Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 227 of 318
Found at i:71492010 original size:48 final size:48
Alignment explanation
Indices: 71491956--71492339 Score: 642
Period size: 48 Copynumber: 8.0 Consensus size: 48
71491946 CCACACCTCC
* * * *
71491956 TACATATTTCACACTAGCCCTTCGGCTTTACGACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
71492004 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
71492054 TATATATTTCACATTAGCCATTCGGCTTTACTACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
71492102 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
71492150 TACATATTTCACATTAGCCATTCGGCTTTACTACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
71492198 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
71492246 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
71492294 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
71492340 TTATCTTGTG
Statistics
Matches: 320, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 275 0.86
50 45 0.14
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:71495177 original size:42 final size:42
Alignment explanation
Indices: 71495016--71495170 Score: 211
Period size: 42 Copynumber: 3.7 Consensus size: 42
71495006 TACCATACCA
* * *
71495016 ATGCCATATCTCAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
71495058 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
71495101 AAGCCATATCCCATATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
71495143 ATGCCATATCCCAGATATTGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
71495171 ATAGTCTTAG
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 62 0.63
43 36 0.37
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:71498569 original size:51 final size:51
Alignment explanation
Indices: 71498492--71498639 Score: 253
Period size: 51 Copynumber: 2.9 Consensus size: 51
71498482 CGGATACACG
*
71498492 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
71498543 GTGGCCTTCATATAGTACTACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
71498594 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
71498640 CTAAGGTTCA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 1 0.01
51 90 0.99
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:71498707 original size:24 final size:24
Alignment explanation
Indices: 71498675--71498774 Score: 128
Period size: 24 Copynumber: 4.0 Consensus size: 24
71498665 ACTTAGCACA
71498675 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* *
71498699 ATGCCATGGACTTCTTTCACTTAACAC
1 ATGCCATGGACTTATTTCACTT---AG
*
71498726 ATTGCCATGGACTTATTTCACTCAG
1 A-TGCCATGGACTTATTTCACTTAG
*
71498751 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
71498775 CACAATGTCG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
24 42 0.65
25 2 0.03
27 2 0.03
28 19 0.29
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:71498720 original size:52 final size:52
Alignment explanation
Indices: 71498663--71498781 Score: 193
Period size: 52 Copynumber: 2.3 Consensus size: 52
71498653 AGGAAATTTC
* *
71498663 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTCTT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTCAGATGCCATGGACTTATT
* * *
71498715 TCACTTAACACATTGCCATGGACTTATTTCACTCAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTCAGATGCCATGGACTTATT
71498767 TCACTTAGCACAATG
1 TCACTTAGCACAATG
71498782 TCGTATGCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTCAGATGCCATGGACTTATT
Found at i:71498744 original size:28 final size:26
Alignment explanation
Indices: 71498663--71498778 Score: 123
Period size: 24 Copynumber: 4.4 Consensus size: 26
71498653 AGGAAATTTC
71498663 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTA-CAC-ATGCCATGGACTTATT
* *
71498691 TCACTT--AGATGCCATGGACTTCTT
1 TCACTTACACATGCCATGGACTTATT
71498715 TCACTTAACACATTGCCATGGACTTATT
1 TCACTT-ACACA-TGCCATGGACTTATT
* *
71498743 TCAC-T-CAGATGCCATGGTCTTATT
1 TCACTTACACATGCCATGGACTTATT
71498767 TCACTTAGCACA
1 TCACTTA-CACA
71498779 ATGTCGTATG
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
24 39 0.53
25 5 0.07
27 6 0.08
28 24 0.32
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (26 bp):
TCACTTACACATGCCATGGACTTATT
Found at i:71502518 original size:30 final size:30
Alignment explanation
Indices: 71502477--71502545 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
71502467 CACACGGGTA
*
71502477 GACACATGGGCATGTGTCTAGACCGTGTGT
1 GACACACGGGCATGTGTCTAGACCGTGTGT
*
71502507 GACATACGGGCATGTGTCTAGACCGTGTGT
1 GACACACGGGCATGTGTCTAGACCGTGTGT
71502537 GACACACGG
1 GACACACGG
71502546 TCTACCCCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (30 bp):
GACACACGGGCATGTGTCTAGACCGTGTGT
Found at i:71502890 original size:20 final size:20
Alignment explanation
Indices: 71502865--71502912 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
71502855 TATGGGACAC
71502865 GGGCGTGTCCCAAAGCACAT
1 GGGCGTGTCCCAAAGCACAT
71502885 GGGCGTGTCCCAAAGCACAT
1 GGGCGTGTCCCAAAGCACAT
71502905 GGGCGTGT
1 GGGCGTGT
71502913 TCATTACCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (20 bp):
GGGCGTGTCCCAAAGCACAT
Found at i:71503263 original size:2 final size:2
Alignment explanation
Indices: 71503256--71503282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71503246 CATGTCATAC
71503256 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
71503283 AGTAATGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71513055 original size:37 final size:37
Alignment explanation
Indices: 71513002--71513123 Score: 199
Period size: 37 Copynumber: 3.3 Consensus size: 37
71512992 TATAAAAGAA
* *
71513002 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCAAACGTAGTCATCGG
*
71513039 GTCTTACCCGGTCATAATCTCCAAACGTAGTCATAGG
1 GTCTTACCCGGTCATAATCTCCAAACGTAGTCATCGG
*
71513076 GTCTTACCCGGTCATAATCTCCATACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCAAACGTAGTCATCGG
*
71513113 GTCTCACCCGG
1 GTCTTACCCGG
71513124 AACATATTCC
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 79 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCAAACGTAGTCATCGG
Found at i:71513285 original size:49 final size:49
Alignment explanation
Indices: 71513225--71513439 Score: 412
Period size: 49 Copynumber: 4.4 Consensus size: 49
71513215 TCTTGCATTA
71513225 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
71513274 GCCATTGGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
71513323 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
71513372 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
71513421 GCCATTAGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
71513440 CATATATGTA
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 162 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:71518355 original size:46 final size:46
Alignment explanation
Indices: 71518305--71518477 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
71518295 TGGTTGAGCA
71518305 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* ** * * * *
71518351 TCCGAACTCATTGAGTTGAGTTTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
71518396 CATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71518444 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71518478 GGGGCGGGTT
Statistics
Matches: 98, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 56 0.57
47 25 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71518472 original size:93 final size:93
Alignment explanation
Indices: 71518302--71518472 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
71518292 GGATGGTTGA
* * *
71518302 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
***
71518367 TGAGTTTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
71518395 GCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
71518460 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
71518473 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:71521394 original size:40 final size:40
Alignment explanation
Indices: 71521286--71521520 Score: 250
Period size: 40 Copynumber: 6.2 Consensus size: 40
71521276 CGGGATTTAA
* * * * *
71521286 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
71521326 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71521366 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71521406 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71521446 CCGGATATATCAACT----C--A---CTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71521477 CCGGATATATCAACTCGCAC---T---TTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71521511 CCGGATATAT
1 CCGGATATAT
71521521 TTCCAATGTT
Statistics
Matches: 173, Mismatches: 15, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
31 29 0.17
34 24 0.14
35 1 0.01
36 1 0.01
39 1 0.01
40 117 0.68
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:71521470 original size:31 final size:32
Alignment explanation
Indices: 71521432--71521520 Score: 153
Period size: 31 Copynumber: 2.8 Consensus size: 32
71521422 GCACGAATGC
71521432 CTTCGGGTCTTAGCCCGGATATATCAACT-CA
1 CTTCGGGTCTTAGCCCGGATATATCAACTCCA
71521463 CTTCGGGTCTTAGCCCGGATATATCAACTCGCA
1 CTTCGGGTCTTAGCCCGGATATATCAACTC-CA
71521496 CTTTCGGGTCTTAGCCCGGATATAT
1 C-TTCGGGTCTTAGCCCGGATATAT
71521521 TTCCAATGTT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
31 29 0.53
33 3 0.05
34 23 0.42
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.30
Consensus pattern (32 bp):
CTTCGGGTCTTAGCCCGGATATATCAACTCCA
Found at i:71529555 original size:40 final size:40
Alignment explanation
Indices: 71529447--71529696 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
71529437 CGGGATTTAA
* * * * *
71529447 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
71529487 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71529527 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71529567 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71529607 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71529647 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71529687 CCGGATATAT
1 CCGGATATAT
71529697 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:71533252 original size:27 final size:27
Alignment explanation
Indices: 71533222--71533392 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
71533212 CCTAAAATAT
* **
71533222 GTAAAATAACCGTAATACCCCTGTAAA
1 GTAAAATGACCGTAATACCCCTGTAGG
*
71533249 GTAAAATGACCGTTATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
**
71533276 GTAAAATGACCGTAATGTCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
