Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 150 of 211
Found at i:47240591 original size:53 final size:54
Alignment explanation
Indices: 47240500--47240609 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 54
47240490 TTCCTTAAAT
* *
47240500 TTTTCCATATGATGTCATAACCCACCAATTATAGTCTTACACAATATGATCTTC
1 TTTTCCATATGATGTCATAACCCACCAATTACAATCTTACACAATATGATCTTC
** * * *
47240554 TTTT-CATATGATGTCATAACCCATTAGTTACAATCTTACACGATATGGTCTTC
1 TTTTCCATATGATGTCATAACCCACCAATTACAATCTTACACAATATGATCTTC
47240607 TTT
1 TTT
47240610 AGTGTCATGG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 45 0.92
54 4 0.08
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (54 bp):
TTTTCCATATGATGTCATAACCCACCAATTACAATCTTACACAATATGATCTTC
Found at i:47252339 original size:25 final size:24
Alignment explanation
Indices: 47252264--47252365 Score: 97
Period size: 22 Copynumber: 4.3 Consensus size: 24
47252254 CACTAATGAA
*
47252264 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACTAACGTGCTATAAT
* *
47252286 CAGAAAGCAC-AGATGTGCTA-AAT
1 CAGAGAGCACTA-ACGTGCTATAAT
*
47252309 -AGAGAGCACTGACGTGCTAGTAAT
1 CAGAGAGCACTAACGTGCTA-TAAT
47252333 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCT-ATAAT
*
47252358 TAGAGAGC
1 CAGAGAGC
47252366 GCGCTAAAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
21 1 0.02
22 32 0.49
24 3 0.05
25 28 0.43
26 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTATAAT
Found at i:47253220 original size:16 final size:17
Alignment explanation
Indices: 47253193--47253224 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47253183 CGTTTTAAGC
47253193 TTTCTGTTTCTTTCTTA
1 TTTCTGTTTCTTTCTTA
47253210 TTTCT-TTTCTTTCTT
1 TTTCTGTTTCTTTCTT
47253225 TTGTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTCTGTTTCTTTCTTA
Found at i:47268431 original size:18 final size:19
Alignment explanation
Indices: 47268395--47268438 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47268385 TACTCGTTTA
47268395 TTTTTCAGTCTCTCTTTCT
1 TTTTTCAGTCTCTCTTTCT
47268414 TTTTTCACG-CTCTC-TTCT
1 TTTTTCA-GTCTCTCTTTCT
*
47268432 ATTTTCA
1 TTTTTCA
47268439 AGAACTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 12 0.52
20 1 0.04
ACGTcount: A:0.09, C:0.27, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTCAGTCTCTCTTTCT
Found at i:47272768 original size:16 final size:16
Alignment explanation
Indices: 47272744--47272774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47272734 TATGTACCGA
*
47272744 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
47272760 AAATATAAATAAATA
1 AAATATAAATAAATA
47272775 GATAACAATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:47274392 original size:40 final size:40
Alignment explanation
Indices: 47274346--47274494 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
47274336 TTTTAGTCTA
*
47274346 CTCCACTACTATTTAGGGAGATAAGACTGGGTGTGATCTG
1 CTCCACTACTACTTAGGGAGATAAGACTGGGTGTGATCTG
* **
47274386 CTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTCTTCTG
1 CTCCACTACTACTTAGGGAGATAAGA-CTG-GGTGTGATCTG
* * * * * * *
47274428 CTCCGCTACTGCTTAAGGAGATGAGACTTGATGCGATCTG
1 CTCCACTACTACTTAGGGAGATAAGACTGGGTGTGATCTG
*
47274468 CTCCACTATTACTTAGGGAGATAAGAC
1 CTCCACTACTACTTAGGGAGATAAGAC
47274495 CTGAAATCTT
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
40 53 0.60
41 5 0.06
42 30 0.34
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (40 bp):
CTCCACTACTACTTAGGGAGATAAGACTGGGTGTGATCTG
Found at i:47274932 original size:132 final size:132
Alignment explanation
Indices: 47274646--47275913 Score: 2249
Period size: 132 Copynumber: 9.6 Consensus size: 132
47274636 CTGTTTTTCA
* * * * * *
47274646 ATCCACTTCCTACCAATATAGGAATG-CAGGATCTGCTATCTTCGATCTATTTCACACCAATATA
1 ATCCACTTCCTATCAATATAGGAA-GATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACA
* *
47274710 TGAATACAAGATCTGCTTTCTTCGATCTACTT--CCACCAATATGGGAAGACAAGATCTGCATCT
65 TGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
47274773 TGG
130 TGG
47274776 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
47274841 GAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
47274906 GG
131 GG
47274908 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
47274973 GAAGACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
47275038 CG
131 GG
* * * * *
47275040 ATCCACTTCCTACCAATATAGGAAGATAGAATCTGCTACCTTCGATCTACTTCACGCTAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
47275105 GAAGACAAGATCTGCTTTCTTCGATCTACTT--CCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
47275168 GG
131 GG
47275170 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
47275235 GAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
47275300 GG
131 GG
47275302 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
47275367 GAAGACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
47275432 CG
131 GG
* * *
47275434 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
47275499 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
47275564 GG
131 GG
* *
47275566 ATCCACTTCCTATCAATGTAGGAAGATAGGACCTACTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
47275631 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
47275696 GG
131 GG
*
47275698 ATCCACTTCCTATCAATATAGGAAGATAGGCCCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
47275763 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
47275828 GG
131 GG
*
47275830 ATCCACTTCCTATCAATGTAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
47275895 GAAGACAAGATCTGCTTTC
66 GAAGACAAGATCTGCTTTC
47275914 ATGACTTCAA
Statistics
Matches: 1088, Mismatches: 45, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
129 1 0.00
130 207 0.19
132 880 0.81
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
GG
Found at i:47275374 original size:394 final size:394
Alignment explanation
Indices: 47274646--47275913 Score: 2331
Period size: 394 Copynumber: 3.2 Consensus size: 394
47274636 CTGTTTTTCA
* * * * *
47274646 ATCCACTTCCTACCAATATAGGAATG-CAGGATCTGCTATCTTCGATCTATTTCACACCAATATA
1 ATCCACTTCCTACCAATATAGGAA-GATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACA
*
47274710 TGAATACAAGATCTGCTTTCTTCGATCTACTTCCACCAATATGGGAAGACAAGATCTGCATCTTG
65 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCCACCAATATGGGAAGACAAGATCTGCATCTTG
47274775 GATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACA
130 GATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACA
47274840 TGAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
195 TGAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
47274905 TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
260 TGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
47274970 CATGAAGACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
325 CATGAAGACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
47275035 CTTCG
390 CTTCG
* *
47275040 ATCCACTTCCTACCAATATAGGAAGATAGAATCTGCTACCTTCGATCTACTTCACGCTAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
47275105 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCACCAATATGGGAAGACAAGATCTGCATCTTGG
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCACCAATATGGGAAGACAAGATCTGCATCTTGG
47275170 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
131 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
47275235 GAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
196 GAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
47275300 GGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
261 GGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
47275365 ATGAAGACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
326 ATGAAGACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
47275430 TTCG
391 TTCG
47275434 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
*
47275499 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTT--CCACCAATATGGGAAGACAAGATCTGCATCTT
* *
47275564 GGATCCACTTCCTATCAATGTAGGAAGATAGGACCTACTATCTTCGATCTACTTCACGCCAATAC
129 GGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
*
47275629 ATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
194 ATGAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
*
47275694 TTGGATCCACTTCCTATCAATATAGGAAGATAGGCCCTGCTATCTTCGATCTACTTCACGCCAAT
259 TTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAAT
*
47275759 ACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCA
324 ACATGAAGACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCA
*
47275824 TCTTGG
389 TCTTCG
* * * *
47275830 ATCCACTTCCTATCAATGTAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
47275895 GAAGACAAGATCTGCTTTC
66 GAAGACAAGATCTGCTTTC
47275914 ATGACTTCAA
Statistics
Matches: 850, Mismatches: 21, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
393 1 0.00
394 477 0.56
396 372 0.44
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (394 bp):
ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTTCGATCTACTTCCACCAATATGGGAAGACAAGATCTGCATCTTGG
ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
GAAGGCAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
GGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
ATGAAGACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
TTCG
Found at i:47287957 original size:16 final size:16
Alignment explanation
Indices: 47287933--47287963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47287923 TATGTACCGA
*
47287933 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
47287949 AAATATAAATAAATA
1 AAATATAAATAAATA
47287964 GATAACAATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:47292355 original size:68 final size:68
Alignment explanation
Indices: 47292134--47292362 Score: 242
Period size: 68 Copynumber: 3.4 Consensus size: 68
47292124 CTTCACTTGT
* * * ** *
47292134 TGCCATAGCCCAACGATGGTCTTACATAATATAATCTCATGTTTTCTATTGTAGCGGACTTCATA
1 TGCCATAGCCCAACTATGGTCTTACGTAATATAATCTCATGTTTACTATCCTAGTGGACTTCATA
* *
47292199 AAT
66 TAC
* * * * * * *
47292202 TTCCATAACCTAGCTATAGTCTTACGTAATATAATCTTATGTTTACTATCCTGGTGGACTTCATA
1 TGCCATAGCCCAACTATGGTCTTACGTAATATAATCTCATGTTTACTATCCTAGTGGACTTCATA
47292267 TAC
66 TAC
** * * * * * *
47292270 TGTTATAGTCTAGCTATGGTCTTATGTAATATAATCTCATGTTTACTGTCCTATTGGACTTCATA
1 TGCCATAGCCCAACTATGGTCTTACGTAATATAATCTCATGTTTACTATCCTAGTGGACTTCATA
*
47292335 TCC
66 TAC
47292338 TGCCATAGCCCAACTATGGTCTTAC
1 TGCCATAGCCCAACTATGGTCTTAC
47292363 AAATGAAACT
Statistics
Matches: 128, Mismatches: 33, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
68 128 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (68 bp):
