Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_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: 3509357
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:363488 original size:25 final size:25
Alignment explanation
Indices: 363419--363494 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
363409 CAAGTATATA
363419 GGTAAAATAAGCTTACGAGCTTAT-
1 GGTAAAATAAGCTTACGAGCTTATG
* *
363443 GG---AATAA--TGACAAG-TATATG
1 GGTAAAATAAGCTTACGAGCT-TATG
363463 GGTAAAATAAGCTTACGAGCTTATG
1 GGTAAAATAAGCTTACGAGCTTATG
363488 GGATAAA
1 GG-TAAA
363495 TGGTAAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
18 1 0.03
19 8 0.21
20 2 0.05
21 5 0.13
23 5 0.13
24 2 0.05
25 11 0.28
26 5 0.13
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (25 bp):
GGTAAAATAAGCTTACGAGCTTATG
Found at i:363518 original size:45 final size:44
Alignment explanation
Indices: 363379--363532 Score: 245
Period size: 44 Copynumber: 3.5 Consensus size: 44
363369 GTAAGCATGT
363379 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATAGGTA
1 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATAGGTA
*
363423 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATAGGTA
* ** * *
363467 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTAAATTGGTA
1 AAATAAGCTTACGAGCTTATGGAAT-AATGACAAGTATATAGGTA
363512 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
363533 AGATTAAATT
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 67 0.65
45 36 0.35
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATAGGTA
Found at i:364175 original size:20 final size:20
Alignment explanation
Indices: 364123--364167 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
364113 CCGGATGAGG
364123 ATCTAGAGGAGA-TTTTTTA
1 ATCTAGAGGAGATTTTTTTA
364142 ATCTAGAGGAGATTTTTTTA
1 ATCTAGAGGAGATTTTTTTA
364162 ATCTAG
1 ATCTAG
364168 TGATGATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (20 bp):
ATCTAGAGGAGATTTTTTTA
Found at i:369533 original size:59 final size:59
Alignment explanation
Indices: 369434--369561 Score: 157
Period size: 59 Copynumber: 2.2 Consensus size: 59
369424 CAGCAGGCTG
** * *
369434 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** * * *
369493 CATATTCGGGACTGTACTTAAGGGTACCTAGTACAGATGGTGGACACGACCTTTTGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
*
369552 CATACTCGGG
1 CATATTCGGG
369562 TTAGCACTAC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:369646 original size:14 final size:14
Alignment explanation
Indices: 369627--369656 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
369617 TTGGGCTATT
369627 GTCTATGGTAAATG
1 GTCTATGGTAAATG
*
369641 GTCTATGGTATATG
1 GTCTATGGTAAATG
369655 GT
1 GT
369657 TTATTTCTTA
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:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (14 bp):
GTCTATGGTAAATG
Found at i:369783 original size:45 final size:45
Alignment explanation
Indices: 369684--369802 Score: 159
Period size: 45 Copynumber: 2.6 Consensus size: 45
369674 GTAAGAATGC
* * *
369684 AAATAAGCTTACGGGCTTATGGAAT-AATGACAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGACAAGTAAATGGGTA
** *
369728 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTAAATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGACAAGTAAATGGGTA
*
369773 AAATAGGCTTACGAGCTTATGGGATTAAAT
1 AAATAAGCTTACGAGCTTATGGGA-TAAAT
369803 TTGTTATAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 23 0.35
45 38 0.58
46 5 0.08
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGACAAGTAAATGGGTA
Found at i:370957 original size:45 final size:46
Alignment explanation
Indices: 370902--371003 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 46
370892 TGCACAAGGC
370902 ATGCATCGATGCACTCCTA-AATAATTTG-AACATCGAATGCATTTT
1 ATGCATCGATGCACTCC-AGAATAATTTGAAACATCGAATGCATTTT
** * *
370947 ATGCATCGATGCACTCCAGGCTTATTTGAAACATCGAATGTATTTT
1 ATGCATCGATGCACTCCAGAATAATTTGAAACATCGAATGCATTTT
370993 ATGCATCGATG
1 ATGCATCGATG
371004 AACCCATAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.02
45 23 0.45
46 27 0.53
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (46 bp):
ATGCATCGATGCACTCCAGAATAATTTGAAACATCGAATGCATTTT
Found at i:370958 original size:64 final size:64
Alignment explanation
Indices: 370838--370960 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 64
370828 GCACTATATA
* ** *
370838 ATGCATCAATGCACCCTTGAATAAATTGAATTTCAAATGCATTTTATGTACTGATGCACAAGGC
1 ATGCATCAATGCACCCTTAAATAAATTGAACATCAAATGCATTTTATGCACTGATGCACAAGGC
* * *
370902 ATGCATCGATGCACTCC-TAAATAATTTGAACATCGAATGCATTTTATGCA-TCGATGCAC
1 ATGCATCAATGCAC-CCTTAAATAAATTGAACATCAAATGCATTTTATGCACT-GATGCAC
370961 TCCAGGCTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
63 1 0.02
64 47 0.94
65 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (64 bp):
ATGCATCAATGCACCCTTAAATAAATTGAACATCAAATGCATTTTATGCACTGATGCACAAGGC
Found at i:373869 original size:18 final size:18
Alignment explanation
Indices: 373846--373899 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 18
373836 CCACAAAAAA
373846 TATTTTTATTAAAAATAT
1 TATTTTTATTAAAAATAT
373864 TATTTTTATTCAATAAAAATAT
1 TATTTTTA-T---TAAAAATAT
373886 TATTTTTTATTAAA
1 TA-TTTTTATTAAA
373900 TAAAAATAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
18 8 0.26
19 5 0.16
22 12 0.39
23 6 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTTTATTAAAAATAT
Found at i:373880 original size:22 final size:23
Alignment explanation
Indices: 373855--373907 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
373845 ATATTTTTAT
*
373855 TAAAAATATTA-TTTTTATTCAA
1 TAAAAATATTATTTTTTATTAAA
373877 TAAAAATATTATTTTTTATTAAA
1 TAAAAATATTATTTTTTATTAAA
373900 TAAAAATA
1 TAAAAATA
373908 GAGATTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAAAATATTATTTTTTATTAAA
Found at i:376328 original size:6 final size:6
Alignment explanation
Indices: 376319--376360 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
376309 TAATTAAAAT
* *
376319 TTTAAA TTT-AA TTTAAA TTTAAA TTTTAAA ATTAAT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
376361 AAATGCCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:376342 original size:24 final size:24
Alignment explanation
Indices: 376303--376356 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
376293 TAATGGAAAT
376303 ATTAA-TT-AATTAAAATTTTAAA
1 ATTAATTTAAATTAAAATTTTAAA
* *
376325 TTTAATTTAAATTTAAATTTTAAA
1 ATTAATTTAAATTAAAATTTTAAA
376349 ATTAATTT
1 ATTAATTT
