Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 280 of 325
Found at i:91536163 original size:26 final size:26
Alignment explanation
Indices: 91536132--91536239 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
91536122 TGTAATGCCC
91536132 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
91536158 ATCATGGAACATTTACCT-GACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
91536184 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
91536210 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
91536236 ATCA
1 ATCA
91536240 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 3 0.04
26 69 0.93
27 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:91536796 original size:21 final size:20
Alignment explanation
Indices: 91536764--91536810 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
91536754 ATATAAATGA
*
91536764 ATTTAATATCAATTTAATTC
1 ATTTCATATCAATTTAATTC
91536784 ATTTCATACTCAATTTAATTC
1 ATTTCATA-TCAATTTAATTC
*
91536805 AATTCA
1 ATTTCA
91536811 CATCCTAGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTCATATCAATTTAATTC
Found at i:91552779 original size:30 final size:29
Alignment explanation
Indices: 91552717--91552779 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
91552707 ATACAAGATC
* ***
91552717 AAATTAGTATTTCTATTATTAAATGGATT
1 AAATTAGTATTTATATTATTAAAAAAATT
*
91552746 AAATTAGTCTTTATATTATTAAAAAAAATT
1 AAATTAGTATTTATATTATT-AAAAAAATT
91552776 AAAT
1 AAAT
91552780 AAGTTTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (29 bp):
AAATTAGTATTTATATTATTAAAAAAATT
Found at i:91559677 original size:30 final size:30
Alignment explanation
Indices: 91559641--91559703 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
91559631 ATTTATTTTA
91559641 TTGTTAACTTTGTTATTATTTTA-AAGACAT
1 TTGTTAACTTTGTTATTATTTTAGAA-ACAT
*
91559671 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAACTTTGTTATTATTTTAGAAACAT
91559701 TTG
1 TTG
91559704 ATTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.56
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAGAAACAT
Found at i:91562098 original size:6 final size:6
Alignment explanation
Indices: 91562083--91562125 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
91562073 TGTGTACCGA
* *
91562083 TACTGC TACTGT TACTGT TACTGT TATTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT T
91562126 GTGGTGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (6 bp):
TACTGT
Found at i:91562932 original size:41 final size:42
Alignment explanation
Indices: 91562872--91562951 Score: 128
Period size: 41 Copynumber: 1.9 Consensus size: 42
91562862 ATTTTGAGTC
91562872 CACACGGCATGTCACACGGGCATG-TGATTAGACCGTGTGAGA
1 CACACGGCATGTCACACGGGCATGTTG-TTAGACCGTGTGAGA
*
91562914 CACACGGCTTG-CACACGGGCATGTTGTTAGACCGTGTG
1 CACACGGCATGTCACACGGGCATGTTGTTAGACCGTGTG
91562952 TCCCCTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 24 0.67
42 12 0.33
ACGTcount: A:0.23, C:0.25, G:0.31, T:0.21
Consensus pattern (42 bp):
CACACGGCATGTCACACGGGCATGTTGTTAGACCGTGTGAGA
Found at i:91565302 original size:54 final size:52
Alignment explanation
Indices: 91565205--91565373 Score: 156
Period size: 54 Copynumber: 3.2 Consensus size: 52
91565195 ACCTAAAAAA
* * * * *
91565205 AATTATTTTTTAAAATTTGATATTAGGGTGTCGGCCATTAGTGTCTCAACACCC
1 AATT-TTTTTTAAAATTTGGTAAT-GGGTGCCAGCCATCAGTGTCTCAACACCC
91565259 TAATTTTTTTTAAAATTTGGTACAAT-GGTG-CAGACCATCAGTGT-TCCAACACCC
1 -AATTTTTTTTAAAATTTGGT--AATGGGTGCCAG-CCATCAGTGTCT-CAACACCC
*
91565313 --TTTTTTTT--AATTTGGTAATGGGGTGCCAGCCATCAGTGTCCCAACA-CC
1 AATTTTTTTTAAAATTTGGTAAT-GGGTGCCAGCCATCAGTGTCTCAACACCC
91565361 AATTTTTTTTAAA
1 AATTTTTTTTAAA
91565374 CCTGTGCTGG
Statistics
Matches: 97, Mismatches: 5, Indels: 27
0.75 0.04 0.21
Matches are distributed among these distances:
47 3 0.03
48 2 0.02
49 27 0.28
50 11 0.11
51 8 0.08
52 1 0.01
53 3 0.03
54 36 0.37
55 4 0.04
56 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (52 bp):
AATTTTTTTTAAAATTTGGTAATGGGTGCCAGCCATCAGTGTCTCAACACCC
Found at i:91565388 original size:50 final size:50
Alignment explanation
Indices: 91565331--91565460 Score: 154
Period size: 49 Copynumber: 2.6 Consensus size: 50
91565321 AATTTGGTAA
* * *
91565331 TGGGGTGCCAGCCATCAGTGTCCCAACACCAATTTTTTTTAAACCT-GTGC
1 TGGGGTGCC-GCCATCAATGCCCCAACACCAATTTTTTTTAAACCTAGTAC
* ** *
91565381 TGGGGTGCCGACATCAATGCCCCAACACCTTTTTTTTTTAAATCTAGTAC
1 TGGGGTGCCGCCATCAATGCCCCAACACCAATTTTTTTTAAACCTAGTAC
**
91565431 AAGGGTGCCGGCCATCAATGCCCCAACACC
1 TGGGGTGCC-GCCATCAATGCCCCAACACC
91565461 CAAAAAATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 30 0.44
50 19 0.28
51 19 0.28
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (50 bp):
TGGGGTGCCGCCATCAATGCCCCAACACCAATTTTTTTTAAACCTAGTAC
Found at i:91567026 original size:18 final size:18
Alignment explanation
Indices: 91567000--91567034 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91566990 AAAATATTTT
*
91567000 ATATTTTATAAAATAAAA
1 ATATATTATAAAATAAAA
*
91567018 ATATATTATTAAATAAA
1 ATATATTATAAAATAAA
91567035 TGAAATTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATATTATAAAATAAAA
Found at i:91577325 original size:37 final size:37
Alignment explanation
Indices: 91577266--91577397 Score: 210
Period size: 37 Copynumber: 3.6 Consensus size: 37
91577256 ACCATTTTTG
* *
91577266 TACGTGTGGAGAGTATGTCCGGGTAAGACCCGATGAC
1 TACGTGTGGAGATTTTGTCCGGGTAAGACCCGATGAC
*
91577303 TACGTGTGGAGATTTTGCCCGGGTAAGACCCGATGAC
1 TACGTGTGGAGATTTTGTCCGGGTAAGACCCGATGAC
*
91577340 TACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAAC
1 TACGTGTGGAGATTTTGTCCGGGTAAGACCCGATGAC
* *
91577377 TTCGTGTGGAGATTTCGTCCG
1 TACGTGTGGAGATTTTGTCCG
91577398 AGCTAAAGGT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 88 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.27
Consensus pattern (37 bp):
TACGTGTGGAGATTTTGTCCGGGTAAGACCCGATGAC
Found at i:91578884 original size:43 final size:43
Alignment explanation
Indices: 91578836--91578986 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
91578826 GATTAACGAG
* *
91578836 ATGTGATTATGTTTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* * *
91578879 ATGTGATTACGTGTAAGACCATGTCTGGGATATTTGCATCGTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* * * * *
91578922 ATTTGATTTCATGTAAGATCATAG-CTGGG-CTATCGGCATCGA-T
1 ATGTGATTACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATC-ATT
* *
91578965 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACGTGTAAGACCAT
91578987 ATCCGAGATT
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
43 87 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:91582160 original size:17 final size:18
Alignment explanation
Indices: 91582129--91582162 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
91582119 AATTTAACTT
91582129 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
91582147 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
91582163 TTGTAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:91583306 original size:30 final size:30
Alignment explanation
Indices: 91583272--91583340 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
91583262 TAAATTCTAA
91583272 GTAAAATTCTAG-TATTAGTACTTATACTTT
1 GTAAAATTCTAGAT-TTAGTACTTATACTTT
* **
91583302 GTAAATATTGTAGATTTAGTTTTTATACTTT
1 GTAAA-ATTCTAGATTTAGTACTTATACTTT
91583333 -TCAAAATT
1 GT-AAAATT
91583341 TAAATTTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 9 0.27
31 23 0.70
32 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.49
Consensus pattern (30 bp):
GTAAAATTCTAGATTTAGTACTTATACTTT
Found at i:91584179 original size:49 final size:49
Alignment explanation
Indices: 91584098--91584192 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 49
91584088 ATCTATTTAT
* * *
91584098 AGGTTGAAAAACCTTCTTCTAATCAATGTCAAATAGAA-ACAGTGTAGTA
1 AGGTTGAAAAACCTTATTCTAATAAATATCAAATAGAAGA-AGTGTAGTA
*
91584147 AGGTTGAAACACCTTATTCTAATAAATATCAAATAGAAGAAGTGTA
1 AGGTTGAAAAACCTTATTCTAATAAATATCAAATAGAAGAAGTGTA
91584193 CTTCTATACA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 40 0.98
50 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCTAATAAATATCAAATAGAAGAAGTGTAGTA
Found at i:91585239 original size:11 final size:11
Alignment explanation
Indices: 91585223--91585251 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
91585213 ACCTTTTCAC
91585223 TATTATTTTAT
1 TATTATTTTAT
91585234 TATTATTTTAT
1 TATTATTTTAT
91585245 TATTATT
1 TATTATT
91585252 GTATAACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:91587111 original size:19 final size:21
Alignment explanation
Indices: 91587087--91587129 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
91587077 AGTTAAAGAT
*
91587087 TTTAAGGTTTA-AGGTT-GGA
1 TTTAAGATTTAGAGGTTAGGA
91587106 TTTAAGATTTAGAGGTTAGGA
1 TTTAAGATTTAGAGGTTAGGA
91587127 TTT
1 TTT
91587130 GGATTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 5 0.24
21 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (21 bp):
TTTAAGATTTAGAGGTTAGGA
Found at i:91587134 original size:20 final size:21
Alignment explanation
Indices: 91587094--91587149 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
91587084 GATTTTAAGG
91587094 TTTAAGGTT-GGATTTAAGA-
1 TTTAAGGTTAGGATTTAAGAT
*
91587113 TTTAGAGGTTAGGATTT-GGAT
1 TTTA-AGGTTAGGATTTAAGAT
91587134 TTTAAGGTTTAGGATT
1 TTTAAGG-TTAGGATT
91587150 AAGGTCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.12
20 10 0.31
21 18 0.56
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.45
Consensus pattern (21 bp):
TTTAAGGTTAGGATTTAAGAT
Found at i:91589005 original size:27 final size:27
Alignment explanation
Indices: 91588975--91589039 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
91588965 ACCTAGTAAC
*
91588975 AAATTTT-AAAAATAAAAAAAATCTTTA
1 AAATTTTAAAAAAT-AAAAAAATCATTA
* * *
91589002 AAATTTTAAAAAATTAGAAAGTCATTA
1 AAATTTTAAAAAATAAAAAAATCATTA
91589029 AAATTTTAAAA
1 AAATTTTAAAA
91589040 TTTCTATAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (27 bp):
AAATTTTAAAAAATAAAAAAATCATTA
Found at i:91589452 original size:16 final size:17
Alignment explanation
Indices: 91589431--91589464 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
91589421 ATTGAATTGG
*
91589431 ATTTTTA-ATAATTTTT
1 ATTTTTATAAAATTTTT
91589447 ATTTTTATAAAATTTTT
1 ATTTTTATAAAATTTTT
91589464 A
1 A
91589465 ATGATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTATAAAATTTTT
Found at i:91592201 original size:23 final size:23
Alignment explanation
Indices: 91592157--91592201 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
91592147 TCAAAATTCT
* *
91592157 TTTTAATTTCTTCCTCTGAATTA
1 TTTTAATTTCTCCCTCTAAATTA
91592180 TTTT-ATTTCTCCCTCTTAAATT