TGCCATAGCCCAACTATGGTCTTACGTAATATAATCTCATGTTTACTATCCTAGTGGACTTCATA
TAC
Found at i:47293523 original size:49 final size:49
Alignment explanation
Indices: 47293435--47293528 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
47293425 TGCTATACGA
* * *
47293435 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCCACTGTCTACAATCTTACCACTATTTATACAT
* * *
47293484 TGCTAAATTTAGTCTTCCACTGTCTACAATTTTCCCACTATTTAT
1 TGCTAAACTTAGTCTTCCACTGTCTACAATCTTACCACTATTTAT
47293529 CCCTTCTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCCACTGTCTACAATCTTACCACTATTTATACAT
Found at i:47294476 original size:892 final size:893
Alignment explanation
Indices: 47292710--47294495 Score: 2848
Period size: 892 Copynumber: 2.0 Consensus size: 893
47292700 ATCATACATA
* *
47292710 AACATTGTTATGCATACTCAACATGCTTAATCACCATCTCACACACAATAGTGGAATCAAACAAA
1 AACATTGTTATGCATACTCAACATGCTTAATCACCATCT-ACACACAATAATGGAAACAAACAAA
*
47292775 ATAGCACAGACTTAACACAGATCATTCAAGCAACATAATATCATCGGTCACTAAAATATGGAGTA
65 ATAGCACAGACTTAACACAAATCATTCAAGCAACATAATATCATCGGTCACTAAAATATGGAGTA
* * * * *
47292840 CAGAATCTCACGTCAACTTTTTTGTCCTCTTTAGCTGAGCTTTTCCAAATGTCAAAGGCTTCATC
130 CAGAATCTCACGTCAACTCTTTTATCCTCGTTAGCAGAGCTTTTCCAAATGTCAAAGCCTTCATC
*
47292905 ATCCTGGAAGCTAAGAACAACAACACCATACCGGTTAAATCAAAGGTATTCAAACCTTATAACAC
195 ATCCTGGAAGCTAAGAACAACAACACCATACCGGTTAAATCAAAGGTAATCAAACCTTATAACAC
*
47292970 AAAACCTATATACAGAAACTTATTAGGAATCCTTACTCTCCTTCTTCTTCTAATTCATGAGTTCA
260 AAAACCTATATACAGAAACTTATTAGGAATCCTTACTCTCCTTCTTCTTCTAATTCATGAGTACA
* *
47293035 GAAAGATAAGAAAGCTTACCAGCTTACTAGATTCTCTACTTCTTGACCTCAAACCTCACAATTAG
325 GAAAGATAAGAAAGCTTACCAGCTTACTAGATTCTCTACTTCTTAACATCAAACCTCACAATTAG
** * **
47293100 CACCGTATGGAAAATTTTCTTTTACCCTATCTTCTTCAGAGCAACCAAAGAGGAAAATGCAGATG
390 CACCCCATGCAAAATTTTCCCTTACCCTATCTTCTTCAGAGCAACCAAAGAGGAAAATGCAGATG
*
47293165 AGAAGAAAACATAATCAAAATGGAGAAGAATTTCATCTGCAAAATGAGGCTTCTCTCGTATATAT
455 AGAAGAAAACATAATCAAAATGGAGAAGAATTTCATCAGCAAAATGAGGCTTCTCTCGTATATAT
* * ** * *
47293230 ATCCTTTCTGGCACTGTAACACCCCTAACCCCTCTCTGTCGTCGAATTTAGGGTCACAGGCATTA
520 AACCCTTCTCACACTGTAACACCCCTAACCCCTCTCCGTCATCGAATTTAGGGTCACAGGCATTA
* * * *
47293295 TTAACAAATCAAATAATTAATCAATCATAATCAACATATAAACTAGCCATTAATAATATAATATA
585 CTAACAAATCAAACAATTAACCAATCATAATCAACATATAAACTAGCCATTAACAATATAATATA
* * *
47293360 CAGGGGCAGGACGCAACAATCAAATCATATCAGACTAGAACATTATACAATCGAATAGTGATTCA
650 CAAGGGCAGGACACAACAATCAAATCATATCAGACTAGAACATTATACAATCGAATAATGATTCA
47293425 TGCTATACGATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACATTGCTAA
715 TGCTATACGATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACATTGCTAA
**
47293490 ATTTAGTCTTCCACTGTCTACAATTTTCCCACTATTTATCCCTTCTTGAATGTCAGAATTAGGAT
780 ATTTAGTCTTCCACTGTCTACAATTTAACCACTATTTATCCCTTCTTGAATGTCAGAATTAGGAT
47293555 ACATACAAGACTATTCCAATTCATAGCATC-GAAATATTGGTCCATACTC
845 ACATACAAGACTATTCCAATTCATAGCATCAGAAA-ATTGGTCCATACTC
*
47293604 AACATTGTTATGCATACTCAACATGCTTAATCACCATCT-CACACAATAATGGAAACAAACAACA
1 AACATTGTTATGCATACTCAACATGCTTAATCACCATCTACACACAATAATGGAAACAAACAAAA
*
47293668 TAGCACAGACTTAACACAAATCATTCAAGCAACATAATATCATTGGTCACTAAAATATGGAGTAC
66 TAGCACAGACTTAACACAAATCATTCAAGCAACATAATATCATCGGTCACTAAAATATGGAGTAC
* * *
47293733 AGAATCTCACGTGAACTCTTTTATCCTCGTTAGCAGAGCTTTTTCAAATGTCAAAGCCTTCATCG
131 AGAATCTCACGTCAACTCTTTTATCCTCGTTAGCAGAGCTTTTCCAAATGTCAAAGCCTTCATCA
* * *
47293798 TCCTGGTAGCTAAGAACAACAACACCATACCGGTTAACTCAAAGGTAATCAAACCTTATAATACA
196 TCCTGGAAGCTAAGAACAACAACACCATACCGGTTAAATCAAAGGTAATCAAACCTTATAACACA
47293863 AAACCTATATACAGAAACTTATTAGGAATCCTTACTCTCCTTCTTCTTCTAATTCATGAGTACAG
261 AAACCTATATACAGAAACTTATTAGGAATCCTTACTCTCCTTCTTCTTCTAATTCATGAGTACAG
* *
47293928 AGAGATAAGAAAGCTTACCAGCTTACTAGATTCTCTACTTCTTAACATCAAACCTCACGATTAGC
326 AAAGATAAGAAAGCTTACCAGCTTACTAGATTCTCTACTTCTTAACATCAAACCTCACAATTAGC
* * * * * ** *
47293993 GCCCCCATGCAACATTTTCCCTTACCCTCTCTTTTTTAGAGCAACTGAAGAGGACAATGCAGATG
391 -ACCCCATGCAAAATTTTCCCTTACCCTATCTTCTTCAGAGCAACCAAAGAGGAAAATGCAGATG
** *
47294058 AG-AGAAAACATAATCAAAATGGAGAAGAATTTCATCAGCTGAATGAGGTTTCT-TCCGTATATA
455 AGAAGAAAACATAATCAAAATGGAGAAGAATTTCATCAGCAAAATGAGGCTTCTCT-CGTATATA
* * *
47294121 TAACCCTTCTCACACTGTAACACCCCTAACCCCTCTCCGTTATTGAATTTGGGGTCACAGGCATT
519 TAACCCTTCTCACACTGTAACACCCCTAACCCCTCTCCGTCATCGAATTTAGGGTCACAGGCATT
* *
47294186 ACTAATAAATCAAACAATTAACCAATCATAATCAACATCTAAACTAGCCATTAACAATATAATAT
584 ACTAACAAATCAAACAATTAACCAATCATAATCAACATATAAACTAGCCATTAACAATATAATAT
* *
47294251 ACAAGGGCAGGACACGACAATCAAATCATATCA-AGCTAGAATATTATACAATCGAATAATGATT
649 ACAAGGGCAGGACACAACAATCAAATCATATCAGA-CTAGAACATTATACAATCGAATAATGATT
* * *
47294315 CATGCTATGCGATGCTAAACTTGGTGC-TCCACTGTCTACACTCTTATCACTATTTCTACATTTC
713 CATGCTATACGATGCTAAACTTGGT-CTTCCACTGTCTACACTCTTATCACTATTTATACATTGC
* * * *
47294379 TAAATTTAGTTTTCCACTGTCTACACTTTAATCACTATTTATCCCTTCTTGAATGTTAGAATTAG
777 TAAATTTAGTCTTCCACTGTCTACAATTTAACCACTATTTATCCCTTCTTGAATGTCAGAATTAG
47294444 GATACATACAAGACTATTCCAATT-ATTAGCATCAGAAAATTGGTCCATACTC
842 GATACATACAAGACTATTCCAATTCA-TAGCATCAGAAAATTGGTCCATACTC
47294496 CGACTACAAT
Statistics
Matches: 818, Mismatches: 68, Indels: 14
0.91 0.08 0.02
Matches are distributed among these distances:
891 3 0.00
892 718 0.88
893 58 0.07
894 39 0.05
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (893 bp):
AACATTGTTATGCATACTCAACATGCTTAATCACCATCTACACACAATAATGGAAACAAACAAAA
TAGCACAGACTTAACACAAATCATTCAAGCAACATAATATCATCGGTCACTAAAATATGGAGTAC
AGAATCTCACGTCAACTCTTTTATCCTCGTTAGCAGAGCTTTTCCAAATGTCAAAGCCTTCATCA
TCCTGGAAGCTAAGAACAACAACACCATACCGGTTAAATCAAAGGTAATCAAACCTTATAACACA
AAACCTATATACAGAAACTTATTAGGAATCCTTACTCTCCTTCTTCTTCTAATTCATGAGTACAG
AAAGATAAGAAAGCTTACCAGCTTACTAGATTCTCTACTTCTTAACATCAAACCTCACAATTAGC
ACCCCATGCAAAATTTTCCCTTACCCTATCTTCTTCAGAGCAACCAAAGAGGAAAATGCAGATGA
GAAGAAAACATAATCAAAATGGAGAAGAATTTCATCAGCAAAATGAGGCTTCTCTCGTATATATA
ACCCTTCTCACACTGTAACACCCCTAACCCCTCTCCGTCATCGAATTTAGGGTCACAGGCATTAC
TAACAAATCAAACAATTAACCAATCATAATCAACATATAAACTAGCCATTAACAATATAATATAC
AAGGGCAGGACACAACAATCAAATCATATCAGACTAGAACATTATACAATCGAATAATGATTCAT
GCTATACGATGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACATTGCTAAA
TTTAGTCTTCCACTGTCTACAATTTAACCACTATTTATCCCTTCTTGAATGTCAGAATTAGGATA
CATACAAGACTATTCCAATTCATAGCATCAGAAAATTGGTCCATACTC
Found at i:47295899 original size:43 final size:43
Alignment explanation
Indices: 47295846--47295931 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
47295836 TCATATTTCA
* *
47295846 TTTCTCATCTCATAATT-ATTTCTCATATTTTCCATTTCAATAT
1 TTTCTAATCTCAT-ATTCATTTATCATATTTTCCATTTCAATAT
* *
47295889 TTTCTAATCTCATATTCATTTATCATCTTTTTCATTTCAATAT
1 TTTCTAATCTCATATTCATTTATCATATTTTCCATTTCAATAT
47295932 CAATCACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.08
43 35 0.92
ACGTcount: A:0.26, C:0.20, G:0.00, T:0.55
Consensus pattern (43 bp):
TTTCTAATCTCATATTCATTTATCATATTTTCCATTTCAATAT
Found at i:47299738 original size:19 final size:20
Alignment explanation
Indices: 47299706--47299743 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
47299696 TTCATGGCTG
*
47299706 CATTTTTTTCGTTTTTTTTT
1 CATTTTTATCGTTTTTTTTT
47299726 CATTTTTAT-GTTTTTTTT
1 CATTTTTATCGTTTTTTTT
47299744 CTTCACTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (20 bp):
CATTTTTATCGTTTTTTTTT
Found at i:47303060 original size:42 final size:42
Alignment explanation
Indices: 47303000--47303085 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 42
47302990 TATACAAAGA
*
47303000 AAAAATAAATGAACCTCCACACCT-AGGCCTCTAAATGTAATG
1 AAAAATAAATGAACCTCCACACCTGA-GCCTCTAAATGCAATG
* *
47303042 AAAAGTAAATGAATCTCCACACCTGAGCCTCTAAATGCAATG
1 AAAAATAAATGAACCTCCACACCTGAGCCTCTAAATGCAATG
47303084 AA
1 AA
47303086 TGCTTTCCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.21
Consensus pattern (42 bp):
AAAAATAAATGAACCTCCACACCTGAGCCTCTAAATGCAATG
Found at i:47309989 original size:40 final size:40
Alignment explanation
Indices: 47309923--47310021 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
47309913 GATTCATGGC
* *
47309923 TACCAATGTATAAACAGGGGCACGTATGTGCAATCAAGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATCAAGGG
* *
47309963 TACCGAAGTACAAACAGGGG-ACCGTATGTGCAATCAGGGG
1 TACCAAAGTACAAACAGGGGCA-CGTATGTGCAATCAAGGG
47310003 TACCAAAGTACAAACAGGG
1 TACCAAAGTACAAACAGGG
47310022 ATAATTATCT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
39 1 0.02
40 52 0.98
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.16
Consensus pattern (40 bp):
TACCAAAGTACAAACAGGGGCACGTATGTGCAATCAAGGG
Found at i:47310002 original size:20 final size:20
Alignment explanation
Indices: 47309945--47310002 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
47309935 AACAGGGGCA
*
47309945 CGTATGTGCAATCAAGGGTAC
1 CGTATGTGCAATC-AGGGGAC
* * *
47309966 CG-AAGTACAAACAGGGGAC
1 CGTATGTGCAATCAGGGGAC
47309985 CGTATGTGCAATCAGGGG
1 CGTATGTGCAATCAGGGG
47310003 TACCAAAGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 8 0.28
20 19 0.66
21 2 0.07
ACGTcount: A:0.31, C:0.19, G:0.33, T:0.17
Consensus pattern (20 bp):
CGTATGTGCAATCAGGGGAC
Found at i:47310020 original size:20 final size:20
Alignment explanation
Indices: 47309960--47310021 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
47309950 GTGCAATCAA
*
47309960 GGGTACCGAAGTACAAACAG
1 GGGTACCAAAGTACAAACAG
* * * *
47309980 GGG-ACCGTATGTGCAATCAG
1 GGGTACC-AAAGTACAAACAG
47310000 GGGTACCAAAGTACAAACAG
1 GGGTACCAAAGTACAAACAG
47310020 GG
1 GG
47310022 ATAATTATCT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.13
Consensus pattern (20 bp):
GGGTACCAAAGTACAAACAG
Found at i:47312497 original size:20 final size:21
Alignment explanation
Indices: 47312472--47312517 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
47312462 GAGAATGACT
*
47312472 AAAAAAAT-ATT-TTTATTTTA
1 AAAAAAATCATTGTTT-TTCTA
47312492 AAAAAAATCATTGTTTTTCTA
1 AAAAAAATCATTGTTTTTCTA
47312513 AAAAA
1 AAAAA
47312518 TCAAAGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 12 0.52
22 3 0.13
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAAAAATCATTGTTTTTCTA
Found at i:47317487 original size:33 final size:33
Alignment explanation
Indices: 47317450--47317516 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
47317440 CAGTAAAAGG
47317450 AGATTTAGTCATTTTTCCCAATAAGCAAAATTC
1 AGATTTAGTCATTTTTCCCAATAAGCAAAATTC
47317483 AGATTTAGTCATTTTTCCCAATAAGCAAAATTC
1 AGATTTAGTCATTTTTCCCAATAAGCAAAATTC
47317516 A
1 A
47317517 CATACTTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (33 bp):
AGATTTAGTCATTTTTCCCAATAAGCAAAATTC
Found at i:47323111 original size:26 final size:26
Alignment explanation
Indices: 47323082--47323186 Score: 129
