Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 281 of 290
Found at i:89910714 original size:92 final size:92
Alignment explanation
Indices: 89910419--89910714 Score: 314
Period size: 92 Copynumber: 3.2 Consensus size: 92
89910409 GAATTATGTA
* * *
89910419 TGAATGACATAGAAAAAATTGTTGAAATATCATTAAATAATTAGAAATAGACAATGGATGATGTG
1 TGAATGACATAAAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGACCATGGATGATGTG
* *
89910484 GTAGGAAAGGTTTATAAAATAATTTCTCGT
66 GT-GGAAAGATTCATAAAATAATTTCT--T
** * * * *
89910514 ATGAATGACATAGGAAAAATTGTTGAAATATCGTTAAATAATTAAAAAGGGATCATGGATGATGT
1 -TGAATGACATAAAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGACCATGGATGATGT
* *
89910579 GGT---AGGATTCATAAAATAATATCTCATA
65 GGTGGAAAGATTCATAAAATAAT-T-TC-TT
* * *
89910607 TGAATGACATGAAAAAAATTGTTGAAATGTCATTAAATAATTGGAAAGAGACCATGGATGATGTG
1 TGAATGACATAAAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGACCATGGATGATGTG
*
89910672 GTGGAAAAGATTCAAAAAATAATTT-TT
66 GTGG-AAAGATTCATAAAATAATTTCTT
*
89910699 TTAATAGA-ATAAAAAA
1 TGAAT-GACATAAAAAA
89910715 GTACATTATG
Statistics
Matches: 167, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
92 84 0.50
93 3 0.02
94 3 0.02
95 2 0.01
96 75 0.45
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (92 bp):
TGAATGACATAAAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGACCATGGATGATGTG
GTGGAAAGATTCATAAAATAATTTCTT
Found at i:89920476 original size:8 final size:8
Alignment explanation
Indices: 89920454--89920487 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
89920444 TGAAAAATGC
89920454 AAAAAAA-
1 AAAAAAAG
89920461 AAAAAAAG
1 AAAAAAAG
89920469 AAAAAAAG
1 AAAAAAAG
*
89920477 AAAGAAAG
1 AAAAAAAG
89920485 AAA
1 AAA
89920488 GCTTTGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:89923089 original size:16 final size:16
Alignment explanation
Indices: 89923070--89923100 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89923060 TTATTTTAAA
*
89923070 TTAATTAATTTTTCAT
1 TTAAATAATTTTTCAT
89923086 TTAAATAATTTTTCA
1 TTAAATAATTTTTCA
89923101 CAACTCAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAAATAATTTTTCAT
Found at i:89926379 original size:23 final size:23
Alignment explanation
Indices: 89926336--89926390 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
89926326 TAAATCTAAA
*
89926336 AAATAAAATAAAAGTACAAAAAG
1 AAATAAAATAAAAGCACAAAAAG
* **
89926359 AAATATAAATAAAA-CATAAAACT
1 AAATA-AAATAAAAGCACAAAAAG
89926382 AAATAAAAT
1 AAATAAAAT
89926391 CTAAATGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 15 0.56
24 8 0.30
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (23 bp):
AAATAAAATAAAAGCACAAAAAG
Found at i:89934683 original size:21 final size:21
Alignment explanation
Indices: 89934669--89934710 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
89934659 TAAATTTATA
89934669 ACAAAACAATATAAACAATAT
1 ACAAAACAATATAAACAATAT
89934690 ACAAAACAATATGGAAACAAT
1 ACAAAACAATAT--AAACAAT
89934711 TTGAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (21 bp):
ACAAAACAATATAAACAATAT
Found at i:89936889 original size:22 final size:23
Alignment explanation
Indices: 89936864--89936909 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
89936854 AAGGAGGGGG
*
89936864 ATCGCTGGTATTTTGAGGA-AGA
1 ATCGATGGTATTTTGAGGAGAGA
* *
89936886 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGAGAGA
89936909 A
1 A
89936910 GAAATTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.33
Consensus pattern (23 bp):
ATCGATGGTATTTTGAGGAGAGA
Found at i:89937566 original size:40 final size:40
Alignment explanation
Indices: 89937520--89937638 Score: 213
Period size: 40 Copynumber: 3.0 Consensus size: 40
89937510 AAAATAAAGT
89937520 ATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
1 ATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
89937560 ATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
1 ATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
* *
89937600 ATAGTTTTAATTAATAAT-AAAACAAAATAGCATGGGGGA
1 ATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
89937639 GTGGAATCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 20 0.26
40 57 0.74
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.29
Consensus pattern (40 bp):
ATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
Found at i:89938557 original size:16 final size:15
Alignment explanation
Indices: 89938513--89938560 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
89938503 TACTCTTCAC
89938513 TCACTATATATATTAT
1 TCACTATATATA-TAT
* *
89938529 TTACTTATCTATATAT
1 TCAC-TATATATATAT
89938545 TCACATATATATATAT
1 TCAC-TATATATATAT
89938561 ATATATAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (15 bp):
TCACTATATATATAT
Found at i:89942136 original size:15 final size:15
Alignment explanation
Indices: 89942116--89942146 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
89942106 TTTACTTTTC
89942116 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
89942131 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
89942146 A
1 A
89942147 AAATCTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:89950452 original size:205 final size:205
Alignment explanation
Indices: 89950078--89951471 Score: 2302
Period size: 205 Copynumber: 6.8 Consensus size: 205
89950068 GCAGCATAAA
* *
89950078 AGATCTGGCCTTCAGATG-TTAT-ACTGAAGCAGATCCAATATGGTTTGGCATCCTTGTGTTTAC
1 AGATCTCGCCTTCAGATGATT-TCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTAC
* **
89950141 GAGGATAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGAT
65 AAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGAT
89950206 GATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGC
130 GATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGC
89950271 AGACACATAGC
195 AGACACATAGC
*
89950282 AGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTATTTACA
1 AGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
89950347 AGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
66 AGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
*
89950412 ATTTATCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCA
131 ATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCA
*
89950477 AACACATAGC
196 GACACATAGC
89950487 AGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
1 AGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
* *
89950552 AGGAGCAAATTGAAGACATAGCTGATTTGGCTTTCACGTTATTACGATGAAGCAAATCTAAGATG
66 AGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
* *
89950617 ATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAATTTGGCATCTTCACTTTGATAGAGAGCA
131 ATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCA
89950682 GACACATAGC
196 GACACATAGC
*
89950692 AGATCTCGCCTTCAGATGATTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
1 AGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
*
89950757 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATCTAAGAT
66 AGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATCTAAGAT
* * *
89950821 GATTTGTCATCTCTGTATCGTCAGAAAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGC
130 GATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGC
89950886 AGACACATAGC
195 AGACACATAGC
*
89950897 AGATCTCGCTTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
1 AGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
* *
89950962 AGGAGCAAATTGAAGACATAGCTGATTTGGCTTTCACGTTATTACGATGAAGCAAATCTAAGATG
66 AGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
* *
89951027 ATTTGTCGTCTCTGTATTGTCAGAAAACGAATCGAAATTTGGCATCTTCACTTTGATGGAGAGCA
131 ATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCA
89951092 GACACATAGC
196 GACACATAGC
89951102 AGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCAT-CTTGTGTTTACA
1 AGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
*
89951166 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATCTAAGAT
66 AGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATCTAAGAT
* *
89951230 GATTTGTCGTCTCTGTATCGTCAGAAAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGC
130 GATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGC
89951295 AGACACATAGC
195 AGACACATAGC
* * * * *
89951306 AGATCTCACCTTCGGATG-TTT-ATGCTGAAGC-GAATCCAAGATGGTTTTGCATCCTTATGCTT
1 AGATCTCGCCTTCAGATGATTTCA--CTGAAGCAG-ATCCAAGATGGTTTGGCATCCTTGTGTTT
* * ** * *
89951368 ACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCCTACGTTAAAGCAAATCTAAG
63 ACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAG
* * * * *
89951432 ATGATTTGGCATCTCTGTATTATCAGGGAACAAATCGAAG
128 ATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAG
89951472 AAATAGATTT
Statistics
Matches: 1123, Mismatches: 57, Indels: 20
0.94 0.05 0.02
Matches are distributed among these distances:
202 1 0.00
203 5 0.00
204 278 0.25
205 838 0.75
206 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (205 bp):
AGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
AGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATG
ATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCA
GACACATAGC
Found at i:89951723 original size:44 final size:45
Alignment explanation
Indices: 89951655--89952005 Score: 257
