Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 20 of 34
Found at i:2983291 original size:332 final size:332
Alignment explanation
Indices: 2982859--2983762 Score: 1214
Period size: 332 Copynumber: 2.7 Consensus size: 332
2982849 TCCAAAACTC
* * * * * *
2982859 ATGAAAATGAATAAATTTTTGAAAACTGAATTAATATTAATTAAATGATGATG-TTTGATTAATT
1 ATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATGATAATGTTTTGATGAATT
* * *
2982923 ATAAAAATTGAAAACTGAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAATACCATATTGA
66 TTAAAAATTGAAAACTAAGAAAAATCCCC-CGAAAAAATTTACGGAGTAGAAAATACCATATTTA
* **
2982988 GAAAAAAAGGAGTTTTAAGGAAAAAATAAAAAATGAATGAAAATGAATGAAAATTTGAAAACTGA
130 GAAAAAAAGGAGTTTCAAGGAAAAAATAAAAAATGAATGAAAATGAATGAATTTTTGAAAACTGA
* *
2983053 ATTAATAGGAAATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACAAAGAAAAATC-CCC
195 ATTAATATGAAATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACAAAGAAAAATCTCCC
* * * *
2983117 TCGAAAAAATTTACAGACTAGAAAATACCATATTTTAGAAAAAAAGAAGTTTC-AAGGAAAAAAT
260 -CGAAAAAATTTACAGACTAGAAAACACCATATTTCAAAAAAAAAGAAGTTTCAAAGAAAAAAAT
2983181 AAAAAATGA
324 AAAAAATGA
*
2983190 ATG-AAATGAATGAATTTTTAAAAAATGAATTAATATGAAAATAAATGATAATGTTTTGATGAAT
1 ATGAAAATGAATGAATTTTTAAAAACTGAATTAATATG-AAATAAATGATAATGTTTTGATGAAT
* * *
2983254 TTTAAAAATTGAAAACTAAGAAAAATCCTCCCGAAAAAATTTATGGAGTAGAAAATATCGTATTT
65 TTTAAAAATTGAAAACTAAGAAAAATCC-CCCGAAAAAATTTACGGAGTAGAAAATACCATATTT
* * * * * *
2983319 CGAAAAAAAGAAGTTTCAAGGAAAAAACTCAAAAACT-CATAAAAATGAATGAATTTTTTAGAAA
129 AGAAAAAAAGGAGTTTCAAGGAAAAAA-T-AAAAAATGAATGAAAATGAATGAATTTTTGA-AAA
* * * * * *
2983383 C-GAATTAATATG-AATAAATGATAATGTTTTATAAATTTTAAAAATTGAAAACCAATAAAATTC
191 CTGAATTAATATGAAATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACAAAGAAAAATC
* *
2983446 TCCCCGAAAAAATTTACGGAGTAGAAAACACCATATTTCAAAAAAAAAGAAGTTTCAAAGAAAAA
256 TCCCCGAAAAAATTTACAGACTAGAAAACACCATATTTCAAAAAAAAAGAAGTTTCAAAGAAAAA
*
2983511 AATTAAAAATGA
321 AATAAAAAATGA
* *
2983523 ATGAAAATGAATGAATTTTTTAAAACTAAATTAATATGAAATAAATGATAATGTTTT-ATGAATT
1 ATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATGATAATGTTTTGATGAATT
* * * **
2983587 TTAAAAATTGAAAACCAAGAAAAATCCCCCCCAAAAAATTTACGGAGAAGAAAGCACCATATATT
66 TTAAAAATTGAAAACTAAGAAAAAT-CCCCCGAAAAAATTTACGGAGTAGAAAATACCATAT-TT
* *
2983652 A-AAAAAAGGGAAGTTTCAAGGAAAAAAATAAAAAATGAATGAAAATGAATGGATTTTTGAAAAC
129 AGAAAAAAAGG-AGTTTCAAGG-AAAAAATAAAAAATGAATGAAAATGAATGAATTTTTGAAAAC
* *
2983716 TGAATTAATATGAAATAAATAAAAATATTTGATGAATTTTAAAAATT
192 TGAATTAATATGAAATAAATAATAATGTTTGATGAATTTTAAAAATT
2983763 AAAGGGAATT
Statistics
Matches: 496, Mismatches: 61, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
330 30 0.06
331 16 0.03
332 255 0.51
333 119 0.24
334 76 0.15
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (332 bp):
ATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATGATAATGTTTTGATGAATT
TTAAAAATTGAAAACTAAGAAAAATCCCCCGAAAAAATTTACGGAGTAGAAAATACCATATTTAG
AAAAAAAGGAGTTTCAAGGAAAAAATAAAAAATGAATGAAAATGAATGAATTTTTGAAAACTGAA
TTAATATGAAATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACAAAGAAAAATCTCCCC
GAAAAAATTTACAGACTAGAAAACACCATATTTCAAAAAAAAAGAAGTTTCAAAGAAAAAAATAA
AAAATGA
Found at i:2985242 original size:42 final size:41
Alignment explanation
Indices: 2985196--2985295 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
2985186 GCCGAAAAGT
2985196 AGACAAAGGATAAAGAGATCTCCTAG-GTCTAAGCCAACAGGC
1 AGACAAAGGATAAAGAG-TCTCC-AGAGTCTAAGCCAACAGGC
* * * ** **
2985238 AGACAATGGATAAAGTAGTCTCCCGAGTCTGAGCTGATGGGC
1 AGACAAAGGATAAAG-AGTCTCCAGAGTCTAAGCCAACAGGC
2985280 AGACAAAGGATAAAGA
1 AGACAAAGGATAAAGA
2985296 AGTTTCCCGA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.04
42 44 0.92
43 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.16
Consensus pattern (41 bp):
AGACAAAGGATAAAGAGTCTCCAGAGTCTAAGCCAACAGGC
Found at i:2985756 original size:84 final size:85
Alignment explanation
Indices: 2985273--2985806 Score: 426
Period size: 84 Copynumber: 6.4 Consensus size: 85
2985263 AGTCTGAGCT
* * **
2985273 GATGGGCAGACAAAGGATAAAGAAGTTTCCCGAGGT--AAGTCGATGA-ATAGACAAAAGATAAA
1 GATGGGCAGACAAAGGGTAAAGAAGTCTCCCGA-GTCAAAGTCGATGAGGCAGACAAAAGATAAA
* *
2985335 GAAGTCT-CTCGAGTCAAAGCC
65 AAAGTCTCCTAG-GTCAAAGCC
* * * * * *
2985356 GATGGGCAGACAAAAGGTAAAAAAGTCTCTCGAGTCAAAGTCAAT-AGGCAGACAAAGGGTAAAA
1 GATGGGCAGACAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTCGATGAGGCAGACAAAAGATAAAA
** *
2985420 AAGTCTCCCGGGTCAAAACC
66 AAGTCTCCTAGGTCAAAGCC
* * * * * * *
2985440 AACGGGTAGACAAAGGCTAAAGAAGTCTCCCAAGTCAAAGTAGA-CAGGCAGA-AGAAAGATAAA
1 GATGGGCAGACAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTCGATGAGGCAGACA-AAAGATAAA
* * *
2985503 GAAGTCTCATAAGTCAAAGCC
65 AAAGTCTCCTAGGTCAAAGCC
* * * * * *
2985524 GATGAGCAGACAAAGGGCAAAGAAGTCTCCCAAGTCAAAGTCGAT-AGGCAGACAAAGGGTAAAG
1 GATGGGCAGACAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTCGATGAGGCAGACAAAAGATAAAA
* **
2985588 AAGTCT-CTCGGGTCAAAGTT
66 AAGTCTCCT-AGGTCAAAGCC
* * * * * * * * *
2985608 GATGGGGAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCAATG-GGTAGATAAAGGGTAAAA
1 GATGGGCAGACAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTCGATGAGGCAGACAAAAGATAAAA
*
2985672 AAGTCTCCTAGGTCAAAGGC
66 AAGTCTCCTAGGTCAAAGCC
* * * * *
2985692 GGTAGGCAGACAAAGGGTAAAGAAGTCTTCCGGGTCAAAGTCGATGA-GCAAACAAAAGA-AAAA
1 GATGGGCAGACAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTCGATGAGGCAGACAAAAGATAAAA
* *
2985755 AACGTCTCCCAGGTCAAAGTC
66 AA-GTCTCCTAGGTCAAAGCC
* * * * *
2985776 AATGGGTAGACTTAAGGATGAAGAAGTCTCC
1 GATGGGCAGAC-AAAGGGTAAAGAAGTCTCC
2985807 AAGGTCAAAG
Statistics
Matches: 353, Mismatches: 84, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
82 2 0.01
83 37 0.10
84 294 0.83
85 20 0.06
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (85 bp):
GATGGGCAGACAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTCGATGAGGCAGACAAAAGATAAAA
AAGTCTCCTAGGTCAAAGCC
Found at i:2985899 original size:42 final size:42
Alignment explanation
Indices: 2985234--2985888 Score: 382
Period size: 42 Copynumber: 15.6 Consensus size: 42
2985224 CTAAGCCAAC
** * ** *
2985234 AGGCAGACAATGGATAAAGTAGTCTCCCGAGTCTGAGCTGAT
1 AGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
* * * *
2985276 GGGCAGACAAAGGATAAAGAAGTTTCCCGAGGT--AAGTCGAT
1 AGGCAGACAAAAGATAAAGAAGTCTCCCGA-GTCAAAGCCGAT
** *
2985317 -GAATAGACAAAAGATAAAGAAGTCTCTCGAGTCAAAGCCGAT
1 AG-GCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
* * * * * *
2985359 GGGCAGACAAAAGGTAAAAAAGTCTCTCGAGTCAAAGTCAAT
1 AGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
* * * * * * *
2985401 AGGCAGACAAAGGGTAAAAAAGTCTCCCGGGTCAAAACCAAC
1 AGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
* * * * * ** *
2985443 GGGTAGACAAAGGCTAAAGAAGTCTCCCAAGTCAAAGTAGAC
1 AGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
***
2985485 AGGCAGA-AGAAAGATAAAGAAGTCTCATAAGTCAAAGCCGAT
1 AGGCAGACA-AAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
* ** * *
2985527 -GAGCAGACAAAGGGCAAAGAAGTCTCCCAAGTCAAAGTCGAT
1 AG-GCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
* * * * **
2985569 AGGCAGACAAAGGGTAAAGAAGTCTCTCGGGTCAAAGTTGAT
1 AGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
* * *
2985611 GGGGAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCAAT
1 AGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
* * * * * * * * *
2985653 GGGTAGATAAAGGGTAAAAAAGTCT-CCTAGGTCAAAGGCGGT
1 AGGCAGACAAAAGATAAAGAAGTCTCCCGA-GTCAAAGCCGAT
* * * * *
2985695 AGGCAGACAAAGGGTAAAGAAGTCTTCCGGGTCAAAGTCGAT
1 AGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
* * * *
2985737 -GAGCAAACAAAAGA-AAAAAACGTCTCCC-AGGTCAAAGTCAAT
1 AG-GCAGACAAAAGATAAAGAA-GTCTCCCGA-GTCAAAGCCGAT
* * * * * * *
2985779 GGGTAGACTTAAGGATGAAGAAGTCT-CCAAGGTCAAAGCCG-C
1 AGGCAGAC-AAAAGATAAAGAAGTCTCCCGA-GTCAAAGCCGAT
* * * *
2985821 AGGCCA-ACTTAAAGGT-GAGAAGTCTCCCGAGTCAAAGCCGAC
1 AGG-CAGAC-AAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
*
2985863 AGGCAGACAAAAGAAAAAGAAGTCTC
1 AGGCAGACAAAAGATAAAGAAGTCTC
2985889 TTGGGTCAAA
Statistics
Matches: 482, Mismatches: 108, Indels: 46
0.76 0.17 0.07
Matches are distributed among these distances:
40 3 0.01
41 63 0.13
42 385 0.80
43 27 0.06
44 4 0.01
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (42 bp):
AGGCAGACAAAAGATAAAGAAGTCTCCCGAGTCAAAGCCGAT
Found at i:2987140 original size:43 final size:43
Alignment explanation
Indices: 2987079--2987225 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 43
2987069 ATCCTAACAT
* * * * * *
2987079 AAGTCTACAGTGTTAAAGTCGACAGGCAGACTTAAAGGTGGAG
1 AAGTCTCCAGGGTCAAAGTCGATAGGCAGACTTAAGGGTGAAG
* *
2987122 AAGTCTCTAGGGTCAAAGTCGATAGGCAGACCTAAGGGTGAAG
1 AAGTCTCCAGGGTCAAAGTCGATAGGCAGACTTAAGGGTGAAG
* * * * *
2987165 AAATCTCCAGGGTCAAAGCCAATAAGCAAACTTAAGGGTGAAG
1 AAGTCTCCAGGGTCAAAGTCGATAGGCAGACTTAAGGGTGAAG
*
2987208 AAGTCTCCAAGGTCAAAG
1 AAGTCTCCAGGGTCAAAG
2987226 ACTTAAGATC
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (43 bp):
AAGTCTCCAGGGTCAAAGTCGATAGGCAGACTTAAGGGTGAAG
Found at i:2987567 original size:47 final size:47
Alignment explanation
Indices: 2987438--2987592 Score: 168
Period size: 48 Copynumber: 3.3 Consensus size: 47
2987428 AGAAAGAGGA
* * * * ***
2987438 GAGTTTGATTAAGCCCTAACACTAATACAATCAAACGAGGGATGAAAA
1 GAGTTTGACT-AGGCCTAACACTAATACAATCAAACGAAGGAAGATTT
* * *
2987486 GAGTTTAACCAGGCCCTAACACTAATACAGTCAAACGAAGGAAGATTT
1 GAGTTTGACTAGG-CCTAACACTAATACAATCAAACGAAGGAAGATTT
* *
2987534 GAGTTTGACTAGGCCTAACACCAATACAATCAAA-TAAGGGAAGATTT
1 GAGTTTGACTAGGCCTAACACTAATACAATCAAACGAA-GGAAGATTT
2987581 GAGTTTGACTAG
1 GAGTTTGACTAG
2987593 ATATAATCAA
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
46 2 0.02
47 42 0.47
48 46 0.51
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (47 bp):
GAGTTTGACTAGGCCTAACACTAATACAATCAAACGAAGGAAGATTT
Found at i:2989290 original size:20 final size:20
Alignment explanation
Indices: 2989262--2989333 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
2989252 TACCCAGATT
2989262 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * * *
2989282 TATCAATACATGTATGAATG
1 TATCGATACATTTTTCAATG
*
2989302 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
*
2989322 TATTGATACATT
1 TATCGATACATT
2989334 CTATCTTTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:3002706 original size:1 final size:1
Alignment explanation
Indices: 3002700--3002762 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
3002690 CCTTCGTACC
* * * * ** * *
3002700 AAAAAAAAAACAAAAAAAACAAAAAAATAGAAAAAACCAAAAGAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3002763 CAGAAAGGGG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:3002716 original size:9 final size:9
Alignment explanation
Indices: 3002702--3002760 Score: 61
Period size: 9 Copynumber: 6.9 Consensus size: 9
3002692 TTCGTACCAA
3002702 AAAAAAAAC
1 AAAAAAAAC
3002711 AAAAAAAAC
1 AAAAAAAAC
*
3002720 -AAAAAAAT
1 AAAAAAAAC
*
3002728 AGAAAAAAC
1 AAAAAAAAC
* *
3002737 -CAAAAGA-
1 AAAAAAAAC
3002744 AAAAAAAAC
1 AAAAAAAAC
3002753 AAAAAAAA
1 AAAAAAAA
3002761 AACAGAAAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
8 17 0.43
9 23 0.57
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:3004008 original size:28 final size:28
Alignment explanation
Indices: 3003965--3004435 Score: 557
Period size: 28 Copynumber: 16.5 Consensus size: 28
3003955 CGTTCATCTC
3003965 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
3003993 TTTAAAGCCCACAAGTTAGTGGCATTCTTT
1 TTCAAAGCCCACAAGTCAGTGGCA--CCCT
**
3004023 TTCAAAGCCCACAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
3004051 TTCAAAGCCCACAAGTTAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
3004079 TTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
3004107 TTTAAAGCCCACAAGTTAGTGGCACACTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
3004136 TTCAAAGCCCACACGAGTTAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
3004168 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
3004196 TTCAAAGCCCATGAGTCGGTGGCAATTCCT
1 TTCAAAGCCCACAAGTCAGTGGC-A-CCCT
*
3004226 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3004254 TTCAAAGCCCACAAGTCAATGACA-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3004281 TGTCAAAGCCCACAAGTCAATGACACCCT
1 T-TCAAAGCCCACAAGTCAGTGGCACCCT
* *
3004310 GTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
3004338 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
3004367 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
3004395 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
3004423 TTCAAAGCCCACA
1 TTCAAAGCCCACA
3004436 CGAGTCGGTG
Statistics
Matches: 388, Mismatches: 44, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
27 4 0.01
28 254 0.65
29 46 0.12
30 56 0.14
31 10 0.03
32 18 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:3004319 original size:203 final size:198
Alignment explanation
Indices: 3003965--3004435 Score: 667
Period size: 203 Copynumber: 2.4 Consensus size: 198
3003955 CGTTCATCTC
* * * *
3003965 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCATTCTTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATTC-CTTTCAAAG
* * * **
3004030 CCCACAAGTCAGTGGCATTCTTTCAAAGCCCACAAGTTAGTGGTATCCTTTCAAAGCCCACAAGT
65 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGACATCCTTTCAAAGCCCACAAGT
* * * * * * *
3004095 CAGTGGCACTCTTTTAAAGCCCACAAGTTAGTGGCACACTTTTCAAAGCCCACACGAGTTAGTGG
130 CAATGACACCCTGTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACA--AGTCAGTGG