376357 TAAAAAATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 4 0.15
23 2 0.07
24 21 0.78
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTAATTTAAATTAAAATTTTAAA
Found at i:376347 original size:18 final size:18
Alignment explanation
Indices: 376308--376344 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
376298 GAAATATTAA
376308 TTAATTAAAATTTTAAAT
1 TTAATTAAAATTTTAAAT
*
376326 TTAATTTAAA-TTTAAAT
1 TTAATTAAAATTTTAAAT
376343 TT
1 TT
376345 TAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATTAAAATTTTAAAT
Found at i:376355 original size:12 final size:12
Alignment explanation
Indices: 376316--376361 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
376306 AATTAATTAA
*
376316 AATTTTAAATTT
1 AATTTTAAAATT
*
376328 AA-TTTAAATTT
1 AATTTTAAAATT
376339 AAATTTTAAAATT
1 -AATTTTAAAATT
376352 AATTTTAAAA
1 AATTTTAAAA
376362 AATGCCTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 9 0.29
12 14 0.45
13 8 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTTTAAAATT
Found at i:378913 original size:3 final size:3
Alignment explanation
Indices: 378898--378943 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
378888 GGTTAAAAAA
* *
378898 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
378944 AGTGTGTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:381372 original size:19 final size:19
Alignment explanation
Indices: 381333--381372 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
381323 TCCTCTTTTT
*
381333 AAATAATTAATTTGAAGTA
1 AAATAATTAATTTCAAGTA
381352 AAATAATTAAATTTCAA-TA
1 AAATAATT-AATTTCAAGTA
381371 AA
1 AA
381373 TGGATCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATAATTAATTTCAAGTA
Found at i:392695 original size:17 final size:17
Alignment explanation
Indices: 392627--392703 Score: 79
Period size: 17 Copynumber: 4.6 Consensus size: 17
392617 ACTATGCTTG
* *
392627 AAGAAAAAAAAGAAACA
1 AAGAAAAAAATGAAAAA
* *
392644 AATAAAAAGATGAAAAA
1 AAGAAAAAAATGAAAAA
392661 AATG-AAAAAATG--AAA
1 AA-GAAAAAAATGAAAAA
392676 AAGAAAAAAATGAAAAA
1 AAGAAAAAAATGAAAAA
392693 AAGAAATAAAA
1 AAGAAA-AAAA
392704 AATGAAAAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.02
15 13 0.27
17 31 0.63
18 4 0.08
ACGTcount: A:0.79, C:0.01, G:0.12, T:0.08
Consensus pattern (17 bp):
AAGAAAAAAATGAAAAA
Found at i:392705 original size:23 final size:23
Alignment explanation
Indices: 392627--392698 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 23
392617 ACTATGCTTG
*
392627 AAGAAAAAAAAGAAACAAATA-AAA
1 AAGAAAAAAATGAAA-AAA-AGAAA
*
392651 AGATGAAAAAAATGAAAAAATGAAA
1 A-A-GAAAAAAATGAAAAAAAGAAA
392676 AAGAAAAAAATGAAAAAAAGAAA
1 AAGAAAAAAATGAAAAAAAGAAA
392699 TAAAAAATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 20 0.48
24 2 0.05
25 8 0.19
26 12 0.29
ACGTcount: A:0.79, C:0.01, G:0.12, T:0.07
Consensus pattern (23 bp):
AAGAAAAAAATGAAAAAAAGAAA
Found at i:392711 original size:8 final size:8
Alignment explanation
Indices: 392631--392698 Score: 61
Period size: 8 Copynumber: 8.4 Consensus size: 8
392621 TGCTTGAAGA
*
392631 AAAAAAAG
1 AAAAAATG
392639 AAACAAAT-
1 AAA-AAATG
392647 AAAAAGATG
1 AAAAA-ATG
392656 AAAAAAATG
1 -AAAAAATG
392665 AAAAAATG
1 AAAAAATG
392673 -AAAAA-G
1 AAAAAATG
392679 AAAAAAATG
1 -AAAAAATG
*
392688 AAAAAAAG
1 AAAAAATG
392696 AAA
1 AAA
392699 TAAAAAATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
6 1 0.02
7 7 0.14
8 31 0.61
9 7 0.14
10 5 0.10
ACGTcount: A:0.79, C:0.01, G:0.12, T:0.07
Consensus pattern (8 bp):
AAAAAATG
Found at i:392711 original size:17 final size:17
Alignment explanation
Indices: 392643--392713 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
392633 AAAAAGAAAC
392643 AAATAAAAAGATGAAAA-
1 AAATAAAAA-ATGAAAAG
392660 AAATGAAAAAATGAAAAAG
1 AAAT-AAAAAATG-AAAAG
*
392679 AAA-AAAATGAA-AAAAAG
1 AAATAAAA--AATGAAAAG
392696 AAATAAAAAATGAAAAG
1 AAATAAAAAATGAAAAG
392713 A
1 A
392714 GAAAAATGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
16 2 0.04
17 25 0.56
18 13 0.29
19 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (17 bp):
AAATAAAAAATGAAAAG
Found at i:394206 original size:332 final size:332
Alignment explanation
Indices: 393589--394899 Score: 2128
Period size: 332 Copynumber: 4.0 Consensus size: 332
393579 GTGTACCAAT
* * * * * *
393589 ATTTCCAATGGAGAGTTCACAATAAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGA
1 ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCGAAAGAGGGAGAAGAAGTTCATAATGA
* * **
393654 GAAGAGCCTATTCGACCTATCACTAGATTCACGGTATTTCGAATTAGTGACACCTCGCTTGAGGG
66 GAAGAGCTTGTTCGACCTATCACTAGATTCACGACATTTCGAATTAGTGACACCTCGCTTGAGGG
*
393719 ATTGACATTTTCAGAAGAGTTCATAATAAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAG
131 ATTGACATTTTCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAG
393784 AAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTTCA
196 AAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTTCA
* *
393849 TAATAAGAAGAACTCATCAAATGAGAGAGAATAAGTTCATAATGAGAAGAACTTGTCCAACTTCG
261 TAATAAGAAGAACTCATCCAACGAGAGAGAATAAGTTCATAATGAGAAGAACTTGTCCAACTTCG
393914 CATCAAC
326 CATCAAC
**
393921 ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCTAAAAGAGGGAGAAGAAGTTCATAATGA
1 ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCGAAAGAGGGAGAAGAAGTTCATAATGA
* * *
393986 GAAGATTCTAT-TT-GACCTATCACTAGATTCACGGCATTTCGAATTAGTGACACCTTGCTTGAG
66 GAAGA-GCT-TGTTCGACCTATCACTAGATTCACGACATTTCGAATTAGTGACACCTCGCTTGAG
394049 GGATTGACATTTTCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATG
129 GGATTGACATTTTCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATG
*
394114 AGAAGAACTTCTTCCTTTCAAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTT
194 AGAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTT
* *
394179 CATAATAAAAAGAACTCATCCAATGAGAGAGAATAAGTTCATAATGAGAAGAACTTGTCCAACTT
259 CATAATAAGAAGAACTCATCCAACGAGAGAGAATAAGTTCATAATGAGAAGAACTTGTCCAACTT
394244 CGCATCAAC
324 CGCATCAAC
394253 ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCGAAAGAGGGAGAAGAAGTTCATAATGA
1 ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCGAAAGAGGGAGAAGAAGTTCATAATGA
* *
394318 GAAGAGCTTGTTCGACCTATCACTTGATTCACGACATTTTGAATTAGTGACACCTCGCTTGAGGG
66 GAAGAGCTTGTTCGACCTATCACTAGATTCACGACATTTCGAATTAGTGACACCTCGCTTGAGGG
394383 ATTGACATTTTCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAG
131 ATTGACATTTTCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAG
* * * *
394448 AAGAAATTGTTCCTTTCAAGTCTATCACGGAAAGAGATGGATCAATATTTCCAATGGAGAGTTCA