Period size: 44 Copynumber: 8.0 Consensus size: 45
89951645 AGATTTCGCA
* * * * *
89951655 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAAGGAACAAGATCGAAGATAGCAGATT
*
89951699 TGGCATCCCTGTGCTTATAAGGAAC-AGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAAGGAACAAGATCGAAGATAGCAGATT
* * * * * **
89951743 TGACATTCTTGTGCTTA-CAGTAA-AGCAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAAGGAACA--AGATCGAAGATAGCAG-ATT
* * * * *
89951787 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAAACAGTAGATT
1 TGGCATCCCTGTGCTTATAAGGAACAAGATCG-AAGATAGCAGATT
*
89951832 TGGCATCCCTGTGCTTAT-AGGAA-ACAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAAGGAACA-AGATCGAAGATAGCAGATT
* * * **
89951876 TGACATTCCTGTGCTTA-CAGTGAAGC-AGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAAG-GAA-CAAGATCGAAGATAGCAG-ATT
* * *
89951920 TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAGATT
1 TGGCATCCCTGTGCTTATAAGGAACAAGATCGAAGATAGCAGATT
* *
89951964 TGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGA-AGCAGAT
1 TGGCATCCCTGTGCTTATAAGGAACAAGATCGAAGATAGCAGAT
89952006 CGAAGAACTC
Statistics
Matches: 241, Mismatches: 44, Indels: 45
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 30 0.12
44 152 0.63
45 55 0.23
46 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (45 bp):
TGGCATCCCTGTGCTTATAAGGAACAAGATCGAAGATAGCAGATT
Found at i:89951868 original size:133 final size:132
Alignment explanation
Indices: 89951568--89952006 Score: 715
Period size: 133 Copynumber: 3.3 Consensus size: 132
89951558 GATTTCAGCA
* * *
89951568 TGGCATCCCTGTGCTTATA-GAGAATAGATCGAAGATAGCAGATCTGACATTCCTGTACTTAGAG
1 TGGCATCCCTGTGCTTATAGGA-AACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
*
89951632 TGAAGCAGATCGAAGATTTC-GCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAG
65 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG
89951696 ATT
130 ATT
*
89951699 TGGCATCCCTGTGCTTATAAGG-AACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAG
1 TGGCATCCCTGTGCTTAT-AGGAAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
* *
89951763 TAAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGTA
65 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTG-AAAACAGCA
89951828 GATT
129 GATT
89951832 TGGCATCCCTGTGCTTATAGGAAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGAAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * *
89951897 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
89951962 TT
131 TT
* *
89951964 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGA-AGCAGATC
1 TGGCATCCCTGTGCTTATAGGAAACAGATCGAAGATAGCAGATC
89952007 GAAGAACTCA
Statistics
Matches: 288, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
131 83 0.29
132 81 0.28
133 124 0.43
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGAAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TT
Found at i:89951925 original size:88 final size:87
Alignment explanation
Indices: 89951538--89951998 Score: 368
Period size: 88 Copynumber: 5.2 Consensus size: 87
89951528 CCTTCCTGAG
*
89951538 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATA-GAGAATAGATCGAAG
1 TTACAGTGAA-CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGA-AACAGATCGAAG
* *
89951602 ATAGCAGATCTGACATTCCTGTAC
64 ATAGCAGATCTGACATCCCTGTGC
* * * *
89951626 TTAGAGTGAAGCAGATCGAAGATTTC-GCATGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAA
1 TTACAGTGAA-CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAGA-TCGAAG
* * * *
89951689 ACAACAGATTTGGCATCCCTGTGC
64 ATAGCAGATCTGACATCCCTGTGC
* ** * * * * *
89951713 TTATAAG-GAACAGATCGAAGATAGCAG-ATCTGACATTCTTGTGCTTACAGTAAAGCAGATCGA
1 TTA-CAGTGAACAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGAAA-CAGATCGA
** *
89951776 AGATTTCAG--CATGGCATCCCTGTGC
62 AGATAGCAGATC-TGACATCCCTGTGC
* * * ** *
89951801 TTATAGGGAACA-AGTTGAA-A-AACAGTAGATTTGGCATCCCTGTGCTTATAGGAAACAGATCG
1 TTACAGTGAACAGA-TCGAAGATTTCAG--CA--TGGCATCCCTGTGCTTATAGGAAACAGATCG
*
89951863 AAGATAGCAGATCTGACATTCCTGTGC
61 AAGATAGCAGATCTGACATCCCTGTGC
* * *
89951890 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAG
1 TTACAGTGAA-CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAGA-TCGAAG
* * *
89951954 ATAGCAGATTTGGCATCCCTGTGT
64 ATAGCAGATCTGACATCCCTGTGC
* *
89951978 TTATAGGGAACAGATCGAAGA
1 TTACAGTGAACAGATCGAAGA
89951999 AGCAGATCGA
Statistics
Matches: 298, Mismatches: 54, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
86 19 0.06
87 70 0.23
88 144 0.48
89 51 0.17
90 9 0.03
91 2 0.01
92 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (87 bp):
TTACAGTGAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAGATCGAAGAT
AGCAGATCTGACATCCCTGTGC
Found at i:89952006 original size:13 final size:13
Alignment explanation
Indices: 89951988--89952012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89951978 TTATAGGGAA
89951988 CAGATCGAAGAAG
1 CAGATCGAAGAAG
89952001 CAGATCGAAGAA
1 CAGATCGAAGAA
89952013 CTCAAAACTC
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:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (13 bp):
CAGATCGAAGAAG
Found at i:89952487 original size:22 final size:23
Alignment explanation
Indices: 89952462--89952507 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
89952452 AAGGAGGGGG
89952462 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATGGTATTTTGAGGAGAGA
* *
89952484 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGAGAGA
89952507 A
1 A
89952508 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (23 bp):
ATCGATGGTATTTTGAGGAGAGA
Found at i:89952513 original size:23 final size:22
Alignment explanation
Indices: 89952469--89952518 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
89952459 GGGATCGATG
**
89952469 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
89952491 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
89952514 GTATT
1 GTATT
89952519 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:89953140 original size:41 final size:40
Alignment explanation
Indices: 89953094--89953263 Score: 139
Period size: 40 Copynumber: 4.3 Consensus size: 40
89953084 TTTTTTTATG
* *
89953094 ATAAAAAAAAAAGAGAAAAT-AAAGTATGGTTTTAATTAATA
1 ATAAAAACAAAAGAG--AATGAAAGAATGGTTTTAATTAATA
* * **
89953135 ATAAAAACAAAATAGTATGGGAGAATGGTTTTAATTAATA
1 ATAAAAACAAAAGAGAATGAAAGAATGGTTTTAATTAATA
* * ** *
89953175 ATAAAAACAAAATAGTATGGGAGAATAGTTTTAATTAATA
1 ATAAAAACAAAAGAGAATGAAAGAATGGTTTTAATTAATA
* * * * * * *
89953215 AT-AAAACAAAATAGTACGGAGGAGTAGTTTTAATTAATA
1 ATAAAAACAAAAGAGAATGAAAGAATGGTTTTAATTAATA
89953254 AT-AAAACAAA
1 ATAAAAACAAA
89953264 GTAGCATGGG
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 45 0.38
40 59 0.50
41 13 0.11
ACGTcount: A:0.55, C:0.03, G:0.15, T:0.28
Consensus pattern (40 bp):
ATAAAAACAAAAGAGAATGAAAGAATGGTTTTAATTAATA
Found at i:89953181 original size:79 final size:79
Alignment explanation
Indices: 89953094--89953264 Score: 188
Period size: 79 Copynumber: 2.2 Consensus size: 79
89953084 TTTTTTTATG
* * *
89953094 ATAA-AAAAAAAAGAGAAAAT-AAAGTATGGTTTTAATTAATAATAAAAACAAAATAGTATGG-G
1 ATAATAAAAAAAAGAGAAAATGAAAGAATAGTTTTAATTAATAAT-AAAACAAAATAGTACGGAG
*
89953156 AGAATGGTTTTAATTA
65 -GAATAGTTTTAATTA
* ** **
89953172 ATAATAAAAACAAA-ATAGTATGGGAGAATAGTTTTAATTAATAATAAAACAAAATAGTACGGAG
1 ATAATAAAAA-AAAGAGAAAATGAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTACGGAG
*
89953236 GAGTAGTTTTAATTA
65 GAATAGTTTTAATTA
*
89953251 ATAATAAAACAAAG
1 ATAATAAAAAAAAG
89953265 TAGCATGGGG
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
78 7 0.09
79 47 0.61
80 23 0.30
ACGTcount: A:0.54, C:0.03, G:0.15, T:0.27
Consensus pattern (79 bp):
ATAATAAAAAAAAGAGAAAATGAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTACGGAGG
AATAGTTTTAATTA
Found at i:89953278 original size:39 final size:40
Alignment explanation
Indices: 89953122--89953273 Score: 229
Period size: 40 Copynumber: 3.9 Consensus size: 40
89953112 ATAAAGTATG
*
89953122 GTTTTAATTAATAATAAAAACAAAATAGTATGGGAGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGAGAATA
89953162 GTTTTAATTAATAATAAAAACAAAATAGTATGGGAGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGAGAATA
* *
89953202 GTTTTAATTAATAAT-AAAACAAAATAGTA-CGGAGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGA-GAATA
* *
89953241 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGG
89953274 GGAGTGGAAT
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
38 3 0.03
39 45 0.43
40 56 0.54
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGAGAATA
Found at i:89955740 original size:13 final size:14
Alignment explanation
Indices: 89955719--89955751 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
89955709 AGAACATAGT
89955719 TAAAATTAAT-ATA
1 TAAAATTAATCATA
*
89955732 TAAATTTAATCATA
1 TAAAATTAATCATA
89955746 TAAAAT
1 TAAAAT
89955752 ATTAATTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAAATTAATCATA
Found at i:89964632 original size:26 final size:26
Alignment explanation
Indices: 89964597--89964652 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
89964587 GTGGTTATTG
*
89964597 AACTCTTAAGGGAGTTGCCTACCTTGA
1 AACTCTTAAGCGAGTTGCCTACCTT-A
89964624 AACTC-TAAGCGAGTTGCCTACCTTA