71533303 GTAAAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* ** * **
71533330 GTAAAATGGCTATAATGCCTTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
71533357 GTAAAAAGATCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATACCCCTGTAGG
71533384 GTAAAATGA
1 GTAAAATGA
71533393 TGATTATGCC
Statistics
Matches: 117, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:71537197 original size:27 final size:27
Alignment explanation
Indices: 71537168--71537366 Score: 215
Period size: 27 Copynumber: 7.4 Consensus size: 27
71537158 CCCCAAAATA
* * * *
71537168 GGTAAAATAATAGTATTACCCTTGTAA
1 GGTAAAATGATCGTAATACCCTTGTAG
* * * *
71537195 GGTAAAATGACCATTATACCCCTGTAG
1 GGTAAAATGATCGTAATACCCTTGTAG
**
71537222 GGTAAAATGATCGTAATGTCCTTGTAG
1 GGTAAAATGATCGTAATACCCTTGTAG
*
71537249 GGTAAAATGATCGTAATACCCCTGTA-
1 GGTAAAATGATCGTAATACCCTTGTAG
* *
71537275 GGTAAAATGATCGTAATACCCCTATAG
1 GGTAAAATGATCGTAATACCCTTGTAG
* *
71537302 GGTAAAATGA-CTATAATGCCCTTGTAG
1 GGTAAAATGATC-GTAATACCCTTGTAG
*
71537329 GGTAAAATGATCGTAATATCCCTT-TAT
1 GGTAAAATGATCGTAATA-CCCTTGTAG
71537356 GGTAAAATGAT
1 GGTAAAATGAT
71537367 GATTATGCCC
Statistics
Matches: 143, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.18
27 111 0.78
28 6 0.04
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (27 bp):
GGTAAAATGATCGTAATACCCTTGTAG
Found at i:71537227 original size:54 final size:54
Alignment explanation
Indices: 71537168--71537365 Score: 238
Period size: 54 Copynumber: 3.7 Consensus size: 54
71537158 CCCCAAAATA
* * * * *
71537168 GGTAAAATAATAGTATTACCCTTGTAAGGTAAAATGACCATTATACCCCTGTAG
1 GGTAAAATGATCGTAATACCCTTGTAGGGTAAAATGACCATAATACCCCTGTAG
** * *
71537222 GGTAAAATGATCGTAATGTCCTTGTAGGGTAAAATGATCGTAATACCCCTGTA-
1 GGTAAAATGATCGTAATACCCTTGTAGGGTAAAATGACCATAATACCCCTGTAG
* * * * *
71537275 GGTAAAATGATCGTAATACCCCTATAGGGTAAAATGACTATAATGCCCTTGTAG
1 GGTAAAATGATCGTAATACCCTTGTAGGGTAAAATGACCATAATACCCCTGTAG
*
71537329 GGTAAAATGATCGTAATATCCCTT-TATGGTAAAATGA
1 GGTAAAATGATCGTAATA-CCCTTGTAGGGTAAAATGA
71537366 TGATTATGCC
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
53 44 0.36
54 74 0.61
55 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (54 bp):
GGTAAAATGATCGTAATACCCTTGTAGGGTAAAATGACCATAATACCCCTGTAG
Found at i:71537393 original size:80 final size:80
Alignment explanation
Indices: 71537168--71537366 Score: 256
Period size: 80 Copynumber: 2.5 Consensus size: 80
71537158 CCCCAAAATA
* * * * * * * *
71537168 GGTAAAATAATAGTATTACCCTTGTAAGGTAAAATGACCATTATACCCCTGTAGGGTAAAATGA-
1 GGTAAAATGATCGTAATACCCCTGT-AGGTAAAATGATCGTAATACCCCTATAGGGTAAAATGAC
* *
71537232 TCGTAATGTCCTTGTAG
65 T-ATAATGCCCTTGTAG
71537249 GGTAAAATGATCGTAATACCCCTGTAGGTAAAATGATCGTAATACCCCTATAGGGTAAAATGACT
1 GGTAAAATGATCGTAATACCCCTGTAGGTAAAATGATCGTAATACCCCTATAGGGTAAAATGACT
71537314 ATAATGCCCTTGTAG
66 ATAATGCCCTTGTAG
* *
71537329 GGTAAAATGATCGTAATATCCCTTTATGGTAAAATGAT
1 GGTAAAATGATCGTAATACCCCTGTA-GGTAAAATGAT
71537367 GATTATGCCC
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 71 0.68
81 33 0.32
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (80 bp):
GGTAAAATGATCGTAATACCCCTGTAGGTAAAATGATCGTAATACCCCTATAGGGTAAAATGACT
ATAATGCCCTTGTAG
Found at i:71540890 original size:51 final size:51
Alignment explanation
Indices: 71540814--71541011 Score: 344
Period size: 51 Copynumber: 3.9 Consensus size: 51
71540804 GGATACACGA
*
71540814 TGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAG
*
71540865 TGGCCTTCATATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
*
71540916 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
*
71540967 TGGCCTTCACATAGTACCGCACTTGTGTCCAAAGCTATTTTATTC
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
71541012 CTAAGGTTCA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
50 1 0.01
51 139 0.99
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
Found at i:71541072 original size:28 final size:27
Alignment explanation
Indices: 71541035--71541130 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 27
71541025 GGGAAATTTC
*
71541035 TCACTTAGCATAATGCAATGGACTTATT
1 TCACTTAGCACAATGC-ATGGACTTATT
*
71541063 TCACTTAGCACATTGTCATGGACTTATT
1 TCACTTAGCACAATG-CATGGACTTATT
*
71541091 TCACTTAG----ATGCCATGGTCTTATT
1 TCACTTAGCACAATG-CATGGACTTATT
71541115 TCACTTAGCACAATGC
1 TCACTTAGCACAATGC
71541131 CGTATCCTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
24 21 0.36
27 1 0.02
28 35 0.60
29 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACAATGCATGGACTTATT
Found at i:71541112 original size:24 final size:25
Alignment explanation
Indices: 71541047--71541124 Score: 95
Period size: 24 Copynumber: 3.0 Consensus size: 25
71541037 ACTTAGCATA
*
71541047 ATGCAATGGACTTATTTCACTTAGCAC
1 ATGCCATGGACTTATTTCACTTAG--C
*
71541074 ATTGTCATGGACTTATTTCACTTAG-
1 A-TGCCATGGACTTATTTCACTTAGC
*
71541099 ATGCCATGGTCTTATTTCACTTAGC
1 ATGCCATGGACTTATTTCACTTAGC
71541124 A
1 A
71541125 CAATGCCGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 21 0.47
25 2 0.04
27 1 0.02
28 21 0.47
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (25 bp):
ATGCCATGGACTTATTTCACTTAGC
Found at i:71547776 original size:43 final size:43
Alignment explanation
Indices: 71547653--71547849 Score: 290
Period size: 43 Copynumber: 4.6 Consensus size: 43
71547643 CTGAACTCAT
* * * * *
71547653 TCACCGGTATTA-CGCCTTCTAGGCTCAAAGCCTGATATTAGC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
*
71547695 TCACCGGCATTA-CGCCTGCTAGGCTCGAAGCCTGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
* * *
71547737 TCACTGGCATTATAGCTTGCTAGGCTCGAAGCCTAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
71547780 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
*
71547823 TCACCGACATTATAGCCTGCTAGGCTC
1 TCACCGGCATTATAGCCTGCTAGGCTC
71547850 AAAGGCTCGA
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
42 49 0.35
43 93 0.65
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
Found at i:71551052 original size:2 final size:2
Alignment explanation
Indices: 71551045--71551069 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71551035 TGGATAAATC
71551045 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
71551070 CTCAAACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71553735 original size:14 final size:14
Alignment explanation
Indices: 71553716--71553769 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
71553706 CATAACTTAT
71553716 ATTATATACATATA
1 ATTATATACATATA
* *
71553730 ATTATATACATTTT
1 ATTATATACATATA
71553744 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
71553760 TATATATATA
1 -AT-TATATA
71553770 TATTGTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 16 0.50
15 3 0.09
16 6 0.19
17 5 0.16
18 2 0.06
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:71563678 original size:30 final size:29
Alignment explanation
Indices: 71563584--71563685 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
71563574 TATAGTGAAT
* * *
71563584 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
71563613 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
71563641 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
71563671 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71563686 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:71565574 original size:15 final size:15
Alignment explanation
Indices: 71565554--71565582 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
71565544 AATGCCAACA
71565554 AGTAAATGTGAATTC
1 AGTAAATGTGAATTC
71565569 AGTAAATGTGAATT
1 AGTAAATGTGAATT
71565583 TTGGTTGCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.34
Consensus pattern (15 bp):
AGTAAATGTGAATTC
Found at i:71568902 original size:30 final size:29
Alignment explanation
Indices: 71568866--71568926 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
71568856 AAACGGAAGT
71568866 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
71568896 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
71568925 TT
1 TT
71568927 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:71579381 original size:19 final size:21
Alignment explanation
Indices: 71579354--71579413 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
71579344 TAATCAAATT
*
71579354 TTAATTTTAA-TTTA-TATAA
1 TTAAATTTAATTTTATTATAA
71579373 TTAAATTTAATTTTATTATAA
1 TTAAATTTAATTTTATTATAA
**
71579394 TGTAAAAATAATTTT-TTATA
1 T-TAAATTTAATTTTATTATA
71579414 TTCACAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.26
20 4 0.11
21 11 0.31
22 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAAATTTAATTTTATTATAA
Found at i:71582759 original size:67 final size:69
Alignment explanation
Indices: 71582627--71582760 Score: 175
Period size: 67 Copynumber: 2.0 Consensus size: 69
71582617 TGATTAAACT
* * * *
71582627 TAATCACTTTAATATTAAATTAATATAATATTTATAAAGATAAATATTAGATTACATTTAATATT
1 TAATCACTTTAATATTAAATCAATATAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
71582692 AAGA
66 AAGA
* * *
71582696 TAATCACTTTAATATTCAATCAATA-AATA-CTAGT-AAGGTAAGTATTAAATTAAATTTAATAT
1 TAATCACTTTAATATTAAATCAATATAATATCTA-TAAAGATAAATATTAAATTAAATTTAATAT
71582758 TAA
65 TAA
71582761 ACTATTAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 29 0.51
68 5 0.09
69 23 0.40
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (69 bp):
TAATCACTTTAATATTAAATCAATATAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:71590279 original size:40 final size:40
Alignment explanation
Indices: 71590191--71590320 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
71590181 ATGCTGGAAA
* * *
71590191 TTATATCCGGGTTAAGACCCGAAGGTAATT-GTGCTAG-CGG
1 TTATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTC-G
* *
71590231 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
* * *
71590271 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
71590311 TTATATCCGG
1 TTATATCCGG
71590321 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.95
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
Found at i:71593257 original size:19 final size:19
Alignment explanation
Indices: 71593218--71593258 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
71593208 AGACAAGAAC
* *
71593218 AATCAAAAGAAAATGTCAA
1 AATCAAAAGAAAATATAAA
71593237 AATCAAAAGAAAATATAAA
1 AATCAAAAGAAAATATAAA
71593256 AAT
1 AAT
71593259 TTGCTGCTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.17
Consensus pattern (19 bp):
AATCAAAAGAAAATATAAA
Found at i:71599627 original size:25 final size:25
Alignment explanation
Indices: 71599549--71599628 Score: 90
Period size: 26 Copynumber: 3.2 Consensus size: 25
71599539 GAGCCATATT
*