1 TTTTAATTTCTCCCTC-TAAATT
91592202 GAAAACCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTAATTTCTCCCTCTAAATTA
Found at i:91592779 original size:22 final size:21
Alignment explanation
Indices: 91592737--91592780 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
91592727 AAATTTAAAT
*
91592737 ATAAAAAAATAAAAAATTTAA
1 ATAAAAAAATAAAAAACTTAA
*
91592758 ATAAAAAACTAAAATAACTTAA
1 ATAAAAAAATAAAA-AACTTAA
91592780 A
1 A
91592781 AAATTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAAAAAATAAAAAACTTAA
Found at i:91593772 original size:339 final size:337
Alignment explanation
Indices: 91593149--91593828 Score: 1189
Period size: 339 Copynumber: 2.0 Consensus size: 337
91593139 GTACTATCTT
*
91593149 AGATTATTTTTATTTTTATTTTATAATAAAAATTAATTGATTTAATTTATTATTATTATTATTAT
1 AGATTATTTTTATTTTTATTTTATAAAAAAAATTAATTGATTTAATTTATTATTATTATTATTAT
**
91593214 TATTTCGATAAGTATTTGTATTTTATCCAAGAAACTAAAAATTTACTACAAAGAACTAAGAATAA
66 TATTTCGATAAGTATTTGTATTTTATCCAAGAAACTAAAAACCTACTACAAAGAACTAAGAATAA
**
91593279 CAATGTTCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTCAGTAAATTCTAGTT
131 CAATGTTCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTCAACAAATTCTAGTT
* * *
91593344 CAAACAAAGCTGCTTATTACAATGATCTAAAGAATTAATAAGCCTTCTAGAAAGATGGCATCGGA
196 CAAACAAAGCTGCTTATTACAATGATCTAAAGAATTAATAAGCCTTCTAGAAAGACGACATCGAA
*
91593409 CCACTTCCTGAATTTTACTAACAAATGATCCGCAGAAGTTACAAGTCTACCAATTAATCTACCAT
261 CCACTTCCTGAATTTTACTAACAAATGATCCGCAGAAGTTACAAGTCTACCAAATAATCTACCAT
91593474 TTCTTTCACACC
326 TTCTTTCACACC
*
91593486 AGATTATTTTTATTTTTATTTTATAAAAAAAATTAATTGATTTAATTTATTATTATTATTCTTAT
1 AGATTATTTTTATTTTTATTTTATAAAAAAAATTAATTGATTTAATTTATTATTATTATTATTA-
* *
91593551 TTTTTTTGGATAAGTATTTGTATTTTATCCAAGAAACTAAAAACCTACTACAAAGAACTAAGAAT
65 -TTATTTCGATAAGTATTTGTATTTTATCCAAGAAACTAAAAACCTACTACAAAGAACTAAGAAT
91593616 AACAATGTTCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTCAACAAATTCTAG
129 AACAATGTTCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTCAACAAATTCTAG
*
91593681 TTCAAACAAAGCTGCTTATTACAATGATCTAAAGAATTAATAAGCTTTCTAGAAAGACGACATCG
194 TTCAAACAAAGCTGCTTATTACAATGATCTAAAGAATTAATAAGCCTTCTAGAAAGACGACATCG
* * *
91593746 AACCACTTCCTGAATTTTATTAACAAATGATCTGCAGAAGTTACAGGTCTACCAAATAATCTACC
259 AACCACTTCCTGAATTTTACTAACAAATGATCCGCAGAAGTTACAAGTCTACCAAATAATCTACC
*
91593811 ATTTCTTTCACACT
324 ATTTCTTTCACACC
91593825 AGAT
1 AGAT
91593829 GGAACACACA
Statistics
Matches: 324, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
337 62 0.19
339 262 0.81
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (337 bp):
AGATTATTTTTATTTTTATTTTATAAAAAAAATTAATTGATTTAATTTATTATTATTATTATTAT
TATTTCGATAAGTATTTGTATTTTATCCAAGAAACTAAAAACCTACTACAAAGAACTAAGAATAA
CAATGTTCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTCAACAAATTCTAGTT
CAAACAAAGCTGCTTATTACAATGATCTAAAGAATTAATAAGCCTTCTAGAAAGACGACATCGAA
CCACTTCCTGAATTTTACTAACAAATGATCCGCAGAAGTTACAAGTCTACCAAATAATCTACCAT
TTCTTTCACACC
Found at i:91595518 original size:7 final size:7
Alignment explanation
Indices: 91595506--91595531 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
91595496 AATCGAGGTA
91595506 AGTTCGT
1 AGTTCGT
91595513 AGTTCGT
1 AGTTCGT
91595520 AGTTCGT
1 AGTTCGT
91595527 AGTTC
1 AGTTC
91595532 TTGAACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.42
Consensus pattern (7 bp):
AGTTCGT
Found at i:91595881 original size:36 final size:36
Alignment explanation
Indices: 91595841--91595953 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 36
91595831 ATATGATATT
* *
91595841 GGTTTATCCAACTAGCGCTGAGCGCAAAACATCGTC
1 GGTTTATCCGACTAGCGCTGAGCGCAAAACATTGTC
* * * *
91595877 GGTTTATCCGACCAGTGC--AGGGCACAACTATTGTC
1 GGTTTATCCGACTAGCGCTGAGCGCAAAAC-ATTGTC
* * * *
91595912 AGTTTATCTGACTAGCGCTGGGCGCAAAACATTATC
1 GGTTTATCCGACTAGCGCTGAGCGCAAAACATTGTC
91595948 GGTTTA
1 GGTTTA
91595954 ATTGACCAGT
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
34 8 0.14
35 19 0.32
36 25 0.42
37 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (36 bp):
GGTTTATCCGACTAGCGCTGAGCGCAAAACATTGTC
Found at i:91595937 original size:71 final size:71
Alignment explanation
Indices: 91595842--91596012 Score: 220
Period size: 71 Copynumber: 2.4 Consensus size: 71
91595832 TATGATATTG
** * * *
91595842 GTTTATCCAACTAGCGCTGAGCGCAAAACATCGTCGGTTT-ATCCGACCAGTGCAGGGCACAACT
1 GTTTATCTGACTAGCGCTGGGCGCAAAACATCATCGGTTTAAT-CGACCAGTGCAGGACACAACT
91595906 ATTGTCA
65 ATTGTCA
* *
91595913 GTTTATCTGACTAGCGCTGGGCGCAAAACATTATCGGTTTAATTGACCAGTGCAGGACACAACTA
1 GTTTATCTGACTAGCGCTGGGCGCAAAACATCATCGGTTTAATCGACCAGTGCAGGACACAACTA
*
91595978 TTGTCG
66 TTGTCA
* *
91595984 GTATA-CTCGACTAGCGCTAGGCGCAAAAC
1 GTTTATCT-GACTAGCGCTGGGCGCAAAAC
91596013 TTAACTACGG
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
70 2 0.02
71 84 0.95
72 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (71 bp):
GTTTATCTGACTAGCGCTGGGCGCAAAACATCATCGGTTTAATCGACCAGTGCAGGACACAACTA
TTGTCA
Found at i:91595985 original size:35 final size:35
Alignment explanation
Indices: 91595874--91595985 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
91595864 GCAAAACATC
*
91595874 GTCGGTTTATCCGACCAGTGCAGGGCACAACTATT
1 GTCGGTTTATCTGACCAGTGCAGGGCACAACTATT
* * * * *
91595909 GTCAGTTTATCTGACTAGCGCTGGGCGCAAAAC-ATT
1 GTCGGTTTATCTGACCAGTGC-AGG-GCACAACTATT
* *
91595945 ATCGGTTTAAT-TGACCAGTGCAGGACACAACTATT
1 GTCGGTTT-ATCTGACCAGTGCAGGGCACAACTATT
91595980 GTCGGT
1 GTCGGT
91595986 ATACTCGACT
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
34 5 0.08
35 27 0.46
36 19 0.32
37 8 0.14
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (35 bp):
GTCGGTTTATCTGACCAGTGCAGGGCACAACTATT
Found at i:91599129 original size:48 final size:48
Alignment explanation
Indices: 91598902--91599488 Score: 1012
Period size: 48 Copynumber: 12.1 Consensus size: 48
91598892 GCGGAAATTG
91598902 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGGAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT-GAA-AT
*
91598952 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
91599002 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
91599050 ATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTAT--GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
91599100 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
91599148 ATGTATGAGATATGTATATGTGGTAAAGCCGACTGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
91599196 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
91599244 ATGTATGAGATAAGTATATGTGGTAAAGCCGAGTGGCTAATATGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
91599292 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
**
91599340 ATGTATGAGATAAATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
91599388 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
91599436 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
91599484 ATGTA
1 ATGTA
91599489 GGCGATGTGT
Statistics
Matches: 521, Mismatches: 13, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
48 380 0.73
49 3 0.01
50 138 0.26
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:91599674 original size:37 final size:38
Alignment explanation
Indices: 91599635--91599780 Score: 226
Period size: 37 Copynumber: 3.9 Consensus size: 38
91599625 GGAAATATAT
*
91599635 TCCGGGTAAGACCCGATGACTACGTGTGGAAATTTAT-
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTATG
91599672 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTATG
*
91599709 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTT-TG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTATG
* **
91599746 TCCGGGTAAGACCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
91599781 CATCTGAGCT
Statistics
Matches: 103, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
36 4 0.04
37 97 0.94
38 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (38 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTATG
Found at i:91601662 original size:20 final size:18
Alignment explanation
Indices: 91601637--91601673 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
91601627 ATTGCTAAGT
91601637 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
91601657 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
91601674 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:91602282 original size:46 final size:46
Alignment explanation
Indices: 91602230--91602405 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
91602220 TGGTTGAGCA
91602230 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
91602276 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
91602321 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
91602369 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91602406 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 65 0.59
47 27 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:91602386 original size:93 final size:93
Alignment explanation
Indices: 91602227--91602397 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
91602217 GGATGGTTGA
* *
91602227 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
91602292 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
91602320 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
91602385 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
91602398 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:91609893 original size:12 final size:12
Alignment explanation
Indices: 91609876--91609911 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
91609866 ATTCATTTGA
91609876 CATTCATGCATT
1 CATTCATGCATT
*
91609888 CATTCATGCATC
1 CATTCATGCATT
*
91609900 CATTCATTCATT
1 CATTCATGCATT
91609912 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:91609905 original size:16 final size:17
Alignment explanation
Indices: 91609884--91609915 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
91609874 GACATTCATG
91609884 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
91609900 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
91609916 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:91618080 original size:73 final size:72
Alignment explanation
Indices: 91617899--91619520 Score: 1152
Period size: 72 Copynumber: 21.4 Consensus size: 72
91617889 CTTTTCAAGG
* * * * * * *
91617899 AAAATAAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91617964 GTTTTTC-
66 G-TTTTCA
*
91617971 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91618036 GTTTGTCA
66 GTTT-TCA
* *
91618044 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTC
91618109 TGTTTTCA
65 TGTTTTCA
*
91618117 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91618182 GTTTTCA
66 GTTTTCA
* * ** * * * *
