Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 89
Found at i:6550357 original size:22 final size:22
Alignment explanation
Indices: 6550332--6550400 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
6550322 TGGGGGAGAT
6550332 AGAGAGGGGGAGAGAG-ATCGAG
1 AGAGAGGGGGAGAGAGAAT-GAG
** *
6550354 AGAGATAGGGAAAGAGAATGAG
1 AGAGAGGGGGAGAGAGAATGAG
*
6550376 AGAGAGGAGGAGAGA-AA-GAG
1 AGAGAGGGGGAGAGAGAATGAG
6550396 AGAGA
1 AGAGA
6550401 TGTTTATACG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 8 0.21
21 2 0.05
22 27 0.69
23 2 0.05
ACGTcount: A:0.46, C:0.01, G:0.48, T:0.04
Consensus pattern (22 bp):
AGAGAGGGGGAGAGAGAATGAG
Found at i:6551353 original size:16 final size:17
Alignment explanation
Indices: 6551332--6551366 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6551322 TTTTATAGTA
*
6551332 TTTTAGT-ATTTTTATT
1 TTTTAGTAATTTATATT
6551348 TTTTAGTAATTTATATT
1 TTTTAGTAATTTATATT
6551365 TT
1 TT
6551367 ATATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTAGTAATTTATATT
Found at i:6551354 original size:24 final size:24
Alignment explanation
Indices: 6551321--6551372 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
6551311 ATATTTAAAA
*
6551321 ATTTTATAGTATTTTAGTATTTT-T
1 ATTTTATAGTAATTTA-TATTTTAT
*
6551345 ATTTTTTAGTAATTTATATTTTAT
1 ATTTTATAGTAATTTATATTTTAT
6551369 ATTT
1 ATTT
6551373 AAAAGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (24 bp):
ATTTTATAGTAATTTATATTTTAT
Found at i:6551360 original size:15 final size:16
Alignment explanation
Indices: 6551330--6551367 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6551320 AATTTTATAG
*
6551330 TATTTTAGTATTTTTA
1 TATTTTAGTATATTTA
*
6551346 TTTTTTAGTA-ATTTA
1 TATTTTAGTATATTTA
6551361 TATTTTA
1 TATTTTA
6551368 TATTTAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TATTTTAGTATATTTA
Found at i:6555436 original size:22 final size:22
Alignment explanation
Indices: 6555406--6555489 Score: 123
Period size: 22 Copynumber: 3.8 Consensus size: 22
6555396 AGTCGAGGGT
* *
6555406 TACATAGGTCCTTCGGGACATA
1 TACAGAGGTCCTCCGGGACATA
6555428 TACAGAGGTCCTCCGGGACATA
1 TACAGAGGTCCTCCGGGACATA
6555450 TACAGAGGTCCTCCGGGACATA
1 TACAGAGGTCCTCCGGGACATA
* * *
6555472 TACATAGATCCTTCGGGA
1 TACAGAGGTCCTCCGGGA
6555490 AAAATTTCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (22 bp):
TACAGAGGTCCTCCGGGACATA
Found at i:6555723 original size:17 final size:17
Alignment explanation
Indices: 6555693--6555742 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
6555683 TAAATACAAG
6555693 ATTATATGAT-AAATGTA
1 ATTA-ATGATAAAATGTA
*
6555710 ATTAATGATAAAATGGTG
1 ATTAATGATAAAAT-GTA
*
6555728 A-TAATGATAAGATGT
1 ATTAATGATAAAATGT
6555743 GGATATTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 7 0.24
17 19 0.66
18 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (17 bp):
ATTAATGATAAAATGTA
Found at i:6555747 original size:17 final size:17
Alignment explanation
Indices: 6555712--6555759 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
6555702 TAAATGTAAT
*
6555712 TAATGATAAAATGGTGA
1 TAATGATAAGATGGTGA
6555729 TAATGATAAGAT-GTGGA
1 TAATGATAAGATGGT-GA
*
6555746 TATTGATAATGATG
1 TAATGATAA-GATG
6555760 ACATATGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 2 0.08
17 21 0.81
18 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (17 bp):
TAATGATAAGATGGTGA
Found at i:6568275 original size:41 final size:41
Alignment explanation
Indices: 6568215--6568296 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
6568205 CCAATCTGAG
6568215 AAATAATGTTGGAGATGGATTACTTTGGTAAATGTTTTTTT
1 AAATAATGTTGGAGATGGATTACTTTGGTAAATGTTTTTTT
*
6568256 AAATAATGTTGGAGGTGGATTACTTTGGTAAATGTTTTTTT
1 AAATAATGTTGGAGATGGATTACTTTGGTAAATGTTTTTTT
6568297 TCAAAGGCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.46
Consensus pattern (41 bp):
AAATAATGTTGGAGATGGATTACTTTGGTAAATGTTTTTTT
Found at i:6569325 original size:18 final size:18
Alignment explanation
Indices: 6569290--6569362 Score: 119
Period size: 18 Copynumber: 3.9 Consensus size: 18
6569280 CACGGAATGT
6569290 AAGATTACCAGTGGGAATAA
1 AAGATTACCA--GGGAATAA
6569310 AAGATTACCAGGGAATAA
1 AAGATTACCAGGGAATAA
*
6569328 AAGATTACCAAGGAATAA
1 AAGATTACCAGGGAATAA
6569346 AAGATTACCAGGGAATA
1 AAGATTACCAGGGAATA
6569363 GGATTACTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
18 41 0.80
20 10 0.20
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (18 bp):
AAGATTACCAGGGAATAA
Found at i:6571039 original size:41 final size:41
Alignment explanation
Indices: 6570976--6571057 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
6570966 CTAATCTGAG
* *
6570976 AAATAATGTTGGAGATGGATTACTTTGGTAAATGTTTTTTT
1 AAATAATGTTGGAGATGAATTACTTTGATAAATGTTTTTTT
*
6571017 AAATAATGTTGGAGGTGAATTACTTTGATAAATGTTTTTTT
1 AAATAATGTTGGAGATGAATTACTTTGATAAATGTTTTTTT
6571058 TTTCAAAGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.46
Consensus pattern (41 bp):
AAATAATGTTGGAGATGAATTACTTTGATAAATGTTTTTTT
Found at i:6572718 original size:23 final size:23
Alignment explanation
Indices: 6572690--6572738 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
6572680 AGGTTTGAGC
6572690 TTATTATATATATT-AAACATATA
1 TTATTATATA-ATTGAAACATATA
*
6572713 TTATTATATAATTGTAACATATA
1 TTATTATATAATTGAAACATATA
6572736 TTA
1 TTA
6572739 ATCATACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
TTATTATATAATTGAAACATATA
Found at i:6576200 original size:18 final size:18
Alignment explanation
Indices: 6576161--6576200 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6576151 TTTCCTCCTT
*
6576161 TAAATTATTAATTTGAAG
1 TAAATTATTAATTTCAAG
6576179 TAAATTAATTAATTTCAA-
1 TAAATT-ATTAATTTCAAG
6576197 TAAA
1 TAAA
6576201 AGGATCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
TAAATTATTAATTTCAAG
Found at i:6580655 original size:11 final size:11
Alignment explanation
Indices: 6580639--6580679 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
6580629 GAGACATTTT
6580639 GTAAAAAAAAA
1 GTAAAAAAAAA
6580650 GTAAAAAAAAA
1 GTAAAAAAAAA
6580661 GT-AAAAAAAA
1 GTAAAAAAAAA
6580671 GTAAAAAAA
1 GTAAAAAAA
6580680 GCAAAGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (11 bp):
GTAAAAAAAAA
Found at i:6580657 original size:10 final size:10
Alignment explanation
Indices: 6580642--6580679 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
6580632 ACATTTTGTA
6580642 AAAAAAAAGT
1 AAAAAAAAGT
6580652 AAAAAAAAAGT
1 -AAAAAAAAGT
6580663 AAAAAAAAGT
1 AAAAAAAAGT
6580673 AAAAAAA
1 AAAAAAA
6580680 GCAAAGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAAAAGT
Found at i:6582629 original size:33 final size:32
Alignment explanation
Indices: 6582560--6582660 Score: 148
Period size: 32 Copynumber: 3.1 Consensus size: 32
6582550 GCAATAGAGA
**
6582560 GCATCTTTAAAGATTCAACATCAAATATTGGG
1 GCATCTTTGGAGATTCAACATCAAATATTGGG
*
6582592 GCATCTTTGGAGATTCAACATCAAAATGTTGGG
1 GCATCTTTGGAGATTCAACATC-AAATATTGGG
* *
6582625 GCATCTTTGGAGATTCAATATCGAATATTGGG
1 GCATCTTTGGAGATTCAACATCAAATATTGGG
6582657 GCAT
1 GCAT
6582661 TCAATATCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
32 32 0.52
33 30 0.48
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (32 bp):
GCATCTTTGGAGATTCAACATCAAATATTGGG
Found at i:6583084 original size:75 final size:75
Alignment explanation
Indices: 6582999--6583325 Score: 355
Period size: 75 Copynumber: 4.4 Consensus size: 75
6582989 AAACAAAGTC
* *
6582999 GTCTCACTTGAGACTGTTTTACTTGAAAGAATACATTTCATTTGACTCAAGATTGTTTTTCTTAA
1 GTCTCACTTGAGACTGTTTTACTTGAAAGAAGACATTTCATTTCACTCAAGATTGTTTTTCTTAA
6583064 AACAAGATTT
66 AACAAGATTT
* * * *
6583074 GTCTCACTTGAGACAGGTTTTA-TTCAAAACAAGACATTTCATTTCACT--ACA-TGTTTTTCTT
1 GTCTCACTTGAGAC-TGTTTTACTT-GAAAGAAGACATTTCATTTCACTCAAGATTGTTTTTCTT
6583135 AAAACAAGATTT
64 AAAACAAGATTT
* * * * *
6583147 GTCTCGCTTGAGACATTTTTTA-TTCGAAATAAAAAGATTT-ATTTCACTCAAGATTGTTTTTCT
1 GTCTCACTTGAGAC-TGTTTTACTT-GAAA-GAAGACATTTCATTTCACTCAAGATTGTTTTTCT
6583210 TAAAACAAGATTT
63 TAAAACAAGATTT
* * * *
6583223 ATCTCACTTGAGACTGTTTTACTTGAAAGAAGGCATTTCATTTCACTCAAGACTG-TTTT-TAAA
1 GTCTCACTTGAGACTGTTTTACTTGAAAGAAGACATTTCATTTCACTCAAGATTGTTTTTCTTAA
*
6583286 AAAAAGAATTTT
66 AACAAG-A-TTT
* * **
6583298 GTCTCCCTTGAGACAGTTTCCCTTGAAA
1 GTCTCACTTGAGACTGTTTTACTTGAAA
6583326 CAAATTTTGT
Statistics
Matches: 213, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
73 63 0.30
74 20 0.09
75 69 0.32
76 61 0.29
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (75 bp):
GTCTCACTTGAGACTGTTTTACTTGAAAGAAGACATTTCATTTCACTCAAGATTGTTTTTCTTAA
AACAAGATTT
Found at i:6583141 original size:73 final size:74
Alignment explanation
Indices: 6582999--6583316 Score: 319
Period size: 76 Copynumber: 4.3 Consensus size: 74
6582989 AAACAAAGTC
* * *
6582999 GTCTCACTTGAGACTGTTTTACTTGAAAGAATACATTTCATTTGACTCAAGATTGTTTTTCTTAA
1 GTCTCACTTGAGACTGTTTTACTTAAAAGAAGACATTTCATTTCACT-AAGATTGTTTTTCTTAA
6583064 AACAAGATTT
65 AACAAGATTT
* * *
6583074 GTCTCACTTGAGACAGGTTTTA-TTCAAAACAAGACATTTCATTTCACT-ACA-TGTTTTTCTTA
1 GTCTCACTTGAGAC-TGTTTTACTT-AAAAGAAGACATTTCATTTCACTAAGATTGTTTTTCTTA
6583136 AAACAAGATTT
64 AAACAAGATTT
* * * *
6583147 GTCTCGCTTGAGACATTTTTTA-TTCGAAATA-AAAAGATTT-ATTTCACTCAAGATTGTTTTTC
1 GTCTCACTTGAGAC-TGTTTTACTT--AAA-AGAAGACATTTCATTTCACT-AAGATTGTTTTTC
6583209 TTAAAACAAGATTT
61 TTAAAACAAGATTT
* * * * *
6583223 ATCTCACTTGAGACTGTTTTACTTGAAAGAAGGCATTTCATTTCACTCAAGACTG-TTTT-TAAA
1 GTCTCACTTGAGACTGTTTTACTTAAAAGAAGACATTTCATTTCACT-AAGATTGTTTTTCTTAA
*
6583286 AAAAAGAATTTT
65 AACAAG-A-TTT
* *
6583298 GTCTCCCTTGAGACAGTTT
1 GTCTCACTTGAGACTGTTT
6583317 CCCTTGAAAC
Statistics
Matches: 205, Mismatches: 26, Indels: 24
0.80 0.10 0.09
Matches are distributed among these distances:
73 60 0.29
74 25 0.12
75 59 0.29
76 61 0.30
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (74 bp):
GTCTCACTTGAGACTGTTTTACTTAAAAGAAGACATTTCATTTCACTAAGATTGTTTTTCTTAAA
ACAAGATTT
Found at i:6583241 original size:36 final size:36
Alignment explanation
Indices: 6583052--6583242 Score: 147
Period size: 36 Copynumber: 5.2 Consensus size: 36
6583042 GACTCAAGAT
*
6583052 TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
1 TGTTTTTCTTAAAACAAGATTTATCTCACTTGAGAC
* * * * *
6583088 AGGTTTTATTCAAAACAAGACATTTCATTTCAC-T-ACA-
1 TGTTTTTCTT-AAAACAAG--ATTT-ATCTCACTTGAGAC
* *
6583125 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC
1 TGTTTTTCTTAAAACAAGATTTATCTCACTTGAGAC
* * * ** *
6583161 AT-TTTTTATTCGAAATAAAAAGATTTATTTCACTCAAGAT
1 -TGTTTTTCTT---AA-AACAAGATTTATCTCACTTGAGAC
6583201 TGTTTTTCTTAAAACAAGATTTATCTCACTTGAGAC
1 TGTTTTTCTTAAAACAAGATTTATCTCACTTGAGAC
