Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 41 of 205
Found at i:12263212 original size:22 final size:23
Alignment explanation
Indices: 12263184--12263249 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
12263174 ATGGGTGGTT
*
12263184 GAATTTTGGAAGGAAATTGAG-A
1 GAATTTTGAAAGGAAATTGAGAA
12263206 GAATTTTGAAAGGAAATTGAGAA
1 GAATTTTGAAAGGAAATTGAGAA
*
12263229 GAA--TTGAGAGGAAATATGAGA
1 GAATTTTGAAAGGAAAT-TGAGA
12263250 GAGGATTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.28
22 25 0.62
23 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.24
Consensus pattern (23 bp):
GAATTTTGAAAGGAAATTGAGAA
Found at i:12270054 original size:15 final size:15
Alignment explanation
Indices: 12270034--12270064 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12270024 AGCTTGAAGT
12270034 GAAGATCAAGATAAA
1 GAAGATCAAGATAAA
*
12270049 GAAGATGAAGATAAA
1 GAAGATCAAGATAAA
12270064 G
1 G
12270065 TAGTGGAAAA
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:0.58, C:0.03, G:0.26, T:0.13
Consensus pattern (15 bp):
GAAGATCAAGATAAA
Found at i:12271419 original size:28 final size:28
Alignment explanation
Indices: 12271378--12271466 Score: 115
Period size: 28 Copynumber: 3.2 Consensus size: 28
12271368 TTGCACTGAG
**
12271378 GCAAAGCTTAACAGAGAGCTCACACAAA
1 GCAAAGCCAAACAGAGAGCTCACACAAA
* * **
12271406 GCAGAGCCAAACAGAGAGTTCGTACAAA
1 GCAAAGCCAAACAGAGAGCTCACACAAA
*
12271434 GCAAAGCCAAAAAGAGAGCTCACACAAA
1 GCAAAGCCAAACAGAGAGCTCACACAAA
12271462 GCAAA
1 GCAAA
12271467 CTTAGCAGAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.48, C:0.24, G:0.20, T:0.08
Consensus pattern (28 bp):
GCAAAGCCAAACAGAGAGCTCACACAAA
Found at i:12274990 original size:16 final size:15
Alignment explanation
Indices: 12274969--12275011 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
12274959 AATTTCTAAC
12274969 CCTAAACCTTAAAAA
1 CCTAAACCTTAAAAA
*
12274984 CCATAAACATTTAAAAA
1 CC-TAAAC-CTTAAAAA
12275001 CTCTAAACCTT
1 C-CTAAACCTT
12275012 TTAAAAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 2 0.09
16 7 0.30
17 13 0.57
18 1 0.04
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
CCTAAACCTTAAAAA
Found at i:12275007 original size:17 final size:18
Alignment explanation
Indices: 12274977--12275018 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
12274967 ACCCTAAACC
12274977 TTAAAAACCATAAA-CAT
1 TTAAAAACCATAAACCAT
*
12274994 TTAAAAACTC-TAAACCTT
1 TTAAAAAC-CATAAACCAT
12275012 TTAAAAA
1 TTAAAAA
12275019 GGGTCGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAACCATAAACCAT
Found at i:12277584 original size:33 final size:33
Alignment explanation
Indices: 12277547--12277661 Score: 103
Period size: 33 Copynumber: 3.5 Consensus size: 33
12277537 AGATTAATTT
12277547 ATATTTTATGTATCATTATATTAAATTATTTAA
1 ATATTTTATGTATCATTATATTAAATTATTTAA
* * * * *
12277580 ATATTTCATATCTCAATACATTAAATTATTTAA
1 ATATTTTATGTATCATTATATTAAATTATTTAA
* * *
12277613 ATATATTTAT-TATTA-TAT-TTAAGTT-TTCAAA
1 ATAT-TTTATGTATCATTATATTAAATTATT-TAA
*
12277644 ATATTTTATGTATTATTA
1 ATATTTTATGTATCATTA
12277662 ATTTTACAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
30 7 0.10
31 17 0.25
32 4 0.06
33 35 0.52
34 4 0.06
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (33 bp):
ATATTTTATGTATCATTATATTAAATTATTTAA
Found at i:12278550 original size:16 final size:17
Alignment explanation
Indices: 12278531--12278567 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12278521 ATGACACATA
12278531 AAAAAATTGA-CCCACC
1 AAAAAATTGACCCCACC
*
12278547 AAAAATTTGACCCCACC
1 AAAAAATTGACCCCACC
12278564 AAAA
1 AAAA
12278568 TTTTTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.51, C:0.30, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAAATTGACCCCACC
Found at i:12280710 original size:27 final size:27
Alignment explanation
Indices: 12280650--12280709 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 27
12280640 ATAAAAAATA
12280650 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
12280677 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
12280703 ACCAAAA
1 ACCAAAA
12280710 AATACAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:12281155 original size:19 final size:19
Alignment explanation
Indices: 12281131--12281196 Score: 91
Period size: 19 Copynumber: 3.5 Consensus size: 19
12281121 ATTAAAATAG
12281131 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
12281150 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
12281168 TCTT-ATTTAATAACTCTAT
1 T-TTAATTTAATAACTCTAT
12281187 TTTAATTTAA
1 TTTAATTTAA
12281197 AAAAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 15 0.38
19 25 0.62
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:12281460 original size:18 final size:19
Alignment explanation
Indices: 12281421--12281479 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
12281411 ATTTTATATT
12281421 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
12281440 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
12281458 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
12281477 TTA
1 TTA
12281480 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:12290847 original size:50 final size:50
Alignment explanation
Indices: 12290785--12291061 Score: 195
Period size: 50 Copynumber: 5.6 Consensus size: 50
12290775 TTGAAAAGTA
**
12290785 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGG
* * * * *** * * * **
12290835 AACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCT-GATATTGCAATTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAATGG
* *
12290885 AAAAGATTGAAGCCACAATGGCGGATCTTACTTCCTTAGCAGCGCAATGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGG
* * * * * * * * *
12290935 AATAGATTGAAACTACGACGGTGGATC-TAGTTTTCC-TAACATTGCAAT-T
1 AAAAGATTGAAGCCACAACGGCGGATCTTA--CTTCCTTAGCAGTGCAATGG
* **
12290984 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTT-GACGGTGCGGTGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAATGG
* * * *
12291034 AACAGATTGAAGCTACGACGACGGATCT
1 AAAAGATTGAAGCCACAACGGCGGATCT
12291062 AGTTTCCCCA
Statistics
Matches: 164, Mismatches: 55, Indels: 16
0.70 0.23 0.07
Matches are distributed among these distances:
48 4 0.02
49 31 0.19
50 124 0.76
51 5 0.03
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGG
Found at i:12290912 original size:100 final size:100
Alignment explanation
Indices: 12290783--12291074 Score: 417
Period size: 100 Copynumber: 2.9 Consensus size: 100
12290773 GGTTGAAAAG
*
12290783 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* * * *
12290848 TACGACGGCAGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTAGTTTCCCTAACATTGCAAT
* * * * *
12290883 TAAAAAGATTGAAGCCACAATGGCGGATCTTACTTCCTTAGCAGCGCAATGGAATAGATTGAAAC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* *
12290948 TACGACGGTGGATCTAGTTTTCCTAACATTGCAAT
66 TACGACGGCGGATCTAGTTTCCCTAACATTGCAAT
* *
12290983 T-AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTT-GACGGTGCGGTGGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAG
* *
12291046 CTACGACGACGGATCTAGTTTCCCCAACA
65 CTACGACGGCGGATCTAGTTTCCCTAACA
12291075 CAACAGTGGA
Statistics
Matches: 168, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
98 1 0.01
99 78 0.46
100 89 0.53
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
TACGACGGCGGATCTAGTTTCCCTAACATTGCAAT
Found at i:12291140 original size:44 final size:44
Alignment explanation
Indices: 12291079--12291522 Score: 315
Period size: 44 Copynumber: 9.9 Consensus size: 44
12291069 CCAACACAAC
*
12291079 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
* * ** * * * *
12291123 AGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTAAGGCTGC
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAA-GCAGT
* * *
12291168 AGTGGAGTATATTGAAGCCAGTAAC---TC-TATCTCCCTAGGCAGT
1 AGTGGAGTAGATTAAAG--A-TAACAGATCTTATCTCCCTAAGCAGT
*
12291211 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
* ** * * *
12291255 AGTGGAGTAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCT-A---AGCAG-T
*
12291304 AGCAATGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
1 AG---TGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
* * ** * * * ** *
12291351 AGTGGAGAAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCT-AAGCAGT
* * ** ** ** *
12291396 AGTGGAGTATATTGAAGCCAGTA-AT-TCTATCTCCCTGGGCAGC
1 AGTGGAGTAGATTAAAGATAACAGATCT-TATCTCCCTAAGCAGT
*
12291439 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
* * ** *
12291483 AGTGGAGCAGATCAAAGATGGCAGATTTTATCTCCCTAAG
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAG
12291523 GTTGCAGTGG
Statistics
Matches: 303, Mismatches: 77, Indels: 40
0.72 0.18 0.10
Matches are distributed among these distances:
40 4 0.01
41 1 0.00
43 40 0.13
44 174 0.57
45 37 0.12
47 4 0.01
48 10 0.03
49 3 0.01
51 1 0.00
52 29 0.10
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
Found at i:12291325 original size:52 final size:49
Alignment explanation
Indices: 12291250--12291398 Score: 150
Period size: 52 Copynumber: 3.1 Consensus size: 49
12291240 ATCTCCCTAA
*
12291250 GCAG-TAGTGGAGTAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTT
1 GCAGTTAGTGGAATAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTT
* ** * * *
12291298 GCAGTTAGCAATGGAATAGATTAAAGATAACAGATCTTATCTCCCT-A---A
1 GCAGTTAG---TGGAATAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTT
12291346 GCAG-TAGTGGAGA-AGATCAAAGATGGCAGATTTTACCTCCCTGAGGTT
1 GCAGTTAGTGGA-ATAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTT
12291394 GCAGT
1 GCAGT
12291399 GGAGTATATT
Statistics
Matches: 78, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
44 28 0.36
45 2 0.03
47 3 0.04
48 12 0.15
49 3 0.04
51 1 0.01
52 29 0.37
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
GCAGTTAGTGGAATAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTT
Found at i:12291377 original size:96 final size:96
Alignment explanation
Indices: 12291213--12291398 Score: 363
Period size: 96 Copynumber: 1.9 Consensus size: 96
12291203 TAGGCAGTAG
*
12291213 TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGCA
1 TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCA
12291278 GATTTTACCTCCCTGAGGTTGCAGTTAGCAA
66 GATTTTACCTCCCTGAGGTTGCAGTTAGCAA