91618189 AAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91618254 GTCTTTCAAA
66 GT-TTTC--A
*
91618264 AAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
91618329 GTTGTTAAAA
66 GTT-TT--CA
**
91618339 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
91618404 ATTTTCA
66 GTTTTCA
* * ** * * *
91618411 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91618476 GTTTTCAAAAAA
66 GTTTTC-----A
* * *
91618488 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
91618552 TCTGTCTTTGAAAA
63 TCTGT-TTT---CA
* * * * * *
91618566 AAAATCAACTCATATTGCGAGAGTTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTTTTCAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA---ATTTCAA
* *
91618631 -TTCAT-ATTGCGA
61 TTTC-TGTTTTC-A
* ** * ** * *** * ** * *** * ** * * *
91618643 GAGGTGAGTTGAGCCT-CGGGGCACGCCGAGGT-ATTTTCA-AATTCTCT-TGTTCAAATCCTGT
1 AAAATCAACTCATATTGC-GAG-A-GGTGAGTTGAGCCTCAGGACACGCTGAGGT--AAT--T-T
* * *
91618704 CTTTAATTTTTACTTTTCC
58 C---AATTTCT-GTTTTCA
*
91618723 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGG-----T-AATT
* * *
91618787 TCTATTTTTCAATTTCTGTTCGT
57 TC-A-ATTTC--TGT-T-TTC-A
** * * * * * *
91618810 AAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGCTGAGGTA-ATT
*
91618872 TAAATTTCTGTTTTTCA
57 TCAATTTCTG-TTTTCA
* *
91618889 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91618954 GTTTGTCA
66 GTTT-TCA
* * ** *
91618962 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTTAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
91619026 TCTGTTCTTCAA
63 TCTGTT-TTC-A
** * * * * *
91619038 TTTCTGTTCGTAAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 -----------AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGC
* *
91619100 TGAGGTATTTTTAAATTTCTGTTTTCA
47 TGAGGTA-ATTTCAATTTCTGTTTTCA
*
91619127 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91619192 GTTTTCA
66 GTTTTCA
* *** * * *
91619199 AAATTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91619264 GTTTTCA
66 GTTTTCA
* ** * ** * * *
91619271 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAGTTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91619336 GCTTTTCA
66 G-TTTTCA
* ** * *
91619344 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91619409 GTTTTCA
66 GTTTTCA
* ** *
91619416 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91619481 GTTTGTCA
66 GTTT-TCA
* *
91619489 AGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGA
91619521 ACCTTTTAAT
Statistics
Matches: 1255, Mismatches: 188, Indels: 213
0.76 0.11 0.13
Matches are distributed among these distances:
71 3 0.00
72 422 0.34
73 278 0.22
74 39 0.03
75 157 0.13
76 7 0.01
77 44 0.04
78 73 0.06
79 60 0.05
80 23 0.02
81 17 0.01
82 8 0.01
83 8 0.01
84 9 0.01
85 9 0.01
86 9 0.01
87 37 0.03
88 1 0.00
89 1 0.00
90 24 0.02
91 14 0.01
92 8 0.01
93 4 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTCA
Found at i:91618393 original size:222 final size:220
Alignment explanation
Indices: 91617899--91618604 Score: 1003
Period size: 222 Copynumber: 3.2 Consensus size: 220
91617889 CTTTTCAAGG
* * * * * *
91617899 AAAATAAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
** * * *
91617964 GTTTTTCAAAA-TCAACTCATATTGCT-AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
66 G-TTTTCAAAATTCAACTCATATTG-TGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
91618027 TCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
129 TCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
91618090 TGAGGTATTTTTAAATTTCTGTTTT--CA
193 TGAGGTA-TTTTCAATTTCTGTTTTAAAA
* *
91618117 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
91618182 GTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
66 GTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
* *
91618247 AATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
131 AATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
91618312 AGGTAATTTCAATTTCTGTTGTTAAAA
195 AGGTATTTTCAATTTCTGTT-TTAAAA
*
91618339 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
91618404 ATTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
66 GTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
91618469 AATTTCTGTTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
131 AATTTCTGTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
*
91618533 TGCTGAGGTATTTTCAATTTCTGTCTTTGAAAA
190 CGCTGAGGTATTTTCAATTTCTGT-TTT-AAAA
* *
91618566 AAAATCAACTCATATTGCGAGAGTTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAG
91618605 ATCACACACT
Statistics
Matches: 440, Mismatches: 32, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
217 10 0.02
218 115 0.26
219 15 0.03
220 55 0.12
221 4 0.01
222 133 0.30
223 2 0.00
224 38 0.09
226 27 0.06
227 41 0.09
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (220 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTATTTTCAATTTCTGTTTTAAAA
Found at i:91619081 original size:165 final size:162
Alignment explanation
Indices: 91618888--91619489 Score: 537
Period size: 145 Copynumber: 3.9 Consensus size: 162
91618878 TCTGTTTTTC
* *
91618888 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
* * *
91618952 CTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTC
66 CTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTA
* *
91619017 TTTTTAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
128 ATTTCAATTTCTGTT-TTCAATTTCTGTTCGTAAAA
* *
91619053 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
*
91619118 CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAATT
91619183 TCAATTTCTG---------T-T-TTC------
131 TCAATTTCTGTTTTCAATTTCTGTTCGTAAAA
* ** * * *
91619198 AAAATTCAACTCATATTGCGAGAA-ACGAGTTGAGCCTCAAGACACGTTGAGGTAT-TTTCAATT
1 AAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATT
* ** * **
91619261 TCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACATTGAGGT-A
65 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACACGCTGAGGTAA
* * *
91619324 --T---TTTCAG-TTT---TTGCT-TT--T---C
129 TTTCAATTTCTGTTTTCAATTTCTGTTCGTAAAA
* * * * *
91619343 AAAATTCAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAAGACACGTTGAGGTA-ATTTCAATT
1 AAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATT
* ** *
91619406 TCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-ACACGATGAGGTAA
65 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACACGCTGAGGTAA
91619470 TTTCAATTTCTGTTTGTCAA
129 TTTCAATTTCTGTTT-TCAA
91619490 GAATCAACTC
Statistics
Matches: 384, Mismatches: 30, Indels: 55
0.82 0.06 0.12
Matches are distributed among these distances:
138 5 0.01
141 1 0.00
143 1 0.00
144 64 0.17
145 168 0.44
146 2 0.01
148 1 0.00
151 8 0.02
152 3 0.01
153 2 0.01
163 22 0.06
165 93 0.24
166 14 0.04
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (162 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAATT
TCAATTTCTGTTTTCAATTTCTGTTCGTAAAA
Found at i:91619433 original size:217 final size:217
Alignment explanation
Indices: 91619054--91619510 Score: 711
Period size: 217 Copynumber: 2.1 Consensus size: 217
91619044 TTCGTAAAAA
** * *
91619054 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAAATTTC
** **
91619119 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTT
66 TGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
*
91619184 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGTTGAG
131 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGATGAG
*
91619249 GTATTTTCAATTTCTGTTT-TC
196 GTAATTTCAATTTCTGTTTGTC
* * *
91619270 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTA-TTTTCAGTTT
1 AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAAATTT
* * *
91619334 TTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
65 CTG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAAT
* *
91619399 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATG
129 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGATG
91619464 AGGTAATTTCAATTTCTGTTTGTC
194 AGGTAATTTCAATTTCTGTTTGTC
91619488 AAGAATCAACTCATATTGCGAGA
1 AA-AATCAACTCATATTGCGAGA
91619511 GGTGGGTTGA
Statistics
Matches: 219, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
216 14 0.06
217 181 0.83
218 22 0.10
219 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAAATTTC
TGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGATGAG
GTAATTTCAATTTCTGTTTGTC
Found at i:91619520 original size:145 final size:144
Alignment explanation
Indices: 91619053--91619510 Score: 704
Period size: 145 Copynumber: 3.2 Consensus size: 144
91619043 GTTCGTAAAA
* ** * * *
91619053 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTCAATTT
* ** * *
91619118 CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
65 CTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATT
91619183 TCAATTTCTGTTTTC
130 TCAATTTCTGTTTTC
*
91619198 AAAATTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* *
91619263 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-ATTGAGGTATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGA-TGAGGTAATT
* *
91619327 TCAGTTTTTGCTTTTC
130 TCAATTTCTG-TTTTC
*
91619343 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
91619408 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATTT
91619473 CAATTTCTGTTTGTC
131 CAATTTCTGTTT-TC
91619488 AAGAA-TCAACTCATATTGCGAGA
1 AA-AATTCAACTCATATTGCGAGA
91619511 GGTGGGTTGA
Statistics
Matches: 286, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
144 77 0.27
145 206 0.72
146 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (144 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATTT
CAATTTCTGTTTTC
Found at i:91619572 original size:127 final size:127
Alignment explanation
Indices: 91619402--91619707 Score: 377
Period size: 128 Copynumber: 2.4 Consensus size: 127
91619392 AGGTAATTTC
* **
91619402 AATTTCT-GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAG
1 AATTTCTCTTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAG
* * *
91619466 GTAATT-TCAATTTCTGTT-TGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTT
65 GT-ATTCTCAATTTCTGTTGTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTT-AAGCCTTTT
* * * *
91619528 AATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACGCTGAG
1 AATTTCT-CTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAG
* * * * *
91619593 GTATTCTTAATTTTTGTTGTTTCAAAAATTAACTCATGTTGCGAGAAGTGAGTTAAGCCTTTT
65 GTATTCTCAATTTCTGTTGTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTT
* * *
91619656 AATTTCTGTTTGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTC
1 AATTTCTCTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
91619708 GGCTCACATG
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