1 AACTCTTAAGCGAGTTGCCTACCTTA
89964649 AACT
1 AACT
89964653 TACTGAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 5 0.18
26 18 0.64
27 5 0.18
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (26 bp):
AACTCTTAAGCGAGTTGCCTACCTTA
Found at i:89975925 original size:25 final size:25
Alignment explanation
Indices: 89975895--89975948 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
89975885 GTGGTTATTT
*
89975895 AACTCTTAG-GAGTTGCCTACCTTGA
1 AACTCTAAGCGAGTTGCCTACCTT-A
89975920 AACTCTAAGCGAGTTGCCTACCTTA
1 AACTCTAAGCGAGTTGCCTACCTTA
89975945 AACT
1 AACT
89975949 TACTGGAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (25 bp):
AACTCTAAGCGAGTTGCCTACCTTA
Found at i:89983680 original size:17 final size:17
Alignment explanation
Indices: 89983641--89983688 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
89983631 ATATGTTTAA
89983641 TAAAAATATAAAAATTAT
1 TAAAAAT-TAAAAATTAT
*
89983659 GAAAAATTAAAAATCT-T
1 TAAAAATTAAAAAT-TAT
*
89983676 TAAAATTTAAAAA
1 TAAAAATTAAAAA
89983689 CAAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
TAAAAATTAAAAATTAT
Found at i:89984605 original size:28 final size:28
Alignment explanation
Indices: 89984574--89984627 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
89984564 GTAACTATTC
89984574 ACGTATTAGGATTTGAACTTTTTTTTTT
1 ACGTATTAGGATTTGAACTTTTTTTTTT
* *
89984602 ACGTATTTGGGTTTGAACTTTTTTTT
1 ACGTATTAGGATTTGAACTTTTTTTT
89984628 CAAGTTAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.19, C:0.07, G:0.17, T:0.57
Consensus pattern (28 bp):
ACGTATTAGGATTTGAACTTTTTTTTTT
Found at i:89984969 original size:26 final size:25
Alignment explanation
Indices: 89984931--89984992 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
89984921 TTTTAATAAA
* *
89984931 TAAAAAATGTATAAAATTATTAAATAT
1 TAAAAAA--TATAAAATAAATAAATAT
* *
89984958 TAAAATAATATAATATAAATAAATTT
1 TAAAA-AATATAAAATAAATAAATAT
89984984 TAAAAAATA
1 TAAAAAATA
89984993 ATATGGGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 4 0.13
26 19 0.63
27 5 0.17
28 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
TAAAAAATATAAAATAAATAAATAT
Found at i:89987531 original size:20 final size:20
Alignment explanation
Indices: 89987503--89987548 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
89987493 TTTGATATTT
* *
89987503 GAAAAGAAAAAGGAAATGAA
1 GAAAGGAAAAAGGAAAGGAA
89987523 GAAAGGAAAAAGGAAAGGAA
1 GAAAGGAAAAAGGAAAGGAA
*
89987543 AAAAGG
1 GAAAGG
89987549 GACAGGGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (20 bp):
GAAAGGAAAAAGGAAAGGAA
Found at i:89989483 original size:19 final size:19
Alignment explanation
Indices: 89989434--89989475 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
89989424 TTTGTTCTCC
89989434 TTTGAAATTAAACATTCTT
1 TTTGAAATTAAACATTCTT
89989453 TTTGAAATTAAACATTCTT
1 TTTGAAATTAAACATTCTT
89989472 TTTG
1 TTTG
89989476 GGTCTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (19 bp):
TTTGAAATTAAACATTCTT
Found at i:89991901 original size:25 final size:25
Alignment explanation
Indices: 89991873--89991920 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
89991863 ATAAATGATA
89991873 AAATTTGTTAACT-AGATTTGATTCG
1 AAATTTGTTAACTCA-ATTTGATTCG
* *
89991898 AAATTTTTTGACTCAATTTGATT
1 AAATTTGTTAACTCAATTTGATT
89991921 TAAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (25 bp):
AAATTTGTTAACTCAATTTGATTCG
Found at i:89995197 original size:54 final size:54
Alignment explanation
Indices: 89995122--89995229 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
89995112 TGTTAAAATT
89995122 TTTTTGTTATGCTACGAAAATATTATCAGTGTTAGAGGAAATTCACGTAAAAAA
1 TTTTTGTTATGCTACGAAAATATTATCAGTGTTAGAGGAAATTCACGTAAAAAA
89995176 TTTTTGTTATGCTACGAAAATATTATCAGTGTTAGAGGAAATTCACGTAAAAAA
1 TTTTTGTTATGCTACGAAAATATTATCAGTGTTAGAGGAAATTCACGTAAAAAA
89995230 ATAGGTATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (54 bp):
TTTTTGTTATGCTACGAAAATATTATCAGTGTTAGAGGAAATTCACGTAAAAAA
Found at i:89995647 original size:32 final size:31
Alignment explanation
Indices: 89995572--89995650 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
89995562 AGCCCCCAAA
* *
89995572 AAATT-AAGTACCAACTTAAGAAAAAATGTC
1 AAATTCAAGTACCAAATTAAAAAAAAATGTC
* *
89995602 AAATTTAAATACCAAATTAAAAAAAAAGTGTC
1 AAATTCAAGTACCAAATTAAAAAAAAA-TGTC
* *
89995634 AAGTTCAGGTACCAAAT
1 AAATTCAAGTACCAAAT
89995651 GTTATATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 5 0.12
31 18 0.45
32 17 0.43
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.24
Consensus pattern (31 bp):
AAATTCAAGTACCAAATTAAAAAAAAATGTC
Found at i:89996404 original size:19 final size:19
Alignment explanation
Indices: 89996382--89996524 Score: 84
Period size: 19 Copynumber: 7.7 Consensus size: 19
89996372 TAAAATTAGA
89996382 AAAAAAATATAAAAATTGT
1 AAAAAAATATAAAAATTGT
89996401 --AAAAA-ATAAAAATTGT
1 AAAAAAATATAAAAATTGT
***
89996417 AAAATTTTATAAAAATTGT
1 AAAAAAATATAAAAATTGT
89996436 -AAAAAAT-TAAGAAATATGT
1 AAAAAAATATAA-AAAT-TGT
* * * *
89996455 AGAAATATAAAAAAATTAT
1 AAAAAAATATAAAAATTGT
*** *
89996474 AAAATTTTAT-AAAGTTGT
1 AAAAAAATATAAAAATTGT
*
89996492 AAGAAAACTATACAAAA-TGT
1 AA-AAAAATATA-AAAATTGT
*
89996512 AAAGAAATATAAA
1 AAAAAAATATAAA
89996525 TTCCATAATT
Statistics
Matches: 92, Mismatches: 22, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
16 11 0.12
17 8 0.09
18 20 0.22
19 34 0.37
20 14 0.15
21 5 0.05
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (19 bp):
AAAAAAATATAAAAATTGT
Found at i:89996411 original size:35 final size:35
Alignment explanation
Indices: 89996373--89996442 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
89996363 TCAAATATTT
89996373 AAAATTAGAAAAAAAATATAAAAATTGTAAAAAATA
1 AAAATT-GAAAAAAAATATAAAAATTGTAAAAAATA
* ***
89996409 AAAATTGTAAAATTTTATAAAAATTGTAAAAAAT
1 AAAATTGAAAAAAAATATAAAAATTGTAAAAAAT
89996443 TAAGAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 24 0.80
36 6 0.20
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (35 bp):
AAAATTGAAAAAAAATATAAAAATTGTAAAAAATA
Found at i:89996419 original size:9 final size:9
Alignment explanation
Indices: 89996391--89996440 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
89996381 AAAAAAAATA
89996391 TAAAAATTG
1 TAAAAATTG
*
89996400 TAAAAA--A
1 TAAAAATTG
89996407 TAAAAATTG
1 TAAAAATTG
* *
89996416 TAAAATTTTA
1 TAAAA-ATTG
89996426 TAAAAATTG
1 TAAAAATTG
89996435 TAAAAA
1 TAAAAA
89996441 ATTAAGAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
7 6 0.19
9 19 0.59
10 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (9 bp):
TAAAAATTG
Found at i:89996512 original size:57 final size:58
Alignment explanation
Indices: 89996408--89996524 Score: 150
Period size: 57 Copynumber: 2.0 Consensus size: 58
89996398 TGTAAAAAAT
* * *
89996408 AAAAATTGTAAAATTTTATAAAAATTGTAAAAAATTAAGAAATATGT-AGAAATATAA
1 AAAAATTATAAAATTTTATAAAAATTGTAAAAAACTAACAAATATGTAAGAAATATAA
*
89996465 AAAAATTATAAAATTTTAT-AAAGTTGTAAGAAAACTATACAAA-ATGTAAAGAAATATAA
1 AAAAATTATAAAATTTTATAAAAATTGTAA-AAAACTA-ACAAATATGT-AAGAAATATAA
89996524 A
1 A
89996525 TTCCATAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
56 9 0.17
57 28 0.54
58 4 0.08
59 11 0.21
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (58 bp):
AAAAATTATAAAATTTTATAAAAATTGTAAAAAACTAACAAATATGTAAGAAATATAA
Found at i:89996755 original size:37 final size:37
Alignment explanation
Indices: 89996679--89996763 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
89996669 CTAGGGGTTG
* * *
89996679 TTATTTTTTTATGATTTTTATAAAATTTTACAAAATT
1 TTATTTTTTTACGATGTTTATAAAAATTTACAAAATT
* *
89996716 TTATTTTTTTACGATGTTTATAAAAAATTT-CTAATTT
1 TTATTTTTTTACGATGTTTAT-AAAAATTTACAAAATT
*
89996753 TTATATTTTTA
1 TTATTTTTTTA
89996764 TTAAAATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 34 0.83
38 7 0.17
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (37 bp):
TTATTTTTTTACGATGTTTATAAAAATTTACAAAATT
Found at i:89996763 original size:28 final size:28
Alignment explanation
Indices: 89996732--89996793 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
89996722 TTTTACGATG
*
89996732 TTTATAAAAAATTTCTAA-TTTTTATATT
1 TTTATAAAAAATTTATAATTTTTTAT-TT
* *
89996760 TTTAT-TAAAATTTATTATTTTTTATTT
1 TTTATAAAAAATTTATAATTTTTTATTT
89996787 TTTATAA
1 TTTATAA
89996794 TTTTTAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTATAAAAAATTTATAATTTTTTATTT
Found at i:89996771 original size:20 final size:20
Alignment explanation
Indices: 89996748--89996785 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89996738 AAAAATTTCT
89996748 AATTT-TTATATTTTTATTAA
1 AATTTATTAT-TTTTTATTAA
89996768 AATTTATTATTTTTTATT
1 AATTTATTATTTTTTATT
89996786 TTTTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTATTATTTTTTATTAA
Found at i:89996901 original size:86 final size:87
Alignment explanation
Indices: 89996808--89997001 Score: 221
Period size: 87 Copynumber: 2.2 Consensus size: 87
89996798 TAATAAGAGC
*
89996808 AGGGGCTTAATTGCCTTTGTGAAAAATTTTAAGGGTCTTTTTT-ATACATTTTGAAAGTTCAAGT
1 AGGGGCTTAATTGCCTTTGTGAAAAAGTTTAAGGG-CTTTTTTGATACATTTTGAAAGTTCAAGT
*
89996872 ACCCAATTGAGTG-AAAAAAATT
65 ACCCAATTGAGTGAAAAAAAATG
* ** * * * * *
89996894 AGGGGCTTAAGTGTTTTTTTTGAAGAAGTTTGAGGGCTTTTTTGATGCATTTTGAAAGTTTAAGT