3004160 CAACTCTT
192 C-ACTCTT
* * * *
3004168 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCATGAGTCGGTGGCAATTCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGC-ATTCCTTTCAAAG
3004233 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGACA-CCTTGTCAAAGCCCACAAG
65 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGACATCCTT-TCAAAGCCCACAAG
3004297 TCAATGACACCCTGTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
129 TCAATGACACCCTGTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
*
3004362 TTCTT
194 CTCTT
*
3004367 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCA-CCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATTCCTTTCAAAGC
3004431 CCACA
66 CCACA
3004436 CGAGTCGGTG
Statistics
Matches: 240, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
197 16 0.07
198 1 0.00
199 52 0.22
200 9 0.04
202 20 0.08
203 138 0.57
204 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (198 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATTCCTTTCAAAGC
CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGACATCCTTTCAAAGCCCACAAGTC
AATGACACCCTGTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACT
CTT
Found at i:3004480 original size:231 final size:232
Alignment explanation
Indices: 3003965--3004480 Score: 665
Period size: 231 Copynumber: 2.2 Consensus size: 232
3003955 CGTTCATCTC
* * *
3003965 TTCAAAGCCCACA-AGTCAGTGGC-ACCCTTTTAAAGCCCACAAGTTAGTGGCATTCTTTTTCAA
1 TTCAAAGCCCACAGAGTCGGTGGCAACTCTTTTAAAGCCCACAAGTTAGTGGCATTCTCTTTCAA
* * * * * ** * *
3004028 AGCCCACAAGTCAGTGGCATTCTTTCAAAGCCCACAAGTTAGTGGTATCCTTTCAAAGCCCACAA
66 AGCCCACAAGTCAATGACATCCTTTCAAAGCCCACAAGTCAATGACACCCTGTCAAAGCCCACAA
* *
3004093 GTCAGTGGCACTCTTTTAAAGCCCACAAGTTAGTGGCACACTTTTCAAAGCCCACACGAGTTAGT
131 GTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACACTTTTCAAAGCCCACAC-AGTCAGT
* *
3004158 GGCAACTCTTTTCAAAGCCCACAAGTCAATGGCATCCT
195 GGCAACTCCTTTCAAAGCCCACAAGTCAATGGCACCCT
* * * *
3004196 TTCAAAGCCCA-TGAGTCGGTGGCAATTCCTTTCAAAGCCCACAAGTCAGTGGCA-TC-CTTTCA
1 TTCAAAGCCCACAGAGTCGGTGGCAACT-CTTTTAAAGCCCACAAGTTAGTGGCATTCTCTTTCA
3004258 AAGCCCACAAGTCAATGACA-CCTTGTCAAAGCCCACAAGTCAATGACACCCTGTCAAAGCCCAC
65 AAGCCCACAAGTCAATGACATCCTT-TCAAAGCCCACAAGTCAATGACACCCTGTCAAAGCCCAC
**
3004322 AAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACA-AGTCA
129 AAGTCAGTGGCACTCTTTT-AAAGCCCACAAGTCAGTGGCACACTTTTCAAAGCCCACACAGTCA
* *
3004385 GTGGC-AC-CCTTTCAAAGCCCATAAGTCAGTGGCACCCT
193 GTGGCAACTCCTTTCAAAGCCCACAAGTCAATGGCACCCT
*
3004423 TTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTGAAAGCCTAAACAAGTTAGTGGCA
1 TTCAAAGCCCACA-GAGTCGGTGGCAACTCTTTT-AAAGCC--CACAAGTTAGTGGCA
3004481 CATTTTTTAA
Statistics
Matches: 246, Mismatches: 29, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
227 38 0.15
228 6 0.02
229 29 0.12
230 8 0.03
231 138 0.56
232 3 0.01
233 24 0.10
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (232 bp):
TTCAAAGCCCACAGAGTCGGTGGCAACTCTTTTAAAGCCCACAAGTTAGTGGCATTCTCTTTCAA
AGCCCACAAGTCAATGACATCCTTTCAAAGCCCACAAGTCAATGACACCCTGTCAAAGCCCACAA
GTCAGTGGCACTCTTTTAAAGCCCACAAGTCAGTGGCACACTTTTCAAAGCCCACACAGTCAGTG
GCAACTCCTTTCAAAGCCCACAAGTCAATGGCACCCT
Found at i:3004612 original size:45 final size:46
Alignment explanation
Indices: 3004557--3004670 Score: 131
Period size: 49 Copynumber: 2.4 Consensus size: 46
3004547 ATCGCTAGCA
* * *
3004557 TTGAATCAGCATATTGGCACCTTT-ATTAGCCCAATGTCGCTGGTC
1 TTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTCACTGGGC
* *
3004602 TTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTCACTGGGC
1 TTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATGTCACTGGGC
**
3004651 TTGAATTGGCACATTGGCAC
1 TTGAATCAGCACATTGGCAC
3004671 TCCTCTCATC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
45 16 0.28
47 9 0.16
49 33 0.57
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (46 bp):
TTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTCACTGGGC
Found at i:3004785 original size:29 final size:29
Alignment explanation
Indices: 3004709--3004832 Score: 149
Period size: 29 Copynumber: 4.1 Consensus size: 29
3004699 TGGCACCTAT
* *
3004709 TTTTCAAAGCCCACAACTACGTGGCACTCTT
1 TTTTCAAAGCCCACAACTCCGTGGCAC-C-C
* * **
3004740 TTCCTTCTAAGTCCACAACTTTGTGGCACCC
1 TT--TTCAAAGCCCACAACTCCGTGGCACCC
3004771 TTTTCAAAGCCCACAACTCCGTGGCACCC
1 TTTTCAAAGCCCACAACTCCGTGGCACCC
*
3004800 TTTTCAAAGCCCACAACTCCGTGGCACTC
1 TTTTCAAAGCCCACAACTCCGTGGCACCC
3004829 TTTT
1 TTTT
3004833 TCCCTTTTAA
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
29 55 0.68
31 4 0.05
32 1 0.01
33 21 0.26
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.29
Consensus pattern (29 bp):
TTTTCAAAGCCCACAACTCCGTGGCACCC
Found at i:3004794 original size:62 final size:63
Alignment explanation
Indices: 3004683--3004804 Score: 192
Period size: 62 Copynumber: 1.9 Consensus size: 63
3004673 CTCTCATCTA
* * *
3004683 TAAGTCCACGACTTTGTGGCACCTATTTTTCAAAGCCCACAACTACGTGGCACTCTTTTCCTTC
1 TAAGTCCACAACTTTGTGGCACC-ACTTTTCAAAGCCCACAACTACGTGGCACCCTTTTCCTTC
*
3004747 TAAGTCCACAACTTTGTGGCACC-CTTTTCAAAGCCCACAACTCCGTGGCACCCTTTTC
1 TAAGTCCACAACTTTGTGGCACCACTTTTCAAAGCCCACAACTACGTGGCACCCTTTTC
3004805 AAAGCCCACA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 32 0.59
64 22 0.41
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (63 bp):
TAAGTCCACAACTTTGTGGCACCACTTTTCAAAGCCCACAACTACGTGGCACCCTTTTCCTTC
Found at i:3004852 original size:36 final size:35
Alignment explanation
Indices: 3004797--3004880 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 35
3004787 CTCCGTGGCA
* * *
3004797 CCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTT-AAAGTCCACAACTCCATGGCAC-CTTGTT
*
3004834 CCCTTTTAAAGTCCACAACTTCATGGCACCTTGTT
1 CCCTTTTAAAGTCCACAACTCCATGGCACCTTGTT
3004869 -CCTTTT-AAGTCC
1 CCCTTTTAAAGTCC
3004881 CTCGTGGCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 6 0.14
34 6 0.14
35 5 0.12
36 19 0.44
37 7 0.16
ACGTcount: A:0.20, C:0.35, G:0.11, T:0.35
Consensus pattern (35 bp):
CCCTTTTAAAGTCCACAACTCCATGGCACCTTGTT
Found at i:3004974 original size:65 final size:64
Alignment explanation
Indices: 3004896--3005256 Score: 528
Period size: 65 Copynumber: 5.6 Consensus size: 64
3004886 GGCACCTTTC
* * *
3004896 ACCCTT-TCTAAAGCCCACACAAGCCGGTGGCAAACCTTTTTTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGC-AACCCTCTTTAAAGCCCACACAAGTCGGTGGC
3004960 A
64 A
3004961 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCC-TCTTTAAAGCCCACACAAGTCGGTGGCA
* * *
3005026 ACCCTTCTCAAATCCCACACAAGTCGATGGCAACCCT-TCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCT-TTAAAGCCCACACAAGTCGGTGGCA
* *
3005090 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTTTAAAGCCCACACAAGTCGGTGGCA
* * *
3005154 ACCATTCATCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTC-TCAAAGCCCACACAAGTCGGTGGCAACCCTCTTTAAAGCCCACACAAGTCGGTGGCA
* * *
3005219 ACCATTCTCTAAAGCCTACACAAGTTGGTGGCAACCCT
1 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCCT
3005257 TCTAAGCCCA
Statistics
Matches: 276, Mismatches: 14, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
63 1 0.00
64 94 0.34
65 179 0.65
66 2 0.01
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.19
Consensus pattern (64 bp):
ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTTTAAAGCCCACACAAGTCGGTGGCA
Found at i:3004979 original size:32 final size:32
Alignment explanation
Indices: 3004896--3005266 Score: 527
Period size: 32 Copynumber: 11.5 Consensus size: 32
3004886 GGCACCTTTC
*
3004896 ACCCTT-TCTAAAGCCCACACAAGCCGGTGGCAA
1 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGC-A
* * *
3004929 ACCTTTTTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
3004961 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
*
3004993 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTC-TCAAAGCCCACACAAGTCGGTGGCA
* *
3005026 ACCCTTCTCAAATCCCACACAAGTCGATGGCA
1 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
3005058 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
3005090 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
*
3005122 ACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGCA
*
3005154 ACCATTCATCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTC-TCAAAGCCCACACAAGTCGGTGGCA
*
3005187 ACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGCA
* * *
3005219 ACCATTCTCTAAAGCCTACACAAGTTGGTGGCA
1 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGCA
3005252 ACCCTTCT--AAGCCCA
1 ACCCTTCTCAAAGCCCA
3005267 ATATAGCTGG
Statistics
Matches: 310, Mismatches: 21, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
30 6 0.02
31 6 0.02
32 177 0.57
33 118 0.38
34 3 0.01
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.19
Consensus pattern (32 bp):
ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
Found at i:3005083 original size:129 final size:129
Alignment explanation
Indices: 3004896--3005259 Score: 545
Period size: 129 Copynumber: 2.8 Consensus size: 129
3004886 GGCACCTTTC
* * * *
3004896 ACCCTT-TCTAAAGCCCACACAAGCCGGTGGCAAACCTTTTTTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGC-AACCCTTCTCAAAGCCCACACAAGTCGGTGGC
*
3004960 AACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTTTAAAGCCCACACAAGTCGGTGGC
64 AACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGC
3005025 A
129 A
* *
3005026 ACCCTTCTCAAATCCCACACAAGTCGATGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
*
3005091 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
66 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
3005154 ACCATTCATCAAAGCCCACACAAGTCGGTGGCAACCC-TCTCTAAAGCCCACACAAGTTGGTGGC
1 ACCCTTC-TCAAAGCCCACACAAGTCGGTGGCAACCCTTCTC-AAAGCCCACACAAGTCGGTGGC
* * *
3005218 AACCATTCTCTAAAGCCTACACAAGTTGGTGGCAACCCTTCT
64 AACCCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCCTTCT
3005260 AAGCCCAATA
Statistics
Matches: 214, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
128 36 0.17
129 123 0.57
130 50 0.23
131 5 0.02
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.19
Consensus pattern (129 bp):
ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
CCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:3005370 original size:43 final size:43
Alignment explanation
Indices: 3005305--3005762 Score: 493
Period size: 43 Copynumber: 10.1 Consensus size: 43
3005295 GCACCTTCAT
*
3005305 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
3005348 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGCCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
* * * *
3005392 TTCATCATTATGTCCAATGTAACTGGCCTTGAATCTGCACATTGGCAC
1 --C-T--TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
3005440 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
3005487 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
3005532 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
3005579 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
3005624 CTTTAAGTCCAATATAGCTGGCATTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
3005671 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
3005716 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
3005759 CTTT
1 CTTT
3005763 TCCATCTTTA
Statistics
Matches: 348, Mismatches: 43, Indels: 48
0.79 0.10 0.11
Matches are distributed among these distances:
43 190 0.55
44 1 0.00
45 4 0.01
46 2 0.01
47 4 0.01
48 1 0.00
49 146 0.42
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:3005421 original size:92 final size:92
Alignment explanation
Indices: 3005254--3005815 Score: 881
Period size: 92 Copynumber: 6.1 Consensus size: 92
3005244 TGGTGGCAAC
* *
3005254 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
3005319 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
3005347 CCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGCCATCTTCATCATTATGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
* *
3005412 AACTGGCCTTGAATCTGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
3005439 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
3005504 AGCTGGCCTTGAATTAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
3005531 CCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
3005596 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
3005623 CCTTTAAGTCCAATATAGCTGGCATTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
3005688 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
3005715 CCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAA
* *
3005780 TGTAGCTGGCCTTGGATCAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
3005810 TCCTTT
1 -CCTTT
3005816 TTCTCATCTT
Statistics
Matches: 432, Mismatches: 33, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
92 380 0.88
93 4 0.01
94 2 0.00
95 41 0.09
96 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:3005578 original size:184 final size:184
Alignment explanation
Indices: 3005254--3006035 Score: 900
Period size: 184 Copynumber: 4.0 Consensus size: 184
3005244 TGGTGGCAAC
*
3005254 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
3005319 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATA
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
* * * * *
3005384 TTGCCATCTTCATCATTATGTCCAATGTAACTGGCCTTGAATCTGCACATTGGCA
130 TTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
3005439 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* *
3005504 AGCTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
3005569 TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