71599549 GGGAAGCTCCGAAAAGCCATTAATC
1 GGGAAGCTCCGAAGAGCCATTAATC
* * *
71599574 AGGAAGCTCACAAAGAGCCTTTAATC
1 GGGAAGCTC-CGAAGAGCCATTAATC
*
71599600 GGGAAGCTCTGAAGAGCCATATAA-C
1 GGGAAGCTCCGAAGAGCCAT-TAATC
71599625 GGGA
1 GGGA
71599629 CACTCATAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
25 21 0.47
26 24 0.53
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.16
Consensus pattern (25 bp):
GGGAAGCTCCGAAGAGCCATTAATC
Found at i:71608534 original size:25 final size:25
Alignment explanation
Indices: 71608499--71608606 Score: 121
Period size: 25 Copynumber: 4.4 Consensus size: 25
71608489 CTCTCTCTTA
* *
71608499 AGCCATATAACGGGAAGCTCATGTG
1 AGCCATATAACAGGAAGCTCATCTG
* *
71608524 AGCCATGTAACAGGAAGCTTATCTG
1 AGCCATATAACAGGAAGCTCATCTG
* * * **
71608549 GGCTATATAACGGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATCTG
71608574 AGCCATA-AACAGGAAGCTCATCTG
1 AGCCATATAACAGGAAGCTCATCTG
71608598 AGCCA-ATAA
1 AGCCATATAA
71608607 TGGGTAGCCC
Statistics
Matches: 66, Mismatches: 16, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
23 1 0.02
24 21 0.32
25 44 0.67
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATCTG
Found at i:71608561 original size:50 final size:49
Alignment explanation
Indices: 71608503--71608597 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 49
71608493 CTCTTAAGCC
** * *
71608503 ATATAACGGGAAGCTCATGTGAGCCATGTAACAGGAAGCTTATCTGGGCT
1 ATATAACGGGAAGCTCATAAGAGCCAT-AAACAGGAAGCTCATCTGGGCT
71608553 ATATAACGGGAAGCTCATAAGAGCCATAAACAGGAAGCTCATCTG
1 ATATAACGGGAAGCTCATAAGAGCCATAAACAGGAAGCTCATCTG
71608598 AGCCAATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 16 0.39
50 25 0.61
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (49 bp):
ATATAACGGGAAGCTCATAAGAGCCATAAACAGGAAGCTCATCTGGGCT
Found at i:71611961 original size:25 final size:25
Alignment explanation
Indices: 71611932--71611986 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
71611922 CAATAGGGAT
71611932 GCTCGCAAGAACCATATAACGAGAA
1 GCTCGCAAGAACCATATAACGAGAA
* * *
71611957 GCTCGGAAGAACCATATAGCGGGAA
1 GCTCGCAAGAACCATATAACGAGAA
71611982 GCTCG
1 GCTCG
71611987 AGAGGCCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.27, T:0.13
Consensus pattern (25 bp):
GCTCGCAAGAACCATATAACGAGAA
Found at i:71614115 original size:41 final size:41
Alignment explanation
Indices: 71614070--71614164 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 41
71614060 GGCACATAGT
* * *
71614070 CTACTAGGCTCAAAGCCTGATATGACACACCAGCACGAAGC
1 CTACTAGGCACAAACCCTGATATAACACACCAGCACGAAGC
* * * *
71614111 CTACTATGCACAAACCCTGATATAATACACCTGTACGAAGC
1 CTACTAGGCACAAACCCTGATATAACACACCAGCACGAAGC
* *
71614152 CTGCTATGCACAA
1 CTACTAGGCACAA
71614165 TGTAACAGCC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.35, C:0.31, G:0.16, T:0.19
Consensus pattern (41 bp):
CTACTAGGCACAAACCCTGATATAACACACCAGCACGAAGC
Found at i:71617474 original size:45 final size:43
Alignment explanation
Indices: 71617353--71617565 Score: 176
Period size: 45 Copynumber: 4.7 Consensus size: 43
71617343 ATTCTCGACT
* * *
71617353 TGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTTG
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCGTTTTTTG
* * * *
71617396 TCATGTTTCCATAATGTCTTTCAACTATAGTCTTATTCGTTTGATTTG
1 TGATG---CCATAGTGTCTTTCAACTATGGTCTTACTCGTTT--TTTG
*** *
71617444 TGATGCCATAGTGTCTTTCAGA-TATGGTCTTACTCGATAGAATCG
1 TGATGCCATAGTGTCTTTCA-ACTATGGTCTTACTCG-T-TTTTTG
*** * *
71617489 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTTTTGGTA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCGTTTTT--TG
*
71617534 TGGTGCCATAGTGTCTTTCAACTATGGTCTTA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTA
71617566 ATCATTTCCT
Statistics
Matches: 132, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
43 5 0.04
44 1 0.01
45 86 0.65
46 32 0.24
48 8 0.06
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (43 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCGTTTTTTG
Found at i:71619709 original size:20 final size:18
Alignment explanation
Indices: 71619662--71619767 Score: 62
Period size: 19 Copynumber: 5.8 Consensus size: 18
71619652 CAATATAAAC
71619662 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
71619679 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
**
71619699 ATTAAATTAATAAAATAAT
1 ATTAAATTAAT-ATTTAAT
71619718 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
71619735 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
71619755 A-TAAAATAATATT
1 ATTAAATTAATATT
71619768 ATTTTTGGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
16 1 0.01
17 15 0.21
18 17 0.24
19 19 0.27
20 19 0.27
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:71621224 original size:2 final size:2
Alignment explanation
Indices: 71621217--71621244 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71621207 TTAGAAAACT
71621217 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71621245 AATTGAGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71625317 original size:25 final size:25
Alignment explanation
Indices: 71625289--71625370 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
71625279 GTTCTGACCC
71625289 ATAGCTCATAGAAGCATATCGATTT
1 ATAGCTCATAGAAGCATATCGATTT
71625314 ATAGCTCATATG-AGCATA-CAGATTT
1 ATAGCTCATA-GAAGCATATC-GATTT
* *
71625339 ATAGCTCGT-GAGAGCATATCGATCT
1 ATAGCTCATAGA-AGCATATCGATTT
71625364 ATAGCTC
1 ATAGCTC
71625371 GAGTGAGCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 46 0.92
26 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (25 bp):
ATAGCTCATAGAAGCATATCGATTT
Found at i:71625371 original size:25 final size:25
Alignment explanation
Indices: 71625301--71625394 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 25
71625291 AGCTCATAGA
*
71625301 AGCATATCGATTTATAGCTCAT-ATG
1 AGCATATCGATTTATAGCTCGTGA-G
71625326 AGCATA-CAGATTTATAGCTCGTGAG
1 AGCATATC-GATTTATAGCTCGTGAG
* * *
71625351 AGCATATCGATCTATAGCTCGAGTG
1 AGCATATCGATTTATAGCTCGTGAG
*
71625376 AGCATA-CTGATTCATAGCT
1 AGCATATC-GATTTATAGCT
71625395 TGTATGAGCA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
24 2 0.03
25 55 0.93
26 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (25 bp):
AGCATATCGATTTATAGCTCGTGAG
Found at i:71625402 original size:25 final size:25
Alignment explanation
Indices: 71625288--71625407 Score: 90
Period size: 25 Copynumber: 4.8 Consensus size: 25
71625278 CGTTCTGACC
*
71625288 CATAGCTCATA-GAAGCATA-TCGATT
1 CATAGCTCGTATG-AGCATACT-GATT
* * *
71625313 TATAGCTCATATGAGCATACAGATT
1 CATAGCTCGTATGAGCATACTGATT
*
71625338 TATAGCTCGTGA-GAGCATA-TCGA-T
1 CATAGCTCGT-ATGAGCATACT-GATT
71625362 CTATAGCTCG-AGTGAGCATACTGATT
1 C-ATAGCTCGTA-TGAGCATACTGATT
*
71625388 CATAGCTTGTATGAGCATAC
1 CATAGCTCGTATGAGCATAC
71625408 ATGTTTATGA
Statistics
Matches: 79, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
23 1 0.01
24 1 0.01
25 71 0.90
26 6 0.08
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (25 bp):
CATAGCTCGTATGAGCATACTGATT
Found at i:71625406 original size:50 final size:50
Alignment explanation
Indices: 71625288--71625394 Score: 137
Period size: 50 Copynumber: 2.1 Consensus size: 50
71625278 CGTTCTGACC
* *
71625288 CATAGCTCAT-AGAAGCATATCGATTTATAGCTCATATGAGCATACAGATT
1 CATAGCTCGTGAG-AGCATATCGATCTATAGCTCATATGAGCATACAGATT
* * *
71625338 TATAGCTCGTGAGAGCATATCGATCTATAGCTCGA-GTGAGCATACTGATT
1 CATAGCTCGTGAGAGCATATCGATCTATAGCTC-ATATGAGCATACAGATT
71625388 CATAGCT
1 CATAGCT
71625395 TGTATGAGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 46 0.94
51 3 0.06
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (50 bp):
CATAGCTCGTGAGAGCATATCGATCTATAGCTCATATGAGCATACAGATT
Found at i:71627313 original size:43 final size:43
Alignment explanation
Indices: 71627242--71627358 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
71627232 TCGATGTCAC
* * * ** *
71627242 TGTCCCAGACAGGGTCTTAAACAAAATCATAAAACGATGCAAA
1 TGTCCAAGACATGGTCTTACACGTAATCATAAAACAATGCAAA
* ** *
71627285 TGTCCAAGACATGGTCTTACACGTAATCACAATTCAATGCCAA
1 TGTCCAAGACATGGTCTTACACGTAATCATAAAACAATGCAAA
* *
71627328 TGTCCTAGACATGGTCTTACATGTAATCATA
1 TGTCCAAGACATGGTCTTACACGTAATCATA
71627359 TCTCGGTAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (43 bp):
TGTCCAAGACATGGTCTTACACGTAATCATAAAACAATGCAAA
Found at i:71632975 original size:40 final size:40
Alignment explanation
Indices: 71632888--71633099 Score: 194
Period size: 40 Copynumber: 5.3 Consensus size: 40
71632878 CCTTCGGAAT
* * *
71632888 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * * *
71632927 -GAAGCCCGGTTATAGTGACTCGCACAATTGCCTTTGGGTC
1 TTAA-CCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* ** *
71632967 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * *
71633007 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
* * * * * *
71633047 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCAGGAC
1 TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
*
71633087 TTAGCCCGGATAT
1 TTAACCCGGATAT
71633100 CATTCCAATG
Statistics
Matches: 141, Mismatches: 29, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
38 2 0.01
40 137 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTCGCACAAATGCCTTCGGGTC
Found at i:71633028 original size:80 final size:80
Alignment explanation
Indices: 71632888--71633099 Score: 230
Period size: 80 Copynumber: 2.7 Consensus size: 80
71632878 CCTTCGGAAT
* * * ** * ***
71632888 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
*
71632952 -AATTGCCTTTGGGTC
66 GAA-TGCCTTCGGGTC
* ** * *
71632967 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
71633032 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * * *
71633047 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCAGGACTTAGCCCGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
71633100 CATTCCAATG
Statistics
Matches: 108, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
79 4 0.04
80 102 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGTC
Found at i:71634632 original size:18 final size:19
Alignment explanation
Indices: 71634594--71634637 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
71634584 GCCTCTTTCA
**
71634594 AAATAAAAATAATGGACAT
1 AAATAAAAATAAAAGACAT
71634613 AAATAAAAATAAAAGA-AT
1 AAATAAAAATAAAAGACAT
*
71634631 AACTAAA
1 AAATAAA
71634638 TATTTAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (19 bp):
AAATAAAAATAAAAGACAT
Found at i:71635269 original size:40 final size:40
Alignment explanation
Indices: 71635224--71635391 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
71635214 CGGATTATAA