1 AGGGGCTTAATTG-CCTTTGTGAAAAAGTTTAAGGGCTTTTTTGATACATTTTGAAAGTTCAAGT
***
89996959 GTTCAATTGAGTGCAAAAAAAAATG
65 ACCCAATTGAGTG--AAAAAAAATG
89996984 AGGGGCTTAATTGCCTTT
1 AGGGGCTTAATTGCCTTT
89997002 TTTTTTAAGT
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
86 19 0.22
87 45 0.52
89 3 0.03
90 20 0.23
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (87 bp):
AGGGGCTTAATTGCCTTTGTGAAAAAGTTTAAGGGCTTTTTTGATACATTTTGAAAGTTCAAGTA
CCCAATTGAGTGAAAAAAAATG
Found at i:90001610 original size:13 final size:13
Alignment explanation
Indices: 90001573--90001614 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
90001563 GTTGAATCTA
*
90001573 TTTTTTTA-ATAT
1 TTTTTTTATAAAT
*
90001585 TTTTATTTTTAAAT
1 TTTT-TTTATAAAT
90001599 TTTTTTTATAAAT
1 TTTTTTTATAAAT
90001612 TTT
1 TTT
90001615 ATTATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 4 0.16
13 14 0.56
14 7 0.28
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTTATAAAT
Found at i:90001697 original size:16 final size:16
Alignment explanation
Indices: 90001676--90001707 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90001666 AAAAAATTAT
*
90001676 TAAAAATTTTAAAAAA
1 TAAAAATATTAAAAAA
90001692 TAAAAATATTAAAAAA
1 TAAAAATATTAAAAAA
90001708 GCCAATTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAATATTAAAAAA
Found at i:90008488 original size:10 final size:10
Alignment explanation
Indices: 90008475--90008506 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
90008465 CCCTTTTCAA
90008475 CTTTTTTTTT
1 CTTTTTTTTT
90008485 CTTTTTTTTTT
1 C-TTTTTTTTT
90008496 CTTTTTTTTT
1 CTTTTTTTTT
90008506 C
1 C
90008507 AGATTAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:90008490 original size:11 final size:11
Alignment explanation
Indices: 90008476--90008505 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
90008466 CCTTTTCAAC
90008476 TTTTTTTTTCT
1 TTTTTTTTTCT
90008487 TTTTTTTTTCT
1 TTTTTTTTTCT
90008498 TTTTTTTT
1 TTTTTTTT
90008506 CAGATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:90031441 original size:25 final size:24
Alignment explanation
Indices: 90031413--90031459 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
90031403 GAAAATAAAA
* *
90031413 TAAATTAGTTAATTTATATGATATT
1 TAAATAAGTTAATATA-ATGATATT
*
90031438 TAAATAATTTAATATAATGATA
1 TAAATAAGTTAATATAATGATA
90031460 CATAAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
TAAATAAGTTAATATAATGATATT
Found at i:90031552 original size:27 final size:27
Alignment explanation
Indices: 90031493--90031548 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
90031483 CAAGTAATTA
* *
90031493 ATATAAATTATTTATAAAATTAATAAT
1 ATATAAAATATTTATAAAATTAATAAC
* *
90031520 ATATAAAATATTTTTAAAATT-TTAAC
1 ATATAAAATATTTATAAAATTAATAAC
90031546 ATA
1 ATA
90031549 ATAATAAGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
ATATAAAATATTTATAAAATTAATAAC
Found at i:90031838 original size:35 final size:34
Alignment explanation
Indices: 90031798--90031876 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 34
90031788 AGGTTCACCC
*
90031798 ATATTATTTTTTAATTTTTTAAAAAAATTTATATT
1 ATATTATTTTTTAA-TATTTAAAAAAATTTATATT
*
90031833 ATATTA--TTTTAATATTTAATAAAATTTATATT
1 ATATTATTTTTTAATATTTAAAAAAATTTATATT
90031865 -T-TTATTTATTTA
1 ATATTATTT-TTTA
90031877 TTAAAAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 3 0.08
31 1 0.03
32 19 0.49
33 10 0.26
35 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
ATATTATTTTTTAATATTTAAAAAAATTTATATT
Found at i:90036737 original size:16 final size:16
Alignment explanation
Indices: 90036716--90036746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90036706 GTATCATGAA
*
90036716 TCAATTGAATATTAAT
1 TCAATTGAAAATTAAT
90036732 TCAATTGAAAATTAA
1 TCAATTGAAAATTAA
90036747 CTAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
TCAATTGAAAATTAAT
Found at i:90040477 original size:50 final size:50
Alignment explanation
Indices: 90040402--90040507 Score: 212
Period size: 50 Copynumber: 2.1 Consensus size: 50
90040392 ATATATTACT
90040402 TGTTCATTTTTCCCCAAGTCAACTTCTGATTTTAGCATCGGTGCCCATTG
1 TGTTCATTTTTCCCCAAGTCAACTTCTGATTTTAGCATCGGTGCCCATTG
90040452 TGTTCATTTTTCCCCAAGTCAACTTCTGATTTTAGCATCGGTGCCCATTG
1 TGTTCATTTTTCCCCAAGTCAACTTCTGATTTTAGCATCGGTGCCCATTG
90040502 TGTTCA
1 TGTTCA
90040508 GAAAGGACAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (50 bp):
TGTTCATTTTTCCCCAAGTCAACTTCTGATTTTAGCATCGGTGCCCATTG
Found at i:90050275 original size:13 final size:13
Alignment explanation
Indices: 90050257--90050282 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90050247 TCCTTCACTA
90050257 TATATATTGAAAC
1 TATATATTGAAAC
90050270 TATATATTGAAAC
1 TATATATTGAAAC
90050283 CCTTTTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TATATATTGAAAC
Found at i:90057384 original size:38 final size:38
Alignment explanation
Indices: 90057333--90057409 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
90057323 TTGGAAGGTA
*
90057333 TTGCTAACCTTTTATTAGGTGTGGCTCATTTGACACAT
1 TTGCTAACCTTTTATTAGGTGTGGCTCATTCGACACAT
90057371 TTGCTAACCTTTTATTAGGTGTGGCTCATTCGACACAT
1 TTGCTAACCTTTTATTAGGTGTGGCTCATTCGACACAT
90057409 T
1 T
90057410 CAAAGTCAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (38 bp):
TTGCTAACCTTTTATTAGGTGTGGCTCATTCGACACAT
Found at i:90059299 original size:21 final size:21
Alignment explanation
Indices: 90059268--90059316 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
90059258 AATTATGATT
90059268 TTAATATATTAAAATTTATAAA
1 TTAATATATTAAAATTTA-AAA
*
90059290 TTAA-ATATTAATATTTAAAA
1 TTAATATATTAAAATTTAAAA
90059310 TT-ATATA
1 TTAATATA
90059317 GAAACTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 1 0.04
20 8 0.32
21 12 0.48
22 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATATATTAAAATTTAAAA
Found at i:90059511 original size:60 final size:60
Alignment explanation
Indices: 90059438--90059558 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
90059428 TAGAACACTC
90059438 TTGACCTTTTTCCTTTTGTTACACAAATCTTAAGCAACGGAAGCTATAATTTTCCATTAA
1 TTGACCTTTTTCCTTTTGTTACACAAATCTTAAGCAACGGAAGCTATAATTTTCCATTAA
90059498 TTGACCTTTTTCCTTTTGTTACACAAATCTTAAGCAACGGAAGCTATAATTTTCCATTAA
1 TTGACCTTTTTCCTTTTGTTACACAAATCTTAAGCAACGGAAGCTATAATTTTCCATTAA
90059558 T
1 T
90059559 ATTGTATGTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (60 bp):
TTGACCTTTTTCCTTTTGTTACACAAATCTTAAGCAACGGAAGCTATAATTTTCCATTAA
Found at i:90060132 original size:26 final size:27
Alignment explanation
Indices: 90060086--90060137 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
90060076 AATTAATTTG
*
90060086 TAAAATATATAATTATAAATG-TTTAT
1 TAAAATATATAATTAGAAATGATTTAT
*
90060112 TAAAA-ATCTAATTAGACAATGATTTA
1 TAAAATATATAATTAGA-AATGATTTA
90060138 ATCACTCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 9 0.41
26 9 0.41
27 4 0.18
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (27 bp):
TAAAATATATAATTAGAAATGATTTAT
Found at i:90063374 original size:31 final size:31
Alignment explanation
Indices: 90063326--90063387 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
90063316 ATTAGACTCT
*
90063326 TTTTGGAAGGATCAATTTATTCAATATCAAA
1 TTTTAGAAGGATCAATTTATTCAATATCAAA
*
90063357 TTTTAGAAGGATTAATTTATTCAATATCAAA
1 TTTTAGAAGGATCAATTTATTCAATATCAAA
90063388 ATTAAGAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (31 bp):
TTTTAGAAGGATCAATTTATTCAATATCAAA
Found at i:90065206 original size:20 final size:20
Alignment explanation
Indices: 90065167--90065214 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
90065157 ATATTTTTAA
*
90065167 GAATTTTTAGAATATTTTTT
1 GAATTTTTAGAATATATTTT
*
90065187 GAAATTTTTATAA-ATATTTT
1 G-AATTTTTAGAATATATTTT
90065207 GAATTTTT
1 GAATTTTT
90065215 TTTGTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 8 0.32
21 10 0.40
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
GAATTTTTAGAATATATTTT
Found at i:90065216 original size:31 final size:31
Alignment explanation
Indices: 90065159--90065226 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
90065149 AGCTTTTTAT
90065159 ATTTTTAAGAATTTTTAGAATATTTTTTGAA
1 ATTTTTAAGAATTTTTAGAATATTTTTTGAA
* *
90065190 ATTTTTATA-AATATTTT-GAATTTTTTTTGTA
1 ATTTTTA-AGAAT-TTTTAGAATATTTTTTGAA
90065221 ATTTTT
1 ATTTTT
90065227 GTGGATAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 28 0.85
32 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (31 bp):
ATTTTTAAGAATTTTTAGAATATTTTTTGAA
Found at i:90073335 original size:19 final size:20
Alignment explanation
Indices: 90073313--90073357 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
90073303 AGATGATAAA
90073313 AGTA-GAAAATGTGAAAAGT
1 AGTATGAAAATGTGAAAAGT
**
90073332 AGTATGTTAATGTGAAAAGT
1 AGTATGAAAATGTGAAAAGT
*
90073352 GGTATG
1 AGTATG
90073358 TTTTTCTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (20 bp):
AGTATGAAAATGTGAAAAGT
Found at i:90073345 original size:20 final size:20
Alignment explanation
Indices: 90073320--90073359 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
90073310 AAAAGTAGAA
90073320 AATGTGAAAAGTAGTATGTT
1 AATGTGAAAAGTAGTATGTT
*
90073340 AATGTGAAAAGTGGTATGTT
1 AATGTGAAAAGTAGTATGTT
90073360 TTTCTTAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (20 bp):