Period size: 26 Copynumber: 4.0 Consensus size: 26
47323072 GAGGGAGTAC
* *
47323082 ACTGTTACTAGTAGTTTTGCTGCGAT
1 ACTGTTACTAGCAGCTTTGCTGCGAT
* *
47323108 ACTGTTACTGGTAGCTTTGCTGCGAT
1 ACTGTTACTAGCAGCTTTGCTGCGAT
* * * *
47323134 ACTGTTATTGGCAGCCTTGCTACGAT
1 ACTGTTACTAGCAGCTTTGCTGCGAT
*
47323160 ACTATTACTAGCAGCTTTGCTGCGAT
1 ACTGTTACTAGCAGCTTTGCTGCGAT
47323186 A
1 A
47323187 TTGGTGTATT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (26 bp):
ACTGTTACTAGCAGCTTTGCTGCGAT
Found at i:47352467 original size:5 final size:5
Alignment explanation
Indices: 47352457--47352934 Score: 740
Period size: 5 Copynumber: 95.6 Consensus size: 5
47352447 AATTATTGTA
* * * * * *
47352457 TATTG TATTG TATTG TATTG TACTG TACTG TACTG TACTG TACTG TACTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
* * * * * * * * * * *
47352507 TACTG TACTG TACTG TACTG TACTA TACTG TACTG TACTG TACTG TACTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
* * *
47352557 TACTG TACTG TACTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
47352607 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
* * * *
47352657 TATTG TACTG TATTG TACTG TATTG TACTG TATTG TACTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
47352707 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
47352757 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
47352807 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
47352857 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
47352907 TATTG TATTG TATTG TATTG TATTG TAT
1 TATTG TATTG TATTG TATTG TATTG TAT
47352935 GCATGATTGG
Statistics
Matches: 461, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 461 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (5 bp):
TATTG
Found at i:47361218 original size:18 final size:18
Alignment explanation
Indices: 47361195--47361229 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47361185 TATCTGGAAA
47361195 TGAAATTGCATGGGATTT
1 TGAAATTGCATGGGATTT
*
47361213 TGAAATTTCATGGGATT
1 TGAAATTGCATGGGATT
47361230 CGAGTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.40
Consensus pattern (18 bp):
TGAAATTGCATGGGATTT
Found at i:47361413 original size:5 final size:5
Alignment explanation
Indices: 47361403--47361427 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47361393 TTCTTTTTAG
47361403 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
47361428 TATTATAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:47364833 original size:24 final size:21
Alignment explanation
Indices: 47364791--47364834 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
47364781 TTATTGTTGT
*
47364791 AATTTTATATTATTTTTTATC
1 AATTTTATATTATTATTTATC
47364812 AATTTTATTATATAGTTATTTAT
1 AATTTTA-TAT-TA-TTATTTAT
47364835 TCTTATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 2 0.11
24 7 0.37
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
AATTTTATATTATTATTTATC
Found at i:47366905 original size:149 final size:149
Alignment explanation
Indices: 47366629--47366911 Score: 404
Period size: 149 Copynumber: 1.9 Consensus size: 149
47366619 TTATTACTAA
* * ** ** *
47366629 ATTGTTGTTATTACTAGCTTAAACAGTGAGGAAGAGAAGTTGTACCATAATGTAACGGTTAACTA
1 ATTGTTGCTATTACTAACTTAAACAACGAGGAAGAGAAGTTGTACCATAATGTAACAATTAAATA
* * *
47366694 GATTGAACCTTTTATTTTTGCAAATAACTAATACCAACAACATTAAAACCACAATTACACAAATT
66 GATTAAACCTTATATTTTTGCAAACAACTAATACCAACAACATTAAAACCACAATTACACAAATT
47366759 GAAAGAGATCAAACCTTAT
131 GAAAGAGATCAAACCTTAT
* *
47366778 ATTGTTGCTATTACTAACTTAAGCAACGAGGAAGATAAGTTGTACCATAATGTAACAATTAAATA
1 ATTGTTGCTATTACTAACTTAAACAACGAGGAAGAGAAGTTGTACCATAATGTAACAATTAAATA
** * * **
47366843 GATTAAACCTTATATTTTTGTGAACAACTAATACCAACAATATTAAAATCACAATTTTACAAATT
66 GATTAAACCTTATATTTTTGCAAACAACTAATACCAACAACATTAAAACCACAATTACACAAATT
47366908 GAAA
131 GAAA
47366912 ATACATAAGA
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
149 116 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (149 bp):
ATTGTTGCTATTACTAACTTAAACAACGAGGAAGAGAAGTTGTACCATAATGTAACAATTAAATA
GATTAAACCTTATATTTTTGCAAACAACTAATACCAACAACATTAAAACCACAATTACACAAATT
GAAAGAGATCAAACCTTAT
Found at i:47367706 original size:28 final size:28
Alignment explanation
Indices: 47367663--47367755 Score: 118
Period size: 28 Copynumber: 3.4 Consensus size: 28
47367653 AGCCCTGTGA
* * *
47367663 CAAGTGGTATCAGAGCCAAGTTTTGAGC
1 CAAGTGATATCCGAGCCAAGTTTTGAAC
*
47367691 CAAGTGATATCCGAG-CAGGTTTTGAAC
1 CAAGTGATATCCGAGCCAAGTTTTGAAC
*
47367718 CAAGTGGTATCCGA-CCTAAGTTTTGAAC
1 CAAGTGATATCCGAGCC-AAGTTTTGAAC
47367746 CAAGTGATAT
1 CAAGTGATAT
47367756 TTGAGTTGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.43
28 32 0.57
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (28 bp):
CAAGTGATATCCGAGCCAAGTTTTGAAC
Found at i:47377450 original size:18 final size:17
Alignment explanation
Indices: 47377422--47377463 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
47377412 GTATTATTTC
47377422 TTAAAAATATTTTTAAG
1 TTAAAAATATTTTTAAG
*
47377439 TTAAAAAGTATTTTTGAG
1 TTAAAAA-TATTTTTAAG
47377457 -TAAAAAT
1 TTAAAAAT
47377464 TAAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 13 0.57
18 9 0.39
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (17 bp):
TTAAAAATATTTTTAAG
Found at i:47387739 original size:12 final size:12
Alignment explanation
Indices: 47387714--47387752 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
47387704 AAGAATAAGA
47387714 AAAAAAGAAAAT
1 AAAAAAGAAAAT
47387726 AAATAAAG-AAAT
1 AAA-AAAGAAAAT
47387738 AAAAAAGAAAAT
1 AAAAAAGAAAAT
47387750 AAA
1 AAA
47387753 CATTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 17 0.68
13 4 0.16
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (12 bp):
AAAAAAGAAAAT
Found at i:47398899 original size:31 final size:31
Alignment explanation
Indices: 47398864--47399064 Score: 251
Period size: 31 Copynumber: 6.5 Consensus size: 31
47398854 GTATATGTTT
*
47398864 TATACATTGTCGAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
47398895 TATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
47398926 TATACATTGCTGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
47398957 TATAAATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
47398988 TATAAATTGCCGAA-TTGATTTGTATCTAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* ** *
47399018 TATACATTGCCAAATTTGATGCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
47399049 TATATATTGTCGAATT
1 TATACATTGCCGAATT
47399065 AATTTGAGCA
Statistics
Matches: 147, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
30 26 0.18
31 121 0.82
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.43
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:47399080 original size:92 final size:93
Alignment explanation
Indices: 47398864--47399070 Score: 238
Period size: 92 Copynumber: 2.2 Consensus size: 93
47398854 GTATATGTTT
* * * * * * *
47398864 TATACATTGTCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGAATTGTTTATAGATAT
1 TATAAATTGCCGAATTTAATTTGCATATGGATATAAATTGCCGAATTTGAATTGTATATAGATAT
** ** *
47398929 ACATTGCTGAATTTGATTTGTATATGGT
66 ACATTGCCAAATTTGATGCGTATATGGA
* * * *
47398957 TATAAATTGCCGAATTTGATTTGTATATGGATATAAATTGCCGAA-TTGATTTGTATCTAGATAT
1 TATAAATTGCCGAATTTAATTTGCATATGGATATAAATTGCCGAATTTGAATTGTATATAGATAT
47399021 ACATTGCCAAATTTGATGCGTATATGGA
66 ACATTGCCAAATTTGATGCGTATATGGA
* *
47399049 TATATATTGTCGAA-TTAATTTG
1 TATAAATTGCCGAATTTAATTTG
47399071 AGCATTGGAT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
91 7 0.07
92 51 0.52
93 41 0.41
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.43
Consensus pattern (93 bp):
TATAAATTGCCGAATTTAATTTGCATATGGATATAAATTGCCGAATTTGAATTGTATATAGATAT
ACATTGCCAAATTTGATGCGTATATGGA
Found at i:47399236 original size:43 final size:43
Alignment explanation
Indices: 47399188--47399299 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
47399178 TCTGATGTGT
*
47399188 GATTTCGTGTAAGACCATGTCTGGGCTATTGGCATCGATTTGA
1 GATTTCGTGTAAGACCATGTCTGGGCTATTGGCATCGATATGA
47399231 GATTTCGTGTAAGACCATAG-CTGGGCTATTGGCATCGATATGA
1 GATTTCGTGTAAGACCAT-GTCTGGGCTATTGGCATCGATATGA
* * *
47399274 GATTTCCATGTAAGACTATGTATGGG
1 GATTT-CGTGTAAGACCATGTCTGGG
47399300 ACATGGCATT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
43 46 0.74
44 16 0.26
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGCTATTGGCATCGATATGA
Found at i:47401711 original size:45 final size:44
Alignment explanation
Indices: 47401661--47401772 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 44
47401651 GGCTATATGT
*
47401661 TGAAAGATGCTATGGTATCATAT-TAAATACGAGTAAAACCATAGC
1 TGAAAGATGCTATGGCATCATATATAAAT--GAGTAAAACCATAGC
* * * *
47401706 TGAAAGATGTTATGGCATCATGATATAAATGAGTAAGACCATGGT
1 TGAAAGATGCTATGGCATCAT-ATATAAATGAGTAAAACCATAGC
* *
47401751 TGAGAGACGCTATGGCATCATA
1 TGAAAGATGCTATGGCATCATA
47401773 GAAAACAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
44 1 0.02
45 49 0.86
46 2 0.04
47 5 0.09
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (44 bp):
TGAAAGATGCTATGGCATCATATATAAATGAGTAAAACCATAGC
Found at i:47404892 original size:22 final size:22
Alignment explanation
Indices: 47404864--47404908 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
47404854 GCTGTATTCT
47404864 TTGTCCGTGAGAAAGTGGCTGC
1 TTGTCCGTGAGAAAGTGGCTGC
47404886 TTGTCCGTGAGAAAGTGGCTGC
1 TTGTCCGTGAGAAAGTGGCTGC
47404908 T
1 T
47404909 AATTCCCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.29
Consensus pattern (22 bp):
TTGTCCGTGAGAAAGTGGCTGC
Found at i:47404960 original size:48 final size:48
Alignment explanation
Indices: 47404892--47404989 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
47404882 CTGCTTGTCC
47404892 GTGAGAAAGTGGCTGCTAATTCCCTTCTTGTCGGGGAGGTTCCGACTT
1 GTGAGAAAGTGGCTGCTAATTCCCTTCTTGTCGGGGAGGTTCCGACTT
47404940 GTGAGAAAGTGGCTGCTAATTCCCTTCTTGTCGGGGAGGTTCCGACTT
1 GTGAGAAAGTGGCTGCTAATTCCCTTCTTGTCGGGGAGGTTCCGACTT
47404988 GT
1 GT
47404990 AATCTGGTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (48 bp):
GTGAGAAAGTGGCTGCTAATTCCCTTCTTGTCGGGGAGGTTCCGACTT
Found at i:47405197 original size:13 final size:13
Alignment explanation
Indices: 47405181--47405207 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47405171 ATAAGTGTGT
47405181 AATTCAGCAGAAA
1 AATTCAGCAGAAA
47405194 AATTCAGCAGAAA
1 AATTCAGCAGAAA
47405207 A
1 A
47405208 TGAAGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
AATTCAGCAGAAA
Found at i:47407534 original size:61 final size:61
Alignment explanation
Indices: 47407386--47407566 Score: 195
Period size: 61 Copynumber: 2.9 Consensus size: 61