12291309 TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCA
1 TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCA
12291374 GATTTTACCTCCCTGAGGTTGCAGT
66 GATTTTACCTCCCTGAGGTTGCAGT
12291399 GGAGTATATT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (96 bp):
TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCA
GATTTTACCTCCCTGAGGTTGCAGTTAGCAA
Found at i:12291478 original size:228 final size:228
Alignment explanation
Indices: 12291081--12291530 Score: 819
Period size: 228 Copynumber: 2.0 Consensus size: 228
12291071 AACACAACAG
*
12291081 TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCA
1 TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCA
*
12291146 GATTTTACCTCCCTAAGGCTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTAGGCAGT
66 GATTTTACCTCCCTAAGGCTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTAGGCAGC
*
12291211 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGG
131 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
*
12291276 CAGATTTTACCTCCCTGAGGTTGCAGTTAGCAA
196 CAGATTTTACCTCCCTAAGGTTGCAGTTAGCAA
12291309 TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCA
1 TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCA
* * * *
12291374 GATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
66 GATTTTACCTCCCTAAGGCTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTAGGCAGC
12291439 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
131 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
*
12291504 CAGATTTTATCTCCCTAAGGTTGCAGT
196 CAGATTTTACCTCCCTAAGGTTGCAGT
12291531 GGAGTATATT
Statistics
Matches: 213, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
228 213 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (228 bp):
TGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCA
GATTTTACCTCCCTAAGGCTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTAGGCAGC
AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
CAGATTTTACCTCCCTAAGGTTGCAGTTAGCAA
Found at i:12291484 original size:132 final size:132
Alignment explanation
Indices: 12291304--12291562 Score: 464
Period size: 132 Copynumber: 2.0 Consensus size: 132
12291294 GGTTGCAGTT
12291304 AGCAATGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGA
1 AGCAATGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGA
* * *
12291369 TGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGG
66 TGGCAGATTTTACCTCCCTAAGGTTGCAGTGGAGTATATTGAAGCCAATAATTCTACCTCCCTGG
12291434 GC
131 GC
* *
12291436 AGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
1 AGCAATGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGA
*
12291501 TGGCAGATTTTATCTCCCTAAGGTTGCAGTGGAGTATATTGAAGCCAATAATTCTACCTCCC
66 TGGCAGATTTTACCTCCCTAAGGTTGCAGTGGAGTATATTGAAGCCAATAATTCTACCTCCC
12291563 CGGTTGGCAG
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (132 bp):
AGCAATGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGA
TGGCAGATTTTACCTCCCTAAGGTTGCAGTGGAGTATATTGAAGCCAATAATTCTACCTCCCTGG
GC
Found at i:12294330 original size:27 final size:27
Alignment explanation
Indices: 12294245--12294321 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
12294235 TTTTAGTCCT
* *
12294245 TTGGCGCCATTGGTGCTGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
12294272 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
* *
12294299 TTGGCACCTTTGGTGTCGCCAAT
1 TTGGCACCATTGGTGCCGCCAAT
12294322 GTAATTGGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.18, C:0.30, G:0.25, T:0.27
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCACA
Found at i:12294409 original size:28 final size:28
Alignment explanation
Indices: 12294378--12294443 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
12294368 TTTTTTTGGT
*
12294378 ATATTTTGGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
12294406 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
12294434 ATATTTTGGT
1 ATATTTTGGT
12294444 TATTTTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:12294866 original size:19 final size:20
Alignment explanation
Indices: 12294832--12294871 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
12294822 AATAATTTGA
12294832 TTTAGTTTTATTTTAAATTT
1 TTTAGTTTTATTTTAAATTT
12294852 TTTAGTTTT-TTTTAAATTT
1 TTTAGTTTTATTTTAAATTT
12294871 T
1 T
12294872 AAATTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTAGTTTTATTTTAAATTT
Found at i:12294882 original size:19 final size:20
Alignment explanation
Indices: 12294838--12294882 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
12294828 TTGATTTAGT
* *
12294838 TTTA-TTTTAAATTTTTTAG
1 TTTATTTTTAAATTTTTAAA
12294857 TTT-TTTTTAAA-TTTTAAA
1 TTTATTTTTAAATTTTTAAA
12294875 TTTATTTT
1 TTTATTTT
12294883 GACCAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTATTTTTAAATTTTTAAA
Found at i:12301313 original size:38 final size:38
Alignment explanation
Indices: 12301228--12301315 Score: 158
Period size: 38 Copynumber: 2.3 Consensus size: 38
12301218 CTAATAAATC
**
12301228 AAATACATGACAAACATGTCTACTGCTACTATTGATCT
1 AAATACATGTTAAACATGTCTACTGCTACTATTGATCT
12301266 AAATACATGTTAAACATGTCTACTGCTACTATTGATCT
1 AAATACATGTTAAACATGTCTACTGCTACTATTGATCT
12301304 AAATACATGTTA
1 AAATACATGTTA
12301316 CTATTGATCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (38 bp):
AAATACATGTTAAACATGTCTACTGCTACTATTGATCT
Found at i:12301320 original size:22 final size:22
Alignment explanation
Indices: 12301292--12301333 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
12301282 TGTCTACTGC
12301292 TACTATTGATCTAAATACATGT
1 TACTATTGATCTAAATACATGT
12301314 TACTATTGATCTAAATACAT
1 TACTATTGATCTAAATACAT
12301334 ATTAAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (22 bp):
TACTATTGATCTAAATACATGT
Found at i:12303779 original size:39 final size:39
Alignment explanation
Indices: 12303697--12303796 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
12303687 GAAATCCTTG
*
12303697 TTATAATTATTGTAATTATAA-TTTACGATCAAATATTA
1 TTATAATTATTGTAATTATAATTTTACGATCAAAAATTA
* * *
12303735 TTATAATTATTGTAATTGTAATTTTTCGGTCAAAAATTA
1 TTATAATTATTGTAATTATAATTTTACGATCAAAAATTA
* *
12303774 TTATAACTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
12303797 ATTATATTCG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 20 0.37
39 34 0.63
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTTACGATCAAAAATTA
Found at i:12308560 original size:16 final size:15
Alignment explanation
Indices: 12308533--12308562 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12308523 AAATTCACAT
12308533 TTATACTATATATAA
1 TTATACTATATATAA
12308548 TTATACATATATATA
1 TTATAC-TATATATA
12308563 TTTTCAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATACTATATATAA
Found at i:12320014 original size:26 final size:26
Alignment explanation
Indices: 12319959--12320014 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
12319949 GAATTTTCTC
*
12319959 AAAATTTTATCGAGGATAAAATCGTT
1 AAAATTTTATCGAGGATAAAATCGTA
* *
12319985 AAAATTTTATC-AGGGGTAAAATTGTA
1 AAAATTTTATCGA-GGATAAAATCGTA
12320011 AAAA
1 AAAA
12320015 AAAATTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (26 bp):
AAAATTTTATCGAGGATAAAATCGTA
Found at i:12328654 original size:89 final size:89
Alignment explanation
Indices: 12327898--12328653 Score: 1128
Period size: 89 Copynumber: 8.5 Consensus size: 89
12327888 TCTGCTGCGC
* * * * *
12327898 TTGATCTACTTCACGCC---A-ATGAAGACAAGGTCTGTTCTCTTCGATCTACTCCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
*
12327959 ATAGGGAA-ACAAGATCTGTTGTCT
66 AT-GGGAAGACAAGATCTGTTATCT
* * *
12327983 TTGATCTACTTCACGTCAATACATGAAGACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG--TTTT-CTTCGATCTGCTTCGCCACC
*
12328048 AGTATGGGAAGACAAGATCTGTTACCT
63 AGTATGGGAAGACAAGATCTGTTATCT
* * *
12328075 TTGATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
12328140 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
*
12328164 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
12328229 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
*
12328253 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
*
12328318 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
*
12328342 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCGGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
*
12328407 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
12328431 CTT-ATTTACTTCACGCCAGTACATGAAGACAAGATTTGCTTTCTTCGATCTGTTTCGCCACCAG
1 -TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAG
* *
12328495 TATGGGAAGGCAAGATTTGTTATCT
65 TATGGGAAGACAAGATCTGTTATCT
* * *
12328520 TTGATCTACTTCACGCCAGTACATGAAGACAAAATCTGCTTTCTTTGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
* * * *
12328585 ATGGGAAGGCAATATTTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
12328609 CTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTATCTT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
12328654 TCCACCTGCC
Statistics
Matches: 621, Mismatches: 40, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
85 16 0.03
88 3 0.00
89 517 0.83
90 5 0.01
91 8 0.01
92 72 0.12
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:12348379 original size:5 final size:5
Alignment explanation
Indices: 12348369--12348396 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
12348359 ATAACCACAA
12348369 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
12348397 TATATTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:12351083 original size:42 final size:42
Alignment explanation
Indices: 12351037--12351214 Score: 185
Period size: 42 Copynumber: 4.2 Consensus size: 42
12351027 AGACTGAACA
* * * * * *
12351037 GAAGCTCATGAGAACTAAACGGAAACCTATAAGGGTTGAACG
1 GAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
* * *
12351079 GAAGCTCGTAAGAGCTGGACGGAAACCCATAAAGGTTAAACT
1 GAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
* *
12351121 GAAGCTCAAAAGAGCTGAATGGAAACCCATAAGGGTTAAACT
1 GAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
* * ** * * *
12351163 GAAGCTTAAAAGAGCTGAACAAAAACCCATTAGGGTTGAACA
1 GAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
*
12351205 GAAACTCATA
1 GAAGCTCATA
12351215 TGAGTTAACA
Statistics
Matches: 112, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 112 1.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