AATGTGAAAAGTAGTATGTT
Found at i:90073711 original size:26 final size:26
Alignment explanation
Indices: 90073680--90073731 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
90073670 AAAAGAGTAT
*
90073680 AGGAACCTTGTACATATTTAAACCTA
1 AGGAACCTTGTACATATTGAAACCTA
90073706 AGGAACCTTGTACATATTGAAACCTA
1 AGGAACCTTGTACATATTGAAACCTA
90073732 CTTTCTTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (26 bp):
AGGAACCTTGTACATATTGAAACCTA
Found at i:90085727 original size:16 final size:16
Alignment explanation
Indices: 90085706--90085747 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
90085696 GCTTATTATT
90085706 TAAGAA-ATAATAATTA
1 TAAGAATATAATAA-TA
*
90085722 TAAGAATTTAATAATA
1 TAAGAATATAATAATA
*
90085738 TAATAATATA
1 TAAGAATATA
90085748 TATGTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (16 bp):
TAAGAATATAATAATA
Found at i:90088445 original size:12 final size:12
Alignment explanation
Indices: 90088428--90088457 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
90088418 TCTCTTTTAG
90088428 TTTTCTTTCCCT
1 TTTTCTTTCCCT
*
90088440 TTTTCTTTCTCT
1 TTTTCTTTCCCT
90088452 TTTTCT
1 TTTTCT
90088458 CCCCTGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTCTTTCCCT
Found at i:90088558 original size:16 final size:16
Alignment explanation
Indices: 90088537--90088567 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90088527 TTTATTATTT
90088537 TATTAACATAATATAA
1 TATTAACATAATATAA
*
90088553 TATTAATATAATATA
1 TATTAACATAATATA
90088568 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:90092729 original size:29 final size:29
Alignment explanation
Indices: 90092670--90092730 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
90092660 TCTTATCTTG
* *
90092670 AAACCCTAAACCATAAACTTTAAACCCTA
1 AAACCCTAAACCAAAAACTTTAAACCATA
* *
90092699 AAACCCTAGACTCAAAAACTTT-AATCATA
1 AAACCCTAAAC-CAAAAACTTTAAACCATA
90092728 AAA
1 AAA
90092731 TCTAACTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (29 bp):
AAACCCTAAACCAAAAACTTTAAACCATA
Found at i:90098251 original size:42 final size:42
Alignment explanation
Indices: 90098143--90098234 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
90098133 TTGCGTGTTT
* *
90098143 CTTTAAAAACATGAGCTTTTGTGAGCCTCACTCTGCATGCTC
1 CTTTAAAAGCATGAGCTTTTGTGAGCCTCACTCTGCACGCTC
* *
90098185 CTTTGAAAGCATGAGCTTTTGTGAGCCTCATTCTGCACGCTC
1 CTTTAAAAGCATGAGCTTTTGTGAGCCTCACTCTGCACGCTC
90098227 C-TTAAAAG
1 CTTTAAAAG
90098235 TATGGGTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 6 0.13
42 39 0.87
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (42 bp):
CTTTAAAAGCATGAGCTTTTGTGAGCCTCACTCTGCACGCTC
Found at i:90099857 original size:40 final size:40
Alignment explanation
Indices: 90099797--90099876 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
90099787 AATTCATAAT
*
90099797 AAGCTTCAGAAATTATCCAAAATCATCTACCTCATCTTCA
1 AAGCGTCAGAAATTATCCAAAATCATCTACCTCATCTTCA
* *
90099837 AAGCGTCAGAACTTATCCAAAATCATTTACCTCATCTTCA
1 AAGCGTCAGAAATTATCCAAAATCATCTACCTCATCTTCA
90099877 TTTTGCTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (40 bp):
AAGCGTCAGAAATTATCCAAAATCATCTACCTCATCTTCA
Found at i:90105337 original size:20 final size:20
Alignment explanation
Indices: 90105305--90105342 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90105295 ACACATGGTG
90105305 TATAGGCTGAAAA-AAGCCT
1 TATAGGCTGAAAATAAGCCT
*
90105324 TATATGGCTTAAAATAAGC
1 TATA-GGCTGAAAATAAGC
90105343 ACTTCGAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 8 0.50
21 4 0.25
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (20 bp):
TATAGGCTGAAAATAAGCCT
Found at i:90109917 original size:21 final size:22
Alignment explanation
Indices: 90109888--90109934 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
90109878 CAGAAGGAGT
*
90109888 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
90109910 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
90109931 GAGT
1 GAGT
90109935 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:90111594 original size:20 final size:20
Alignment explanation
Indices: 90111569--90111609 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
90111559 ACACTCTAAA
90111569 ATGAGTTCAAATGTTGACAT
1 ATGAGTTCAAATGTTGACAT
90111589 ATGAGTTCAAATGTTGACAT
1 ATGAGTTCAAATGTTGACAT
90111609 A
1 A
90111610 CATGTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
ATGAGTTCAAATGTTGACAT
Found at i:90111825 original size:103 final size:103
Alignment explanation
Indices: 90111703--90111896 Score: 289
Period size: 103 Copynumber: 1.9 Consensus size: 103
90111693 AAGCAGCAAC
* * * * *
90111703 AATACAAGCTAAGCAGCAGTAAAAGTAAGTTGCCTTTAAGGTCCAAAAACCAATGCCTACCTATG
1 AATACAAACTAAGCAGCAGTAAAAGCAAGTTGCCTTTAAAGTCCAAAAAACAATGCCTACCGATG
90111768 TATGCTTATAAAAGCAAGCAGGAGCAACAATTGTAACT
66 TATGCTTATAAAAGCAAGCAGGAGCAACAATTGTAACT
* * *
90111806 AATACAAACTAAGCAGCAGTTAAAGCAAGTTGCCTTTAAAGTTCAAAAAACAATGCCTGCCGATG
1 AATACAAACTAAGCAGCAGTAAAAGCAAGTTGCCTTTAAAGTCCAAAAAACAATGCCTACCGATG
* * *
90111871 TATGCTTTTAGAAGCAAGCAGTAGCA
66 TATGCTTATAAAAGCAAGCAGGAGCA
90111897 GAAAGAACAA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 80 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (103 bp):
AATACAAACTAAGCAGCAGTAAAAGCAAGTTGCCTTTAAAGTCCAAAAAACAATGCCTACCGATG
TATGCTTATAAAAGCAAGCAGGAGCAACAATTGTAACT
Found at i:90115623 original size:18 final size:17
Alignment explanation
Indices: 90115600--90115646 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
90115590 AAATAATTTT
90115600 TAAAAATTTAGAAAATTA
1 TAAAAA-TTAGAAAATTA
*
90115618 TAAAAATGA-AAAATTA
1 TAAAAATTAGAAAATTA
90115634 TATAAAAGTTAGA
1 TA-AAAA-TTAGA
90115647 TAAAATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 9 0.38
17 6 0.25
18 8 0.33
19 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
TAAAAATTAGAAAATTA
Found at i:90120992 original size:27 final size:27
Alignment explanation
Indices: 90120954--90121042 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 27
90120944 TTTTCTTCAT
*
90120954 GTTTTTGAATAACATAAAGAACTATGA
1 GTTTTTGAATAACATAAAGGACTATGA
90120981 GTTTTTGAATAACATAAAATTAAGGACTATG-
1 GTTTTTGAATAACAT---A--AAGGACTATGA
90121012 GTTTTTGAATAAC--AAAGGACTATGA
1 GTTTTTGAATAACATAAAGGACTATGA
90121037 GTTTTT
1 GTTTTT
90121043 ATTTTGTTAT
Statistics
Matches: 55, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
24 10 0.18
25 6 0.11
26 1 0.02
27 15 0.27
30 1 0.02
31 13 0.24
32 9 0.16
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (27 bp):
GTTTTTGAATAACATAAAGGACTATGA
Found at i:90121413 original size:13 final size:12
Alignment explanation
Indices: 90121390--90121452 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
90121380 AATAATTTTA
90121390 TATTAAAATTAT
1 TATTAAAATTAT
90121402 TATT-AAA-TAT
1 TATTAAAATTAT
90121412 TATTAATAATTA-
1 TATTAA-AATTAT
*
90121424 TATTAAGAA-TGT
1 TATTAA-AATTAT
90121436 TATT-AAATTAT
1 TATTAAAATTAT
90121447 ATATTA
1 -TATTA
90121453 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:90121417 original size:22 final size:23
Alignment explanation
Indices: 90121390--90121452 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
90121380 AATAATTTTA
90121390 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
90121412 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
90121436 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
90121453 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:90121566 original size:25 final size:26
Alignment explanation
Indices: 90121516--90121566 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
90121506 ATTTTTATTT
*
90121516 TTATTAAAATATATTGAACAATAATC
1 TTATTAAAATATAATGAACAATAATC
*
90121542 TTATTAAAATTTAAT-AACAATAATC
1 TTATTAAAATATAATGAACAATAATC
90121567 ATCTATCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (26 bp):
TTATTAAAATATAATGAACAATAATC
Found at i:90121694 original size:44 final size:46
Alignment explanation
Indices: 90121643--90121731 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
90121633 ACATCTATTA
*
90121643 CATTCAACTAAACACA-AGAATT-CT-ATTACAGCTCTATTCAATTC
1 CATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTCAATTC
*
90121687 CATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCAATT
1 CATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCAATT
90121732 ACAACTCTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.45
45 2 0.05
46 19 0.47
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCAATTC
Found at i:90121734 original size:16 final size:16
Alignment explanation
Indices: 90121713--90121767 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
90121703 TGAATTACTG
90121713 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
90121729 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCA
*
90121745 ATTACAGC-CTTATTCC
1 ATTACAGCTC-TATTCA
90121761 ATTACAG
1 ATTACAG
90121768 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
15 1 0.03
16 34 0.97
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:90125228 original size:27 final size:27
Alignment explanation
Indices: 90125198--90125257 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
90125188 AGAAGGAGGA
*
90125198 AAAAATAG-AAAAGAAAATAAAAGAGAT