6583237 TGTTTT
1 TGTTTT
6583243 ACTTGAAAGA
Statistics
Matches: 115, Mismatches: 27, Indels: 26
0.68 0.16 0.15
Matches are distributed among these distances:
33 4 0.03
34 5 0.04
35 2 0.02
36 47 0.41
37 18 0.16
38 2 0.02
39 8 0.07
40 29 0.25
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (36 bp):
TGTTTTTCTTAAAACAAGATTTATCTCACTTGAGAC
Found at i:6583276 original size:39 final size:36
Alignment explanation
Indices: 6583009--6583281 Score: 126
Period size: 36 Copynumber: 7.3 Consensus size: 36
6582999 GTCTCACTTG
* *
6583009 AGACTGTTTTACTTGAAAGA-ATACATTTCATTTGACTCA
1 AGACTGTTTTACTT-AAA-ACA-AGATTT-ATTTCACTCA
* * * * **
6583048 AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTG
1 AGACTGTTTTACTTAAAACAAGATTTATTTCACTCA
*
6583084 AGACAGGTTTTA-TTCAAAACAAGACATTTCATTTCACT--
1 AGAC-TGTTTTACTT-AAAACAAG--ATTT-ATTTCACTCA
* * * * * **
6583122 ACA-TGTTTTTCTTAAAACAAGATTTGTCTCGCTTG
1 AGACTGTTTTACTTAAAACAAGATTTATTTCACTCA
* *
6583157 AGACATTTTTTA-TTCGAAATAAAAAGATTTATTTCACTCA
1 AGAC-TGTTTTACTT---AA-AACAAGATTTATTTCACTCA
* * * **
6583197 AGATTGTTTTTCTTAAAACAAGATTTATCTCACTTG
1 AGACTGTTTTACTTAAAACAAGATTTATTTCACTCA
* *
6583233 AGACTGTTTTACTTGAAAGAAGGCATTTCATTTCACTCA
1 AGACTGTTTTACTTAAAACAA-G-ATTT-ATTTCACTCA
6583272 AGACTGTTTT
1 AGACTGTTTT
6583282 TAAAAAAAAG
Statistics
Matches: 173, Mismatches: 42, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
33 5 0.03
34 4 0.02
35 2 0.01
36 58 0.34
37 29 0.17
38 10 0.06
39 40 0.23
40 25 0.14
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.40
Consensus pattern (36 bp):
AGACTGTTTTACTTAAAACAAGATTTATTTCACTCA
Found at i:6583339 original size:36 final size:36
Alignment explanation
Indices: 6583292--6583378 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
6583282 TAAAAAAAAG
6583292 AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
*
6583328 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
*
6583364 AATTTTATCTCCCTT
1 AATTTTGTCTCCCTT
6583379 AAAACAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (36 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
Found at i:6583404 original size:57 final size:57
Alignment explanation
Indices: 6583316--6583435 Score: 222
Period size: 57 Copynumber: 2.1 Consensus size: 57
6583306 TGAGACAGTT
*
6583316 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTATC
1 TCCCTTAAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTATC
*
6583373 TCCCTTAAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTC
1 TCCCTTAAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTATC
6583430 TCCCTT
1 TCCCTT
6583436 GAGACGGTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.38
Consensus pattern (57 bp):
TCCCTTAAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTATC
Found at i:6583410 original size:93 final size:93
Alignment explanation
Indices: 6583292--6583564 Score: 510
Period size: 93 Copynumber: 2.9 Consensus size: 93
6583282 TAAAAAAAAG
*
6583292 AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCT
1 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCT
6583357 TGAAACAAATTTTATCTCCCTTAAAACA
66 TGAAACAAATTTTATCTCCCTTAAAACA
6583385 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCT
1 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCT
6583450 TGAAACAAATTTTATCTCCCTTAAAACA
66 TGAAACAAATTTTATCTCCCTTAAAACA
* *
6583478 AATTTTGTATCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCT
1 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCT
*
6583543 TGAAACAAATTTTGTCTCCCTT
66 TGAAACAAATTTTATCTCCCTT
6583565 GAGACGGTTT
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 176 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (93 bp):
AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCT
TGAAACAAATTTTATCTCCCTTAAAACA
Found at i:6583413 original size:36 final size:36
Alignment explanation
Indices: 6583373--6583471 Score: 180
Period size: 36 Copynumber: 2.8 Consensus size: 36
6583363 AAATTTTATC
*
6583373 TCCCTTAAAACAAATTTTGTCTCCCTTGAGACGGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
6583409 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
*
6583445 TCCCTTGAAACAAATTTTATCTCCCTT
1 TCCCTTGAAACAAATTTTGTCTCCCTT
6583472 AAAACAAATT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.37
Consensus pattern (36 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
Found at i:6583470 original size:57 final size:57
Alignment explanation
Indices: 6583409--6583530 Score: 217
Period size: 57 Copynumber: 2.1 Consensus size: 57
6583399 TGAGACGGTT
*
6583409 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTATC
1 TCCCTTGAAACAAATTTTGTATCCCTTGAGACGGTTTCCCTTGAAACAAATTTTATC
* *
6583466 TCCCTTAAAACAAATTTTGTATCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTATCCCTTGAGACGGTTTCCCTTGAAACAAATTTTATC
6583523 TCCCTTGA
1 TCCCTTGA
6583531 GACAGTTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (57 bp):
TCCCTTGAAACAAATTTTGTATCCCTTGAGACGGTTTCCCTTGAAACAAATTTTATC
Found at i:6583506 original size:36 final size:36
Alignment explanation
Indices: 6583466--6583694 Score: 377
Period size: 36 Copynumber: 6.4 Consensus size: 36
6583456 AAATTTTATC
* *
6583466 TCCCTTAAAACAAATTTTGTATCCCTTGAGACGGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
*
6583502 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
6583538 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
*
6583574 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
*
6583610 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGTTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
** *
6583646 TCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTC
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
*
6583682 TCCCTTGAGACAA
1 TCCCTTGAAACAA
6583695 TTTCACTTGA
Statistics
Matches: 181, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 181 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (36 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTT
Found at i:6583635 original size:129 final size:129
Alignment explanation
Indices: 6583292--6583638 Score: 490
Period size: 129 Copynumber: 2.7 Consensus size: 129
6583282 TAAAAAAAAG
* *
6583292 AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCT
1 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCT
* * *
6583357 TGAAACAAATTTTATCTCCCTTAAAACAAATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACA
66 TGAAACAAATTTTGTCTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
* * *
6583421 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTATCTCCCTTAAAACAAATTTTGT
1 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC--A----GT
* * * *
6583486 ATCCCTTGAGAC------GGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
60 TTCCCTTGAAACAAATTTTGTCTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
6583545 AAACA
125 AAACA
6583550 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCT
1 AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCT
6583615 TGAAACAAATTTTGTCTCCCTTGA
66 TGAAACAAATTTTGTCTCCCTTGA
6583639 GACGTTTTCC
Statistics
Matches: 187, Mismatches: 19, Indels: 24
0.81 0.08 0.10
Matches are distributed among these distances:
123 12 0.06
127 1 0.01
129 162 0.87
135 12 0.06
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (129 bp):
AATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCT
TGAAACAAATTTTGTCTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
Found at i:6583685 original size:51 final size:53
Alignment explanation
Indices: 6583628--6583734 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 53
6583618 AACAAATTTT
** * *
6583628 GTCTCCCTTGAGACGTTTTCCCTTGAAAC-AA-ATTTTGTCTCCCTTGAGATA
1 GTCTCCCTTGAGACAATTTCACTTGAAACAAAGATTTTATCTCCCTTGAGATA
*
6583679 GTCTCCCTTGAGACAATTTCACTTGAAACAGAAGATTTTATCTCGCTTGAGATA
1 GTCTCCCTTGAGACAATTTCACTTGAAACA-AAGATTTTATCTCCCTTGAGATA
6583733 GT
1 GT
6583735 TTCGCTCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 26 0.54
53 2 0.04
54 20 0.42
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (53 bp):
GTCTCCCTTGAGACAATTTCACTTGAAACAAAGATTTTATCTCCCTTGAGATA
Found at i:6583746 original size:39 final size:39
Alignment explanation
Indices: 6583680--6583756 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
6583670 CTTGAGATAG
* *
6583680 TCTCCCTTGAGACAATTTCACTTGAAACAGAAGATTTTA
1 TCTCCCTTGAGACAATTTCACTCGAAACACAAGATTTTA
* * * * *
6583719 TCTCGCTTGAGATAGTTTCGCTCGAAACACAATATTTT
1 TCTCCCTTGAGACAATTTCACTCGAAACACAAGATTTT
6583757 GAGAAACCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (39 bp):
TCTCCCTTGAGACAATTTCACTCGAAACACAAGATTTTA
Found at i:6583816 original size:43 final size:43
Alignment explanation
Indices: 6583755--6583990 Score: 240
Period size: 43 Copynumber: 5.2 Consensus size: 43
6583745 ACACAATATT
*
6583755 TTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGATAAGC
1 TTGAGGAACCATCGTGATATGTAGGGGTTTCTTGATGATAAGC
*
6583798 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAACTTGATGATAAGC
1 TTGAGGAACCATCGTGATATGTAGGGG----TT--T------CTTGATGATAAGC
* *
6583853 TTGAAGAACCATCGTGATATGTAGGGG-TTCTTTGATGACAAGC
1 TTGAGGAACCATCGTGATATGTAGGGGTTTC-TTGATGATAAGC
* **
6583896 TTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGATAATT
1 TTGAGGAACCATCGTGATATGTAGGGGTTTCTTGATGATAAGC
* * * *
6583939 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAAC
1 TTGAGGAACCATCGTGATATGTAGGGGTTTCTTGATGATAAGC
*
6583982 TTGATGAAC
1 TTGAGGAAC
6583991 ACTTGAGGGA
Statistics
Matches: 161, Mismatches: 18, Indels: 28
0.78 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 114 0.71
44 3 0.02
47 2 0.01
48 1 0.01
49 1 0.01
50 1 0.01
55 38 0.24
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (43 bp):
TTGAGGAACCATCGTGATATGTAGGGGTTTCTTGATGATAAGC
Found at i:6583869 original size:55 final size:55
Alignment explanation
Indices: 6583785--6584026 Score: 203
Period size: 43 Copynumber: 4.9 Consensus size: 55
6583775 GTAGGGGTTT
* *
6583785 CTTGATGATAAGCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
1 CTTGATGATAAGCTTGAAGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
* *
6583840 CTTGATGATAAGCTTGAAGAACCATCGTGATATGTAGGGGTTCTTTGATGACAAG
1 CTTGATGATAAGCTTGAAGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
* *
6583895 C-T--TG---A----G-A-AACCATCGTGATATGTAGGGGTTTCTTGATGA-TAA
1 CTTGATGATAAGCTTGAAGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
*
6583937 -TT--T--TGAG---G--G-ACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
1 CTTGATGATAAGCTTGAAGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
