Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008484.1 Hibiscus syriacus cultivar Beakdansim tig00111318_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 688492
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:377442 original size:52 final size:52
Alignment explanation
Indices: 377348--377446 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
377338 AAATATATTT
**
377348 TTTTTATTAGAAATTGTCATCATGACATGACAAAATTTAATAAAAAAATACA
1 TTTTTATTAGAAATCATCATCATGACATGACAAAATTTAATAAAAAAATACA
* *
377400 TTTTTATTAGAAATCATCAT-ATCGACGTGAC-GAATTTAAATAAAAAA
1 TTTTTATTAGAAATCATCATCAT-GACATGACAAAATTT-AATAAAAAA
377447 TATTATTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 7 0.17
52 34 0.83
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (52 bp):
TTTTTATTAGAAATCATCATCATGACATGACAAAATTTAATAAAAAAATACA
Found at i:381560 original size:44 final size:44
Alignment explanation
Indices: 381492--381579 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
381482 TTAACTTAAT
* *
381492 CTCTATGTTTACTTTTATTCGTTTTACTTACCCTAGTACCGGTA
1 CTCTATGTTTACTTTTATTAGTTTTACTTACCCAAGTACCGGTA
381536 CTCTATGTTTACTTTTATTAGTTTTACTTACCCAAGTACCGGTA
1 CTCTATGTTTACTTTTATTAGTTTTACTTACCCAAGTACCGGTA
381580 AACATTTAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (44 bp):
CTCTATGTTTACTTTTATTAGTTTTACTTACCCAAGTACCGGTA
Found at i:382182 original size:12 final size:13
Alignment explanation
Indices: 382165--382193 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
382155 CCTTTTCTTC
382165 AATA-TTAAAAAA
1 AATATTTAAAAAA
382177 AATATTTAAAAAA
1 AATATTTAAAAAA
382190 AATA
1 AATA
382194 CTATTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATATTTAAAAAA
Found at i:382222 original size:12 final size:12
Alignment explanation
Indices: 382205--382239 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
382195 TATTTATTAT
382205 ATATTT-ATAAAA
1 ATATTTAAT-AAA
382217 ATATTTAATAAA
1 ATATTTAATAAA
382229 ATATTTAATAA
1 ATATTTAATAA
382240 TATAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 20 0.91
13 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATTTAATAAA
Found at i:382305 original size:19 final size:18
Alignment explanation
Indices: 382277--382323 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
382267 ACAATATTTA
382277 AAAACAATAAAATAAATG
1 AAAACAATAAAATAAATG
382295 AAAACATATAAAATAAATG
1 AAAACA-ATAAAATAAATG
382314 AAAA-AATAAA
1 AAAACAATAAA
382324 TCAAAAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 16 0.57
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAACAATAAAATAAATG
Found at i:383620 original size:3 final size:3
Alignment explanation
Indices: 383614--383666 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
383604 ATTATTTATT
* *
383614 TAA TAA TAA TGA TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
383662 TAA TA
1 TAA TA
383667 TGGATAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:384116 original size:113 final size:113
Alignment explanation
Indices: 383984--385582 Score: 2159
Period size: 113 Copynumber: 14.2 Consensus size: 113
383974 AGTATCAAAC
*
383984 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
384049 ATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAAACA
66 ATGAACCTTCTCTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
*
384097 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * * *
384162 CATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACA
66 -ATGAACCTTCTCTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
* *
384211 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
384276 ATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACA
66 ATGAACCTTCTCTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
*
384324 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
384389 ATGAA-CTTATCTGGCAATGAATGATCCATCAAATGATGAATTTAAACA
66 ATGAACCTTCTCTGGCAAAG-ATAATCCATCAAGTGATGAATTCAAGCA
*
384437 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
384502 ATGAA-CTTATCTGGCAAAAATAATCCATCAAATGATGAATTTAAGCA
66 ATGAACCTTCTCTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
*
384549 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * **
384614 ATGAACTTTCTCTGG-AAATGCTGATCCATCGAA-TGATGGATTTGAGCA
66 ATGAACCTTCTCTGGCAAA-GATAATCCATC-AAGTGATGAATTCAAGCA
* *
384662 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
384727 ATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACA
66 ATGAACCTTCTCTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
* *
384775 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
384840 ATGAACTTTCTCTGG-AAATGTTAATCCATCAAGTGATGAATTCGAGCA
66 ATGAACCTTCTCTGGCAAA-GATAATCCATCAAGTGATGAATTCAAGCA
* * *
384888 AAAGGTTAAACAAGTTCTTCTCATTATTAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * * *
384952 ATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCA
66 ATGAACCTTCTCTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
385000 ACAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 A-AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * **
385064 TATGAACTTTCTCTGG-AAATGCTGATCCATCGAA-TGATGGATTTGAGCA
65 TATGAACCTTCTCTGGCAAA-GATAATCCATC-AAGTGATGAATTCAAGCA
* *
385113 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
385178 ATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAGCA
66 ATGAACCTTCTCTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
* *
385226 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
385290 ATGAACTTTCTCTGG-AAATGTTAATCCATCAAGTGATGAATTCGAGCA
66 ATGAACCTTCTCTGGCAAA-GATAATCCATCAAGTGATGAATTCAAGCA
* *
385338 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
385402 ATGAA-CTTCCTCTGGAAAAAATAATTCATCAAGTAATGAATTCAGGGA
66 ATGAACCTT-CTCTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
* *
385450 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * * ** *
385514 ATGAA-C-TCTAACTGACACTGCTGATCCACCGGGTGATGAATTTAAGCA
66 ATGAACCTTCT--CTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
*
385562 AAAAGTTGAACAAGTTCTTCT
1 AAAGGTTGAACAAGTTCTTCT
385583 TCTTCAAATG
Statistics
Matches: 1359, Mismatches: 106, Indels: 43
0.90 0.07 0.03
Matches are distributed among these distances:
110 2 0.00
111 5 0.00
112 486 0.36
113 755 0.56
114 111 0.08
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (113 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACCTTCTCTGGCAAAGATAATCCATCAAGTGATGAATTCAAGCA
Found at i:384682 original size:338 final size:337
Alignment explanation
Indices: 383984--385582 Score: 2370
Period size: 338 Copynumber: 4.7 Consensus size: 337
383974 AGTATCAAAC
*
383984 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
384049 ATGAACCTTCTCTGGCAA-AAATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATT
66 ATGAA-CTTCTCTGGCAATGAATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATT
*
384113 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCTCTGG
130 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT-ATGAAC-TTCTCTGG
* * * *
384178 CAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
193 CAATGATAATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
* * * * *
384243 TCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAA
258 TCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAA
*
384308 ATGATGAATTTAAACA
322 ATGATGAATTTAAGCA
*
384324 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
384389 ATGAACTTATCTGGCAATGAATGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTC
66 ATGAACTTCTCTGGCAATGAATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTC
* *
384454 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTATCTGGCAA
131 TTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAA
** *
384519 AAATAATCCATCAAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCT
196 TGATAATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCT
* *
384584 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAATG
261 TCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAAATG
* *
384649 ATGGATTTGAGCA
325 ATGAATTTAAGCA
* *
384662 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
384727 ATGAACCTTCTCTGGCAATG-ATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATT
66 ATGAA-CTTCTCTGGCAATGAATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATT
*
384791 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
130 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGC
* ** * * *
384856 AATGTTAATCCATCAAGTGATGAATTCGAGCAAAAGGTTAAACAAGTTCTTCTCATTATTAACTT
194 AATGATAATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTT
* *
384921 CTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
259 CTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAAAT
384986 GATGAATTTAAGCA
324 GATGAATTTAAGCA
385000 ACAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 A-AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * ** *
385064 TATGAACTTTCTCTGGAAATG-CTGATCCATCGAA-TGATGGATTTGAGCAAAAGGTTGAACAAA
65 TATGAAC-TTCTCTGGCAATGAATAATCCATC-AAGTGATGAATTCAAACAAAAGGTTGAACAAA
385127 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
128 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCTCTG
* * *
385192 GCAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAAC
192 GCAATGATAATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
* *
385257 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAA
257 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAA
* **
385322 GTGATGAATTCGAGCA
322 ATGATGAATTTAAGCA
* *
385338 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * ***
385402 ATGAACTTCCTCTGG-AAAAAATAATTCATCAAGTAATGAATTCAGGGAAAAGGTTGAACAAATT
66 ATGAACTT-CTCTGGCAATGAATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATT
*
385466 CTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAAC-TCTAACTGA
130 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT--CTGG
* * * * **
385529 CACTGCTGATCCACCGGGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCT
193 CAATGATAATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCT
385583 TCTTCAAATG
Statistics
Matches: 1153, Mismatches: 93, Indels: 30
0.90 0.07 0.02
Matches are distributed among these distances:
334 3 0.00
335 1 0.00
336 82 0.07
337 94 0.08
338 710 0.62
339 106 0.09
340 157 0.14
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (337 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTCTCTGGCAATGAATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTC
TTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAA
TGATAATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCT
TCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAAATGA
TGAATTTAAGCA
Found at i:385601 original size:451 final size:451
Alignment explanation
Indices: 383984--385582 Score: 2492
