment explanation
Indices: 43803712--43803846 Score: 236
Period size: 63 Copynumber: 2.1 Consensus size: 63
43803702 GAAGTGATGA
* *
43803712 ATGTGA-AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAA-TGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
43803775 ATGTGATAATGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAATGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
43803838 ATGTGATAA
1 ATGTGATAA
43803847 GGCCTAATAG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
63 67 0.97
64 2 0.03
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.33
Consensus pattern (63 bp):
ATGTGATAATGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:43803789 original size:110 final size:111
Alignment explanation
Indices: 43803665--43803894 Score: 383
Period size: 110 Copynumber: 2.1 Consensus size: 111
43803655 GATGTGATGA
* * * *
43803665 ATGTGA-AAGTGTATATGTGTGATAAGGCCTAATGGCCGAAGTGATGAATGTGAAAGTGTATATG
1 ATGTGATAAGTGTATATATGTGATAAGCCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATA
43803729 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
66 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
*
43803775 ATGTGATAA-TGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGATAAGTGTATATATGTGATAAGCCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATA
*
43803839 TGTGATAAGGCCTAATAGCCGATGTGATGAATTTGAAAGTGTATAT
66 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
*
43803885 ATGTAATAAG
1 ATGTGATAAG
43803895 GCCTAATGGC
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
110 109 0.98
111 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (111 bp):
ATGTGATAAGTGTATATATGTGATAAGCCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:43803826 original size:47 final size:47
Alignment explanation
Indices: 43803775--43803988 Score: 286
Period size: 47 Copynumber: 4.6 Consensus size: 47
43803765 AAGTGTATAT
*
43803775 ATGTGATAA-TGTATATATGTGATAAGCCCTAATAGCCGATGTGATGA
1 ATGTGA-AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
43803822 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* * *
43803869 ATTTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* * * * * * * *
43803916 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
43803963 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
43803989 TCCCGAAGGG
Statistics
Matches: 149, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 2 0.01
47 147 0.99
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:43803860 original size:157 final size:157
Alignment explanation
Indices: 43803618--43803937 Score: 543
Period size: 157 Copynumber: 2.0 Consensus size: 157
43803608 GATGTGATGA
* * *
43803618 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGT
1 ATGTGAAAGTGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
43803683 GTGATAAGGCCTAATGGCCGAAGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGC
66 GTGATAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGC
43803748 CGATGTGATGAATGTGAAAGTGTATAT
131 CGATGTGATGAATGTGAAAGTGTATAT
43803775 ATGTGATAA-TGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGA-AAGTGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
43803839 TGTGATAAGGCCTAATAGCCGATGTGATGAATTTGAAAGTGTATATATGTAATAAGGCCTAATGG
65 TGTGATAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAG
43803904 CCGATGTGATGAATGTGAAAGTGTATAT
130 CCGATGTGATGAATGTGAAAGTGTATAT
43803932 ATGTGA
1 ATGTGA
43803938 CAGGGCCGAG
Statistics
Matches: 153, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
157 151 0.99
158 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (157 bp):
ATGTGAAAGTGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGC
CGATGTGATGAATGTGAAAGTGTATAT
Found at i:43803930 original size:204 final size:205
Alignment explanation
Indices: 43803570--43803989 Score: 673
Period size: 204 Copynumber: 2.1 Consensus size: 205
43803560 CGATGTGATG
*
43803570 AATGTGA-AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGATAAGTGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
43803634 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATG
* * * * *
43803699 GCCGAAGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
131 GCCGAAGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTG
*
43803764 AAAGTGTATA
196 AAAGTGCATA
*
43803774 TATGTGATAA-TGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGATAAGTGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
*
43803838 ATGTGATAAGGCCTAATAGCCGATGTGATGAATTTGAAAGTGTATATATGTAATAAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATG
* * * * *
43803903 GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG
131 GCCGAAGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTG
43803968 AAAGTGCATA
196 AAAGTGCATA
43803978 AATGTGATAAGT
1 AATGTGATAAGT
43803990 CCCGAAGGGC
Statistics
Matches: 196, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
204 193 0.98
205 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (205 bp):
AATGTGATAAGTGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATG
GCCGAAGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTG
AAAGTGCATA
Found at i:43804163 original size:37 final size:37
Alignment explanation
Indices: 43804107--43804185 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43804097 CCGAGCTCTA
* *
43804107 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
43804144 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43804181 AAGAC
1 AAGAC
43804186 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43813792 original size:46 final size:46
Alignment explanation
Indices: 43813742--43813914 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
43813732 TGGTTGAGCA
43813742 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
43813788 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
43813833 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
43813881 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43813915 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 58 0.55
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43813898 original size:93 final size:93
Alignment explanation
Indices: 43813739--43813909 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
43813729 GGATGGTTGA
*
43813739 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
43813804 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
43813832 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
43813896 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
43813910 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:43816447 original size:4 final size:4
Alignment explanation
Indices: 43816438--43816470 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
43816428 CCCTTTTCTA
43816438 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
43816471 CACGTTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:43829706 original size:46 final size:46
Alignment explanation
Indices: 43829653--43829828 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
43829643 TATTTGGGCA
* * *
43829653 TCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* * * * *
43829699 TCCGAACTCATTGAGTTGAGTCTTAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCAA--A--CG
* * *
43829746 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* *
43829792 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGG
43829829 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
Found at i:43829808 original size:93 final size:93
Alignment explanation
Indices: 43829649--43829820 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
43829639 GGGATATTTG
* * *
43829649 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
*
43829714 TTGAGTCTTAGTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTCGTGAGATGTAACTA
* * *
43829742 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
43829807 TTGAGTCTGAGTTC
66 TTGAGTCTGAGTTC
43829821 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCTGAGTTCGTGAGATGTAACTA
Done.