* * *
6583981 CTTGATGA-ACA-CTTGAGGGACCAACGTGATATGTAGGGGTTCCTTG
1 CTTGATGATA-AGCTTGAAGAACCATCGTGATATGTAGGGGTTCCTTG
6584027 GTAAAAATTA
Statistics
Matches: 157, Mismatches: 12, Indels: 37
0.76 0.06 0.18
Matches are distributed among these distances:
42 3 0.02
43 61 0.39
44 4 0.03
45 3 0.02
47 1 0.01
49 2 0.01
51 1 0.01
52 2 0.01
53 1 0.01
54 27 0.17
55 52 0.33
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
CTTGATGATAAGCTTGAAGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
Found at i:6584399 original size:89 final size:90
Alignment explanation
Indices: 6584037--6584447 Score: 671
Period size: 90 Copynumber: 4.6 Consensus size: 90
6584027 GTAAAAATTA
* * *
6584037 AGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTTAAGTCCTTCGGGACATCCATAAGACCTTCAG
1 AGAAACTAAGCCTTCGGGGGTTTCTTGA-TTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCAG
*
6584102 TGCAGGATTTTTTTCAAATGAAATTTT
65 TGCAGGA-TGTTTTCAAATGAAATTTT
* *
6584129 AGAAATTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCGTCCATAAGACCTTCAGT
1 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCAGT
*
6584194 GCAAGATGTTTTCAAATGAAATTTT
66 GCAGGATGTTTTCAAATGAAATTTT
* *
6584219 AAAAACTAAGCCTTCGAGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCAGT
1 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCAGT
6584284 GCAGGATGTTTTCAAATGAAATTTT
66 GCAGGATGTTTTCAAATGAAATTTT
* *
6584309 AGAAACTAATCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCC-TCCATGAGACCTTCAGT
1 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCAGT
6584373 GCAGGATGTTTTCAAATGAAATTTT
66 GCAGGATGTTTTCAAATGAAATTTT
* * *
6584398 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAATCCTTCGGGTCATC
1 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATC
6584448 TGTAAGCCTT
Statistics
Matches: 298, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
89 84 0.28
90 149 0.50
91 39 0.13
92 26 0.09
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (90 bp):
AGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCAGT
GCAGGATGTTTTCAAATGAAATTTT
Found at i:6584423 original size:179 final size:181
Alignment explanation
Indices: 6584037--6584447 Score: 691
Period size: 179 Copynumber: 2.3 Consensus size: 181
6584027 GTAAAAATTA
*
6584037 AGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTTAAGTCCTTCGGGACATCCATAAGACCTTCAG
1 AGAAACTAAGCCTTCGGGGGTTTCTTGA-TTTTTAAGTCCTTCGGGACATCCATAAGACCTTCAG
* *
6584102 TGCAGGATTTTTTTCAAATGAAATTTTAGAAATTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTC
65 TGCAGGATTGTTTTCAAATGAAATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTC
6584167 CTTCGGGCCGTCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAAATTTT
130 CTTCGGGCCGTCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAAATTTT
* * * *
6584219 AAAAACTAAGCCTTCGAGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCAGT
1 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGACATCCATAAGACCTTCAGT
*
6584284 GCAGGA-TGTTTTCAAATGAAATTTTAGAAACTAATCCTTCGGGGGTTTCTTGATTTCTAAGTCC
66 GCAGGATTGTTTTCAAATGAAATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCC
* *
6584348 TTCGGGCC-TCCATGAGACCTTCAGTGCAGGATGTTTTCAAATGAAATTTT
131 TTCGGGCCGTCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAAATTTT
* *
6584398 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAATCCTTCGGGTCATC
1 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGACATC
6584448 TGTAAGCCTT
Statistics
Matches: 214, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
179 85 0.40
180 63 0.29
181 41 0.19
182 25 0.12
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (181 bp):
AGAAACTAAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGACATCCATAAGACCTTCAGT
GCAGGATTGTTTTCAAATGAAATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCC
TTCGGGCCGTCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAAATTTT
Found at i:6586439 original size:18 final size:18
Alignment explanation
Indices: 6586400--6586439 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6586390 TTTCCTCCTT
*
6586400 TAAATTATTAATTTGAAG
1 TAAATTATTAATTTCAAG
6586418 TAAATTAATTAATTTCAA-
1 TAAATT-ATTAATTTCAAG
6586436 TAAA
1 TAAA
6586440 AGGATCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
TAAATTATTAATTTCAAG
Found at i:6587195 original size:11 final size:11
Alignment explanation
Indices: 6587181--6587219 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
6587171 ATATTTAAAT
6587181 ATTATTATTAA
1 ATTATTATTAA
* *
6587192 ATTAATAATAA
1 ATTATTATTAA
6587203 ATTATTATTAA
1 ATTATTATTAA
6587214 ATTATT
1 ATTATT
6587220 TCAAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTATTATTAA
Found at i:6587728 original size:41 final size:39
Alignment explanation
Indices: 6587682--6587778 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 39
6587672 TGATTTATAT
* *
6587682 TAATTTTTAAGCACAAAATAGAAAAAAAATAGAATTATCT
1 TAATTTTTAAGCACAAAATAG-AAAAAAATAAAATTATCC
* * *
6587722 TAAATTTTAAAGCACATAATAGAAAAGAATAAAATTATCC
1 T-AATTTTTAAGCACAAAATAGAAAAAAATAAAATTATCC
*
6587762 TAATTTTTAAGAACAAA
1 TAATTTTTAAGCACAAA
6587779 TGGAAAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 13 0.27
40 17 0.35
41 18 0.38
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.30
Consensus pattern (39 bp):
TAATTTTTAAGCACAAAATAGAAAAAAATAAAATTATCC
Found at i:6587731 original size:40 final size:39
Alignment explanation
Indices: 6587676--6587778 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 39
6587666 ATCATTTGAT
* *
6587676 TTATATTAATTTTTAAGCACAAAATAGAAAAAAAATAGAA
1 TTATCTTAATTTTTAAGCACAAAATAG-AAAAAAATAAAA
* * *
6587716 TTATCTTAAATTTTAAAGCACATAATAGAAAAGAATAAAA
1 TTATCTT-AATTTTTAAGCACAAAATAGAAAAAAATAAAA
* *
6587756 TTATCCTAATTTTTAAGAACAAA
1 TTATCTTAATTTTTAAGCACAAA
6587779 TGGAAAATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
39 13 0.25
40 22 0.42
41 18 0.34
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (39 bp):
TTATCTTAATTTTTAAGCACAAAATAGAAAAAAATAAAA
Found at i:6589293 original size:20 final size:20
Alignment explanation
Indices: 6589268--6589583 Score: 296
Period size: 20 Copynumber: 15.7 Consensus size: 20
6589258 GATTCTCCAG
** *
6589268 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
**
6589288 AATCGCAACGCGAA-CATATA
1 AATCGCAACGCGAATC-CGTA
* *
6589308 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGAATCCGTA
* * *
6589327 CTATCGCAACGAGTATCCGTAAA
1 -AATCGCAACGCGAATCCGT--A
*
6589350 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
6589370 AATCGCAACGAGAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
6589390 AATCGCAACGCGTATCCCTA
1 AATCGCAACGCGAATCCGTA
* *
6589410 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
*
6589430 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
6589450 AATCGCAACGAGAATCCGTA
1 AATCGCAACGCGAATCCGTA
* * * *
6589470 AATCGCAATGTGTATCCCTA
1 AATCGCAACGCGAATCCGTA
* *
6589490 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
*
6589510 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
6589530 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
* *
6589551 AATCACAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
6589571 AATCACAACGCGA
1 AATCGCAACGCGA
6589584 TTTTTAAAGC
Statistics
Matches: 243, Mismatches: 44, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
19 1 0.00
20 207 0.85
21 17 0.07
22 17 0.07
23 1 0.00
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:6589404 original size:40 final size:40
Alignment explanation
Indices: 6589268--6589580 Score: 378
Period size: 40 Copynumber: 7.8 Consensus size: 40
6589258 GATTCTCCAG
* ** * * * **
6589268 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * *
6589308 AATCGCAACGCG-ATTC-TGACTATCGCAACGAGTATCCGTAAA
1 AATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATACGT--A
*
6589350 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
*
6589390 AATCGCAACGCGTATCCCTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
*
6589430 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * *
6589470 AATCGCAATGTGTATCCCTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
*
6589510 AATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-A
* *
6589551 AATCACAACGCGTATCCGTAAATCACAACG
1 AATCGCAACGCGTATCCGTAAATCGCAACG
6589581 CGATTTTTAA
Statistics
Matches: 239, Mismatches: 27, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
39 3 0.01
40 172 0.72
41 29 0.12
42 30 0.13
43 4 0.02
44 1 0.00
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:6590156 original size:20 final size:20
Alignment explanation
Indices: 6590131--6590181 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
6590121 TTCTAAACTT
*
6590131 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
6590151 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
6590171 ACTATCGCAAC
1 AAAATCGCAAC
6590182 GAGAGAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:6590192 original size:21 final size:21
Alignment explanation
Indices: 6590154--6590209 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
6590144 GAAAATGAAA
6590154 ATCGCAAC-ACGA-AAATGACT
1 ATCGCAACGA-GAGAAATGACT
6590174 ATCGCAACGAGAGAAATGACT
1 ATCGCAACGAGAGAAATGACT
6590195 ATCGCAACGAGAGAA
1 ATCGCAACGAGAGAA
6590210 TCGTAACGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (21 bp):
ATCGCAACGAGAGAAATGACT
Found at i:6590235 original size:33 final size:33
Alignment explanation
Indices: 6590195--6590299 Score: 156
Period size: 33 Copynumber: 3.2 Consensus size: 33
6590185 AGAAATGACT
*
6590195 ATCGCAACGAGAGAATCGTAACGCGAAATAAAA
1 ATCGCAACGAGAGAATCGCAACGCGAAATAAAA
* *
6590228 ATTGCAACGAGAGAATCGCAACGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAACGCGAAATAAAA
* **
6590261 ATCGCAACGAAAGAATCGCAACGCGAAACCAAA
1 ATCGCAACGAGAGAATCGCAACGCGAAATAAAA
6590294 ATCGCA
1 ATCGCA
6590300 TTGCGATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAACGCGAAATAAAA
Found at i:6590265 original size:19 final size:18
Alignment explanation
Indices: 6590241--6590299 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
6590231 GCAACGAGAG
6590241 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
6590260 AATCGCAA--CGAAAG--
1 AATCGCAACGCGAAAGAA
*
6590274 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
6590293 AATCGCA
1 AATCGCA
6590300 TTGCGATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 8 0.24
16 6 0.18
17 5 0.15
19 15 0.44
ACGTcount: A:0.47, C:0.25, G:0.19, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:6590317 original size:19 final size:19
Alignment explanation