Period size: 451 Copynumber: 3.5 Consensus size: 451
383974 AGTATCAAAC
* * *
383984 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
* * *
384049 ATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTC
66 ATGAA-CTTCTCTGGAAAAAATAATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTC
*
384114 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCTCTGGC
130 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT-ATGAACTTTCTCTGGA
* * * * *
384179 AATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTT
194 AATGCTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTT
* * * *
384244 CTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAA
259 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAG
* *
384309 TGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
324 TGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* * * * * ** *
384374 TGAGTTCTTCTCATTATGAAC-TTATCTGGCAATGAATGATCCATCAAATGATGAATTTAAACA
389 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG-TTAATCCATCAAGTGATGAATTCGAGCA
* * *
384437 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
* * * * *
384502 ATGAACTTATCTGGCAAAAATAATCCATCAAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCT
66 ATGAACTTCTCTGGAAAAAATAATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCT
384567 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
131 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
* * *
384632 TGCTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCT
196 TGCTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCT
384697 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTG
261 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTG
* *
384762 ATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
326 ATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
384827 AGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAAGTGATGAATTCGAGCA
391 AGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAAGTGATGAATTCGAGCA
*
384888 AAAGGTTAAACAAGTTCTTCTCATTATTAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
* ** * * *
384952 ATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAACAA-GTTGAACAAGTT
66 ATGAAC-TTCTCTGGAAAAAATAATCCATCAAATGATGAATTCAAGCAA-AAGGTTGAACAAATT
385016 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
129 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
* * *
385081 AATGCTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTT
194 AATGCTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTT
385146 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAG
259 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAG
* *
385211 TGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGA
324 TGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
385275 TAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAAGTGATGAATTCGAGCA
389 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAAGTGATGAATTCGAGCA
385338 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
* * * * *
385402 ATGAACTTCCTCTGGAAAAAATAATTCATCAAGTAATGAATTCAGGGAAAAGGTTGAACAAATTC
66 ATGAACTT-CTCTGGAAAAAATAATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTC
* * **
385467 TTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTCTAACT-GAC
130 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA-
* * ** *
385530 ACTGCTGATCCACCGGGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCT
194 AATGCTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCT
385583 TCTTCAAATG
Statistics
Matches: 1069, Mismatches: 71, Indels: 16
0.92 0.06 0.01
Matches are distributed among these distances:
448 2 0.00
449 82 0.08
450 232 0.22
451 571 0.53
452 114 0.11
453 68 0.06
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (451 bp):
AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
ATGAACTTCTCTGGAAAAAATAATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCT
TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
TGCTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCT
TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTG
ATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
AGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAAGTGATGAATTCGAGCA
Found at i:386076 original size:22 final size:22
Alignment explanation
Indices: 386051--386105 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
386041 CATAAAGTTT
*
386051 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
386073 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
386095 TCATCTTTGAA
1 TCATCTTTGAA
386106 GAGTGTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:388806 original size:83 final size:83
Alignment explanation
Indices: 388667--389474 Score: 1282
Period size: 83 Copynumber: 9.7 Consensus size: 83
388657 GTAGTTCCTA
* * * * *
388667 CCAAACCAGATCAAATAACTCAAAGAATACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
*
388732 ATTCAATGATTGGTTTTG
66 ATTCAATGATTGGTTCTG
388750 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
*
388815 ATTCAATGATTGATTCTG
66 ATTCAATGATTGGTTCTG
* *
388833 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTA
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCA
388897 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* *
388916 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTA
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCA
388980 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* * * * *
388999 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
389064 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
389082 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
389147 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * *
389165 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTTATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
389230 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * *
389248 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAACTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
*
389313 ATTCAATGATTGATTCTG
66 ATTCAATGATTGGTTCTG
389331 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCA
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCA
*
389395 AATTCAATGATTGATTCTG
65 AATTCAATGATTGGTTCTG
* *
389414 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAACTCATCTT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTT
389475 TCAGTTAATG
Statistics
Matches: 689, Mismatches: 33, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
82 1 0.00
83 685 0.99
84 3 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:391634 original size:20 final size:20
Alignment explanation
Indices: 391609--391655 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
391599 CTTGATTCAA
*
391609 TTTTTTCTT-TTTTCTTTTC
1 TTTTTTTTTGTTTTCTTTTC
* *
391628 TTTTTTTTTGTTTTGTTTTG
1 TTTTTTTTTGTTTTCTTTTC
391648 TTTTTTTT
1 TTTTTTTT
391656 CCTTCTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (20 bp):
TTTTTTTTTGTTTTCTTTTC
Found at i:396631 original size:30 final size:32
Alignment explanation
Indices: 396578--396636 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
396568 TGCAAATAAA
*
396578 ATGAAATATTAATAAGAAAATATATAAATACT
1 ATGAAATATTAATAAGAAAATATAAAAATACT
* *
396610 ATGAAA-A-TAATAAGTATATATAAAAAT
1 ATGAAATATTAATAAGAAAATATAAAAAT
396637 TTTGAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 1 0.04
32 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (32 bp):
ATGAAATATTAATAAGAAAATATAAAAATACT
Found at i:397357 original size:13 final size:13
Alignment explanation
Indices: 397333--397367 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
397323 TATTTATTAT
397333 ATATTT-ATAAAA
1 ATATTTAATAAAA
397345 ATATTTAAT-AAA
1 ATATTTAATAAAA
397357 ATATTTAATAA
1 ATATTTAATAA
397368 TATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTTAATAAAA
Found at i:397435 original size:19 final size:18
Alignment explanation
Indices: 397407--397455 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
397397 AATATATTTA
397407 AAAACAATAAAATAAATG
1 AAAACAATAAAATAAATG
397425 AAAACATATAAAATAAATG
1 AAAACA-ATAAAATAAATG
397444 AAAA-AATAAAAT
1 AAAACAATAAAAT
397456 CAAAAATCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 16 0.53
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAACAATAAAATAAATG
Found at i:398776 original size:3 final size:3
Alignment explanation
Indices: 398763--398843 Score: 144
Period size: 3 Copynumber: 26.7 Consensus size: 3
398753 AATATATATT
398763 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
398809 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
398844 TGGATAAAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
3 72 0.96
4 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:407436 original size:3 final size:3
Alignment explanation
Indices: 407430--407493 Score: 80
Period size: 3 Copynumber: 22.0 Consensus size: 3
407420 CATTTGGTTT
407430 TTA TTA TTA -TA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
407475 -AA ATA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
407494 CAGATACAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
2 5 0.09
3 47 0.87
4 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:409204 original size:29 final size:31
Alignment explanation
Indices: 409171--409229 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
409161 ATATTTTTAA
409171 ATAAA-TAA-ATATTTTATTT-ATAACTATAT
1 ATAAATTAATATATTTT-TTTCATAACTATAT
*
409200 ATAAATTAATATATTTTTTTCATAATTATA
1 ATAAATTAATATATTTTTTTCATAACTATA
409230 ATTTTGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 6 0.23
31 15 0.58
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (31 bp):
ATAAATTAATATATTTTTTTCATAACTATAT
Found at i:409745 original size:28 final size:26
Alignment explanation
Indices: 409703--409783 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 26
409693 TAATTCTTTC
* *
409703 TTTTCAAAATGTTTATATATACTTATTA
1 TTTTCATAATATTTATATATA--TATTA
*
409731 TTTTCATAATATTTATATGTATATTA
1 TTTTCATAATATTTATATATATATTA
*
409757 TTTT-TTAATATTT-T-TAT-T-TTA
1 TTTTCATAATATTTATATATATATTA
409778 TTTTCA
1 TTTTCA
409784 AGTATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 7 0.15
22 1 0.02
23 2 0.04
24 1 0.02
25 8 0.17
26 9 0.20
28 18 0.39
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTCATAATATTTATATATATATTA
Found at i:409755 original size:26 final size:27
Alignment explanation
Indices: 409703--409769 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
409693 TAATTCTTTC
* *
409703 TTTTCAAAATGTTTATATATACTTATTA
1 TTTTCATAATATTTATATATAC-TATTA
*
409731 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCATAATATTTATATATACTATTA
*
409757 TTTT-TTAATATTT
1 TTTTCATAATATTT