126 10 0.06
127 59 0.38
128 85 0.55
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (127 bp):
AATTTCTCTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGG
TATTCTCAATTTCTGTTGTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTT
Found at i:91619682 original size:54 final size:55
Alignment explanation
Indices: 91619599--91619706 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 55
91619589 TGAGGTATTC
* * * **
91619599 TTAATTTTTGTTGTTTCAAAAATTAACTCATGTTGCGAGAAGTGAGTTAAGCCTT
1 TTAATTTCTGTTGTGTCAAAAATCAACTCATACTGCGAGAAGTGAGTTAAGCCTT
* *
91619654 TTAATTTCTGTT-TGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCT
1 TTAATTTCTGTTGTGTCAAAAATCAACTCATACTGCGAGAAGTGAGTTAAGCCT
91619707 CGGCTCACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 35 0.76
55 11 0.24
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (55 bp):
TTAATTTCTGTTGTGTCAAAAATCAACTCATACTGCGAGAAGTGAGTTAAGCCTT
Found at i:91619747 original size:14 final size:14
Alignment explanation
Indices: 91619728--91619755 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
91619718 CTGAGGTCTT
91619728 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
91619742 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
91619756 GTAAAAAAAA
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:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:91619868 original size:74 final size:75
Alignment explanation
Indices: 91619760--91619991 Score: 243
Period size: 74 Copynumber: 3.0 Consensus size: 75
91619750 CTGTTCGTAA
91619760 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
91619825 TCTGTTTTTC
66 TCTGTTTTTC
* * * * * **
91619835 -AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTGTCTATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT-TTTAAAT
*
91619899 TTGTGTTTTAATTTC
65 TTCTG--TT--TTTC
* * *
91619914 AAAAAAATAAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCAGGACACACTGAGGTA-TTTT
1 ----AAA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTT
* *
91619978 CAATTTCTATTTTT
61 AAATTTCTGTTTTT
91619992 TTCCAATTTC
Statistics
Matches: 125, Mismatches: 21, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
74 52 0.42
75 8 0.06
77 2 0.02
79 7 0.06
81 2 0.02
83 6 0.05
84 3 0.02
85 45 0.36
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (75 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
TCTGTTTTTC
Found at i:91619972 original size:159 final size:159
Alignment explanation
Indices: 91619652--91619991 Score: 418
Period size: 165 Copynumber: 2.1 Consensus size: 159
91619642 GAGTTAAGCC
* * *
91619652 TTTTAATTTCTGTTTGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCGGCGCACA-
** * **
91619717 GCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGA
65 GCTGAGGAATTGTCAATTTCTGTTCTTCAA--T-TGTTCAAAAAAAAAATCAACTCATATTGCGA
* *
91619782 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
127 GAGGTGAATTGAGCCTCAGGACACACTGAGGTA
* *
91619815 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCAC
1 -TTTT-AATTTCTGTTTTTCAAAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCGGCGCAC
* * * *
91619880 -GCTGAGGAATTGTCTATTTTTGTGT-TTTAA-T-TTCAAAAAAATAAATCAACTCATATTGTGA
64 AGCTGAGGAATTGTCAATTTCTGT-TCTTCAATTGTTCAAAAAAA-AAATCAACTCATATTGCGA
91619941 GAGGTGAATTGAGCCTCAGGACACACTGAGGTA
127 GAGGTGAATTGAGCCTCAGGACACACTGAGGTA
*
91619974 TTTTCAATTTCTATTTTT
1 TTTT-AATTTCTGTTTTT
91619992 TTCCAATTTC
Statistics
Matches: 155, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
158 24 0.15
159 50 0.32
163 22 0.14
164 5 0.03
165 54 0.35
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (159 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCGGCGCACAG
CTGAGGAATTGTCAATTTCTGTTCTTCAATTGTTCAAAAAAAAAATCAACTCATATTGCGAGAGG
TGAATTGAGCCTCAGGACACACTGAGGTA
Found at i:91620178 original size:54 final size:54
Alignment explanation
Indices: 91620095--91620205 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
91620085 CAAACTCTGT
* *
91620095 TTTTAATTTTTACTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCC
* * * *
91620149 TTTTAATTTCTATTTTTTAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTTAATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCC
91620203 TTT
1 TTT
91620206 GCTCACGTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (54 bp):
TTTTAATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCC
Found at i:91620272 original size:77 final size:77
Alignment explanation
Indices: 91620174--91620429 Score: 383
Period size: 77 Copynumber: 3.4 Consensus size: 77
91620164 TTTAAAAATT
*
91620174 AACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTTCTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTTCTT
91620239 TTCAAAAGAATC
66 TTCAAAAGAATC
* *
91620251 AACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGCTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTTCTT
91620316 TTCAAAAGAATC
66 TTCAAAAGAATC
* ** * ** * *
91620328 AACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGC-GTTTTCAATTTTTTCT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGA-GCTATTTTCAATTTCTTCT
91620392 TTTC-AAA-AATC
65 TTTCAAAAGAATC
91620403 AACTCATATTGCGAGAGGTGAGTTGAG
1 AACTCATATTGCGAGAGGTGAGTTGAG
91620430 TCTCGGGCCA
Statistics
Matches: 166, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
75 30 0.18
76 3 0.02
77 131 0.79
78 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (77 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTTCTT
TTCAAAAGAATC
Found at i:91620435 original size:75 final size:77
Alignment explanation
Indices: 91620174--91620463 Score: 354
Period size: 77 Copynumber: 3.8 Consensus size: 77
91620164 TTTAAAAATT
* ** **
91620174 AACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTTCTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGCTATTTTCAATTTCTTCTT
91620239 TTCAAAAGAATC
66 TTCAAAAGAATC
* ** ** *
91620251 AACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGCTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGCTATTTTCAATTTCTTCTT
91620316 TTCAAAAGAATC
66 TTCAAAAGAATC
* * * *
91620328 AACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGC-GTTTTCAATTTTTTCT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGA-GCTATTTTCAATTTCTTCT
91620392 TTTC-AAA-AATC
65 TTTCAAAAGAATC
* * * * *
91620403 AACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGC-CACACACTGAGGTCTTTTCAAATTCT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGCTATTTTCAATTTCT
91620464 GTTTTTAATT
Statistics
Matches: 191, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
74 1 0.01
75 52 0.27
76 5 0.03
77 131 0.69
78 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (77 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGCTATTTTCAATTTCTTCTT
TTCAAAAGAATC
Found at i:91620482 original size:14 final size:13
Alignment explanation
Indices: 91620460--91620496 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
91620450 TCTTTTCAAA
91620460 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
*
91620473 TTCTGCTTTTCAAT
1 TTCTG-TTTTTAAT
91620487 TTCTGTTTTT
1 TTCTGTTTTT
91620497 TCAATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.68
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:91621298 original size:30 final size:30
Alignment explanation
Indices: 91621262--91621406 Score: 186
Period size: 30 Copynumber: 4.8 Consensus size: 30
91621252 ACTTTTCTCA
*
91621262 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
91621292 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
91621322 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
91621352 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
91621382 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
91621407 CTTGTACCTA
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 3 0.03
30 99 0.97
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:91622012 original size:27 final size:26
Alignment explanation
Indices: 91621972--91622115 Score: 95
Period size: 25 Copynumber: 5.7 Consensus size: 26
91621962 ATTTTAAATT
*
91621972 CTATATTACGTATATATATA-TTATA
1 CTATATTATGTATATATATATTTATA
* * *
91621997 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTTATA
* *
91622022 TTATATTAT-TATATATATATTTTTTA
1 CTATATTATGTATATATATA-TTTATA
* * *
91622048 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTAT-GTATATATATAT-TTATA
* *
91622074 CTATATTATGTATGTAT-T-TTTAACA
1 CTATATTATGTATATATATATTT-ATA
*
91622099 CTATATTATGTACATAT
1 CTATATTATGTATATAT
91622116 TTTAATATTA
Statistics
Matches: 93, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
23 2 0.02
24 10 0.11
25 50 0.54
26 14 0.15
27 17 0.18
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (26 bp):
CTATATTATGTATATATATATTTATA
Found at i:91622302 original size:16 final size:15
Alignment explanation
Indices: 91622278--91622325 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
91622268 TAATTATTAT
*
91622278 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
91622294 TATTTTAATATTTTA
1 TATTTTAATATTTTA
91622309 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
91622325 T
1 T
91622326 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:91622313 original size:7 final size:8
Alignment explanation
Indices: 91622278--91622329 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
91622268 TAATTATTAT
*
91622278 TATTCTAA
1 TATTTTAA
*
91622286 TATTTTGA
1 TATTTTAA
91622294 TATTTTAA
1 TATTTTAA
91622302 TATTTT-A
1 TATTTTAA
91622309 TATTTTATA
1 TATTTTA-A
*
91622318 TATTTTAT
1 TATTTTAA
91622326 TATT
1 TATT
91622330 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:91640975 original size:42 final size:43
Alignment explanation
Indices: 91640868--91641009 Score: 160
Period size: 42 Copynumber: 3.3 Consensus size: 43
91640858 ATATGTGTTA
* * * * *
91640868 TCGTGTAAGACCACGTCTGAGACGTTGGCAGCGATTTGTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATT
* *
91640911 TACGTGTAAGACCATGTTTGGGACATTGGCATCG-TATATGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATT
* * *
91640954 TCGTGTAAGACCCCGTCTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATT
* *
91640997 ACATGTAAGACCA
1 TCGTGTAAGACCA
91641010 TATTTGGGAC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 28 0.34
43 27 0.33
44 27 0.33
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATT
Found at i:91641018 original size:43 final size:43
Alignment explanation
Indices: 91640856--91641019 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
91640846 CATAGGATTC
* * * * *
91640856 CGATATGTG-TTATCGTGTAAGACCACGTCTGAGAC-GTTGGCAG
1 CGATATTTGATTA-CGTGTAAGACCATGTTTGGGACAG-TGGCAT
*
91640899 CGAT-TTGTGATTTACGTGTAAGACCATGTTTGGGACATTGGCAT