Indices: 6590295--6590378 Score: 115
Period size: 19 Copynumber: 4.7 Consensus size: 19
6590285 GAAACCAAAA
*
6590295 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6590314 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
6590328 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6590347 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6590366 TCGCGTTGCGATT
1 TCGCGTTGCGATT
6590379 CTCTCGTTGC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
19 41 0.72
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6590378 original size:52 final size:52
Alignment explanation
Indices: 6590295--6590432 Score: 186
Period size: 52 Copynumber: 2.6 Consensus size: 52
6590285 GAAACCAAAA
* ***
6590295 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGCCATT
6590347 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGCCATT
* ** *
6590399 TCCGTGTTGCGATAGTCATTCTCTCGTTGCGATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATT
6590433 TTCATTTCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
52 49 0.64
53 15 0.20
54 12 0.16
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.43
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGCCATT
Found at i:6590427 original size:20 final size:20
Alignment explanation
Indices: 6590376--6590431 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
6590366 TCGCGTTGCG
6590376 ATTCTCTCGTTGCGATAGCC
1 ATTCTCTCGTTGCGATAGCC
*
6590396 ATT-TC-CGTGTTGCGATAGTC
1 ATTCTCTC--GTTGCGATAGCC
6590416 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
6590432 TTTCATTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 25 0.81
21 2 0.06
22 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGCC
Found at i:6590437 original size:20 final size:19
Alignment explanation
Indices: 6590300--6590440 Score: 106
Period size: 19 Copynumber: 7.8 Consensus size: 19
6590290 CAAAATCGCA
*
6590300 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
6590319 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
*
6590333 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
*
6590352 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
6590371 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
***
6590385 TTGCGATAGCCATTTC-CGTG
1 TTGCGATTTTCATTTCTC--G
**
6590405 TTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATT-TCTCG
6590425 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
6590441 AACCAAAAGA
Statistics
Matches: 100, Mismatches: 8, Indels: 28
0.74 0.06 0.21
Matches are distributed among these distances:
14 20 0.20
16 4 0.04
17 6 0.06
18 1 0.01
19 39 0.39
20 27 0.27
21 2 0.02
22 1 0.01
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:6591726 original size:18 final size:18
Alignment explanation
Indices: 6591703--6591747 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
6591693 ACTTCGAGAA
6591703 CCATCACCTCACCCAGAG
1 CCATCACCTCACCCAGAG
6591721 CCATCACCTCACCCAGAG
1 CCATCACCTCACCCAGAG
6591739 CCATCACCT
1 CCATCACCT
6591748 GATCGACCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.51, G:0.09, T:0.13
Consensus pattern (18 bp):
CCATCACCTCACCCAGAG
Found at i:6592053 original size:84 final size:84
Alignment explanation
Indices: 6591912--6592085 Score: 339
Period size: 84 Copynumber: 2.1 Consensus size: 84
6591902 AGTTATGTGA
6591912 TGAGGTCAATACCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGG
1 TGAGGTCAATACCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGG
6591977 AGGTGTCTACTTTACGTGG
66 AGGTGTCTACTTTACGTGG
*
6591996 TGAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGG
1 TGAGGTCAATACCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGG
6592061 AGGTGTCTACTTTACGTGG
66 AGGTGTCTACTTTACGTGG
6592080 TGAGGT
1 TGAGGT
6592086 TGCCGCTCTA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.28
Consensus pattern (84 bp):
TGAGGTCAATACCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGG
AGGTGTCTACTTTACGTGG
Found at i:6592393 original size:94 final size:94
Alignment explanation
Indices: 6592232--6592704 Score: 851
Period size: 94 Copynumber: 5.0 Consensus size: 94
6592222 AGATTGCTTT
* * * *
6592232 GTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTCTTTAACACTGTGAAGTTAGTA
1 GTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
*
6592297 TTTGTCTTTTGTTTTTTCTTTTGGTTG-AA
66 TTTGTC-TTTGTTTTGTCTTTTGGTTGAAA
*
6592326 GTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
1 GTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
6592391 TTTGTCTTTGTTTTGTCTTTTGGTTGAAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAA
6592420 GTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
1 GTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
6592485 TTTGTCTTTGTTTTGTCTTTTGGTTGAAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAA
6592514 GTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
1 GTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
6592579 TTTGTCTTTGTTTTGTCTTTTGGTTGAAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAA
* *
6592608 GTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGTA
1 GTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
6592673 TTTGTCTTTGTTTTGTCTTTTGGTTG-AA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAA
6592701 GTAA
1 GTAA
6592705 TGCAATCCAT
Statistics
Matches: 371, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
93 25 0.07
94 346 0.93
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (94 bp):
GTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAA
Found at i:6592816 original size:19 final size:19
Alignment explanation
Indices: 6592792--6592923 Score: 105
Period size: 19 Copynumber: 7.7 Consensus size: 19
6592782 AAAAATGACT
6592792 ATCGCAACGCGAAACGAAA
1 ATCGCAACGCGAAACGAAA
*
6592811 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAACGAAA
* *
6592825 ATCGCAACGAGAAATGAAA
1 ATCGCAACGCGAAACGAAA
*
6592844 ATCGCAA--CG-AGCG--A
1 ATCGCAACGCGAAACGAAA
6592858 ATCGCAACGCGAAACGAAA
1 ATCGCAACGCGAAACGAAA
*
6592877 ATTGCAA--CG--AC-AAA
1 ATCGCAACGCGAAACGAAA
*
6592891 ATCGCAACGCGAAACCAAA
1 ATCGCAACGCGAAACGAAA
6592910 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
6592924 TTATAATCGC
Statistics
Matches: 89, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
14 27 0.30
15 3 0.03
16 7 0.08
17 8 0.09
18 3 0.03
19 41 0.46
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.08
Consensus pattern (19 bp):
ATCGCAACGCGAAACGAAA
Found at i:6592829 original size:14 final size:14
Alignment explanation
Indices: 6592810--6592866 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6592800 GCGAAACGAA
6592810 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6592824 AATCGCAACGAGAAATG
1 AATCGCAACGAG--A-G
*
6592841 AAAATCGCAACGAGCG
1 --AATCGCAACGAGAG
6592857 AATCGCAACG
1 AATCGCAACG
6592867 CGAAACGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 22 0.59
16 2 0.05
17 1 0.03
19 12 0.32
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6592844 original size:33 final size:33
Alignment explanation
Indices: 6592792--6592918 Score: 191
Period size: 33 Copynumber: 3.8 Consensus size: 33
6592782 AAAAATGACT
6592792 ATCGCAACGCGAAACGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAACGAAAATCGCAACGAGAGA
* * *
6592825 ATCGCAACGAGAAATGAAAATCGCAACGAGCGA
1 ATCGCAACGCGAAACGAAAATCGCAACGAGAGA
* * *
6592858 ATCGCAACGCGAAACGAAAATTGCAACGACAAA
1 ATCGCAACGCGAAACGAAAATCGCAACGAGAGA
*
6592891 ATCGCAACGCGAAACCAAAATCGCAACG
1 ATCGCAACGCGAAACGAAAATCGCAACG
6592919 CGAAATTATA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.08
Consensus pattern (33 bp):
ATCGCAACGCGAAACGAAAATCGCAACGAGAGA
Found at i:6592952 original size:19 final size:19
Alignment explanation
Indices: 6592930--6593012 Score: 86
Period size: 19 Copynumber: 4.6 Consensus size: 19
6592920 GAAATTATAA
*
6592930 TCGCGTTACGATTTTCGTT
1 TCGCGTTGCGATTTTCGTT
* *
6592949 TCGCATTGC-A-ATTC---
1 TCGCGTTGCGATTTTCGTT
* *
6592963 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCGTT
6592982 TCGCGTTGCGATTTTCGTT
1 TCGCGTTGCGATTTTCGTT
6593001 TCGCGTTGCGAT
1 TCGCGTTGCGAT
6593013 AGTCATTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
14 7 0.14
15 1 0.02
16 3 0.06
17 3 0.06
18 1 0.02
19 36 0.71
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCGTT
Found at i:6593514 original size:21 final size:21
Alignment explanation
Indices: 6593490--6593556 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
6593480 TCATTCCTCG
6593490 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
6593511 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
6593532 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
6593553 AGAG
1 AGAG
6593557 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:6594939 original size:14 final size:14
Alignment explanation
Indices: 6594905--6594941 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6594895 GATTGTTTAA
6594905 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
6594919 ATAATTTGTAAAAG
1 TTGATTTGTAAAAG
6594933 TTGATTTGT
1 TTGATTTGT
6594942 TTAATTGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:6595070 original size:19 final size:19
Alignment explanation
Indices: 6595048--6595106 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
6595038 AAAAATGACT
6595048 ATCGCAATACGAAATGAAA
1 ATCGCAATACGAAATGAAA
*
6595067 ATCGC-A-ACG--A-GAGA
1 ATCGCAATACGAAATGAAA
*
6595081 ATCGCAATGCGAAATGAAA
1 ATCGCAATACGAAATGAAA
6595100 ATCGCAA
1 ATCGCAA
6595107 CGACAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 2 0.06
17 3 0.09
18 2 0.06
19 15 0.47
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATACGAAATGAAA
Found at i:6595094 original size:33 final size:33
Alignment explanation
Indices: 6595048--6595127 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
6595038 AAAAATGACT
* * *
6595048 ATCGCAATACGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
6595081 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
6595114 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
6595128 CTAAATTCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:6595155 original size:19 final size:19
Alignment explanation
Indices: 6595133--6595328 Score: 135
Period size: 19 Copynumber: 11.3 Consensus size: 19
6595123 CGAAACTAAA
*
6595133 TTCGCGTTGCGATTTTCCT
1 TTCGCGTTGCGATTTTCAT
*
6595152 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
6595167 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
6595185 TTCGCGTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
6595200 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