3005623 CCTTTAAGTCCAATATAGCTGGCATTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* *
3005688 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* * * *
3005753 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGGATCAGCACATTGACA
131 TGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * * * *
3005810 TCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGTCATGAATCAACATATTGGAATCTTTATCAT
1 ----------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---------CA-
*
3005875 TTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
44 ------C--CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
* * * *
3005940 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCA
95 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT-A
3006005 -CTGGCCTTGAATCAGCACATTGGCA
159 GCTGGCCTTGAATCAGCACATTGGCA
*
3006030 CTTTTA
1 CCTTTA
3006036 TCTTTAAGTC
Statistics
Matches: 513, Mismatches: 44, Indels: 57
0.84 0.07 0.09
Matches are distributed among these distances:
184 294 0.57
185 4 0.01
186 3 0.01
187 42 0.08
197 1 0.00
199 33 0.06
208 6 0.01
210 1 0.00
215 1 0.00
217 46 0.09
220 40 0.08
221 4 0.01
223 38 0.07
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (184 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:3005799 original size:52 final size:55
Alignment explanation
Indices: 3005716--3006026 Score: 168
Period size: 49 Copynumber: 5.7 Consensus size: 55
3005706 ACATTGGCAC
* *
3005716 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
* * **
3005768 CTTTAAGTTCAATGTAGCTGGCCTTGGATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
* * * * * * * * *
3005823 CTTTAAGCCCAATATCGTTGGTCATGAATCAACATATTGGAATCTTTATCATTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATT-G-A-C---ATC--CTTT-T--TC-TC
3005888 AT
54 AT
* * * *
3005890 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
* * * *
3005939 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
* *
3005988 CTTTAAGTCCAATGTCA-CTGGCCTTGAATCAGCACATTG
1 CTTTAAGTCCAATAT-AGCTGGCCTTAAATCAGCACATTG
3006027 GCACTTTTAT
Statistics
Matches: 215, Mismatches: 28, Indels: 35
0.77 0.10 0.13
Matches are distributed among these distances:
49 89 0.41
51 1 0.00
52 36 0.17
53 2 0.01
54 5 0.02
55 31 0.14
56 1 0.00
57 1 0.00
58 1 0.00
60 1 0.00
61 4 0.02
63 3 0.01
64 2 0.01
66 3 0.01
67 35 0.16
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:3005941 original size:49 final size:49
Alignment explanation
Indices: 3005884--3006049 Score: 296
Period size: 49 Copynumber: 3.4 Consensus size: 49
3005874 TTTTTCTCAT
3005884 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
*
3005933 CTTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
*
3005982 CTTCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* *
3006031 TTTTATCTTTAAGTCCAAT
1 CTTCATCTTTAAGTCCAAT
3006050 ATCACTAGCC
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 112 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:3006781 original size:13 final size:13
Alignment explanation
Indices: 3006763--3006787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3006753 CATAAAGTAT
3006763 TGTATCGATACAA
1 TGTATCGATACAA
3006776 TGTATCGATACA
1 TGTATCGATACA
3006788 TGTTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3006785 original size:33 final size:33
Alignment explanation
Indices: 3006743--3006821 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
3006733 TTCAACGATT
3006743 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
**** *
3006776 TGTATCGATACATGTTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
*
3006809 TGTTTCGATACAT
1 TGTATCGATACAT
3006822 GTTTTTTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATAAAGTATTGTATCGATACAA
Found at i:3006822 original size:33 final size:33
Alignment explanation
Indices: 3006762--3006842 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
3006752 ACATAAAGTA
3006762 TTGTATCGATACAATGTATCGATACATGTTTTT
1 TTGTATCGATACAATGTATCGATACATGTTTTT
*
3006795 TTGTATCGATACAATGTTTCGATACATGTTTTT
1 TTGTATCGATACAATGTATCGATACATGTTTTT
3006828 TTGTATCGATACAAT
1 TTGTATCGATACAAT
3006843 TTAAGCTACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (33 bp):
TTGTATCGATACAATGTATCGATACATGTTTTT
Found at i:3006901 original size:13 final size:13
Alignment explanation
Indices: 3006883--3006907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3006873 ATTACTCAAA
3006883 TGTATCGATACAT
1 TGTATCGATACAT
3006896 TGTATCGATACA
1 TGTATCGATACA
3006908 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3006959 original size:52 final size:50
Alignment explanation
Indices: 3006896--3007044 Score: 190
Period size: 52 Copynumber: 2.9 Consensus size: 50
3006886 ATCGATACAT
* *
3006896 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGAAAATTTGCCCATA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGAAAATTTGCCCAAA
* * *
3006948 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAAA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGAAAATTTGCCCAAA
*
3007000 TGTATCGATACACTATTAAATGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGAAAATTT
3007045 TCATATTTCG
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGAAAATTTGCCCAAA
Found at i:3010781 original size:32 final size:30
Alignment explanation
Indices: 3010745--3010803 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
3010735 GAAATCTAAT
3010745 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
3010777 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
3010804 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:3011102 original size:13 final size:13
Alignment explanation
Indices: 3011084--3011109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3011074 AATTTTTTTG
3011084 TGTATCGATACAT
1 TGTATCGATACAT
3011097 TGTATCGATACAT
1 TGTATCGATACAT
3011110 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3011120 original size:32 final size:34
Alignment explanation
Indices: 3011063--3011127 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
3011053 TACAAGCCAA
*
3011063 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
3011097 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
3011128 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:3011232 original size:20 final size:20
Alignment explanation
Indices: 3011179--3011234 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
3011169 ACCTCTTTTT
*
3011179 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
3011199 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
3011218 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
3011235 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:3013211 original size:21 final size:20
Alignment explanation
Indices: 3013182--3013224 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3013172 GACTAGTGTG
*
3013182 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGTGACCT
*
3013203 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGTGACCT
3013223 GG
1 GG
3013225 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGTGACCT
Found at i:3013673 original size:13 final size:13
Alignment explanation
Indices: 3013655--3013692 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3013645 ATAATCCCCC
3013655 TGTATCGATACAG
1 TGTATCGATACAG
* *
3013668 TGTATCGATATAT
1 TGTATCGATACAG
3013681 TGTATCGATACA
1 TGTATCGATACA
3013693 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3015793 original size:15 final size:15
Alignment explanation
Indices: 3015773--3015803 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3015763 ATTTCGTTTG
*
3015773 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3015788 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3015803 G
1 G
3015804 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3017636 original size:21 final size:21
Alignment explanation
Indices: 3017607--3017651 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3017597 AAGTTTTTAT
*
3017607 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3017627 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3017649 TTT
1 TTT
3017652 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3019582 original size:32 final size:30
Alignment explanation
Indices: 3019546--3019604 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
3019536 AAAATCTAAT
3019546 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
3019578 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
3019605 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:3019903 original size:13 final size:13
Alignment explanation
Indices: 3019885--3019910 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3019875 AATTTTTTTG
3019885 TGTATCGATACAT
1 TGTATCGATACAT
3019898 TGTATCGATACAT
1 TGTATCGATACAT
3019911 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3019921 original size:32 final size:34
Alignment explanation
Indices: 3019864--3019928 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
3019854 TACAAGCCAA
*
3019864 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
3019898 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
3019929 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:3020033 original size:20 final size:20
Alignment explanation
Indices: 3019980--3020035 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
3019970 ACATCTTTTT
*
3019980 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
3020000 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
3020019 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
3020036 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:3024301 original size:156 final size:156
Alignment explanation
Indices: 3024011--3024301 Score: 345
Period size: 155 Copynumber: 1.9 Consensus size: 156
3024001 TACTCTTAGG
* * * *
3024011 GGATACCTTCGACATAAAAGTACTCGATACCTCTAAAAGACTTAAAAAGGATTATAGATGGGATG
1 GGATACCTTCGACATAAAAGTACCCGATACCTCTAAAAGACTTAAAAAGGATTAGAAATGAGATG
* * * ** * * *
3024076 AACCTATCTTGAATGCCCACCTTCAGCATAAAAGCGGACCCAGTGACAACTTAAGACTCAGTTCT
66 AACATATCGTAAATGCCCACCTTCAGCATAAAAGAAGAACCAGTGACAACCTAAGAATCAGTTCT
3024141 AAAAAAATTACCAAACTACCCCTAAA
131 AAAAAAATTACCAAACTACCCCTAAA
* * *
3024167 GGATACCTTCGACATAGAAGTACCCGATACC-CTTAAAGGACTTAAAAA-TATTAGAAATGAGAT
1 GGATACCTTCGACATAAAAGTACCCGATACCTC-TAAAAGACTTAAAAAGGATTAGAAATGAGAT
* ** * * **
3024230 GAACATATCGTAAATGCCCACCTT-TGACATAAAAGAAGAACTGGTGACGACCTAGGAATTGGTT
65 GAACATATCGTAAATGCCCACCTTCAG-CATAAAAGAAGAACCAGTGACAACCTAAGAATCAGTT
3024294 CTAAAAAA
129 CTAAAAAA
3024302 TACGAATATG
Statistics
Matches: 111, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
154 1 0.01
155 67 0.60
156 43 0.39
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (156 bp):
GGATACCTTCGACATAAAAGTACCCGATACCTCTAAAAGACTTAAAAAGGATTAGAAATGAGATG
AACATATCGTAAATGCCCACCTTCAGCATAAAAGAAGAACCAGTGACAACCTAAGAATCAGTTCT
AAAAAAATTACCAAACTACCCCTAAA
Found at i:3024458 original size:157 final size:155
Alignment explanation
Indices: 3024043--3024885 Score: 459
Period size: 155 Copynumber: 5.4 Consensus size: 155
3024033 CTCGATACCT
* * * *
3024043 CTAAA-AGACTTAAAAAGGATTATAGATGG-GATGAACCTATCTTGAATGCCCACCTTCAGCATA
1 CTAAAGAGACTTAAAAAGGA-TATAGATGGAGATGAACCTATCCTAAATACCCACCTTTAGCATA
* ** *
3024106 AAAGCGGACCCAGTGACAACTTAAGACTCAGTTCTAAAAAAATTACCAAACTACCCCTAAAGG-A
65 AAAGCGGACCCGGTGACAACTTAAGACTTGGTTCT-AAAAAATTA-CAAAATACCCCT-AAGGTA
* * *
3024170 TACCTTCGACATAGAAGTACCCGA-T-ACC
127 AACCTTCGACGT-GAAGTACCCCAGTAACC
* * * *
3024198 CTTAAAG-GACTTAAAAA-TAT-TAGAAAT-GAGATGAACATATCGTAAATGCCCACCTTT-GAC
1 C-TAAAGAGACTTAAAAAGGATATAG--ATGGAGATGAACCTATCCTAAATACCCACCTTTAG-C
** * * * * * * * * *
3024258 ATAAAAGAAGAACTGGTGACGACCTAGGAATTGGTTCTAAAAAA-TACGAATATGCCCTTATAGG
62 ATAAAAGCGGACCCGGTGACAACTTAAGACTTGGTTCTAAAAAATTAC-AAAATACCCCTA-AGG
* **
3024322 TAAACCTTCGACGTGAAGGTATCTTAGTAACC
125 TAAACCTTCGACGTGAA-GTACCCCAGTAACC
* *
3024354 CTAAAGAG-CTTAAAAAGGATATAGATGGAGGTGAACCTATCCTAAATACCCACTTTTAGCATGA
1 CTAAAGAGACTTAAAAAGGATATAGATGGAGATGAACCTATCCTAAATACCCACCTTTAGCAT-A
*
3024418 AAAGCGGACCCGGTGACAACTTAAGACTTGGTTCTAAAAAATTACAAAAATACCCCTACGAGTAA
65 AAAGCGGACCCGGTGACAACTTAAGACTTGGTTCTAAAAAATTAC-AAAATACCCCTAAG-GTAA
* *
3024483 ACCTTCAACGT-AA-TAGCGCCC-GATACCC
128 ACCTTCGACGTGAAGTA-C-CCCAG-TAACC
* * * * ** *
3024511 CTAAA-AGACTTAAAAAGGATATGGATGGGGGTAAACCTATCCTAAATACCCACCTTCGGTATAA
1 CTAAAGAGACTTAAAAAGGATATAGATGGAGATGAACCTATCCTAAATACCCACCTTTAGCATAA
** * * * **** * * * *
3024575 AAGCAAACTCGGTG-CTAACCTAGGACACAATTTTAAAAAA-TACAAAAATACCCCTAGGGGATA
66 AAGCGGACCCGGTGAC-AACTTAAGACTTGGTTCTAAAAAATTAC-AAAATACCCCTAAGGTAAA
* * * *
3024638 CCTACGACGTAACAGTGCCCGA-T-ACC
129 CCTTCGACGTGA-AGTACCCCAGTAACC
* * * *
3024664 CTAAAG-GACTTAAAAAGGATA-AGAATAGG-G-TGAACCTATCCTAAGTACCCACCGTCAGTAT
1 CTAAAGAGACTTAAAAAGGATATAG-AT-GGAGATGAACCTATCCTAAATACCCACCTTTAGCAT
** * * * * * * *
3024725 AAAAGCATACCTGG-GACAACTTAGGACTTTGTTTTAGAAAACTACAAAAATACCCGTAGAGG-A
64 AAAAGCGGACCCGGTGACAACTTAAGACTTGGTTCTAAAAAATTAC-AAAATACCCCTA-AGGTA
* * * * *
3024788 TACCTTCGATGTAAAAGTACCCGA-TACCC
127 AACCTTCGACGT-GAAGTACCCCAGTAACC
* * * * * * *
3024817 CTAAAG-GATTTTAAAAAAGATTTTA-ACT-AAGATGAACCTACCCTAAATATCCACCTTTGGCA
1 CTAAAGAGA-CTTAAAAAGGA-TATAGA-TGGAGATGAACCTATCCTAAATACCCACCTTTAGCA
*
3024879 TAGAAGC
63 TAAAAGC
3024886 AAACCTGAGG
Statistics
Matches: 539, Mismatches: 106, Indels: 86
0.74 0.15 0.12
Matches are distributed among these distances:
151 19 0.04
152 77 0.14
153 57 0.11
154 50 0.09
155 126 0.23
156 85 0.16