71635224 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
71635264 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
71635304 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
71635344 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
71635384 CCGGATAT
1 CCGGATAT
71635392 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:71643666 original size:28 final size:28
Alignment explanation
Indices: 71643597--71643697 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71643587 GACAAGATTG
* * * *
71643597 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71643627 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71643655 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71643684 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71643698 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71651610 original size:28 final size:28
Alignment explanation
Indices: 71651541--71651641 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71651531 GACAAGATTG
* * * *
71651541 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71651571 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71651599 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71651628 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71651642 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71663561 original size:2 final size:2
Alignment explanation
Indices: 71663554--71663583 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71663544 TTTGTTCTAG
71663554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71663584 CTTCGAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71666473 original size:47 final size:47
Alignment explanation
Indices: 71666420--71666580 Score: 304
Period size: 47 Copynumber: 3.4 Consensus size: 47
71666410 CTATTCTATA
71666420 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
71666467 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
*
71666514 CATGTTCATATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
*
71666561 CATGTTTACATTCATCACAT
1 CATGTTCACATTCATCACAT
71666581 AAAATCCTAA
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 111 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
Found at i:71672082 original size:2 final size:2
Alignment explanation
Indices: 71672075--71672102 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71672065 TTCGGGTATG
71672075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71672103 AGTATGCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71674113 original size:29 final size:29
Alignment explanation
Indices: 71674071--71674141 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
71674061 GACGAGATTA
71674071 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
71674100 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
71674129 GCACTAAGTGTGC
1 GCACTAAGTGTGC
71674142 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:71674157 original size:29 final size:29
Alignment explanation
Indices: 71674071--71674201 Score: 106
Period size: 29 Copynumber: 4.5 Consensus size: 29
71674061 GACGAGATTA
* **
71674071 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAACGTATG
* **
71674100 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAACGTATG
**
71674129 GCACTAAGTGTGCGAGCTCGAAGGGTATG
1 GCACTAAGTGTGCGAGCTCGAAACGTATG
* * * *
71674158 GCACTATGTGTGCGGGCT-TAAATCGCATG
1 GCACTAAGTGTGCGAGCTCGAAA-CGTATG
71674187 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
71674202 AATCGAGTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
28 2 0.02
29 85 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTCGAAACGTATG
Found at i:71674239 original size:2 final size:2
Alignment explanation
Indices: 71674234--71674260 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71674224 GTGCGTACTC
71674234 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
71674261 CTTGTAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71675721 original size:30 final size:30
Alignment explanation
Indices: 71675666--71675884 Score: 333
Period size: 29 Copynumber: 7.5 Consensus size: 30
71675656 ATAGTGAATC
71675666 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
71675695 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
71675725 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
71675754 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
71675784 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
71675813 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
71675841 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
71675871 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71675885 CAATCTTGTC
Statistics
Matches: 178, Mismatches: 5, Indels: 13
0.91 0.03 0.07
Matches are distributed among these distances:
27 2 0.01
28 22 0.12
29 77 0.43
30 76 0.43
31 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:71675758 original size:59 final size:59
Alignment explanation
Indices: 71675666--71675884 Score: 345
Period size: 59 Copynumber: 3.7 Consensus size: 59
71675656 ATAGTGAATC
71675666 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
71675725 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
71675784 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
71675841 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
71675885 CAATCTTGTC
Statistics
Matches: 152, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
56 2 0.01
57 20 0.13
58 21 0.14
59 109 0.72
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:71683558 original size:29 final size:29
Alignment explanation
Indices: 71683526--71683683 Score: 207
Period size: 29 Copynumber: 5.5 Consensus size: 29
71683516 ATAGTGAATC
71683526 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71683555 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
71683585 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
71683614 CGCACACTTAGTGCTATA-A---TCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
71683640 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
71683670 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71683684 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 4, Indels: 13
0.87 0.03 0.10
Matches are distributed among these distances:
25 2 0.02
26 20 0.17
28 2 0.02
29 47 0.40
30 46 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:71683581 original size:30 final size:30
Alignment explanation
Indices: 71683526--71683683 Score: 204
Period size: 30 Copynumber: 5.5 Consensus size: 30
71683516 ATAGTGAATC
71683526 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
71683555 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
71683585 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
71683614 CGCACACTTAGTGC--TATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
71683640 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
71683670 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71683684 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.02
26 17 0.15
27 3 0.03
28 5 0.04
29 43 0.37
30 46 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:71686457 original size:28 final size:28
Alignment explanation
Indices: 71686392--71686492 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71686382 ATAGTGAATC
*
71686392 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
71686421 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
71686449 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
71686479 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71686493 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71694409 original size:28 final size:28
Alignment explanation
Indices: 71694344--71694444 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71694334 ATAGTGAATC
*
71694344 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
71694373 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
71694401 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
71694431 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71694445 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71700301 original size:42 final size:43
Alignment explanation
Indices: 71700197--71700356 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
71700187 ATATGTGATA
* * * **
71700197 TCGTGTAAGATCATGTCTAGGACATTGGCATCGACTTTTGTTT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGACTTCTAATT
71700240 TACGTGTAAGACCATGTCTGGGACATTGGCATC-A-TATCTAATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGACT-TCTAATT
* * * * * *
71700283 TCGTGTAAGACCCTGTCTGGGATAGTGGCATAGA-TGTTTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGACT-TCTAATT
* * * *
71700326 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCATGTCTGGGACATTGGCAT
71700357 TGTATATGCT
Statistics
Matches: 95, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 28 0.29
43 38 0.40
44 29 0.31
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGACTTCTAATT
Found at i:71712445 original size:92 final size:91
Alignment explanation
Indices: 71712275--71712461 Score: 329
Period size: 92 Copynumber: 2.0 Consensus size: 91
71712265 TATGTTCTGA
71712275 GTGTAAGCCTTTCTTATACTATTGCTTTGCTGTGAAATACATTTAATGAATGTCGAGAAGTGGAT
1 GTGTAAGCCTTTCTTATACTATTGCTTTGCTGTGAAATACATTTAATGAATGTCGAGAAGTGGAT
*
71712340 TAAGAAGTTGATATAATAGGTAATGT
66 TAAGAAATTGATATAATAGGTAATGT
* *
71712366 GTGTAAGCCTTTCTTATACTGTTGCTTTGTTGTGAAATTACATTTAATGAATGTCGAGAAGTGGA
1 GTGTAAGCCTTTCTTATACTATTGCTTTGCTGTGAAA-TACATTTAATGAATGTCGAGAAGTGGA
*
71712431 TTGAGAAATTGATATAATAGGTAATGT
65 TTAAGAAATTGATATAATAGGTAATGT
71712458 GTGT
1 GTGT
71712462 GCATACTTGT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 35 0.38
92 56 0.62
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (91 bp):
GTGTAAGCCTTTCTTATACTATTGCTTTGCTGTGAAATACATTTAATGAATGTCGAGAAGTGGAT
TAAGAAATTGATATAATAGGTAATGT
Found at i:71717782 original size:13 final size:13
Alignment explanation
Indices: 71717764--71717788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71717754 AACAACGTCA
71717764 GACACGGCTGTGC
1 GACACGGCTGTGC
71717777 GACACGGCTGTG
1 GACACGGCTGTG
71717789 TGCACCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GACACGGCTGTGC
Found at i:71720159 original size:49 final size:49
Alignment explanation
Indices: 71720033--71720534 Score: 816
Period size: 49 Copynumber: 10.3 Consensus size: 49
71720023 CCCTTCGAGA
* * * * * * *