409770 TTATTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.23
26 9 0.26
28 18 0.51
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (27 bp):
TTTTCATAATATTTATATATACTATTA
Found at i:411297 original size:8 final size:7
Alignment explanation
Indices: 411273--411314 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
411263 TTTTCATACA
411273 TGCA-TT
1 TGCATTT
411279 TGCATTT
1 TGCATTT
411286 TGCATCTT
1 TGCAT-TT
411294 TGCATTT
1 TGCATTT
* *
411301 TTCATTG
1 TGCATTT
411308 TGCATTT
1 TGCATTT
411315 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:411297 original size:15 final size:14
Alignment explanation
Indices: 411273--411314 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
411263 TTTTCATACA
411273 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
411286 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
411301 TTCATTGTGCATTT
1 TGCATTTTGCATTT
411315 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:411410 original size:27 final size:27
Alignment explanation
Indices: 411374--411429 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
411364 CATTCACATA
* *
411374 TTTATATTTGCATTTATATTTTCATTT
1 TTTATATTTGCACTTACATTTTCATTT
* *
411401 TTTATGTTTGTACTTACATTTTCATTT
1 TTTATATTTGCACTTACATTTTCATTT
411428 TT
1 TT
411430 ACATAATTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTATATTTGCACTTACATTTTCATTT
Found at i:418371 original size:22 final size:22
Alignment explanation
Indices: 418319--418372 Score: 101
Period size: 21 Copynumber: 2.5 Consensus size: 22
418309 ATCTACATTC
418319 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
418341 TT-AAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
418362 TTCAAAGATGA
1 TTCAAAGATGA
418373 AAGCTTTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:419231 original size:76 final size:76
Alignment explanation
Indices: 419053--419355 Score: 536
Period size: 76 Copynumber: 4.0 Consensus size: 76
419043 TTCCCACATA
* *
419053 TGTAAGTCCTACAATACATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
419117 TTAGGGTCATC
66 TTAGGGTCATC
* * *
419128 TATAAGTCCTGCAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
419193 TTAGGGTCATC
66 TTAGGGTCATC
419204 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
419269 TTAGGGTCATC
66 TTAGGGTCATC
*
419280 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
*
419345 TTCGGGTCATC
66 TTAGGGTCATC
419356 AGCATTTACA
Statistics
Matches: 217, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
75 54 0.25
76 163 0.75
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (76 bp):
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
TTAGGGTCATC
Found at i:419648 original size:113 final size:113
Alignment explanation
Indices: 419365--419842 Score: 638
Period size: 113 Copynumber: 4.2 Consensus size: 113
419355 CAGCATTTAC
* *
419365 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACT
1 AGAA-AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* * *
419430 TGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATTACC--
65 TGTTCAACCTTTTGCTCAAATTCATCACTCGATGGATCAACATTTCCAG
* *
419477 AGAAAGCTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTT
1 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* * *
419542 GTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAG
66 GTTCAACCTTTTGCTCAAATTCATCACTCGATGGATCAACATTTCCAG
*
419590 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTT
1 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* * * ** *
419655 GTTCAACCTTTTGTTTAAATTCATCATTTAATGGATCAACATTGCCAG
66 GTTCAACCTTTTGCTCAAATTCATCACTCGATGGATCAACATTTCCAG
* * ** * * *
419703 -GTAGAGTTCATAATGACAAGAACTCGTCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATT
1 AG-AAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* * ** * * *
419767 TGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACTTTTCCAG
65 TGTTCAACCTTTTGCTCAAATTCATCACTCGATGGATCAACATTTCCAG
419816 AGAAAGTTCATAATGAGAAGAACTTAT
1 AGAAAGTTCATAATGAGAAGAACTTAT
419843 TCAACCTTTG
Statistics
Matches: 327, Mismatches: 35, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
111 99 0.30
112 5 0.02
113 222 0.68
114 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
GTTCAACCTTTTGCTCAAATTCATCACTCGATGGATCAACATTTCCAG
Found at i:420203 original size:3 final size:3
Alignment explanation
Indices: 420197--420284 Score: 128
Period size: 3 Copynumber: 30.0 Consensus size: 3
420187 CATTTGGTTT
420197 TTA TTA TTA -TA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
420242 TTA TTA TTA TTA TTA TTA TTA TTA -AA ATA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
420285 CGGATAAAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
2 5 0.06
3 71 0.91
4 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:421697 original size:22 final size:18
Alignment explanation
Indices: 421682--421717 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
421672 TTATTTAGCC
*
421682 ATAAATATATATTTATATA
1 ATAAATA-ATATTTATTTA
421701 ATAAATAATATTTATTT
1 ATAAATAATATTTATTT
421718 TATTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAAATAATATTTATTTA
Found at i:425200 original size:36 final size:35
Alignment explanation
Indices: 425148--425344 Score: 279
Period size: 36 Copynumber: 5.5 Consensus size: 35
425138 ACGAAAGAAT
425148 GCATCGCACTTCCGATTCAAGTCGAACGGAAGGAA
1 GCATCGCACTTCCGATTCAAGTCGAACGGAAGGAA
425183 GCATCGACACTTCCGATTCAAGTCGAACGG-AGGAAA
1 GCATCG-CACTTCCGATTCAAGTCGAACGGAAGG-AA
* * *
425219 GCGTCGGCACTCCCGATTCAAGTCGAACGGAGGGAA
1 GCATC-GCACTTCCGATTCAAGTCGAACGGAAGGAA
425255 GCATCGGCACTTCCGATTCAAGTCGAACGGAAGGAA
1 GCATC-GCACTTCCGATTCAAGTCGAACGGAAGGAA
* *
425291 GCATCAGCACTTCCGATTCAAGTTGAACGGAAGGAT
1 GCATC-GCACTTCCGATTCAAGTCGAACGGAAGGAA
* *
425327 GTATCGCACTTTCGATTC
1 GCATCGCACTTCCGATTC
425345 GAGTGTTCAT
Statistics
Matches: 147, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
35 21 0.14
36 123 0.84
37 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.19
Consensus pattern (35 bp):
GCATCGCACTTCCGATTCAAGTCGAACGGAAGGAA
Found at i:426411 original size:35 final size:35
Alignment explanation
Indices: 426365--426554 Score: 265
Period size: 35 Copynumber: 5.4 Consensus size: 35
426355 GAAGTATGGG
*
426365 CACTTTCGATTCAAGTGAATGGAAGGAAGCATAGA
1 CACTTTCGATTCAAGTGAACGGAAGGAAGCATAGA
* *
426400 CACTTTCGATTCAAGTGAACGGAAGGAAGCATGGG
1 CACTTTCGATTCAAGTGAACGGAAGGAAGCATAGA
* *
426435 CACTTTCGATTCAAGTGAACGGAAGGAAGCATCGG
1 CACTTTCGATTCAAGTGAACGGAAGGAAGCATAGA
* * * *
426470 CACTTTCGATTCAAGAAGAACGAAAGGATGCATCGA
1 CACTTTCGATTCAAG-TGAACGGAAGGAAGCATAGA
*
426506 CACTTTCGATTCAAGTGAACGGAAGTAAGCATCAG-
1 CACTTTCGATTCAAGTGAACGGAAGGAAGCAT-AGA
426541 CACTTTCGATTCAA
1 CACTTTCGATTCAA
426555 ATGTTTATCT
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
35 108 0.77
36 32 0.23
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (35 bp):
CACTTTCGATTCAAGTGAACGGAAGGAAGCATAGA
Found at i:426523 original size:71 final size:71
Alignment explanation
Indices: 426341--426554 Score: 313
Period size: 71 Copynumber: 3.0 Consensus size: 71
426331 GAAGGTGAAT
* * * * *
426341 AAGAAGAACGAAATGAAGTATGGGCACTTTCGATTCAAGTGAATGGAAGGAAGCATAGACACTTT
1 AAGAAGAACGAAAGGAAGCATGGGCACTTTCGATTCAAGTGAACGGAAGGAAGCATCGGCACTTT
426406 CGATTC
66 CGATTC
* *
426412 AAG-TGAACGGAAGGAAGCATGGGCACTTTCGATTCAAGTGAACGGAAGGAAGCATCGGCACTTT
1 AAGAAGAACGAAAGGAAGCATGGGCACTTTCGATTCAAGTGAACGGAAGGAAGCATCGGCACTTT
426476 CGATTC
66 CGATTC
* * * * *
426482 AAGAAGAACGAAAGGATGCATCGACACTTTCGATTCAAGTGAACGGAAGTAAGCATCAGCACTTT
1 AAGAAGAACGAAAGGAAGCATGGGCACTTTCGATTCAAGTGAACGGAAGGAAGCATCGGCACTTT
426547 CGATTC
66 CGATTC
426553 AA
1 AA
426555 ATGTTTATCT
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
70 63 0.49
71 65 0.51
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (71 bp):
AAGAAGAACGAAAGGAAGCATGGGCACTTTCGATTCAAGTGAACGGAAGGAAGCATCGGCACTTT
CGATTC
Found at i:426530 original size:106 final size:105
Alignment explanation
Indices: 426363--426554 Score: 303
Period size: 106 Copynumber: 1.8 Consensus size: 105
426353 ATGAAGTATG
* * *
426363 GGCACTTTCGATTCAAGTGAATGGAAGGAAGCATAGACACTTTCGATTCAAGTGAACGGAAGGAA
1 GGCACTTTCGATTCAAGAGAACGAAAGGAAGCATAGACACTTTCGATTCAAGTGAACGGAAGGAA
**
426428 GCATGGGCACTTTCGATTCAAGTGAACGGAAGGAAGCATC
66 GCATCAGCACTTTCGATTCAAGTGAACGGAAGGAAGCATC
* * *
426468 GGCACTTTCGATTCAAGAAGAACGAAAGGATGCATCGACACTTTCGATTCAAGTGAACGGAAGTA
1 GGCACTTTCGATTCAAG-AGAACGAAAGGAAGCATAGACACTTTCGATTCAAGTGAACGGAAGGA
426533 AGCATCAGCACTTTCGATTCAA
65 AGCATCAGCACTTTCGATTCAA
426555 ATGTTTATCT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
105 17 0.22
106 61 0.78
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.22
Consensus pattern (105 bp):
GGCACTTTCGATTCAAGAGAACGAAAGGAAGCATAGACACTTTCGATTCAAGTGAACGGAAGGAA
GCATCAGCACTTTCGATTCAAGTGAACGGAAGGAAGCATC
Found at i:430313 original size:21 final size:19
Alignment explanation
Indices: 430301--430340 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
430291 TTTGATTAGA
430301 AATTTCGAAATTTCTACAAG
1 AATTTCGAAATTT-TACAAG
*
430321 AATTTCGAAATTTTCCAAG
1 AATTTCGAAATTTTACAAG
430340 A
1 A
430341 TAATTTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (19 bp):
AATTTCGAAATTTTACAAG
Found at i:445885 original size:2 final size:2
Alignment explanation
Indices: 445878--445909 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
445868 ATTCCCCACC
*
445878 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
445910 GATAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:451558 original size:64 final size:63
Alignment explanation
Indices: 451420--451580 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 63
451410 AATTGTTCAG
* * * * *
451420 TGTGTATCGATGCACAGGAAGTGCATCGATGCACCTATTAAAATGGAAACATCGAATGCAATT
1 TGTGCATCGATGCAAAGGAAGTGCATCGATGCACCCATTAAAATGAAAACATCGAAGGCAATT
* * * * **
451483 GGTTCATCGATGCATAAGG-AGTGCATCGATGCATCCCCTTAAAATGAAAACATTGAAGGTGATT
1 TGTGCATCGATGCA-AAGGAAGTGCATCGATGCA-CCCATTAAAATGAAAACATCGAAGGCAATT
** * *
451547 TGTGCATCGATGCACGGGTACTGCATCGATGCAC
1 TGTGCATCGATGCAAAGGAAGTGCATCGATGCAC
451581 ATGCTAAAGA
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
63 28 0.35
64 51 0.65
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (63 bp):
TGTGCATCGATGCAAAGGAAGTGCATCGATGCACCCATTAAAATGAAAACATCGAAGGCAATT
Found at i:451614 original size:20 final size:20
Alignment explanation
Indices: 451549--451625 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 20
451539 AGGTGATTTG
* * *
451549 TGCATCGATGCACGGGT-AC
1 TGCATCGATGCACTGTTGAA
*
451568 TGCATCGATGCACATGCTAAAGAA
1 TGCATCGATGCAC-TG-T--TGAA
451592 TGCATCGATGCACTGTTGAA
1 TGCATCGATGCACTGTTGAA
451612 TGCATCGATGCACT
1 TGCATCGATGCACT
451626 TCAAGAGAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 13 0.27