Found at i:12351332 original size:24 final size:24
Alignment explanation
Indices: 12351299--12351346 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
12351289 TACTTGGGTA
*
12351299 ATTTACCGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCATTTGC
*
12351323 ATTTATCGTCAATTCATCATTTGC
1 ATTTACCGTCAATTCATCATTTGC
12351347 CACAGAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.44
Consensus pattern (24 bp):
ATTTACCGTCAATTCATCATTTGC
Found at i:12354840 original size:17 final size:18
Alignment explanation
Indices: 12354800--12354840 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
12354790 ATGACCTTTC
*
12354800 TTGT-TGCGAAGCCCGTA
1 TTGTATGCGAAGCCCATA
*
12354817 TTATATGCGAA-CCCATA
1 TTGTATGCGAAGCCCATA
12354834 TTGTATG
1 TTGTATG
12354841 TTATTATGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (18 bp):
TTGTATGCGAAGCCCATA
Found at i:12354860 original size:18 final size:18
Alignment explanation
Indices: 12354837--12354871 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12354827 ACCCATATTG
12354837 TATGTTATTATGCGAACT
1 TATGTTATTATGCGAACT
* *
12354855 TATGTTGTTGTGCGAAC
1 TATGTTATTATGCGAAC
12354872 CTTAATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (18 bp):
TATGTTATTATGCGAACT
Found at i:12359908 original size:29 final size:30
Alignment explanation
Indices: 12359875--12359943 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
12359865 GAGAGAGAGA
* *
12359875 AAAAAAAAGAGTTAGTTAAAAGAG-TACAC
1 AAAAAAAAGAGCTAGCTAAAAGAGTTACAC
* *
12359904 AAAAAAAA-AGCTAGCTAGAAGAGTTAGAC
1 AAAAAAAAGAGCTAGCTAAAAGAGTTACAC
12359933 AAAATAAAAGA
1 AAAA-AAAAGA
12359944 TAGTCATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 12 0.36
29 16 0.48
30 4 0.12
31 1 0.03
ACGTcount: A:0.61, C:0.07, G:0.17, T:0.14
Consensus pattern (30 bp):
AAAAAAAAGAGCTAGCTAAAAGAGTTACAC
Found at i:12363023 original size:65 final size:65
Alignment explanation
Indices: 12362947--12363075 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
12362937 ATTTGAAATT
*
12362947 GCCTTAAATATAATTTAGCCATAAATTTAATGTTAGTGGATGAGGTTGATCATTTCCATTGAATG
1 GCCTTAAATATAATTTAGCCATAAATTAAATGTTAGTGGATGAGGTTGATCATTTCCATTGAATG
12363012 GCCTTAAATATAATTTAGCCATAAATTAAATGTTAGTGGATGAGGTTGATCATTTCCATTGAAT
1 GCCTTAAATATAATTTAGCCATAAATTAAATGTTAGTGGATGAGGTTGATCATTTCCATTGAAT
12363076 TCCACTTGGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (65 bp):
GCCTTAAATATAATTTAGCCATAAATTAAATGTTAGTGGATGAGGTTGATCATTTCCATTGAATG
Found at i:12366382 original size:17 final size:16
Alignment explanation
Indices: 12366341--12366388 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
12366331 ATAAATAGGA
12366341 TATTTTT-ATTTCTTT
1 TATTTTTAATTTCTTT
12366356 TATTTTTAATTT-TTT
1 TATTTTTAATTTCTTT
12366371 TATTTGTTTAATTTCTTT
1 TA-TT-TTTAATTTCTTT
12366389 CTAGTTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.41
16 6 0.21
17 8 0.28
18 3 0.10
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (16 bp):
TATTTTTAATTTCTTT
Found at i:12378231 original size:30 final size:30
Alignment explanation
Indices: 12378195--12378257 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
12378185 ACTTATTTTA
12378195 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
12378225 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
12378255 TTG
1 TTG
12378258 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:12378771 original size:25 final size:22
Alignment explanation
Indices: 12378736--12378783 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 22
12378726 TTATGTGTCG
12378736 TTTTTAAAATTTATTAAACAATATA
1 TTTTTAAAA-TT-TTAAA-AATATA
*
12378761 TTTTTATAATTTTAAAAATATA
1 TTTTTAAAATTTTAAAAATATA
12378783 T
1 T
12378784 AATTAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 2 0.09
25 8 0.36
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTTAAAATTTTAAAAATATA
Found at i:12381921 original size:46 final size:46
Alignment explanation
Indices: 12381798--12381922 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
12381788 CAGGGCTTAA
* * * *
12381798 TATTCTTGTATTCTTGAGT-TCGCAACATATGCAAGAGCTCGGAACC
1 TATTCTTGTACTCTCGAGTCT-ACAACATATGCAAGAGCTCAGAACC
** ** *
12381844 TAAACTTGTACTCTCGAGTCTACAATTTATGCAAGATCTCAGAACC
1 TATTCTTGTACTCTCGAGTCTACAACATATGCAAGAGCTCAGAACC
12381890 TATTCTTGTACTCTCGAGTCTACAACATATGCA
1 TATTCTTGTACTCTCGAGTCTACAACATATGCA
12381923 GGAACTCGAA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 64 0.98
47 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
TATTCTTGTACTCTCGAGTCTACAACATATGCAAGAGCTCAGAACC
Found at i:12381936 original size:46 final size:46
Alignment explanation
Indices: 12381798--12381936 Score: 147
Period size: 46 Copynumber: 3.0 Consensus size: 46
12381788 CAGGGCTTAA
* * * * *
12381798 TATTCTTGTATTCTTGAGT-TCGCAACATATGCAAGAGCTCGGAACC
1 TATTCTTGTACTCTCGAGTCT-ACAACATATGCAAGAACTCGAAACC
** ** *
12381844 TAAACTTGTACTCTCGAGTCTACAATTTATGCAAGATCTC-AGAACC
1 TATTCTTGTACTCTCGAGTCTACAACATATGCAAGAACTCGA-AACC
*
12381890 TATTCTTGTACTCTCGAGTCTACAACATATGCAGGAACTCGAAACC
1 TATTCTTGTACTCTCGAGTCTACAACATATGCAAGAACTCGAAACC
12381936 T
1 T
12381937 GAGCAACACT
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
46 73 0.97
47 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (46 bp):
TATTCTTGTACTCTCGAGTCTACAACATATGCAAGAACTCGAAACC
Found at i:12382851 original size:13 final size:13
Alignment explanation
Indices: 12382833--12382857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12382823 TGGTATATTT
12382833 TCCCTTGAGAATA
1 TCCCTTGAGAATA
12382846 TCCCTTGAGAAT
1 TCCCTTGAGAAT
12382858 CTTTAATCAT
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:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (13 bp):
TCCCTTGAGAATA
Found at i:12383734 original size:115 final size:115
Alignment explanation
Indices: 12383587--12383819 Score: 349
Period size: 115 Copynumber: 2.0 Consensus size: 115
12383577 CTAATTTACC
* * * * * **
12383587 ATTTTTTGAGTATATGGGGCAAAATCCAATCCATTTCCTTCTACAAAGGTCTCCATGGTACTTTT
1 ATTTTTTGAATAGATGAGACAAAATACAATCCAACTCCTTCTACAAAGGTCTCCATGGTACTTTT
* *
12383652 ACCGTCTTCATACATACATAAAATGGAAGGAAGAATGATGGACTTTGAAT
66 ACCGCCTTCATACATACATAAAATGGAAGGAAGAAGGATGGACTTTGAAT
* *
12383702 ATTTTTTGAATAGATGAGACAAAATACAATCCAACTCCTTGTACAAGGGTCTCCATGGTACTTTT
1 ATTTTTTGAATAGATGAGACAAAATACAATCCAACTCCTTCTACAAAGGTCTCCATGGTACTTTT
* *
12383767 ACCGCCTTGATACATGCATAAAATGGAAGGAAGAAGGATGGACTTTGAAT
66 ACCGCCTTCATACATACATAAAATGGAAGGAAGAAGGATGGACTTTGAAT
12383817 ATT
1 ATT
12383820 GAATTTACTT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
115 105 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (115 bp):
ATTTTTTGAATAGATGAGACAAAATACAATCCAACTCCTTCTACAAAGGTCTCCATGGTACTTTT
ACCGCCTTCATACATACATAAAATGGAAGGAAGAAGGATGGACTTTGAAT
Found at i:12387900 original size:20 final size:20
Alignment explanation
Indices: 12387877--12387915 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12387867 CAAATACTAT
12387877 AAAAAATAGAAAAATTAAAG
1 AAAAAATAGAAAAATTAAAG
** *
12387897 AAAAGTTATAAAAATTAAA
1 AAAAAATAGAAAAATTAAA
12387916 AATTATTGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAAAATAGAAAAATTAAAG
Found at i:12388152 original size:21 final size:19
Alignment explanation
Indices: 12388128--12388170 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12388118 TTCATGTCCC
12388128 TATTTTACAATTTTTAAAACA
1 TATTTT-CAA-TTTTAAAACA
* *
12388149 TATTTTTAATTTTAAAATA
1 TATTTTCAATTTTAAAACA
12388168 TAT
1 TAT
12388171 AAAATAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTCAATTTTAAAACA
Found at i:12388241 original size:41 final size:41
Alignment explanation
Indices: 12388180--12388262 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
12388170 TAAAATAAAC
* * * *
12388180 TTAGTTTTTAGATATTTTTAATTATTGAATAGTGAATTGGA
1 TTAGTTTCTAAATATGTTTAATTATTGAATAGTAAATTGGA
12388221 TTAGTTTCTAAATATGTTTAATTATTGAATAGTAAATTGGA
1 TTAGTTTCTAAATATGTTTAATTATTGAATAGTAAATTGGA
12388262 T
1 T
12388263 CGGTCCATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (41 bp):
TTAGTTTCTAAATATGTTTAATTATTGAATAGTAAATTGGA
Found at i:12389415 original size:16 final size:16
Alignment explanation
Indices: 12389394--12389443 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
12389384 TAAATATATT
12389394 AAATATATTATAATTA
1 AAATATATTATAATTA
*
12389410 AAATATATAATTTAA-TA
1 AAATATAT--TATAATTA
12389427 AAAT-TATTAATAATTA
1 AAATATATT-ATAATTA
12389443 A
1 A
12389444 TATTCTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 1 0.04
15 3 0.11
16 14 0.50
17 6 0.21
18 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATATTATAATTA
Found at i:12389417 original size:18 final size:18
Alignment explanation
Indices: 12389396--12389443 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
12389386 AATATATTAA
12389396 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
12389414 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
12389431 -TAT-TAATAATTAA
1 ATATATTATAATTAA
12389444 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:12389535 original size:16 final size:17
Alignment explanation
Indices: 12389514--12389550 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
12389504 GATTAATATT
12389514 AAATATA-G-TTTAATTA
1 AAATATATGATTTAA-TA
12389530 AAATATATGATTTAATA
1 AAATATATGATTTAATA
12389547 AAAT
1 AAAT
12389551 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:12389621 original size:26 final size:28
Alignment explanation
Indices: 12389592--12389652 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
12389582 TATGAATTTG
*
12389592 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
12389618 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
12389646 TAAAATT
1 TATAATT
12389653 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:12389654 original size:91 final size:89
Alignment explanation
Indices: 12389558--12389774 Score: 299
Period size: 91 Copynumber: 2.4 Consensus size: 89
12389548 AATTTAAAAT
* * * *
12389558 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
12389623 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
12389649 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
12389714 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
*