196 AAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTTCA
*
394513 TAATAAGAAGAACTCCTCCAACGAGAGAGAATAAGTTCATAATGAGAAGAACTTGTCCAACTTCG
261 TAATAAGAAGAACTCATCCAACGAGAGAGAATAAGTTCATAATGAGAAGAACTTGTCCAACTTCG
394578 CATCAAC
326 CATCAAC
394585 ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCGAAAGAGGGAGAAGAAGTTCATAATGA
1 ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCGAAAGAGGGAGAAGAAGTTCATAATGA
* * ** *
394650 GAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGATGCCTC-ATTAGAGG
66 GAAGAGCTTGTTCGACCTATCACTAGATTCACGACATTTCGAATTAGTGACACCTCGCTT-GAGG
* * *
394714 GATTGACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCTTAAAGGAGAAAGTTCATAATGA
130 GATTGACATTTTCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGA
* * * * * * * *
394779 AAAGAACTTGTTCCTTTTAAGTCCACCACATAAATAGGT-GACTCAACATTTCCAGTGAAGAGTT
195 GAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGA-TCAACATTTCCAATGGAGAGTT
* * *
394843 CATAATGAGAAGAACTCATCC-ACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGT
259 CATAATAAGAAGAACTCATCCAACGAGAGAGAATAAGTTCATAATGAGAAGAACTTGT
394900 TCAATCCAAC
Statistics
Matches: 917, Mismatches: 56, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
330 1 0.00
331 42 0.05
332 870 0.95
333 3 0.00
334 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (332 bp):
ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCGAAAGAGGGAGAAGAAGTTCATAATGA
GAAGAGCTTGTTCGACCTATCACTAGATTCACGACATTTCGAATTAGTGACACCTCGCTTGAGGG
ATTGACATTTTCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAG
AAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTTCA
TAATAAGAAGAACTCATCCAACGAGAGAGAATAAGTTCATAATGAGAAGAACTTGTCCAACTTCG
CATCAAC
Found at i:394616 original size:91 final size:92
Alignment explanation
Indices: 394488--394660 Score: 258
Period size: 91 Copynumber: 1.9 Consensus size: 92
394478 AAAGAGATGG
* * * *
394488 ATCAATATTTCCAATGGAGAGTTCATAATAAGAAGAACTCCTCC-AACGAGAGAGAATAAGTTCA
1 ATCAACATTTCCAATGGAGAGCTCATAATAAGAAGAACTCCTCCGAAAGAGAGAGAAGAAGTTCA
394552 TAATGAGAAGAACTTGTCCAACTTCGC
66 TAATGAGAAGAACTTGTCCAACTTCGC
* * * *
394579 ATCAACATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCGAAAGAGGGAGAAGAAGTTCA
1 ATCAACATTTCCAATGGAGAGCTCATAATAAGAAGAACTCCTCCGAAAGAGAGAGAAGAAGTTCA
*
394644 TAATGAGAAGAGCTTGT
66 TAATGAGAAGAACTTGT
394661 TCGACCTATC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 39 0.54
92 33 0.46
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (92 bp):
ATCAACATTTCCAATGGAGAGCTCATAATAAGAAGAACTCCTCCGAAAGAGAGAGAAGAAGTTCA
TAATGAGAAGAACTTGTCCAACTTCGC
Found at i:395041 original size:3 final size:3
Alignment explanation
Indices: 395026--395077 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
395016 GGTTAAAAAA
*
395026 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
395073 TAT TA
1 TAT TA
395078 AGTGTGTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 45 0.98
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:397502 original size:19 final size:19
Alignment explanation
Indices: 397463--397502 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
397453 TCCTCTTTTT
*
397463 AAATAATTAATTTGAAGTA
1 AAATAATTAATTTCAAGTA
397482 AAATAATTAAATTTCAA-TA
1 AAATAATT-AATTTCAAGTA
397501 AA
1 AA
397503 TGGATCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATAATTAATTTCAAGTA
Found at i:398301 original size:18 final size:18
Alignment explanation
Indices: 398268--398404 Score: 83
Period size: 17 Copynumber: 7.9 Consensus size: 18
398258 GATGAATTCT
*
398268 AAATG-TTTATAGTTATC
1 AAATGATTTACAGTTATC
*
398285 AAATGATTTTCAGTTATC
1 AAATGATTTACAGTTATC
**
398303 AAAT-ATTTACAAATATC
1 AAATGATTTACAGTTATC
* *
398320 AAATGA-TTACAATTGTC
1 AAATGATTTACAGTTATC
* **
398337 AGAT-ATTTACAGGCATC
1 AAATGATTTACAGTTATC
*
398354 AGATGA-TTACAGTTAT-
1 AAATGATTTACAGTTATC
398370 AACAT-ATTTACA-TATATC
1 AA-ATGATTTACAGT-TATC
* * *
398388 AGATGTTTTACATTTAT
1 AAATGATTTACAGTTAT
398405 TAGACACAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
16 4 0.04
17 62 0.67
18 26 0.28
19 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATTTACAGTTATC
Found at i:398392 original size:34 final size:33
Alignment explanation
Indices: 398281--398388 Score: 99
Period size: 34 Copynumber: 3.2 Consensus size: 33
398271 TGTTTATAGT
*
398281 TATCAAATGATTTTCAGTTATCAAATATTTACAAA
1 TATCAAATGA-TTACAGTTAT-AAATATTTACAAA
* * * **
398316 TATCAAATGATTACAATTGTCAGATATTTACAGG
1 TATCAAATGATTACAGTTAT-AAATATTTACAAA
* * *
398350 CATCAGATGATTACAGTTATAACATATTTACATA
1 TATCAAATGATTACAGTTATAA-ATATTTACAAA
398384 TATCA
1 TATCA
398389 GATGTTTTAC
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
33 1 0.02
34 47 0.81
35 10 0.17
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (33 bp):
TATCAAATGATTACAGTTATAAATATTTACAAA
Found at i:398503 original size:7 final size:7
Alignment explanation
Indices: 398491--398517 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
398481 TACTTTTCAA
398491 TTATCAG
1 TTATCAG
398498 TTATCAG
1 TTATCAG
398505 TTATCAG
1 TTATCAG
398512 TTATCA
1 TTATCA
398518 ATTCAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (7 bp):
TTATCAG
Found at i:399892 original size:71 final size:73
Alignment explanation
Indices: 399755--399904 Score: 232
Period size: 75 Copynumber: 2.0 Consensus size: 73
399745 GGATAATCTG
399755 ATTGACAAAATTTCAATAATGATAATTAAAATAAAAATGAGCAACAAATAAGTAATCAATGATAT
1 ATTGACAAAATTTCAATAATGATAATTAAAATAAAAAT--G-AACAAATAAGTAATCAATGATAT
399820 AATTTACCC-A
63 AATTTACCCTA
* **
399830 ATTGACAAAATTTCAATAATGATAATTAAAATTAAAAT-AACAGTTAAGTAATCAATGATATAAT
1 ATTGACAAAATTTCAATAATGATAATTAAAATAAAAATGAACAAATAAGTAATCAATGATATAAT
399894 TTACCCTA
66 TTACCCTA
399902 ATT
1 ATT
399905 TTTCCGACAC
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
71 30 0.42
72 4 0.06
75 37 0.52
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.31
Consensus pattern (73 bp):
ATTGACAAAATTTCAATAATGATAATTAAAATAAAAATGAACAAATAAGTAATCAATGATATAAT
TTACCCTA
Found at i:401573 original size:23 final size:23
Alignment explanation
Indices: 401526--401575 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
401516 AATAACATAT
**
401526 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
401549 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
401572 TAGG
1 TAGG
401576 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:401635 original size:87 final size:87
Alignment explanation
Indices: 401489--401651 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
401479 TATATTATAT