157 99 0.18
158 26 0.05
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (155 bp):
CTAAAGAGACTTAAAAAGGATATAGATGGAGATGAACCTATCCTAAATACCCACCTTTAGCATAA
AAGCGGACCCGGTGACAACTTAAGACTTGGTTCTAAAAAATTACAAAATACCCCTAAGGTAAACC
TTCGACGTGAAGTACCCCAGTAACC
Found at i:3024725 original size:152 final size:153
Alignment explanation
Indices: 3023987--3024992 Score: 467
Period size: 156 Copynumber: 6.5 Consensus size: 153
3023977 TAAGTTCAAG
* * * * * * * * * *
3023987 AAAAATTACGAAAATACTCTTAGGGGATACCTTCGACATAAAAGTACTCGATACCTCTAAAAGAC
1 AAAAAATACAAAAATACCCCTAGAGGATACCTTCGACGTAAAAGTGCCCGATACCCCTAAAGGAC
* * * * * * * * *
3024052 TTAAAAAGGATTATAG-ATG-GGATGAACCTATCTTGAATGCCCACCTTCAGCATAAAAGCGGAC
66 TTAAAAAGGA-TA-AGAATGAGGGTAAACCTATCCTAAATACCCACCGTCAGTATAAAAGC-AAA
* * * * * * *
3024115 CCAGTGACAACTTAAGACTCAGTTCTA
128 CCTGGGACAACCTAGGACACAATT-TT
* * * * * * *
3024142 AAAAAATTACCAAACTACCCCTAAAGGATACCTTCGACATAGAAGTACCCGATACCCTTAAAGGA
1 AAAAAA-TACAAAAATACCCCTAGAGGATACCTTCGACGTAAAAGTGCCCGATACCCCTAAAGGA
* * * * * * * ** *
3024207 CTTAAAAA-TATTAGAAATGA-GATGAACATATCGTAAATGCCCACC-TTTGACATAAAAG-AAG
65 CTTAAAAAGGATAAG-AATGAGGGTAAACCTATCCTAAATACCCACCGTCAG-TATAAAAGCAA-
* * *** *
3024268 AACTGGTGACGACCTAGGA-ATTGGTTCT
127 ACCTGG-GACAACCTAGGACA-CAATTTT
* * * * * * * * ** ** *
3024296 AAAAAATACGAATATGCCCTTATAGGTAAACCTTCGACGTGAAGGTATCTTAGTAACCCTAAA-G
1 AAAAAATACAAAAATACCCCTAGAGG-ATACCTTCGACGTAAAAGTGCCCGA-TACCCCTAAAGG
* ** * *
3024360 AGCTTAAAAAGGATATAG-ATG-GAGGTGAACCTATCCTAAATACCCACTTTTAGCATGAAAAGC
64 A-CTTAAAAAGGATA-AGAATGAG-GGTAAACCTATCCTAAATACCCACCGTCAGTAT-AAAAGC
** * * * **** *
3024423 GGACCCGGTGACAACTTAAGACTTGGTTCT
125 AAACCTGG-GACAACCTAGGACACAATTTT
* * * * * *
3024453 AAAAAATTACAAAAATACCCCTACGAGTAAACCTTCAACGTAATAGCGCCCGATACCCCTAAAAG
1 AAAAAA-TACAAAAATACCCCTA-GAGGATACCTTCGACGTAAAAGTGCCCGATACCCCTAAAGG
* * * * *
3024518 ACTTAAAAAGGATATGGATGGGGGTAAACCTATCCTAAATACCCACCTTCGGTATAAAAGCAAA-
64 ACTTAAAAAGGATAAGAATGAGGGTAAACCTATCCTAAATACCCACCGTCAGTATAAAAGCAAAC
3024582 CTCGGTG-CTAACCTAGGACACAATTTT
129 CT-GG-GAC-AACCTAGGACACAATTTT
* * *
3024609 AAAAAATACAAAAATACCCCTAGGGGATACCTACGACGTAACAGTGCCCGATA-CCCTAAAGGAC
1 AAAAAATACAAAAATACCCCTAGAGGATACCTTCGACGTAAAAGTGCCCGATACCCCTAAAGGAC
* * *
3024673 TTAAAAAGGATAAGAAT-AGGGTGAACCTATCCTAAGTACCCACCGTCAGTATAAAAGCATACCT
66 TTAAAAAGGATAAGAATGAGGGTAAACCTATCCTAAATACCCACCGTCAGTATAAAAGCAAACCT
* ****
3024737 GGGACAACTTAGGACTTTGTTTT
131 GGGACAACCTAGGACACAATTTT
* * * *
3024760 AGAAAACTACAAAAATACCCGTAGAGGATACCTTCGATGTAAAAGTACCCGATACCCCTAAAGGA
1 A-AAAAATACAAAAATACCCCTAGAGGATACCTTCGACGTAAAAGTGCCCGATACCCCTAAAGGA
* * *** * * * * * * ** * *
3024825 TTTTAAAAAAGATTTTAACT-AAGATGAACCTACCCTAAATATCCACCTTTGGCATAGAAGCAAA
65 -CTTAAAAAGGATAAGAA-TGAGGGTAAACCTATCCTAAATACCCACCGTCAGTATAAAAGCAAA
** * * *
3024889 CCTGAGGACAACCTTTGACTCAGTTCTG
128 CCTG-GGACAACCTAGGACACAATT-TT
* * * * * * * * **
3024917 AAAAATTATAAAAATGCCCCTAGGGGATACCTTCGACATAGAAGTGCTCGACATTCCTAAAGGAC
1 AAAAAATACAAAAATACCCCTAGAGGATACCTTCGACGTAAAAGTGCCCGATACCCCTAAAGGAC
3024982 TTAAAAAGGAT
66 TTAAAAAGGAT
3024993 GATAAAAGGT
Statistics
Matches: 656, Mismatches: 161, Indels: 68
0.74 0.18 0.08
Matches are distributed among these distances:
151 15 0.02
152 86 0.13
153 54 0.08
154 66 0.10
155 136 0.21
156 174 0.27
157 92 0.14
158 31 0.05
159 2 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (153 bp):
AAAAAATACAAAAATACCCCTAGAGGATACCTTCGACGTAAAAGTGCCCGATACCCCTAAAGGAC
TTAAAAAGGATAAGAATGAGGGTAAACCTATCCTAAATACCCACCGTCAGTATAAAAGCAAACCT
GGGACAACCTAGGACACAATTTT
Found at i:3024864 original size:307 final size:311
Alignment explanation
Indices: 3023986--3024992 Score: 696
Period size: 307 Copynumber: 3.2 Consensus size: 311
3023976 CTAAGTTCAA
* * * * * * * * * *
3023986 GAAAAATTACGAAAATACTCTTAGGGGATACCTTCGACATAAAAGTACTCGATACCTCTAAAAGA
1 GAAAAAATACAAAAATACCCCTAGGGGATACCTACGACATAGAAGTGCCCGACACC-CTAAAGGA
* * * * *
3024051 CTTAAAAAGGATTATAGAT-G-GGATGAACCTATCTTGAATGCCCACCTTCAGCAT-AAAAGCGG
65 CTTAAAAAGGA-TATAGATAGAGG-TGAACCTATCCTAAATACCCACCGTCAGCATGAAAAGCAG
* ** * * * * *
3024113 ACCCAGTGACAACTTAAGACTCAGTTCTAAAAAAATTACCAAACTACCCCTA-AAGGATACCTTC
128 ACCCGGTGACAACTTAAGACTTGGTTCT-AAAAAACTACAAAAATACCCCTACGAGGAAACCTTC
* * * * * * * * * *
3024177 GACATAGAAGTACCCGATACCCTTAAAGGACTT-AAAAATAT-TAGAAATG-AGATGAACATATC
192 AACGTAAAAGCACCCGATACCCCTAAAAGACTTAAAAAAGATAT-G-AATGAAGATAAACCTACC
* * * * * * ***
3024239 GTAAATGCCCACCTTTGACATAAAAG-AAGAACTG-GTGACGACCTAGGA-ATTGGTTCT
255 CTAAATACCCACCTTCGGCATAAAAGCAA-ACCTGAG-GACAACCTAGGACA-CAATTCT
* * * * * * * * * * **
3024296 -AAAAAATACGAATATGCCCTTATAGGTAAACCTTCGACGT-GAAGGTATCTTAGTA-ACCCTAA
1 GAAAAAATACAAAAATACCCCTA-GGGGATACCTACGACATAGAA-GT-GC-CCG-ACACCCTAA
* ** *
3024358 A-GAGCTTAAAAAGGATATAGATGGAGGTGAACCTATCCTAAATACCCACTTTTAGCATGAAAAG
61 AGGA-CTTAAAAAGGATATAGATAGAGGTGAACCTATCCTAAATACCCACCGTCAGCATGAAAAG
* * *
3024422 CGGACCCGGTGACAACTTAAGACTTGGTTCTAAAAAATTACAAAAATACCCCTACGAGTAAACCT
125 CAGACCCGGTGACAACTTAAGACTTGGTTCTAAAAAACTACAAAAATACCCCTACGAGGAAACCT
* * * * ** * *
3024487 TCAACGTAATAGCGCCCGATACCCCTAAAAGACTTAAAAAGGATATGGATGGGGGTAAACCTATC
190 TCAACGTAAAAGCACCCGATACCCCTAAAAGACTTAAAAAAGATATGAATGAAGATAAACCTACC
*
3024552 CTAAATACCCACCTTCGGTATAAAAGCAAA-CTCG-GTG-CTAACCTAGGACACAATT-T
255 CTAAATACCCACCTTCGGCATAAAAGCAAACCT-GAG-GAC-AACCTAGGACACAATTCT
* * *
3024608 TAAAAAATACAAAAATACCCCTAGGGGATACCTACGACGTA-ACAGTGCCCGATACCCTAAAGGA
1 GAAAAAATACAAAAATACCCCTAGGGGATACCTACGACATAGA-AGTGCCCGACACCCTAAAGGA
* * *
3024672 CTTAAAAAGGATA-AGAATAG-GGTGAACCTATCCTAAGTACCCACCGTCAGTAT-AAAAGCATA
65 CTTAAAAAGGATATAG-ATAGAGGTGAACCTATCCTAAATACCCACCGTCAGCATGAAAAGCAGA
* * * * * * * *
3024734 CCTGG-GACAACTTAGGACTTTGTTTTAGAAAACTACAAAAATACCCGTA-GAGGATACCTTCGA
129 CCCGGTGACAACTTAAGACTTGGTTCTAAAAAACTACAAAAATACCCCTACGAGGAAACCTTCAA
* * * * * * *
3024797 TGTAAAAGTACCCGATACCCCTAAAGGATTTTAAAAAAGATTTTAACT-AAGATGAACCTACCCT
194 CGTAAAAGCACCCGATACCCCTAAAAGA-CTTAAAAAAGATATGAA-TGAAGATAAACCTACCCT
* * * ** * *
3024861 AAATATCCACCTTTGGCATAGAAGCAAACCTGAGGACAACCTTTGACTCAGTTCT
257 AAATACCCACCTTCGGCATAAAAGCAAACCTGAGGACAACCTAGGACACAATTCT
* * * * * *
3024916 GAAAAATTATAAAAATGCCCCTAGGGGATACCTTCGACATAGAAGTGCTCGACATTCCTAAAGGA
1 GAAAAAATACAAAAATACCCCTAGGGGATACCTACGACATAGAAGTGCCCGACA-CCCTAAAGGA
3024981 CTTAAAAAGGAT
65 CTTAAAAAGGAT
3024993 GATAAAAGGT
Statistics
Matches: 557, Mismatches: 109, Indels: 63
0.76 0.15 0.09
Matches are distributed among these distances:
306 34 0.06
307 99 0.18
308 61 0.11
309 73 0.13
310 49 0.09
311 68 0.12
312 97 0.17
313 72 0.13
314 4 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (311 bp):
GAAAAAATACAAAAATACCCCTAGGGGATACCTACGACATAGAAGTGCCCGACACCCTAAAGGAC
TTAAAAAGGATATAGATAGAGGTGAACCTATCCTAAATACCCACCGTCAGCATGAAAAGCAGACC
CGGTGACAACTTAAGACTTGGTTCTAAAAAACTACAAAAATACCCCTACGAGGAAACCTTCAACG
TAAAAGCACCCGATACCCCTAAAAGACTTAAAAAAGATATGAATGAAGATAAACCTACCCTAAAT
ACCCACCTTCGGCATAAAAGCAAACCTGAGGACAACCTAGGACACAATTCT
Found at i:3025391 original size:148 final size:152
Alignment explanation
Indices: 3025209--3025502 Score: 375
Period size: 149 Copynumber: 2.0 Consensus size: 152
3025199 CAATAATTAA
** * * *
3025209 AATTTATTTTGTTTTTTCAAAAAATTTCATTTCGTGCCTTAATGGAGGACCGAAAAGACACAAAA
1 AATTTATTTTGTTTCCTCAAAAAATTTCATTTCGTACCTTAATGGAGAACCAAAAAGACACAAAA
* * * **
3025274 AGTTTT-GAAAA-TTTCCATATCCCTACAGATGCCCATAAGAATATTAGAAATTTTGAAAAATT-
66 AGTTTTAAAAAACTTT-CATACCCCTACAGATACCCATAAGAATATTAGAAATCCTGAAAAATTC
3025336 AGGATCATAATTTTTATTTAATTT
130 AGG-TCATAATTTTTATTTAATTT
* **
3025360 AATTT-TTTTGTTTCCT-AAAAAA-TTCATTTCGTACCTTAATGGAGAACCAAAAAGATATGAAA
1 AATTTATTTTGTTTCCTCAAAAAATTTCATTTCGTACCTTAATGGAGAACCAAAAAGACACAAAA
* **
3025422 AGTTTTAAAAAACTTTCATACCCCTACGGATACCCATGGGAATATTAGAAATCCTGAAAAATTCA
66 AGTTTTAAAAAACTTTCATACCCCTACAGATACCCATAAGAATATTAGAAATCCTGAAAAATTCA
*
3025487 GGTTATAATTTTTATT
131 GGTCATAATTTTTATT
3025503 GGACGAAAAA
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
148 40 0.33
149 63 0.51
150 15 0.12
151 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (152 bp):
AATTTATTTTGTTTCCTCAAAAAATTTCATTTCGTACCTTAATGGAGAACCAAAAAGACACAAAA
AGTTTTAAAAAACTTTCATACCCCTACAGATACCCATAAGAATATTAGAAATCCTGAAAAATTCA
GGTCATAATTTTTATTTAATTT
Found at i:3026984 original size:34 final size:32
Alignment explanation
Indices: 3026917--3027012 Score: 115
Period size: 36 Copynumber: 2.9 Consensus size: 32
3026907 GAAGTGATTA
3026917 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAG
1 AGAGGTTCTATCTTAG-CTTTG--AAAGATAGGG-G
3026953 AGAGGTTCTATCTTAGCTTGTGAAAGATA-GGG
1 AGAGGTTCTATCTTAGCTT-TGAAAGATAGGGG
* *
3026985 AG-GTTTCTATCTTAGCCTTGAAAGATAG
1 AGAGGTTCTATCTTAGCTTTGAAAGATAG
3027013 TGTTGTAAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
30 9 0.16
31 14 0.25
32 3 0.05
33 2 0.04
34 7 0.12
35 3 0.05
36 18 0.32
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.31
Consensus pattern (32 bp):
AGAGGTTCTATCTTAGCTTTGAAAGATAGGGG
Found at i:3028609 original size:21 final size:22
Alignment explanation
Indices: 3028585--3028645 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
3028575 GAATTGGAGG
3028585 AGAAAATGAATGAGTTAG-AAA
1 AGAAAATGAATGAGTTAGCAAA
3028606 AGAAAA-GAAATGAGTT-GCAAA
1 AGAAAATG-AATGAGTTAGCAAA
3028627 ATGAAAATG-ATGAGTTAGC
1 A-GAAAATGAATGAGTTAGC
3028646 TAATAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 2 0.06
21 25 0.71
22 7 0.20
23 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.25, T:0.20
Consensus pattern (22 bp):
AGAAAATGAATGAGTTAGCAAA
Found at i:3031932 original size:19 final size:19
Alignment explanation
Indices: 3031908--3031979 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
3031898 TGCGTTGATA
3031908 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
3031927 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
**
3031946 CATTGTATCGATACATGGA
1 CATTGTATCGATACATGTT
3031965 CAATTGTATCGATAC
1 C-ATTGTATCGATAC
3031980 TTGAAACTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 37 0.74
20 13 0.26
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:3032586 original size:35 final size:36
Alignment explanation
Indices: 3032516--3032608 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 36
3032506 CGAAGTGATT
*
3032516 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCTGTGAAAAAGATAGGGA
3032552 GAGAGGTTCTATCTTAG-CTCGTG-AAAAGATA-GG-
1 GAGAGGTTCTATCTTAGCCT-GTGAAAAAGATAGGGA
*
3032585 GAG-GTTTCTATCTTAGCCT-TGAAA
1 GAGAGGTTCTATCTTAGCCTGTGAAA
3032609 GATAGTGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
31 2 0.04
32 14 0.27
33 5 0.10
34 2 0.04
35 10 0.19
36 19 0.37
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCTGTGAAAAAGATAGGGA
Found at i:3033883 original size:13 final size:13
Alignment explanation
Indices: 3033865--3033889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3033855 TTCAACGATT
3033865 TGTATCGATACAA
1 TGTATCGATACAA
3033878 TGTATCGATACA
1 TGTATCGATACA
3033890 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3034014 original size:52 final size:51
Alignment explanation
Indices: 3033951--3034100 Score: 212
Period size: 52 Copynumber: 2.9 Consensus size: 51
3033941 CATTACTCAA
**
3033951 ATGTATCGATACACTGATATTTGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACT-ATAAATGTATCGATACATGCAGGCAAATTTGCCCAG
* *
3034003 ATGTATCGATACA-TAATAAAATGTATCGATGCATGCAGGGAAATTTGCCCAG
1 ATGTATCGATACACT-AT-AAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
3034055 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGTAAATTT
1 ATGTATCGATACACTA-TAAATGTATCGATACATGCAGGCAAATTT
3034101 TCATATTTCG
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 3 0.03
52 83 0.94
53 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACACTATAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:3034992 original size:20 final size:21
Alignment explanation
Indices: 3034940--3034992 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
3034930 CATCATTATA
*
3034940 ACAGCCCATGATTCATGCATTT
1 ACAG-CCATGTTTCATGCATTT
**
3034962 TGAGCCATGTTTCATGCATTT
1 ACAGCCATGTTTCATGCATTT
3034983 ACAG-CATGTT
1 ACAGCCATGTT
3034993 CAGCACCTCC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 6 0.23
21 18 0.69
22 2 0.08
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (21 bp):
ACAGCCATGTTTCATGCATTT
Found at i:3039020 original size:13 final size:12
Alignment explanation
Indices: 3039003--3039035 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
3038993 CCTTGAATTT
3039003 TCTTTTTTTCTC
1 TCTTTTTTTCTC
3039015 TCCTTTTTTTCTC
1 T-CTTTTTTTCTC
3039028 TCTTTTTT
1 TCTTTTTT
3039036 CTCCTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTTTTCTC
Found at i:3040036 original size:166 final size:166
Alignment explanation
Indices: 3039634--3040330 Score: 738
Period size: 166 Copynumber: 4.2 Consensus size: 166
3039624 TAGACCAAAG
* * * * * *
3039634 AAAATCCCCTTG-AAATATTTACGGAGAAGAAAACTCGGT-TTCTCGAAAAAAGAAGAA-TTTCA
1 AAAATCCCCTCGAAAAAATTTATGGAGAAGAAAACACCGTATT-TCAAAAAAAG-AGAAGTTTCA
* * * * * * *
3039696 ACAAAAAAATCCAAAACTCGTGAAAATTAATTAATTTTTTAAAACTGAATTAATATG-AATCGAA
64 AGAAAAAAATCCAAAACTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGAAAT-AAA
* * * * *
3039760 TGATGATGTTTGATGAATTCT-AAAATTGAAAACTAAGA
128 TAATAATGTTTGATGAATTTTCAAAATTAAAAACCAAGA
* * * * * * *
3039798 AAAATCTCCTTGAAAAAATTTACGGAGAAAAAAACACTGTA-TTCAGGAAAAATAGAAGTTTCAA
1 AAAATCCCCTCGAAAAAATTTATGGAGAAGAAAACACCGTATTTCA-AAAAAAGAGAAGTTTCAA
* *
3039862 -AGAAAAAAT-AAAAACCTCATGAAAATGAACGAATTTTTGAAAAATGAATTAATATGAAATAAA