71720033 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGTCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71720080 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71720127 CTTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71720176 CTTATCACATATATATACACTTTCACATTCATCCCATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71720225 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71720274 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71720322 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71720371 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71720420 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71720469 CTTATTACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71720518 CTTATCACATATATATA
1 CTTATCACATATATATA
71720535 TCTCATACAT
Statistics
Matches: 425, Mismatches: 25, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 44 0.10
48 46 0.11
49 334 0.79
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71720357 original size:27 final size:27
Alignment explanation
Indices: 71720325--71720407 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
71720315 CATTAGCCTT
71720325 ATCACATATATACACACTTTCACATTC
1 ATCACATATATACACACTTTCACATTC
** *** *
71720352 ATCACAT-T-GGC-CA-TTAGGCCTT-
1 ATCACATATATACACACTTTCACATTC
*
71720374 ATCACATATATATACACTTTCACATTC
1 ATCACATATATACACACTTTCACATTC
71720401 ATCACAT
1 ATCACAT
71720408 CGGCCATTAG
Statistics
Matches: 38, Mismatches: 13, Indels: 10
0.62 0.21 0.16
Matches are distributed among these distances:
22 7 0.18
23 6 0.16
24 2 0.05
25 3 0.08
26 6 0.16
27 14 0.37
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (27 bp):
ATCACATATATACACACTTTCACATTC
Found at i:71720509 original size:244 final size:243
Alignment explanation
Indices: 71720033--71720534 Score: 839
Period size: 244 Copynumber: 2.1 Consensus size: 243
71720023 CCCTTCGAGA
* * * *
71720033 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGTCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTCCACATCCATCACATCGGCCACTCAGCCCTATCACATATATAC
*
71720096 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCTCATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCA
* *
71720161 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCCCATCGGCCATTAGGCC
131 CATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCC
71720226 TTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
196 TTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
71720274 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTCCACATCCATCACATCGGCCACTCAGCCCTATCACATATAT--
*
71720338 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCAT
71720403 CACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGG
129 CACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGG
* *
71720468 CCTTATTACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
194 CCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
71720518 CTTATCACATATATATA
1 CTTATCACATATATATA
71720535 TCTCATACAT
Statistics
Matches: 243, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
241 10 0.04
242 17 0.07
243 25 0.10
244 191 0.79
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (243 bp):
CTTATCACATATATATACACTTCCACATCCATCACATCGGCCACTCAGCCCTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCC
TTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71723590 original size:39 final size:40
Alignment explanation
Indices: 71723534--71723725 Score: 247
Period size: 39 Copynumber: 5.0 Consensus size: 40
71723524 TCGAATGATG
* * *
71723534 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACT-AA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
71723573 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
71723612 T-CGGACTAAGAT-CGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
71723650 TCCGGACTAAGATCCG-AGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
** * *
71723689 TCCGGGTTAAG-TCCGAAGGCATTTGTGCTAGCTACTA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
71723726 TAACCGGGCT
Statistics
Matches: 140, Mismatches: 7, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
37 23 0.16
38 18 0.13
39 89 0.64
40 10 0.07
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71723648 original size:76 final size:77
Alignment explanation
Indices: 71723534--71723725 Score: 248
Period size: 77 Copynumber: 2.5 Consensus size: 77
71723524 TCGAATGATG
* *
71723534 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-AAGTTACTAATCCGGACTAAGATCCG-AGGCATTT
71723598 GTGCGAGTTACT-AA
63 GTGCGAGTTACTAAA
*
71723612 T-CGGACTAAGAT-CGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAGGCATTTG
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCAAGTTACT-AATCCGGACTAAGATCCGAGGCATTTG
71723675 TGCGAGTTACTAAA
64 TGCGAGTTACTAAA
** * *
71723689 TCCGGGTTAAGTCCGAAGGCATTTGTGCTAGCTACTA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCAAGTTACTA
71723726 TAACCGGGCT
Statistics
Matches: 101, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
76 33 0.33
77 38 0.38
78 30 0.30
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (77 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCAAGTTACTAATCCGGACTAAGATCCGAGGCATTTGTG
CGAGTTACTAAA
Found at i:71724444 original size:168 final size:167
Alignment explanation
Indices: 71724166--71724499 Score: 659
Period size: 168 Copynumber: 2.0 Consensus size: 167
71724156 AAGTCGAAGT
71724166 CGCCCACACTATCAAAGCTCCTTTCAGTATATTTTTGGTTGGACTTTGAAATGGCATGTATAGGA
1 CGCCCACACTATCAAAGCTCCTTTCAGTATATTTTTGGTTGGACTTTGAAATGGCATGTATAGGA
71724231 CTACCCTTTTGTTGTAGGTCATGTACCTTTCGGTTTTGTGTAAATTTGGATAGCCATGCGAAAAT
66 CTACCCTTTTGTTGTAGGTCATGTACCTTTCGGTTTTGTGTAAATTTGGATAGCCATGCGAAAAT
71724296 GGCTTAAGTATAACTTTGGGCATGGTATTATAATCATG
131 GGCTTAAGTAT-ACTTTGGGCATGGTATTATAATCATG
71724334 CGCCCACACTATCAAAGCTCCTTTCAGTATATTTTTGGTTGGACTTTGAAATGGCATGTATAGGA
1 CGCCCACACTATCAAAGCTCCTTTCAGTATATTTTTGGTTGGACTTTGAAATGGCATGTATAGGA
71724399 CTACCCTTTTGTTGTAGGTCATGTACCTTTCGGTTTTGTGTAAATTTGGATAGCCATGCGAAAAT
66 CTACCCTTTTGTTGTAGGTCATGTACCTTTCGGTTTTGTGTAAATTTGGATAGCCATGCGAAAAT
71724464 GGCTTAAGTATACTTTGGGCATGGTATTATAATCAT
131 GGCTTAAGTATACTTTGGGCATGGTATTATAATCAT
71724500 TGTATGTTGT
Statistics
Matches: 166, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 25 0.15
168 141 0.85
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (167 bp):
CGCCCACACTATCAAAGCTCCTTTCAGTATATTTTTGGTTGGACTTTGAAATGGCATGTATAGGA
CTACCCTTTTGTTGTAGGTCATGTACCTTTCGGTTTTGTGTAAATTTGGATAGCCATGCGAAAAT
GGCTTAAGTATACTTTGGGCATGGTATTATAATCATG
Found at i:71725788 original size:43 final size:43
Alignment explanation
Indices: 71725737--71725823 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
71725727 CAGTAGTGTT
71725737 TTCAACGATTTGACAACATTGATGCTACTCTACAGCAGATTTG
1 TTCAACGATTTGACAACATTGATGCTACTCTACAGCAGATTTG
71725780 TTCAACGATTTGACAACATTGATGCTACTCTACAGCAGATTTG
1 TTCAACGATTTGACAACATTGATGCTACTCTACAGCAGATTTG
71725823 T
1 T
71725824 CGGCACCTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (43 bp):
TTCAACGATTTGACAACATTGATGCTACTCTACAGCAGATTTG
Found at i:71732597 original size:30 final size:30
Alignment explanation
Indices: 71732563--71732623 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
71732553 TCCTTAACTC
71732563 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
71732593 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
71732623 A
1 A
71732624 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:71737566 original size:40 final size:39
Alignment explanation
Indices: 71737401--71737584 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
71737391 AAATTGAATG
* * *
71737401 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
71737441 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
71737481 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
71737521 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
71737560 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
71737585 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:71737609 original size:80 final size:81
Alignment explanation
Indices: 71737441--71737629 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
71737431 GCTGGAAATT
* * * *
71737441 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
71737506 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
71737522 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
71737585 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
71737601 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
71737630 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:71746149 original size:28 final size:28
Alignment explanation
Indices: 71746086--71746184 Score: 110
Period size: 28 Copynumber: 3.4 Consensus size: 28
71746076 AGTGAATCCA
*
71746086 CACACTTAGTGCTATATGTATTC-AACTCG
1 CACACTTAGTGCTATA--TAATCAAACTCG
71746115 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
* * * *
71746143 CACACTTAGTGCTGTACAATTTTAAACCCG
1 CACACTTAGTGCTATATAA--TCAAACTCG
71746173 CACACTTAGTGC
1 CACACTTAGTGC
71746185 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.37
29 16 0.26
30 19 0.31
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:71747948 original size:19 final size:20
Alignment explanation
Indices: 71747924--71747961 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
71747914 TGGTACCACC
71747924 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
71747943 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
71747962 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:71748337 original size:46 final size:45
Alignment explanation
Indices: 71748183--71748354 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
71748173 TAACCCGCCC
* * *
71748183 TAAGTGAACTCGACTCAACTCAACGAGCTCGGGCGTTTCGCATCCA
1 TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTT-GCATCCA
* * *
71748229 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
71748277 TCA-CGAACTCGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTTGCATCCA
71748321 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGA
71748355 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 2 0.02
45 6 0.06
46 54 0.51
47 26 0.25
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:71748346 original size:92 final size:93
Alignment explanation
Indices: 71748188--71748357 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
71748178 CGCCCTAAGT
* *
71748188 GAACTCGACTCAACTCAACGAGCTCGGGCGTTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGACTCAACTCAACGAGCTCGGACATTTCGCATCCATAAATGAACTCGGACTCAACTCAA
71748253 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