1 CGATATT-TGA-TTACGTGTAAGACCATGTTTGGGACAGTGGCAT
* * ** *
91640943 CG-TATATGATTTCGTGTAAGACCCCGTCTGGGACAGTGGCAT
1 CGATATTTGATTACGTGTAAGACCATGTTTGGGACAGTGGCAT
* *
91640985 CGATATTTGATTACATGTAAGACCATATTTGGGAC
1 CGATATTTGATTACGTGTAAGACCATGTTTGGGAC
91641020 GTTGAAATTG
Statistics
Matches: 96, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 31 0.32
43 35 0.36
44 27 0.28
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCATGTTTGGGACAGTGGCAT
Found at i:91643736 original size:9 final size:9
Alignment explanation
Indices: 91643722--91643756 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
91643712 TGAGTTACGT
91643722 TACAAGTTG
1 TACAAGTTG
*
91643731 TACAAGTAG
1 TACAAGTTG
91643740 TTACAAGTTG
1 -TACAAGTTG
91643750 TACAAGT
1 TACAAGT
91643757 AGGTACACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (9 bp):
TACAAGTTG
Found at i:91643744 original size:19 final size:19
Alignment explanation
Indices: 91643720--91643763 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
91643710 CTTGAGTTAC
91643720 GTTACAAGTTGTACAAGTA
1 GTTACAAGTTGTACAAGTA
91643739 GTTACAAGTTGTACAAGTA
1 GTTACAAGTTGTACAAGTA
*
91643758 GGTACA
1 GTTACA
91643764 CTAAGCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (19 bp):
GTTACAAGTTGTACAAGTA
Found at i:91646838 original size:94 final size:94
Alignment explanation
Indices: 91646575--91646848 Score: 279
Period size: 94 Copynumber: 2.9 Consensus size: 94
91646565 CGGGGAAAGT
* *
91646575 TGCCGATGCCATGTCCTAGACCA-GGTCTTACACTGGCTATCATCACCGAGGCCGATGTCATGTC
1 TGCCGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTATCAT-A-CGTGGCCGATG-CATGTC
* **
91646639 CCA-AACATGGTCTTACACTAGCTCTCCCATATCCG
62 CCAGAA-AT-GTCTTACACTAGCACT-CCATATCAA
* * * *
91646674 TGCCGATGCCATGTGCCAGACATGGTCTTACACTGACAAATC-T-CGTAGCCGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATCATACGTGGCCGATGCATGTCCCA
* * *
91646737 GACATGTCTTACACTAGCACT-CGTCTCAA
65 GAAATGTCTTACACTAGCACTCCATATCAA
** * * *
91646766 TGTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCTCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-ACGTGGCCGATGCATGTCCCA
91646831 GAAATGTCTTACACTAGC
65 GAAATGTCTTACACTAGC
91646849 CCACAATAAC
Statistics
Matches: 147, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
91 2 0.01
92 38 0.26
94 49 0.33
95 11 0.07
96 10 0.07
98 2 0.01
99 32 0.22
100 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATACGTGGCCGATGCATGTCCCAG
AAATGTCTTACACTAGCACTCCATATCAA
Found at i:91654313 original size:46 final size:46
Alignment explanation
Indices: 91654224--91654430 Score: 147
Period size: 46 Copynumber: 4.5 Consensus size: 46
91654214 GTGCCGACGC
* * *
91654224 CATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCGGAGGCCGATG
*
91654269 CATGTCCCAGAAATGTCTTACACTGGCTTACATC-CGGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGGAGGCCGATG
* * * * * * * ** *
91654315 TATGTCCCGGACATCTCTTACACTAGCACTCGTCTC-AATTCTGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGGAGGCCGATG
* *
91654361 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT--GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGGAGGCCGATG
* *
91654409 CATGTCTCAGAAATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
91654431 ATAGCCCACA
Statistics
Matches: 124, Mismatches: 29, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
44 12 0.10
45 16 0.13
46 50 0.40
47 26 0.21
48 19 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATCTCGGAGGCCGATG
Found at i:91654429 original size:94 final size:94
Alignment explanation
Indices: 91654166--91654440 Score: 242
Period size: 94 Copynumber: 2.9 Consensus size: 94
91654156 GGCGCAAGTT
* * *
91654166 GCTGATGCCATGTCCCAGACATGGTGTTACACTAGCTCTCCCATATCCGT-GCCGACGCCATGTC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CCATAT--GTGGCCGATG-CATGTC
*
91654230 CCAGACATGGTCTTACACT-G-ACACATCTCGTA
62 CCAGACAT-GTCTTACACTAGCACACATCTCATA
* * * ** * * *
91654262 GCCGATG-CATGTCCCAGAAAT-GTCTTACACTGGCT-TACATCCGGAGGCCGATGTATGTCCCG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCAT-ATGTGGCCGATGCATGTCCCA
* * *
91654324 GACATCTCTTACACTAGCACTCGTCTCA-A
65 GACATGTCTTACACTAGCACACATCTCATA
* *
91654353 TTCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCTC
1 -GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCAT-ATGTGGCCGATGCATGTCCC
* * *
91654417 AGAAATGTCTTACAATAGCCCACA
64 AGACATGTCTTACACTAGCACACA
91654441 ATAACCCATG
Statistics
Matches: 140, Mismatches: 31, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
90 9 0.06
91 15 0.11
92 21 0.15
93 14 0.10
94 61 0.44
95 14 0.10
96 6 0.04
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (94 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCATATGTGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACACATCTCATA
Found at i:91661649 original size:26 final size:26
Alignment explanation
Indices: 91661614--91661665 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
91661604 AATGTGAAAG
*
91661614 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
91661640 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
91661666 TTTCATTGGT
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:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:91661721 original size:104 final size:102
Alignment explanation
Indices: 91661536--91661904 Score: 580
Period size: 104 Copynumber: 3.6 Consensus size: 102
91661526 TGTATATAAA
** * * *
91661536 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
91661600 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCG
91661639 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
91661704 TTGAAATGAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAA-GGGGGTTGCTATGTGCTGATT-CCCCG
91661744 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
91661809 TGAAAT-AAAAAGGGGTTGCTATGTGCTGATTCCCCAG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCC-G
* **
91661846 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
91661905 ATAACGGCTA
Statistics
Matches: 251, Mismatches: 10, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
101 4 0.02
102 77 0.31
103 32 0.13
104 105 0.42
105 33 0.13
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:91661861 original size:27 final size:27
Alignment explanation
Indices: 91661819--91661870 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
91661809 TGAAATAAAA
*
91661819 AGGGGTTGCTATGTGCTGATTCCCCAG
1 AGGGGTTGCTAAGTGCTGATTCCCCAG
91661846 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
91661871 GATTCAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCAG
Found at i:91664420 original size:24 final size:25
Alignment explanation
Indices: 91664368--91664420 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
91664358 GCCCTCTCTT
**
91664368 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATCC
* *
91664393 GAGCCATGT-ACGGGAAGCTTATCC
1 GAGCCATATAACGGGAAGCTCATCC
91664417 GAGC
1 GAGC
91664421 TGTATAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATCC
Found at i:91667798 original size:12 final size:12
Alignment explanation
Indices: 91667783--91667845 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
91667773 TGTTATCAAT
91667783 TTATTATTATAA
1 TTATTATTATAA
**
91667795 TTATTATTATGGT
1 TTATTATTAT-AA
*
91667808 TTTTTATT-TAA
1 TTATTATTATAA
*
91667819 ATATTATTATTAA
1 TTATTATTA-TAA
91667832 -TATTATTAT-A
1 TTATTATTATAA
91667842 TTAT
1 TTAT
91667846 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
10 1 0.03
11 10 0.25
12 19 0.47
13 10 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTATTATTATAA
Found at i:91668156 original size:3 final size:3
Alignment explanation
Indices: 91668144--91668183 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
91668134 AAATTATTAA
* *
91668144 ATT ATG ATT ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
91668184 AAATAAAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:91668328 original size:3 final size:3
Alignment explanation
Indices: 91668311--91668360 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
91668301 GAATTAAATT
* * *
91668311 TTA TTA -TA TTA -TA TTA TTA CTA TAA TGTA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
91668355 TTA TTA
1 TTA TTA
91668361 ACTAACACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:91669278 original size:70 final size:75
Alignment explanation
Indices: 91669191--91669366 Score: 193
Period size: 70 Copynumber: 2.3 Consensus size: 75
91669181 ATATGAACAA
* *
91669191 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATTG-T-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTGATAGAAAATATGTGAATATTTGA
91669251 AA-GTATATTG
65 AATGTATATTG
* *
91669261 ATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATTG-AT--AGAAAATATGTGAATATT
91669326 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
91669340 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
91669367 TGATTGGAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
70 25 0.28
71 2 0.02
72 10 0.11
74 1 0.01
77 1 0.01
78 18 0.20
79 18 0.20
80 13 0.15
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTGATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:91669587 original size:34 final size:36
Alignment explanation
Indices: 91669546--91669613 Score: 106
Period size: 34 Copynumber: 1.9 Consensus size: 36
91669536 AAGTGGAAAA
91669546 GTGAATTTGAATTG-AA-TGAGAATTGA-ATTGAATT
1 GTGAATTTGAATTGAAAGTGA-AATTGACATTGAATT
91669580 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
1 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
91669614 AGTGATTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 14 0.45
35 8 0.26
36 9 0.29
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.35
Consensus pattern (36 bp):
GTGAATTTGAATTGAAAGTGAAATTGACATTGAATT
Found at i:91669614 original size:18 final size:17
Alignment explanation
Indices: 91669543--91669618 Score: 84
Period size: 18 Copynumber: 4.4 Consensus size: 17
91669533 AGAAAGTGGA
*
91669543 AAAGTGAATTTGAATTG
1 AAAGTGAAATTGAATTG
91669560 -AA-TGAGAATTGAATTG
1 AAAGTGA-AATTGAATTG
* *
91669576 AATTGTGAATTTGAATTG
1 AA-AGTGAAATTGAATTG
91669594 AAAGTGAAATTGACATTG
1 AAAGTGAAATTGA-ATTG
91669612 AAAGTGA
1 AAAGTGA
91669619 TTTGAAATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.06
16 11 0.22
17 10 0.20
18 22 0.45
19 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.33
Consensus pattern (17 bp):
AAAGTGAAATTGAATTG
Found at i:91669622 original size:34 final size:33
Alignment explanation
Indices: 91669543--91669624 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 33
91669533 AGAAAGTGGA
91669543 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