65 GA-AAAAAATCCAAAA-CTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAA
* *
3039925 TAATGATGTTTGATGAATTTTCAAAATTGAAAACCAAGA
128 TAATAATGTTTGATGAATTTTCAAAATTAAAAACCAAGA
*
3039964 AAAATCCCCTCGAAAAAATTTATGGAGTAGAAAACACCGTATTTCAAAAAAAGAGAAGTTTCAAG
1 AAAATCCCCTCGAAAAAATTTATGGAGAAGAAAACACCGTATTTCAAAAAAAGAGAAGTTTCAAG
* * * * *
3040029 AAAAAAATCGAAAATTCATGAACATGAATGAATTTTTGAAAATTGAATTAATATGAAA-AAAGTG
66 AAAAAAATCCAAAACTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAA-TA
* * *
3040093 ATAACGTTTGAT-AAATTTCAAAAATTAAAAACCACGA
130 ATAATGTTTGATGAATTTTC-AAAATTAAAAACCAAGA
* * * *
3040130 AAAATCTCCCTC-AAAATATTTATGGAGTAGAAAACACCGTATTTCAAAAAAAGAGAAATTTTAA
1 AAAATC-CCCTCGAAAAAATTTATGGAGAAGAAAACACCGTATTTCAAAAAAAGAGAAGTTTCAA
3040194 GAAAAAAAT-CAAAAGCTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAAT
65 GAAAAAAATCCAAAA-CTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAAT
* * * **
3040258 AA-AATTATTTGATAAATTTTAAAAATTAAAAATTAAGA
129 AATAA-TGTTTGATGAATTTTCAAAATTAAAAACCAAGA
* **
3040296 AAAAT-CCTTCAGAAAAAATTTATACAGAAGAAAAC
1 AAAATCCCCTC-GAAAAAATTTATGGAGAAGAAAAC
3040331 CCCATAATTT
Statistics
Matches: 455, Mismatches: 58, Indels: 38
0.83 0.11 0.07
Matches are distributed among these distances:
164 26 0.06
165 113 0.25
166 294 0.65
167 22 0.05
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (166 bp):
AAAATCCCCTCGAAAAAATTTATGGAGAAGAAAACACCGTATTTCAAAAAAAGAGAAGTTTCAAG
AAAAAAATCCAAAACTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAA
TAATGTTTGATGAATTTTCAAAATTAAAAACCAAGA
Found at i:3040298 original size:332 final size:331
Alignment explanation
Indices: 3039611--3040330 Score: 828
Period size: 332 Copynumber: 2.2 Consensus size: 331
3039601 TATTAGATCC
** * * * * * *
3039611 ATTTTAAAAATTTTAGACCAA-AGAAAATCCCCTTG-AAATATTTACGGAGAAGAAAACTCGGTT
1 ATTTTAAAAATTAAAAACCAAGA-AAAATCCCCTCGAAAAAATTTATGGAGAAGAAAACACCGTT
* * * * *
3039674 TCTCGAAAAAAGAAGAATTTCAACAAAAAAATCCAAAACTCGTGAAAATTAATTAATTTTTTAAA
65 TCTCAAAAAAAGAAGAATTTCAACAAAAAAATCCAAAACTCATGAAAATGAATGAATTTTTGAAA
** * * * * * *
3039739 ACTGAATTAATATGAATCGAATGATGATGTTTGATGAATTCTAAAATTGAAAACTAAGAAAAATC
130 ACTGAATTAATATGAATAAAATGATAACGTTTGATAAATTCAAAAATTAAAAACCAAGAAAAATC
* * * * * *
3039804 TCCTTGAAAAAATTTACGGAGAAAAAAACACTGTATTCAGGAAAAATAGAAGTTTCAAAGAAAAA
195 TCCCTCAAAAAATTTACGGAGAAAAAAACACCGTATTCAGAAAAAAGAGAAATTTCAAAGAAAAA
* *
3039869 ATAAAAACCTCATGAAAATGAACGAATTTTTGAAAAATGAATTAATATGAAATAAATAATGATGT
260 ATAAAAACCTCATGAAAATGAACGAATTTTTGAAAAATGAATTAATATGAAATAAATAATAATAT
*
3039934 TTGATGA
325 TTGATAA
* * *
3039941 ATTTTCAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTATGGAGTAGAAAACACCGTAT
1 ATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAATTTATGGAGAAGAAAACACCGT-T
* * * *
3040006 T-TCAAAAAAAG-AGAAGTTTCAAGAAAAAAATCGAAAATTCATGAACATGAATGAATTTTTGAA
65 TCTCAAAAAAAGAAGAA-TTTCAACAAAAAAATCCAAAACTCATGAAAATGAATGAATTTTTGAA
* *
3040069 AATTGAATTAATATGAA-AAAAGTGATAACGTTTGATAAATTTCAAAAATTAAAAACCACGAAAA
129 AACTGAATTAATATGAATAAAA-TGATAACGTTTGATAAA-TTCAAAAATTAAAAACCAAGAAAA
* * * * *
3040133 ATCTCCCTCAAAATATTTATGGAGTAGAAAACACCGTATTTCA-AAAAAAGAGAAATTT-TAAGA
192 ATCTCCCTCAAAAAATTTACGGAGAAAAAAACACCGTA-TTCAGAAAAAAGAGAAATTTCAAAG-
* * *
3040196 AAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAA-
255 AAAAAATAAAAACCTCATGAAAATGAACGAATTTTTGAAAAATGAATTAATATGAAATAAATAAT
3040260 AATTATTTGATAA
320 AA-TATTTGATAA
** * **
3040273 ATTTTAAAAATTAAAAATTAAGAAAAAT-CCTTCAGAAAAAATTTATACAGAAGAAAAC
1 ATTTTAAAAATTAAAAACCAAGAAAAATCCCCTC-GAAAAAATTTATGGAGAAGAAAAC
3040331 CCCATAATTT
Statistics
Matches: 326, Mismatches: 54, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
330 34 0.10
331 109 0.33
332 179 0.55
333 4 0.01
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (331 bp):
ATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAATTTATGGAGAAGAAAACACCGTTT
CTCAAAAAAAGAAGAATTTCAACAAAAAAATCCAAAACTCATGAAAATGAATGAATTTTTGAAAA
CTGAATTAATATGAATAAAATGATAACGTTTGATAAATTCAAAAATTAAAAACCAAGAAAAATCT
CCCTCAAAAAATTTACGGAGAAAAAAACACCGTATTCAGAAAAAAGAGAAATTTCAAAGAAAAAA
TAAAAACCTCATGAAAATGAACGAATTTTTGAAAAATGAATTAATATGAAATAAATAATAATATT
TGATAA
Found at i:3042854 original size:22 final size:23
Alignment explanation
Indices: 3042829--3042872 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
3042819 TGGTTGGATT
*
3042829 TTTTTCTTTTTTTTC-TCTTTTC
1 TTTTTCTCTTTTTTCTTCTTTTC
3042851 TTTTTCTCTTTTTTCTTCTTTT
1 TTTTTCTCTTTTTTCTTCTTTT
3042873 TTCTTCACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTCTCTTTTTTCTTCTTTTC
Found at i:3042856 original size:13 final size:13
Alignment explanation
Indices: 3042838--3042877 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
3042828 TTTTTTCTTT
3042838 TTTTTCTCTTTTC
1 TTTTTCTCTTTTC
3042851 TTTTTCTCTTTT-
1 TTTTTCTCTTTTC
* *
3042863 TTCTTCTTTTTTC
1 TTTTTCTCTTTTC
3042876 TT
1 TT
3042878 CACACTTGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTCTTTTC
Found at i:3042862 original size:23 final size:22
Alignment explanation
Indices: 3042829--3042872 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
3042819 TGGTTGGATT
3042829 TTTTTCTTTTTTT-TCTCTTTTC
1 TTTTTCTTTTTTTCT-TCTTTTC
3042851 TTTTTCTCTTTTTTCTTCTTTT
1 TTTTTCT-TTTTTTCTTCTTTT
3042873 TTCTTCACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 12 0.60
24 1 0.05
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTCTTTTTTTCTTCTTTTC
Found at i:3042875 original size:10 final size:10
Alignment explanation
Indices: 3042828--3042878 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
3042818 TTGGTTGGAT
*
3042828 TTTTTTCTTT
1 TTTTTTCTTC
*
3042838 TTTTTCTCTTT
1 TTTTT-TCTTC
3042849 TCTTTTTC-TC
1 T-TTTTTCTTC
3042859 TTTTTTCTTC
1 TTTTTTCTTC
3042869 TTTTTTCTTC
1 TTTTTTCTTC
3042879 ACACTTGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 6 0.16
10 19 0.51
11 8 0.22
12 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:3043905 original size:167 final size:165
Alignment explanation
Indices: 3043496--3044313 Score: 822
Period size: 157 Copynumber: 4.9 Consensus size: 165
3043486 AAAACTTGGT
* * *
3043496 TTTCGAAAAAATAAGG-A-TTTCAAAGAAAAAATTCAAAAACTTATGAAAATGAATGAATTTTAG
1 TTTC-AAAAAA-AAGGAAGTTTCAAGGAAAAAA-TCAAAAACTAATGAAAATGAATGAATTTTTG
* * * * * * * *
3043559 AAAACTGAATTAATATG-AATCAAATGATGATGCTTGATGAATTATAAAAATTGAAAATCGAGAA
63 AAAACTGAATTAATAAGAAAT-AAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAAAA
* * * *
3043623 AAATCCCCTCAAAAAAATTTATGGAGTAGAAAAAATCGTA
127 AAATCCCCT-GAAAAAATTTACGGAGTAGAAAATACCGTA
*
3043663 TTT-AAGAAAAAAGGGAGTTTCAAGG----AA--AAAAA-TAA--AAAATGAATGAATTTTTGAA
1 TTTCAA-AAAAAAGGAAGTTTCAAGGAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTGAA
* * * *
3043718 AACTTAATTACTATGAAATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAAAAAAA
65 AACTGAATTAATAAGAAATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAAAAAAA
*
3043783 TCCCCTCGAAAAAATTTATGGAGTAGAAAATACCGTA
130 TCCCCT-GAAAAAATTTACGGAGTAGAAAATACCGTA
* * * *
3043820 TTTCAAAAAAAAGAAAGTTTCAAGCAAAAAAATCAAAAACTTATGAAAATTG-TTGAATTTTTGA
1 TTTCAAAAAAAAGGAAGTTTCAAG-GAAAAAATCAAAAACTAATGAAAA-TGAATGAATTTTTGA
* ** * * *
3043884 AAACAGAATTAATAAGAAATAAATGGTAATGTTTAATGAATTTTAAAAATTGAAAACTAAGAAAA
64 AAACTGAATTAATAAGAAATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAAAAAA
**
3043949 ATCCTCCTGAAAAAATTTACAGAGTAGAAAATATAGAAAATATAGTA
129 ATCC-CCTGAAAAAATTTAC-G-G-AG------TAGAAAATACCGTA
* * *
3043996 TTTCTAAAAAAAGGAAGTTTTAAGGAAAAAATCAAAAA-TGAATGAAAATGAATGAATTTTTAAA
1 TTTCAAAAAAAAGGAAGTTTCAAGGAAAAAATCAAAAACT-AATGAAAATGAATGAATTTTTGAA
* * * *
3044060 AACTGAATTACTATGAAATAAATGATAATGTTTGATGAATTTTAAAAATAGAAAACCAAAAAAAA
65 AACTGAATTAATAAGAAATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAAAAAAA
**
3044125 TCCCCCCAAAAAATTTACGGAGTAGAAAATACCGTA
130 TCCCCTGAAAAAATTTACGGAGTAGAAAATACCGTA
* * * *
3044161 TTTAAAAAAAAAAGGAAGTTTCAAGGAAAAAATAAAAAACTCATGCAAATGAATGAATTTTTGAA
1 TTT-CAAAAAAAAGGAAGTTTCAAGGAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTGAA
* * ** * ** *
3044226 AGCTGAATTAATATA-AAATAAATAAAAACATTTGATGAATTTTAAAAATTAAAAATTAAGAAAA
65 AACTGAATTAATA-AGAAATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAAAAAA
*
3044290 ATCCTCTGAAAAAAATTTACGGAG
129 ATCCCCTG-AAAAAATTTACGGAG
3044314 AAAAAAACCT
Statistics
Matches: 546, Mismatches: 73, Indels: 64
0.80 0.11 0.09
Matches are distributed among these distances:
157 125 0.23
158 5 0.01
159 2 0.00
160 5 0.01
162 2 0.00
163 2 0.00
164 5 0.01
165 23 0.04
166 113 0.21
167 111 0.20
168 6 0.01
169 1 0.00
170 2 0.00
171 2 0.00
172 1 0.00
173 1 0.00
174 16 0.03
175 91 0.17
176 33 0.06
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (165 bp):
TTTCAAAAAAAAGGAAGTTTCAAGGAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTGAAA
ACTGAATTAATAAGAAATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAAAAAAAT
CCCCTGAAAAAATTTACGGAGTAGAAAATACCGTA
Found at i:3048357 original size:62 final size:62
Alignment explanation
Indices: 3048191--3048626 Score: 471
Period size: 62 Copynumber: 7.3 Consensus size: 62
3048181 GAAATGGGTT
* * * * ** *
3048191 CTGCTCCTTGGGGACTAG-CAGGTGCCACCAACTTGTATGGGCTTTGTAAGGAGAAA-GCATC
1 CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCGTC
* *
3048252 CTGCTCTTTGAGGATTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTC
1 CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * **
3048313 CTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAACGTC
1 CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * *
3048375 CTGCTCTTTGAGGACT-G-AAGGTGCCACCAGCTTGGGCGGGCTTT-----G-AAAGGCGTC
1 CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * *
3048429 CTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTATGCGGG-TTT----TG-AAAGGCGTC
1 CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * * **
3048484 CTGCTCTATGAGGAATAG-AAGGTGCCACTAACTTGTGTGGGCTTTAATAGGAACCGGCGTC
1 CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
*
3048545 CTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
*
3048607 CTGCTCTCTGAGGACT-GAAA
1 CTGCTCTTTGAGGACTAGAAA
3048627 AGTGAAAGGA
Statistics
Matches: 318, Mismatches: 44, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
54 28 0.09
55 60 0.19
56 5 0.02
60 27 0.08
61 91 0.29
62 107 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (62 bp):
CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
Found at i:3048477 original size:55 final size:55
Alignment explanation
Indices: 3048250--3048596 Score: 309
Period size: 55 Copynumber: 6.0 Consensus size: 55
3048240 GGAGAAAGCA
* * *
3048250 TCCTGCTCTTTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGG-TTT----TG-AAAGGCG
* * *
3048311 TCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAACG
1 TCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGTTTTGAAAGG------CG
* * * * *
3048373 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGGGCGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGTTTTGAAAGGCG
* * *
3048427 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGCGGGTTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGTTTTGAAAGGCG
* * * * *
3048482 TCCTGCTCTATGAGGAATAGAAGGTGCCACTAACTTGTGTGGGCTTTAATAGGAACCGGCG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGG-TTT--T--GAA-AGGCG
* * *
3048543 TCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGTTTTGAAAGG
3048597 AAAAGGCGTC
Statistics
Matches: 237, Mismatches: 34, Indels: 35
0.77 0.11 0.11
Matches are distributed among these distances:
54 20 0.08
55 66 0.28
56 10 0.04
57 2 0.01
58 1 0.00
59 1 0.00
60 31 0.13
61 46 0.19
62 60 0.25
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGTTTTGAAAGGCG
Found at i:3049593 original size:1 final size:1
Alignment explanation
Indices: 3049587--3049661 Score: 69
Period size: 1 Copynumber: 75.0 Consensus size: 1
3049577 AGCAGGTTCC
* * * * * * * *
3049587 TTTTTTTTCTCTTTTTTTTCTTTTTTGTTTTTGTTTTTGTTTTTTTTTTGTTTTTATTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
3049652 TGTTTTTTTT
1 TTTTTTTTTT
3049662 AAAAAGAAGG
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.01, C:0.04, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:3049617 original size:6 final size:6
Alignment explanation
Indices: 3049608--3049658 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
3049598 TTTTTTTTCT
*
3049608 TTTTTG TTTTTG TTTTTG TTTTT- TTTTTG TTTTTA TTTTT- TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
3049654 TTTTT
1 TTTTT
3049659 TTTAAAAAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 10 0.24
6 32 0.76
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (6 bp):
TTTTTG
Found at i:3049618 original size:17 final size:16
Alignment explanation
Indices: 3049587--3049661 Score: 89
Period size: 17 Copynumber: 4.5 Consensus size: 16
3049577 AGCAGGTTCC
3049587 TTTTTTTTCTCTTTTTT-
1 TTTTTTTT-T-TTTTTTG
* *
3049604 TTCTTTTTTGTTTTTG
1 TTTTTTTTTTTTTTTG
3049620 TTTTTGTTTTTTTTTTG
1 TTTTT-TTTTTTTTTTG
3049637 TTTTTATTTTTTTTTTG
1 TTTTT-TTTTTTTTTTG
3049654 TTTTTTTT
1 TTTTTTTT
3049662 AAAAAGAAGG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
15 5 0.10
16 8 0.16
17 38 0.75
ACGTcount: A:0.01, C:0.04, G:0.07, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTG
Found at i:3049630 original size:28 final size:28
Alignment explanation
Indices: 3049587--3049661 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
3049577 AGCAGGTTCC
* * *
3049587 TTTTTTTTCTCTTTTTTTTCT-TTTTTG
1 TTTTTTTTTTGTTTTTTTTCTGTTTTTA
*