1 AAAAA-AGTAAAAGAAAATAAAAGAAAT
*
90125225 AAAAAAGTAAAAGAAAATAAAATAAAT
1 AAAAAAGTAAAAGAAAATAAAAGAAAT
90125252 AAAAAA
1 AAAAAA
90125258 TATATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (27 bp):
AAAAAAGTAAAAGAAAATAAAAGAAAT
Found at i:90128104 original size:27 final size:27
Alignment explanation
Indices: 90128072--90128141 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
90128062 ATGCACTTCG
*
90128072 GTGCTTACTGCTACGTGATTGCACTAT
1 GTGCTTACTGCTACGTGATTACACTAT
* * *
90128099 GTGCTTACCT-TTATGTGATTACACTTT
1 GTGCTTA-CTGCTACGTGATTACACTAT
* *
90128126 ATTCTTACTGCTACGT
1 GTGCTTACTGCTACGT
90128142 TAAACGCATG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
26 2 0.06
27 29 0.88
28 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (27 bp):
GTGCTTACTGCTACGTGATTACACTAT
Found at i:90132551 original size:33 final size:34
Alignment explanation
Indices: 90132506--90132578 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
90132496 ATTAGATCTC
*
90132506 AAAA-TTATTACTTTAGAAAAATTTTTAAAATTT
1 AAAATTTATTACTTTAGAAAAATTTTTAAAATAT
*** *
90132539 AAAATTTA-TACTTTTTTATAATTTTTAAAATAT
1 AAAATTTATTACTTTAGAAAAATTTTTAAAATAT
90132572 AAAATTT
1 AAAATTT
90132579 GAAAATTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 31 0.91
34 3 0.09
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (34 bp):
AAAATTTATTACTTTAGAAAAATTTTTAAAATAT
Found at i:90142824 original size:25 final size:25
Alignment explanation
Indices: 90142793--90142854 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
90142783 GCCATATATT
*
90142793 CGCACACATAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
90142818 CGCACACTTAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
90142843 CGCACACTTAGT
1 CGCACACTTAGT
90142855 ACCAAGTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.26
Consensus pattern (25 bp):
CGCACACTTAGTGCCATACAATTTC
Found at i:90144878 original size:15 final size:17
Alignment explanation
Indices: 90144858--90144889 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
90144848 TTAGGAAACG
90144858 TACATAA-A-AAATATA
1 TACATAATATAAATATA
90144873 TACATAATATAAATATA
1 TACATAATATAAATATA
90144890 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:90147880 original size:47 final size:47
Alignment explanation
Indices: 90147823--90148126 Score: 421
Period size: 47 Copynumber: 6.4 Consensus size: 47
90147813 ATTGATGTAC
* * *
90147823 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
90147870 AAGTATATATATATGTGAT-AGGACCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGG-CCGAATGGCCAATGTGATGAATGTGA
* * * * *
90147919 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
90147966 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
90148013 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATATGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
90148060 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
90148107 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
90148127 TCCCGAAGGG
Statistics
Matches: 232, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 186 0.80
48 4 0.02
49 42 0.18
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:90150444 original size:30 final size:29
Alignment explanation
Indices: 90150410--90150474 Score: 89
Period size: 27 Copynumber: 2.3 Consensus size: 29
90150400 GTGGCTAGGG
90150410 TTTCTTGGTTTTTTTTTTGGGGGTTAGGTT
1 TTTCTTGGTTTTTTTTTT-GGGGTTAGGTT
*
90150440 TTTCTT--TTTTTTTTTTTGGGTTAGGTT
1 TTTCTTGGTTTTTTTTTTGGGGTTAGGTT
*
90150467 TTTTTTGG
1 TTTCTTGG
90150475 GGGGCTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 15 0.48
28 10 0.32
30 6 0.19
ACGTcount: A:0.03, C:0.03, G:0.25, T:0.69
Consensus pattern (29 bp):
TTTCTTGGTTTTTTTTTTGGGGTTAGGTT
Found at i:90151465 original size:72 final size:72
Alignment explanation
Indices: 90151328--90152035 Score: 904
Period size: 72 Copynumber: 9.7 Consensus size: 72
90151318 GTGATCTGAA
* * *
90151328 GCTCAACTCACCTTTCGCAGTATGAGTTGATTTTTTAAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
90151393 GTCTCGAG
66 GTC-CGAG
*
90151401 GCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
90151465 GTCCCGAG
66 GT-CCGAG
* * *
90151473 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTTGAAAAACAAAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTG-AAAACAGAAATTGAAATTACCTCA
* *
90151538 GCATGTCTTGAG
62 GCGTGTC-CGAG
** * *
90151550 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGTGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
90151614 GTCCTGAG
66 GTCC-GAG
** * * * *
90151622 GCTCAACTCATTTCTTGTAATATGAGTT-ATTTTTTTAACAACAAAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAATTGAAATTACCTCAGCG
90151686 TGTCCTGAG
65 TGTCC-GAG
* * * *
90151695 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
*
90151760 GTGTCTTGAG
64 GTGTC-CGAG
** * *
90151770 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAATAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
90151834 GTCCCGAG
66 GT-CCGAG
* *
90151842 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAAAAATTGAAATTACCTCAGCAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
90151906 GTCCCGAG
66 GT-CCGAG
* *
90151914 GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
90151979 TGTCCTGAG
65 TGTCC-GAG
* * **
90151988 GCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTTTAAACAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAAT
90152036 AAAAACATCA
Statistics
Matches: 560, Mismatches: 57, Indels: 36
0.86 0.09 0.06
Matches are distributed among these distances:
71 1 0.00
72 250 0.45
73 116 0.21
74 65 0.12
75 64 0.11
76 7 0.01
77 57 0.10
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
GTCCGAG
Found at i:90151801 original size:220 final size:217
Alignment explanation
Indices: 90151328--90152022 Score: 993
Period size: 220 Copynumber: 3.2 Consensus size: 217
90151318 GTGATCTGAA
* * *
90151328 GCTCAACTCACCTT-TCGCAGTATGAGTTGATTTTTTAAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCA-CTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
*
90151392 TGT-CTCGAGGCTCAACTCACCTTTC-GCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATT
64 TGTCCT-GAGGCTCAACTCA--TTTCTGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAATT
*
90151455 ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTTGAAAAACA
126 ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTG-AAAACA
*
90151520 AAAATTGAAAATACCTCAGCATGTCTTGAG
188 AAAATTGAAAATACCTCAGCGTGTCTTGAG
* *
90151550 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGTGTG
1 GCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
* *
90151615 TCCTGAGGCTCAACTCATTTCTTGTAATATGAGTT-ATTTTTTTAACAACAAAAATTGAAATTAC
66 TCCTGAGGCTCAACTCATTTC-TGCAATATGAGTTGA-TTTTTGAA-AACAAAAATTGAAATTAC
* *
90151679 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAA
128 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAAAAA
*
90151744 TTGAAAATACCTCAACGTGTCTTGAG
192 TTGAAAATACCTCAGCGTGTCTTGAG
* *
90151770 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
* **
90151835 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAATTACCT
66 TCCTGAGGCTCAACTCATTTCT-GCAATATGAGTTGATTTTTGAAAACAAAAATTGAAATTACCT
* * * *
90151900 CAGCATGTCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTG
130 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTG
* *
90151965 AAATTACCTCAGCGTGTCCTGAG
195 AAAATACCTCAGCGTGTCTTGAG
* * * *
90151988 GCTCAACTTACCTCTCGCAGTATGAGTTGATTTTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGAATTTT
90152023 TTTAAACAGA
Statistics
Matches: 430, Mismatches: 34, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
218 59 0.14
219 78 0.18
220 139 0.32
221 67 0.16
222 87 0.20
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (217 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCTGAGGCTCAACTCATTTCTGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAATTACCTC
AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTGA
AAATACCTCAGCGTGTCTTGAG
Found at i:90160331 original size:12 final size:12
Alignment explanation
Indices: 90160311--90160346 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
90160301 TGGGATATGC
*
90160311 AATGTATGAATG
1 AATGCATGAATG
90160323 AATGCATGAATG
1 AATGCATGAATG
90160335 AATGCATGAATG
1 AATGCATGAATG
90160347 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:90162165 original size:15 final size:17
Alignment explanation
Indices: 90162145--90162176 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
90162135 TTAGGAAACG
90162145 TACATAA-A-AAATATA
1 TACATAATATAAATATA
90162160 TACATAATATAAATATA
1 TACATAATATAAATATA
90162177 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:90177815 original size:25 final size:26
Alignment explanation
Indices: 90177769--90177817 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
90177759 GGCAAAATTG
90177769 TCAAAATTTTACCTGAGGTAAAATCA
1 TCAAAATTTTACCTGAGGTAAAATCA
90177795 TCAAAATTTTA-CTGAGGTAAAAT
1 TCAAAATTTTACCTGAGGTAAAAT
90177818 ATGGATGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACCTGAGGTAAAATCA
Found at i:90180526 original size:12 final size:13
Alignment explanation