71748281 GAACTCGACTCAACTCAACGAGTTCGGACATTT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGACTCAACTCAACGAGCTCGGACATTTCGCATCCATAAATGAACTCGGACTCAACTCAA
71748345 CGAGTTCGGATGC
66 CGAGTTCGGATGC
71748358 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 43 0.59
93 30 0.41
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:71748373 original size:46 final size:45
Alignment explanation
Indices: 71748233--71748373 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
71748223 CATCCATAAA
71748233 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
71748280 CGAACTC-GACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
71748325 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
71748371 TGA
1 TGA
71748374 CATGTCACTT
Statistics
Matches: 76, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
44 9 0.12
45 7 0.09
46 50 0.66
47 6 0.08
48 3 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:71755513 original size:19 final size:20
Alignment explanation
Indices: 71755489--71755526 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
71755479 GGTACCACCA
71755489 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
71755508 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
71755527 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:71755870 original size:47 final size:48
Alignment explanation
Indices: 71755751--71755925 Score: 170
Period size: 45 Copynumber: 3.8 Consensus size: 48
71755741 AACCCGCCCC
* * * *
71755751 TAAGTGAACTCGGACTCAACTCAACGAGCTC--A-GGC-GTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT-CA
**
71755797 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATC-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCA
* * *
71755845 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCA
*
71755889 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
71755926 TCAACCATCC
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 7 0.06
44 3 0.03
45 29 0.27
46 29 0.27
47 29 0.27
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (48 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCA
Found at i:71755915 original size:92 final size:93
Alignment explanation
Indices: 71755756--71755925 Score: 281
Period size: 92 Copynumber: 1.8 Consensus size: 93
71755746 GCCCCTAAGT
*
71755756 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
71755821 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
71755849 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCAT-CATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
71755912 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
71755926 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 40 0.56
93 32 0.44
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:71760262 original size:49 final size:47
Alignment explanation
Indices: 71760103--71760324 Score: 172
Period size: 49 Copynumber: 4.7 Consensus size: 47
71760093 TTATTTGTGT
** * *
71760103 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCTACA-AGATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGATCGATGA
* *
71760147 GTCAGTGTAAGACCATATCTGGGACATGGCATCTGCACGAATATG-T-GA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC---T-TGATCGATGA
* * * * *
71760197 GCTAATGTAAGACCATGTCTGAGACATGGCGTCGACCTTGGTTTCGAT-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTT-G-ATCGATGA
* *
71760246 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGATGA
*
71760293 GCCAGTGTAAGACCATGTCTGGGACATAGCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
71760325 TGGCATTATA
Statistics
Matches: 141, Mismatches: 20, Indels: 31
0.73 0.10 0.16
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 11 0.08
47 32 0.23
48 6 0.04
49 36 0.26
50 28 0.20
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGATGA
Found at i:71761454 original size:21 final size:20
Alignment explanation
Indices: 71761430--71761470 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
71761420 CATGTTCAAA
*
71761430 ATCCACAGGGGCGTGTTGCCT
1 ATCCACAAGGGCGTG-TGCCT
71761451 ATCCACAAGGGCGTGTGCCT
1 ATCCACAAGGGCGTGTGCCT
71761471 TGTTTCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.17, C:0.29, G:0.32, T:0.22
Consensus pattern (20 bp):
ATCCACAAGGGCGTGTGCCT
Found at i:71764493 original size:40 final size:40
Alignment explanation
Indices: 71764448--71764635 Score: 274
Period size: 40 Copynumber: 4.7 Consensus size: 40
71764438 GCTACTTGCT
*
71764448 CAAATGCCTTCGGGACTTAGCCCGGTTATTGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
71764488 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
71764528 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
71764568 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCA-CA
71764607 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
71764636 CATCCGAATA
Statistics
Matches: 135, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 100 0.74
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:71771530 original size:40 final size:40
Alignment explanation
Indices: 71771485--71771614 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
71771475 CGGAATACAA
71771485 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
71771525 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
71771565 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
71771605 CCGGATATAA
1 CCGGATATAA
71771615 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:71771629 original size:40 final size:40
Alignment explanation
Indices: 71771485--71771652 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
71771475 CGGAATACAA
* **
71771485 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
71771525 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
71771565 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
71771605 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
71771645 CCGGATAT
1 CCGGATAT
71771653 CATTCAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 102 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:71773653 original size:40 final size:39
Alignment explanation
Indices: 71773558--71773764 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
71773548 CGGAATACAA
* *
71773558 CCGGATATAACCACATGCACGAATGCCTTCGGGT-TTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTATTAGC
*
71773597 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTATTAGC
* * *
71773637 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTATTAGC
* * * * * *
71773677 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTATTAGC
* * * *
71773717 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTA-TTAGC
71773757 CCGGATAT
1 CCGGATAT
71773765 CATTCAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 29 0.21
40 110 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:71773707 original size:80 final size:81
Alignment explanation
Indices: 71773558--71773762 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
71773548 CGGAATACAA
* * *
71773558 CCGGATATAACCACATGCACGAATGCCTTCGGGT-TTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
71773621 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
71773637 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
71773700 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
71773717 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
71773763 ATCATTCAAT
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 31 0.29
80 72 0.67
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:71782855 original size:40 final size:40
Alignment explanation
Indices: 71782803--71782978 Score: 196
Period size: 40 Copynumber: 4.4 Consensus size: 40
71782793 TGATATCTGA
*
71782803 GCTAAG-TCCCGAAGGCTTTTATGCTAGTGACTATATCCGG
1 GCTAAGAT-CCGAAGGCATTTATGCTAGTGACTATATCCGG
* * *
71782843 ACTAAGATCCGAAGGCATTTGTGCGAGTTG-CTATATCCGG
1 GCTAAGATCCGAAGGCATTTATGCTAG-TGACTATATCCGG
* * * * *
71782883 GCTAAGAGCCAAAGGCATTTGTGCTAGCGATTATATCCGG
1 GCTAAGATCCGAAGGCATTTATGCTAGTGACTATATCCGG
* *
71782923 GCTAAG-TCCCGAAGGCATTTATGCTAGTGACCATATCTGG
1 GCTAAGAT-CCGAAGGCATTTATGCTAGTGACTATATCCGG
*
71782963 GCTAAGACCCGAAGGC
1 GCTAAGATCCGAAGGC
71782979 CTTGTGCGAG
Statistics
Matches: 113, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 109 0.96
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GCTAAGATCCGAAGGCATTTATGCTAGTGACTATATCCGG
Found at i:71782928 original size:80 final size:80
Alignment explanation
Indices: 71782803--71783014 Score: 227
Period size: 80 Copynumber: 2.7 Consensus size: 80
71782793 TGATATCTGA
* * * * * *
71782803 GCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
1 GCTAAGACCCAAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCATTTATGC
*
71782867 GAGTTG-CTATATCCGG
65 GAG-TGACCATATCCGG
* *
71782883 GCTAAGAGCCAAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGCATTTATGC
1 GCTAAGACCCAAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCATTTATGC
* *
71782947 TAGTGACCATATCTGG
65 GAGTGACCATATCCGG
* * * *
71782963 GCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 GCTAAGACCCAAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
71783015 ATACTTGGGT
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
78 14 0.13
79 20 0.18
80 77 0.69
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GCTAAGACCCAAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCATTTATGCG
AGTGACCATATCCGG
Found at i:71794663 original size:77 final size:76
Alignment explanation
Indices: 71794377--71795374 Score: 1063
Period size: 70 Copynumber: 13.5 Consensus size: 76
71794367 CAAGTGACAG
*
71794377 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
71794436 ATTTATGTTTC
66 ATTTATGTTTC
71794447 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
71794506 ATTTATGTTTC
66 ATTTATGTTTC
*
71794517 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
71794576 ATTTATGTTTC
66 ATTTATGTTTC
*
71794587 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA-TTTC
71794652 AATTTATGTTTC
65 AATTTATGTTTC
*
71794664 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
71794723 ATTTATGTTTC
66 ATTTATGTTTC
*
71794734 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
71794793 ATTTATGTTTC
66 ATTTATGTTTC
*
71794804 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA-TTTC
71794869 AATTTATGTTTC
65 AATTTATGTTTC
*
71794881 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
71794940 ATTTATGTTTC
66 ATTTATGTTTC
** * * *
71794951 AAAAATCAACTC--A-T-----AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA-----
*
71795008 TACTTTCCAATTTCTGTTCATC
60 -A-TTT-CAATTTATGTT--TC
* * *
71795030 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC-AGCTCACACGCTGAGGTATTTTCA