47407376 TTGGTCTTGT
* * * * * *
47407386 AACAAAATTAGCCCTCTAATATTTACATATTCTATCAATTT-GATACTAAATATAAAATAATTC
1 AACAAATTTAGCCCTC-AATATTTACAAATTCTATCAATTTAG-TCCTAACTCTAAAA-AAATC
* * * *
47407449 AACAAATTTAGCCCTCAATGTTTACAAAATT-TATCATTTTAGTTCTAATTCTAAAAAAATC
1 AACAAATTTAGCCCTCAATATTTAC-AAATTCTATCAATTTAGTCCTAACTCTAAAAAAATC
* **
47407510 AATAAATTTATTCCTCAATATTTACAAATTCTATCAATTTAGTCCTAACTCTAAAAA
1 AACAAATTTAGCCCTCAATATTTACAAATTCTATCAATTTAGTCCTAACTCTAAAAA
47407567 TTTTAAAAAT
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
60 5 0.05
61 48 0.48
62 27 0.27
63 20 0.20
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.38
Consensus pattern (61 bp):
AACAAATTTAGCCCTCAATATTTACAAATTCTATCAATTTAGTCCTAACTCTAAAAAAATC
Found at i:47408739 original size:60 final size:61
Alignment explanation
Indices: 47408647--47408770 Score: 151
Period size: 60 Copynumber: 2.0 Consensus size: 61
47408637 TCAAAAATTG
* * * * * * *
47408647 TTAGAGTTAGGACTAAATTGATAGATTTTGTAAATGTTGACGGCCAAATTTATT-AATTTT
1 TTAGAATTAGAACTAAAATGACAAATTCTGTAAATATTGACGGCCAAATTTATTAAATTTT
* * *
47408707 TTAGAATTAGAACTAAAATGACAAATTCTGTAAATATTGAGGGCTAAATTTGTTAAATTTT
1 TTAGAATTAGAACTAAAATGACAAATTCTGTAAATATTGACGGCCAAATTTATTAAATTTT
47408768 TTA
1 TTA
47408771 TATTTGGGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
60 44 0.83
61 9 0.17
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.40
Consensus pattern (61 bp):
TTAGAATTAGAACTAAAATGACAAATTCTGTAAATATTGACGGCCAAATTTATTAAATTTT
Found at i:47413212 original size:43 final size:43
Alignment explanation
Indices: 47413045--47413192 Score: 260
Period size: 43 Copynumber: 3.4 Consensus size: 43
47413035 TTAGCACTGT
47413045 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAA
* *
47413088 GACCTTTAGCGGCACTTTTCCCACAAACGCCACTAAAGACCAA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAA
* *
47413131 GACTTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAA
47413174 GACCTTTAGCGGCGCTTTT
1 GACCTTTAGCGGCGCTTTT
47413193 ATTAAAAACG
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.22
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAA
Found at i:47413212 original size:86 final size:86
Alignment explanation
Indices: 47413049--47413212 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 86
47413039 CACTGTGACC
* * *
47413049 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCCACAA
1 TTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCAAAA
*
47413114 ACGCCACTAAAGACCAAGACT
66 ACGCCACGAAAGACCAAGACT
* **
47413135 TTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATTAAAA
1 TTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCAAAA
*
47413200 ACGCCGCGAAAGA
66 ACGCCACGAAAGA
47413213 ACATTTAGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (86 bp):
TTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCAAAA
ACGCCACGAAAGACCAAGACT
Found at i:47416989 original size:39 final size:40
Alignment explanation
Indices: 47416912--47417018 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
47416902 TAGCTCCTCG
* * *
47416912 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATATTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATATAAACTCA
* *
47416952 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
**
47416991 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
47417019 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
Found at i:47417017 original size:79 final size:80
Alignment explanation
Indices: 47416918--47417085 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
47416908 CTCGTTCAAG
* * * ** * *
47416918 TGCCTTCGGGACATAGCCCGG-TTATATTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
47416981 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
47416997 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
47417062 AATAACTCGCACAAA
66 AATAACTCGCACAAA
*
47417077 TACCTTCGG
1 TGCCTTCGG
47417086 ATCTTAGTCC
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
79 31 0.42
80 43 0.58
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:47417069 original size:80 final size:80
Alignment explanation
Indices: 47416958--47417131 Score: 214
Period size: 80 Copynumber: 2.2 Consensus size: 80
47416948 CTCATTCAAT
* * *
47416958 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
47417021 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
47417037 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
47417101 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
47417118 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
47417132 GCCGGACAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
79 7 0.08
80 65 0.78
81 10 0.12
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:47417098 original size:40 final size:40
Alignment explanation
Indices: 47416955--47417085 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
47416945 TAACTCATTC
* *
47416955 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
47416995 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
47417035 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
47417075 AATACCTTCGG
1 AATGCCTTCGG
47417086 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.04
40 78 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:47420200 original size:40 final size:40
Alignment explanation
Indices: 47420156--47420286 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
47420146 GGACTAAGAT
*
47420156 CCGAAGGTATTTGTGCGAGTTATTAATTTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTTCGGGTTAAGTC
* * **
47420196 CCGAAGGCCTTTGTGCGAGATACCAATTTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTTCGGGTTAAGTC
* *
47420236 CCGAAGGCATTCGTGCGAGTT-TTAAAATTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTTCGGGTTAAGTC
47420276 CCGAAGGCATT
1 CCGAAGGCATT
47420287 GAATGAGTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTTCGGGTTAAGTC
Found at i:47424542 original size:41 final size:41
Alignment explanation
Indices: 47424346--47424535 Score: 308
Period size: 41 Copynumber: 4.6 Consensus size: 41
47424336 TATTTTTTGT
* * *
47424346 GGCGCTTCTTTAAAAACGCCGCTAAAGACCTGAGTATTAGC
1 GGCGCTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGC
* *
47424387 GGCACTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGC
1 GGCGCTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGC
* *
47424428 GGTGCTTCTTTAAAAACGCCGCTAAAGGCCCGAGAATTAGC
1 GGCGCTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGC
47424469 GGCGCTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGC
1 GGCGCTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGC
*
47424510 GGCGCTTCTTAAAAAACGCCGCTAAA
1 GGCGCTTCTTTAAAAACGCCGCTAAA
47424536 ACCCCGAAAA
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
GGCGCTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGC
Found at i:47424862 original size:23 final size:23
Alignment explanation
Indices: 47424796--47424864 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
47424786 TTTAAACTTT
*
47424796 GAATTATTTAGTGATAATATGTA
1 GAATTATTTAGTGATAATATTTA
*
47424819 GAATTATTCAGTGATAATATTTA
1 GAATTATTTAGTGATAATATTTA
*
47424842 GAATTATTTAGTGACAATATTTA
1 GAATTATTTAGTGATAATATTTA
47424865 AGTAATGTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.43
Consensus pattern (23 bp):
GAATTATTTAGTGATAATATTTA
Found at i:47429537 original size:24 final size:24
Alignment explanation
Indices: 47429510--47429568 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
47429500 TCGAAAGAGT
*
47429510 ATCTCGTTATTAGCTCTCATGAGC
1 ATCTCGTTATTAGCTCTCACGAGC
* *
47429534 ATCTCGATATTTGGCTCTCACGAGC
1 ATCTCGTTA-TTAGCTCTCACGAGC
* *
47429559 TTTTCGTTAT
1 ATCTCGTTAT
47429569 ATTGTTCTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.41
Consensus pattern (24 bp):
ATCTCGTTATTAGCTCTCACGAGC
Found at i:47430281 original size:14 final size:14
Alignment explanation
Indices: 47430262--47430298 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
47430252 ATGCTTACTC
47430262 TGTTTTATTTCCTT
1 TGTTTTATTTCCTT
*
47430276 TGTTTTTATTTTCTT
1 TG-TTTTATTTCCTT
47430291 TGTTTTAT
1 TGTTTTAT
47430299 AGTATTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (14 bp):
TGTTTTATTTCCTT
Found at i:47430284 original size:15 final size:15
Alignment explanation
Indices: 47430264--47430296 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47430254 GCTTACTCTG
47430264 TTTTATTTCCTTTGT
1 TTTTATTTCCTTTGT
*
47430279 TTTTATTTTCTTTGT
1 TTTTATTTCCTTTGT
47430294 TTT
1 TTT
47430297 ATAGTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTTATTTCCTTTGT
Found at i:47434198 original size:19 final size:21
Alignment explanation
Indices: 47434160--47434199 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
47434150 AAGACTTACA
*
47434160 AACATCTTAGAAAATGTTTTG
1 AACATCTTAGAAAATATTTTG
47434181 AACA-CTTA-AAAATATTTTG
1 AACATCTTAGAAAATATTTTG
47434200 GACAAAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 4 0.22
21 4 0.22
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
AACATCTTAGAAAATATTTTG
Found at i:47434453 original size:18 final size:20
Alignment explanation
Indices: 47434408--47434457 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
47434398 CTTTTAGAAA
47434408 TATATCGATACCTATTGAATT
1 TATATCGATACCTATT-AATT
*
47434429 T-TATCGATACCT-TT-CTT
1 TATATCGATACCTATTAATT
47434446 TATATCGATACC
1 TATATCGATACC
47434458 ATTTTTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.11
18 10 0.37
19 2 0.07
20 11 0.41
21 1 0.04
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (20 bp):
TATATCGATACCTATTAATT
Found at i:47436222 original size:29 final size:29
Alignment explanation
Indices: 47436180--47436235 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
47436170 TATACAAGTC
47436180 ATACATAAATTTTCTATCATCCATTCTAG
1 ATACATAAATTTTCTATCATCCATTCTAG
47436209 ATACATAAATTTTCTATCATCCATTCT
1 ATACATAAATTTTCTATCATCCATTCT
47436236 GGATTAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (29 bp):
ATACATAAATTTTCTATCATCCATTCTAG
Found at i:47437934 original size:22 final size:22
Alignment explanation
Indices: 47437909--47437950 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47437899 ACACCAAAAC
* *
47437909 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCATTTAGCGGCATTTTTTT
47437931 AGGCATTTAGCGGCATTTTT
1 AGGCATTTAGCGGCATTTTT
47437951 AAACGCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.14, G:0.26, T:0.45
Consensus pattern (22 bp):
AGGCATTTAGCGGCATTTTTTT
Found at i:47438080 original size:43 final size:43
Alignment explanation
Indices: 47438032--47438138 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