Indices: 90180509--90180537 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
90180499 AGATTAGGGC
90180509 TCTTTTCTTTT-T
1 TCTTTTCTTTTCT
90180521 TCTTTTCTTTTCT
1 TCTTTTCTTTTCT
90180534 TCTT
1 TCTT
90180538 ATTTTTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TCTTTTCTTTTCT
Found at i:90193379 original size:13 final size:13
Alignment explanation
Indices: 90193361--90193406 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
90193351 GAGGAATAGA
90193361 GAAAGAGAAGTAG
1 GAAAGAGAAGTAG
* *
90193374 GAAAGAAAAATGAG
1 GAAAGAGAAGT-AG
*
90193388 GAATGAGAAGTAG
1 GAAAGAGAAGTAG
90193401 GAAAGA
1 GAAAGA
90193407 AGAGAATGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.35, T:0.09
Consensus pattern (13 bp):
GAAAGAGAAGTAG
Found at i:90193423 original size:27 final size:26
Alignment explanation
Indices: 90193355--90193407 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
90193345 GGGGAGGAGG
90193355 AATAGAGAAAGAGAAGTAGGAAAGAAA
1 AATAG-GAAAGAGAAGTAGGAAAGAAA
*
90193382 AATGAGGAATGAGAAGTAGGAAAGAA
1 AAT-AGGAAAGAGAAGTAGGAAAGAA
90193408 GAGAATGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.32, T:0.09
Consensus pattern (26 bp):
AATAGGAAAGAGAAGTAGGAAAGAAA
Found at i:90196898 original size:14 final size:14
Alignment explanation
Indices: 90196873--90196906 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
90196863 AAAGAATTAA
90196873 AGAAACAAAGAAAC
1 AGAAACAAAGAAAC
90196887 A-AAACAAAAGAAAC
1 AGAAAC-AAAGAAAC
90196901 AGAAAC
1 AGAAAC
90196907 GAAGCAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 10 0.56
15 4 0.22
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAACAAAGAAAC
Found at i:90197979 original size:39 final size:39
Alignment explanation
Indices: 90197858--90197992 Score: 105
Period size: 39 Copynumber: 3.4 Consensus size: 39
90197848 AACCTCGAGT
* * *
90197858 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGAACAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGAAC-TATC
** * ** * *
90197899 CGATGAGGTATTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
*
90197937 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
*
90197976 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
90197993 CCATTTGGTG
Statistics
Matches: 71, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
37 1 0.01
38 19 0.27
39 31 0.44
40 4 0.06
41 14 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:90213413 original size:14 final size:14
Alignment explanation
Indices: 90213396--90213423 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90213386 TTGCATGCAT
90213396 AAAATTTAAAATAA
1 AAAATTTAAAATAA
90213410 AAAATTTAAAATAA
1 AAAATTTAAAATAA
90213424 CATTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATTTAAAATAA
Found at i:90214180 original size:14 final size:14
Alignment explanation
Indices: 90214159--90214237 Score: 77
Period size: 14 Copynumber: 5.6 Consensus size: 14
90214149 ATATTTGTAC
90214159 ATGCGGATTCATAG
1 ATGCGGATTCATAG
* *
90214173 ATGTGGATCCATAG
1 ATGCGGATTCATAG
* * *
90214187 ATGCGAATTAATAC
1 ATGCGGATTCATAG
* *
90214201 ATGTGGATTTATAG
1 ATGCGGATTCATAG
* *
90214215 ATGCAGATTCATAA
1 ATGCGGATTCATAG
90214229 ATGCGGATT
1 ATGCGGATT
90214238 GTCCTGCAGA
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 49 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (14 bp):
ATGCGGATTCATAG
Found at i:90216602 original size:20 final size:19
Alignment explanation
Indices: 90216578--90216627 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
90216568 AGGTTAATTA
*
90216578 ACTTAATTAATTATGTTTT
1 ACTTAATTAATTATATTTT
*
90216597 ATCTTAATTAATTTTATTTT
1 A-CTTAATTAATTATATTTT
90216617 ACTTAATTAAT
1 ACTTAATTAAT
90216628 CAACATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (19 bp):
ACTTAATTAATTATATTTT
Found at i:90217463 original size:96 final size:96
Alignment explanation
Indices: 90217353--90217534 Score: 321
Period size: 96 Copynumber: 1.9 Consensus size: 96
90217343 ATATGATGTA
*
90217353 AAGAGATTAATTTATTTGATTATTAAATCAAGAGAGCAAAATGTAATTCACTTTTAATGCAAAGG
1 AAGAGATTAATTTATTCGATTATTAAATCAAGAGAGCAAAATGTAATTCACTTTTAATGCAAAGG
90217418 CCTTCCTTTTC-TTTTGCGAATGAGCGTTGAG
66 CCTTCC-TTTCGTTTTGCGAATGAGCGTTGAG
* *
90217449 AAGAGATTAATTTATTCGATTATTAAATCGAGAGAGCAAAATGTAATTCACTTTTAATGTAAAGG
1 AAGAGATTAATTTATTCGATTATTAAATCAAGAGAGCAAAATGTAATTCACTTTTAATGCAAAGG
90217514 CCTTCCTTTCGTTTTGCGAAT
66 CCTTCCTTTCGTTTTGCGAAT
90217535 AGGCATTACT
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
95 4 0.05
96 78 0.95
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (96 bp):
AAGAGATTAATTTATTCGATTATTAAATCAAGAGAGCAAAATGTAATTCACTTTTAATGCAAAGG
CCTTCCTTTCGTTTTGCGAATGAGCGTTGAG
Found at i:90221173 original size:139 final size:140
Alignment explanation
Indices: 90221026--90221441 Score: 445
Period size: 140 Copynumber: 3.0 Consensus size: 140
90221016 TTTAAAAATT
* * *
90221026 TGTCAAAAAACTCGCCCTAACCTTATTTTCGACGACAAAACCTAAATTTTGATGAGCTCTTTTCC
1 TGTCAAAAAACTCGTCCAAACCCTATTTTCGACGACAAAACCTAAATTTTGATGAGCTCTTTTCC
* * *
90221091 GTTTTTAAACCTTGATTTTGATTTCTTTCTCACCTCAATTCAAAACT-TATGTATTATTTTTCTT
66 ATTTTTAAACCTCGATTTTGATTCCTTTCTCACCTCAATTCAAAACTATATGTATTATTTTTCTT
90221155 AAAAATAAAC
131 AAAAATAAAC
* * * * * *
90221165 TGTCAAAAAA-TTGATCAAAACCCTATTTTCGACAACAAAA-CTCAAACTTTGACGAGTTTCTTT
1 TGTCAAAAAACTCG-TCCAAACCCTATTTTCGACGACAAAACCT-AAATTTTGATGAG-CTCTTT
* * * * ** * *
90221228 TACTTTTTTAAACCTCGATTTTGGTTCCTTTCTCACATTGATACAAAA-TCTATGTATTATTTTT
63 TCCATTTTTAAACCTCGATTTTGATTCCTTTCTCACCTCAATTCAAAACTATATGTATTATTTTT
*
90221292 CCTAAAAAT-AAC
128 CTTAAAAATAAAC
* * * ** * *
90221304 --TCATCAAAACTCATCCAAACCCTATTTTTGGTGACAAAACCCAAATTTCGATGAGCT-TCTTT
1 TGTCA-AAAAACTCGTCCAAACCCTATTTTCGACGACAAAACCTAAATTTTGATGAGCTCT-TTT
*
90221366 CCATTTTTAAACCTCGATTTCGATTCCTTTCTCACCTCAATTCAAAACCTATACTGTATT-TTTT
64 CCATTTTTAAACCTCGATTTTGATTCCTTTCTCACCTCAATTCAAAA-CTATA-TGTATTATTTT
90221430 TCTTAAAAATAA
127 TCTTAAAAATAA
90221442 CTTTCTCCTA
Statistics
Matches: 223, Mismatches: 42, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
136 1 0.00
137 46 0.21
138 39 0.17
139 64 0.29
140 73 0.33
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (140 bp):
TGTCAAAAAACTCGTCCAAACCCTATTTTCGACGACAAAACCTAAATTTTGATGAGCTCTTTTCC
ATTTTTAAACCTCGATTTTGATTCCTTTCTCACCTCAATTCAAAACTATATGTATTATTTTTCTT
AAAAATAAAC
Found at i:90222278 original size:19 final size:19
Alignment explanation
Indices: 90222254--90222292 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
90222244 TTGTTAGTTT
90222254 TCATTACTAAGGGAAGCCA
1 TCATTACTAAGGGAAGCCA
*
90222273 TCATTACTAGGGGAAGCCA
1 TCATTACTAAGGGAAGCCA
90222292 T
1 T
90222293 GAGGTTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (19 bp):
TCATTACTAAGGGAAGCCA
Found at i:90225816 original size:22 final size:22
Alignment explanation
Indices: 90225773--90225816 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
90225763 GTTTTATGCA
**
90225773 TTTTAAATATTATTTAGTAAAT
1 TTTTAAATATTATTTAAAAAAT
90225795 TTTTAAAGT-TTATTTAAAAAAT
1 TTTTAAA-TATTATTTAAAAAAT
90225817 ATAGTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTAAATATTATTTAAAAAAT
Found at i:90226937 original size:26 final size:26
Alignment explanation
Indices: 90226885--90226944 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
90226875 CTACCCCTAA
** *
90226885 TAAAATTTTGACAATTTTATTCTTGG
1 TAAAATTTTGACAATTTTACCCATGG
* *
90226911 TAAAATTTTGACGATTTTGCCCATGG
1 TAAAATTTTGACAATTTTACCCATGG
90226937 TAAAATTT
1 TAAAATTT
90226945 CGAGAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (26 bp):
TAAAATTTTGACAATTTTACCCATGG
Found at i:90227108 original size:6 final size:6
Alignment explanation
Indices: 90227094--90227133 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
90227084 CTAATGAATT
*
90227094 ATTTCC ATTTTC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
90227134 TTGGAAACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (6 bp):
ATTTCC
Found at i:90229967 original size:47 final size:47
Alignment explanation
Indices: 90229898--90229994 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
90229888 TAGCTGTACC
*
90229898 ATTAAAAACTTTCTTTAAAGATGCATTCTCATCAAAGTTCAAGCTTG
1 ATTAAAAACTTTCTTTAAAGATGCATTCTCATCAAAGTTCAAACTTG
*
90229945 ATTAAATACTTTCTTTAAAGATGCATTCTCATCAAAGTTCAAACTTG
1 ATTAAAAACTTTCTTTAAAGATGCATTCTCATCAAAGTTCAAACTTG
90229992 ATT
1 ATT
90229995 GAGTCTTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (47 bp):
ATTAAAAACTTTCTTTAAAGATGCATTCTCATCAAAGTTCAAACTTG
Found at i:90233428 original size:46 final size:46
Alignment explanation
Indices: 90233370--90233461 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
90233360 ATTTCAATTG
* ** * *
90233370 GTTTGCTCATTTTTTATTAGACTAAAGACATGTTTAAGTTCTTCTA
1 GTTTACTCATTTTCAATTAAACTAAAGACATGTTTAAGTTCGTCTA
* * *
90233416 GTTTACTCATTTTCAATTAAACTAAGGGCATGTTTAGGTTCGTCTA
1 GTTTACTCATTTTCAATTAAACTAAAGACATGTTTAAGTTCGTCTA
90233462 CTAAAATAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (46 bp):
GTTTACTCATTTTCAATTAAACTAAAGACATGTTTAAGTTCGTCTA
Found at i:90235370 original size:30 final size:30
Alignment explanation
Indices: 90235334--90235391 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
90235324 TGTTGATCAT