1 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
*
91669576 AATTGTGAATTTGAATTGAAAGTGA-AATTGACATTG
1 AA-AGTGAATTTGAATTG-AA-TGAGAATTGA-ATTG
91669612 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
91669625 ATGTGAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.05
34 21 0.49
35 11 0.26
36 9 0.21
ACGTcount: A:0.41, C:0.01, G:0.23, T:0.34
Consensus pattern (33 bp):
AAAGTGAATTTGAATTGAATGAGAATTGAATTG
Found at i:91669631 original size:18 final size:18
Alignment explanation
Indices: 91669543--91669631 Score: 80
Period size: 17 Copynumber: 5.1 Consensus size: 18
91669533 AGAAAGTGGA
91669543 AAAGTGAATTTG-AATTG
1 AAAGTGAATTTGAAATTG
* *
91669560 AATGAGAA-TTG-AATTG
1 AAAGTGAATTTGAAATTG
*
91669576 AATTGTGAATTTG-AATTG
1 AA-AGTGAATTTGAAATTG
* *
91669594 AAAGTGAAATTGACATTG
1 AAAGTGAATTTGAAATTG
91669612 AAAGTG-ATTTGAAATGTG
1 AAAGTGAATTTGAAAT-TG
91669630 AA
1 AA
91669632 TTTGGAGACC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
16 10 0.17
17 26 0.43
18 24 0.40
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.34
Consensus pattern (18 bp):
AAAGTGAATTTGAAATTG
Found at i:91669854 original size:38 final size:36
Alignment explanation
Indices: 91669760--91669854 Score: 82
Period size: 38 Copynumber: 2.6 Consensus size: 36
91669750 CTTCGGATAG
* * * *
91669760 ATTCGATGTGGTACTGGGTATCACTTTGCTTCGGCT
1 ATTCGATGAGGCACTGGGTGTCACTTTGCTTCGACT
* * * * *
91669796 TTGTTGATAAGACACCGGGTGTCAACTTTGCTTCGAACT
1 AT-TCGATGAGGCACTGGGTGTC-ACTTTGCTTCG-ACT
91669835 ATTCGATGAGGCACTGGGTG
1 ATTCGATGAGGCACTGGGTG
91669855 CCAATCTGGT
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 25 0.60
39 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (36 bp):
ATTCGATGAGGCACTGGGTGTCACTTTGCTTCGACT
Found at i:91670716 original size:21 final size:20
Alignment explanation
Indices: 91670678--91670717 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
91670668 TTCTTGGAAC
*
91670678 AGGGCACACGTCCATGTGGA
1 AGGGCACACGCCCATGTGGA
*
91670698 AGGGCAACACGCCCGTGTGG
1 AGGGC-ACACGCCCATGTGG
91670718 TTGTTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGA
Found at i:91672175 original size:94 final size:94
Alignment explanation
Indices: 91672059--91672269 Score: 246
Period size: 94 Copynumber: 2.2 Consensus size: 94
91672049 TGAAGCCATA
* **
91672059 TCCCAGACAGGTCTTACACTAGCTTGTATATCGAAAGGCCGATGCATGTACCAAACATGTCTTAC
1 TCCCAGACATGTCTTACACTAGCTTAAATATCGAAAGGCCGATGCATGTACCAAACATGTCTTAC
*
91672124 ACTAGCTCTCGT-CTCAAT-GCCGATGCATG
66 ACTAGCTCTCATACT--ATGGCCGATGCATG
* * *** * * **
91672153 TGCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATGTCCCCGACATGTCTTAC
1 TCCCAGACATGTCTTACACTAGCTTAAATATCGAAAGGCCGATGCATGTACCAAACATGTCTTAC
* * *
91672218 ACTGGCTCTCATACTGTGGCTGATGCATG
66 ACTAGCTCTCATACTATGGCCGATGCATG
91672247 TCCCAGACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
91672270 ACACATATCA
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
93 1 0.01
94 94 0.97
95 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (94 bp):
TCCCAGACATGTCTTACACTAGCTTAAATATCGAAAGGCCGATGCATGTACCAAACATGTCTTAC
ACTAGCTCTCATACTATGGCCGATGCATG
Found at i:91672249 original size:46 final size:48
Alignment explanation
Indices: 91672059--91672269 Score: 182
Period size: 46 Copynumber: 4.5 Consensus size: 48
91672049 TGAAGCCATA
* ** *** *
91672059 TCCCAGACAGGTCTTACACTAGCTTGTATATCGAAAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATG
* * ** * * *
91672107 TACCAAACATGTCTTACACTAGCTCT---CGTCTCAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCT-TAAATATCTCGAGGCTGATGCATG
* *
91672153 TGCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATG
1 TCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATG
* * * *
91672201 TCCCCGACATGTCTTACACTGGCTCT-CATA-CT-GTGGCTGATGCATG
1 TCCCAGACATGTCTTACACTAGCT-TAAATATCTCGAGGCTGATGCATG
91672247 TCCCAGACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
91672270 ACACATATCA
Statistics
Matches: 134, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.52
47 2 0.01
48 59 0.44
49 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
TCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATG
Found at i:91675589 original size:19 final size:17
Alignment explanation
Indices: 91675561--91675601 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
91675551 TATAATATTT
91675561 TATTACTTTAATATAATAA
1 TATTACTTTAA-ATAA-AA
*
91675580 TATTATTTTAAATAAAA
1 TATTACTTTAAATAAAA
91675597 TATTA
1 TATTA
91675602 AAAAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTACTTTAAATAAAA
Found at i:91683163 original size:5 final size:5
Alignment explanation
Indices: 91683153--91683177 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
91683143 TGAAAAAAAA
91683153 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
91683178 GTGCTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:91684869 original size:12 final size:12
Alignment explanation
Indices: 91684852--91684878 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
91684842 CCGTTGTCTT
91684852 CTTCGATTCCCA
1 CTTCGATTCCCA
91684864 CTTCGATTCCCA
1 CTTCGATTCCCA
91684876 CTT
1 CTT
91684879 ACCTGTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.41, G:0.07, T:0.37
Consensus pattern (12 bp):
CTTCGATTCCCA
Found at i:91691620 original size:86 final size:87
Alignment explanation
Indices: 91691475--91691654 Score: 335
Period size: 86 Copynumber: 2.1 Consensus size: 87
91691465 GCTCACATAA
91691475 AATTTCAATTCTAAATTAAAATAATTTGAATAAGGGTTAAATATAAAATTAGTATTCGAACTTGT
1 AATTTCAATTCTAAATTAAAATAATTTGAATAAGGGTTAAATATAAAATTAGTATTCGAACTTGT
91691540 TCA-CTCTCAGATTGGTACTCG
66 TCATCTCTCAGATTGGTACTCG
91691561 AATTTCAATTCTAAATTAAAATAATTTGAATAAGGGTTAAATATAAAATTAGTATTCGAACTTGT
1 AATTTCAATTCTAAATTAAAATAATTTGAATAAGGGTTAAATATAAAATTAGTATTCGAACTTGT
91691626 TCACTTCTCTCAGATTGGTACTCG
66 TCA--TCTCTCAGATTGGTACTCG
91691650 AATTT
1 AATTT
91691655 TTCTTCCGTC
Statistics
Matches: 91, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
86 68 0.75
89 23 0.25
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (87 bp):
AATTTCAATTCTAAATTAAAATAATTTGAATAAGGGTTAAATATAAAATTAGTATTCGAACTTGT
TCATCTCTCAGATTGGTACTCG
Found at i:91691841 original size:21 final size:21
Alignment explanation
Indices: 91691802--91691842 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
91691792 TGTTTTTTTC
91691802 ATTTTTCATTCTTCTTTTCTT
1 ATTTTTCATTCTTCTTTTCTT
*
91691823 ATTTTTC-TTTTTCTCTTTCT
1 ATTTTTCATTCTTCT-TTTCT
91691843 GGGCTTGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTTTCATTCTTCTTTTCTT
Found at i:91694352 original size:13 final size:14
Alignment explanation
Indices: 91694334--91694385 Score: 72
Period size: 13 Copynumber: 3.9 Consensus size: 14
91694324 GACTAATTTG
91694334 ACAAAA-AAAAATA
1 ACAAAATAAAAATA
*
91694347 ACAAAATAAAAACA
1 ACAAAATAAAAATA
*
91694361 ATAAAA-AAAAATA
1 ACAAAATAAAAATA
91694374 ACAAAATAAAAA
1 ACAAAATAAAAA
91694386 CAATCTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 17 0.52
14 16 0.48
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.10
Consensus pattern (14 bp):
ACAAAATAAAAATA
Found at i:91694354 original size:8 final size:8
Alignment explanation
Indices: 91694338--91694385 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
91694328 AATTTGACAA
91694338 AAAAAAAT
1 AAAAAAAT
*
91694346 AACAAAAT
1 AAAAAAAT
91694354 AAAAACAAT
1 AAAAA-AAT
91694363 AAAAAAAAAT
1 --AAAAAAAT
*
91694373 AACAAAAT
1 AAAAAAAT
91694381 AAAAA
1 AAAAA
91694386 CAATCTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 22 0.67
9 3 0.09
10 3 0.09
11 5 0.15
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:91694366 original size:14 final size:13
Alignment explanation
Indices: 91694334--91694388 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 13
91694324 GACTAATTTG
*
91694334 ACAAAAAAAAATA
1 ACAAAAAAAAACA
91694347 ACAAAATAAAAACA
1 ACAAAA-AAAAACA
* *
91694361 ATAAAAAAAAATA
1 ACAAAAAAAAACA
91694374 ACAAAATAAAAACA
1 ACAAAA-AAAAACA
91694388 A
1 A
91694389 TCTTATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
13 17 0.49
14 18 0.51
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (13 bp):
ACAAAAAAAAACA
Found at i:91694370 original size:18 final size:18
Alignment explanation
Indices: 91694336--91694385 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
91694326 CTAATTTGAC
*
91694336 AAAAAAA-AATAACAAAAT
1 AAAAAAATAA-AAAAAAAT
91694354 AAAAACAATAAAAAAAAAT
1 AAAAA-AATAAAAAAAAAT
*
91694373 AACAAAATAAAAA
1 AAAAAAATAAAAA
91694386 CAATCTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.46
19 13 0.46
20 2 0.07
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAAATAAAAAAAAAT
Found at i:91694372 original size:27 final size:27
Alignment explanation
Indices: 91694336--91694389 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
91694326 CTAATTTGAC
91694336 AAAAAAAAATAACAAAATAAAAACAAT
1 AAAAAAAAATAACAAAATAAAAACAAT
91694363 AAAAAAAAATAACAAAATAAAAACAAT
1 AAAAAAAAATAACAAAATAAAAACAAT
91694390 CTTATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.11
Consensus pattern (27 bp):
AAAAAAAAATAACAAAATAAAAACAAT
Found at i:91694619 original size:77 final size:77
Alignment explanation
Indices: 91694534--91694684 Score: 266
Period size: 77 Copynumber: 2.0 Consensus size: 77
91694524 CATTTTATGA
* * *
91694534 GCATAAATTAAATATTGAAGTGTTTATGAGCTGAGTTCAATTGAATTTAGGTCAAATCATGTTAC
1 GCATAAATTAAACATTGAAGTGTTTATGAGCTGAGCTCAATTAAATTTAGGTCAAATCATGTTAC
91694599 TTGACCAAATTT
66 TTGACCAAATTT
*
91694611 GCATAAATTAAACATTGAGGTGTTTATGAGCTGAGCTCAATTAAATTTAGGTCAAATCATGTTAC
1 GCATAAATTAAACATTGAAGTGTTTATGAGCTGAGCTCAATTAAATTTAGGTCAAATCATGTTAC
91694676 TTGACCAAA
66 TTGACCAAA
91694685 CTCAATTCAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (77 bp):
GCATAAATTAAACATTGAAGTGTTTATGAGCTGAGCTCAATTAAATTTAGGTCAAATCATGTTAC
TTGACCAAATTT
Found at i:91708774 original size:13 final size:14
Alignment explanation
Indices: 91708758--91708793 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
91708748 CAATCTCATA
91708758 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
91708771 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
91708784 TCTC-ATTTCA
1 TCTCAATTTCA
91708794 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:91708783 original size:18 final size:19
Alignment explanation
Indices: 91708745--91708785 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
91708735 TGGTTCGTAT
91708745 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
91708764 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
91708782 TTTC
1 TTTC
91708786 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:91709446 original size:15 final size:15