* * *
401489 CATTTATCCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAAGT
401554 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
*
401576 CATTTAACCGGAAATATTATCAAGTACAATAACAAATTAGGTAGCGCTTATATAATGTAATAAGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAAGT
401641 AGCGCTTATAT
66 AGCGCTTATAT
401652 TGACTTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAAGT
AGCGCTTATATAATAAAATAGG
Found at i:402148 original size:201 final size:196
Alignment explanation
Indices: 401670--402170 Score: 492
Period size: 201 Copynumber: 2.5 Consensus size: 196
401660 TTTCTCATAA
* * * * *
401670 AACCGATAAATTTAAACCGGTTACATT-ATAAATTGACCTATTACATTAT-GTATATCGGTTTCG
1 AACCGGTATATTTTAACCGGTTACATTGA-AAATTTACCTATTACATTATAAT-TATCGGTTTCG
* * * * *
401733 ATGTTTTCGGGATCGATACAATTTT-AAATGTATCAACACTTTATGTGTGCAACTCGTTTGTGCT
64 ATGTTTT-GGGATCGATAC-TTTTTAAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCT
* * * * * *
401797 TTATTTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTCGATACATAATATAGACCTATTTGT
127 TCATTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATATAGACATATTTGC
*
401862 TAATT
192 TAATG
* * * * *
401867 AACCGGTGTATTTTAACCGGTTACATTGTAAATTTACCTGTTACATAATAATTATCGATTTCGAT
1 AACCGGTATATTTTAACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGAT
* * * * *
401932 GTTTCGATGATCGATACTTTTTACAAACGTATTGACACTTTATGCGTACACCTCGTTTG-CCATT
66 GTTTTG-GGATCGATACTTTTTA-AAATGTATCGACACTTTATGCGTACAACTCGTTTGTCC-TT
* * * * *
401996 CATTTTGGAAAAATGTATCGACACAAATTAAAAAAAAGTGTCGATACTTTATGTTGACATATTCT
128 CATTTTGGAAAAAAGTATCGACACAAATT--AAAAAAGTGTCGATACATAATATAGACATATT-T
*
402061 -CTCATG
190 GCTAATG
* * *
402067 ATCCCGGTATATTTCT-ACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTCTCT
1 A-ACCGGTATATTT-TAACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCG
* *
402131 TTGATTTTGGGATCGATACTTGTTATAAATGTATCGACAC
64 ATG-TTTTGGGATCGATACTTTTTA-AAATGTATCGACAC
402171 AAAATCTAAT
Statistics
Matches: 244, Mismatches: 48, Indels: 20
0.78 0.15 0.06
Matches are distributed among these distances:
196 5 0.02
197 66 0.27
198 58 0.24
200 29 0.12
201 81 0.33
202 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (196 bp):
AACCGGTATATTTTAACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGAT
GTTTTGGGATCGATACTTTTTAAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCAT
TTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATATAGACATATTTGCTAAT
G
Found at i:403232 original size:12 final size:12
Alignment explanation
Indices: 403215--403241 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
403205 AAATAGGACA
403215 TTTGAAATTAGT
1 TTTGAAATTAGT
403227 TTTGAAATTAGT
1 TTTGAAATTAGT
403239 TTT
1 TTT
403242 CGATAGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (12 bp):
TTTGAAATTAGT
Found at i:403399 original size:20 final size:20
Alignment explanation
Indices: 403336--403390 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
403326 GATAGCGCTT
403336 TACCGGTTTTGTCATTTCGA
1 TACCGGTTTTGTCATTTCGA
*
403356 TACCGATTTTGTCATTTCGA
1 TACCGGTTTTGTCATTTCGA
403376 TACCGGTTTTGTCAT
1 TACCGGTTTTGTCAT
403391 ATTTTTACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (20 bp):
TACCGGTTTTGTCATTTCGA
Found at i:403784 original size:20 final size:20
Alignment explanation
Indices: 403740--403786 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
403730 TCATTTCGAG
*
403740 ACCTATTTTGTCATATTATT
1 ACCTGTTTTGTCATATTATT
403760 ACCTGTTTTGTCATATTATT
1 ACCTGTTTTGTCATATTATT
403780 ACCTGTT
1 ACCTGTT
403787 ATATTGCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (20 bp):
ACCTGTTTTGTCATATTATT
Found at i:403904 original size:202 final size:202
Alignment explanation
Indices: 403559--403968 Score: 662
Period size: 202 Copynumber: 2.0 Consensus size: 202
403549 TCATTTCGAG
* *
403559 ACCTGTTTTGTCATATTATTACATGTTATATTGCTATGGATCGATACATTTGTATAAAATATTGA
1 ACCTGTTTTGTCATATTATTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
* *
403624 -AATTTTTAGGCGCTATAACTTCTTCTCTTTTAAATATA-AAAAGTGTCGATAATTATATTAATT
66 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAAT-TACAAAAGTGTCGATACTTATATTAATT
* *
403687 TATCGACACTTTCAATATATCCGATAGCTTTTTACCGGTTTTATCATTTCGAGACCTATTTTGTC
130 TATCGACACTTTCAATATATCCGGTATCTTTTTACCGGTTTTATCATTTCGAGACCTATTTTGTC
403752 ATATTATT
195 ATATTATT
* *
403760 ACCTGTTTTGTCATATTATTACCTGTTATATTGCAATGGATCGATACATTTGTATAAAGTATCGA
1 ACCTGTTTTGTCATATTATTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
*
403825 CACTTTTTAGTCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
66 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
** * *
403890 ATCGACACTTTCAATATATCCGGTATCTTTTTAGTGGTTTTATCATTTCGAGACATGTTTTGTCA
131 ATCGACACTTTCAATATATCCGGTATCTTTTTACCGGTTTTATCATTTCGAGACCTATTTTGTCA
*
403955 AATTATT
196 TATTATT
*
403962 ACATGTT
1 ACCTGTT
403969 ATATTGCTAT
Statistics
Matches: 192, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
201 63 0.33
202 129 0.67
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.45
Consensus pattern (202 bp):
ACCTGTTTTGTCATATTATTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
ATCGACACTTTCAATATATCCGGTATCTTTTTACCGGTTTTATCATTTCGAGACCTATTTTGTCA
TATTATT
Found at i:404070 original size:182 final size:182
Alignment explanation
Indices: 403760--404720 Score: 1541
Period size: 182 Copynumber: 5.3 Consensus size: 182
403750 TCATATTATT
*
403760 ACCTGTTTTGTCATATTATTACCTGTTATATTGCAATGGATCGATACATTTGTATAAAGTATCGA
1 ACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
*
403825 CACTTTTTAGTCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
66 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
* **
403890 ATCGACACTTTCAATATATCCGGTATCTTTTTAGTGGTTTTATCATTTCGAG
131 ATCGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAG
* * *
403942 ACATGTTTTGTCAAATTATTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
1 ACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
* *
404007 CACTTTTTAGGCACTATAACTTCTTCTCTTTTAAATTACAAAAATGTCGATACTTATATTAATTT
66 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
* *
404072 ATCGACACTTTCAATATATCTGGTATCTTTTTACCGGTTTTATCATTTCGAG
131 ATCGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAG
* *
404124 ACCTGTTTTGTCATATTATTACCTGTTATATTGATATGGATCGATACATTTGTATAAAATATCGA
1 ACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
404189 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAA-TATCAAAAGTGTCGATACTTATATTAATT
66 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTA-CAAAAGTGTCGATACTTATATTAATT