1 ---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCA
*
71795094 ATTTCTGTTTTTCAATTTCTGTTCGTC
60 A--------TTTCAATTTATGTT--TC
71795121 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC-
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
*
71795185 ---TGT-TTTC
66 ATTTATGTTTC
71795192 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
71795257 ----TGT-TTTC
65 AATTTATGTTTC
** *
71795264 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
71795329 ----TGT-TTTC
65 AATTTATGTTTC
*
71795336 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
1 --AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
71795375 GGTTCACATG
Statistics
Matches: 839, Mismatches: 33, Indels: 109
0.86 0.03 0.11
Matches are distributed among these distances:
63 26 0.03
68 1 0.00
69 2 0.00
70 336 0.40
71 21 0.03
72 137 0.16
73 32 0.04
74 6 0.01
75 3 0.00
76 7 0.01
77 140 0.17
78 4 0.00
79 2 0.00
81 12 0.01
83 1 0.00
84 1 0.00
85 1 0.00
86 18 0.02
88 37 0.04
89 17 0.02
91 32 0.04
92 3 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCA
ATTTATGTTTC
Found at i:71794745 original size:217 final size:218
Alignment explanation
Indices: 71794377--71795374 Score: 1295
Period size: 217 Copynumber: 4.5 Consensus size: 218
71794367 CAAGTGACAG
* *
71794377 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
71794435 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
71794500 ATTTCAATTTATGTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
131 ATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
71794564 GAGGTAATTTCAATTTATGTTTC
196 GAGGTAATTTCAATTTATGTTTC
71794587 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
71794652 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
71794717 ATTTCAATTTATGTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
131 ATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
71794781 GAGGTAATTTCAATTTATGTTTC
196 GAGGTAATTTCAATTTATGTTTC
71794804 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
71794869 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
* ** * *
71794934 ATTTCAATTTATGTTTCAAAAATCAACTC--A-T-----AGGTGAGTTGAGCCTCGGGGCACGCT
131 ATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
*
71794991 GAGGTATTTTCAGTCTCTACTTTCCAATTTCTGTTCATC
196 GAGG-----T-A------A-TTT-CAATTTATGTT--TC
* ** * *
71795030 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAA
1 ---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AAACACGTTGAGGTAATTTCAA
*
71795095 TTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
61 -------TTTTCAATTTATGTT--TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* *
71795160 GACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
117 GACACGTTGAGGTAATTTCAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAA
*
71795225 GCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
181 GCCTCAAGACACGTTGAGGTAATTTCAATTTATG-TTTC
** * *
71795264 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TTT
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTT
* *
71795328 C----TGT-TTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
65 CAATTTATGTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
71795375 GGTTCACATG
Statistics
Matches: 708, Mismatches: 29, Indels: 95
0.85 0.03 0.11
Matches are distributed among these distances:
210 74 0.10
215 5 0.01
216 4 0.01
217 340 0.48
218 13 0.02
222 5 0.01
223 3 0.00
224 10 0.01
226 2 0.00
229 37 0.05
230 19 0.03
231 22 0.03
232 31 0.04
234 2 0.00
235 9 0.01
236 5 0.01
237 1 0.00
238 14 0.02
240 66 0.09
241 16 0.02
243 2 0.00
244 2 0.00
249 26 0.04
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (218 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
GAGGTAATTTCAATTTATGTTTC
Found at i:71794750 original size:147 final size:140
Alignment explanation
Indices: 71794377--71794965 Score: 980
Period size: 147 Copynumber: 4.1 Consensus size: 140
71794367 CAAGTGACAG
*
71794377 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
71794442 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
71794507 TTTATGTTTC
131 TTTATGTTTC
*
71794517 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
71794582 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
71794647 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
71794664 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
71794729 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
71794794 TTTATGTTTC
131 TTTATGTTTC
*
71794804 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
*
71794869 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
71794934 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
71794951 AAAAATCAACTCATA
1 -AAAATCAACTCATA
71794966 GGTGAGTTGA
Statistics
Matches: 423, Mismatches: 11, Indels: 22
0.93 0.02 0.05
Matches are distributed among these distances:
140 183 0.43
141 2 0.00
142 1 0.00
145 2 0.00
146 4 0.01
147 217 0.51
148 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:71795019 original size:147 final size:142
Alignment explanation
Indices: 71794397--71795374 Score: 788
Period size: 147 Copynumber: 6.7 Consensus size: 142
71794387 CACATTGCGA
* *
71794397 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
71794455 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
71794520 ATCAACTCATATT
131 ATCAACTCA-ATT
* * *
71794533 GCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
*
71794591 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTCAATT
*
71794656 TATGTTTCAAAATCAACTCATATGGCGA
120 TATGTTTCAAAATCAACTCA-AT----T
* *
71794684 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
*
71794742 CTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
71794807 ATCAACTCATATT
131 ATCAACTCA-ATT
* *
71794820 GCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
*
71794885 TCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
71794950 CAAAAATCAACTC-A-T
127 C-AAAATCAACTCAATT
**** * *
71794965 -AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTCTACTTTCCAATTTCTGTTCAT
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCA------A-TTTCCAATTTATGTT--T
* *
71795029 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC-AGCTCACACGCTGAGGTATTTTC
57 C---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGG-----T-
*
71795093 AATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATT
110 AA--------TTTCAATTTATGTT--TCAAAATCAACTCA-ATT
* * *
71795137 GCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT-C----TGT-TTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTC-AAA
*
71795196 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT
61 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATG-T
71795261 TTCAAAATTCAACTCATATT
125 TTCAAAA-TCAACTCA-ATT
* * * * *
71795281 GCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT-C----TGT-TTTCAAAA
1 --GAG--GTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTC--AA
*
71795340 AATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
60 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
71795375 GGTTCACATG
Statistics
Matches: 736, Mismatches: 34, Indels: 131
0.82 0.04 0.15
Matches are distributed among these distances:
140 192 0.26
141 2 0.00
142 5 0.01
143 6 0.01
144 70 0.10
145 42 0.06
146 9 0.01
147 223 0.30
148 11 0.01
149 2 0.00
151 2 0.00
152 37 0.05
153 1 0.00
154 10 0.01
158 10 0.01
159 1 0.00
160 39 0.05
161 2 0.00
162 2 0.00
164 2 0.00
165 2 0.00
168 13 0.02
169 12 0.02
170 5 0.01
171 2 0.00
172 1 0.00
177 33 0.04
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (142 bp):
GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
ATCAACTCAATT
Found at i:71795107 original size:14 final size:14
Alignment explanation
Indices: 71795088--71795116 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
71795078 CGCTGAGGTA
71795088 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
71795102 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
71795116 T
1 T
71795117 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:71795123 original size:91 final size:86
Alignment explanation
Indices: 71794965--71795191 Score: 285
Period size: 91 Copynumber: 2.6 Consensus size: 86
71794955 ATCAACTCAT
** * * * **
71794965 AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTCTACTTTCCAATTTCTGTTCATC
1 AGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCATC
71795030 AAAAAAATCAACTCATATTGCGAG
66 ---AAAATCAACTCATATTGCGAG
* *
71795054 AGGTGAGTTGAGTCTC-AGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTC
1 AGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTC
*
71795118 GTCAAAATCAACTCATATTGCGAG
63 ATCAAAATCAACTCATATTGCGAG
* *
71795142 AGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
1 AGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTC
71795192 AAAAATCAAC
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
86 28 0.23
88 37 0.31
89 17 0.14
91 39 0.32
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (86 bp):
AGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCATC
AAAATCAACTCATATTGCGAG
Found at i:71795220 original size:72 final size:72
Alignment explanation
Indices: 71795103--71795452 Score: 472
Period size: 72 Copynumber: 4.7 Consensus size: 72
71795093 AATTTCTGTT
*
71795103 TTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
71795167 TGAGGTAA
65 TGAGGTAA
71795175 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
71795240 GAGGTAA
66 GAGGTAA
* **
71795247 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
71795312 GAGGTAT
66 GAGGTAA
* *
71795319 TTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
1 TTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACA
* *
71795383 TGCTGAGGT-A
62 CGTTGAGGTAA
*
71795393 TTCTCAATTTCTGTCTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGC
1 TT-TCAATTTCTGT-TTTC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
71795453 TTCAGATCAC
Statistics
Matches: 251, Mismatches: 15, Indels: 15
0.89 0.05 0.05
Matches are distributed among these distances:
71 2 0.01
72 154 0.61
73 34 0.14
74 2 0.01
75 21 0.08
76 4 0.02
81 34 0.14
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (72 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
GAGGTAA
Found at i:71795848 original size:44 final size:45
Alignment explanation
Indices: 71795765--71795863 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
71795755 TGAAGCTGTT
* *
71795765 AATCTTATAT-TTCTGAAGTCACAGTAAAGCAGATCGAAGCTACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* * ** *