20 18 0.38
22 1 0.02
23 2 0.04
24 14 0.29
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (20 bp):
TGCATCGATGCACTGTTGAA
Found at i:452111 original size:2 final size:2
Alignment explanation
Indices: 452104--452171 Score: 129
Period size: 2 Copynumber: 34.5 Consensus size: 2
452094 CATGTTACAG
452104 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
452146 TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
452172 GAGTTGTGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:452417 original size:2 final size:2
Alignment explanation
Indices: 452410--452470 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
452400 AGTATACGTG
452410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
452452 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
452471 GTTATTGGAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:452859 original size:30 final size:30
Alignment explanation
Indices: 452825--453077 Score: 443
Period size: 30 Copynumber: 8.4 Consensus size: 30
452815 GGTTCCTCGG
* * *
452825 GACCTATGGACAGTTACCGATGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
452855 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
452885 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
452915 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
452945 GACCTCTAGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* *
452975 GACATATGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
453005 GACCTCTGGATAGTTACTGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
453035 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
453065 GACCTCTGGATAG
1 GACCTCTGGATAG
453078 GTCCTTCAGA
Statistics
Matches: 212, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 212 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:454769 original size:3 final size:3
Alignment explanation
Indices: 454763--454889 Score: 191
Period size: 3 Copynumber: 41.7 Consensus size: 3
454753 TCATTTAAAT
** *
454763 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
454811 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
*
454857 TTA TTA TTA TTA ATA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
454890 TAATAAATAA
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
3 106 0.95
4 6 0.05
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:455578 original size:13 final size:13
Alignment explanation
Indices: 455560--455588 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
455550 ACCACCGTTA
455560 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
455573 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
455586 CGG
1 CGG
455589 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:457103 original size:20 final size:21
Alignment explanation
Indices: 457080--457131 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
457070 AGAAATTAAA
457080 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
457100 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
457122 -ATT-ATTTATT
1 AATTCATTTATT
457132 ATTAATATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:465369 original size:74 final size:75
Alignment explanation
Indices: 465277--465454 Score: 234
Period size: 74 Copynumber: 2.4 Consensus size: 75
465267 TTTTAACATC
* * *
465277 TGTATCAGCAAATATTGGGGCATGCTGAAAACCCTTTTCAAACAGAATCAGAAATGTTGAAATAT
1 TGTATCAGCAAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACAT
*
465342 TCTGAATA-T
66 TCTGAACACT
* * **
465351 T-TATCAGCAAAATGTTGGGGCATGCTGAAAACCCATTTCAATCAGAATCAGAACTGTTGATGCA
1 TGTATCAGC-AAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACA
*
465415 TTTTGAACACT
65 TTCTGAACACT
* *
465426 TGTATTAGCCAATGTTGGGGCATGCTGAA
1 TGTATCAGCAAATGTTGGGGCATGCTGAA
465455 GGCCCACAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
73 7 0.08
74 56 0.62
75 21 0.23
76 6 0.07
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (75 bp):
TGTATCAGCAAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACAT
TCTGAACACT
Found at i:467506 original size:76 final size:76
Alignment explanation
Indices: 467378--468020 Score: 1187
Period size: 76 Copynumber: 8.5 Consensus size: 76
467368 CTATTTCCCA
*
467378 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
467443 AGCCTTCGGGT
66 AGCCTTCGGGT
467454 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
467519 AGCCTTCGGGT
66 AGCCTTCGGGT
467530 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
467595 AGCCTTCGGGT
66 AGCCTTCGGGT
*
467606 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
467671 AGCCTTCGGGT
66 AGCCTTCGGGT
*
467682 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
467747 AGCCTTCGGGT
66 AGCCTTCGGGT
467758 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
467823 ATCCTTCGGGT
66 AGCCTTCGGGT
*
467834 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCCGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
467899 AGCCTTCGGGT
66 AGCCTTCGGGT
* * * *
467910 CATCTATAAGTCCTTCAGTGCATGATATTTCCAAAAAGCCTTCAGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
467975 AACCTTCGGGT
66 AGCCTTCGGGT
*
467986 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
468021 CATTTCCATC
Statistics
Matches: 551, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 551 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:468154 original size:3 final size:3
Alignment explanation
Indices: 468148--468265 Score: 182
Period size: 3 Copynumber: 38.7 Consensus size: 3
468138 TCATTTAAAT
** *
468148 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
468196 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
468242 TTA TTA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TT
468266 TAATAAATAA
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
3 99 0.94
4 6 0.06
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:468954 original size:13 final size:13
Alignment explanation
Indices: 468936--468964 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
468926 ACCACCGTTA
468936 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
468949 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
468962 CGG
1 CGG
468965 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:469925 original size:111 final size:113
Alignment explanation
Indices: 469761--469965 Score: 299
Period size: 111 Copynumber: 1.8 Consensus size: 113
469751 AATAATCATA
* * * *
469761 TTTTGATATTTATTTATTTTAATATCAAAGAAAAAAGTTGTCTTAAGATACCTAGAAGCTCTTTT
1 TTTTGATATTTATTTATTTAAACATCAAAGAAAAAAGCTGTCTTAAGATACCTAGAAGCCCTTTT
* *
469826 CTGATATTTTTGAATAAATAAATATCTTACTATATTAAAATAAAAGGT
66 CTGATATTTCTAAATAAATAAATATCTTACTATATTAAAATAAAAGGT
* *
469874 TTTTGATATTTA-TT-TTTAAACATTAAAGAAAAGAGCTGTCTTAA-AGTACCTAGAAGCCCTTT
1 TTTTGATATTTATTTATTTAAACATCAAAGAAAAAAGCTGTCTTAAGA-TACCTAGAAGCCCTTT
*
469936 TCTGATATTTCTAAATAAGTAAATATCTTA
65 TCTGATATTTCTAAATAAATAAATATCTTA
469966 TTTATGTATA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
110 1 0.01
111 67 0.82
112 2 0.02
113 12 0.15
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (113 bp):
TTTTGATATTTATTTATTTAAACATCAAAGAAAAAAGCTGTCTTAAGATACCTAGAAGCCCTTTT
CTGATATTTCTAAATAAATAAATATCTTACTATATTAAAATAAAAGGT
Found at i:472912 original size:22 final size:22
Alignment explanation
Indices: 472886--472938 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
472876 AAAAAGTATG
*
472886 GAAATGACATAAGA-AAGAATAT
1 GAAAT-ACATAACATAAGAATAT
* *
472908 GAAATATATAACATATGAATAT
1 GAAATACATAACATAAGAATAT
472930 GAAAT-CATA
1 GAAATACATA
472939 TGAGGGGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.25
Consensus pattern (22 bp):
GAAATACATAACATAAGAATAT
Found at i:473438 original size:30 final size:30
Alignment explanation
Indices: 473404--473656 Score: 434
Period size: 30 Copynumber: 8.4 Consensus size: 30
473394 GGTTCCTCGG
* *
473404 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
473434 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
473464 GACCTCTGGATAGTTACCAAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
473494 GACCTGTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
473524 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
473554 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
473584 GACCTCTGGATAGTTACCGAGGATCTTCAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* *
473614 GACCTCTGGATAGTTACCGATGATCTTTGT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
473644 GACATCTGGATAG
1 GACCTCTGGATAG
473657 GTCCTTCAGA
Statistics
Matches: 212, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 212 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:486157 original size:13 final size:13
Alignment explanation
Indices: 486137--486178 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
486127 GGAATGTAGT
486137 TGATGTGTAAAGC
1 TGATGTGTAAAGC
*
486150 TTATGTGTAAAGC
1 TGATGTGTAAAGC
486163 TGATGTGTATAAGC
1 TGATGTGTA-AAGC
486177 TG
1 TG
486179 GTGTATGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (13 bp):
TGATGTGTAAAGC
Found at i:491980 original size:14 final size:14
Alignment explanation
Indices: 491958--491988 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
491948 AAAATGCATG
*
491958 TCTCTTCTTCTTCT
1 TCTCCTCTTCTTCT
491972 TCTCCTCTTCTTCT
1 TCTCCTCTTCTTCT
491986 TCT
1 TCT
491989 TCCTATCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (14 bp):
TCTCCTCTTCTTCT
Found at i:497776 original size:14 final size:14
Alignment explanation
Indices: 497757--497786 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
497747 CATTTTTGAA
497757 AGGAGATCTAGATG
1 AGGAGATCTAGATG
*
497771 AGGAGATCTATATG
1 AGGAGATCTAGATG
497785 AG
1 AG
497787 AACAATGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (14 bp):
AGGAGATCTAGATG
Found at i:507118 original size:21 final size:21
Alignment explanation
Indices: 507094--507670 Score: 480
Period size: 21 Copynumber: 27.4 Consensus size: 21
507084 TTTGAAATAA
*
507094 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* *
507115 ATCGCAA--CGAACTTAGAAT
1 ATCGCAACGCGAACTTGGACT
* *
507134 AAATCGCAACGCGGACTTGGAAT
1 --ATCGCAACGCGAACTTGGACT
* *
507157 AAATCGCAACGCGGACTTGGAAT
1 --ATCGCAACGCGAACTTGGACT
*
507180 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
*
507203 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
507222 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* *
507245 ATTGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
507264 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
507287 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
507308 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
507327 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
*
507350 ATCGCAA---GAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