47438022 TTTATGCAAA
47438032 AAACGCCGCTAAAGACCATGA-CTTTTAGCGGCGCGTCTGTCAC
1 AAACGCCGCTAAAGACCATGAGC-TTTAGCGGCGCGTCTGTCAC
* *
47438075 AAACGCCGCTAAAGACCATGAGCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGAGCTTTAGCGGCGCGTCTGTCAC
* * *
47438118 AAATGCCACTAAAGATCATGA
1 AAACGCCGCTAAAGACCATGA
47438139 ACAAACCTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 57 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGAGCTTTAGCGGCGCGTCTGTCAC
Found at i:47440628 original size:15 final size:15
Alignment explanation
Indices: 47440608--47440637 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47440598 AGCGATGATT
*
47440608 CTATATACTAATTTA
1 CTATATAATAATTTA
47440623 CTATATAATAATTTA
1 CTATATAATAATTTA
47440638 AACCTATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (15 bp):
CTATATAATAATTTA
Found at i:47442516 original size:148 final size:148
Alignment explanation
Indices: 47442295--47442568 Score: 487
Period size: 149 Copynumber: 1.8 Consensus size: 148
47442285 GCTTACCTTT
*
47442295 AACGCCGCAAAAAAAATTTATTTTGAATAAAACTACGCTGTTTGCTATGCTATGCTAAAAGGGGG
1 AACGCCGCAAAAAAAATTTATTTTGAATAAAACTACGCCGTTTGCTATGCTATGCTAAAAGGGGG
*
47442360 CTATTTTTTAAAAGCAAAATTATTTTGTGGCGTTTTTTACAAAAACGTCACTATTGCTTACCTTT
66 CTATTTTTTAAAAGCAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCACTATTGCTTACCTTT
47442425 AGCGGCGTTTTTCATAAA
131 AGCGGCGTTTTTCATAAA
47442443 AACGCCGC-AAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGG
1 AACGCCGCAAAAAAAATTT-ATTTTGAATAAAACTACGCCG-TTTGCTATGCTATGCTAAAAGGG
* *
47442507 GGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTA
64 GGCTATTTTTTAAAAGCAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCACTATTGCTTA
47442569 AACGCCGCAA
Statistics
Matches: 120, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
147 10 0.08
148 28 0.23
149 82 0.68
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (148 bp):
AACGCCGCAAAAAAAATTTATTTTGAATAAAACTACGCCGTTTGCTATGCTATGCTAAAAGGGGG
CTATTTTTTAAAAGCAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCACTATTGCTTACCTTT
AGCGGCGTTTTTCATAAA
Found at i:47442521 original size:279 final size:277
Alignment explanation
Indices: 47441950--47442765 Score: 1259
Period size: 274 Copynumber: 2.9 Consensus size: 277
47441940 AAAATGGCGG
* * *
47441950 TATTTTTTTAAAGTGAAATTATTTTTGTGGCGTTTCCTTT--AAAAACGCCGCTATTACTTACTA
1 TATTTTTTAAAAGTAAAATTA-TTTTGTGGCGTTT--TTTACAAAAACGCCGCTATTGCTTACT-
*** * ** *
47442013 AAAACGCCGCAAAAGTTTTTTAATTTTGAACAAAACTATACCGTTTTGCTATGCTATGTTAAAAG
62 --AACGCCGCAAAAAAATTTT-ATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAG
*
47442078 GGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTACTTAC
124 GGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTAC
*** *
47442143 CTTTAGCGGCGTTTTT-ACGCAAATGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTT
189 CTTTAGCGGCGTTTTTCATAAAAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTT
47442207 TGCTATGCTATGCTAAAAGGGGGC
254 TGCTATGCTATGCTAAAAGGGGGC
* *
47442231 TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGTCGCTATGGCTTACCTTTA
1 TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTA-C--TA
* *
47442296 ACGCCGCAAAAAAAATTTATTTTGAATAAAACTACGCTG-TTTGCTATGCTATGCTAAAAGGGGG
63 ACGCCGCAAAAAAATTTTATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGG
* * *
47442360 CTATTTTTTAAAAGCAAAATTATTTTGTGGCGTTTTTTACAAAAACGTCACTATTGCTTACCTTT
128 CTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACCTTT
47442425 AGCGGCGTTTTTCATAAAAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCT
193 AGCGGCGTTTTTCATAAAAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCT
47442490 ATGCTATGCTAAAAGGGGGC
258 ATGCTATGCTAAAAGGGGGC
47442510 TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTA--AACG
1 TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACTAACG
47442573 CCGC-AAAAAATTTTATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTA
66 CCGCAAAAAAATTTTATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTA
*
47442637 TTTTTTAAAAGTAAAATTATTTTGTTGCGTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGC
131 TTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGC
* * *
47442702 GGCGTTTCTCATAAAAACGCCGCAAAAAAATTTCATTTTGAACAAAATTACGCCGTTTTGCTAT
196 GGCGTTTTTCATAAAAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCTAT
47442766 TCTAAAAATT
Statistics
Matches: 495, Mismatches: 33, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
273 29 0.06
274 158 0.32
278 100 0.20
279 142 0.29
280 45 0.09
281 20 0.04
283 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (277 bp):
TATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACTAACG
CCGCAAAAAAATTTTATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTA
TTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGC
GGCGTTTTTCATAAAAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCTATG
CTATGCTAAAAGGGGGC
Found at i:47442594 original size:125 final size:126
Alignment explanation
Indices: 47442442--47442693 Score: 479
Period size: 125 Copynumber: 2.0 Consensus size: 126
47442432 TTTTTCATAA
47442442 AAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGG
1 AAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGG
47442507 GGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTT
66 GGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTT
*
47442568 AAACGCCGC-AAAAAATTTTATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGG
1 AAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGG
*
47442632 GGCTATTTTTTAAAAGTAAAATTATTTTGTTGCGTTTTTTACAAAAACGCCGCTATTGCTT
66 GGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTT
47442693 A
1 A
47442694 CCTTTAGCGG
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
125 115 0.93
126 9 0.07
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (126 bp):
AAACGCCGCAAAAAAATTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGG
GGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTACAAAAACGCCGCTATTGCTT
Found at i:47442853 original size:107 final size:103
Alignment explanation
Indices: 47442731--47442924 Score: 275
Period size: 107 Copynumber: 1.8 Consensus size: 103
47442721 CCGCAAAAAA
* * *
47442731 ATTTCATTTTGAACAAAATTACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTGTTTTTTA-TA
1 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGC---AAA--TTTT-TTTTATTTTTTACTA
*
47442795 ATTTGATTTA-TTTTTGCGGCGTTTTTTTTATAAAAACGCCGCG
60 AATTGATTTATTTTTTGCGGCGTTTTTTTTATAAAAACGCCGCG
47442838 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCAAATTTTTTTTATTTTTTACTAAATTGA
1 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCAAATTTTTTTTATTTTTTACTAAATTGA
*
47442903 TTTATTTTTTGCTGCGTTTTTT
66 TTTATTTTTTGCGGCGTTTTTT
47442925 CATTTTGAAC
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
101 11 0.14
102 15 0.19
103 16 0.20
104 3 0.04
107 35 0.44
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (103 bp):
ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCAAATTTTTTTTATTTTTTACTAAATTGA
TTTATTTTTTGCGGCGTTTTTTTTATAAAAACGCCGCG
Found at i:47442935 original size:83 final size:82
Alignment explanation
Indices: 47442839--47443004 Score: 255
Period size: 83 Copynumber: 2.0 Consensus size: 82
47442829 AACGCCGCGA
*
47442839 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATG-CAAATTTTTTTTATTT-TTTACTAAATTG
1 TTTCATTTTGAACAAAATGACACCGTTTTGCTATGCCAAA-TTTTTTTATTTCTTTA--AAATTG
*
47442902 ATTTATTTTTTGCTGCGTTT
63 ATTTATTTTTTGCGGCGTTT
* *
47442922 TTTCATTTTGAACAAAATGACACCGTTTTTCTATGCCAGATTTTTTTATTTCTTTAAAATTGATT
1 TTTCATTTTGAACAAAATGACACCGTTTTGCTATGCCAAATTTTTTTATTTCTTTAAAATTGATT
47442987 TATTTTTTGCGGCGTTT
66 TATTTTTTGCGGCGTTT
47443004 T
1 T
47443005 CCATAAAAAC
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
82 26 0.34
83 44 0.57
84 7 0.09
ACGTcount: A:0.23, C:0.13, G:0.12, T:0.52
Consensus pattern (82 bp):
TTTCATTTTGAACAAAATGACACCGTTTTGCTATGCCAAATTTTTTTATTTCTTTAAAATTGATT
TATTTTTTGCGGCGTTT
Found at i:47443497 original size:14 final size:14
Alignment explanation
Indices: 47443480--47443528 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
47443470 AAATCTCAAC
47443480 CCCTAATCCATAAT
1 CCCTAATCCATAAT
47443494 CCCTAATCCATAAT
1 CCCTAATCCATAAT
* *
47443508 CCCTAAAGCCATACT
1 CCCT-AATCCATAAT
47443523 CCCTAA
1 CCCTAA
47443529 ACCGGCCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.35, C:0.39, G:0.02, T:0.24
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:47443525 original size:15 final size:15
Alignment explanation
Indices: 47443487--47443529 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
47443477 AACCCCTAAT
*
47443487 CCATAATCCCT-AAT
1 CCATAATCCCTAAAG
47443501 CCATAATCCCTAAAG
1 CCATAATCCCTAAAG
*
47443516 CCATACTCCCTAAA
1 CCATAATCCCTAAA
47443530 CCGGCCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.23
Consensus pattern (15 bp):
CCATAATCCCTAAAG
Found at i:47443649 original size:23 final size:25
Alignment explanation
Indices: 47443622--47443676 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
47443612 TAAATAATAG
*
47443622 TATTTTAATT-TTTCCATGTGT-TT
1 TATTTTAATTATTTCCATGTGTCAT
* *
47443645 TATTTCAAATTATTTCTATGTGTCAT
1 TATTT-TAATTATTTCCATGTGTCAT
47443671 TATTTT
1 TATTTT
47443677 TTTGGCCGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 10 0.40
26 6 0.24
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTTAATTATTTCCATGTGTCAT
Found at i:47443798 original size:72 final size:72
Alignment explanation
Indices: 47443681--47443833 Score: 225
Period size: 72 Copynumber: 2.1 Consensus size: 72
47443671 TATTTTTTTG
* * * *
47443681 GCCGCTAAATCCCCGAAAACTCACAAAACGGCGTCATTTGGCTTATGTTTTTTACTGCGCTTTCT
1 GCCGCTAAATCCCCGAAAACCCACAAAACAGCGTCATTGGGCTTATGTTTTTTACAGCGCTTTCT
*
47443746 TAAAAAC
66 CAAAAAC
* * *
47443753 GCCGCTAAATCCCCGAAAGCCCACAAAACAGCGTCGTTGGGCTTATGTTTTTTGCAGCGCTTTCT
1 GCCGCTAAATCCCCGAAAACCCACAAAACAGCGTCATTGGGCTTATGTTTTTTACAGCGCTTTCT
47443818 CAAAAAC
66 CAAAAAC
*
47443825 GCCGTTAAA
1 GCCGCTAAA
47443834 GCCCTAAGCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (72 bp):
GCCGCTAAATCCCCGAAAACCCACAAAACAGCGTCATTGGGCTTATGTTTTTTACAGCGCTTTCT
CAAAAAC
Found at i:47444327 original size:115 final size:114
Alignment explanation
Indices: 47443737--47444385 Score: 960
Period size: 114 Copynumber: 5.7 Consensus size: 114
47443727 GTTTTTTACT
* *
47443737 GCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCCCACAAAACAGCGTCGTTGGGCTTATG-T
1 GCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTT
* * * *
47443801 TTTTTGCAGCGCTTTCTCAAAAACGCCGTTAAAGCCCTAAGCATTAGCG