* *
404253 TATCGACACTTTTAATATATCTGGTAGCTTTTTACCGGTTTTATCATTTCGAG
130 TATCGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAG
* * *
404306 ACATGTTTTGTCATATTATTACTTGTTATATTGCTATGGATCAATACATTTGTATAAAGTATCGA
1 ACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
* * *
404371 TACTTTCTAGGCGCTATAACTTCTTTTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
66 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
** * *
404436 ATCGACACTTTCAATATATCCGGTAGCGGTTTACCGGTTTTATCATAAT-GAC
131 ATCGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCAT-TTCGAG
*
404488 ACCGGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
1 ACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
* *
404553 CACTTTATAGGTGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
66 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
* ** * *
404618 ATCGACACTTTCAATATATTCGGTAGCAGTTTACCGGTTTTATCATAAT-GAC
131 ATCGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCAT-TTCGAG
* * *
404670 ACCGGTTTTATCATATTTTTACCTGTTATATTGCTATGGATCGATACATTT
1 ACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATTT
404721 TTCATTTGTA
Statistics
Matches: 731, Mismatches: 45, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
181 2 0.00
182 726 0.99
183 3 0.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
ACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGA
CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTT
ATCGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAG
Found at i:405471 original size:25 final size:24
Alignment explanation
Indices: 405430--405481 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
405420 ATTACTGTAA
405430 AAATTATTTAAATAATTAAAAATAT
1 AAATTATTTAAATAATT-AAAATAT
* *
405455 AAATTATTTTACA-AATTTAAATAT
1 AAATTA-TTTAAATAATTAAAATAT
405479 AAA
1 AAA
405482 AGAGAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 10 0.42
26 5 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATTATTTAAATAATTAAAATAT
Found at i:406778 original size:37 final size:37
Alignment explanation
Indices: 406727--406823 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
406717 CATTTTGGTC
406727 CTACTAAGATTCAAATTCCTAAAAATAGAATAAAATT
1 CTACTAAGATTCAAATTCCTAAAAATAGAATAAAATT
* * * * *
406764 TTACTAAGATTCAAACTCCTAAAAATATAATAGAGTT
1 CTACTAAGATTCAAATTCCTAAAAATAGAATAAAATT
*
406801 CTACTAAGATTTAAATTCCTAAA
1 CTACTAAGATTCAAATTCCTAAA
406824 GATAAGATCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.32
Consensus pattern (37 bp):
CTACTAAGATTCAAATTCCTAAAAATAGAATAAAATT
Found at i:407228 original size:18 final size:17
Alignment explanation
Indices: 407189--407231 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
407179 ATTATATAGA
407189 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
407205 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
407223 TATTATTAT
1 TATTATTAT
407232 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:407272 original size:58 final size:57
Alignment explanation
Indices: 407177--407312 Score: 138
Period size: 58 Copynumber: 2.4 Consensus size: 57
407167 GTCCCTTTAT
* * * * *
407177 TTATTATATAGATAT-TTTATTCATTTATTTTTATTATTCATGTTA-T-TATTATTA-TA
1 TTATTATATATATATATATATTAAATTATTTTCATTATT--TGTTACTATATT-TTATTA
*
407233 TGTA-TATATATATATATATATTAAATTATTTTCATTTATTTTTTACTATATTTTATTA
1 T-TATTATATATATATATATATTAAATTATTTTCA-TTATTTGTTACTATATTTTATTA
407291 TTATTATATATATATATATATT
1 TTATTATATATATATATATATT
407313 TATTTAATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
56 15 0.22
57 22 0.33
58 30 0.45
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (57 bp):
TTATTATATATATATATATATTAAATTATTTTCATTATTTGTTACTATATTTTATTA
Found at i:411657 original size:183 final size:183
Alignment explanation
Indices: 411343--411879 Score: 932
Period size: 183 Copynumber: 2.9 Consensus size: 183
411333 ATTAAATCCG
*
411343 TAAAGTTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
411408 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
411473 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
411526 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTGTAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
411591 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
**
411656 TTGTCAGGCCAAAGACTTTGTGATGAGACCAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
411709 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCCGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * * * **
411774 ATAGATTACATTCAAA-TCATGGCATTGCTCAGACACTTGGCAATTCGGTGTTTGCTCCACTATT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
* *
411838 TTTGTTAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
411880 TAAACCTGAT
Statistics
Matches: 336, Mismatches: 17, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
182 1 0.00
183 335 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:413286 original size:104 final size:99
Alignment explanation
Indices: 413191--413574 Score: 409
Period size: 104 Copynumber: 3.9 Consensus size: 99
413181 TTTAAAGAAG
*
413191 ATTTTATCTTGCTTGAGATAGTTTCCCTCGAAACAGAAAATTTCGTCTCCCTTGAGACAGTTTCT
1 ATTTTATCTT-CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
*** *
413256 CTTGAAAACATTTCCCTTG--AA-A-----TT---A
65 CTTG-AAACATAAACATTGAAAACATTTCTTTAAAA
* *
413281 ATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
1 ATTTTATCT-TCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
*
413346 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
65 CTTGAAACATAAACATTGAAAACATTT--CTTTAAA--A
* *
413385 TTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
1 ATTTTATCT-TCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
*
413450 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
65 CTTGAAACATAAACATTGAAAACATTT--CTTTAAA--A
* *
413489 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AATTTTGTCTCCCTTGAGACAGTTTCT
1 ATTTTATCT-TCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
** *
413551 CTCCAAACATAAACTTTGAAAACA
65 CTTGAAACATAAACATTGAAAACA
413575 ATTTAACGAA
Statistics
Matches: 261, Mismatches: 17, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
89 10 0.04
90 64 0.25
91 3 0.01
92 1 0.00
99 1 0.00
101 48 0.18
103 1 0.00
104 133 0.51
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (99 bp):
ATTTTATCTTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTC
TTGAAACATAAACATTGAAAACATTTCTTTAAAA
Found at i:413337 original size:39 final size:39
Alignment explanation