12389740 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
12389775 CTAAAATCAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 89 0.80
92 22 0.20
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:12389655 original size:44 final size:42
Alignment explanation
Indices: 12389592--12389734 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 42
12389582 TATGAATTTG
12389592 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATA
* ** *
12389636 TATAATTTCATAA-AATTATTGA-TAATAATTTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATA
* *
12389683 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATA
12389727 TATAATTT
1 TATAATTT
12389735 CATAAAATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 5 0.06
44 29 0.38
45 9 0.12
46 9 0.12
47 19 0.25
48 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (42 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATATA
Found at i:12389749 original size:47 final size:47
Alignment explanation
Indices: 12389599--12389755 Score: 128
Period size: 47 Copynumber: 3.4 Consensus size: 47
12389589 TTGTATAATT
* * * * *
12389599 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
* ** * *
12389646 TAAAATTATTGATAAT-AAT-T--TTTCTTATATGAATTTATACAATT--
1 TAAAATTATTAATAATAAATATAATTTAATA-ATG-ATATATA-ATTTCA
* *
12389690 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
*
12389737 TAAAATTCTTAATAATAAA
1 TAAAATTATTAATAATAAA
12389756 ATGTTCTTAT
Statistics
Matches: 81, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
43 5 0.06
44 15 0.19
45 13 0.16
46 12 0.15
47 31 0.38
48 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
Found at i:12392915 original size:40 final size:40
Alignment explanation
Indices: 12392867--12392942 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
12392857 TATTTTGTGG
12392867 ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTTGTCT
1 ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTTGTCT
12392907 ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTT
1 ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTT
12392943 TGACATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (40 bp):
ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTTGTCT
Found at i:12393258 original size:22 final size:21
Alignment explanation
Indices: 12393227--12393287 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
12393217 ACCTCTTTGA
*
12393227 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACC-AAT
*
12393250 ACCATACCATTTCATACCAAT
1 ACCATACCATTTCGTACCAAT
*
12393271 TCCATACCATTTCGTAC
1 ACCATACCATTTCGTAC
12393288 GATAGAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 18 0.53
22 12 0.35
23 4 0.12
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
ACCATACCATTTCGTACCAAT
Found at i:12395220 original size:15 final size:15
Alignment explanation
Indices: 12395200--12395229 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12395190 TATCCATCCG
12395200 TTTTTTAAATATAAT
1 TTTTTTAAATATAAT
*
12395215 TTTTTTAATTATAAT
1 TTTTTTAAATATAAT
12395230 AATTAACGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTAAATATAAT
Found at i:12400272 original size:15 final size:15
Alignment explanation
Indices: 12400252--12400284 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
12400242 GTATGAAAAA
12400252 AAAAAT-ACAAACATT
1 AAAAATAACAAA-ATT
12400267 AAAAATAACAAAATT
1 AAAAATAACAAAATT
12400282 AAA
1 AAA
12400285 TTTGTAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAATAACAAAATT
Found at i:12401994 original size:18 final size:18
Alignment explanation
Indices: 12401949--12401994 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
12401939 CTATTTCTTC
12401949 TCTTCTTTCCTTTGTCCTT
1 TCTT-TTTCCTTTGTCCTT
12401968 T-TTTCTTCCTTT-TCCTCT
1 TCTTT-TTCCTTTGTCCT-T
12401986 TCTTTTTCC
1 TCTTTTTCC
12401995 CCTCACTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 5 0.21
18 15 0.62
19 4 0.17
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (18 bp):
TCTTTTTCCTTTGTCCTT
Found at i:12404275 original size:23 final size:23
Alignment explanation
Indices: 12404248--12404319 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
12404238 GCTATACGCC
12404248 AAGATGAGTAAGACTATAGCTGA
1 AAGATGAGTAAGACTATAGCTGA
* * *
12404271 AAGATG-CTATGACGTCAT-GAT-A
1 AAGATGAGTAAGAC-T-ATAGCTGA
* *
12404293 AAAATGAGTAAGACCATAGCTGA
1 AAGATGAGTAAGACTATAGCTGA
12404316 AAGA
1 AAGA
12404320 CAATATGGCA
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
21 2 0.06
22 13 0.37
23 18 0.51
24 2 0.06
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (23 bp):
AAGATGAGTAAGACTATAGCTGA
Found at i:12404315 original size:45 final size:45
Alignment explanation
Indices: 12404251--12404410 Score: 203
Period size: 45 Copynumber: 3.6 Consensus size: 45
12404241 ATACGCCAAG
* *
12404251 ATGAGTAAGACTATAGCTGAAAGATGCTATGACGTCATGATAAAA
1 ATGAGTAAGACTATAGCTGAAAGACGCTATGACATCATGATAAAA
* ** * *
12404296 ATGAGTAAGACCATAGCTGAAAGACAATATGGCATCATGACAAAA
1 ATGAGTAAGACTATAGCTGAAAGACGCTATGACATCATGATAAAA
* *
12404341 ATGAGTAATACTATAGCTGAAAGACGCTATGACATCATGGTAAAA
1 ATGAGTAAGACTATAGCTGAAAGACGCTATGACATCATGATAAAA
* * **
12404386 AGGACTAAGAAAATAGCTGAAAGAC
1 ATGAGTAAGACTATAGCTGAAAGAC
12404411 TTTATGGAAT
Statistics
Matches: 96, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (45 bp):
ATGAGTAAGACTATAGCTGAAAGACGCTATGACATCATGATAAAA
Found at i:12419830 original size:40 final size:39
Alignment explanation
Indices: 12419763--12419869 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 39
12419753 GATAAAGCAG
* * * *
12419763 GAAAACGCTTCCTCGAGGTAGCGCTTTGTCTACGTGGAC
1 GAAAACGCTTCCTTGAGGAAGCACTTTGTCCACGTGGAC
**
12419802 AGAAAACGCTTCCTTGAGGGCGCACTTTGTGTCCACGTGGAC
1 -GAAAACGCTTCCTTGAGGAAGCAC-TT-TGTCCACGTGGAC
*
12419844 -AAAGCGCTTCCTTGAGGAAGCACTTT
1 GAAAACGCTTCCTTGAGGAAGCACTTT
12419870 CCCCGTTTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 40 0.70
41 2 0.04
42 12 0.21
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
GAAAACGCTTCCTTGAGGAAGCACTTTGTCCACGTGGAC
Found at i:12420493 original size:142 final size:142
Alignment explanation
Indices: 12420335--12422339 Score: 4010
Period size: 142 Copynumber: 14.1 Consensus size: 142
12420325 ATTATATTAA
12420335 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12420400 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12420465 CATTATATATTT
131 CATTATATATTT
12420477 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12420542 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12420607 CATTATATATTT
131 CATTATATATTT
12420619 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12420684 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12420749 CATTATATATTT
131 CATTATATATTT
12420761 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12420826 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12420891 CATTATATATTT
131 CATTATATATTT
12420903 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12420968 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12421033 CATTATATATTT
131 CATTATATATTT
12421045 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12421110 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12421175 CATTATATATTT
131 CATTATATATTT
12421187 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12421252 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12421317 CATTATATATTT
131 CATTATATATTT
12421329 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12421394 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12421459 CATTATATATTT
131 CATTATATATTT
12421471 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12421536 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12421601 CATTATATATTT
131 CATTATATATTT
12421613 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12421678 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12421743 CATTATATATTT
131 CATTATATATTT
12421755 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12421820 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12421885 CATTATATATTT
131 CATTATATATTT
12421897 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12421962 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12422027 CATTATATATTT
131 CATTATATATTT
12422039 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12422104 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12422169 CATTATATATTT
131 CATTATATATTT
12422181 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
1 TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
12422246 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
66 TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
12422311 CATTATATATTT
131 CATTATATATTT
12422323 TATTTTTAATTTATTAT
1 TATTTTTAATTTATTAT
12422340 TAAAAAAATT
Statistics
Matches: 1863, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 1863 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.48
Consensus pattern (142 bp):
TATTTTTAATTTATTATAAATTTAAAATTACAGCAAAAGATATATTTAATATATATATAAACTTT
TAACTCTTTTTCTGTTTTTCATAAAAAACTCTTTTTCTATTTTAAAATTTAAAAATACAAAAATT
CATTATATATTT
Found at i:12422561 original size:97 final size:97
Alignment explanation
Indices: 12422442--12422918 Score: 600
Period size: 97 Copynumber: 4.8 Consensus size: 97
12422432 AACAACTAGT
* *
12422442 TTTATTTGA-TTTTTCCTTAAAAACCCTAAATACTAAACCCCAATCTAATTTTTTTAAAATTTAT
1 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
*
12422506 AATTAATTTGCTCAAGTAACCCTAAACCCTAA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* ** *
12422538 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATATAATTTTTAAAAAAATTAT
1 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
12422603 AATTAATTTACTCAAGTAACCCTAAACCCTAA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* * *
12422635 TTTCTTTGATTTTTTCCTTAAAAACCATAAACATTAAACCCTAATCTAA-TTTTTTAAAATTTAT
1 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
* *
12422699 AATTAATTTAATTAAGAAACTCAAAACCCCCTAAAACCCTAAACCCTTA
66 AATTAATTTACTCAAG----T---AA--CCCT-AAACCCT--A-----A
* * ** *
12422748 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATATAATTTTTAAAAAAATTAT
1 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
12422813 AATTAATTTACTCAAGTAACCCTAAACCCTAA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* * *