6595218 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
**
6595237 TTCCGCGTTGCGATAGTCAT
1 TT-CGCGTTGCGATTTTCAT
6595257 ATTCGCGTTGCGATTTTCA-
1 -TTCGCGTTGCGATTTTCAT
*
6595276 ----CGTTACGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
6595291 TTCGCATTGCGATTTTCA-
1 TTCGCGTTGCGATTTTCAT
6595309 ----CGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
6595324 TTCGC
1 TTCGC
6595329 ATTACTAATA
Statistics
Matches: 139, Mismatches: 16, Indels: 44
0.70 0.08 0.22
Matches are distributed among these distances:
14 45 0.32
16 6 0.04
17 6 0.04
19 50 0.36
20 30 0.22
21 2 0.01
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:6595177 original size:14 final size:14
Alignment explanation
Indices: 6595158--6595212 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
6595148 TCCTTTCGCA
6595158 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
6595172 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
6595191 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
6595205 TTGCGATT
1 TTGCGATT
6595213 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:6595179 original size:33 final size:33
Alignment explanation
Indices: 6595137--6595331 Score: 228
Period size: 33 Copynumber: 5.7 Consensus size: 33
6595127 ACTAAATTCG
* *
6595137 CGTTGCGATTTTCCTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCA
* *
6595170 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCA
*
6595203 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CA
** * *
6595242 CGTTGCGATAGTCATATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCA
* *
6595276 CGTTACGATTTTCATTTCGCATTGCGATTTTCA
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCA
6595309 CGTTGCGATTTTCATTTCGCATT
1 CGTTGCGATTTTCATTTCGCATT
6595332 ACTAATACAT
Statistics
Matches: 141, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
33 97 0.69
34 13 0.09
35 3 0.02
38 2 0.01
39 14 0.10
40 12 0.09
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCA
Found at i:6595249 original size:20 final size:19
Alignment explanation
Indices: 6595170--6595270 Score: 95
Period size: 20 Copynumber: 5.5 Consensus size: 19
6595160 GCGATTCTCT
**
6595170 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
6595189 CGTTGCGAT--TC---TCT
1 CGTTGCGATAGTCATTTCG
**
6595203 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
6595222 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
6595242 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAT-TTCG
6595262 CGTTGCGAT
1 CGTTGCGAT
6595271 TTTCACGTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 25 0.36
20 27 0.39
21 2 0.03
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.41
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:6595284 original size:14 final size:14
Alignment explanation
Indices: 6595262--6595322 Score: 68
Period size: 14 Copynumber: 4.0 Consensus size: 14
6595252 GTCATATTCG
6595262 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
*
6595276 CGTTACGATTTTCA
1 CGTTGCGATTTTCA
6595290 TTTCGCATTGCGATTTTCA
1 ---CG--TTGCGATTTTCA
6595309 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
6595323 TTTCGCATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 25 0.62
16 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:6595288 original size:106 final size:105
Alignment explanation
Indices: 6595135--6595331 Score: 295
Period size: 106 Copynumber: 1.9 Consensus size: 105
6595125 AAACTAAATT
** * * * *
6595135 CGCGTTGCGATTTTCCTTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
1 CGCGTTGCGATAGTCATTTCGCATTGCGATTCTCACGTTACGATTTTCATTTCGCATTGCGATTC
*
6595200 TCTCGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
66 TCACGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
* *
6595240 CGCGTTGCGATAGTCATATTCGCGTTGCGATTTTCACGTTACGATTTTCATTTCGCATTGCGATT
1 CGCGTTGCGATAGTCAT-TTCGCATTGCGATTCTCACGTTACGATTTTCATTTCGCATTGCGATT
*
6595305 TTCACGTTGCGATTTTCATTTCGCATT
65 CTCACGTTGCGATTTTCATTTCGCATT
6595332 ACTAATACAT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
105 14 0.17
106 67 0.83
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (105 bp):
CGCGTTGCGATAGTCATTTCGCATTGCGATTCTCACGTTACGATTTTCATTTCGCATTGCGATTC
TCACGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
Found at i:6597930 original size:12 final size:12
Alignment explanation
Indices: 6597909--6597942 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6597899 GGTTGTGGGT
*
6597909 TTTGAGATTGTG
1 TTTGATATTGTG
6597921 TTTGATATTGTG
1 TTTGATATTGTG
*
6597933 TTTGGTATTG
1 TTTGATATTG
6597943 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:6598495 original size:17 final size:17
Alignment explanation
Indices: 6598473--6598510 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
6598463 CGGATGGGGA
6598473 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
6598490 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
6598507 AGGA
1 AGGA
6598511 ATGGATGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.37, T:0.32
Consensus pattern (17 bp):
AGGATGTCGTTGGATAT
Found at i:6598519 original size:22 final size:20
Alignment explanation
Indices: 6598470--6598520 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 20
6598460 TGCCGGATGG
6598470 GGAAGGATGTCGTTGGATAT
1 GGAAGGATGTCGTTGGATAT
6598490 ---AGGATGTCGTTGGATAT
1 GGAAGGATGTCGTTGGATAT
6598507 AGGAATGGATGTCG
1 -GGAA-GGATGTCG
6598521 CCGGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 17 0.65
21 1 0.04
22 8 0.31
ACGTcount: A:0.25, C:0.06, G:0.39, T:0.29
Consensus pattern (20 bp):
GGAAGGATGTCGTTGGATAT
Found at i:6598644 original size:20 final size:20
Alignment explanation
Indices: 6598618--6599011 Score: 455
Period size: 20 Copynumber: 19.4 Consensus size: 20
6598608 AAATTTCAGT
*
6598618 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
* *
6598638 ATTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
** *
6598658 GTTATGATTTTACGTATTCTC
1 GTTGCGA-TTTACGGATTCTC
* *
6598679 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
6598699 GTTGCGATTTACGGATTCTC
1 GTTGCGATTTACGGATTCTC
*
6598719 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
* * *
6598739 GTTGCAATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
*
6598759 ATTGCGATTTACGGATTCTC
1 GTTGCGATTTACGGATTCTC
* *
6598779 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
*
6598799 GTTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATTCTC
* * *
6598819 GTTGCGATTTAGGGATACGC
1 GTTGCGATTTACGGATTCTC
*
6598839 GTTTCGATTTACGGATTCTC
1 GTTGCGATTTACGGATTCTC
* *
6598859 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
6598879 ATTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATTCTC
* *
6598899 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
*
6598919 GTTGCGATTTTACGTATTCTC
1 GTTGCGA-TTTACGGATTCTC
* *
6598940 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
*
6598960 GTTGCGATTTTTACGGATACTC
1 GTTGCGA--TTTACGGATTCTC
*
6598982 GTTGCGATTTTTACGGATACTC
1 GTTGCGA--TTTACGGATTCTC
6599004 GTTGCGAT
1 GTTGCGAT
6599012 AGTCAGAATC
Statistics
Matches: 316, Mismatches: 54, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
20 242 0.77
21 33 0.10
22 41 0.13
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:6598721 original size:40 final size:40
Alignment explanation
Indices: 6598618--6599011 Score: 509
Period size: 40 Copynumber: 9.7 Consensus size: 40
6598608 AAATTTCAGT
* * * * *
6598618 GTTGCGATTTACAGATTCTCATTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCTC
** * * * * *
6598658 GTTATGATTTTACGTATTCTCGTTGCGATTTACGGATACGC
1 GTTGCGA-TTTACGGATACGCGTTGCGATTTACGGATTCTC
* * *
6598699 GTTGCGATTTACGGATTCTCGTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCTC
* *
6598739 GTTGCAATTTACGGATACGCATTGCGATTTACGGATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCTC
*
6598779 GTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCTC
* *
6598819 GTTGCGATTTAGGGATACGCGTTTCGATTTACGGATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCTC
* *
6598859 GTTGCGATTTACGGATACGCATTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCTC
*
6598899 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGA-TTTACGGATTCTC
*
6598940 GTTGCGATTTACGGATACGCGTTGCGATTTTTACGGATACTC
1 GTTGCGATTTACGGATACGCGTTGCGA--TTTACGGATTCTC
*
6598982 GTTGCGATTTTTACGGATACTCGTTGCGAT
1 GTTGCGA--TTTACGGATACGCGTTGCGAT
6599012 AGTCAGAATC
Statistics
Matches: 316, Mismatches: 33, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
40 205 0.65
41 72 0.23
42 20 0.06
44 19 0.06
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (40 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCTC
Found at i:6599042 original size:21 final size:21
Alignment explanation
Indices: 6599016--6599135 Score: 77
Period size: 21 Copynumber: 5.8 Consensus size: 21
6599006 TGCGATAGTC
*
6599016 AGAATCGCGTTGCGATTATGG
1 AGAATCGCGTTGCGATTCTGG
** *
6599037 AGAATCGCAATGCGAATT-TGT
1 AGAATCGCGTTGCG-ATTCTGG
** * * **
6599058 ACTATCGCATTGCGATTTTAC
1 AGAATCGCGTTGCGATTCTGG
*
6599079 AGAATCGCGTTACGATTCTGG
1 AGAATCGCGTTGCGATTCTGG
**
6599100 A-AA-CTGATTTGCGATTCTGG
1 AGAATC-GCGTTGCGATTCTGG
6599120 AG-ATCGCGTTGCGATT
1 AGAATCGCGTTGCGATT
6599136 TTTATTTCGC
Statistics
Matches: 74, Mismatches: 20, Indels: 11
0.70 0.19 0.10
Matches are distributed among these distances:
19 1 0.01
20 28 0.38
21 42 0.57
22 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (21 bp):
AGAATCGCGTTGCGATTCTGG
Found at i:6599804 original size:22 final size:22
Alignment explanation
Indices: 6599777--6599820 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6599767 TGTTCAAAAC
6599777 TTTTAAAT-TTTGAACTTAATTA
1 TTTTAAATATTTGAA-TTAATTA
*
6599799 TTTTAAATATTTTAATTAATTA
1 TTTTAAATATTTGAATTAATTA
6599821 AAATTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTAAATATTTGAATTAATTA
Found at i:6599831 original size:17 final size:17
Alignment explanation
Indices: 6599801--6599835 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6599791 CTTAATTATT
6599801 TTAAATATTTTAATTAA
1 TTAAATATTTTAATTAA
6599818 TTAAA-ATTTATAATTAA
1 TTAAATATTT-TAATTAA
6599835 T
1 T
6599836 ATATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATATTTTAATTAA
Found at i:6599844 original size:22 final size:21
Alignment explanation
Indices: 6599810--6599850 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6599800 TTTAAATATT
*
6599810 TTAATTAATTAAAATTTATAA
1 TTAATTAATTAAAAATTATAA
*
6599831 TTAATATATTTAAAAATTAT
1 TTAAT-TAATTAAAAATTAT