Indices: 413280--413354 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
413270 CCTTGAAATT
* *
413280 AATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAA
1 AATTTTGTCTCTCCTGAGACAGTTTCCCTCGAAACAGAA
* *
413319 AATTTTGTCTC-CCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCTCC-TGAGACAGTTTCCCTCGAAACA
413355 TAAACATTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (39 bp):
AATTTTGTCTCTCCTGAGACAGTTTCCCTCGAAACAGAA
Found at i:413521 original size:36 final size:36
Alignment explanation
Indices: 413474--413549 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
413464 ATTGAAAACA
* * *
413474 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
413510 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
413546 TTTC
1 TTTC
413550 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:413949 original size:105 final size:106
Alignment explanation
Indices: 413749--414169 Score: 559
Period size: 105 Copynumber: 4.0 Consensus size: 106
413739 ATATCGTGAC
* ** *
413749 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAGGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
*
413814 AATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
413855 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
413919 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
413960 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCACTTCTTGTCAAC-AA-AA-TT-TC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
* *
414021 -A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* ** * * *
414060 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
** * * * *
414125 GGTTCCAGAGCCAATTTCAACTTTACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
414166 ACTC
1 ACTC
414170 GGAACAATGC
Statistics
Matches: 280, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
100 80 0.29
101 3 0.01
102 4 0.01
103 4 0.01
104 3 0.01
105 103 0.37
106 83 0.30
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:414806 original size:37 final size:37
Alignment explanation
Indices: 414712--414816 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
414702 CATTTTCGTC
*
414712 CTACTAGGATTCAAACTCCTAAAAATATGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
414749 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
414786 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
414817 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:415213 original size:18 final size:17
Alignment explanation
Indices: 415174--415216 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
415164 ATTATATGGA
415174 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
415190 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
415208 TATTATTAT
1 TATTATTAT
415217 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:419011 original size:22 final size:23
Alignment explanation
Indices: 418958--419014 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 23
418948 AAATATGGAT
*
418958 TTATTTATTTTAGTTCTTTTTCC
1 TTATTAATTTTAGTTCTTTTTCC
418981 TATTAATTAATTTTAGTTCTTTTTCC
1 --TT-ATTAATTTTAGTTCTTTTTCC
419007 -TATTAATT
1 TTATTAATT
419015 AATTTTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.23
23 1 0.03
25 2 0.07
26 20 0.67
ACGTcount: A:0.21, C:0.11, G:0.04, T:0.65
Consensus pattern (23 bp):
TTATTAATTTTAGTTCTTTTTCC
Found at i:419029 original size:26 final size:26
Alignment explanation
Indices: 418964--419021 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
418954 GGATTTATTT
418964 ATTTTAGTTCTTTTTCCTATTAATTA
1 ATTTTAGTTCTTTTTCCTATTAATTA
418990 ATTTTAGTTCTTTTTCCTATTAATTA
1 ATTTTAGTTCTTTTTCCTATTAATTA
419016 ATTTTA
1 ATTTTA
419022 ATACTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.62
Consensus pattern (26 bp):
ATTTTAGTTCTTTTTCCTATTAATTA
Found at i:422193 original size:19 final size:20
Alignment explanation
Indices: 422169--422219 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
422159 TATGCAAGTA
*
422169 GTATCGATACTAA-AGTG-GG
1 GTATCGATACTAAGAG-GAAG
*
422188 GTATCGATACCAAGAGGAAG
1 GTATCGATACTAAGAGGAAG
422208 GTATCGATACTA
1 GTATCGATACTA
422220 TTATTTAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (20 bp):
GTATCGATACTAAGAGGAAG
Found at i:422720 original size:55 final size:54
Alignment explanation
Indices: 422630--423011 Score: 441
Period size: 55 Copynumber: 6.9 Consensus size: 54
422620 ATGTTGGAAT
*
422630 TTTCGTATTGGCACTATGTGTGCAACCTCATGAAATTCATAATGAGTTTATGAA
1 TTTCGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAA
*
422684 TCTTCGTATTGGCACTATGTGTTCAACCTCACGAAATTCATAATGAGTTTATGAA
1 T-TTCGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAA
* * *
422739 TTTCCATATTGGCACTAT-TGTACAACCTCACGAAATTCATAGTGAGTTTATGAA
1 TTT-CGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAA
* * *
422793 TTTTCGTATTGACACTATGTGTGTAACCTCACCTCACAAAATTCATAATGAGTTTATGAA
1 -TTTCGTATTGGCACTATGTGTG----C-AACCTCACGAAATTCATAATGAGTTTATGAA
* *
422853 TTTACGTATTGGCACTATATGTGCAACCTCACGGAATTCATAATGAGTTTATGAA
1 TTT-CGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAA
* * *
422908 TTTCTGTATTGACACTATGTGTGCAGCCCCAC-ATAATTCATAATGAGTTGT-TGAA
1 TTTC-GTATTGGCACTATGTGTGCAACCTCACGA-AATTCATAATGAGTT-TATGAA
* * * *
422963 TTAC-TATATCGGCACTAAGTGTGCAAAAC-CACGAAATTTATAATGAGTT
1 TTTCGTAT-T-GGCACTATGTGTGC-AACCTCACGAAATTCATAATGAGTT
423012 GAAATATTCA
Statistics
Matches: 284, Mismatches: 27, Indels: 33
0.83 0.08 0.10
Matches are distributed among these distances:
53 3 0.01
54 51 0.18
55 176 0.62
56 5 0.02
59 4 0.01
60 45 0.16
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (54 bp):
TTTCGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAA
Found at i:422900 original size:169 final size:165
Alignment explanation
Indices: 422621--422964 Score: 462
Period size: 169 Copynumber: 2.1 Consensus size: 165
422611 TTGATGTATA
* *
422621 TGTTGGAATTTTCGTATTGGCACTATGTGTGCAACCTCATGAAATTCATAATGAGTTTATGAATC
1 TGTT-GAATTTTCGTATTGACACTATGTGTGCAACCTCATAAAATTCATAATGAGTTTATGAATC
* * *
422686 TTCGTATTGGCACTATGTGTTCAACCTCACGAAATTCATAATGAGTTTATGAATTTCCATATTGG
65 TTCGTATTGGCACTATATGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTCCATATTGA
* *
422751 CACTAT-TGTACAACCTCACGA-AATTCATAGTGAGT
130 CACTATGTGTACAACCCCAC-ATAATTCATAATGAGT
*
422786 T-TATGAATTTTCGTATTGACACTATGTGTGTAACCTCACCTCACAAAATTCATAATGAGTTTAT
1 TGT-TGAATTTTCGTATTGACACTATGTGTGCAACCTCA--T---AAAATTCATAATGAGTTTAT
* **
422850 GAAT-TTACGTATTGGCACTATATGTGCAACCTCACGGAATTCATAATGAGTTTATGAATTTCTG