90235334 ATAGATTGCAAGTGTTTACTGACTTAACAC
1 ATAGATTGCAAGTGTTTACTGACTTAACAC
*
90235364 ATAGATTGCAAGTGTTTACTGAGTTAAC
1 ATAGATTGCAAGTGTTTACTGACTTAAC
90235392 CTAAAATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (30 bp):
ATAGATTGCAAGTGTTTACTGACTTAACAC
Found at i:90238272 original size:40 final size:40
Alignment explanation
Indices: 90238214--90238290 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
90238204 ACACACTATG
* * * *
90238214 TGGGGATAAGATCGACCCACCCAGCCCTACATACCAAGTA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGTA
*
90238254 TGGGGATAAAATCAACCCATCCAACCCTACACACCAA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAA
90238291 AAGGTACCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.34, G:0.16, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:90246576 original size:20 final size:20
Alignment explanation
Indices: 90246551--90246590 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
90246541 CGCTAACATT
90246551 GCATGGCTTATGAAAAAAGA
1 GCATGGCTTATGAAAAAAGA
*
90246571 GCATGGTTTATGAAAAAAGA
1 GCATGGCTTATGAAAAAAGA
90246591 AACATGGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.23
Consensus pattern (20 bp):
GCATGGCTTATGAAAAAAGA
Found at i:90246596 original size:21 final size:20
Alignment explanation
Indices: 90246552--90246598 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
90246542 GCTAACATTG
*
90246552 CATGGCTTATGAAAAAAGAG
1 CATGGCTTATGAAAAAAGAA
*
90246572 CATGGTTTATGAAAAAAGAAA
1 CATGGCTTATGAAAAAAG-AA
90246593 CATGGC
1 CATGGC
90246599 CATGGATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (20 bp):
CATGGCTTATGAAAAAAGAA
Found at i:90250192 original size:42 final size:41
Alignment explanation
Indices: 90250038--90250193 Score: 129
Period size: 42 Copynumber: 3.7 Consensus size: 41
90250028 TGAGTTGTCG
* * *
90250038 TGTAAGACTACGTCTGGGACGTTGGCGTCGATCTGAGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-T-TGA-TTACA
* * * * *
90250082 TGTAAGACCATGTCTGGGACATAGGCATTAC-ATTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCA-T-CGATTTGATTACA
* *
90250124 TGTAAGACC-CTGTCCGAGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TTGATTACA
90250166 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
90250194 TGTACAAGCT
Statistics
Matches: 87, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
40 1 0.01
41 4 0.05
42 52 0.60
43 3 0.03
44 23 0.26
45 3 0.03
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTACA
Found at i:90258268 original size:15 final size:16
Alignment explanation
Indices: 90258227--90258268 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
90258217 TTTTGAAAGG
90258227 TAATTTATA-ATATAT
1 TAATTTATATATATAT
*
90258242 TATTTTAT-TATATAT
1 TAATTTATATATATAT
90258257 ATAATTTATATA
1 -TAATTTATATA
90258269 AAAATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.59
16 7 0.32
17 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTTATATATATAT
Found at i:90258352 original size:10 final size:10
Alignment explanation
Indices: 90258337--90258412 Score: 62
Period size: 10 Copynumber: 7.3 Consensus size: 10
90258327 TATTAACACA
90258337 AAATTGATAT
1 AAATTGATAT
90258347 AAATTGATAT
1 AAATTGATAT
* *
90258357 AAATTCAATAA
1 AAATT-GATAT
* * *
90258368 AATATTAACACA
1 AA-ATTGATA-T
90258380 AAATTGATAT
1 AAATTGATAT
90258390 AAATTGATAT
1 AAATTGATAT
* *
90258400 AACTTTATAT
1 AAATTGATAT
90258410 AAA
1 AAA
90258413 ATGAAGGCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 35 0.65
11 13 0.24
12 6 0.11
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (10 bp):
AAATTGATAT
Found at i:90258360 original size:43 final size:43
Alignment explanation
Indices: 90258312--90258401 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
90258302 TTAATGTAAC
90258312 ATAAATTCAATAAAATATTAACACAAAATTGATATAAATTGAT
1 ATAAATTCAATAAAATATTAACACAAAATTGATATAAATTGAT
90258355 ATAAATTCAATAAAATATTAACACAAAATTGATATAAATTGAT
1 ATAAATTCAATAAAATATTAACACAAAATTGATATAAATTGAT
90258398 ATAA
1 ATAA
90258402 CTTTATATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (43 bp):
ATAAATTCAATAAAATATTAACACAAAATTGATATAAATTGAT
Found at i:90258600 original size:17 final size:16
Alignment explanation
Indices: 90258578--90258617 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
90258568 TATTTTTTTA
90258578 AAAAAATATTATTCAAT
1 AAAAAATATT-TTCAAT
*
90258595 AAAAAATATTTTCCAT
1 AAAAAATATTTTCAAT
*
90258611 AATAAAT
1 AAAAAAT
90258618 TGGATTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAAATATTTTCAAT
Found at i:90261456 original size:52 final size:50
Alignment explanation
Indices: 90261380--90261585 Score: 142
Period size: 53 Copynumber: 3.9 Consensus size: 50
90261370 TTATCATACC
* * * * * *
90261380 GATGCCATATCCCGGATATTGTCTTACATGGGAACACTTATTACATTTCTCT
1 GATGCCATAGCCCAGCTATGGTCTTATA-GGGAACACTTATTAC-TTTATCT
* * *
90261432 GATGCCATAGCCCAGCTATGGTCTTATACGGATCACTTGTATTACTTTAATCC
1 GATGCCATAGCCCAGCTATGGTCTTATAGGGAACAC-T-TATTACTTT-ATCT
* * * * * * *
90261485 GAAGCCATAGCCTAGCTATAGTCTTATACGGAAATCACTTATCACTTGTTTTTT
1 GATGCCATAGCCCAGCTATGGTCTTATA-GGGAA-CACTTATTAC-T-TTATCT
* * *
90261539 GATGTCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTT
1 GATGCCATAGCCCAGCTATGGTCTTATAGGGA-A-CACTTATTACTT
90261586 GTTGCCATGG
Statistics
Matches: 121, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
51 6 0.05
52 28 0.23
53 41 0.34
54 41 0.34
55 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GATGCCATAGCCCAGCTATGGTCTTATAGGGAACACTTATTACTTTATCT
Found at i:90261492 original size:53 final size:52
Alignment explanation
Indices: 90261435--90261587 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 52
90261425 TTTCTCTGAT
*
90261435 GCCATAGCCCAGCTATGGTCTTATACGGATCACTTGTATTACTT-TAATCCGAA
1 GCCATAGCCCAGCTATGGTCTTATACGGATCAC-T-TATCACTTGTAATCCGAA
* * ** ** *
90261488 GCCATAGCCTAGCTATAGTCTTATACGGAAATCACTTATCACTTGTTTTTTGAT
1 GCCATAGCCCAGCTATGGTCTTATACGG--ATCACTTATCACTTGTAATCCGAA
*
90261542 GTCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTTGT
1 GCCATAGCCCAGCTATGGTCTTATACGG--ATCACTTATCACTTGT
90261588 TGCCATGGTC
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 33 0.39
54 47 0.55
55 5 0.06
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (52 bp):
GCCATAGCCCAGCTATGGTCTTATACGGATCACTTATCACTTGTAATCCGAA
Found at i:90268062 original size:16 final size:15
Alignment explanation
Indices: 90268037--90268066 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
90268027 GAGATTAAGT
90268037 TAATCATATTAATTG
1 TAATCATATTAATTG
90268052 TAATACATATTAATT
1 TAAT-CATATTAATT
90268067 ACATTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TAATCATATTAATTG
Found at i:90268074 original size:10 final size:10
Alignment explanation
Indices: 90268055--90268101 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
90268045 TTAATTGTAA
90268055 TACATATTAAT
1 TACAT-TTAAT
90268066 TACATTTAAT
1 TACATTTAAT
90268076 TACATTT-A-
1 TACATTTAAT
90268084 -ACATTTAAT
1 TACATTTAAT
90268093 TACATTTAA
1 TACATTTAA
90268102 CAGAGGATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 6 0.18
8 1 0.03
9 1 0.03
10 20 0.61
11 5 0.15
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.47
Consensus pattern (10 bp):
TACATTTAAT
Found at i:90268089 original size:17 final size:17
Alignment explanation
Indices: 90268067--90268103 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
90268057 CATATTAATT
90268067 ACATTTAATTACATTTA
1 ACATTTAATTACATTTA
90268084 ACATTTAATTACATTTA
1 ACATTTAATTACATTTA
90268101 ACA
1 ACA
90268104 GAGGATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (17 bp):
ACATTTAATTACATTTA
Found at i:90270795 original size:7 final size:7
Alignment explanation
Indices: 90270785--90270854 Score: 113
Period size: 7 Copynumber: 9.6 Consensus size: 7
90270775 AATATTAAAA
90270785 TTTTAAGT
1 TTTTAA-T
90270793 TTTTAAGT
1 TTTTAA-T
90270801 TTTTAAT
1 TTTTAAT
90270808 TTTTAAT
1 TTTTAAT
90270815 TTTTAAT
1 TTTTAAT
90270822 TTTTAAT
1 TTTTAAT
90270829 TTTTAAT
1 TTTTAAT
90270836 TTTTAAT
1 TTTTAAT
90270843 TTTTCAAT
1 TTTT-AAT
90270851 TTTT
1 TTTT
90270855 TTGAAGAATT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
7 40 0.66
8 21 0.34
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (7 bp):
TTTTAAT
Found at i:90271441 original size:15 final size:14
Alignment explanation
Indices: 90271417--90271480 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
90271407 CTAACTAATC
*
90271417 TAAACCCTAAACTCT
1 TAAACCCTAAAC-AT
*
90271432 TAATCCCTAAACAT
1 TAAACCCTAAACAT
90271446 TAAACCCTAAAACA-
1 TAAACCCT-AAACAT
*
90271460 TAAATCCTAAACCA-
1 TAAACCCTAAA-CAT
90271474 TAAACCC
1 TAAACCC
90271481 CTCGCCCTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
13 3 0.07
14 23 0.55
15 16 0.38
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACAT
Found at i:90271582 original size:15 final size:15
Alignment explanation
Indices: 90271557--90271599 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
90271547 ATAGTTAACT
90271557 CATAAACCTTAAACC
1 CATAAACCTTAAACC
* *
90271572 CATATAGCTTAAA-C
1 CATAAACCTTAAACC
90271586 CATAAACCTTAAAC
1 CATAAACCTTAAAC
90271600 TATAATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (15 bp):
CATAAACCTTAAACC
Done.