3049614 TTTTTGTTTTTGTTTTTTTTTTGTTTTTA
1 TTTTT-TTTTTGTTTTTTTTCTGTTTTTA
3049643 TTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTGTTTTTTTT
3049662 AAAAAGAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 5 0.12
28 27 0.64
29 10 0.24
ACGTcount: A:0.01, C:0.04, G:0.07, T:0.88
Consensus pattern (28 bp):
TTTTTTTTTTGTTTTTTTTCTGTTTTTA
Found at i:3049652 original size:23 final size:23
Alignment explanation
Indices: 3049598--3049659 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
3049588 TTTTTTTCTC
* *
3049598 TTTTTTTTCTTTTTTGTTTTTGT
1 TTTTTTTTTTTTTTTGTTTTTAT
*
3049621 TTTTGTTTTTTTTTTGTTTTTAT
1 TTTTTTTTTTTTTTTGTTTTTAT
3049644 TTTTTTTTTGTTTTTT
1 TTTTTTTTT-TTTTTT
3049660 TTAAAAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 28 0.82
24 6 0.18
ACGTcount: A:0.02, C:0.02, G:0.08, T:0.89
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTGTTTTTAT
Found at i:3050678 original size:33 final size:33
Alignment explanation
Indices: 3050630--3050709 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
3050620 GCCAAGGAAA
* *
3050630 TGTATCGATATATTATTCAATATATCGATACAT
1 TGTATCGATACATTATTCAACATATCGATACAT
*
3050663 TGTATCAATACATTATTCAACATATCGATACAT
1 TGTATCGATACATTATTCAACATATCGATACAT
3050696 TGTATCGATACATT
1 TGTATCGATACATT
3050710 GATCTTTGTA
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:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTATTCAACATATCGATACAT
Found at i:3050703 original size:13 final size:13
Alignment explanation
Indices: 3050652--3050710 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
3050642 TTATTCAATA
3050652 TATCGATACATTG
1 TATCGATACATTG
* *
3050665 TATCAATACATTA
1 TATCGATACATTG
3050678 T-TC-A-ACA---
1 TATCGATACATTG
3050685 TATCGATACATTG
1 TATCGATACATTG
3050698 TATCGATACATTG
1 TATCGATACATTG
3050711 ATCTTTGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
7 1 0.03
8 2 0.05
9 1 0.03
10 6 0.16
11 1 0.03
12 2 0.05
13 25 0.66
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:3051675 original size:20 final size:20
Alignment explanation
Indices: 3051630--3051675 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3051620 GTTAACAGCC
*
3051630 CATGATTCATGCATTTTAAG
1 CATGTTTCATGCATTTTAAG
3051650 CTATGTTTCATGCA-TTTACAG
1 C-ATGTTTCATGCATTTTA-AG
3051671 CATGT
1 CATGT
3051676 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTAAG
Found at i:3063678 original size:13 final size:13
Alignment explanation
Indices: 3063660--3063726 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
3063650 GTCCTCCGCA
*
3063660 AAAAAAAATAGAC
1 AAAAAAAATAAAC
*
3063673 AAAAAAAACAAAC
1 AAAAAAAATAAAC
3063686 AAAAAAAATAAA-
1 AAAAAAAATAAAC
* *
3063698 AAACAAAACAAAC
1 AAAAAAAATAAAC
*
3063711 AAACAAAAAAAAAC
1 AAA-AAAAATAAAC
3063725 AA
1 AA
3063727 CAACAAAAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
12 10 0.22
13 25 0.56
14 10 0.22
ACGTcount: A:0.84, C:0.12, G:0.01, T:0.03
Consensus pattern (13 bp):
AAAAAAAATAAAC
Found at i:3063692 original size:29 final size:28
Alignment explanation
Indices: 3063659--3063735 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 28
3063649 CGTCCTCCGC
* *
3063659 AAAAAAAAATAGACAAAAAAAACAAACA
1 AAAAAAAAAAAAACAAAAAAAACAAACA
*
3063687 AAAAAAATAAAAAACAAAACAAACAAACA
1 AAAAAAA-AAAAAACAAAAAAAACAAACA
*
3063716 AAAAAAAACAACAACAAAAA
1 AAAAAAAA-AAAAACAAAAA
3063736 GGGTCTGGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.19
29 34 0.81
ACGTcount: A:0.83, C:0.13, G:0.01, T:0.03
Consensus pattern (28 bp):
AAAAAAAAAAAAACAAAAAAAACAAACA
Found at i:3063700 original size:20 final size:20
Alignment explanation
Indices: 3063673--3063735 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
3063663 AAAAATAGAC
3063673 AAAAAAAACAAACAAAAAAA
1 AAAAAAAACAAACAAAAAAA
*
3063693 ATAAAAAACAAAACAAACAAACA
1 AAAAAAAAC-AAACAAA-AAA-A
3063716 AAAAAAAAC-AACAACAAAAA
1 AAAAAAAACAAACAA-AAAAA
3063736 GGGTCTGGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 9 0.24
21 15 0.41
22 4 0.11
23 9 0.24
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (20 bp):
AAAAAAAACAAACAAAAAAA
Found at i:3063728 original size:13 final size:13
Alignment explanation
Indices: 3063658--3063735 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 13
3063648 GCGTCCTCCG
*
3063658 CAAAAAAAAATAGA
1 CAAAAAAAAACA-A
3063672 C-AAAAAAAACAAA
1 CAAAAAAAAAC-AA
3063685 CAAAAAAAATA-AA
1 CAAAAAAAA-ACAA
*
3063698 AAACAAAACAAACAAA
1 CAA-AAAA-AAAC-AA
3063714 CAAAAAAAAACAA
1 CAAAAAAAAACAA
3063727 CAACAAAAA
1 CAA-AAAAA
3063736 GGGTCTGGAG
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
13 19 0.36
14 23 0.43
15 7 0.13
16 4 0.08
ACGTcount: A:0.82, C:0.14, G:0.01, T:0.03
Consensus pattern (13 bp):
CAAAAAAAAACAA
Found at i:3065205 original size:29 final size:29
Alignment explanation
Indices: 3065164--3065220 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
3065154 GACATTCTTC
*
3065164 ACCCTTCAAAAG-CACATAAGTTGGTGCA
1 ACCCTTCAAAAGCCACACAAGTTGGTGCA
3065192 ACCCTTTCAAAAGCCCACACAAGTTGGTG
1 ACCC-TTCAAAAG-CCACACAAGTTGGTG
3065221 GCATCTTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 8 0.32
31 13 0.52
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (29 bp):
ACCCTTCAAAAGCCACACAAGTTGGTGCA
Found at i:3065345 original size:49 final size:49
Alignment explanation
Indices: 3065271--3065650 Score: 401
Period size: 49 Copynumber: 8.0 Consensus size: 49
3065261 AGCATATTGG
* ** *
3065271 CACCTTTAAGTCCAATGTCACCGGCCTTAAATCAGCACATTGGCATCTT
1 CACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCACATTGGCATCTT
* *
3065320 CACCTTTAAGTCCAATCTCGTCGGCCTTGAATCAGCGCATTGGCATCTT
1 CACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCACATTGGCATCTT
* * * *
3065369 CACCTTTAAGTCCAATCTCGCCGGCCTTGAATCAGCGCATCGGCATCTT
1 CACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCACATTGGCATCTT
* * * *
3065418 CATCTTTATGTTCAATATCG-CTGGCCTTGAATCAGCATATTGG------
1 CACCTTTAAGTCCAATATCGTC-GGCCTTGAATCAGCACATTGGCATCTT
* *
3065461 CACCTTTAAGTCCAATGTCGTCGGCCTTGAATCAGCACATCGGCATCTT
1 CACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCACATTGGCATCTT
* *
3065510 CATCTTTAAGTCCAATATCG-CTGGCCTTGAATCAGCATATTGG-A----
1 CACCTTTAAGTCCAATATCGTC-GGCCTTGAATCAGCACATTGGCATCTT
* *
3065554 -ACCTTTAAGTCCAATATCGTCGGCCTTGAATTAGCACATTGGTATCTT
1 CACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCACATTGGCATCTT
* ** * * * *
3065602 CATCTTTAAGTCTGATATCATTGGCCTTGAATCAACATATTGGCATCTT
1 CACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCACATTGGCATCTT
3065651 TAACATTCCT
Statistics
Matches: 279, Mismatches: 36, Indels: 32
0.80 0.10 0.09
Matches are distributed among these distances:
43 72 0.26
44 3 0.01
48 3 0.01
49 201 0.72
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
CACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCACATTGGCATCTT
Found at i:3065409 original size:92 final size:89
Alignment explanation
Indices: 3065220--3065653 Score: 419
Period size: 92 Copynumber: 4.7 Consensus size: 89
3065210 ACAAGTTGGT
* * * *
3065220 GGCATCTTCACCTTTAAGTCCAATGTCCCTGACCTTGAATCAGCATATTGG-CACCTTTAAGTCC
1 GGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGACACCTTTAAGTCC
* *
3065284 AATGTCACCGGCCTTAAATCAGCAC
66 AATGTCGCCGGCCTTGAATCAG-AC
* * **
3065309 ATTGGCATCTTCACCTTTAAGTCCAATCTCG-TCGGCCTTGAATCAGCGCATTGGCATCTTCACC
1 ---GGCATCTTCATCTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGG-A----CACC
*
3065373 TTTAAGTCCAATCTCGCCGGCCTTGAATCAGCGCATC
57 TTTAAGTCCAATGTCGCCGGCCTTGAATCA--G-A-C
* *
3065410 GGCATCTTCATCTTTATGTTCAATATCGCTGGCCTTGAATCAGCATATTGG-CACCTTTAAGTCC
1 GGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGACACCTTTAAGTCC
*
3065474 AATGTCGTCGGCCTTGAATCAGCACATC
66 AATGTCGCCGGCCTTGAATCAG---A-C
3065502 GGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGA-ACCTTTAAGTCC
1 GGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGACACCTTTAAGTCC
* * *
3065566 AATATCGTCGGCCTTGAATTAGCAC
66 AATGTCGCCGGCCTTGAATCAG-AC
* ** ** * *
3065591 ATTGGTATCTTCATCTTTAAGTCTGATATCATTGGCCTTGAATCAACATATTGG-CATCTTTAA
1 ---GGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGACACCTTTAA
3065654 CATTCCTAAG
Statistics
Matches: 297, Mismatches: 27, Indels: 36
0.82 0.08 0.10
Matches are distributed among these distances:
89 1 0.00
90 3 0.01
91 1 0.00
92 213 0.72
98 74 0.25
99 1 0.00
100 3 0.01
101 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (89 bp):
GGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGACACCTTTAAGTCC
AATGTCGCCGGCCTTGAATCAGAC
Found at i:3065579 original size:43 final size:43
Alignment explanation
Indices: 3065229--3065595 Score: 245
Period size: 49 Copynumber: 8.0 Consensus size: 43
3065219 TGGCATCTTC
* * * * *
3065229 ACCTTTAAGTCCAATGTCCCTGACCTTGAATCAGCATATTGGC
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGA
* * * *
3065272 ACCTTTAAGTCCAATGTCACCGGCCTTAAATCAGCACATTGGCA
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG-A
* *
3065316 TCTTCACCTTTAAGTCCAATCTCG-TCGGCCTTGAATCAGCGCATTGGCA
1 -----ACCTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCACATTGG-A
* * * *
3065365 TCTTCACCTTTAAGTCCAATCTCGCCGGCCTTGAATCAGCGCATCGGCA
1 -----ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG-A
* * * * *
3065414 TCTTCATCTTTATGTTCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 -----ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGA
* *
3065462 ACCTTTAAGTCCAATGTCG-TCGGCCTTGAATCAGCACATCGGCA
1 ACCTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCACATTGG-A
* *
3065506 TCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGA
1 -----ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGA
*
3065554 ACCTTTAAGTCCAATATCG-TCGGCCTTGAATTAGCACATTGG
1 ACCTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCACATTGG
3065596 TATCTTCATC
Statistics
Matches: 271, Mismatches: 36, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
42 2 0.01
43 108 0.40
48 1 0.00
49 159 0.59
50 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (43 bp):
ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGA
Found at i:3065609 original size:141 final size:139
Alignment explanation
Indices: 3065219--3065650 Score: 469
Period size: 141 Copynumber: 3.1 Consensus size: 139
3065209 CACAAGTTGG
* * * *
3065219 TGGCATCTTCACCTTTAAGTCCAATGTCCCTGACCTTGAATCAGCATATTGGCACCTTTAAGTCC
1 TGGCATCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTTAAGTCC
* * * *
3065284 AATGTCACCGGCCTTAAATCAGCACATTGGCATCTTCACCTTTAAGTCCAATCTCGTCGGCCTTG
66 AATATC-GCGGCCTTGAATCAGCACATTGG-ATCTTCACCTTTAAGTCCAATATCGTCGGCCTTG
*
3065349 AATCAGCGCAT
129 AATCAGCACAT
* * ** * *
3065360 TGGCATCTTCACCTTTAAGTCCAATCTCGCCGGCCTTGAATCAGCGCATCGGCATCTTCATCTTT
1 TGGCATCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG-A-----ACCTTT
* * * *
3065425 ATGTTCAATATCGCTGGCCTTGAATCAGCATATTGG-----CACCTTTAAGTCCAATGTCGTCGG
60 AAGTCCAATATCGC-GGCCTTGAATCAGCACATTGGATCTTCACCTTTAAGTCCAATATCGTCGG
3065485 CCTTGAATCAGCACAT
124 CCTTGAATCAGCACAT
* *
3065501 CGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTTAAGTCC
1 TGGCATCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTTAAGTCC
* * ** * *
3065566 AATATCGTCGGCCTTGAATTAGCACATTGGTATCTTCATCTTTAAGTCTGATATCATTGGCCTTG
66 AATATCG-CGGCCTTGAATCAGCACATTGG-ATCTTCACCTTTAAGTCCAATATCGTCGGCCTTG
* *
3065631 AATCAACATAT
129 AATCAGCACAT
3065642 TGGCATCTT
1 TGGCATCTT
3065651 TAACATTCCT
Statistics
Matches: 239, Mismatches: 38, Indels: 28
0.78 0.12 0.09
Matches are distributed among these distances:
135 35 0.15
136 1 0.00
140 1 0.00
141 168 0.70
146 1 0.00
147 33 0.14
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (139 bp):
TGGCATCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTTAAGTCC
AATATCGCGGCCTTGAATCAGCACATTGGATCTTCACCTTTAAGTCCAATATCGTCGGCCTTGAA
TCAGCACAT
Found at i:3076812 original size:20 final size:20
Alignment explanation
Indices: 3076759--3076813 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3076749 AAATTCCCAG
**
3076759 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
3076779 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
3076799 ATGTATCGATACATT
1 ATGTATCGATACATT
3076814 TCTTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:3084772 original size:78 final size:78
Alignment explanation
Indices: 3084638--3084855 Score: 278
Period size: 79 Copynumber: 2.8 Consensus size: 78
3084628 AACGGGGATG
* * * *
3084638 GAGTATCCCCGATTATGGAAAATCGGTGTTCTGAAAATAAAATCGGGGTTGAAGTATCCCC-CGG
1 GAGTATCCCCGATTAT-GAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
*
3084702 GAATAACAGGGTTA
65 AAATAACAGGGTTA
* * *
3084716 GAGTATCCCTGATTATAGAAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTTGA
1 GAGTATCCCCGATTAT-GAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
3084781 AAATAACAGGGTTA
65 AAATAACAGGGTTA
* * **
3084795 GAGTATCCCCGATTGTGAAAAATCGATGCTTT-AGAAATAAGGTCGGGGTTGGAGTATCCCC
1 GAGTATCCCCGATTATG-AAAATCGATGTTTTGA-AAATAAAATCGGGGTTGGAGTATCCCC
3084856 GATTGTGAGA
Statistics
Matches: 122, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
78 57 0.47
79 65 0.53
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (78 bp):
GAGTATCCCCGATTATGAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
AATAACAGGGTTA
Found at i:3084854 original size:51 final size:51
Alignment explanation
Indices: 3084789--3084904 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
3084779 GAAAATAACA
* * *
3084789 GGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGT-C-G
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAA--TACTG