6599851 TTCTAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTAATTAAAAATTATAA
Found at i:6600929 original size:21 final size:20
Alignment explanation
Indices: 6600896--6601012 Score: 80
Period size: 21 Copynumber: 5.7 Consensus size: 20
6600886 TAAGAATTTT
6600896 TATT-TTTATATTACTAAAATA
1 TATTATTTA-ATTA-TAAAATA
6600917 TATTATTTAATTATTAAAATA
1 TATTATTTAATTA-TAAAATA
** *
6600938 TAAAATTT-ATTATAACATA
1 TATTATTTAATTATAAAATA
*
6600957 TATTAATTTAATCGT-TTAAATA
1 TATT-ATTTAAT--TATAAAATA
* **
6600979 TAATAAATAATTAT-AAATA
1 TATTATTTAATTATAAAATA
6600998 TATTATTTTAATTAT
1 TATTA-TTTAATTAT
6601013 TTTAAAATAT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
19 18 0.24
20 16 0.21
21 28 0.37
22 12 0.16
23 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.50
Consensus pattern (20 bp):
TATTATTTAATTATAAAATA
Found at i:6600966 original size:41 final size:41
Alignment explanation
Indices: 6600912--6601022 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
6600902 TATATTACTA
*
6600912 AAATATATT-ATTTAATTATTAAAATATAA-AATTTATTAT
1 AAATATATTAATTTAATTATTAAAATATAATAAATTATTAT
** * *
6600951 AACATATATTAATTTAATCGTTTAAATATAATAAATAATTAT
1 AA-ATATATTAATTTAATTATTAAAATATAATAAATTATTAT
*
6600993 AAATATATTATTTTAATTATTTTAAAATAT
1 AAATATATTAATTTAATTA--TTAAAATAT
6601023 TTGGATCGGA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
39 2 0.03
40 7 0.12
41 31 0.53
42 10 0.17
43 8 0.14
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (41 bp):
AAATATATTAATTTAATTATTAAAATATAATAAATTATTAT
Found at i:6602740 original size:12 final size:13
Alignment explanation
Indices: 6602705--6602747 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
6602695 TTGACCAGTT
6602705 TTGACCCGACCCG
1 TTGACCCGACCCG
6602718 TTGACCCGACCCG
1 TTGACCCGACCCG
*
6602731 TTGA-CCGACCTG
1 TTGACCCGACCCG
6602743 TTGAC
1 TTGAC
6602748 TGTTGACCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.16, C:0.40, G:0.23, T:0.21
Consensus pattern (13 bp):
TTGACCCGACCCG
Found at i:6602794 original size:29 final size:28
Alignment explanation
Indices: 6602757--6602976 Score: 192
Period size: 29 Copynumber: 7.6 Consensus size: 28
6602747 CTGTTGACCG
* * *
6602757 GGTGGTATTTTGGTAATTATTTTGAAAAT
1 GGTGCTATTTTCGTAATTATTTT-AAAAA
* * *
6602786 GGTAG-TATTCTGGTAATTATCTTGAAAAA
1 GGT-GCTATTTTCGTAATTAT-TTTAAAAA
* *
6602815 GATGATATTTTCGTAATTATTTTAAAAAAA
1 GGTGCTATTTTCGTAATTATTTT--AAAAA
* * *
6602845 GGTGTTATTTTAGTAATTATTTTCAAAAT
1 GGTGCTATTTTCGTAATTATTTT-AAAAA
* *
6602874 GGTGCTATTTTTGTAATTATTTCTAAAAG
1 GGTGCTATTTTCGTAATTATTT-TAAAAA
* *
6602903 GGTTCTATTTTAGTAATTATTTCT-AAAA
1 GGTGCTATTTTCGTAATTATTT-TAAAAA
*
6602931 GGATGCTATTTTCGTAATTATTTTTAAAAG
1 GG-TGCTATTTTCGTAATTA-TTTTAAAAA
6602961 GGTGCTATTTTCGTAA
1 GGTGCTATTTTCGTAA
6602977 AATGGTTGAT
Statistics
Matches: 161, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
28 8 0.05
29 116 0.72
30 37 0.23
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.46
Consensus pattern (28 bp):
GGTGCTATTTTCGTAATTATTTTAAAAA
Found at i:6602912 original size:88 final size:86
Alignment explanation
Indices: 6602757--6602976 Score: 221
Period size: 88 Copynumber: 2.5 Consensus size: 86
6602747 CTGTTGACCG
* * * * *
6602757 GGTGGTATTTTGGTAATTATTTTGAAAATGGTAG-TATTCTGGTAATTATCTTGAAAAAGATGAT
1 GGTGCTATTTTAGTAATTATTTTCAAAATGGT-GCTATTTTCGTAATTATCTTGAAAAAGATGAT
*
6602821 ATTTTCGTAATTATTT-TAAAAAAA
65 ATTTTAGTAATTATTTCT---AAAA
* * * * * **
6602845 GGTGTTATTTTAGTAATTATTTTCAAAATGGTGCTATTTTTGTAATTAT-TTCTAAAAGGGTTCT
1 GGTGCTATTTTAGTAATTATTTTCAAAATGGTGCTATTTTCGTAATTATCTT-GAAAAAGATGAT
6602909 ATTTTAGTAATTATTTCTAAAA
65 ATTTTAGTAATTATTTCTAAAA
* * *
6602931 GGATGCTATTTTCGTAATTATTTTTAAAAGGGTGCTATTTTCGTAA
1 GG-TGCTATTTTAGTAATTATTTTCAAAATGGTGCTATTTTCGTAA
6602977 AATGGTTGAT
Statistics
Matches: 112, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
86 6 0.05
87 41 0.37
88 64 0.57
89 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.46
Consensus pattern (86 bp):
GGTGCTATTTTAGTAATTATTTTCAAAATGGTGCTATTTTCGTAATTATCTTGAAAAAGATGATA
TTTTAGTAATTATTTCTAAAA
Found at i:6610136 original size:17 final size:17
Alignment explanation
Indices: 6610114--6610160 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
6610104 TTTGACCGTT
6610114 TTGACCCGACCCGACCA
1 TTGACCCGACCCGACCA
6610131 TTGACCCGACCCGACCA
1 TTGACCCGACCCGACCA
6610148 TTGACCCGACCCG
1 TTGACCCGACCCG
6610161 TTGACCTACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.21, C:0.47, G:0.19, T:0.13
Consensus pattern (17 bp):
TTGACCCGACCCGACCA
Found at i:6610230 original size:29 final size:29
Alignment explanation
Indices: 6610193--6610413 Score: 228
Period size: 29 Copynumber: 7.6 Consensus size: 29
6610183 ACTATTGACC
* *
6610193 GGGTGGTATTTTGGTAATTATTTTGAAAA
1 GGGTGCTATTTTAGTAATTATTTTGAAAA
* * * * * *
6610222 TGGTGGTATTCTGGTAATTGTCTTGAAAA
1 GGGTGCTATTTTAGTAATTATTTTGAAAA
* ** *
6610251 GGGTGTTATTTTCTTAATTATTTTTAAAAA
1 GGGTGCTATTTTAGTAATTA-TTTTGAAAA
* **
6610281 GGGTGTTATTTTAGTAATTATTTCCAAAA
1 GGGTGCTATTTTAGTAATTATTTTGAAAA
* *
6610310 GGGTGCTATTTTTGTAATTATTTTTAAAA
1 GGGTGCTATTTTAGTAATTATTTTGAAAA
6610339 GGGTGCTATTTTAGTAATTATTTCT-AAAA
1 GGGTGCTATTTTAGTAATTATTT-TGAAAA
* *
6610368 GGGTGCTATTTTTGTAATTATTTTTAAAA
1 GGGTGCTATTTTAGTAATTATTTTGAAAA
* *
6610397 AGGTGCTATTTTCGTAA
1 GGGTGCTATTTTAGTAA
6610414 AATGGTTGAT
Statistics
Matches: 165, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
28 1 0.01
29 138 0.84
30 26 0.16
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (29 bp):
GGGTGCTATTTTAGTAATTATTTTGAAAA
Found at i:6610342 original size:88 final size:87
Alignment explanation
Indices: 6610193--6610413 Score: 253
Period size: 88 Copynumber: 2.5 Consensus size: 87
6610183 ACTATTGACC
* * * * * * * * *
6610193 GGGTGGTATTTTGGTAATTATTTTGAAAATGGTGGTATTCTGGTAATTGTCTTGAAAAGGGTGTT
1 GGGTGCTATTTTAGTAATTATTTTCAAAAAGGTGCTATTTTCGTAATTATCTTGAAAAGGGTGCT
** *
6610258 ATTTTCTTAATTATTTTTAAAAA
66 ATTTTAGTAATTATTTCT-AAAA
* * * * * *
6610281 GGGTGTTATTTTAGTAATTATTTCCAAAAGGGTGCTATTTTTGTAATTATTTTTAAAAGGGTGCT
1 GGGTGCTATTTTAGTAATTATTTTCAAAAAGGTGCTATTTTCGTAATTATCTTGAAAAGGGTGCT
6610346 ATTTTAGTAATTATTTCTAAAA
66 ATTTTAGTAATTATTTCTAAAA
* *
6610368 GGGTGCTATTTTTGTAATTATTTTTAAAAAGGTGCTATTTTCGTAA
1 GGGTGCTATTTTAGTAATTATTTTCAAAAAGGTGCTATTTTCGTAA
6610414 AATGGTTGAT
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
87 44 0.39
88 68 0.61
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (87 bp):
GGGTGCTATTTTAGTAATTATTTTCAAAAAGGTGCTATTTTCGTAATTATCTTGAAAAGGGTGCT
ATTTTAGTAATTATTTCTAAAA
Found at i:6610368 original size:58 final size:58
Alignment explanation
Indices: 6610193--6610413 Score: 275
Period size: 58 Copynumber: 3.8 Consensus size: 58
6610183 ACTATTGACC
* * * * * * * * *
6610193 GGGTGGTATTTTGGTAATTATTTTGAAAATGGTGGTATTCTGGTAATTGTCTT-GAAAA
1 GGGTGCTATTTTTGTAATTATTTTTAAAAGGGTGCTATTTTAGTAATTAT-TTCCAAAA
* *
6610251 GGGTGTTATTTTCT-TAATTATTTTTAAAAAGGGTGTTATTTTAGTAATTATTTCCAAAA
1 GGGTGCTATTTT-TGTAATTATTTTT-AAAAGGGTGCTATTTTAGTAATTATTTCCAAAA
*
6610310 GGGTGCTATTTTTGTAATTATTTTTAAAAGGGTGCTATTTTAGTAATTATTTCTAAAA
1 GGGTGCTATTTTTGTAATTATTTTTAAAAGGGTGCTATTTTAGTAATTATTTCCAAAA
* *
6610368 GGGTGCTATTTTTGTAATTATTTTTAAAAAGGTGCTATTTTCGTAA
1 GGGTGCTATTTTTGTAATTATTTTTAAAAGGGTGCTATTTTAGTAA
6610414 AATGGTTGAT
Statistics
Matches: 145, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
58 99 0.68
59 46 0.32
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (58 bp):
GGGTGCTATTTTTGTAATTATTTTTAAAAGGGTGCTATTTTAGTAATTATTTCCAAAA
Found at i:6614951 original size:60 final size:60
Alignment explanation
Indices: 6614878--6615013 Score: 152
Period size: 59 Copynumber: 2.3 Consensus size: 60
6614868 ATGTATGGGT
* * *
6614878 AAAG-TACACAAATGGTCCCCTAACTATAGGATATTACTTTATTAAGTCCACT-GACTATCA
1 AAAGTTACA-AAATGGTCCCCAAACTATAGAATATTACTTTATTAAGTCC-CTCAACTATCA
* * * * * *
6614938 AAAGTTACAAAAT-GACCCCAAACTATATAATATTGCTTTGTTGAGTCCCTCAACTATTA
1 AAAGTTACAAAATGGTCCCCAAACTATAGAATATTACTTTATTAAGTCCCTCAACTATCA
6614997 AAAGTTACAAAATGGTC
1 AAAGTTACAAAATGGTC
6615014 ATCTAACTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
58 2 0.03
59 47 0.75
60 10 0.16
61 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (60 bp):
AAAGTTACAAAATGGTCCCCAAACTATAGAATATTACTTTATTAAGTCCCTCAACTATCA
Found at i:6617830 original size:16 final size:16
Alignment explanation
Indices: 6617806--6617850 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 16
6617796 GACAATGAGG
*
6617806 AATAAGGATAATAAAA
1 AATATGGATAATAAAA
6617822 AATATGG---ATAAAA
1 AATATGGATAATAAAA
6617835 AATATGGATAATAAAA
1 AATATGGATAATAAAA
6617851 GAAAGATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 13 0.52
16 12 0.48
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.22
Consensus pattern (16 bp):
AATATGGATAATAAAA
Found at i:6617834 original size:13 final size:13
Alignment explanation
Indices: 6617816--6617850 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
6617806 AATAAGGATA
6617816 ATAAAAAATATGG
1 ATAAAAAATATGG
6617829 ATAAAAAATATGG
1 ATAAAAAATATGG
6617842 ATAATAAAA
1 ATAA-AAAA
6617851 GAAAGATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (13 bp):
ATAAAAAATATGG
Found at i:6621987 original size:11 final size:13
Alignment explanation
Indices: 6621960--6621996 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6621950 AGTAAGGATA
6621960 ATAAAATATATAG
1 ATAAAATATATAG
6621973 ATAAAATA-A-AG
1 ATAAAATATATAG
6621984 ATAAGAATATATA
1 ATAA-AATATATA
6621997 AAGATAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.29
12 5 0.24
13 9 0.43
14 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (13 bp):
ATAAAATATATAG
Found at i:6622011 original size:27 final size:27
Alignment explanation
Indices: 6621956--6622013 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
6621946 GAGGAGTAAG
* * *
6621956 GATAATAAAATATATAGATAAAATAAA
1 GATAAGAAAATATAAAGATAAAAGAAA
* *
6621983 GATAAGAATATATAAAGATAAAAGGAA
1 GATAAGAAAATATAAAGATAAAAGAAA
6622010 GATA
1 GATA
6622014 TGTAATTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.22
Consensus pattern (27 bp):
GATAAGAAAATATAAAGATAAAAGAAA
Found at i:6623122 original size:26 final size:24
Alignment explanation
Indices: 6623087--6623155 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 24
6623077 ATAAATTTAT
*
6623087 TTTTTATTAAATTTAAATTACATA
1 TTTTAATTAAATTTAAATTACATA
* **
6623111 CTTTCTAATTAAATTTATATTTTATA
1 -TTT-TAATTAAATTTAAATTACATA
*
6623137 TTTTAATTAATTTTAAATT
1 TTTTAATTAAATTTAAATT
6623156 TATAAAGTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 14 0.38
25 6 0.16
26 17 0.46