71795809 AATCTTATATCCT-TGAAGTTACATTAAAGTGGATTGAAGCCACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* *
71795853 AAGCATATATC
1 AATCTTATATC
71795864 AGAAGATGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (45 bp):
AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
Found at i:71796214 original size:35 final size:35
Alignment explanation
Indices: 71796175--71796245 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
71796165 CACTTGCCTC
*
71796175 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
71796210 TTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
71796245 T
1 T
71796246 CACACACCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.25
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:71796663 original size:14 final size:14
Alignment explanation
Indices: 71796646--71796713 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
71796636 GGGGAAGCAA
71796646 AAAAAAAATCCAGC
1 AAAAAAAATCCAGC
*
71796660 -AAAAAATTCCAGCACC
1 AAAAAAAATCCAG---C
71796676 AAAAAAAATTTCCAG-
1 AAAAAAAA--TCCAGC
*
71796691 AAAAAAATTTCCAGC
1 AAAAAAA-ATCCAGC
71796706 AAAAAAAA
1 AAAAAAAA
71796714 AACCAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
13 11 0.26
14 5 0.12
15 14 0.33
16 1 0.02
17 6 0.14
19 5 0.12
ACGTcount: A:0.62, C:0.19, G:0.06, T:0.13
Consensus pattern (14 bp):
AAAAAAAATCCAGC
Found at i:71796690 original size:32 final size:32
Alignment explanation
Indices: 71796643--71796715 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
71796633 AGAGGGGAAG
*
71796643 CAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 CAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
**
71796674 CCAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -CAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
71796707 -AAAAAAAAA
1 CAAAAAAAAA
71796716 CCAAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 8 0.22
32 20 0.56
33 8 0.22
ACGTcount: A:0.63, C:0.19, G:0.05, T:0.12
Consensus pattern (32 bp):
CAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:71796998 original size:11 final size:11
Alignment explanation
Indices: 71796969--71797018 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
71796959 CGACCGGATT
* *
71796969 TCCCTTCCCCC
1 TCCCTTCTCTC
71796980 TCCCTTCTCTC
1 TCCCTTCTCTC
71796991 TCCCTTCTCTC
1 TCCCTTCTCTC
71797002 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
71797013 TTCCTT
1 TCCCTT
71797019 TTTTTCTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:71797606 original size:2 final size:2
Alignment explanation
Indices: 71797534--71797590 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
71797524 ATCATTTCTA
* * *
71797534 AT AT GT AT AT AT AT AT AT AT AT AT AT AT -T GT GT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
71797574 AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT
71797591 GCCATTAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
1 3 0.06
2 44 0.94
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:71797767 original size:2 final size:2
Alignment explanation
Indices: 71797750--71797784 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
71797740 GTGTATATTT
* *
71797750 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
71797785 TTTTTGCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:71804586 original size:28 final size:28
Alignment explanation
Indices: 71804554--71804652 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
71804544 GCCATAAGCC
*
71804554 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
71804582 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
71804610 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
71804639 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71804653 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:71806063 original size:40 final size:40
Alignment explanation
Indices: 71805965--71806068 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
71805955 CACAGCATTC
* * *
71805965 GTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTT
1 GTGCAAGTGGTTATATCCGGGCTAAGACCCGAAGGCAATT
**** * *
71806005 GTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT
1 GTGCAAGTGGTTATATCCGGGCTAAGACCCGAAGGCAATT
**
71806045 GTGCTTGTGGTTATATCC-GGCTAA
1 GTGCAAGTGGTTATATCCGGGCTAA
71806069 ATTCCGAAGA
Statistics
Matches: 49, Mismatches: 15, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
39 5 0.10
40 44 0.90
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GTGCAAGTGGTTATATCCGGGCTAAGACCCGAAGGCAATT
Found at i:71808802 original size:13 final size:13
Alignment explanation
Indices: 71808784--71808819 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
71808774 TCATTCATTT
*
71808784 TAAGGCTCACGGG
1 TAAGGCACACGGG
71808797 TAAGGCACACGGG
1 TAAGGCACACGGG
*
71808810 CAAGGCACAC
1 TAAGGCACAC
71808820 ATCCTGCGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.28, G:0.33, T:0.08
Consensus pattern (13 bp):
TAAGGCACACGGG
Found at i:71823036 original size:54 final size:53
Alignment explanation
Indices: 71822960--71823113 Score: 134
Period size: 54 Copynumber: 2.9 Consensus size: 53
71822950 TGGCACACTA
* * * * * *
71822960 CCGTGTGGCTCAAGTTAAAGAGTTACATGGTCAGGCACAAAGCCTGAAACAT-GC
1 CCGTGTGACTCCAGTCAGAGAGTTACACGGTCAGGCACAAAGCCT--AACATAAC
* * * **
71823014 CCGTGTGACTCCAGTCAGAGAGTTAAACGGTCTGGAACACGGCCTAACATACAC
1 CCGTGTGACTCCAGTCAGAGAGTTACACGGTCAGGCACAAAGCCTAACATA-AC
*
71823068 CCGTATGAC-CCAGGTCAGAGAGTTACACGGTCTA-GCACAAAGCCTA
1 CCGTGTGACTCCA-GTCAGAGAGTTACACGGTC-AGGCACAAAGCCTA
71823114 GCACATGTCT
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
52 5 0.06
53 3 0.04
54 71 0.90
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.19
Consensus pattern (53 bp):
CCGTGTGACTCCAGTCAGAGAGTTACACGGTCAGGCACAAAGCCTAACATAAC
Found at i:71830911 original size:21 final size:23
Alignment explanation
Indices: 71830862--71830906 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
71830852 GGTTGACTTT
71830862 GTTAAGAAGACTGAAGAGAAATTA
1 GTTAAGAAGACTGAAGAGAAA-TA
71830886 GTTAAGAAGACTGAAGAGAAA
1 GTTAAGAAGACTGAAGAGAAA
71830907 GTTAAAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.04, G:0.27, T:0.18
Consensus pattern (23 bp):
GTTAAGAAGACTGAAGAGAAATA
Found at i:71832946 original size:40 final size:40
Alignment explanation
Indices: 71832863--71833070 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
71832853 CGGGATTTAA
* * * * * *
71832863 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
71832903 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
71832943 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
71832983 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
71833023 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
71833063 CCGGATAT
1 CCGGATAT
71833071 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:71832983 original size:80 final size:80
Alignment explanation
Indices: 71832889--71833070 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
71832879 GCTCGATTGT
* * *** * * * **
71832889 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
71832954 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
71832969 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
71833034 TACTAGCATAATTGC
66 AACTAGCACAAATGC
71833049 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
71833071 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:71837527 original size:80 final size:80
Alignment explanation
Indices: 71837443--71837591 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
71837433 TATGGTAACC
* * * *
71837443 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
71837507 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
71837523 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
71837588 CCGG
66 CCGG
71837592 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:71837533 original size:40 final size:38
Alignment explanation
Indices: 71837484--71837591 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
71837474 ATCACGATTT
*
71837484 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
71837524 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
71837564 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
71837592 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:71845451 original size:40 final size:39
Alignment explanation
Indices: 71845402--71845586 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 39
71845392 AGCTACTCGT
* *
71845402 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
71845442 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
71845482 C-AATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
71845519 CAAATGCCTTC-GGATCTTAGTCCGGATATAGCTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAG-TAAC-TCGCA
71845561 C-AATAGCCTTCGGGACTTAGCCCGGA
1 CAAAT-GCCTTCGGGACTTAGCCCGGA
71845587 CATCATTCAA
Statistics
Matches: 128, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
37 16 0.12
38 19 0.15
39 23 0.18
40 39 0.30
41 7 0.05
42 21 0.16
43 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:71845529 original size:77 final size:78
Alignment explanation
Indices: 71845370--71845586 Score: 266
Period size: 79 Copynumber: 2.7 Consensus size: 78
71845360 GAATCACGTA
* *
71845370 CCTTCGGAGT-TTAACCGGATATAGCTACTCGTCA-AATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGA-TCTTAACCGGATATAGCTACTCG-CACAATGCCTTCGGGACTTAGCCCGGATATAG
71845433 TAACTCGCACAAATG
64 TAACTCGCACAAATG
*
71845448 CCTTCGGGA-CTTAACCCGGATTTAG-TAACTCGCACAATGCCTTCGGG-CTTAGCCCGGAT-TA
1 CCTTC-GGATCTTAA-CCGGATATAGCT-ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATA
71845509 GTAACTCGCACAAATG
63 GTAACTCGCACAAATG
* *
71845525 CCTTCGGATCTTAGTCCGGATATAGCTCACTTAGCACAATAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTA-ACCGGATATAGCT-AC-TCGCACAAT-GCCTTCGGGACTTAGCCCGGA
71845587 CATCATTCAA
Statistics
Matches: 121, Mismatches: 7, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
76 3 0.02
77 36 0.30
78 25 0.21
79 37 0.31
80 9 0.07
81 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CCTTCGGATCTTAACCGGATATAGCTACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTCGCACAAATG
Found at i:71845618 original size:20 final size:21
Alignment explanation
Indices: 71845593--71845631 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
71845583 CGGACATCAT
*
71845593 TCAATAACTCATG-CACATTA
1 TCAATAAATCATGACACATTA
71845613 TCAATAAATCATGACACAT
1 TCAATAAATCATGACACAT
71845632 CGTATTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (21 bp):
TCAATAAATCATGACACATTA
Done.