507368 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
507391 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* *
507412 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
* *
507431 AAATCGTAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* *
507454 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
507473 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
*
507496 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
* *
507515 AAATCGCAACGTGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* * *
507538 ATCGCAA--CAAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
* *
507557 AAATCGCAACGCAAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
507580 ATCGCAA--CGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
507599 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* *
507620 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
507639 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
507662 ATCGCAACG
1 ATCGCAACG
507671 AATTTGGAAA
Statistics
Matches: 457, Mismatches: 56, Indels: 86
0.76 0.09 0.14
Matches are distributed among these distances:
18 10 0.02
19 104 0.23
20 7 0.02
21 197 0.43
23 139 0.30
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:507135 original size:42 final size:42
Alignment explanation
Indices: 507069--507686 Score: 744
Period size: 42 Copynumber: 14.7 Consensus size: 42
507059 TGCGATTTTG
* *
507069 GACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
507111 GACTATCGCAACGAACTTAGAATAAATCGCAACGCGGACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
507153 GAATAAATCGCAACGCGGACTTGGAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
507199 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
507241 GACTATTGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
507283 GACTATCGCAACGCGAACTTGGACT--ATCGCAA--CGAACTTG
1 GACTATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
507323 GAATAAATCGCAACGCGAACTTGGACT--ATCGCAA---GAACTTG
1 GACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* * * *
507364 GAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTG
1 GACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* *
507408 GACTATCGCAACGAATTTGGAATAAATCGTAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
507450 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
507492 GACTATCGCAACGAACTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
507534 GACTATCGCAACAAATTTGGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
507576 GACTATCGCAACGAACTTGGACT--ATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
507616 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
507658 GACTATCGCAACGAATTTGG-A-AAATCGCA
1 GACTATCGCAACGAACTTGGAATAAATCGCA
507687 TTGCGATAGT
Statistics
Matches: 523, Mismatches: 38, Indels: 32
0.88 0.06 0.05
Matches are distributed among these distances:
40 63 0.12
41 41 0.08
42 354 0.68
44 35 0.07
46 30 0.06
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:507292 original size:63 final size:63
Alignment explanation
Indices: 507094--507670 Score: 530
Period size: 63 Copynumber: 9.1 Consensus size: 63
507084 TTTGAAATAA
* * * *
507094 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTAGAATAAATCGCAACGCGGACTTGGAAT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTCGAATAAATCGCAACGCGAACTTGGACT
* * *
507157 AAATCGCAACGCGGACTTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAA--CGAACTTG
1 --ATCGCAACGCGAACTTGGACT--ATCGCAA--CGAACTTCGAATAAATCGCAACGCGAACTTG
*
507218 GAAT
60 GACT
* * * *
507222 AAATCGCAACGCGAACTTCGACTATTGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACTATCGCAACGAACTTCGAATAAATCGCAACGCGAACTTGGACT
*
507287 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTCGAATAAATCGCAACGCGAACTTGGACT
* *
507350 ATCGCAA---GAACTTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTGGA
1 ATCGCAACGCGAACTTGGACT--ATCGCAA--CGAACTTCGAATAAATCGCAACGCGAACTTGGA
507410 CT
62 CT
* * * * *
507412 ATCGCAA--CGAATTTGGAATAAATCGTAACGCGAACTTCGACT--ATCGCAA--CGAATTTGGA
1 ATCGCAACGCGAACTTGGACT--ATCGCAA--CGAACTTCGAATAAATCGCAACGCGAACTTGGA
*
507471 AT
62 CT
* * * *
507473 AAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGTGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACTATCGCAACGAACTTCGAATAAATCGCAACGCGAACTTGGACT
* * * *
507538 ATCGCAA--CAAATTTGGAATAAATCGCAACGCAAACTTCGACT--ATCGCAA--CGAACTTGGA
1 ATCGCAACGCGAACTTGGACT--ATCGCAACG--AACTTCGAATAAATCGCAACGCGAACTTGGA
507597 CT
62 CT
* *
507599 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTCGAATAAATCGCAACGCGAACTTGGACT
507662 ATCGCAACG
1 ATCGCAACG
507671 AATTTGGAAA
Statistics
Matches: 433, Mismatches: 48, Indels: 64
0.79 0.09 0.12
Matches are distributed among these distances:
59 7 0.02
60 10 0.02
61 71 0.16
62 35 0.08
63 192 0.44
64 10 0.02
65 84 0.19
67 14 0.03
69 10 0.02
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (63 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAACTTCGAATAAATCGCAACGCGAACTTGGACT
Found at i:507713 original size:21 final size:21
Alignment explanation
Indices: 507682--507734 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
507672 ATTTGGAAAA
*
507682 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
* *
507703 TCGTGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
507724 TCGCGTTGCGA
1 TCGCGTTGCGA
507735 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:522788 original size:34 final size:33
Alignment explanation
Indices: 522750--522833 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
522740 GTAATAAACA
*
522750 AAATTAACCAAAATACATTAACAA-AAAGTCCAA-C
1 AAATTAA-CAAAATAAATTAA-AATAAA-TCCAACC
522784 AAATTTAACAAAATAAATTAAAATAAATCCAACC
1 AAA-TTAACAAAATAAATTAAAATAAATCCAACC
**
522818 AAATTAATGAAATAAA
1 AAATTAACAAAATAAA
522834 GTAAGTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 18 0.41
34 22 0.50
35 4 0.09
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.21
Consensus pattern (33 bp):
AAATTAACAAAATAAATTAAAATAAATCCAACC
Found at i:522833 original size:33 final size:34
Alignment explanation
Indices: 522746--522822 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
522736 AATGGTAATA
* *
522746 AACAAAATTAACCAAAATACATTAACAAAAAGTCC
1 AACAAATTTAA-CAAAATAAATTAACAAAAAGTCC
522781 AACAAATTTAACAAAATAAATTAA-AATAAA-TCC
1 AACAAATTTAACAAAATAAATTAACAA-AAAGTCC
522814 AACCAAATT
1 AA-CAAATT
522823 AATGAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 7 0.18
34 21 0.55
35 10 0.26
ACGTcount: A:0.61, C:0.17, G:0.01, T:0.21
Consensus pattern (34 bp):
AACAAATTTAACAAAATAAATTAACAAAAAGTCC
Found at i:524923 original size:19 final size:19
Alignment explanation
Indices: 524901--524945 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
524891 TTAGAACGTT
524901 AAAATGTTAAC-GTATCAGC
1 AAAATGTT-ACTGTATCAGC
524920 AAAATGTTACTGTATCAGC
1 AAAATGTTACTGTATCAGC
524939 AAAATGT
1 AAAATGT
524946 CGCGATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (19 bp):
AAAATGTTACTGTATCAGC
Found at i:530790 original size:2 final size:2
Alignment explanation
Indices: 530783--530816 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
530773 TGCACCTTTC
*
530783 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
530817 CCACACATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:531143 original size:30 final size:30
Alignment explanation
Indices: 531084--531179 Score: 149
Period size: 30 Copynumber: 3.2 Consensus size: 30
531074 CTCGAAGGAC
* *
531084 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
531113 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
531143 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
531173 CTGTCCA
1 CTATCCA
531180 TATGTTCCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
29 19 0.30
30 44 0.70
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:531210 original size:31 final size:30
Alignment explanation
Indices: 531168--531265 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 30
531158 AAAGATCCTC
*
531168 GGTAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATATGTTCCATAGAACATA
* *
531198 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTGTCCATATGT-TCCATAGAACATA
*
531229 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCATAGAACATA
531261 GGTAA
1 GGTAA
531266 ACCCTCGACT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
30 6 0.11
31 25 0.44
32 25 0.44
33 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCATAGAACATA
Found at i:532122 original size:21 final size:21
Alignment explanation
Indices: 532092--532136 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
532082 ATTCTGTCGT
* *
532092 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
532113 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
532134 TTG
1 TTG
532137 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:535624 original size:2 final size:2
Alignment explanation
Indices: 535617--535652 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
535607 AGCACCTTTC
*
535617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
535653 CCACACATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:535980 original size:30 final size:30
Alignment explanation
Indices: 535921--536016 Score: 149
Period size: 30 Copynumber: 3.2 Consensus size: 30
535911 CTCGAAGGAC
* *
535921 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
535950 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
535980 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
536010 CTGTCCA
1 CTATCCA
536017 TATGTTCCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
29 19 0.30
30 44 0.70
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:536047 original size:31 final size:30
Alignment explanation
Indices: 536005--536102 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 30
535995 AAAGATCCTC
*
536005 GGTAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATATGTTCCATAGAACATA
* *
536035 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTGTCCATATGT-TCCATAGAACATA
*
536066 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCATAGAACATA
536098 GGTAA
1 GGTAA
536103 ACCCTCGACT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
30 6 0.11
31 25 0.44
32 25 0.44
33 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCATAGAACATA
Found at i:536970 original size:21 final size:19
Alignment explanation
Indices: 536932--536970 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
536922 ATTCTGTCGT
*
536932 TTGAAGGGTATCGTTCCCC
1 TTGAAGGGTACCGTTCCCC
536951 TTGAATGGGTACCGATTCCC
1 TTGAA-GGGTACCG-TTCCC
536971 TTGCCCAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.31
Consensus pattern (19 bp):
TTGAAGGGTACCGTTCCCC
Found at i:540610 original size:23 final size:23