* * *
3084840 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAGTAATACTG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAATACTG
3084891 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
3084905 TCTCAGAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
49 1 0.02
50 1 0.02
51 55 0.96
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAATACTG
Found at i:3084898 original size:130 final size:129
Alignment explanation
Indices: 3084762--3085009 Score: 313
Period size: 130 Copynumber: 1.9 Consensus size: 129
3084752 ATAAAATCGA
* *
3084762 GGTTGGAGTATCCCCT-TGAAAATAACAGGG-TTAGAGTATCCCCGATTGTGAAAAATCGATGCT
1 GGTTGGAGTATCCCCTCAG-AAATAAC-GGGATTAGAGTATCCCCGATTATGAAAAATCGATGCT
*** * *
3084825 TTAGAAATAAGGTCGGGGTTGGAGTATCCCCGATTG-TGAGAAATCAATATTTTAGAAGTAATAC
64 TTAGAAATAAAAACGGGGTTAGAGTATCCCCGA--GATGAAAAATCAATATTTTAGAAGTAATAC
3084889 TGG
127 TGG
* * * * *
3084892 GGTTGGAGTATCCTCTCAGAAATAACGGGATTGGAGTATCCCTGATTATGAAAAATTGATGTTTT
1 GGTTGGAGTATCCCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATGAAAAATCGATGCTTT
* *
3084957 GGAAATAAAAACGGGGTTAGAGTATCCCTGAGATGAAAAATCAATATTTTAGA
66 AGAAATAAAAACGGGGTTAGAGTATCCCCGAGATGAAAAATCAATATTTTAGA
3085010 TATAAAGTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
128 1 0.01
129 22 0.22
130 77 0.76
131 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (129 bp):
GGTTGGAGTATCCCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATGAAAAATCGATGCTTT
AGAAATAAAAACGGGGTTAGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAGTAATACTGG
Found at i:3085024 original size:50 final size:50
Alignment explanation
Indices: 3084925--3085048 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 50
3084915 AACGGGATTG
* ** * * *
3084925 GAGTATCCCTGATTATGAAAAATTGATGTTTTGGAAATAAAAACGGGGTTA
1 GAGTATCCCTGA-GATGAAAAATCAATATTTTAGAAATAAAAACAGGGTTA
* ** *
3084976 GAGTATCCCTGAGATGAAAAATCAATATTTTAGATATAAAGTCAGGGTTG
1 GAGTATCCCTGAGATGAAAAATCAATATTTTAGAAATAAAAACAGGGTTA
3085026 GAGTAT-CCTCGAGATGAAAAATC
1 GAGTATCCCT-GAGATGAAAAATC
3085049 TAAAAATTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 3 0.05
50 47 0.76
51 12 0.19
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (50 bp):
GAGTATCCCTGAGATGAAAAATCAATATTTTAGAAATAAAAACAGGGTTA
Found at i:3087361 original size:13 final size:13
Alignment explanation
Indices: 3087314--3087343 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
3087304 AAAATGCCTA
3087314 AATGTATCGATAC
1 AATGTATCGATAC
3087327 AATGTATCGATAC
1 AATGTATCGATAC
3087340 AATG
1 AATG
3087344 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3091145 original size:42 final size:42
Alignment explanation
Indices: 3091064--3091353 Score: 139
Period size: 42 Copynumber: 7.2 Consensus size: 42
3091054 CGGACACATT
* * *
3091064 TTTTTCCCTTTGTCCTCAAGGAGAAGGATGCATTCCTTTTCTC
1 TTTTT-CCTTTGTCCTCAAAGAGCAGGATACATTCCTTTTCTC
* *
3091107 TTTTTCCTTTGTCGTCAAAGAGCGGGATACA------TT-TC
1 TTTTTCCTTTGTCCTCAAAGAGCAGGATACATTCCTTTTCTC
* * *
3091142 TTTTCCCTTTGTCCTCAAGGAGCAGGACACATTCCTTTTCTC
1 TTTTTCCTTTGTCCTCAAAGAGCAGGATACATTCCTTTTCTC
* * * * **
3091184 TTTTTCCATTGTCTTCAAAGAGTAGG----ATGCCTACTC-C
1 TTTTTCCTTTGTCCTCAAAGAGCAGGATACATTCCTTTTCTC
* * ** * *
3091221 TTTTCCCTTTGTCCTCAAGGAGTGGGATGCATTCCTTTTTTTTCC
1 TTTTTCCTTTGTCCTCAAAGAGCAGGATACATTCC--TTTTCT-C
* * ** * *
3091266 TTTTT--TTTATCCTCAAGGAGCAGGACCCATTTC-ATTCTTC
1 TTTTTCCTTTGTCCTCAAAGAGCAGGATACATTCCTTTTC-TC
* *
3091306 TTTTCCCTTTGTCCTCAAAGAGTAGGACTAC--TCCTTTTC-C
1 TTTTTCCTTTGTCCTCAAAGAGCAGGA-TACATTCCTTTTCTC
*
3091346 TTTGTCCT
1 TTTTTCCT
3091354 CAAAGAACAA
Statistics
Matches: 181, Mismatches: 46, Indels: 43
0.67 0.17 0.16
Matches are distributed among these distances:
35 28 0.15
36 2 0.01
37 22 0.12
38 7 0.04
40 14 0.08
41 9 0.05
42 64 0.35
43 30 0.17
45 5 0.03
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.42
Consensus pattern (42 bp):
TTTTTCCTTTGTCCTCAAAGAGCAGGATACATTCCTTTTCTC
Found at i:3091151 original size:35 final size:35
Alignment explanation
Indices: 3091105--3091186 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
3091095 ATTCCTTTTC
* * * *
3091105 TCTTTTTCCTTTGTCGTCAAAGAGCGGGATACATT
1 TCTTTTCCCTTTGTCCTCAAAGAGCAGGACACATT
*
3091140 TCTTTTCCCTTTGTCCTCAAGGAGCAGGACACATT
1 TCTTTTCCCTTTGTCCTCAAAGAGCAGGACACATT
* *
3091175 CCTTTTCTCTTT
1 TCTTTTCCCTTT
3091187 TTCCATTGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (35 bp):
TCTTTTCCCTTTGTCCTCAAAGAGCAGGACACATT
Found at i:3091156 original size:77 final size:77
Alignment explanation
Indices: 3091045--3091259 Score: 279
Period size: 77 Copynumber: 2.8 Consensus size: 77
3091035 CCCTTCATCC
* *
3091045 TCAAAGAGCCGGACACATTT-TTTTCCCTTTGTCCTCAAGGAGAAGGATGCATTCCTTTTCTCTT
1 TCAAAGAGCAGGATACATTTCTTTTCCCTTTGTCCTCAAGGAGAAGGATGCATTCCTTTTCTCTT
*
3091109 TTTCCTTTGTCG
66 TTTCCATTGTCG
* * **
3091121 TCAAAGAGCGGGATACATTTCTTTTCCCTTTGTCCTCAAGGAGCAGGACACATTCCTTTTCTCTT
1 TCAAAGAGCAGGATACATTTCTTTTCCCTTTGTCCTCAAGGAGAAGGATGCATTCCTTTTCTCTT
*
3091186 TTTCCATTGTCT
66 TTTCCATTGTCG
* * * * **
3091198 TCAAAGAGTAGGATGCCTACTCCTTTTCCCTTTGTCCTCAAGGAGTGGGATGCATTCCTTTT
1 TCAAAGAGCAGGAT-AC-ATTTCTTTTCCCTTTGTCCTCAAGGAGAAGGATGCATTCCTTTT
3091260 TTTTCCTTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
76 18 0.15
77 63 0.52
78 1 0.01
79 38 0.32
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (77 bp):
TCAAAGAGCAGGATACATTTCTTTTCCCTTTGTCCTCAAGGAGAAGGATGCATTCCTTTTCTCTT
TTTCCATTGTCG
Found at i:3091509 original size:31 final size:31
Alignment explanation
Indices: 3091393--3091509 Score: 85
Period size: 31 Copynumber: 3.8 Consensus size: 31
3091383 TCCTCTTTAT
**
3091393 AAGCCCACACAAGTTGTTGGCACCCT-AGTCA
1 AAGCCCACACAAGTTGGCGGCA-CCTGAGTCA
** * * *
3091424 AAGCCTGCACAAGCTGGCGGCACTTGAGTCT
1 AAGCCCACACAAGTTGGCGGCACCTGAGTCA
* ** * *
3091455 AAGCCTGAGTC-TGTTGGCAGCACCTGAGTCA
1 AAGCC-CACACAAGTTGGCGGCACCTGAGTCA
*
3091486 AAGCCCACACAAGTTGGTGGCACC
1 AAGCCCACACAAGTTGGCGGCACC
3091510 GAAGTTTGAG
Statistics
Matches: 61, Mismatches: 22, Indels: 6
0.69 0.25 0.07
Matches are distributed among these distances:
30 4 0.07
31 56 0.92
32 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19
Consensus pattern (31 bp):
AAGCCCACACAAGTTGGCGGCACCTGAGTCA
Found at i:3092452 original size:20 final size:21
Alignment explanation
Indices: 3092386--3092463 Score: 90
Period size: 20 Copynumber: 3.8 Consensus size: 21
3092376 TCTGGAAAGA
* * * *
3092386 AATTGTATCGATAAATAAGTG
1 AATTGTATCGATACATTACTT
3092407 AA-TGTAT-GATACATTACTT
1 AATTGTATCGATACATTACTT
3092426 AAATTGTATCGATACATTA-TT
1 -AATTGTATCGATACATTACTT
3092447 AATTGTATCGATACATT
1 AATTGTATCGATACATT
3092464 TTAGGTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
19 8 0.16
20 24 0.48
21 9 0.18
22 9 0.18
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (21 bp):
AATTGTATCGATACATTACTT
Found at i:3092454 original size:41 final size:42
Alignment explanation
Indices: 3092385--3092463 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
3092375 TTCTGGAAAG
3092385 AAATTGTATCGATAAATAAGTGAATGTAT-GATACATTACTT
1 AAATTGTATCGATAAATAAGTGAATGTATCGATACATTACTT
* * *
3092426 AAATTGTATCGATACATTA-TTAATTGTATCGATACATT
1 AAATTGTATCGATAAATAAGTGAA-TGTATCGATACATT
3092464 TTAGGTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 3 0.09
41 22 0.67
42 8 0.24
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (42 bp):
AAATTGTATCGATAAATAAGTGAATGTATCGATACATTACTT
Found at i:3095162 original size:19 final size:20
Alignment explanation
Indices: 3095135--3095185 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
3095125 CGATACAATG
*
3095135 TATCAATACATGCTC-ATTA
1 TATCGATACATGCTCAATTA
* *
3095154 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTA
3095174 TATCGATACATG
1 TATCGATACATG
3095186 AAACTAGCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAATTA
Found at i:3095179 original size:20 final size:19
Alignment explanation
Indices: 3095133--3095184 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
3095123 ATCGATACAA
* *
3095133 TGTATCAATACATGCTCAT
1 TGTATCGATACATACTCAT
*
3095152 TATATCGATACATACTCAAT
1 TGTATCGATACATACTC-AT
3095172 TGTATCGATACAT
1 TGTATCGATACAT
3095185 GAAACTAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATACTCAT
Found at i:3098614 original size:13 final size:13
Alignment explanation
Indices: 3098596--3098620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3098586 CATAAAGTGT
3098596 TGTATCGATACAA
1 TGTATCGATACAA
3098609 TGTATCGATACA
1 TGTATCGATACA
3098621 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3098618 original size:33 final size:33
Alignment explanation
Indices: 3098576--3098642 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3098566 TTCAACGATT
3098576 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
3098609 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3098642 T
1 T
3098643 TTAAGCTGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3098701 original size:13 final size:13
Alignment explanation
Indices: 3098683--3098707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3098673 ATTACTCAAA
3098683 TGTATCGATACAT
1 TGTATCGATACAT
3098696 TGTATCGATACA
1 TGTATCGATACA
3098708 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3098772 original size:52 final size:52
Alignment explanation
Indices: 3098716--3098844 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
3098706 CACTGATCTT
*
3098716 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
3098768 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATGCACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3098820 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3098845 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3107605 original size:19 final size:20
Alignment explanation
Indices: 3107581--3107627 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3107571 ACTTTGTATT
3107581 GATACATGCTC-ATTGCATC
1 GATACATGCTCAATTGCATC
* * *
3107600 GATACATACTCAATTGTATT
1 GATACATGCTCAATTGCATC
3107620 GATACATG
1 GATACATG
3107628 AAACTGGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (20 bp):
GATACATGCTCAATTGCATC
Found at i:3107623 original size:20 final size:19
Alignment explanation
Indices: 3107574--3107626 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
3107564 ACATTATACT
*
3107574 TTGTATTGATACATGCTCA
1 TTGTATTGATACATACTCA
* *
3107593 TTGCATCGATACATACTCAA
1 TTGTATTGATACATACTC-A
3107613 TTGTATTGATACAT
1 TTGTATTGATACAT
3107627 GAAACTGGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (19 bp):
TTGTATTGATACATACTCA
Found at i:3113770 original size:20 final size:20
Alignment explanation
Indices: 3113717--3113771 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3113707 AAATTCCCAG
**
3113717 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
3113737 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
3113757 ATGTATCGATACATT
1 ATGTATCGATACATT
3113772 TCCTTGGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:3113859 original size:19 final size:20
Alignment explanation
Indices: 3113820--3113859 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
3113810 ACAACACTTA
*
3113820 TGTATCGATACATTTATTGTT
1 TGTATCGATACA-TAATTGTT
3113841 TGTATCGATACA-AATTGTT
1 TGTATCGATACATAATTGTT
3113860 GAAATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (20 bp):
TGTATCGATACATAATTGTT
Found at i:3114056 original size:9 final size:9
Alignment explanation
Indices: 3114042--3114070 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
3114032 AAAACCATTT
3114042 TTGTCAAAA
1 TTGTCAAAA
3114051 TTGTCAAAA
1 TTGTCAAAA
3114060 TTGTCAAAA
1 TTGTCAAAA
3114069 TT
1 TT
3114071 CGTCCCCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (9 bp):
TTGTCAAAA
Found at i:3114686 original size:49 final size:49
Alignment explanation
Indices: 3114625--3114861 Score: 218
Period size: 49 Copynumber: 4.9 Consensus size: 49
3114615 ATGTTATAGA
* * * * *
3114625 TGCTAATATGCTGATTTAAGGCCAGTGATTTTGGACTTAGAGGTGAAGG
1 TGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
3114674 TGCTAATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGACAAAG
1 TGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG--AAGG
*
3114725 -GCTTCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
1 TGC-T-AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * * *
3114775 TGCCAATGTGCTAATTCAAGGCTAGCAACATTGGACTT----A--AAGG
1 TGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
3114818 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
3114862 AGATGCCGCC
Statistics
Matches: 153, Mismatches: 25, Indels: 21
0.77 0.13 0.11
Matches are distributed among these distances:
43 36 0.24
45 1 0.01
48 1 0.01
49 67 0.44
50 5 0.03
51 6 0.04
52 37 0.24
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (49 bp):
TGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:3114747 original size:52 final size:49
Alignment explanation
Indices: 3114465--3114861 Score: 220
Period size: 52 Copynumber: 8.0 Consensus size: 49
3114455 AAGAGTGATA
* * * *
3114465 AAGGTGCCAATATGCTGATTC-AGGACTAGTGATATTGGGCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATG
* * * * * * * *
3114514 TAAAGAATGTCAATGTGCTAATTCACGGTCAGCGACATTAGACTTGAAGATGAG
1 --AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--G
* * * * * * *
3114568 AAGAATGCCAATGTACTGATTCTAGGCCAACGACATTAGG-TTTAGGAATG-TT
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTA--AA-GATG
* * * * ** * *
3114620 ATAGATGCTAATATGCTGATTTAAGGCCAGTGATTTTGGACTTAGAGGTG