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTAATTAAATTTAAATTACATA
Found at i:6623375 original size:7 final size:7
Alignment explanation
Indices: 6623344--6623402 Score: 50
Period size: 7 Copynumber: 8.0 Consensus size: 7
6623334 GAGAGTATGT
6623344 AATTT-A
1 AATTTAA
6623350 AATTTAA
1 AATTTAA
6623357 TAATTTATA
1 -AATTTA-A
6623366 AATTTAA
1 AATTTAA
6623373 AATTAATTAA
1 AA-T--TTAA
6623383 AATTTAA
1 AATTTAA
*
6623390 AATAT-A
1 AATTTAA
6623396 AATTTAA
1 AATTTAA
6623403 TTAGAGAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
6 10 0.23
7 13 0.30
8 13 0.30
9 2 0.05
10 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:6623397 original size:24 final size:26
Alignment explanation
Indices: 6623353--6623405 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
6623343 TAATTTAAAT
*
6623353 TTAATAATTTATAAATTTAAAATTAA
1 TTAATAATTTATAAATATAAAATTAA
*
6623379 TTAA-AATTTA-AAATATAAATTTAA
1 TTAATAATTTATAAATATAAAATTAA
6623403 TTA
1 TTA
6623406 GAGAATATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.60
25 6 0.24
26 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTAATAATTTATAAATATAAAATTAA
Found at i:6623805 original size:23 final size:23
Alignment explanation
Indices: 6623775--6623819 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6623765 GGTCAAAACG
6623775 TTTTAAAT-TTTGAACTTAATTAT
1 TTTTAAATATTTGAA-TTAATTAT
*
6623798 TTTTAAATATTTTAATTAATTA
1 TTTTAAATATTTGAATTAATTA
6623820 AAATTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTAAATATTTGAATTAATTAT
Found at i:6623830 original size:17 final size:17
Alignment explanation
Indices: 6623800--6623834 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6623790 TTAATTATTT
6623800 TTAAATATTTTAATTAA
1 TTAAATATTTTAATTAA
6623817 TTAAA-ATTTATAATTAA
1 TTAAATATTT-TAATTAA
6623834 T
1 T
6623835 ATATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATATTTTAATTAA
Found at i:6623843 original size:22 final size:21
Alignment explanation
Indices: 6623809--6623849 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6623799 TTTAAATATT
*
6623809 TTAATTAATTAAAATTTATAA
1 TTAATTAATTAAAAATTATAA
*
6623830 TTAATATATTTAAAAATTAT
1 TTAAT-TAATTAAAAATTAT
6623850 TTCTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTAATTAAAAATTATAA
Found at i:6624937 original size:21 final size:21
Alignment explanation
Indices: 6624904--6625031 Score: 84
Period size: 21 Copynumber: 6.0 Consensus size: 21
6624894 TAAGAATTTT
*
6624904 TATT-TTTATATTACTAAAATA
1 TATTATTTA-ATTATTAAAATA
6624925 TATTATTTAATTATTAAAATA
1 TATTATTTAATTATTAAAATA
** * *
6624946 TAAAAGTT-ATTAATAAAATA
1 TATTATTTAATTATTAAAATA
** *
6624966 TATTAATTTAATCGTTTAAATA
1 TATT-ATTTAATTATTAAAATA
* **
6624988 TAATAAATAATTA-T-AAATA
1 TATTATTTAATTATTAAAATA
6625007 TATTATTTTAATTATTTTAAAATA
1 TATTA-TTTAATTA--TTAAAATA
6625031 T
1 T
6625032 TAGGATCGGA
Statistics
Matches: 79, Mismatches: 20, Indels: 13
0.71 0.18 0.12
Matches are distributed among these distances:
19 9 0.11
20 20 0.25
21 28 0.35
22 15 0.19
23 1 0.01
24 6 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTATTTAATTATTAAAATA
Found at i:6624963 original size:41 final size:42
Alignment explanation
Indices: 6624912--6625031 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 42
6624902 TTTATTTTTA
* *
6624912 TATTACTAAAATATATTATTTAATTATTAAAATATAA-AAGT
1 TATTAATAAAATATATTATTTAATTATTAAAATATAATAAAT
** *
6624953 TATTAATAAAATATATTAATTTAATCGTTTAAATATAATAAAT
1 TATTAATAAAATATATT-ATTTAATTATTAAAATATAATAAAT
*
6624996 AATT-AT-AAATATATTATTTTAATTATTTTAAAATAT
1 TATTAATAAAATATATTA-TTTAATTA--TTAAAATAT
6625032 TAGGATCGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
40 1 0.02
41 31 0.48
42 19 0.29
43 14 0.22
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (42 bp):
TATTAATAAAATATATTATTTAATTATTAAAATATAATAAAT
Found at i:6626303 original size:22 final size:21
Alignment explanation
Indices: 6626273--6626323 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
6626263 GTAAAATACG
**
6626273 GTATGAACAGTATTGTGAACA
1 GTATGAACAGTACCGTGAACA
6626294 GTAATGAACAGTACCGTGAACA
1 GT-ATGAACAGTACCGTGAACA
6626316 GTATGAAC
1 GTATGAAC
6626324 TGTGCTATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.24
Consensus pattern (21 bp):
GTATGAACAGTACCGTGAACA
Found at i:6626356 original size:21 final size:21
Alignment explanation
Indices: 6626326--6626366 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6626316 GTATGAACTG
*
6626326 TGCTATAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
6626347 TGCTACAGTGCATCGATGCA
1 TGCTACAGTGCATCGATGCA
6626367 CAAAAACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:6627185 original size:30 final size:29
Alignment explanation
Indices: 6627147--6627235 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
6627137 CTTGAAGGAC
6627147 CTAT-CAGAGGTCACAAGGAACCTCGGTAA
1 CTATCCAGAGGTCACAA-GAACCTCGGTAA
* *
6627176 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCA-CAAGAACCTCGGTAA
* * * *
6627206 CTGTCCATAGGTCCCGAAGAACCTAGGTAA
1 CTATCCAGAGGTCAC-AAGAACCTCGGTAA
6627236 ATTTTCCATA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 4 0.08
30 43 0.88
31 2 0.04
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (29 bp):
CTATCCAGAGGTCACAAGAACCTCGGTAA
Found at i:6627310 original size:32 final size:32
Alignment explanation
Indices: 6627207--6627329 Score: 121
Period size: 31 Copynumber: 3.9 Consensus size: 32
6627197 CCTCGGCAAC
* *
6627207 TGTCCATAGGTCCCGAAGAACCTAGGTAAATT-
1 TGTCCATATGTCCCGAAGAACATAGGT-AATTA
* **
6627239 T-TCCATATGTTCCTTAGAACATAGGT-A-TA
1 TGTCCATATGTCCCGAAGAACATAGGTAATTA
6627268 CTGTCCATATGTCCCGAA-AGACATAGGTAATTA
1 -TGTCCATATGTCCCGAAGA-ACATAGGTAATTA
* *
6627301 TGTCCATATGTTCCGTAGAACATAGGTAA
1 TGTCCATATGTCCCGAAGAACATAGGTAA
6627330 ACCCTCGACT
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
28 1 0.01
29 1 0.01
30 2 0.03
31 40 0.54
32 27 0.36
33 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (32 bp):
TGTCCATATGTCCCGAAGAACATAGGTAATTA
Found at i:6627328 original size:63 final size:62
Alignment explanation
Indices: 6627205--6627328 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 62
6627195 AACCTCGGCA
* *
6627205 ACTGTCCATAGGTCCCGAAGAACCTAGGTAAATTTTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATAGGTCCCGAAGAACATAGGTAAATTTTCCATATGTTCCGTAGAACATAGGTAT
*
6627267 ACTGTCCATATGTCCCGAA-AGACATAGGT-AATTATGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATAGGTCCCGAAGA-ACATAGGTAAATT-T-TCCATATGTTCCGTAGAACATAGGTA
6627329 AACCCTCGAC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
61 5 0.09
62 26 0.46
63 25 0.45
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (62 bp):
ACTGTCCATAGGTCCCGAAGAACATAGGTAAATTTTCCATATGTTCCGTAGAACATAGGTAT
Found at i:6629756 original size:31 final size:31
Alignment explanation
Indices: 6629716--6629788 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
6629706 CTATGCATTA
*
6629716 AGTACCTAAATTATAAGTTTTGGACCGTTTT
1 AGTACCTAAATTATAAGTTTTGGACCATTTT
* *
6629747 AGTATCTAAACTATAAGTTTTGGACCATTTT
1 AGTACCTAAATTATAAGTTTTGGACCATTTT
6629778 AGTACCTAAAT
1 AGTACCTAAAT
6629789 ATTTAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (31 bp):
AGTACCTAAATTATAAGTTTTGGACCATTTT
Found at i:6633085 original size:60 final size:58
Alignment explanation
Indices: 6632973--6633131 Score: 164
Period size: 60 Copynumber: 2.7 Consensus size: 58
6632963 ATGGATTTAG
*
6632973 GGATGAAATTTGAATATTCAAAAGTTT-AGAGACCAATTTAGAAAGAGGGTCATAG-TGTA
1 GGATGAAATTAGAATATTCAAAAGTTTAAG-GACCAATTTAG-AAGAGGGTCATAGCT-TA
* *
6633032 GGAATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAG-AGTTGGAGTCATAGCTTAA
1 GG-ATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAG-AGG-GTCATAGCTT-A
* * * *
6633093 GGATG-TATTAAAATATTTAAAAGTTTAGGGACCAATTTA
1 GGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTA
6633132 AAATAAGAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
58 2 0.02
59 33 0.38
60 45 0.52
61 6 0.07
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.31
Consensus pattern (58 bp):
GGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAGAGGGTCATAGCTTA
Found at i:6633305 original size:3 final size:3
Alignment explanation
Indices: 6633297--6633329 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6633287 ATGGGACCAC
6633297 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6633330 TTGAATGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6637177 original size:2 final size:2
Alignment explanation
Indices: 6637170--6637222 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
6637160 TGTTAGAAAT
6637170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6637212 TA TA TA TA TA T
1 TA TA TA TA TA T
6637223 CAGTCATGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6640079 original size:21 final size:20
Alignment explanation
Indices: 6640033--6640077 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
6640023 CTATAGCTTT
6640033 TCAAAATAATATATATCTTC
1 TCAAAATAATATATATCTTC
6640053 TCAAAATAAT-TATATCTTC
1 TCAAAATAATATATATCTTC
6640072 TCAAAA
1 TCAAAA
6640078 AAGCAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (20 bp):
TCAAAATAATATATATCTTC
Found at i:6655239 original size:20 final size:20
Alignment explanation
Indices: 6655216--6655254 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6655206 TTTAAACAGA
* *
6655216 AAATAAAGTATTTTAAATTT
1 AAATAAACTATTTAAAATTT
6655236 AAATAAACTATTTAAAATT
1 AAATAAACTATTTAAAATT
6655255 AAAAATTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
AAATAAACTATTTAAAATTT
Found at i:6655251 original size:19 final size:20
Alignment explanation
Indices: 6655216--6655257 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6655206 TTTAAACAGA
* *
6655216 AAATAAAGTATTTTAAATTT
1 AAATAAACTATTTTAAAATT
6655236 AAATAAACTA-TTTAAAATT
1 AAATAAACTATTTTAAAATT
6655255 AAA
1 AAA
6655258 AATTAGTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AAATAAACTATTTTAAAATT
Found at i:6655316 original size:7 final size:7
Alignment explanation
Indices: 6655277--6655333 Score: 64
Period size: 8 Copynumber: 8.0 Consensus size: 7
6655267 GAGATTATGT
6655277 AATTT-A
1 AATTTAA
6655283 AATTTAA
1 AATTTAA
6655290 TAATTTAA
1 -AATTTAA
6655298 TAATTTATA
1 -AATTTA-A
6655307 AATTTAA
1 AATTTAA
6655314 AATTTAA
1 AATTTAA
*
6655321 AATAT-A
1 AATTTAA
6655327 AATTTAA
1 AATTTAA
6655334 TTAGAGAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
6 10 0.22
7 14 0.31
8 20 0.44
9 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTTAA
Found at i:6656678 original size:26 final size:26