12422845 TTTCTTTGATTTTTTCCTTAAAAACCATAAACATTAAACCCTAATCTAA-TTTTTTAAAATTTAT
1 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
12422909 AATTAATTTA
66 AATTAATTTA
12422919 ATTAAGAAAC
Statistics
Matches: 328, Mismatches: 34, Indels: 38
0.82 0.09 0.09
Matches are distributed among these distances:
96 57 0.17
97 170 0.52
100 1 0.00
102 1 0.00
103 2 0.01
104 7 0.02
105 8 0.02
106 7 0.02
107 2 0.01
108 1 0.00
110 1 0.00
113 45 0.14
114 26 0.08
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.39
Consensus pattern (97 bp):
TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
AATTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:12422885 original size:210 final size:210
Alignment explanation
Indices: 12422523--12422987 Score: 905
Period size: 210 Copynumber: 2.2 Consensus size: 210
12422513 TTGCTCAAGT
* *
12422523 AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATATAAT
1 AACCCTAAACCCTTATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATATAAT
12422588 TTTTAAAAAAATTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTCTTTGATTTTTTCCT
66 TTTTAAAAAAATTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTCTTTGATTTTTTCCT
12422653 TAAAAACCATAAACATTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTAATTAAGAAA
131 TAAAAACCATAAACATTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTAATTAAGAAA
12422718 CTCAAAACCCCCTAA
196 CTCAAAACCCCCTAA
12422733 AACCCTAAACCCTTATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATATAAT
1 AACCCTAAACCCTTATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATATAAT
12422798 TTTTAAAAAAATTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTCTTTGATTTTTTCCT
66 TTTTAAAAAAATTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTCTTTGATTTTTTCCT
12422863 TAAAAACCATAAACATTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTAATTAAGAAA
131 TAAAAACCATAAACATTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTAATTAAGAAA
12422928 CTCAAAACCCCCTAA
196 CTCAAAACCCCCTAA
12422943 AACCCTAAACCCTTATTTATTTAATTTTTTCCTT-AAAACCCTAAA
1 AACCCTAAACCCTTATTTATTTAATTTTTTCCTTAAAAACCCTAAA
12422988 ATCTAAAAAC
Statistics
Matches: 253, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
209 11 0.04
210 242 0.96
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (210 bp):
AACCCTAAACCCTTATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATATAAT
TTTTAAAAAAATTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTCTTTGATTTTTTCCT
TAAAAACCATAAACATTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTAATTAAGAAA
CTCAAAACCCCCTAA
Found at i:12429286 original size:16 final size:16
Alignment explanation
Indices: 12429265--12429295 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12429255 CATGTTAGAA
12429265 AATATAAATTTGAAAC
1 AATATAAATTTGAAAC
*
12429281 AATATATATTTGAAA
1 AATATAAATTTGAAA
12429296 ACTTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AATATAAATTTGAAAC
Found at i:12429466 original size:27 final size:27
Alignment explanation
Indices: 12429424--12429485 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
12429414 TAGATTTTTT
*
12429424 TAAA-TTTATAATTTTTAAAAAAATTA
1 TAAATTTTAGAATTTTTAAAAAAATTA
* * *
12429450 TAAATTTTAGAATTTTTATAAATATTT
1 TAAATTTTAGAATTTTTAAAAAAATTA
*
12429477 TGAATTTTA
1 TAAATTTTA
12429486 AAAATTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
TAAATTTTAGAATTTTTAAAAAAATTA
Found at i:12429485 original size:18 final size:19
Alignment explanation
Indices: 12429447--12429484 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
12429437 TTTAAAAAAA
*
12429447 TTATAAAT-TTTAGAATTT
1 TTATAAATATTTTGAATTT
12429465 TTATAAATATTTTGAATTT
1 TTATAAATATTTTGAATTT
12429484 T
1 T
12429485 AAAAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTATAAATATTTTGAATTT
Found at i:12429490 original size:18 final size:21
Alignment explanation
Indices: 12429453--12429496 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
12429443 AAAATTATAA
*
12429453 ATTTTAGAATTTTTATAAA-T
1 ATTTTAGAATTTTTAAAAATT
12429473 ATTTT-GAA-TTTTAAAAATT
1 ATTTTAGAATTTTTAAAAATT
12429492 ATTTT
1 ATTTT
12429497 CAAAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTAGAATTTTTAAAAATT
Found at i:12431503 original size:69 final size:67
Alignment explanation
Indices: 12431430--12431643 Score: 207
Period size: 69 Copynumber: 3.1 Consensus size: 67
12431420 TTAAACTTAA
* **
12431430 TATTATTTTAGTTTTATTATTAATATTGTTTAATTTATTGTATATTATTATCTTAGATTTATCAT
1 TATTATTTTAATTTTATTATTAATATT-TTTAATTTATCATATATTATTAT-TTAGATTTATCAT
*
12431495 GCAT
64 GTAT
* * * * ** *
12431499 TATTATTTGTAATTTATCAATATTATTATTTTAAATTCATCAT-TAACATTATTTAAATTTATCA
1 TATTATTT-TAATTT-T-ATTATTAATATTTTTAATTTATCATATATTATTATTTAGATTTATCA
12431563 TGTA-
63 TGTAT
* * *
12431567 TATTTATTTTAAATTTATCATTAATATTTTTAAATTTATCATATATTATTATTTTGAATTTATCA
1 TA-TTATTTTAATTTTATTATTAATATTTTT-AATTTATCATATATTATTATTTAG-ATTTATCA
*
12431632 CGTAT
63 TGTAT
12431637 TATTATT
1 TATTATT
12431644 ATTAGAATAA
Statistics
Matches: 115, Mismatches: 22, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
66 11 0.10
67 10 0.09
68 16 0.14
69 44 0.38
70 14 0.12
71 10 0.09
72 10 0.09
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (67 bp):
TATTATTTTAATTTTATTATTAATATTTTTAATTTATCATATATTATTATTTAGATTTATCATGT
AT
Found at i:12431574 original size:46 final size:45
Alignment explanation
Indices: 12431430--12431631 Score: 185
Period size: 45 Copynumber: 4.4 Consensus size: 45
12431420 TTAAACTTAA
** * * **
12431430 TATTATTTTAGTTTTATTATTAATATTGTTT-AATTTATTGTATAT
1 TATTATTTTAAATTTATCATTAACATT-TTTAAATTTATCATATAT
* * * ** *
12431475 TATTATCTTAGATTTATCATGCATTATTATTTGTAATTTATCA-ATAT
1 TATTATTTTAAATTTATCAT-TAACATT-TTT-AAATTTATCATATAT
* *
12431522 TATTATTTTAAATTCATCATTAACATTATTTAAATTTATCATGTA-
1 TATTATTTTAAATTTATCATTAACATT-TTTAAATTTATCATATAT
*
12431567 TATTTATTTTAAATTTATCATTAATATTTTTAAATTTATCATATAT
1 TA-TTATTTTAAATTTATCATTAACATTTTTAAATTTATCATATAT
*
12431613 TATTATTTTGAATTTATCA
1 TATTATTTTAAATTTATCA
12431632 CGTATTATTA
Statistics
Matches: 131, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
45 60 0.46
46 43 0.33
47 21 0.16
48 7 0.05
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (45 bp):
TATTATTTTAAATTTATCATTAACATTTTTAAATTTATCATATAT
Found at i:12431579 original size:24 final size:25
Alignment explanation
Indices: 12431429--12431643 Score: 155
Period size: 24 Copynumber: 9.3 Consensus size: 25
12431419 TTTAAACTTA
** *
12431429 ATATTATTTTAGTTTTATTAT-TA-
1 ATATTATTTTAAATTTATCATGTAT
*
12431452 ATATT-GTTT-AATTTAT--TGTAT
1 ATATTATTTTAAATTTATCATGTAT
* * *
12431473 ATTATTATCTTAGATTTATCATGCAT
1 A-TATTATTTTAAATTTATCATGTAT
*
12431499 -TATTATTTGT-AATTTATCA-ATAT
1 ATATTATTT-TAAATTTATCATGTAT
*
12431522 -TATTATTTTAAATTCATCAT-TA-
1 ATATTATTTTAAATTTATCATGTAT
*
12431544 ACATTA-TTTAAATTTATCATGTAT
1 ATATTATTTTAAATTTATCATGTAT
12431568 AT-TTATTTTAAATTTATCAT-TA-
1 ATATTATTTTAAATTTATCATGTAT
*
12431590 ATA-T-TTTTAAATTTATCATATAT
1 ATATTATTTTAAATTTATCATGTAT
* *
12431613 -TATTATTTTGAATTTATCACGTAT
1 ATATTATTTTAAATTTATCATGTAT
12431637 -TATTATT
1 ATATTATT
12431644 ATTAGAATAA
Statistics
Matches: 155, Mismatches: 18, Indels: 37
0.74 0.09 0.18
Matches are distributed among these distances:
19 1 0.01
20 2 0.01
21 21 0.14
22 28 0.18
23 39 0.25
24 59 0.38
25 1 0.01
26 4 0.03
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (25 bp):
ATATTATTTTAAATTTATCATGTAT
Found at i:12431608 original size:114 final size:114
Alignment explanation
Indices: 12431486--12431698 Score: 274
Period size: 114 Copynumber: 1.9 Consensus size: 114
12431476 ATTATCTTAG
* * *
12431486 ATTTATCATGCATTATTA-TTTGTAATTTATCA-ATATTATTATT-TTA-AATTCATCATTAACA
1 ATTTATCATACATTATTATTTTG-AATTTATCACATATTATTATTATTAGAA-TAATCATCAA-A
*
12431547 TTATTTAAATTTATCATGTA-TATTTATTTTAAATTTATCATTAATATTTTTAA
63 TT-TTTAAATTTATCATGTATTA-TTATTTCAAATTTATCATTAATATTTTTAA
* * *
12431600 ATTTATCATATATTATTATTTTGAATTTATCACGTATTATTATTATTAGAATAATCATCCAATTT
1 ATTTATCATACATTATTATTTTGAATTTATCACATATTATTATTATTAGAATAATCATCAAATTT
*
12431665 TTAAATTTATTATGTATTATTATTTCAAATTTAT
66 TTAAATTTATCATGTATTATTATTTCAAATTTAT
12431699 TATATATTGT
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
114 55 0.64
115 19 0.22
116 10 0.12
117 2 0.02
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (114 bp):
ATTTATCATACATTATTATTTTGAATTTATCACATATTATTATTATTAGAATAATCATCAAATTT
TTAAATTTATCATGTATTATTATTTCAAATTTATCATTAATATTTTTAA
Found at i:12431694 original size:24 final size:23
Alignment explanation
Indices: 12431453--12431720 Score: 162
Period size: 24 Copynumber: 11.6 Consensus size: 23
12431443 TTATTATTAA
* **
12431453 TATTGTTT-AATTTATTGTATAT
1 TATTATTTAAATTTATCATATAT
* **
12431475 TATTATCTTAGATTTATCATGCAT
1 TATTAT-TTAAATTTATCATATAT
*
12431499 TATTATTTGTAATTTATCA-ATAT
1 TATTATTT-AAATTTATCATATAT
* *
12431522 TATTATTTTAAATTCATCAT-TAA
1 TATTA-TTTAAATTTATCATATAT
* *
12431545 CATTATTTAAATTTATCATGTA-
1 TATTATTTAAATTTATCATATAT
*
12431567 TATTTATTTTAAATTTATCAT-TAA
1 TA-TTA-TTTAAATTTATCATATAT
12431591 TATT-TTTAAATTTATCATATAT
1 TATTATTTAAATTTATCATATAT
*
12431613 TATTATTTTGAATTTATCACGTATTAT
1 TATTA-TTTAAATTTATCA--TA-TAT
* **
12431640 TATTA-TTAGAA-TAATCATCCA-
1 TATTATTTA-AATTTATCATATAT
* *
12431661 -ATT-TTTAAATTTATTATGTAT
1 TATTATTTAAATTTATCATATAT
*
12431682 TATTATTTCAAATTTATTATATAT
1 TATTATTT-AAATTTATCATATAT
*
12431706 TGTTTATTGTAAATT
1 T-ATTATT-TAAATT
12431721 ACTCTATTCA
Statistics
Matches: 194, Mismatches: 28, Indels: 45
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.01
20 12 0.06
21 14 0.07
22 29 0.15
23 38 0.20
24 69 0.36
25 17 0.09
26 5 0.03
27 8 0.04
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (23 bp):
TATTATTTAAATTTATCATATAT
Found at i:12435572 original size:19 final size:18
Alignment explanation
Indices: 12435517--12435579 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 18
12435507 TAATAATGAT
12435517 TAAAT-TATTTTATTATA
1 TAAATATATTTTATTATA
*
12435534 TAAAAATATTTTA--A-A
1 TAAATATATTTTATTATA
12435549 T--ATATATTTTATTAGTA
1 TAAATATATTTTATTA-TA
12435566 TAAATATAATTTTA
1 TAAATAT-ATTTTA
12435580 ATTCTTACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
13 9 0.25
15 3 0.08
16 1 0.03
17 6 0.17
18 7 0.19
19 4 0.11