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAGCG
* * * *
47443850 GTGCTTTCTTAAAAACGTCACTAAATCCCCAAAAGCCCACAAAACGGTGTCGTTGGGCTTATGTT
1 GCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTT
* * *
47443915 TTTTTGCGGCGCTTTTTTAAAAACGCCGCTAAAGCCCTAACCATTAGCG
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAGCG
* *
47443964 GCGCTTTCTTAAAAACGCCGCTAAATCACCAAAATCCCACAAAACGGCGTCGTTGGGCTTATGTT
1 GCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTT
* *
47444029 TTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTGACCATTAGCG
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAGCG
* * * * *
47444078 GCACTTTCTTAAAAACGCTGCTAAATCCCCAACAGCCCAAAAAACGGCATCGTTGGGCTTATGTT
1 GCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTT
* * *
47444143 TTTTTGCGACGCTTTCTCAAAAACGCCGCTAAATCCCTGACCATTAGTG
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAGCG
* *
47444192 GCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCATCGTTAGGCTTATGTT
1 GCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG-T
*
47444257 TTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGACCATTAGCG
65 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAGCG
* * ** * *
47444307 GCGCTTTATTAAAAATGCCGCTAAATCCCCAAAAGCTAAGAAAACGGCGTCGTTGGGCTTA-GGT
1 GCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTT
*
47444371 TGTTTGCGGCGCTTT
66 TTTTTGCGGCGCTTT
47444386 TTGGAAAACG
Statistics
Matches: 485, Mismatches: 49, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
113 71 0.15
114 313 0.65
115 101 0.21
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (114 bp):
GCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTT
TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTAGCG
Found at i:47449201 original size:21 final size:20
Alignment explanation
Indices: 47449177--47449217 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47449167 GAACATATGG
47449177 ATTATGATGTACAATTTATAT
1 ATTATGATGT-CAATTTATAT
* *
47449198 ATTATTATGTTAATTTATAT
1 ATTATGATGTCAATTTATAT
47449218 TTTACAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTATGATGTCAATTTATAT
Found at i:47449305 original size:18 final size:17
Alignment explanation
Indices: 47449277--47449311 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47449267 ATTATTAAGA
*
47449277 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47449294 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47449312 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47449344 original size:120 final size:120
Alignment explanation
Indices: 47449201--47449448 Score: 496
Period size: 120 Copynumber: 2.1 Consensus size: 120
47449191 TTTATATATT
47449201 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
1 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
47449266 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
47449321 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
1 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
47449386 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
47449441 ATTATGTT
1 ATTATGTT
47449449 TAAATATGAT
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 128 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
Found at i:47449425 original size:18 final size:17
Alignment explanation
Indices: 47449397--47449431 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47449387 ATTATTAAGA
*
47449397 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47449414 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47449432 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47449688 original size:16 final size:16
Alignment explanation
Indices: 47449667--47449734 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
47449657 GATTTGCTAT
47449667 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47449683 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
47449699 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
47449715 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47449731 TACA
1 TACA
47449735 ACGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47453610 original size:60 final size:59
Alignment explanation
Indices: 47453505--47453623 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 59
47453495 GGCCATTCAA
* *
47453505 CTATAAAAGTTGCAAAATGGTCACCCCACTATTAGTAAATTTC-TTTTTTGATCACCCAG
1 CTATAAAAGTTACAAAATGGTCACCCAACTATTA-TAAATTTCTTTTTTTGATCACCCAG
* * *
47453564 CTATGAAAAGTTACAAAATTGTCACCCAACTATT-TAATTTTGTCTTTTTTTTATCACCCA
1 CTAT-AAAAGTTACAAAATGGTCACCCAACTATTATAA-ATT-TCTTTTTTTGATCACCCA
47453624 CCATCAAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
58 3 0.06
59 6 0.12
60 28 0.55
61 14 0.27
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (59 bp):
CTATAAAAGTTACAAAATGGTCACCCAACTATTATAAATTTCTTTTTTTGATCACCCAG
Found at i:47477314 original size:19 final size:19
Alignment explanation
Indices: 47477290--47477341 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
47477280 AATCTTCAAG
47477290 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAAATAT
**
47477309 GATATGCAATCTTTGATAT
1 GATATGCAATCTTAAATAT
47477328 GATATGCAATCTTA
1 GATATGCAATCTTA
47477342 GAAGATATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAAATAT
Found at i:47477379 original size:21 final size:23
Alignment explanation
Indices: 47477335--47477380 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
47477325 TATGATATGC
*
47477335 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
47477358 AATCTTAG-AGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
47477379 AA
1 AA
47477381 ATATCCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:47477614 original size:23 final size:23
Alignment explanation
Indices: 47477570--47477614 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
47477560 TCTTATTTTG
* *
47477570 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
47477593 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
47477615 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:47478076 original size:23 final size:22
Alignment explanation
Indices: 47478049--47478091 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
47478039 TAATTCACAC
*
47478049 ACATATATATTTTTCTTATATGT
1 ACATATATATATTT-TTATATGT
47478072 ACATATATATATTTTTATAT
1 ACATATATATATTTTTATAT
47478092 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
ACATATATATATTTTTATATGT
Found at i:47480834 original size:11 final size:11
Alignment explanation
Indices: 47480814--47480857 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
47480804 AGATAAATGT
*
47480814 TATTTAATTAA
1 TATTTTATTAA
47480825 TATTTTATTAA
1 TATTTTATTAA
* *
47480836 GATTTTTAGTAA
1 TA-TTTTATTAA
47480848 TATTTTATTA
1 TATTTTATTA
47480858 TTAAATGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:47484516 original size:37 final size:38
Alignment explanation
Indices: 47484436--47484545 Score: 125
Period size: 37 Copynumber: 2.9 Consensus size: 38
47484426 ATCAGTTTGA
* *
47484436 CACCCAGTGCCTCATCGGAT-AATTCGAAGTAGTAAATTGG
1 CACCCAGTGCCTCATCGAATAAATCCG-A--AGTAAATTGG
* * * *
47484476 CACCCAGTGTCTCATCGATTAAA-CTGAAGTAAGTTGG
1 CACCCAGTGCCTCATCGAATAAATCCGAAGTAAATTGG
47484513 CACCCAGTGCCTCATCGAATAAATCCGAAGTAA
1 CACCCAGTGCCTCATCGAATAAATCCGAAGTAA
47484546 TAAATTGAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
37 30 0.51
38 8 0.14
39 1 0.02
40 18 0.31
41 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGAATAAATCCGAAGTAAATTGG
Found at i:47487811 original size:39 final size:39
Alignment explanation
Indices: 47487768--47487847 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
47487758 ATTGTTGAAA
47487768 CTCTTGAAGAGATCAAAATATATTTTCCCAAAATTTCCC
1 CTCTTGAAGAGATCAAAATATATTTTCCCAAAATTTCCC
47487807 CTCTTGAAGAGATCAAAATATATTTTCCCAAAATTTCCC
1 CTCTTGAAGAGATCAAAATATATTTTCCCAAAATTTCCC
47487846 CT
1 CT
47487848 TACTCATGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (39 bp):
CTCTTGAAGAGATCAAAATATATTTTCCCAAAATTTCCC
Found at i:47493978 original size:17 final size:17
Alignment explanation
Indices: 47493951--47493990 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
47493941 TCTTCTCTCA
47493951 AATTTTTTTATTTT-AT
1 AATTTTTTTATTTTCAT
47493967 AATTTATTTTATTTTCAT
1 AATTT-TTTTATTTTCAT
47493985 AATTTT
1 AATTTT
47493991 AAAAATGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
AATTTTTTTATTTTCAT
Found at i:47497890 original size:6 final size:6
Alignment explanation
Indices: 47497881--47497946 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
47497871 ATAATGTTAG
* * * * * *
47497881 AGATGA AGATCA AGATCA AGATCA AGATGA AGGT-A GAGCTGG AGATGA
1 AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA -AGATGA AGATGA
47497929 AGATGA AGATGA AGATGA
1 AGATGA AGATGA AGATGA
47497947 TGAGCCTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
5 1 0.02
6 50 0.98
ACGTcount: A:0.45, C:0.06, G:0.32, T:0.17
Consensus pattern (6 bp):
AGATGA
Found at i:47497896 original size:12 final size:12
Alignment explanation
Indices: 47497855--47497946 Score: 64
Period size: 12 Copynumber: 7.7 Consensus size: 12
47497845 CACAGTAGAA
47497855 CAAGATGAAGAT
1 CAAGATGAAGAT
*
47497867 TAAGAT-AATG-T
1 CAAGATGAA-GAT
*
47497878 TAGAGATGAAGAT
1 CA-AGATGAAGAT
*
47497891 CAAGATCAAGAT
1 CAAGATGAAGAT
*
47497903 CAAGATGAAGGT
1 CAAGATGAAGAT
* *
47497915 -AGAGCTGGAGAT
1 CA-AGATGAAGAT
*
47497927 GAAGATGAAGAT
1 CAAGATGAAGAT
*
47497939 GAAGATGA
1 CAAGATGA
47497947 TGAGCCTGAA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
11 6 0.09
12 53 0.83
13 5 0.08
ACGTcount: A:0.46, C:0.05, G:0.29, T:0.20
Consensus pattern (12 bp):
CAAGATGAAGAT
Found at i:47497902 original size:36 final size:36
Alignment explanation
Indices: 47497855--47497946 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 36
47497845 CACAGTAGAA
* *
47497855 CAAGATGAAGATTAAGAT-AATGTTAGAGATGAAGAT
1 CAAGATGAAGATCAAGATGAA-GGTAGAGATGAAGAT
* * *
47497891 CAAGATCAAGATCAAGATGAAGGTAGAGCTGGAGAT
1 CAAGATGAAGATCAAGATGAAGGTAGAGATGAAGAT
* *
47497927 GAAGATGAAGATGAAGATGA
1 CAAGATGAAGATCAAGATGA
47497947 TGAGCCTGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 45 0.96
37 2 0.04
ACGTcount: A:0.46, C:0.05, G:0.29, T:0.20
Consensus pattern (36 bp):
CAAGATGAAGATCAAGATGAAGGTAGAGATGAAGAT
Found at i:47498342 original size:70 final size:70
Alignment explanation
Indices: 47498254--47498387 Score: 232
Period size: 70 Copynumber: 1.9 Consensus size: 70
47498244 ATTAAAAATA
*
47498254 ATTGTATTATATTTTTACATCAATAATCTATTTATTTACAATTTACCAAAAAAATGAATAAATTA
1 ATTGTATTATATTTTTACATCAATAATATATTTATTTACAATTTACCAAAAAAATGAATAAATTA