Alignment explanation
Indices: 6656638--6656700 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
6656628 ATAAAGGAAA
*
6656638 CTTA-GTGTA-TATGGTAGGCACGAC
1 CTTATGTGTATTATGGTAGGCACAAC
* *
6656662 CTTGTGTGTATTATGGTGGGCACAAC
1 CTTATGTGTATTATGGTAGGCACAAC
6656688 CTTATGTGTATTA
1 CTTATGTGTATTA
6656701 GCACTTCGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 3 0.09
25 5 0.15
26 25 0.76
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (26 bp):
CTTATGTGTATTATGGTAGGCACAAC
Found at i:6663896 original size:17 final size:17
Alignment explanation
Indices: 6663871--6663912 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
6663861 AGTTGAACAA
*
6663871 GTTAACCATCAAGAACC
1 GTTACCCATCAAGAACC
6663888 GTTACCCATCAAGAACC
1 GTTACCCATCAAGAACC
6663905 GTTACCCA
1 GTTACCCA
6663913 CTTCGTAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.33, G:0.12, T:0.19
Consensus pattern (17 bp):
GTTACCCATCAAGAACC
Found at i:6668950 original size:59 final size:59
Alignment explanation
Indices: 6668851--6668979 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 59
6668841 CAACAGGCTG
** * *
6668851 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** * *
6668910 CATATTCGGGACTGTACTTAAGGATATCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
*
6668969 CATACTCGGGA
1 CATATTCGGGA
6668980 TTGCACTACG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:6669078 original size:20 final size:20
Alignment explanation
Indices: 6669038--6669074 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6669028 TTGTATATTG
6669038 GGCTATTGTCTATTGTTTAT
1 GGCTATTGTCTATTGTTTAT
6669058 GGCTATTGTCTA-TGTTT
1 GGCTATTGTCTATTGTTT
6669075 TATGATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.14, C:0.11, G:0.22, T:0.54
Consensus pattern (20 bp):
GGCTATTGTCTATTGTTTAT
Found at i:6669205 original size:45 final size:45
Alignment explanation
Indices: 6669108--6669322 Score: 335
Period size: 45 Copynumber: 4.8 Consensus size: 45
6669098 GTAAGCATGC
* * *
6669108 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTAAATTTGTA
*
6669152 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTAAATTTGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTAAATTTGTA
* *
6669197 ATATAAGCTTACGAGCTTATGGAATAAATGGCAAGTAAATTTGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTAAATTTGTA
*
6669242 AAATAAGCTTACGAGCTTATGGAATAAATGGTAATTAAA-TTGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTAAATTTGTA
* *
6669286 AAATAAGATTACGAGCTTATGGGATAAATGGTAAGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTA
6669323 TATTGGCTAT
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
44 64 0.41
45 93 0.59
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTAAATTTGTA
Found at i:6672436 original size:54 final size:55
Alignment explanation
Indices: 6672302--6672437 Score: 202
Period size: 55 Copynumber: 2.5 Consensus size: 55
6672292 CAAAAATTCA
* * **
6672302 AGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTTTGGGTGCAAAAATG
1 AGAAATTCATACTAAGTGTATGAATTTCAGTATGGACACCATGGGTGCAAAAATG
* * *
6672357 AAAAATTCATACTAAGTGTAGGAATTTCAGTATGGACACCATGGGTGC-AAACTG
1 AGAAATTCATACTAAGTGTATGAATTTCAGTATGGACACCATGGGTGCAAAAATG
6672411 AGAAATTCATACTAAGTGTATGAATTT
1 AGAAATTCATACTAAGTGTATGAATTT
6672438 TCGTATCGGA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 30 0.42
55 42 0.58
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (55 bp):
AGAAATTCATACTAAGTGTATGAATTTCAGTATGGACACCATGGGTGCAAAAATG
Found at i:6672765 original size:68 final size:68
Alignment explanation
Indices: 6672656--6672911 Score: 395
Period size: 68 Copynumber: 3.8 Consensus size: 68
6672646 AAACGATTAT
*
6672656 AGGCCTAACTGTGCAAATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
6672721 TTG
66 TTG
* **
6672724 AGGCCTAATTGTGCAAATGACAGAAATATGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
6672789 TTG
66 TTG
* * * *
6672792 GGGCCTAACTGTACAAATGACATAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
6672857 TTG
66 TTG
* * * * *
6672860 AAGCCTAATTGTCCAAATGACAGAAAGGTGTCAATTATGGCAGTTAGATGAA
1 AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
6672912 CGATTGAATA
Statistics
Matches: 171, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 171 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (68 bp):
AGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:6673317 original size:242 final size:242
Alignment explanation
Indices: 6672862--6673425 Score: 858
Period size: 242 Copynumber: 2.3 Consensus size: 242
6672852 TGCCTTTGAA
* * * * * *
6672862 GCCTAATTGTCCAAATGACAGAAAGGTGTCAATTATGGCAGTTAGATGAACGATTGAATACCGTT
1 GCCTAACTGTGCAATTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAACG-TTAAATACCGTT
* *
6672927 AAGTAAAAGAATAATGGCCTAAATGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
65 GAGTAAAAGAATAATGGCCTAAATATGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
6672992 ATGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAAGTCCCAAT
130 ATGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAAGTCCCAAT
*
6673057 TATGCCAGTTATATGAACGGTTAAATACCGTTGAGTAAAAGAATAATG
195 TATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATG
* *
6673105 GCCTAACTGTGCAATTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGTTAAATACCATTG
1 GCCTAACTGTGCAATTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAACGTTAAATACCGTTG
* *
6673170 AGTAAAAGAATAATGGTCTAACTATGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
66 AGTAAAAGAATAATGGCCTAAATATGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * * **
6673235 TTGTTGAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATT
131 TGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAAGTCCCAATT
* **
6673300 ATTCCAGTTAGATGAACGGTTAAATATTGTTGAGTAAAAGAATAATG
196 ATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATG
* * * * * * *
6673347 GCCTAACTGTGCAATTGACAGAAATGTGTTAACTATGTCAGTTAGATGTACGGTTAAACACTGTT
1 GCCTAACTGTGCAATTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAC-GTTAAATACCGTT
6673412 GAGTAAAAGAATAA
65 GAGTAAAAGAATAA
6673426 GGGATTAGTT
Statistics
Matches: 290, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
242 220 0.76
243 70 0.24
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (242 bp):
GCCTAACTGTGCAATTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAACGTTAAATACCGTTG
AGTAAAAGAATAATGGCCTAAATATGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
TGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAAGTCCCAATT
ATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATG
Found at i:6673471 original size:81 final size:81
Alignment explanation
Indices: 6672862--6673425 Score: 833
Period size: 81 Copynumber: 7.0 Consensus size: 81
6672852 TGCCTTTGAA
* * * * * * *
6672862 GCCTAATTGTCCAAATGACAGAAAGGTGTCAATTATGGCAGTTAGATGAACGATTGAATACCGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
*
6672927 AAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* *
6672943 GCCTAAATGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
6673008 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* ** *
6673024 GCCTAACTGTGCAATTGGCAGAAAAGTCCCAATTATGCCAGTTATATGAACGGTTAAATACCGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
6673089 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* *
6673105 GCCTAACTGTGCAATTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAAC-GTTAAATACCATT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
6673169 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* * ** *
6673185 GTCTAACTATGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATTGTTGAATACCGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
6673250 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* **
6673266 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATTCCAGTTAGATGAACGGTTAAATATTGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
6673331 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATG
* * * * * * * *
6673347 GCCTAACTGTGCAATTGACAGAAATGTGTTAACTATGTCAGTTAGATGTACGGTTAAACACTGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
6673412 GAGTAAAAGAATAA
66 GAGTAAAAGAATAA
6673426 GGGATTAGTT
Statistics
Matches: 440, Mismatches: 42, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
80 75 0.17
81 365 0.83
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (81 bp):
GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
GAGTAAAAGAATAATG
Found at i:6673634 original size:2 final size:2
Alignment explanation
Indices: 6673560--6673623 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
6673550 TGAAGGGATA
6673560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6673602 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
6673624 GAAGGTATAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6676772 original size:40 final size:40
Alignment explanation
Indices: 6676728--6676877 Score: 273
Period size: 40 Copynumber: 3.8 Consensus size: 40
6676718 AGGACACTAA
* *
6676728 GTGTATATGGTGGGCACGACCCTATGTGTAATACACTTTG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
6676768 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
*
6676808 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCA
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
6676848 GTGTATATGGTGGGCACGACCTTATGTGTA
1 GTGTATATGGTGGGCACGACCTTATGTGTA
6676878 GCACTACGGT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (40 bp):
GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
Found at i:6677032 original size:44 final size:46
Alignment explanation
Indices: 6676982--6677095 Score: 189
Period size: 46 Copynumber: 2.5 Consensus size: 46
6676972 GTAAGCATGC
6676982 AAATAAGCTTACGAGCTTATGGAA-T-AATGGTAAGTATAT-TGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTAT-TGTGGTA
6677026 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATTGTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATTGTGGTA
*
6677072 AAATAAGCTTATGAGCTTATGGAA
1 AAATAAGCTTACGAGCTTATGGAA
6677096 AAAAATGATA
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
44 24 0.36
45 2 0.03
46 40 0.61
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATTGTGGTA
Found at i:6677660 original size:22 final size:22
Alignment explanation
Indices: 6677632--6677674 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6677622 CACTGTGCAC
*
6677632 TGTTCACGGTATTGTTCATCAT
1 TGTTCACGGTACTGTTCATCAT
6677654 TGTTCACGGTACTGTTCATCA
1 TGTTCACGGTACTGTTCATCA
6677675 CTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (22 bp):
TGTTCACGGTACTGTTCATCAT
Done.