Alignment explanation
Indices: 540543--540603 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
540533 CACCACAACT
*
540543 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
540566 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
540589 CGTAGAATTGCACCG
1 CGTAGAATTGCACCG
540604 TTGTGCCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:542260 original size:21 final size:21
Alignment explanation
Indices: 542236--542278 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
542226 TCTGGTTCGT
* *
542236 TTGAGGGGGTATCAGTTCCCC
1 TTGAAGGGGTATCAATTCCCC
*
542257 TTGAATGGGTATCAATTCCCC
1 TTGAAGGGGTATCAATTCCCC
542278 T
1 T
542279 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCAATTCCCC
Found at i:544487 original size:22 final size:20
Alignment explanation
Indices: 544453--544512 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
544443 TCGAGGGTTT
*
544453 CATAGCTCATTCGGGACATAGA
1 CATAGGTCATTCGGGACAT--A
* *
544475 CATAGGTCCTTCGAGACATA
1 CATAGGTCATTCGGGACATA
*
544495 CACAGGTCATTCGGGACA
1 CATAGGTCATTCGGGACA
544513 AATTTCACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.50
22 16 0.50
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (20 bp):
CATAGGTCATTCGGGACATA
Found at i:549904 original size:21 final size:20
Alignment explanation
Indices: 549811--549901 Score: 119
Period size: 21 Copynumber: 4.3 Consensus size: 20
549801 TATGCCATCT
* *
549811 CCGCAAGGTTACATTCCGAGC
1 CCGC-AGGTTACATGCCTAGC
*
549832 CCGCAGGGTTACATTCCTAGC
1 CCGCA-GGTTACATGCCTAGC
549853 CCGCCAGGTTACATGCCTAGC
1 CCG-CAGGTTACATGCCTAGC
549874 CCGCCAGGTTACATGCCTAGC
1 CCG-CAGGTTACATGCCTAGC
549895 CCGCAGG
1 CCGCAGG
549902 GTTTTATACC
Statistics
Matches: 66, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
20 5 0.08
21 59 0.89
22 2 0.03
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.19
Consensus pattern (20 bp):
CCGCAGGTTACATGCCTAGC
Found at i:550486 original size:33 final size:34
Alignment explanation
Indices: 550427--550523 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
550417 AAATGTTTTT
*
550427 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
550461 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
550494 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
550524 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:550530 original size:34 final size:33
Alignment explanation
Indices: 550425--550530 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
550415 ATAAATGTTT
*
550425 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
550459 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
550491 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
550526 TTAAA
1 TTAAA
550531 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:551134 original size:126 final size:126
Alignment explanation
Indices: 550909--551261 Score: 679
Period size: 126 Copynumber: 2.8 Consensus size: 126
550899 TTTAAGTTAT
*
550909 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
550974 GCGTCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
551035 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
551100 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
551161 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
551226 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
551262 CCGATTATAG
Statistics
Matches: 224, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 224 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (126 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:551342 original size:8 final size:8
Alignment explanation
Indices: 551329--551369 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
551319 TCACAATCTT
551329 TCAAATTC
1 TCAAATTC
551337 TCAAATTC
1 TCAAATTC
* *
551345 CCAAACTC
1 TCAAATTC
551353 T-AAATTC
1 TCAAATTC
551360 TCAAATTC
1 TCAAATTC
551368 TC
1 TC
551370 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:554394 original size:12 final size:13
Alignment explanation
Indices: 554361--554398 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
554351 AAATACATAA
554361 ATATATTTAATAT
1 ATATATTTAATAT
*
554374 ATTTATTTAATAT
1 ATATATTTAATAT
554387 A-ATATTTAATAT
1 ATATATTTAATAT
554399 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:554450 original size:23 final size:23
Alignment explanation
Indices: 554412--554469 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
554402 TAGTTATAAT
554412 TTTTACAT--TATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
554433 TTTTACATAATATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
554456 TTTTACATAATATA
1 TTTTACATAATATA
554470 TTATTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (23 bp):
TTTTACATAATATAATCGAAACA
Found at i:555008 original size:21 final size:22
Alignment explanation
Indices: 554984--555024 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
554974 TACTTGACCG
* *
554984 TTTTTTTAAA-TAATATTTTTA
1 TTTTTTAAAATTAAAATTTTTA
555005 TTTTTTAAAATTAAAATTTT
1 TTTTTTAAAATTAAAATTTT
555025 AAAATTCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTTAAAATTAAAATTTTTA
Found at i:560355 original size:2 final size:2
Alignment explanation
Indices: 560350--560374 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
560340 TATATATATA
560350 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
560375 AATTTGTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:563658 original size:2 final size:2
Alignment explanation
Indices: 563653--563682 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
563643 TATATATATA
563653 TG TG TG TG TG TG TG TG TG T- TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
563683 AATTTGTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:577591 original size:54 final size:55
Alignment explanation
Indices: 577406--577727 Score: 542
Period size: 55 Copynumber: 5.9 Consensus size: 55
577396 CAAATGACAT
*
577406 TTTGTGTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCGTATGGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCAC
* *
577461 TTTGTGTGCAAAACTAAGAAATTCATAATAAATTTAGGAATTTTCGTATGGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCAC
*
577516 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGT-TGGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCAC
*
577570 TTTGTGTACAAAACTAAGAAATTCATAATAAGTTTATGAA-TTTCTGTATGGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATGGGCAC
* * *
577625 TTTTTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCAC
577680 -TTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
577728 TGGTAGTGGG
Statistics
Matches: 250, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
53 3 0.01
54 94 0.38
55 150 0.60
56 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (55 bp):
TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCAC
Found at i:577756 original size:109 final size:110
Alignment explanation
Indices: 577406--577727 Score: 542
Period size: 109 Copynumber: 2.9 Consensus size: 110
577396 CAAATGACAT
*
577406 TTTGTGTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCA
1 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCA
* *
577471 AAACTAAGAAATTCATAATAAATTTAGGAATTTTCGTATGGGCAC
66 AAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCAC
* *
577516 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGT-TGGGCACTTTGTGTACA
1 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCA
577580 AAACTAAGAAATTCATAATAAGTTTATGAA-TTTCTGTATGGGCAC
66 AAACTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATGGGCAC
* * *
577625 TTTTTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACAC-TTGTGTGCA
1 TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCA
577689 AAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
66 AAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
577728 TGGTAGTGGG
Statistics
Matches: 199, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
108 4 0.02
109 140 0.70
110 55 0.28
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (110 bp):
TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCA
AAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCAC
Found at i:582997 original size:21 final size:21
Alignment explanation
Indices: 582972--583011 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
582962 AAGACTTTAT
582972 TTTCAAAATAAAAAAATGATA
1 TTTCAAAATAAAAAAATGATA
**
582993 TTTCAAAATTGAAAAATGA
1 TTTCAAAATAAAAAAATGA
583012 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATAAAAAAATGATA
Found at i:583826 original size:13 final size:13
Alignment explanation
Indices: 583808--583836 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
583798 GAATAGAAAA
583808 CATATACATGGTG
1 CATATACATGGTG
583821 CATATACATGGTG
1 CATATACATGGTG
583834 CAT
1 CAT
583837 TTAGATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (13 bp):
CATATACATGGTG
Found at i:584533 original size:20 final size:20
Alignment explanation
Indices: 584508--584546 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
584498 TATTAATCGA
584508 GTAATGATTAGGCCTATTTT
1 GTAATGATTAGGCCTATTTT
584528 GTAATGATTAGGCCTATTT
1 GTAATGATTAGGCCTATTT
584547 AGAAGAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.44
Consensus pattern (20 bp):
GTAATGATTAGGCCTATTTT
Found at i:595983 original size:28 final size:27
Alignment explanation
Indices: 595943--596006 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
595933 ATCTTTTTAT
595943 ATATTTGAATTTTTTTTTTGAAAAGTAC
1 ATATTTGAA-TTTTTTTTTGAAAAGTAC
*
595971 ATATTTGAA-TTTTTTTTGAAAATTAC
1 ATATTTGAATTTTTTTTTGAAAAGTAC
595997 ATATTTGAAT
1 ATATTTGAAT
596007 ATTGTATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 25 0.74
28 9 0.26
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (27 bp):
ATATTTGAATTTTTTTTTGAAAAGTAC
Found at i:600318 original size:3 final size:3
Alignment explanation
Indices: 600310--600366 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
600300 TTTTTCATAC
* * * *
600310 TAT TAT TAT TAT TAT TAA AAT TAA AAT TAT TAT TAT ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
600356 TAT TAT TAT TA
1 TAT TAT TAT TA
600367 AAAAAATAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:600565 original size:31 final size:32
Alignment explanation
Indices: 600528--600593 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
600518 CGCTGTCGAC
600528 GCCTCCAATGCCA-ATGGTCCAACCAGCCACT
1 GCCTCCAATGCCAGATGGTCCAACCAGCCACT
*
600559 GCCTCCAATGCCAGATGGTCCAACCAGCCGCT
1 GCCTCCAATGCCAGATGGTCCAACCAGCCACT
600591 GCC
1 GCC
600594 GACGCTGCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.23, C:0.42, G:0.20, T:0.15
Consensus pattern (32 bp):
GCCTCCAATGCCAGATGGTCCAACCAGCCACT
Found at i:601438 original size:17 final size:19
Alignment explanation