Alignment explanation
Indices: 91709428--91709477 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
91709418 TTATATATAT
91709428 TATAATTTCAATCAA
1 TATAATTTCAATCAA
*
91709443 TATAAATTCAATCAA
1 TATAATTTCAATCAA
* *
91709458 AATGATTTCAATCAA
1 TATAATTTCAATCAA
91709473 TATAA
1 TATAA
91709478 ATTTGATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAATTTCAATCAA
Found at i:91710938 original size:6 final size:7
Alignment explanation
Indices: 91710920--91710945 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
91710910 CACTCCCTTT
91710920 TAAAAAA
1 TAAAAAA
91710927 TAAAAAA
1 TAAAAAA
91710934 TAAAAAA
1 TAAAAAA
91710941 TAAAA
1 TAAAA
91710946 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:91712989 original size:19 final size:19
Alignment explanation
Indices: 91712967--91713010 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
91712957 CCCAGGCATT
91712967 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
* *
91712986 TGCATTGTATTGCATCATT
1 TGCATTGCATTGCATCATG
91713005 TGCATT
1 TGCATT
91713011 AGATTTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:91716992 original size:47 final size:47
Alignment explanation
Indices: 91716941--91717085 Score: 110
Period size: 47 Copynumber: 3.2 Consensus size: 47
91716931 GGCGGGGAGT
91716941 AGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTAAAGC
1 AGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTAAAGC
* * * * ** *
91716988 AGATCCAAG--AT-G---ATTTGGC-ATCTC-TGTAT-CAGGCAGGGAGC
1 AGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTAC-GTTA--AAGC
*
91717029 AGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGC
1 AGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTAAAGC
* *
91717076 AAATCTAAGA
1 AGATCGAAGA
91717086 TGATTTGGCA
Statistics
Matches: 69, Mismatches: 17, Indels: 24
0.63 0.15 0.22
Matches are distributed among these distances:
38 1 0.01
39 6 0.09
40 3 0.04
41 18 0.26
43 2 0.03
44 2 0.03
45 2 0.03
47 26 0.38
48 3 0.04
49 5 0.07
50 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (47 bp):
AGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTAAAGC
Found at i:91717051 original size:88 final size:88
Alignment explanation
Indices: 91716902--91717125 Score: 360
Period size: 88 Copynumber: 2.6 Consensus size: 88
91716892 AGCTGAAGAT
* *
91716902 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGCT
*
91716967 TTCACGTGTTTACGTTAAAGCAG
66 TTCACGTGTTTACGTTAAAGCAA
91716990 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGCT
*
91717055 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTACGTTAAAGCAA
* * * * *
91717078 ATCTAAGATGATTTGGCATCTCTATAGC-GGCAGAGAGCAGATCAAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGA
91717126 TAACAGATTT
Statistics
Matches: 127, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
87 18 0.14
88 109 0.86
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGCT
TTCACGTGTTTACGTTAAAGCAA
Found at i:91717144 original size:44 final size:44
Alignment explanation
Indices: 91717087--91717682 Score: 546
Period size: 44 Copynumber: 13.4 Consensus size: 44
91717077 AATCTAAGAT
* * * *
91717087 GATTTGGCATCTCTATAGCGGCAGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91717131 GATTTGGCGTCTCTGTAGGGGCGGGGAGCAGATCGAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91717175 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91717219 AATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGGTAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91717263 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * ** * * ** * *
91717307 GATTTGGCGTCTCTGTAGCGGTAAATTTGGCGTCTCTGTAGCGGCGGAGAGCA
1 GATTTGGCGTCTCTGTAGCGG------CGGAG-AGCAG-ATC-GAAGATAACA
* ** * * * * * *
91717360 GA-TCGAAGATAACATATTTGGCGTCTCTGTAAGAGTAGATCGAAGAT----
1 GATTTGGCG-T--C-TCTGTAGCG--GC-G-GAGAGCAGATCGAAGATAACA
* * *
91717407 -ATTTGGCGTCTCTGTAGCGGCGGAGGGTAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91717450 GATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91717494 GATTTGGCGTCTCTGTAGCGGTGGAGAGCTGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91717534 GATTTGGCATCTCTGTAGCAGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
91717578 GATTTGGCGTCTCTGTGGCGACGGAGAGCAGATCAAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91717622 GATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
91717666 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
91717683 TTAGACGTGG
Statistics
Matches: 449, Mismatches: 76, Indels: 54
0.78 0.13 0.09
Matches are distributed among these distances:
39 15 0.03
40 36 0.08
41 1 0.00
43 6 0.01
44 351 0.78
46 2 0.00
47 3 0.01
50 3 0.01
51 5 0.01
52 7 0.02
53 12 0.03
54 1 0.00
55 1 0.00
56 6 0.01
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:91717379 original size:67 final size:72
Alignment explanation
Indices: 91717264--91717470 Score: 298
Period size: 67 Copynumber: 2.9 Consensus size: 72
91717254 AAGGTAGCAG
91717264 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCG-G
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGAG
91717328 -T-A-A-
66 ATAAGAT
* * *
91717331 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTAAGAGT
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT-AGCG-
91717396 AGATCGAAGAT
64 AGAT--AAGAT
* *
91717407 ATTTGGCGTCTCTGTAGCGGCGGAGGGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGA
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGA
91717471 CGGAGAGCAG
Statistics
Matches: 123, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
67 57 0.46
68 3 0.02
70 1 0.01
71 1 0.01
74 2 0.02
75 4 0.03
76 55 0.45
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (72 bp):
ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGAG
ATAAGAT
Found at i:91717589 original size:128 final size:126
Alignment explanation
Indices: 91717331--91717713 Score: 485
Period size: 128 Copynumber: 3.0 Consensus size: 126
91717321 GTAGCGGTAA
* *
91717331 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTA-----
1 ATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGG
* * * *
91717391 AGAG-TAGATCGAAGAT-ATTTGGCGTCTCTGTAGCGGCGGAGGGTAGATCGAAGATAGCAG
66 AGAGCT-GATCGAAGATGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCAAAGATAGCAG
91717451 ATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGT
1 ATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGC-G-
* *
91717516 GGAGAGCTGATCGAAGATGATTTGGCATCTCTGTAGCAGCGGAGAGCAGATCAAAGATAACAG
64 GGAGAGCTGATCGAAGATGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCAAAGATAGCAG
* * *
91717579 ATTTGGCGTCTCTGTGGCGACGGAGAGCAGATCAAAGATAATAGATTTGGCGTCTCTGTAGCGAC
1 ATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCG--
* **
91717644 GGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTATTAGACGTG-GAGCAGATCAAAGATA
64 GGAGAGCTGATCGAAGAT----GATTTGGCGTCTCTGTAGCAG-CG-GAGAGCAGATCAAAGATA
91717708 GCAG
123 GCAG
91717712 AT
1 AT
91717714 ATCGCCTTCC
Statistics
Matches: 230, Mismatches: 17, Indels: 19
0.86 0.06 0.07
Matches are distributed among these distances:
120 58 0.25
127 15 0.07
128 115 0.50
132 18 0.08
133 23 0.10
134 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (126 bp):
ATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGG
AGAGCTGATCGAAGATGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCAAAGATAGCAG
Found at i:91717993 original size:14 final size:14
Alignment explanation
Indices: 91717974--91718000 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91717964 ATACAACCCA
91717974 AAATAATAAAAAAT
1 AAATAATAAAAAAT
91717988 AAATAATAAAAAA
1 AAATAATAAAAAA
91718001 ATGAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAATAAAAAAT
Found at i:91719206 original size:19 final size:19
Alignment explanation
Indices: 91719182--91719219 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
91719172 TTGAGATTGC
91719182 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
91719201 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
91719220 TATTCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:91721273 original size:24 final size:24
Alignment explanation
Indices: 91721246--91721296 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
91721236 TTTCTTTCTT
91721246 TTGCATT-CATCACATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
91721270 TTGCATTGCATCATGTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
91721294 TTG
1 TTG
91721297 TATCATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:91721288 original size:19 final size:19
Alignment explanation
Indices: 91721266--91721309 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
91721256 CACATGCATT
91721266 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
* *
91721285 TGCATTGCATTGTATCATT
1 TGCATTGCATTGCATCATG
91721304 TGCATT
1 TGCATT
91721310 AGATTTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:91723409 original size:6 final size:6
Alignment explanation
Indices: 91723398--91723427 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
91723388 GGCGCTATAT
*
91723398 GGCAAA GGCAAA GGCAAA GGTAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
91723428 AAAAACAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.13, G:0.33, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:91725428 original size:88 final size:87
Alignment explanation
Indices: 91725274--91725497 Score: 342
Period size: 88 Copynumber: 2.6 Consensus size: 87
91725264 AGCTGAAGAT
* *
91725274 ATCCAAGATGATTTGGCATCTCTGCATCAAGCGGGGAGCAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTTGGCT
*
91725339 TTCACGTGTTTACGTTAAAGCAG
65 TTCACGTGTTTACGTTAAAGCAA
* *
91725362 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTGATTTTGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTTGGCT
*
91725427 TTCACGTGTTTACGTTGAAGCAA
65 TTCACGTGTTTACGTTAAAGCAA
* *
91725450 ATCTAAGATGATTTGGCATCTCTGTAGC-GGCGGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGG-GAGCAGATCGAAGA
91725498 TAACAGATTT
Statistics
Matches: 126, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
86 2 0.02
87 17 0.13
88 107 0.85
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (87 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGAGCAGATCGAAGACATAGCTAATTTGGCTT
TCACGTGTTTACGTTAAAGCAA
Found at i:91725516 original size:44 final size:44
Alignment explanation
Indices: 91725459--91725912 Score: 690
Period size: 44 Copynumber: 10.4 Consensus size: 44
91725449 AATCTAAGAT
*