47498319 TTTGT
66 TTTGT
* * *
47498324 ATTGTATTGTATTTTTACATCAATAATATATTTATTTACAATTTTCCCAAAAAATGAATAAATT
1 ATTGTATTATATTTTTACATCAATAATATATTTATTTACAATTTACCAAAAAAATGAATAAATT
47498388 GTTTTTTTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (70 bp):
ATTGTATTATATTTTTACATCAATAATATATTTATTTACAATTTACCAAAAAAATGAATAAATTA
TTTGT
Found at i:47499965 original size:22 final size:21
Alignment explanation
Indices: 47499940--47499988 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
47499930 GATTTTTTTA
47499940 ATTTTTAAATATATATAAA-TAT
1 ATTTTT-AATAT-TATAAAGTAT
*
47499962 ATTTTT-TTATTATAAAGTAT
1 ATTTTTAATATTATAAAGTAT
47499982 ATTTTTA
1 ATTTTTA
47499989 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.25
20 12 0.50
22 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTTAATATTATAAAGTAT
Found at i:47499992 original size:25 final size:24
Alignment explanation
Indices: 47499959--47500027 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
47499949 TATATATAAA
47499959 TATATTTTTTTATTATAAAGTATATT
1 TATA-TTTTTTATTATAAAGTATA-T
* * *
47499985 TTTATTTTATT-TTATTAATTATAT
1 TATATTTT-TTATTATAAAGTATAT
*
47500009 TATATTTTTATATTTTAAA
1 TATATTTTT-TATTATAAA
47500028 TAAACAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
23 1 0.03
24 9 0.26
25 19 0.56
26 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (24 bp):
TATATTTTTTATTATAAAGTATAT
Found at i:47510373 original size:24 final size:25
Alignment explanation
Indices: 47510314--47510375 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 25
47510304 CATTGTAAAA
*
47510314 ATTTGCACTTTGGTGCTTATCGATATT
1 ATTTGCACTTCGGTGCTTATC-A-ATT
47510341 ATTTTGCACTTCGGTGCTTATC-ATT
1 A-TTTGCACTTCGGTGCTTATCAATT
47510366 ATTTGCACTT
1 ATTTGCACTT
47510376 TGTACTTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 9 0.27
25 4 0.12
27 1 0.03
28 19 0.58
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (25 bp):
ATTTGCACTTCGGTGCTTATCAATT
Found at i:47511937 original size:4 final size:4
Alignment explanation
Indices: 47511930--47511995 Score: 123
Period size: 4 Copynumber: 16.2 Consensus size: 4
47511920 GGATGGATGG
47511930 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT
47511979 ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT A
47511996 ACATTCCTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
4 57 0.93
5 4 0.07
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:47512684 original size:6 final size:7
Alignment explanation
Indices: 47512667--47512692 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
47512657 TTTAAATTCG
47512667 AAAAAGT
1 AAAAAGT
47512674 AAAAAGT
1 AAAAAGT
47512681 AAAAAGT
1 AAAAAGT
47512688 AAAAA
1 AAAAA
47512693 AATACAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAAGT
Found at i:47513010 original size:43 final size:43
Alignment explanation
Indices: 47512962--47513049 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
47512952 TATCAGCACG
* *** * *
47512962 ATCTTGCTTAAAGTGATAGTTCCTTTTATTGACGATTAAATTT
1 ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
47513005 ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
1 ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
47513048 AT
1 AT
47513050 TCTCCATGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (43 bp):
ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
Found at i:47514202 original size:11 final size:11
Alignment explanation
Indices: 47514186--47514211 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47514176 TTATGAATTT
47514186 TTTGTTAACTA
1 TTTGTTAACTA
47514197 TTTGTTAACTA
1 TTTGTTAACTA
47514208 TTTG
1 TTTG
47514212 GCGTGACCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (11 bp):
TTTGTTAACTA
Found at i:47515107 original size:14 final size:14
Alignment explanation
Indices: 47515088--47515114 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47515078 ACAAAACAAT
47515088 ATGACTAACTAAAC
1 ATGACTAACTAAAC
47515102 ATGACTAACTAAA
1 ATGACTAACTAAA
47515115 ATACGACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (14 bp):
ATGACTAACTAAAC
Found at i:47517342 original size:2 final size:2
Alignment explanation
Indices: 47517337--47517369 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
47517327 ATATATATAT
47517337 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
47517370 AAAGTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47517660 original size:22 final size:22
Alignment explanation
Indices: 47517626--47517687 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
47517616 GGCCCGGCCC
*
47517626 ATTTTTAATTAAAATTAAAATTA
1 ATTTTTAA-TAAAATTAAAACTA
*
47517649 TTTTTTAATAAAATTAAAACTA
1 ATTTTTAATAAAATTAAAACTA
* *
47517671 ATTGTTATTAAAATTAA
1 ATTTTTAATAAAATTAA
47517688 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTTTTAATAAAATTAAAACTA
Found at i:47517700 original size:16 final size:16
Alignment explanation
Indices: 47517663--47517702 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
47517653 TTAATAAAAT
* *
47517663 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
47517679 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
47517695 TAAAATTA
1 TAAAATTA
47517703 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:47517781 original size:59 final size:59
Alignment explanation
Indices: 47517713--47517852 Score: 271
Period size: 59 Copynumber: 2.4 Consensus size: 59
47517703 TCAAATTATT
*
47517713 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
47517772 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
47517831 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
47517853 ATTAATTGTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:47517846 original size:9 final size:9
Alignment explanation
Indices: 47517834--47517861 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
47517824 TTTATCAAAT
47517834 TATTAATTG
1 TATTAATTG
47517843 TATTAATTG
1 TATTAATTG
47517852 TATTAATTG
1 TATTAATTG
47517861 T
1 T
47517862 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:47522161 original size:20 final size:21
Alignment explanation
Indices: 47522111--47522162 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
47522101 TTTTAAAATT
*
47522111 AATAATATAA-A-ATATTTTTA
1 AATAATATAATACA-ATTTTAA
*
47522131 AATAATTTAATACAATTTTAA
1 AATAATATAATACAATTTTAA
47522152 AATAA-ATAATA
1 AATAATATAATA
47522163 TAAATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 14 0.52
21 12 0.44
22 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATATAATACAATTTTAA
Found at i:47527312 original size:23 final size:23
Alignment explanation
Indices: 47527285--47527383 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
47527275 AGTGTTATTG
47527285 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
47527308 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
47527331 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
47527354 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
47527377 ATCAGTG
1 ATCAGTG
47527384 TGGCACTTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:47534684 original size:23 final size:23
Alignment explanation
Indices: 47534653--47534751 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
47534643 AGTGTTATTG
47534653 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
47534676 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
47534699 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
47534722 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
47534745 ATCAGTG
1 ATCAGTG
47534752 TGGCACTTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:47536222 original size:50 final size:50
Alignment explanation
Indices: 47536044--47536231 Score: 178
Period size: 50 Copynumber: 3.7 Consensus size: 50
47536034 AAAGTGATGG
* * * ** *
47536044 TCACGTGTGTAGTACTATGTGAAGGATACTACGTGTACCAGAATGAAAGG
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGAAAGTTAGA
* * * * * * *
47536094 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGAAAG-TTAGA
* ** * * **
47536145 TCACATATGTAGTACTATGTGCGGGCTACTACGTGAACCGGAAAGTTTTA
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGAAAGTTAGA
*
47536195 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTA
47536232 TCGAATGATA
Statistics
Matches: 109, Mismatches: 28, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
50 71 0.65
51 38 0.35
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGAAAGTTAGA
Found at i:47538452 original size:15 final size:14
Alignment explanation
Indices: 47538431--47538466 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
47538421 ATAATCCTTA
*
47538431 ATAATTATCTTAAT
1 ATAATTATCCTAAT
47538445 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
47538460 ATAATTA
1 ATAATTA
47538467 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:47541925 original size:16 final size:17
Alignment explanation
Indices: 47541904--47541935 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47541894 AAATATGCAA
47541904 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
47541920 TCACATAACTTCATAT
1 TCACATAACTTCATAT
47541936 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:47546989 original size:15 final size:15
Alignment explanation
Indices: 47546969--47547000 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47546959 CATTTCACTA
*
47546969 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
47546984 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
47546999 TT
1 TT
47547001 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:47548635 original size:37 final size:36
Alignment explanation
Indices: 47548584--47548660 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
47548574 ATTTCAAGAA
*
47548584 TAATATCATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATCATCTTAATAGTATT-ATATT-AATTTAATAT
*
47548620 TAATACTCATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TCATCTTAATAGTATTATATTAATTTAATAT
47548657 TAAT
1 TAAT
47548661 GTGATTATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
36 13 0.36
37 21 0.58
38 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (36 bp):
TAATATCATCTTAATAGTATTATATTAATTTAATAT
Found at i:47548688 original size:18 final size:20
Alignment explanation
Indices: 47548649--47548689 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
47548639 ATTTTATTAA
47548649 TTTAATATTAATGTGATTATC
1 TTTAATATTAATGT-ATTATC
47548670 TTTAAT-TTAATGT-TTATC
1 TTTAATATTAATGTATTATC
47548688 TT
1 TT
47548690 ATAGATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTAATATTAATGTATTATC
Found at i:47550569 original size:3 final size:3
Alignment explanation
Indices: 47550561--47550595 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
47550551 ACCCTATAAA
*
47550561 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
47550596 AATCTAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47550596 original size:9 final size:9
Alignment explanation
Indices: 47550558--47550597 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
47550548 AAAACCCTAT
47550558 AAAAAGAAG
1 AAAAAGAAG
*
47550567 AAGAAGAAG
1 AAAAAGAAG
*
47550576 AAGAAGAAG
1 AAAAAGAAG
47550585 AAAAAGAAG
1 AAAAAGAAG
47550594 AAAA
1 AAAA
47550598 TCTAAGAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:47555212 original size:11 final size:11
Alignment explanation
Indices: 47555196--47555227 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
47555186 ACTTTCCACT
47555196 TGTTTCTTTTA
1 TGTTTCTTTTA
47555207 TGTTTCTTTTA
1 TGTTTCTTTTA
*
47555218 TATTTCTTTT
1 TGTTTCTTTT
47555228 CTAAACGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.75
Consensus pattern (11 bp):
TGTTTCTTTTA
Found at i:47569163 original size:16 final size:16
Alignment explanation
Indices: 47569142--47569173 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47569132 GTGGAGTGGA
47569142 ACTCCACAGTTTTGGC
1 ACTCCACAGTTTTGGC
47569158 ACTCCACAGTTTTGGC
1 ACTCCACAGTTTTGGC
47569174 GAAGTTCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (16 bp):
ACTCCACAGTTTTGGC
Found at i:47572854 original size:16 final size:17
Alignment explanation
Indices: 47572813--47572855 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
47572803 TATATGGTGG
47572813 CTTTTAATTTTTTTTAAT
1 CTTTTAATTTTTTTT-AT
47572831 -TTTTAATTTTTTTT-T
1 CTTTTAATTTTTTTTAT
*
47572846 CTTTCAATTT
1 CTTTTAATTT
47572856 GTGTTTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.04
16 8 0.35
17 14 0.61
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (17 bp):
CTTTTAATTTTTTTTAT
Found at i:47573234 original size:29 final size:29
Alignment explanation
Indices: 47573201--47573267 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
47573191 AACCAAAAAA
47573201 GGCCGTTTTTTTCAAAT-TTTACCGAAATG
1 GGCCGTTTTTTT-AAATATTTACCGAAATG
* * *
47573230 GGCCGGTTTTTTAATTATTTACCGGAATG
1 GGCCGTTTTTTTAAATATTTACCGAAATG
*
47573259 GGCCATTTT
1 GGCCGTTTT
47573268 CCGCGAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (29 bp):
GGCCGTTTTTTTAAATATTTACCGAAATG
Found at i:47574144 original size:40 final size:38
Alignment explanation
Indices: 47574071--47574188 Score: 98
Period size: 41 Copynumber: 2.9 Consensus size: 38
47574061 CTTGTTCATG
47574071 CCACGTTAGCAAATCGCGTCCTAGA-G-GGA-GCGATTTCCTT
1 CCACG-TAGCAAATCGCG--CT-GACGTGGACGCGATTTCC-T
47574111 CCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCT
1 CCACGT-AGCAAATCGCGCTGACGTGGACGCGATTTCCT
* * * *
47574150 GCGCGTACCCTGACATCGCGCTGACGTGGACGCGATTTC
1 CCACGTA-GC--AAATCGCGCTGACGTGGACGCGATTTC
47574189 GCGAAAAATA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
37 2 0.03
38 4 0.06
39 10 0.15
40 25 0.37
41 26 0.39
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.22
Consensus pattern (38 bp):
CCACGTAGCAAATCGCGCTGACGTGGACGCGATTTCCT
Found at i:47580891 original size:16 final size:16
Alignment explanation
Indices: 47580867--47580900 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47580857 TGGTTCGCTA
47580867 TATTAGATTAGAGGTG
1 TATTAGATTAGAGGTG
*
47580883 TATTGGATTAGAGGTG
1 TATTAGATTAGAGGTG
47580899 TA
1 TA
47580901 ATAGCAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (16 bp):
TATTAGATTAGAGGTG
Found at i:47581157 original size:18 final size:17
Alignment explanation
Indices: 47581136--47581170 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47581126 TTATTATTAA
*
47581136 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47581154 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47581171 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47581224 original size:157 final size:158
Alignment explanation
Indices: 47581030--47581336 Score: 528
Period size: 157 Copynumber: 1.9 Consensus size: 158
47581020 CCCTTAGCAT
*
47581030 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * * *
47581095 TAATAAATAATTT-AATCAT-ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATAT
66 CAATAAATAATTTAAAACATAATTT-AACATAATTATTATTAAATATAATTTAATAAAAATATAT
47581158 AATTTAATAAAATTCTTAATAATTTGCAG
130 AATTTAATAAAATTCTTAATAATTTGCAG
*
47581187 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
*
47581252 CAATAAATAATTTAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATA
66 CAATAAATAATTTAAAACATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATA
47581317 ATTTAATAAAATTCTTAATA
131 ATTTAATAAAATTCTTAATA
47581337 TTAAATATTC
Statistics
Matches: 141, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
157 75 0.53
158 62 0.44
159 4 0.03
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (158 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
CAATAAATAATTTAAAACATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATA
ATTTAATAAAATTCTTAATAATTTGCAG
Found at i:47581358 original size:38 final size:37
Alignment explanation
Indices: 47581309--47581620 Score: 127
Period size: 38 Copynumber: 8.4 Consensus size: 37
47581299 ATTTAATAAA
47581309 AATATATAATTTAATAAAATTCTTAATATTAAATATT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATT
** *
47581346 CTTATATGAATTTAATAAAATT-ATAATA-TATAATACTAT
1 AATATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-T
* * * * **
47581385 AAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAGA
1 AATATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATT
47581429 AATATATAATTTAATAAAATTCTTAATATTAAATATT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATT
** * * *
47581466 CTTAAATGAATTTACTAAAA---TT-ATA--ACATA-T
1 AATATAT-AATTTAATAAAATTCTTAATATTAAATATT
* * *
47581497 AATACTATAA---AATATAATT-TAAAATAATT-ATTATT
1 AATA-TATAATTTAATAAAATTCT-TAAT-ATTAAATATT
47581532 AA-ATATAATTTAATAAAATTCTTAATATTAAATATT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATT
** * * *
47581568 CTTAAATGAATTTACTAAAA-TCATAATA-TATAATACTAT
1 AATATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-T
*
47581607 AAAATATAATTTAA
1 AATATATAATTTAA
47581621 AATAATTATT
Statistics
Matches: 199, Mismatches: 43, Indels: 65
0.65 0.14 0.21
Matches are distributed among these distances:
28 5 0.03
30 1 0.01
31 5 0.03
32 8 0.04
33 6 0.03
34 6 0.03
35 8 0.04
36 20 0.10
37 40 0.20
38 51 0.26
39 10 0.05
40 5 0.03
41 8 0.04
42 6 0.03
44 12 0.06
45 2 0.01
46 5 0.03
47 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (37 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATT
Found at i:47581369 original size:19 final size:18
Alignment explanation
Indices: 47581294--47581449 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 18
47581284 TTATTATTAA
*
47581294 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
47581312 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
47581330 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
47581349 ATATGAATTTAATAAAATT
1 ATAT-AATTTAATAAAATT
* *
47581368 ATA-ATATATAATACTATAA-A
1 ATATA-ATTTAATA--A-AATT
47581388 ATATAATTTAAAATAATTATTATT
1 ATATAATTT--AATAA--A--ATT
47581412 AAATATAATTTAATAGAAA-T
1 --ATATAATTTAATA-AAATT
47581432 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
47581450 CTTAATATTA
Statistics
Matches: 106, Mismatches: 13, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
17 8 0.08
18 41 0.39
19 16 0.15
20 12 0.11
21 9 0.08
22 4 0.04
23 2 0.02
24 4 0.04
25 1 0.01
26 9 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:47581389 original size:61 final size:61
Alignment explanation
Indices: 47581309--47581509 Score: 200
Period size: 61 Copynumber: 3.3 Consensus size: 61
47581299 ATTTAATAAA
*
47581309 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATTAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATTAT
* * * * ** *
47581370 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAA-TAGA
1 AATATATAAT-CTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTAATAAAATTA-T
* * *
47581429 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATTAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATTAT
*
47581490 AACATATAATACT-ATAAAAT
1 AATATATAAT-CTAATAAAAT
47581510 ATAATTTAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
58 5 0.05
59 34 0.31
60 15 0.14
61 49 0.45
62 6 0.06
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (61 bp):
AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATTAT
Found at i:47581395 original size:120 final size:117
Alignment explanation
Indices: 47581264--47581790 Score: 658
Period size: 120 Copynumber: 4.5 Consensus size: 117
47581254 ATAAATAATT
*
47581264 TAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAA-ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
47581329 TCTTAATATTAAATATTCTTATATGAATTTAATAAAATTATAATATATAATACTA
65 TCTTAATATTAAATATTC-TATA-GAATTTAATAAAATTATAATATATAATACTA
*
47581384 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAGAAATATATAATTTAATAAAAT
1 TAAAATATAATTT-AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
* * *
47581449 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATTATAACATATAATACTA
65 TCTTAATATTAAATATTC-TATA-GAATTTAATAAAATTATAATATATAATACTA
* * *
47581504 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATTCT-TAATATT-A-AATA
1 TAAAATATAATTT-AAATAATTATTATTAAATATAATTTAATAAAAATATATAAT-TTAATAAAA
* *
47581566 TTC------TT--A-A----AT-GAATTTACTAAAATCATAATATATAATACTA
64 TTCTTAATATTAAATATTCTATAGAATTTAATAAAATTATAATATATAATACTA
* *
47581606 TAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAA
1 TAAAATATAA-TTTAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAA
* * *
47581671 ATCCTTTAATATTAAATATTCT-TAGAATTTACTAAAATCATAATATATAATACTA
63 ATTC-TTAATATTAAATATTCTATAGAATTTAATAAAATTATAATATATAATACTA
* *
47581726 TAAAATATAATTTAAATTAATTATTTTTAAATATAATTTAATAAAAATATATAATTTAATCAAAT
1 TAAAATATAATTTAAA-TAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
47581791 CATTATATTC
Statistics
Matches: 361, Mismatches: 22, Indels: 50
0.83 0.05 0.12
Matches are distributed among these distances:
102 53 0.15
103 2 0.01
104 22 0.06
105 5 0.01
106 5 0.01
109 1 0.00
110 1 0.00
112 2 0.01
113 2 0.01
115 1 0.00
116 1 0.00
118 41 0.11
119 11 0.03
120 212 0.59
121 2 0.01
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (117 bp):
TAAAATATAATTTAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
CTTAATATTAAATATTCTATAGAATTTAATAAAATTATAATATATAATACTA
Done.