Indices: 601402--601441 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
601392 ATTTCTGAAT
601402 ATTTTAATTTGATCTTATA
1 ATTTTAATTTGATCTTATA
*
601421 ATTTT-ATTTTAT-TTATA
1 ATTTTAATTTGATCTTATA
601438 ATTT
1 ATTT
601442 AGTCACCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTAATTTGATCTTATA
Found at i:601743 original size:25 final size:24
Alignment explanation
Indices: 601715--601785 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
601705 TCATTATTTA
601715 TTTGCAATATTATTTTATTATTACT
1 TTTG-AATATTATTTTATTATTACT
*
601740 TTTG-ATATATATTTAAATTATTACT
1 TTTGAATAT-TATTT-TATTATTACT
*
601765 TTT-ATTATTATTTTATTATTA
1 TTTGAATATTATTTTATTATTA
601786 TCTTAGTCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 11 0.28
24 10 0.25
25 19 0.47
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTGAATATTATTTTATTATTACT
Found at i:601780 original size:11 final size:11
Alignment explanation
Indices: 601722--601786 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 11
601712 TTATTTGCAA
601722 TATTATTTTAT
1 TATTATTTTAT
601733 TATTACTTTTGA-
1 TATTA-TTTT-AT
*
601745 TATATATTTAAAT
1 TAT-TATTT-TAT
601758 TATTACTTTTAT
1 TATTA-TTTTAT
601770 TATTATTTTAT
1 TATTATTTTAT
601781 TATTAT
1 TATTAT
601787 CTTAGTCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
11 17 0.37
12 20 0.43
13 9 0.20
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:601801 original size:2 final size:2
Alignment explanation
Indices: 601794--601825 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
601784 TATCTTAGTC
601794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
601826 TTAAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:604717 original size:8 final size:7
Alignment explanation
Indices: 604693--604733 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
604683 TTTTCATACA
604693 TGCATTT
1 TGCATTT
604700 T-CATTT
1 TGCATTT
604706 TGCATCTT
1 TGCAT-TT
604714 TGCATTT
1 TGCATTT
604721 T-CATTT
1 TGCATTT
*
604727 TACATTT
1 TGCATTT
604734 GTACTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 7 0.23
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:604839 original size:14 final size:15
Alignment explanation
Indices: 604822--604864 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
604812 TTTACGTTTG
604822 TATTTACATTTT-CA
1 TATTTACATTTTACA
*
604836 TATTTGCATCTTTACA
1 TATTTACAT-TTTACA
*
604852 TAATTACATTTTA
1 TATTTACATTTTA
604865 TTTCAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.33
15 7 0.29
16 9 0.38
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.53
Consensus pattern (15 bp):
TATTTACATTTTACA
Found at i:605136 original size:42 final size:42
Alignment explanation
Indices: 605065--605148 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
605055 AGAGATGATT
* * * *
605065 GATCAAGTAAAAAAGTTCCAGGGTAATTCAAATGAACAAATG
1 GATCAAGTAAAAAAATTCCAAGATAATTCAAAAGAACAAATG
* *
605107 GATCAAGTAAAAAAATTCCAAGATGATTCAAAAGAGCAAATG
1 GATCAAGTAAAAAAATTCCAAGATAATTCAAAAGAACAAATG
605149 ACAAAACTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (42 bp):
GATCAAGTAAAAAAATTCCAAGATAATTCAAAAGAACAAATG
Found at i:610079 original size:74 final size:74
Alignment explanation
Indices: 610001--610188 Score: 252
Period size: 74 Copynumber: 2.5 Consensus size: 74
609991 TATTTGGGCA
*
610001 TTTGAAAGCTCATATCAACAAATGCTGGGGCATGCTGAAAGCCCATTTCAATAAGAAATTGGAAT
1 TTTGAACG-TCATATCAACAAATGCTGGGGCATGCTGAAAGCCCATTTCAATAAGAAATTGGAAT
610066 ATT-ACGCAT
65 ATTGACGCAT
* * * * * *
610075 TTTGAACGTCTATATTAGCAAATACCGGGGCATGCTGAAAGCCCATTTCAATCAGGAATTGGAAT
1 TTTGAACGTC-ATATCAACAAATGCTGGGGCATGCTGAAAGCCCATTTCAATAAGAAATTGGAAT
*
610140 ATTGATGCAT
65 ATTGACGCAT
* *
610150 TTTGAACGTTCATATCAATAAATGCTGGGGCAGGCTGAA
1 TTTGAACG-TCATATCAACAAATGCTGGGGCATGCTGAA
610189 GGCCATGTCA
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
73 2 0.02
74 58 0.60
75 35 0.36
76 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (74 bp):
TTTGAACGTCATATCAACAAATGCTGGGGCATGCTGAAAGCCCATTTCAATAAGAAATTGGAATA
TTGACGCAT
Found at i:610620 original size:54 final size:53
Alignment explanation
Indices: 610552--610701 Score: 153
Period size: 54 Copynumber: 2.8 Consensus size: 53
610542 CATTGACCAG
* *
610552 AAATCT-GTGCAGAAGTCACATGAAAGGATGAATGTGTTGTTAAATGCTTTACGA
1 AAATCTAG-GCAGAAG-CACATGAAAGGATGAATGTGTTGTCAAAAGCTTTACGA
* * * *
610606 ACATCT-GGCCAGAAGCCACAAGAAATGATGAATGTGTTATCAAAAGCTTTACGA
1 AAATCTAGG-CAGAAG-CACATGAAAGGATGAATGTGTTGTCAAAAGCTTTACGA
* *
610660 AAATCTAGGCATAAGC-CATGAGAAAGGATGAATGTATTGTCA
1 AAATCTAGGCAGAAGCACAT--GAAAGGATGAATGTGTTGTCA
610702 CATGTTTTAT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
52 2 0.03
53 2 0.03
54 73 0.92
55 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (53 bp):
AAATCTAGGCAGAAGCACATGAAAGGATGAATGTGTTGTCAAAAGCTTTACGA
Found at i:611087 original size:22 final size:22
Alignment explanation
Indices: 611060--611116 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
611050 TACATCTACT
*
611060 TTTTCAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTATC
611082 TTTTCAAAGATGATAGATTATC
1 TTTTCAAAGATGATAGATTATC
611104 TTTTCAAAGATGA
1 TTTTCAAAGATGA
611117 AAACTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (22 bp):
TTTTCAAAGATGATAGATTATC
Found at i:611878 original size:45 final size:45
Alignment explanation
Indices: 611773--612434 Score: 1006
Period size: 45 Copynumber: 14.8 Consensus size: 45
611763 CTATTTCCCA
* *
611773 CATCTGTAAGCCCTTCAGTGCAAGATATTTTCAAAACCTTC-GGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* *
611817 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCTGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
*
611862 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTCCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* *
611907 CATCTGTAAGCCCTTCAGTGCAGAATGTTTTTAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
611952 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* *
611997 CATCTGTAAGCCCTTCAGTACAGGATGTTTTCAAAACCTTCGAGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* *
612042 CATCTATAAGCCATTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* *
612087 CA-CTGTAAGCCCTTCAGTACAGGATTTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* *
612131 CATCAGTAAGCCCTTCAGTGCAGGATATTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
612176 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* *
612221 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* * * *
612266 CATCTGTAAGCCCTTCAATACAAGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* * * *
612311 CATCTGTAAGACCTTCAGTCCATGATGTTTTC-AAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* * *
612355 CATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
* * * * *
612400 CATCTATAAGACCTACAGGGCAGGATATTTTCAAA
1 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAA
612435 TGAGATTTTA
Statistics
Matches: 567, Mismatches: 48, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
44 118 0.21
45 449 0.79
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
Found at i:612265 original size:269 final size:269
Alignment explanation
Indices: 611773--612434 Score: 1026
Period size: 269 Copynumber: 2.5 Consensus size: 269
611763 CTATTTCCCA
*
611773 CATCTGTAAGCCCTTCAGTGCAAGATATTTTCAAAACCTTC-GGTCATCTGTAAGCCCTTCAGTG
1 CATCTGTAAG-CCTTCAGTGCAAGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
* * *
611837 CATGATGTTTTCAAAACCTTCTGGTCATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTC
65 CATGATGTTTTCAAAACCTTCGGGTCATCAGTAAGCCCTTCAGTGCAGGATATTTTCAAAACCTC
* *
611902 CGGGTCATCTGTAAGCCCTTCAGTGCAGAATGTTTTTAAAACCTTCGGGTCATCTGTAAGCCCTT
130 CGGGTCATCTGTAAGCCCTTCAGTGCAGAATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTT
* *
611967 CAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTACAGGATGTTTTCAAA
195 CAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAATACAAGATGTTTTCAAA
612032 ACCTTCGAGT
260 ACCTTCGAGT
* * *
612042 CATCTATAAGCCATTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCA-CTGTAAGCCCTTCAGTA
1 CATCTGTAAGCC-TTCAGTGCAAGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
* * *
612106 CAGGATTTTTTCAAAACCTTCGGGTCATCAGTAAGCCCTTCAGTGCAGGATATTTTCAAAACCTT
65 CATGATGTTTTCAAAACCTTCGGGTCATCAGTAAGCCCTTCAGTGCAGGATATTTTCAAAACCTC
*
612171 CGGGTCATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTT
130 CGGGTCATCTGTAAGCCCTTCAGTGCAGAATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTT
*
612236 CAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAATACAAGATGTTTTCAAA
195 CAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAATACAAGATGTTTTCAAA
* *
612301 GCCTTCGGGT
260 ACCTTCGAGT
* * * *
612311 CATCTGTAAGACCTTCAGTCCATGATGTTTTC-AAACCTTTGGGTCATCTATAAGCCCTTCAGTG
1 CATCTGTAAG-CCTTCAGTGCAAGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG
* * * *
612375 CATGATGTTTTCAAAGCCTTCGGGTCATCTA-TAAGACCTACAGGGCAGGATATTTTCAAA
65 CATGATGTTTTCAAAACCTTCGGGTCATC-AGTAAGCCCTTCAGTGCAGGATATTTTCAAA
612435 TGAGATTTTA
Statistics
Matches: 358, Mismatches: 30, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
268 15 0.04
269 335 0.94
270 8 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (269 bp):
CATCTGTAAGCCTTCAGTGCAAGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
ATGATGTTTTCAAAACCTTCGGGTCATCAGTAAGCCCTTCAGTGCAGGATATTTTCAAAACCTCC
GGGTCATCTGTAAGCCCTTCAGTGCAGAATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTC
AGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAATACAAGATGTTTTCAAAA
CCTTCGAGT
Found at i:612671 original size:3 final size:3
Alignment explanation
Indices: 612663--612706 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
612653 TAATTTTCCA
* *
612663 TAT TAT TAT TAT TAT TAA AAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
612707 AAAAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:613742 original size:17 final size:19
Alignment explanation
Indices: 613706--613745 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
613696 ATTTCTAAAT
613706 ATTTTAATTTGATCTTATA
1 ATTTTAATTTGATCTTATA
*
613725 ATTTT-ATTTTAT-TTATA
1 ATTTTAATTTGATCTTATA
613742 ATTT
1 ATTT
613746 AGTCACCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTAATTTGATCTTATA
Found at i:614046 original size:25 final size:24
Alignment explanation
Indices: 614018--614089 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
614008 ATCATTATTT
614018 ATTTGCAATATTATTTTATTATTAC
1 ATTTG-AATATTATTTTATTATTAC
*
614043 ATTTG-ATATATATTTAAATTATTAC
1 ATTTGAATAT-TATTT-TATTATTAC
* *
614068 -TTTTATTATTATTTTATTATTA
1 ATTTGAATATTATTTTATTATTA
614090 TCTTAGTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 11 0.28
24 13 0.32
25 16 0.40
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (24 bp):