91725459 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91725503 GATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91725547 GATTTGGTGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91725591 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91725635 GATTTGGC-TCTCTGTAGTGGC----AG-AGA--GAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91725671 GATTTGGCGTCTTTGTAGCGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
91725715 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91725759 GATTTGGCGTCTCTATAGCGGCGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGC-G-GC-G--GAGAGCAGATCGAAGATAACA
*
91725808 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
91725852 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91725896 AATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
91725913 TTAGACGGGG
Statistics
Matches: 376, Mismatches: 21, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
36 17 0.05
37 11 0.03
38 3 0.01
39 2 0.01
41 2 0.01
42 3 0.01
43 12 0.03
44 279 0.74
45 1 0.00
46 3 0.01
47 3 0.01
48 1 0.00
49 39 0.10
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:91725815 original size:93 final size:91
Alignment explanation
Indices: 91725661--91725912 Score: 383
Period size: 93 Copynumber: 2.8 Consensus size: 91
91725651 GTGGCAGAGA
** *
91725661 GAAGATAACAGATTTGGCGTCT-TT-G-TAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGC
1 GAAGATAACAGATTTGGCGTCTCTTAGCGGGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGC
91725723 GTCTCTGTAGCGGCGGAGAGCAGATC
66 GTCTCTGTAGCGGCGGAGAGCAGATC
91725749 GAAGATAACAGATTTGGCGTCTCTATAGCGGCGCGGCAGAGAGCAGATCGAAGATAACAGATTTG
1 GAAGATAACAGATTTGGCGTCTCT-TAGCGG-GCGGCAGAGAGCAGATCGAAGATAACAGATTTG
91725814 GCGTCTCTGTAGCGGCGGAGAGCAGATC
64 GCGTCTCTGTAGCGGCGGAGAGCAGATC
* *
91725842 AAAGATAACAGATTTGGCGTCTCTGTAGC-GGC-G--GAGAGCAGATCGAAGATAACAAATTTGG
1 GAAGATAACAGATTTGGCGTCTCT-TAGCGGGCGGCAGAGAGCAGATCGAAGATAACAGATTTGG
91725903 CGTCTCTGTA
65 CGTCTCTGTA
91725913 TTAGACGGGG
Statistics
Matches: 153, Mismatches: 6, Indels: 10
0.91 0.04 0.06
Matches are distributed among these distances:
88 59 0.39
89 1 0.01
90 2 0.01
91 3 0.02
92 1 0.01
93 87 0.57
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (91 bp):
GAAGATAACAGATTTGGCGTCTCTTAGCGGGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGC
GTCTCTGTAGCGGCGGAGAGCAGATC
Found at i:91725901 original size:137 final size:137
Alignment explanation
Indices: 91725661--91725909 Score: 453
Period size: 137 Copynumber: 1.8 Consensus size: 137
91725651 GTGGCAGAGA
* * *
91725661 GAAGATAACAGATTTGGCGTCTTTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTC
1 GAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATAACAGATTTGGCGTC
*
91725726 TCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGGCGCGGCAGAGA
66 TCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTATAGCGGCGCGGCAGAGA
91725791 GCAGATC
131 GCAGATC
*
91725798 GAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTC
1 GAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATAACAGATTTGGCGTC
91725863 TCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCT
66 TCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCT
91725910 GTATTAGACG
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 107 1.00
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (137 bp):
GAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATAACAGATTTGGCGTC
TCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTATAGCGGCGCGGCAGAGA
GCAGATC
Found at i:91726223 original size:14 final size:14
Alignment explanation
Indices: 91726204--91726230 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91726194 ATACAACCCA
91726204 AAATAATAAAAAAT
1 AAATAATAAAAAAT
91726218 AAATAATAAAAAA
1 AAATAATAAAAAA
91726231 ATGAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAATAAAAAAT
Found at i:91727538 original size:6 final size:7
Alignment explanation
Indices: 91727520--91727545 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
91727510 TACTCCCTTT
91727520 TAAAAAA
1 TAAAAAA
91727527 TAAAAAA
1 TAAAAAA
91727534 TAAAAAA
1 TAAAAAA
91727541 TAAAA
1 TAAAA
91727546 TTTCAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:91731428 original size:27 final size:27
Alignment explanation
Indices: 91731391--91731505 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
91731381 AGCATGGCTG
* *
91731391 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
*
91731417 CCAGATACAGATA-ATCGTGGCAGGGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
91731445 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
91731472 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
91731499 CCAGAAC
1 CCAGAAC
91731506 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 16 0.20
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:91731450 original size:54 final size:54
Alignment explanation
Indices: 91731391--91731505 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
91731381 AGCATGGCTG
* *
91731391 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGGGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
91731445 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
91731499 CCAGAAC
1 CCAGAAC
91731506 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:91733158 original size:26 final size:26
Alignment explanation
Indices: 91733122--91733257 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
91733112 CATGAAATTC
*
91733122 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
91733148 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
91733174 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
91733200 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
91733226 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
91733252 TTATCA
1 TTATCA
91733258 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:91735787 original size:13 final size:13
Alignment explanation
Indices: 91735769--91735794 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91735759 TAAGTAAGTT
91735769 TTGATCTATTTTA
1 TTGATCTATTTTA
91735782 TTGATCTATTTTA
1 TTGATCTATTTTA
91735795 AATTTTAATA
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:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTGATCTATTTTA
Found at i:91737518 original size:15 final size:17
Alignment explanation
Indices: 91737490--91737530 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
91737480 ATTTTAAGAT
*
91737490 TTATCTTTAATTTAT-A
1 TTATTTTTAATTTATAA
*
91737506 -TATTTTTATTTTATAA
1 TTATTTTTAATTTATAA
91737522 TTATTTTTA
1 TTATTTTTA
91737531 GGATAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 1 0.05
17 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTTAATTTATAA
Found at i:91749433 original size:7 final size:7
Alignment explanation
Indices: 91749421--91749458 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
91749411 CCTCATCCAT
91749421 TTCCAAC
1 TTCCAAC
91749428 TTCCAAC
1 TTCCAAC
91749435 TTCCAAC
1 TTCCAAC
91749442 TTCCAAC
1 TTCCAAC
91749449 TTCCAAC
1 TTCCAAC
91749456 TTC
1 TTC
91749459 TATAACCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.42, G:0.00, T:0.32
Consensus pattern (7 bp):
TTCCAAC
Found at i:91754963 original size:3 final size:3
Alignment explanation
Indices: 91754955--91755015 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
91754945 TTATATTTAA
91754955 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
91755003 AAG AAG AAG AAG A
1 AAG AAG AAG AAG A
91755016 CATGTGAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:91755527 original size:56 final size:55
Alignment explanation
Indices: 91755441--91755548 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 55
91755431 GTATCCGTTG
* * *
91755441 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGAAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATT-AATTTGAAA
91755497 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATTAATTTG
91755549 CAATCTATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 6 0.12
56 43 0.88
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATTAATTTGAAA
Found at i:91759427 original size:15 final size:15
Alignment explanation
Indices: 91759407--91759443 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
91759397 CTACTTACAA
91759407 GGACTTGTAATTCAT
1 GGACTTGTAATTCAT
91759422 GGACTTGTAATTCAT
1 GGACTTGTAATTCAT
*
91759437 AGACTTG
1 GGACTTG
91759444 ATCCATGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (15 bp):
GGACTTGTAATTCAT
Found at i:91759554 original size:23 final size:24
Alignment explanation
Indices: 91759528--91759580 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
91759518 GTTCGGTGTT
*
91759528 GTATTTCTCTTTAGGAACTTTC-A
1 GTATTTCTCTTTAAGAACTTTCTA
*
91759551 GTATTTCTCTTTAAGAGCTTTCTA
1 GTATTTCTCTTTAAGAACTTTCTA
91759575 -TATTTC
1 GTATTTC
91759581 CACCGAGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (24 bp):
GTATTTCTCTTTAAGAACTTTCTA
Found at i:91759958 original size:15 final size:15
Alignment explanation
Indices: 91759925--91759958 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
91759915 TATTTGAGTG
* *
91759925 AGACGATAGAATTGG
1 AGACGATAGAATCGA
91759940 AGACGATAGAATCGA
1 AGACGATAGAATCGA
91759955 AGAC
1 AGAC
91759959 TTATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (15 bp):
AGACGATAGAATCGA
Found at i:91760402 original size:56 final size:56
Alignment explanation
Indices: 91760289--91760394 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
91760279 CCGTTGGATG
* * * **
91760289 ATAAATCATCACTTTTAATTTGAATGATGCTTATGAATAATTAAATTTGTAAGATA
1 ATAAATCATCACTTTTAATTTAAATGATGCTCATAAATAATTAAATTTACAAGATA
91760345 ATAAATCATCACTTTTAATTTAAAT-AGTG-TCATAAATAATT-AATTTACAA
1 ATAAATCATCACTTTTAATTTAAATGA-TGCTCATAAATAATTAAATTTACAA
91760395 TCTATAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
54 7 0.16
55 11 0.25
56 26 0.59
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (56 bp):
ATAAATCATCACTTTTAATTTAAATGATGCTCATAAATAATTAAATTTACAAGATA
Found at i:91763044 original size:19 final size:18
Alignment explanation
Indices: 91763022--91763074 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
91763012 TTAGTAAAAT
91763022 AAAATAAAATAATATTTCA
1 AAAATAAAATAATATTT-A
*
91763041 AAAATAATAT-ATATCTTA
1 AAAATAAAATAATAT-TTA
* *
91763059 AAATTAAAATACTATT
1 AAAATAAAATAATATT
91763075 ATTATTGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATAAAATAATATTTA
Found at i:91768678 original size:9 final size:9
Alignment explanation
Indices: 91768659--91768690 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
91768649 CAATTTTATT
91768659 AAAAATT-A
1 AAAAATTAA
91768667 AAAAATTAA
1 AAAAATTAA
91768676 AAAAA-TAA
1 AAAAATTAA
91768684 AAAAATT
1 AAAAATT
91768691 GTAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAATTAA
Done.