20 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TAAATATATTTTATTATA
Found at i:12435830 original size:13 final size:13
Alignment explanation
Indices: 12435812--12435836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12435802 TTAAACTCGT
12435812 ATACACATTTTTC
1 ATACACATTTTTC
12435825 ATACACATTTTT
1 ATACACATTTTT
12435837 AATTGAGTTT
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:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
ATACACATTTTTC
Found at i:12446555 original size:42 final size:42
Alignment explanation
Indices: 12446503--12446596 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
12446493 TGCACAGTTG
* * *
12446503 GCAGAAAAGCGCGTCCAGCTGAATGCGTTTTCCTTTGAGTAT
1 GCAGGAAAGCGCATCCAGCTGAATGCGTTTTCCTTTGAGCAT
*
12446545 GCAGGAAAGCGTATCCAGCTGAATGCGTTTTCCTTTGAGCAT
1 GCAGGAAAGCGCATCCAGCTGAATGCGTTTTCCTTTGAGCAT
12446587 GCAGGAAAGC
1 GCAGGAAAGC
12446597 CTATCCAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (42 bp):
GCAGGAAAGCGCATCCAGCTGAATGCGTTTTCCTTTGAGCAT
Found at i:12446602 original size:42 final size:42
Alignment explanation
Indices: 12446516--12446603 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
12446506 GAAAAGCGCG
* *
12446516 TCCAGCTGAATGCGTTTTCCTTTGAGTATGCAGGAAAGCGTA
1 TCCAGCTGAATGCGTTTTCCTTTGAGCATGCAGGAAAGCCTA
12446558 TCCAGCTGAATGCGTTTTCCTTTGAGCATGCAGGAAAGCCTA
1 TCCAGCTGAATGCGTTTTCCTTTGAGCATGCAGGAAAGCCTA
12446600 TCCA
1 TCCA
12446604 ACTGGATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (42 bp):
TCCAGCTGAATGCGTTTTCCTTTGAGCATGCAGGAAAGCCTA
Found at i:12450095 original size:10 final size:9
Alignment explanation
Indices: 12450062--12450096 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
12450052 TGTGACCCCT
12450062 ATTTTCAAA
1 ATTTTCAAA
12450071 ATTTTCAAA
1 ATTTTCAAA
12450080 ATTTTCTAAA
1 ATTTTC-AAA
*
12450090 ACTTTCA
1 ATTTTCA
12450097 GTTTTGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTTTCAAA
Found at i:12452886 original size:18 final size:18
Alignment explanation
Indices: 12452863--12452898 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12452853 GTCGATGGTA
12452863 GGTTGTAT-TTTTGTAATG
1 GGTTGTATGTTTTG-AATG
12452881 GGTTGTATGTTTTGAATG
1 GGTTGTATGTTTTGAATG
12452899 ATTTGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (18 bp):
GGTTGTATGTTTTGAATG
Found at i:12457859 original size:16 final size:16
Alignment explanation
Indices: 12457813--12457863 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
12457803 CTATAGAAAG
* *
12457813 TTCCATCCTTCTAGTT
1 TTCCATCCTTCCAATT
*
12457829 TTCTATACCTT-CAATT
1 TTCCAT-CCTTCCAATT
12457845 TTCCATCCTTCCAATT
1 TTCCATCCTTCCAATT
12457861 TTC
1 TTC
12457864 TTTCCACTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.18, C:0.31, G:0.02, T:0.49
Consensus pattern (16 bp):
TTCCATCCTTCCAATT
Found at i:12459802 original size:21 final size:21
Alignment explanation
Indices: 12459772--12459860 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
12459762 CTCACAAAGA
*
12459772 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTGACTTAGAC
* * *
12459792 AAAAAGAGAAGCGACTTGGGC
1 AAAAAGAGAAGTGACTTAGAC
* *
12459813 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTGACTTAGAC
12459834 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTGACTTAGAC
12459858 AAA
1 AAA
12459861 TCTTTTTTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 6 0.11
21 34 0.61
23 1 0.02
24 15 0.27
ACGTcount: A:0.52, C:0.10, G:0.26, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTGACTTAGAC
Found at i:12464903 original size:26 final size:26
Alignment explanation
Indices: 12464874--12464957 Score: 98
Period size: 26 Copynumber: 3.2 Consensus size: 26
12464864 GCCAACACAC
12464874 CAGTATCGCAGTAAAGCTGCCAGTAA
1 CAGTATCGCAGTAAAGCTGCCAGTAA
* * *
12464900 CAGTATCGCAGCAAAGTTGCCAATAA
1 CAGTATCGCAGTAAAGCTGCCAGTAA
* * *
12464926 CAGTATTGCA-TCAAAGCTTCTAGTAA
1 CAGTATCGCAGT-AAAGCTGCCAGTAA
12464952 CAGTAT
1 CAGTAT
12464958 ACTTCCTCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (26 bp):
CAGTATCGCAGTAAAGCTGCCAGTAA
Found at i:12468078 original size:271 final size:269
Alignment explanation
Indices: 12467576--12468103 Score: 762
Period size: 271 Copynumber: 2.0 Consensus size: 269
12467566 AAGTATAGGG
*
12467576 AGGTATATTTCCTAACCTTCCACTCAAAAAATCTAAATCTGAGTAGTATTTAGCTTTCAAAGTAC
1 AGGTATATTTCCTAACATTCCACTCAAAAAATCTAAATCTGAGTAGTATTTAGCTTTCAAAGTAC
12467641 GTGCAAGTAATGAATTGGGAAAATTAATCAACCTCCAAACTTATTTTGCAAATAAAGATAAATTG
66 GTGCAAGTAATGAATTGGGAAAATTAATCAACCTCCAAACTTATTTTGCAAATAAAGATAAATTG
* *
12467706 AATTTAGCTAAACTGCAAAAACCCAAACTCCCATTTTCCTTCAATTGACATAACTTCCTCCATTC
131 AATTTAGCTAAACTACAAAAACCCAAACTCCCATTTTCCTTCAATTCACATAACTTCCTCCATTC
*
12467771 GCACAAATGAATTCCCCTCTTACCATGACATTTTTGCCCACAAAAAATTC-TCACAAATACTCTT
196 ACACAAATGAATTCCCCTC-TACCATGACATTTTTG-CCACAAAAAATTCAT-ACAAATACTCTT
12467835 TCAGGGATAAAA
258 TCAGGGATAAAA
* * *
12467847 AGGTATATTTCCTAACATTGCATTCATAAAATCTAAATCT-AGGTAGTATTTAGCTTTCAAAGTA
1 AGGTATATTTCCTAACATTCCACTCAAAAAATCTAAATCTGA-GTAGTATTTAGCTTTCAAAGTA
* * * *
12467911 CTTGCAAGTAATGAATTGGGAAAATTAATCAACCTCCTCCAACCTTGTTTTGCAAGTAAAGATAA
65 CGTGCAAGTAATGAATTGGGAAAATTAATCAA---CCTCCAAACTTATTTTGCAAATAAAGATAA
* * *
12467976 ATTGATTTTAGCTAAACTACGAAAACCCAAAC-CCCTATTTTCCTTCAATTCACATAACTTCCTT
127 ATTGAATTTAGCTAAACTACAAAAACCCAAACTCCC-ATTTTCCTTCAATTCACATAACTTCCTC
* * * * *
12468040 CATTCACACCAATGTA-TCCCACTC-A-TATGACCTTTTTGCCACCAAAAATTCATACAAATACT
191 CATTCACACAAATGAATTCCC-CTCTACCATGACATTTTTGCCACAAAAAATTCATACAAATACT
12468102 CT
255 CT
12468104 CCATTTCATG
Statistics
Matches: 231, Mismatches: 19, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
270 24 0.10
271 101 0.44
272 1 0.00
273 7 0.03
274 98 0.42
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (269 bp):
AGGTATATTTCCTAACATTCCACTCAAAAAATCTAAATCTGAGTAGTATTTAGCTTTCAAAGTAC
GTGCAAGTAATGAATTGGGAAAATTAATCAACCTCCAAACTTATTTTGCAAATAAAGATAAATTG
AATTTAGCTAAACTACAAAAACCCAAACTCCCATTTTCCTTCAATTCACATAACTTCCTCCATTC
ACACAAATGAATTCCCCTCTACCATGACATTTTTGCCACAAAAAATTCATACAAATACTCTTTCA
GGGATAAAA
Found at i:12473458 original size:6 final size:6
Alignment explanation
Indices: 12473442--12473473 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
12473432 ACACATTATA
12473442 GGAGA- GGAGAG GGAGAG GGAGAG GGAGAG GGA
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGA
12473474 TGGGTGGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:12474946 original size:28 final size:28
Alignment explanation
Indices: 12474902--12475043 Score: 117
Period size: 28 Copynumber: 4.9 Consensus size: 28
12474892 GGTTTTGGAG
*
12474902 AAAATAATTTA-AGGTTTAAGGTTTTTAA
1 AAAATAAATTAGA-GTTTAAGGTTTTTAA
*
12474930 AAAATAAATTAGAGTTTATGGTTTTTCTAAA
1 AAAATAAATTAGAGTTTAAGG-TTTT-T-AA
* **
12474961 ATAAATTAAATTAGGGTTTATTGTTTTTAA
1 A-AAA-TAAATTAGAGTTTAAGGTTTTTAA
* *
12474991 AAAATAAATTAGGGTTTATAGATTTTT-A
1 AAAATAAATTAGAGTTTA-AGGTTTTTAA
* * *
12475019 AAAATAAATTTGTGTTTAGGGTTTT
1 AAAATAAATTAGAGTTTAAGGTTTT
12475044 AGGGTTTTCG
Statistics
Matches: 96, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
27 5 0.05
28 48 0.50
29 13 0.14
30 4 0.04
31 4 0.04
32 7 0.07
33 15 0.16
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.45
Consensus pattern (28 bp):
AAAATAAATTAGAGTTTAAGGTTTTTAA
Found at i:12474974 original size:33 final size:33
Alignment explanation
Indices: 12474934--12475001 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
12474924 TTTTAAAAAA
**
12474934 TAAATTAGAGTTTATGGTTTTTCTAAAATAAAT
1 TAAATTAGAGTTTATGGTTTTTAAAAAATAAAT
* *
12474967 TAAATTAGGGTTTATTGTTTTTAAAAAATAAAT
1 TAAATTAGAGTTTATGGTTTTTAAAAAATAAAT
12475000 TA
1 TA
12475002 GGGTTTATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.46
Consensus pattern (33 bp):
TAAATTAGAGTTTATGGTTTTTAAAAAATAAAT
Found at i:12475398 original size:25 final size:25
Alignment explanation
Indices: 12475369--12475432 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
12475359 ACAGAATGAT
*
12475369 AAATTAGAGAAGTTTAGAAGAATAG
1 AAATTAGAGAAGTTCAGAAGAATAG
* *
12475394 AAATTAAAGAAGTTCAGAAGAATAT
1 AAATTAGAGAAGTTCAGAAGAATAG
12475419 AAATT-GAAGAAGTT
1 AAATTAG-AGAAGTT
12475433 GATAAGGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.53, C:0.02, G:0.20, T:0.25
Consensus pattern (25 bp):
AAATTAGAGAAGTTCAGAAGAATAG
Found at i:12478600 original size:59 final size:59
Alignment explanation
Indices: 12478424--12478615 Score: 230
Period size: 61 Copynumber: 3.2 Consensus size: 59
12478414 TCTATTGCCT
* *
12478424 TATTCAAAAGAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAA-TT-TACCATTAAAA
1 TATT-AAAAAAACTTCTATTTTATTAAATA-GACAAAATATAAAAATAATTTGTA-CA--AATA
* *
12478486 TATTAAAACAACTTCTATTTTATTAAATAGGACAAATTATAAAAATAATTTGTACAAATA
1 TATTAAAAAAACTTCTATTTTATTAAATA-GACAAAATATAAAAATAATTTGTACAAATA
* *
12478546 TATTCAAAAAAACTTCCATTTTATTAAAT-GA-AACAATATAAAAACAATTTGTACAAATA
1 TATT-AAAAAAACTTCTATTTTATTAAATAGACAA-AATATAAAAATAATTTGTACAAATA
12478605 TATTAAAAAAA
1 TATTAAAAAAA
12478616 TAATGCATGT
Statistics
Matches: 119, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
58 9 0.08
59 29 0.24
60 7 0.06
61 64 0.54
62 8 0.07
63 2 0.02
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (59 bp):
TATTAAAAAAACTTCTATTTTATTAAATAGACAAAATATAAAAATAATTTGTACAAATA
Found at i:12478990 original size:18 final size:18
Alignment explanation
Indices: 12478967--12479002 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12478957 GGAAAAAGAA
*
12478967 ACATATAAGGGTTAGGAT
1 ACATATAAGGGATAGGAT
12478985 ACATATAAGGGATAGGAT
1 ACATATAAGGGATAGGAT
12479003 GCGCACCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (18 bp):
ACATATAAGGGATAGGAT
Found at i:12480832 original size:11 final size:11
Alignment explanation
Indices: 12480770--12480833 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
12480760 AGAGAGCTTT
12480770 AAGAAATTTAG
1 AAGAAATTTAG
12480781 AGAGAAATTT-G
1 A-AGAAATTTAG
***
12480792 AGAGCTTTTTA-
1 A-AGAAATTTAG
12480803 AAGAAATTTAG
1 AAGAAATTTAG
*
12480814 ATAGAAATTTGG
1 A-AGAAATTTAG
12480826 AAGAAATT
1 AAGAAATT
12480834 AAAGGAAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
10 6 0.14
11 18 0.43
12 18 0.43
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (11 bp):
AAGAAATTTAG