1 A-AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
3114670 AAGGTGCTAATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
3114719 ACAAAGGCT-TCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
1 ---AAGG-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * *
3114771 AAGGTGCCAATGTGCTAATTCAAGGCTAGCAACATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* *
3114814 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
3114862 AGATGCCGCC
Statistics
Matches: 264, Mismatches: 61, Indels: 45
0.71 0.16 0.12
Matches are distributed among these distances:
43 36 0.14
45 1 0.00
48 2 0.01
49 75 0.28
50 3 0.01
51 5 0.02
52 131 0.50
53 6 0.02
54 4 0.02
55 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
Found at i:3114760 original size:101 final size:101
Alignment explanation
Indices: 3114629--3114816 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 101
3114619 TATAGATGCT
* ** * * * * * *
3114629 AATATGCTGATTTAAGGCCAGTGATTTTGGACTTAGAGGTGAAGGTGCTAATGTGCTGATTTAAG
1 AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTAATTCAAG
*
3114694 GCCAGCGACATTGGACTTAAAGATGACAAAGGCTTC
66 GCCAGCAACATTGGACTTAAAGATGACAAAGGCTTC
3114730 AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTAATTCAAG
1 AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTAATTCAAG
*
3114795 GCTAGCAACATTGGACTTAAAG
66 GCCAGCAACATTGGACTTAAAG
3114817 GTGCCAATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (101 bp):
AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTAATTCAAG
GCCAGCAACATTGGACTTAAAGATGACAAAGGCTTC
Found at i:3114835 original size:43 final size:43
Alignment explanation
Indices: 3114771--3114856 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
3114761 CTTAAAGATG
* *
3114771 AAGGTGCCAATGTGCTAATTCAAGGCTAGCAACATTGGACTTA
1 AAGGTGCCAATATGCTAATTCAAGGCCAGCAACATTGGACTTA
* * * *
3114814 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGGTGCCAATATGCTAATTCAAGGCCAGCAACATTGGACTTA
3114857 GAAGAAGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
AAGGTGCCAATATGCTAATTCAAGGCCAGCAACATTGGACTTA
Found at i:3114994 original size:57 final size:58
Alignment explanation
Indices: 3114904--3115372 Score: 421
Period size: 57 Copynumber: 8.2 Consensus size: 58
3114894 GATTGCACCA
* * *
3114904 ACTTGTGTGCTTTTG-AAGGTTGCCACTGCCTTGTGGGC-TTTGAAAATGTGCCAATA
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAATGTGCCAATG
* * * * *
3114960 ACTTGTGGGCTTTTGAAAAGATGCCATTGACTTGTGGGCTTTTGAAAGT-TGCCACTG
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAATGTGCCAATG
* * ** ** *
3115017 ACTTATGGGC-TTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGT-TGCCACTG
1 ACTTGTGGGCTTTTGAAA-GGTTGCCACTGACTTGTGGGCTTTTGAAAATGTGCCAATG
** * * *
3115074 ACTTGTGGGCTTTCAAAAGGCT-CCACTAACTTGTGGGCTTTTGAAAA-GATGTCACA-G
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAATG-TGCCA-ATG
**
3115131 ACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGC-TTTGAAAGGGGTGCC-ATCG
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAA-ATGTGCCAAT-G
* *
3115188 ACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGC-TTTGAAAAGGTG-CAACTA
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAATGTGCCAA-TG
* * ** * ** * *
3115244 ACTTGTGAGCTTTTGAAAAGAAGCCACTGATTTGTGGGCTTTTGAAGGT-TGCCACTA
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAATGTGCCAATG
* * * *
3115301 ACTTGTGGGC-TTTGAAAGGGGTGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAA-GGTTGCCACTGACTTGTGGGCTTTTGAAAA-TGTGCCAATG
3115360 ACTTGTGGGCTTT
1 ACTTGTGGGCTTT
3115373 GGAAGGTAAG
Statistics
Matches: 341, Mismatches: 51, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
55 2 0.01
56 81 0.24
57 217 0.64
58 22 0.06
59 17 0.05
60 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (58 bp):
ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAATGTGCCAATG
Found at i:3115026 original size:85 final size:87
Alignment explanation
Indices: 3114878--3115372 Score: 495
Period size: 85 Copynumber: 5.8 Consensus size: 87
3114868 CGCCAACTTG
* * * *
3114878 TGTGGGCTTTTGAAAGGATTG-CACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGCCTTGTGGG
1 TGTGGGCTTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGG
* *
3114941 C-TTTGAAAATGTGCCAATAACT
65 CTTTTGAAAGTGTGCCACTAACT
* * * * *
3114963 TGTGGGCTTTTGAAAAGATGCCATTGACTTGTGGGCTTTTGAAA-GTTGCCACTGACTTATGGGC
1 TGTGGGCTTTTGAAAGGATGCCACTAACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGC
* *
3115027 -TTTGAAAGGGGTGCCACCAACT
66 TTTTGAAA-GTGTGCCACTAACT
* * ** * *
3115049 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTCAAAAGGCT-CCACTAACTTGTGGGC
1 TGTGGGCTTTTGAAAGGATGCCACTAACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGC
3115112 TTTTGAAAAGATGT--CAC-AGACT
66 TTTTG-AAAG-TGTGCCACTA-ACT
* *
3115134 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGC-TTTGAAAGGGGTGCCA-TCGACTTGTGG
1 TGTGGGCTTTTGAAAGGATGCCACTAACTTGTGGGCTTTTGAAA-GGGTGCCACT-GACTTGTGG
* *
3115196 GCTTTTGAAGGT-TGCCACTGACT
64 GCTTTTGAAAGTGTGCCACTAACT
* * * ** *
3115219 TGTGGGC-TTTGAAAAGG-TGCAACTAACTTGTGAGCTTTTGAAAAGAAGCCACTGATTTGTGGG
1 TGTGGGCTTTTG-AAAGGATGCCACTAACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGG
*
3115282 CTTTTGAAGGT-TGCCACTAACT
65 CTTTTGAAAGTGTGCCACTAACT
*
3115304 TGTGGGC-TTTGAAAGGGGTGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGG
1 TGTGGGCTTTTGAAA-GGATGCCACTAACTTGTGGGCTTTTG-AAAGGGTGCCACTGACTTGTGG
3115368 GCTTT
64 GCTTT
3115373 GGAAGGTAAG
Statistics
Matches: 349, Mismatches: 40, Indels: 40
0.81 0.09 0.09
Matches are distributed among these distances:
83 1 0.00
84 16 0.05
85 222 0.64
86 82 0.23
87 28 0.08
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (87 bp):
TGTGGGCTTTTGAAAGGATGCCACTAACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGC
TTTTGAAAGTGTGCCACTAACT
Found at i:3115136 original size:142 final size:142
Alignment explanation
Indices: 3114878--3115373 Score: 753
Period size: 142 Copynumber: 3.5 Consensus size: 142
3114868 CGCCAACTTG
** * *
3114878 TGTGGGCTTTTGAAAGGATTG-CACCAACTTGTGTGCTTTTGAAGGTTGCCACTGCCTTGTGGGC
1 TGTGGGC-TTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGC
* * * *
3114942 TTTGAAAATGTGCCAATAACTTGTGGGCTTTTGAAAAGATGCCATTGACTTGTGGGCTTTTGAAA
65 TTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAG
3115007 GTTGCCACTGACT
130 GTTGCCACTGACT
*
3115020 TATGGGCTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCT
* * *
3115085 TTCAAAAGGCT-CCACTAACTTGTGGGCTTTTGAAAAGATGTCACAGACTTGTGGGCTTTTGAAG
66 TTGAAAAGG-TGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAG
3115149 GTTGCCACTGACT
130 GTTGCCACTGACT
* *
3115162 TGTGGGCTTTGAAAGGGGTGCCATCGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCT
* * * *
3115227 TTGAAAAGGTGCAACTAACTTGTGAGCTTTTGAAAAGAAGCCACTGATTTGTGGGCTTTTGAAGG
66 TTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGG
*
3115292 TTGCCACTAACT
131 TTGCCACTGACT
* *
3115304 TGTGGGCTTTGAAAGGGGTGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGG
1 TGTGGGCTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTG--AAGGTTGCCACTGACTTGTGGG
3115369 CTTTG
64 CTTTG
3115374 GAAGGTAAGG
Statistics
Matches: 322, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
141 12 0.04
142 283 0.88
143 1 0.00
144 26 0.08
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (142 bp):
TGTGGGCTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCT
TTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGG
TTGCCACTGACT
Found at i:3115637 original size:15 final size:14
Alignment explanation
Indices: 3115613--3115642 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3115603 CTTTTTTGCG
3115613 TAAGTTCTTGACAA
1 TAAGTTCTTGACAA
3115627 TAAGCTTCTTGACAA
1 TAAG-TTCTTGACAA
3115642 T
1 T
3115643 TCCCTAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (14 bp):
TAAGTTCTTGACAA
Found at i:3115801 original size:37 final size:37
Alignment explanation
Indices: 3115746--3115818 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
3115736 AGCACCAATG
*
3115746 CATCATGCAAAATTAAATGTTATGAATGTCACAAATC
1 CATCATGCAAAATGAAATGTTATGAATGTCACAAATC
*
3115783 CATCATGCAGAATGAAATGTTATGAATGTCACAAAT
1 CATCATGCAAAATGAAATGTTATGAATGTCACAAAT
3115819 GCATGATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (37 bp):
CATCATGCAAAATGAAATGTTATGAATGTCACAAATC
Found at i:3116861 original size:10 final size:10
Alignment explanation
Indices: 3116846--3116891 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
3116836 ATTCGGACCC
3116846 TTTTTGTTTT
1 TTTTTGTTTT
3116856 TTTTTGTTTT
1 TTTTTGTTTT
3116866 TTGTTT-TTTT
1 TT-TTTGTTTT
*
3116876 TTGTTGTTTT
1 TTTTTGTTTT
3116886 TTTTTG
1 TTTTTG
3116892 CGGAGGATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:3116865 original size:7 final size:7
Alignment explanation
Indices: 3116855--3116887 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
3116845 CTTTTTGTTT
3116855 TTTTTTG
1 TTTTTTG
3116862 TTTTTTG
1 TTTTTTG
3116869 TTTTTT-
1 TTTTTTG
*
3116875 TTTGTTG
1 TTTTTTG
3116882 TTTTTT
1 TTTTTT
3116888 TTTGCGGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:3116868 original size:17 final size:17
Alignment explanation
Indices: 3116846--3116890 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
3116836 ATTCGGACCC
3116846 TTTTTGTTTTTTTTTGT
1 TTTTTGTTTTTTTTTGT
3116863 TTTTTGTTTTTTTTTGT
1 TTTTTGTTTTTTTTTGT
3116880 TGTTTT-TTTTT
1 T-TTTTGTTTTT
3116891 GCGGAGGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (17 bp):
TTTTTGTTTTTTTTTGT
Found at i:3128034 original size:15 final size:17
Alignment explanation
Indices: 3128010--3128051 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
3128000 ATGTTTTGAC
*
3128010 TTGATGTTGAT-TA-CA
1 TTGATTTTGATCTATCA
3128025 TTGATTTTGATCTATCA
1 TTGATTTTGATCTATCA
3128042 TT-ATTTTGAT
1 TTGATTTTGAT
3128052 ATGATCCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 10 0.42
16 10 0.42
17 4 0.17
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (17 bp):
TTGATTTTGATCTATCA
Found at i:3138143 original size:79 final size:79
Alignment explanation
Indices: 3138061--3138385 Score: 370
Period size: 79 Copynumber: 4.1 Consensus size: 79
3138051 ACAAGGTTGA
** * *
3138061 AGTATCCTTTCAAAAATAACAGGGTTGGAGTATCCTCGATGATGGAAAATCAGTGTTTCAAAAAT
1 AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTGTTTTAAAAAT
*
3138126 AAAACCGAGGTTAA
66 AAAACCGAGGTTAG
* ** *
3138140 AGTATCCCTTCAAAAATAACAGGGTTGGAGTATCC-CTGATGGTAAAAAAATCAGTGTTTTAGAA
1 AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTC-GATGGT-GGAAAATCAGTGTTTTAAAA
*
3138204 ATAAAACC-AGGGTTGG
64 ATAAAACCGA-GGTTAG
** * * * *
3138220 AGTATCCCCTCAAAAATAATGGGGCTGAAGTATCCTTGATGGTGGAAAATCGGTGTTTTAAAAA-
1 AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTGTTTTAAAAAT
* * *
3138284 AAAACTGGGGTTTG
66 AAAACCGAGGTTAG
* * * *
3138298 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAAT-TGATGTTTTAGAAA
1 AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATGGTGGAAAATCAG-TGTTTTAAAAA
*
3138362 TAAAACCGGGGTTAG
65 TAAAACCGAGGTTAG
3138377 AGTATCCCC
1 AGTATCCCC
3138386 GAGGTGAAAA
Statistics
Matches: 209, Mismatches: 30, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
77 1 0.00
78 66 0.32
79 78 0.37
80 64 0.31
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATGGTGGAAAATCAGTGTTTTAAAAAT
AAAACCGAGGTTAG
Found at i:3138334 original size:26 final size:28
Alignment explanation
Indices: 3138281--3138336 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
3138271 GGTGTTTTAA
*
3138281 AAAAAAACTGGGGTTTGAGTATCCCCTCG
1 AAAAAAACTGGGGTTGGAGTAT-CCCTCG
*
3138310 AAAATAAC-GGGGTTGGAGTAT-CCTCG
1 AAAAAAACTGGGGTTGGAGTATCCCTCG
3138336 A
1 A
3138337 TGGTGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
28 12 0.48
29 7 0.28
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (28 bp):
AAAAAAACTGGGGTTGGAGTATCCCTCG
Found at i:3141063 original size:79 final size:79
Alignment explanation
Indices: 3140895--3141173 Score: 274
Period size: 79 Copynumber: 3.5 Consensus size: 79
3140885 AAATAACAGG
* * * * * * * *
3140895 GTTGGAGTATCCCTGATGATGGAAAATTGGTGTTTCAGAAAT-AAACC-GAGGTTAAAGTATCCC
1 GTTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATAAAACCAG-GGTTAGAGTATCTC
* *
3140958 CTCAAAAATAATAGA
65 CTCAGAAATAATGGA
* * * * *
3140973 GTTGGAGTATCCCCGTTGGTAGAAAATCGATGTTTTAGAAATAAAACCATGGTTGGGGTATCTCG
1 GTTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATAAAACCAGGGTTAGAGTATCTCC
*
3141038 TCAGAAATAATGGG
66 TCAGAAATAATGGA
* * * * * ** *
3141052 GTTGGAATATCCTCGATGGTGGAAAATCGATGCTTTGGAAATAAAACTGGGGTTAGATTATCTCC
1 GTTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATAAAACCAGGGTTAGAGTATCTCC
* *
3141117 TCAGAAATAGTGGT
66 TCAGAAATAATGGA
* * *
3141131 GTTAGAGTATCCCCGATGGTAAAAAATCGGTGTTTTAGAAATA
1 GTTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATA
3141174 CAATTAGGGT
Statistics
Matches: 160, Mismatches: 39, Indels: 3
0.79 0.19 0.01
Matches are distributed among these distances:
78 35 0.22
79 125 0.78
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATAAAACCAGGGTTAGAGTATCTCC
TCAGAAATAATGGA
Found at i:3143946 original size:20 final size:20
Alignment explanation
Indices: 3143921--3143974 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3143911 AATTTCAAAC
*
3143921 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTCACTT
*
3143941 ATGTATCAATACATTCACTT
1 ATGTATCGATACATTCACTT
*
3143961 ATTGTATTGATACA
1 A-TGTATCGATACA
3143975 AATGGTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Done.