ATTTGAATATTATTTTATTATTAC
Found at i:614084 original size:11 final size:11
Alignment explanation
Indices: 614026--614090 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 11
614016 TTATTTGCAA
614026 TATTATTTTAT
1 TATTATTTTAT
*
614037 TATTACATTTGA-
1 TATT--ATTTTAT
*
614049 TATATATTTAAAT
1 TAT-TATTT-TAT
614062 TATTACTTTTAT
1 TATTA-TTTTAT
614074 TATTATTTTAT
1 TATTATTTTAT
614085 TATTAT
1 TATTAT
614091 CTTAGTCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 20 0.44
12 13 0.29
13 12 0.27
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:616130 original size:31 final size:31
Alignment explanation
Indices: 616075--616182 Score: 110
Period size: 32 Copynumber: 3.4 Consensus size: 31
616065 ATTGGATGTA
* * *
616075 AGAGCCAACCTAAGGGAGTACCTTGGGGCCTT
1 AGAGCCTACCCAAGGAAG-ACCTTGGGGCCTT
* * *
616107 AGGGCCTACCCAAGGAATG-CCTTGGTGCCTC
1 AGAGCCTACCCAAGGAA-GACCTTGGGGCCTT
* *
616138 AGATCCTATCCAAGGAAGCACCTTGGGGCCTT
1 AGAGCCTACCCAAGGAAG-ACCTTGGGGCCTT
616170 AGAGCCTACCCAA
1 AGAGCCTACCCAA
616183 TAGAATATTT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
30 1 0.02
31 24 0.40
32 34 0.57
33 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (31 bp):
AGAGCCTACCCAAGGAAGACCTTGGGGCCTT
Found at i:620952 original size:45 final size:46
Alignment explanation
Indices: 620900--621110 Score: 279
Period size: 45 Copynumber: 4.7 Consensus size: 46
620890 TAAATTATTA
* * *
620900 CATACTTTTATGTTGATAATGCACCCATATGA-ATTTCAAGTATAA
1 CATACTTTTCTGTTGATAATGCACCCATATGACATTTCAACTATAG
* * *
620945 TATACTTTTCTGTTGAAAATGTACCCATAT-ACATTTCAACTATAG
1 CATACTTTTCTGTTGATAATGCACCCATATGACATTTCAACTATAG
*
620990 CATACTTTTCTGTTGATAATGCACCCATATG-CATTTCGACTATAG
1 CATACTTTTCTGTTGATAATGCACCCATATGACATTTCAACTATAG
* *
621035 CATACTTTTCTGTTGATAATGTACCCATAT-ACATTTCAACTATGG
1 CATACTTTTCTGTTGATAATGCACCCATATGACATTTCAACTATAG
* *
621080 CAT-CTTTTCATGCTAATAATGCACCCATATG
1 CATACTTTTC-TGTTGATAATGCACCCATATG
621111 TATTATTATT
Statistics
Matches: 145, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
44 7 0.05
45 138 0.95
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (46 bp):
CATACTTTTCTGTTGATAATGCACCCATATGACATTTCAACTATAG
Found at i:621056 original size:90 final size:90
Alignment explanation
Indices: 620900--621110 Score: 316
Period size: 90 Copynumber: 2.3 Consensus size: 90
620890 TAAATTATTA
* * *
620900 CATACTTTTATGTTGATAATGCACCCATATGAATTTCAAGTATAATATACTTTTCTGTTGAAAAT
1 CATACTTTTCTGTTGATAATGCACCCATATGAATTTCAACTATAACATACTTTTCTGTTGAAAAT
620965 GTACCCATATACATTTCAACTATAG
66 GTACCCATATACATTTCAACTATAG
* * * *
620990 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCGACTATAGCATACTTTTCTGTTGATAAT
1 CATACTTTTCTGTTGATAATGCACCCATATGAATTTCAACTATAACATACTTTTCTGTTGAAAAT
*
621055 GTACCCATATACATTTCAACTATGG
66 GTACCCATATACATTTCAACTATAG
* *
621080 CAT-CTTTTCATGCTAATAATGCACCCATATG
1 CATACTTTTC-TGTTGATAATGCACCCATATG
621111 TATTATTATT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 6 0.05
90 104 0.95
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (90 bp):
CATACTTTTCTGTTGATAATGCACCCATATGAATTTCAACTATAACATACTTTTCTGTTGAAAAT
GTACCCATATACATTTCAACTATAG
Found at i:621505 original size:22 final size:20
Alignment explanation
Indices: 621462--621516 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
621452 TGGCCTTTCA
621462 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
**
621482 GTATCGATACTACCCTACTTTG
1 GTATCGATAC--CCCTACCATG
621504 GTATCGATACCCC
1 GTATCGATACCCC
621517 CTTCCAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 18 0.58
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.29
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:621526 original size:19 final size:19
Alignment explanation
Indices: 621504--621552 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
621494 CCCTACTTTG
*
621504 GTATCGATACCCCCTTCCA
1 GTATCAATACCCCCTTCCA
621523 GTATCAATACCCCCTTCCA
1 GTATCAATACCCCCTTCCA
621542 GTATCAATACC
1 GTATCAATACC
621553 AAAATTAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.39, G:0.08, T:0.27
Consensus pattern (19 bp):
GTATCAATACCCCCTTCCA
Found at i:621645 original size:19 final size:19
Alignment explanation
Indices: 621576--621647 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
621566 ATGTGGCCTA
* *
621576 GTATCGATACCCTTACCATG
1 GTATCGATACCCATA-TATG
*
621596 GTATCGATACTACTATAATATG
1 GTATCGATAC--CCAT-ATATG
*
621618 GTA-CTGATACCCCTATATG
1 GTATC-GATACCCATATATG
621637 GTATCGATACC
1 GTATCGATACC
621648 AAAATTAGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
19 14 0.33
20 13 0.31
21 1 0.02
22 13 0.31
23 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (19 bp):
GTATCGATACCCATATATG
Found at i:621647 original size:95 final size:94
Alignment explanation
Indices: 621542--621721 Score: 238
Period size: 95 Copynumber: 1.9 Consensus size: 94
621532 CCCCCTTCCA
* * *
621542 GTATCAATACCAAAATTAGATTTGATGTGGCCTAG-TATCGATACCCTTACCATGGTATCGATAC
1 GTATCAATACCAAAATTAGATTTGATGTGACC-AGATATCAATACCCTCACCATGGTATCGATAC
*
621606 TACTATAATAT-GGTACTGATACCCCTATATG
65 CACT-TAAT-TCGGTACTGATACCCCTATATG
* * * *
621637 GTATCGATACCAAAATTAGGTTTGATGTTACCCGATATCAATACCCTCACCATGGTATCGATACC
1 GTATCAATACCAAAATTAGATTTGATGTGACCAGATATCAATACCCTCACCATGGTATCGATACC
*
621702 ACTTCATTCGGTACTGATAC
66 ACTTAATTCGGTACTGATAC
621722 TGATTGAATC
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
93 1 0.01
94 15 0.20
95 58 0.78
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (94 bp):
GTATCAATACCAAAATTAGATTTGATGTGACCAGATATCAATACCCTCACCATGGTATCGATACC
ACTTAATTCGGTACTGATACCCCTATATG
Found at i:628819 original size:45 final size:45
Alignment explanation
Indices: 628763--629022 Score: 387
Period size: 45 Copynumber: 5.8 Consensus size: 45
628753 CACTTTAAAT
* * *
628763 TATAGCATACTTTTCTGTTGATAATTTACCCATATGCATTTCAAC
1 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
628808 TATAGTATACTTTTCTGTTAAAAATGTACCCATATACATTTCAAC
1 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
628853 TATAGTAT-CTTTTTCTGTTGAAAATGTACCCATATACATTTCAAC
1 TATAGTATAC-TTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * ** **
628898 TATAGCATACTTTTTTGTTGATAATACACCCATATGTATTTCAAC
1 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
628943 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
628988 TATAGTATACTTTTCTGTTGATAATGTACTCATAT
1 TATAGTATACTTTTCTGTTGATAATGTACCCATAT
629023 TTCAACTATG
Statistics
Matches: 193, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
44 1 0.01
45 191 0.99
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (45 bp):
TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
Found at i:629005 original size:135 final size:135
Alignment explanation
Indices: 628763--629022 Score: 432
Period size: 135 Copynumber: 1.9 Consensus size: 135
628753 CACTTTAAAT
**
628763 TATAGCATACTTTTCTGTTGATAATTTACCCATATGCATTTCAACTATAGTATACTTTTCTGTTA
1 TATAGCATACTTTTCTGTTGATAATACACCCATATGCATTTCAACTATAGTATACTTTTCTGTTA
628828 AAAATGTACCCATATACATTTCAACTATAGTATCTTTTTCTGTTGAAAATGTACCCATATACATT
66 AAAATGTACCCATATACATTTCAACTATAGTATCTTTTTCTGTTGAAAATGTACCCATATACATT
628893 TCAAC
131 TCAAC
* * *
628898 TATAGCATACTTTTTTGTTGATAATACACCCATATGTATTTCAACTATAGTATACTTTTCTGTTG
1 TATAGCATACTTTTCTGTTGATAATACACCCATATGCATTTCAACTATAGTATACTTTTCTGTTA
* * *
628963 ATAATGTACCCATATACATTTCAACTATAGTATAC-TTTTCTGTTGATAATGTACTCATAT
66 AAAATGTACCCATATACATTTCAACTATAGTAT-CTTTTTCTGTTGAAAATGTACCCATAT
629023 TTCAACTATG
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
135 115 0.99
136 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (135 bp):
TATAGCATACTTTTCTGTTGATAATACACCCATATGCATTTCAACTATAGTATACTTTTCTGTTA
AAAATGTACCCATATACATTTCAACTATAGTATCTTTTTCTGTTGAAAATGTACCCATATACATT
TCAAC
Found at i:632470 original size:23 final size:24
Alignment explanation
Indices: 632431--632480 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
632421 TTTTTAAAAA
632431 AATAATAAATAACTTA-TTTTTAT
1 AATAATAAATAACTTATTTTTTAT
*
632454 AATATATAAAT-ATTTATTTTTTAT
1 AATA-ATAAATAACTTATTTTTTAT
632478 AAT
1 AAT
632481 TTAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
AATAATAAATAACTTATTTTTTAT
Found at i:632662 original size:19 final size:18
Alignment explanation
Indices: 632620--632656 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
632610 TATCTAATTA
632620 AAAATTTTAATTCAAAAT
1 AAAATTTTAATTCAAAAT
*
632638 AAAATTTATAATTTAAAAT
1 AAAATTT-TAATTCAAAAT
632657 TTAATTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTTTAATTCAAAAT
Found at i:633484 original size:20 final size:19
Alignment explanation
Indices: 633437--633475 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
633427 ATGACCAACA
* *
633437 AAATCGCAATGCGATCTCT
1 AAATCGCAACGAGATCTCT
633456 AAATCGCAACGAGATCTCT
1 AAATCGCAACGAGATCTCT
633475 A
1 A
633476 GTATCGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (19 bp):
AAATCGCAACGAGATCTCT
Found at i:633564 original size:21 final size:21
Alignment explanation
Indices: 633518--633565 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
633508 GATTTTGACT
*
633518 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAA
* * *
633539 TTCGCGTTGCGATTTTAGAAA
1 ATCGCATTGCGATTTTACAAA
633560 ATCGCA
1 ATCGCA
633566 ACGCGAATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
ATCGCATTGCGATTTTACAAA
Found at i:633804 original size:22 final size:22
Alignment explanation
Indices: 633779--633829 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
633769 CTACGGTGAC
633779 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
633801 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
633823 ATCCGTC
1 ATCCGTC
633830 TATCTCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:634274 original size:20 final size:20
Alignment explanation
Indices: 634249--634301 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
634239 CGATTTTCAT
634249 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
**
634269 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
634289 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
634302 TTTAAGTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:634311 original size:20 final size:19
Alignment explanation
Indices: 634219--634311 Score: 69
Period size: 20 Copynumber: 4.7 Consensus size: 19
634209 AAATCGCAAC
* *
634219 GCGATTTTAGTTTCGAGTT
1 GCGATTTTAATTTCGCGTT
*
634238 GCGATTTTCATTTCGCGTT
1 GCGATTTTAATTTCGCGTT
* * *
634257 GCGATAGTCAAATTCGCGTT
1 GCGAT-TTTAATTTCGCGTT
* * * *
634277 GCGATAGTCATTTTCGTGTT
1 GCGAT-TTTAATTTCGCGTT
634297 GCGATTTTAAGTTTC
1 GCGATTTTAA-TTTC
634312 AGAAACTATT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
19 23 0.39
20 36 0.61
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (19 bp):
GCGATTTTAATTTCGCGTT
Done.