Found at i:12485472 original size:42 final size:42
Alignment explanation
Indices: 12485359--12485528 Score: 128
Period size: 43 Copynumber: 4.0 Consensus size: 42
12485349 CAAAAAGCTC
* * * ***
12485359 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
* * * *
12485401 ATAACGATGCCACTGCCCCAGACAGGGTCTTACACAAAATCAT
1 AT-ACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
* **
12485444 ATACGATGCCAATGTCCCGGACATGGTCTTACATGTAAATCGCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACA-CAAAAT--CAA
* ** *
12485489 AT-TGATGCCAACT-TCCCAGACGCGGTCTTACACAATATCA
1 ATACGATGCCAA-TGTCCCAGACATGGTCTTACACAAAATCA
12485529 CATATCAGAT
Statistics
Matches: 99, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.02
42 29 0.29
43 39 0.39
44 24 0.24
45 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
Found at i:12485519 original size:86 final size:84
Alignment explanation
Indices: 12485359--12485528 Score: 202
Period size: 85 Copynumber: 2.0 Consensus size: 84
12485349 CAAAAAGCTC
*
12485359 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACGATGCCACTGCCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAAT-ACGATGCCACTGCCCCAGAC
12485424 AGGGTCTTACACAAAATCAT
65 AGGGTCTTACACAAAATCAT
* * * * *
12485444 ATACGATGCCAATGTCCCGGACATGGTCTTACATGTAAATCGCAAAT-TGATGCCAACT-TCCCA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACATGT-AAT--CAAATACGATGCC-ACTGCCCCA
*
12485507 GAC-GCGGTCTTACACAATATCA
62 GACAG-GGTCTTACACAAAATCA
12485529 CATATCAGAT
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
85 33 0.45
86 32 0.44
87 3 0.04
88 5 0.07
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (84 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATACGATGCCACTGCCCCAGACA
GGGTCTTACACAAAATCAT
Found at i:12491878 original size:28 final size:28
Alignment explanation
Indices: 12491820--12491879 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
12491810 TACTGCATAA
*
12491820 TGTTACTGTATTGGGCTAAGGCCCACCT
1 TGTTACTGTATTGGGCTAAGGCCCACAT
* *
12491848 TGTTTCTGTATTGGGCTGAA-GCCTACAT
1 TGTTACTGTATTGGGCT-AAGGCCCACAT
12491876 TGTT
1 TGTT
12491880 CTATTCTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (28 bp):
TGTTACTGTATTGGGCTAAGGCCCACAT
Found at i:12502301 original size:31 final size:32
Alignment explanation
Indices: 12502261--12502323 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
12502251 GTATGCATTT
12502261 AATTAATTTTT-AAAATTAAAAAATTATATAAA
1 AATTAATTTTTAAAAATTAAAAAATTAT-TAAA
12502293 AATT-ATTTTTAAAAATTAAAAAATTATTAAA
1 AATTAATTTTTAAAAATTAAAAAATTATTAAA
12502324 GTCATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 10 0.33
32 20 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
AATTAATTTTTAAAAATTAAAAAATTATTAAA
Found at i:12503612 original size:23 final size:23
Alignment explanation
Indices: 12503586--12503648 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
12503576 ATTTTTAATT
12503586 TATTAAATAATAGATTTTTACAA
1 TATTAAATAATAGATTTTTACAA
* *
12503609 TATTAAA-AATATGCTTTTTACTA
1 TATTAAATAATA-GATTTTTACAA
*
12503632 -ATTAAATGATA-ATTTTT
1 TATTAAATAATAGATTTTT
12503649 CTAATTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 5 0.15
22 10 0.29
23 19 0.56
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (23 bp):
TATTAAATAATAGATTTTTACAA
Found at i:12503973 original size:63 final size:64
Alignment explanation
Indices: 12503897--12504023 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
12503887 TTATATAATC
* ** * *
12503897 GTCATTGTCATTTGAATATGTCTTGT-GTTTTCTTAAATTATTGCTTTAATGCTTTAATAAAAT
1 GTCATTATCATTTGAATATGAATTGTGGTTTTCTCAAATTATTACTTTAATGCTTTAATAAAAT
*
12503960 GTCATTATTATTTGAATATGAATTGTGGTTTTCTCAAATTATTACTTTAATGCTTTAATAAAAT
1 GTCATTATCATTTGAATATGAATTGTGGTTTTCTCAAATTATTACTTTAATGCTTTAATAAAAT
12504024 ATCTAATCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
63 22 0.39
64 35 0.61
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.50
Consensus pattern (64 bp):
GTCATTATCATTTGAATATGAATTGTGGTTTTCTCAAATTATTACTTTAATGCTTTAATAAAAT
Found at i:12504420 original size:26 final size:26
Alignment explanation
Indices: 12504386--12504440 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
12504376 AATATATTTA
12504386 TCATATGGGTTATAAGTTAAATTCAG
1 TCATATGGGTTATAAGTTAAATTCAG
* *
12504412 TCATGTGGGTTATAAGTTAAATTTAG
1 TCATATGGGTTATAAGTTAAATTCAG
12504438 TCA
1 TCA
12504441 ATTAATGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (26 bp):
TCATATGGGTTATAAGTTAAATTCAG
Found at i:12513963 original size:18 final size:17
Alignment explanation
Indices: 12513893--12513967 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 17
12513883 TCAAAATATT
12513893 ATAATAAAT--TTATAAA
1 ATAATAAATAATT-TAAA
12513909 ATAATTAAA-AATTTAGAA
1 ATAA-TAAATAATTTA-AA
*
12513927 ATATACAAATAATTTTAAA
1 ATA-ATAAATAA-TTTAAA
12513946 ATACATAAATAATTT-AA
1 ATA-ATAAATAATTTAAA
12513963 ATAAT
1 ATAAT
12513968 TTATTTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
16 6 0.12
17 11 0.22
18 13 0.27
19 15 0.31
20 4 0.08
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (17 bp):
ATAATAAATAATTTAAA
Found at i:12516055 original size:12 final size:12
Alignment explanation
Indices: 12516032--12516065 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12516022 ACATTTACAA
12516032 AACAACATAAAAT
1 AACAA-ATAAAAT
12516045 AACAAATAAAAT
1 AACAAATAAAAT
*
12516057 AACATATAA
1 AACAAATAA
12516066 CATATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (12 bp):
AACAAATAAAAT
Found at i:12516527 original size:24 final size:24
Alignment explanation
Indices: 12516500--12516551 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12516490 TTAGTAAGTC
*
12516500 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
12516524 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
12516548 AAAT
1 AAAT
12516552 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:12519584 original size:67 final size:67
Alignment explanation
Indices: 12519491--12519814 Score: 463
Period size: 67 Copynumber: 4.8 Consensus size: 67
12519481 CATAGCTCGA
* * * * * *
12519491 CTATGACAACATAGAGAG-TCCACCAGGACAGTAAACATGGGGTAAAATGTTTAAGACCGTAGCT
1 CTATGGCAACATAAAGAGCT-CGCCAGGACATTAAACATGGGGTAAAATGTGTAAGATCGTAGCT
12519555 TAG
65 TAG
12519558 CTATGGCAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAATGTGTAAGATCGTAGCTT
1 CTATGGCAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAATGTGTAAGATCGTAGCTT
12519623 AG
66 AG
12519625 CTATGGCAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAATGTGTAAGATCGTAGCTT
1 CTATGGCAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAATGTGTAAGATCGTAGCTT
12519690 AG
66 AG
* * * *
12519692 CTATGGCAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAGATGTATAAGATCATAGCTC
1 CTATGGCAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAATGTGTAAGATCGTAGCTT
*
12519757 AA
66 AG
* * * * **
12519759 CTATGGAAACATAGAGAG-TCCGCTAAGACATTAAACATGGGGTATGATGTGTAAGA
1 CTATGGCAACATAAAGAGCT-CGCCAGGACATTAAACATGGGGTAAAATGTGTAAGA
12519815 CTATAGCTCG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
66 1 0.00
67 236 0.99
68 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (67 bp):
CTATGGCAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAATGTGTAAGATCGTAGCTT
AG
Found at i:12523581 original size:23 final size:25
Alignment explanation
Indices: 12523517--12523605 Score: 107
Period size: 24 Copynumber: 3.8 Consensus size: 25
12523507 AATATTGCAA
*
12523517 AAAGTGCCACATTTTGATT-GCATC
1 AAAGTGCCACATTTTCATTCGCATC
* *
12523541 AAAGTGTCACA-TTTCATTCGCACC
1 AAAGTGCCACATTTTCATTCGCATC
12523565 AAAGTG-C-CATTTTCATTCGCATC
1 AAAGTGCCACATTTTCATTCGCATC
*
12523588 AAAGTGCCATA-TTTCATT
1 AAAGTGCCACATTTTCATT
12523606 TGTGCGTATA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
22 2 0.04
23 25 0.45
24 28 0.50
25 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (25 bp):
AAAGTGCCACATTTTCATTCGCATC
Found at i:12526692 original size:14 final size:14
Alignment explanation
Indices: 12526673--12526706 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
12526663 AAAGATGAAA
12526673 AGGTTATAGAATAC
1 AGGTTATAGAATAC
12526687 AGGTTATAGAATAC
1 AGGTTATAGAATAC
12526701 AGGTTA
1 AGGTTA
12526707 AAGCCCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (14 bp):
AGGTTATAGAATAC
Found at i:12526822 original size:44 final size:45
Alignment explanation
Indices: 12526771--12527012 Score: 298
Period size: 44 Copynumber: 5.5 Consensus size: 45
12526761 TTATATTTAG
* * * *
12526771 CAGGTACTATGTACCGA-TGTTGGCTATTTGTCATTTATACGCAA
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
* * *
12526815 CAAGTACTATGT-GCTAGTGTTGGCTATGTGCCATTTATATGCAA
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
* *
12526859 CAGGTACTATGCATCG-GTGTTGGCTATGTGTCATTTATATGCAA
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
* * *
12526903 CAGGTACTATGTA-CCAGTGTTGGCTATGTGCCATTTATATGTAG
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
* * *
12526947 CAAGTAATATGTATC-AGTGTTGGCTATGTGCCATTTATATGCAG
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
*
12526991 CAGGTACTATGTATTGA-TGTTG
1 CAGGTACTATGTATCGAGTGTTG
12527013 TAGTAGCAGA
Statistics
Matches: 171, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.02
44 165 0.96
45 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (45 bp):
CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
Found at i:12526910 original size:88 final size:88
Alignment explanation
Indices: 12526771--12527003 Score: 331
Period size: 88 Copynumber: 2.6 Consensus size: 88
12526761 TTATATTTAG
* * * * * * *
12526771 CAGGTACTATGTACCGATGTTGGCTATTTGTCATTTATACGCAACAAGTACTATGTGCTAGTGTT
1 CAGGTACTATGTATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTACCAGTGTT
12526836 GGCTATGTGCCATTTATATGCAA
66 GGCTATGTGCCATTTATATGCAA
*
12526859 CAGGTACTATGCATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTACCAGTGTT
1 CAGGTACTATGTATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTACCAGTGTT
* *
12526924 GGCTATGTGCCATTTATATGTAG
66 GGCTATGTGCCATTTATATGCAA
* * * * *
12526947 CAAGTAATATGTATCAGTGTTGGCTATGTGCCATTTATATGCAGCAGGTACTATGTA
1 CAGGTACTATGTATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTA
12527004 TTGATGTTGT
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 129 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (88 bp):
CAGGTACTATGTATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTACCAGTGTT
GGCTATGTGCCATTTATATGCAA
Found at i:12527012 original size:132 final size:132
Alignment explanation
Indices: 12526771--12527012 Score: 353
Period size: 132 Copynumber: 1.8 Consensus size: 132
12526761 TTATATTTAG
* * *
12526771 CAGGTACTATGTACCGATGTTGGCTATTTGTCATTTATACGCAACAAGTACTATGTGCTAGTGTT
1 CAGGTACTATGTACCGATGTTGGCTATGTGCCATTTATACGCAACAAGTAATATGTGCTAGTGTT
*
12526836 GGCTATGTGCCATTTATATGCAACAGGTACTATGCATCGGTGTTGGCTATGTGTCATTTATATGC
66 GGCTATGTGCCATTTATATGCAACAGGTACTATGCATCGATGTTGGCTATGTGTCATTTATATGC
12526901 AA
131 AA
* * * *
12526903 CAGGTACTATGTACC-AGTGTTGGCTATGTGCCATTTATATGTAGCAAGTAATATGT-ATCAGTG
1 CAGGTACTATGTACCGA-TGTTGGCTATGTGCCATTTATACGCAACAAGTAATATGTGCT-AGTG
* * *
12526966 TTGGCTATGTGCCATTTATATGCAGCAGGTACTATGTATTGATGTTG
64 TTGGCTATGTGCCATTTATATGCAACAGGTACTATGCATCGATGTTG
12527013 TAGTAGCAGA
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
131 2 0.02
132 95 0.98
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (132 bp):
CAGGTACTATGTACCGATGTTGGCTATGTGCCATTTATACGCAACAAGTAATATGTGCTAGTGTT
GGCTATGTGCCATTTATATGCAACAGGTACTATGCATCGATGTTGGCTATGTGTCATTTATATGC
AA
Found at i:12551535 original size:21 final size:18
Alignment explanation
Indices: 12551496--12551545 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
12551486 TATATTATAA
12551496 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
12551514 TATTAATTATTAAAGTAT
1 TATTAATTAATAAAATAT
12551532 TATT-ATTAATAAAA
1 TATTAATTAATAAAA
12551546 ATATCATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:12559958 original size:20 final size:23
Alignment explanation
Indices: 12559929--12559969 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
12559919 AATGAAATAG
12559929 ATTTTAGTAA-AATTA-AACACA
1 ATTTTAGTAACAATTATAACACA
12559950 ATTTT-GTAACAATTATAACA
1 ATTTTAGTAACAATTATAACA
12559970 TAAATAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (23 bp):
ATTTTAGTAACAATTATAACACA
Found at i:12560797 original size:22 final size:22
Alignment explanation
Indices: 12560762--12560813 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
12560752 CTGAGAGAGG
* *
12560762 AGATGATTGTGGGATGATTGAA
1 AGATGCTTGAGGGATGATTGAA
12560784 AGATGCTTGAGGGATGATTGAA
1 AGATGCTTGAGGGATGATTGAA
12560806 AGATGCTT
1 AGATGCTT
12560814 TAAGGATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.35, T:0.31
Consensus pattern (22 bp):
AGATGCTTGAGGGATGATTGAA
Found at i:12560820 original size:22 final size:22
Alignment explanation
Indices: 12560773--12560820 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
12560763 GATGATTGTG
*
12560773 GGATGATTGAAAGATGCTTGAG
1 GGATGATTGAAAGATGCTTGAA
*
12560795 GGATGATTGAAAGATGCTTTAA
1 GGATGATTGAAAGATGCTTGAA
12560817 GGAT
1 GGAT
12560821 CATTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.29
Consensus pattern (22 bp):
GGATGATTGAAAGATGCTTGAA
Found at i:12569308 original size:27 final size:27
Alignment explanation
Indices: 12569035--12569299 Score: 347
Period size: 27 Copynumber: 9.9 Consensus size: 27
12569025 ATTATGAGCA
* *
12569035 AAATACCTCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
12569062 AAATACCCCCATAGGGTAGAATTACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
12569089 AAATACCTCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
12569116 AAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
12569143 AAATACCCCCATAGGGTAAAATAATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
12569170 AAATACCTCTATAGGGT-AAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * * * *
12569196 AAATATCTCCATAGGATAGAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
*
12569223 AAATACCCCCATAGGG-AAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
12569249 AAATA-CCCCATAGGGTAAAATAACTG
1 AAATACCCCCATAGGGTAAAATGACCG
12569275 AAATACCCCCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
12569300 TGTTATACCT
Statistics
Matches: 206, Mismatches: 29, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
25 10 0.05
26 47 0.23
27 149 0.72
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:12575893 original size:31 final size:32
Alignment explanation
Indices: 12575858--12575918 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
12575848 AAAAACACTT
* *
12575858 AATAGCTCAGTGACTTAAATAAAAA-TTTTCA
1 AATAGCTCAATAACTTAAATAAAAACTTTTCA
*
12575889 AATAGTTCAATAACTTAAATAAAAACTTTT
1 AATAGCTCAATAACTTAAATAAAAACTTTT
12575919 GAATAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (32 bp):
AATAGCTCAATAACTTAAATAAAAACTTTTCA
Found at i:12575929 original size:31 final size:31
Alignment explanation
Indices: 12575870--12575931 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
12575860 TAGCTCAGTG
*
12575870 ACTTAAATAAAAATTTTCAAATAGTTCAATA
1 ACTTAAATAAAAATTTTCAAATAATTCAATA
*
12575901 ACTTAAATAAAAACTTTT-GAATAATTCAATA
1 ACTTAAATAAAAA-TTTTCAAATAATTCAATA
12575932 GCTATTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (31 bp):
ACTTAAATAAAAATTTTCAAATAATTCAATA
Found at i:12581229 original size:30 final size:31
Alignment explanation
Indices: 12581177--12581282 Score: 128
Period size: 30 Copynumber: 3.5 Consensus size: 31
12581167 TGGTTGACAC
** *
12581177 ATCCCTTTCCATAATTCAATAGCT-AAGACT
1 ATCCCTTTTAATAATTCGATAGCTGAAGACT
* *
12581207 ATCCATTTTAATGATTCGATAGCTGAA-ACT
1 ATCCCTTTTAATAATTCGATAGCTGAAGACT
*
12581237 ATCCCTTTTCATAATTCGATAGCTGAAG-CT
1 ATCCCTTTTAATAATTCGATAGCTGAAGACT
*
12581267 ATCCCTTTTCATAATT
1 ATCCCTTTTAATAATT
12581283 TTGATGGTCG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
30 64 0.97
31 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (31 bp):
ATCCCTTTTAATAATTCGATAGCTGAAGACT
Found at i:12581305 original size:31 final size:30
Alignment explanation
Indices: 12581267--12581429 Score: 129
Period size: 30 Copynumber: 5.4 Consensus size: 30
12581257 AGCTGAAGCT
*
12581267 ATCCCTTTTCATAATTTTGATGGTCGTCACC
1 ATCCCTTTTCAT-ATTTTGATAGTCGTCACC
*
12581298 ATCCCTTTTCAT-TGTTGATAGTCGTCACC
1 ATCCCTTTTCATATTTTGATAGTCGTCACC
* * *
12581327 ATCCCTTTTCAGATTTTGATAG-C-TAGAGCT
1 ATCCCTTTTCATATTTTGATAGTCGT-CA-CC
* * * * *
12581357 ATCCCTTTTCATGA-TTCGGTAGCCG-AAGCT
1 ATCCCTTTTCAT-ATTTTGATAGTCGTCA-CC
* *
12581387 ACCCCTTTTCATATTTTTTATAGTCGTCACC
1 ATCCCTTTTCATA-TTTTGATAGTCGTCACC
12581418 ATCCCTTTTCAT
1 ATCCCTTTTCAT
12581430 TGGTTGATAA
Statistics
Matches: 105, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
28 1 0.01
29 29 0.28
30 41 0.39
31 33 0.31
32 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATATTTTGATAGTCGTCACC
Found at i:12583398 original size:26 final size:23
Alignment explanation
Indices: 12583368--12583418 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
12583358 AGAAAAAGAT
12583368 AAATGAAAGAGATTTGAAAGTTGGAG
1 AAATGAAAGAGA--T-AAAGTTGGAG
*
12583394 AAATGAAGGAGATAAAGTTGGAG
1 AAATGAAAGAGATAAAGTTGGAG
12583417 AA
1 AA
12583419 GGCAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 12 0.50
24 1 0.04
26 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.20
Consensus pattern (23 bp):
AAATGAAAGAGATAAAGTTGGAG
Found at i:12584658 original size:13 final size:13
Alignment explanation
Indices: 12584640--12584673 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
12584630 ATTGAGCTAT
12584640 GGAACATGAGAAA
1 GGAACATGAGAAA
12584653 GGAACATGAGAAA
1 GGAACATGAGAAA
*
12584666 AGAACATG
1 GGAACATG
12584674 GTCCAAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.29, T:0.09
Consensus pattern (13 bp):
GGAACATGAGAAA
Found at i:12585800 original size:6 final size:6
Alignment explanation
Indices: 12585782--12585825 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
12585772 TGCAAATGAA
*
12585782 TCATTT CTCATTT TCATTT TCATTT TCA-TT TCTATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TC-ATTT TCATTT T
12585826 GAGAAAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 4 0.12
6 20 0.61
7 9 0.27
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (6 bp):
TCATTT
Found at i:12589760 original size:20 final size:20
Alignment explanation
Indices: 12589735--12589775 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12589725 GCTCGTCTAG
*
12589735 AATACTACCAGCTTGTTTGC
1 AATACTACCAGCTTATTTGC
*
12589755 AATACTACCAGTTTATTTGC
1 AATACTACCAGCTTATTTGC
12589775 A
1 A
12589776 TTATTGGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (20 bp):
AATACTACCAGCTTATTTGC
Found at i:12589854 original size:40 final size:40
Alignment explanation
Indices: 12589766--12589875 Score: 112
Period size: 40 Copynumber: 2.8 Consensus size: 40
12589756 ATACTACCAG
* ***
12589766 TTTATTTGCATTATTGGTGGCTTGTCCACATTGCTGGCAA
1 TTTATCTGCATTATTGGTGGCTTGTCCACATTGCTAAAAA
* ** * *
12589806 CTCGTCTGCAATATTGGTGGCTTGTCCACATTTCTAAAAA
1 TTTATCTGCATTATTGGTGGCTTGTCCACATTGCTAAAAA
* * *
12589846 TTTATCTGCATTACTGCTGGCTTATCCACA
1 TTTATCTGCATTATTGGTGGCTTGTCCACA
12589876 AATTGGTGTG
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (40 bp):
TTTATCTGCATTATTGGTGGCTTGTCCACATTGCTAAAAA
Found at i:12598459 original size:12 final size:12
Alignment explanation
Indices: 12598442--12598467 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12598432 CTTAAGCTGG
12598442 GTAGGTGGTGGA
1 GTAGGTGGTGGA
12598454 GTAGGTGGTGGA
1 GTAGGTGGTGGA
12598466 GT
1 GT
12598468 TGGACAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.58, T:0.27
Consensus pattern (12 bp):
GTAGGTGGTGGA
Found at i:12599909 original size:27 final size:27
Alignment explanation
Indices: 12599739--12599900 Score: 220
Period size: 27 Copynumber: 6.0 Consensus size: 27
12599729 CAAATAATCA
12599739 AATTACCCCCGAAGGGTAAAATGACTG
1 AATTACCCCCGAAGGGTAAAATGACTG
*
12599766 AATTAACCCCGAAGGGTAAAATGACTG
1 AATTACCCCCGAAGGGTAAAATGACTG
* * *
12599793 AATTACCCCTGAAAGGTAAAATGACCG
1 AATTACCCCCGAAGGGTAAAATGACTG
*
12599820 AATTACCCCCGAAGGGTAAAATGA-TCA
1 AATTACCCCCGAAGGGTAAAATGACT-G
* *
12599847 AATTACCCCCGAAGGGTAAAATAACCG
1 AATTACCCCCGAAGGGTAAAATGACTG
*
12599874 AAATACCCCC-ATAGGGTAAAATGACTG
1 AATTACCCCCGA-AGGGTAAAATGACTG
12599901 TTATACCCCT
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 116 0.99
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (27 bp):
AATTACCCCCGAAGGGTAAAATGACTG
Done.