60 GAATCTT-CGTATTGGCACTATATGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTCCA
* *
422914 TATTGACACTATGTGTGCAGCCCCACATAATTCATAATGAGT
124 TATTGACACTATGTGTACAACCCCACATAATTCATAATGAGT
422956 TGTTGAATT
1 TGTTGAATT
422965 ACTATATCGG
Statistics
Matches: 156, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
164 33 0.21
165 2 0.01
166 1 0.01
168 2 0.01
169 87 0.56
170 30 0.19
171 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (165 bp):
TGTTGAATTTTCGTATTGACACTATGTGTGCAACCTCATAAAATTCATAATGAGTTTATGAATCT
TCGTATTGGCACTATATGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTCCATATTGAC
ACTATGTGTACAACCCCACATAATTCATAATGAGT
Found at i:428282 original size:20 final size:21
Alignment explanation
Indices: 428243--428286 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
428233 TCTTAAATTC
* *
428243 ACTTTAATTGGAAGTTTCAAA
1 ACTTTAATTGAAAATTTCAAA
428264 ACTTTAA-TGAAAATTTCAAA
1 ACTTTAATTGAAAATTTCAAA
428284 ACT
1 ACT
428287 CTTGCTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (21 bp):
ACTTTAATTGAAAATTTCAAA
Found at i:428475 original size:20 final size:20
Alignment explanation
Indices: 428450--428500 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
428440 ATAGTGTTTT
428450 ACATATTTTAAA-AGCTTTAA
1 ACATATTTTAAATA-CTTTAA
428470 ACATATTTTAAATACTTTAA
1 ACATATTTTAAATACTTTAA
428490 ACATATTTTAA
1 ACATATTTTAA
428501 TTAACTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (20 bp):
ACATATTTTAAATACTTTAA
Found at i:429502 original size:34 final size:34
Alignment explanation
Indices: 429459--429527 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
429449 TTTCAAGAAA
*
429459 TTAGCGAAGATCATACTACAAATATTTAGAAGAC
1 TTAGCGAAGATCACACTACAAATATTTAGAAGAC
429493 TTAGCGAAGATCACACTACAAATATTTAGAAGAC
1 TTAGCGAAGATCACACTACAAATATTTAGAAGAC
429527 T
1 T
429528 ATCTCGTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (34 bp):
TTAGCGAAGATCACACTACAAATATTTAGAAGAC
Found at i:430364 original size:24 final size:24
Alignment explanation
Indices: 430303--430367 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 24
430293 ATTTTGAAAA
*
430303 TATTTTTTAATTTTAAAAATAATT
1 TATTTTTTATTTTTAAAAATAATT
430327 TATTTTCATATATTTTTAAAAAGTAATT
1 TATTTT--T-TATTTTTAAAAA-TAATT
430355 T-TTTTTTATTTTT
1 TATTTTTTATTTTT
430368 TTTAGAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
24 13 0.36
25 1 0.03
26 1 0.03
27 15 0.42
28 6 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TATTTTTTATTTTTAAAAATAATT
Found at i:430810 original size:5 final size:5
Alignment explanation
Indices: 430802--430828 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
430792 CATAAATATA
430802 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
430829 GAAAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:430997 original size:16 final size:13
Alignment explanation
Indices: 430966--430990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
430956 CTAAACACAA
430966 TAATATAAATTAG
1 TAATATAAATTAG
430979 TAATATAAATTA
1 TAATATAAATTA
430991 TAGGTAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
TAATATAAATTAG
Found at i:431042 original size:17 final size:16
Alignment explanation
Indices: 431005--431050 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
430995 TAACAAGAAA
431005 ATAT-TATGTAAATAT
1 ATATATATGTAAATAT
431020 ATTATATATGATAAATAT
1 A-TATATATG-TAAATAT
431038 ATATATATGTAAA
1 ATATATATGTAAA
431051 ACTATATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.04
16 7 0.25
17 12 0.43
18 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (16 bp):
ATATATATGTAAATAT
Found at i:431056 original size:18 final size:17
Alignment explanation
Indices: 431005--431058 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
430995 TAACAAGAAA
431005 ATAT-TATGT-AAATAT
1 ATATATATGTAAAATAT
431020 ATTATATATG-ATAAATAT
1 A-TATATATGTA-AAATAT
431038 ATATATATGTAAAACTAT
1 ATATATATGTAAAA-TAT
431056 ATA
1 ATA
431059 ACAAATGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.03
16 3 0.09
17 15 0.45
18 14 0.42
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (17 bp):
ATATATATGTAAAATAT
Found at i:433127 original size:200 final size:197
Alignment explanation
Indices: 432700--433423 Score: 945
Period size: 200 Copynumber: 3.6 Consensus size: 197
432690 TAGGCAACAC
* * *
432700 TTATATTGACCTATTTTCTAACTAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTAT
1 TTATGTTGACCTA-TTTCTAA-TAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * * *
432765 TACATTATAATTATTGGTTTCGATGATTTCGGGATCGATACAATTT--TAAATGTATCGACACTT
64 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTT
* ** * *
432828 TATGCATGCACCTTGTTGGGCATTCATTCTGGAAAAAAGTATCGACAC-AATCTTAAAAAGTGTC
128 TATGCGTGCACCCCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAAT-TTAAAAAGTGTC
432892 GATACA
192 GATACA
* * *
432898 TTATGTAGACCTAGTTTCTCATAAAACCGGTATATTTCTACCGAG-TACATTGTAAATTTACCTA
1 TTATGTTGACCTA-TTTCTAAT-AAACCGGTATATTTATACCG-GTTACATTGTAAATTTACCTA
* *
432962 TTACATTGTAATTATCGGTTTCAATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
63 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
* *
433027 TATGCGTGCACCCCGTTTGGCATTTATTTTGGACAAAATGTATCGACACAAATTTAAAAAGTGTC
128 TATGCGTGCACCCCGTTTGGCATTCATTCTGGACAAAA-GTATCGACACAAATTTAAAAAGTGTC
433092 GATACA
192 GATACA
* * *
433098 TTATGTTGACCTATTCTCTCATAAAACCGGTTTATTTATACCGGTTACATAGTAAATTTACCTAT
1 TTATGTTGACCTATT-TCTAAT-AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * * * *
433163 TACATTATAATTATTGTTTTCGATGTTTTTTGGATCGATAATTTTAATAAATGTATCGGCACTTT
64 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
* * ** * * *
433228 ACGCGTGCACCCCGTTTGGGCATTCATTCTGGACATAAGTATCGACACAAATTCCACAAGTTTTG
129 ATGCGTGCACCCCGTTT-GGCATTCATTCTGGACAAAAGTATCGACACAAATTTAAAAAGTGTCG
433293 ATACA
193 ATACA
* * *
433298 TTATGTTGACCTGCTTTCTAATTAACCGGTATATTTATACCGGTTACATTGTTAATTTACCTATT
1 TTATGTTGACCT-ATTTCTAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
* *
433363 ACATTATAATTATCGGTTTTGATGTTTTTGGGGTCGATACTTTTAGA-AAATGTATCGACAC
65 ACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
433424 ATATGTTTAC
Statistics
Matches: 462, Mismatches: 53, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
197 4 0.01
198 90 0.19
199 143 0.31
200 203 0.44
201 22 0.05
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (197 bp):
TTATGTTGACCTATTTCTAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTA
CATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTAT
GCGTGCACCCCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAATTTAAAAAGTGTCGATA
CA
Found at i:435796 original size:19 final size:19
Alignment explanation
Indices: 435772--435819 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
435762 TTACATTCAC
*
435772 ATACAAAATTATAAATTGT
1 ATACAAAATTATAAATCGT
*
435791 ATACAAAATTATTAATCGT
1 ATACAAAATTATAAATCGT
435810 ATACAAAATT
1 ATACAAAATT
435820 TCCCCTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:437843 original size:199 final size:198
Alignment explanation
Indices: 437363--437925 Score: 778
Period size: 199 Copynumber: 2.8 Consensus size: 198
437353 TGTAATTTAA
* * * *
437363 AAAAAATATTGACAC-AATCTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
1 AAAAAGTATCGACACAAAT-TTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAAT-TAAC
* * ** * * *
437427 CGGTAAATTTATACCGGTTACATTGTTAATTTACCTATTACATTGTAATTA-TCGATTTCTAT-T
64 CAGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATTTG-TTTCGATGT
* * * *
437490 TTTTGGGATTGATACATTTTAA-AATGTATCGATACATTATGCGTGCACCCCCTTTGTCATTCAT
128 TTTTGGGATCGATAC-TTTTAATAATGTATCGACACTTTATGCGTGCACCCCATTTGTCATTCAT
437554 TCTGGAC
192 TCTGGAC
*
437561 AAAAAGTATCGACATAAATTT-AAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT-AACC
* *
437625 A-TAATATATATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATTTGTTTCGATGTT
65 AGT-ATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATTTGTTTCGATGTT
* * *
437689 TCTGGGATCAATACTTTTAATAATTGTATCGACACTTTATGTGTGCACCCCATTTGTCATTCATT
129 TTTGGGATCGATACTTTTAATAA-TGTATCGACACTTTATGCGTGCACCCCATTTGTCATTCATT
437754 CTGGAC
193 CTGGAC
* *
437760 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACTA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCA
* *
437825 GTATATTTCTATCGGTTACATTGCAAATTTACCTATTACATTATAATTATTTGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATTTGTTTCGATGTTTT
*
437890 TGGGATCGATACTTTTAATAAATGTATTGACACTTT
131 TGGGATCGATACTTTTAAT-AATGTATCGACACTTT
437926 TGTTTACCTA
Statistics
Matches: 325, Mismatches: 30, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
196 1 0.00
197 94 0.29
198 31 0.10
199 158 0.49
200 41 0.13
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (198 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCA
GTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATTTGTTTCGATGTTTT
TGGGATCGATACTTTTAATAATGTATCGACACTTTATGCGTGCACCCCATTTGTCATTCATTCTG
GAC
Found at i:441761 original size:2 final size:2
Alignment explanation
Indices: 441754--441781 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
441744 GTATCCGAAG
441754 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
441782 CCTTCCCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:442860 original size:200 final size:199
Alignment explanation
Indices: 442435--444001 Score: 2156
Period size: 200 Copynumber: 7.8 Consensus size: 199
442425 CATGAAATTT
* *
442435 AAAAAGGTATCGACGCGAATTTAAAAAGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAAC
1 AAAAA-GTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGA-CGCTTTTCTAATTAAAC
* * *
442500 CGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATGTT
64 CGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
442565 TTTGGGATCGGTACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTGAAT
129 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTGATT
*
442630 CTGCAC
194 CTGGAC
* *
442636 AAAAAGTATCAACACAAATTTAAAAAGTGTTGATACATTATGTTGATCGCTTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGA-CGCTTTTCTAATTAAACC
* * *
442701 GATATATTTATACCGGTTACATTGTAAATTTACCTATTATATTATAATTATCGGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
442766 TTGGGATTGATAC-TTTTATAAATGTATTGACACTTTATGCGTGCACCTCGTTGGGCATTGATTC
130 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTGATTC
*
442830 TAGAC
195 TGGAC
* * *
442835 AAAAAGTATCGACACAAATTTTAAAAGTGGCGATACATTATGTTGACCGATTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGA-CGCTTTTCTAATTAAACC
* *
442900 GTTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * *
442965 TTGGGATCGATACTTTTTATAAATGTATCCACACTTTACGCGTGCACCTCGTTGGGCATTGAATC
130 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTGATTC
443030 TGGAC
195 TGGAC
* *
443035 AAAAAATATCGACACAAATTTAAAAAGTGTTGATACATTATGTTGACCGCTTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGA-CGCTTTTCTAATTAAACC
* * *
443100 GGTATATTTATGCCGGTTACATTGGAAATTTACCTATTATATTATAATTATCGGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
*
443165 TTGGGATCGATACTTTTTATAAATGTATTGACACTTTATGTGTGCACCTCGTTGGGCATTGATTC
130 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTGATTC
443230 TGGAC
195 TGGAC
* **
443235 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGATCGCTTTTCTAATTAAAAT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGA-CGCTTTTCTAATTAAACC
* * *
443300 GGTATATTTATACCGGTTACATTGGAAATTTACCTATTACTTTATAATTATCGGTTTCAATGTTT
65 GGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
*
443365 TTGGGATCGATACTTTTTATAAATGTAT-GA-ACGTTTTATGTGTGCACCTCGTTGGGCATTCAT
130 TTGGGATCGATACTTTTTATAAATGTATCGACAC--TTTATGTGTGCACCTCGTTGGGCATTGAT
*
443428 TCTGGTC
193 TCTGGAC
** * * * * *
443435 AAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGAC-CTACTCTCTCATAAAA
1 -AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACGCT--TTTCTAATTAAA
* * *
443499 CCGGTATATTTAAACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
63 CCGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
* * * * *
443564 TTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATGTGTGCACCCCTTTTGAGCATTCA
128 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTC-GTTGGGCATTGA
*
443629 TTCTGGAT
192 TTCTGGAC
* ** * * * * * *
443637 AAAAAGTATCGACATAAATTCCACAAGTGTTGATACATTATGTAGAC-CTATTCTCTCATAAAAT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACGCT-TT-TCTAATTAAAC
* * *
443701 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATT
64 CGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * * *
443766 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCAT
129 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTC-GTTGGGCATTGAT
*
443831 TCTGGAA
193 TCTGGAC
** * * * * ** *
443838 AAAAAGTATCGACACAAATTCCACAAGTGTTGATACATTCTGTAGAC-CTATTCTCTCGTAAAAC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACGCT-TT-TCTAATTAAAC
* * *
443902 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATGTT
64 CGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
443967 TTTGGGATCGATACTTTTTATAACTGTATCAACAC
129 TTTGGGATCGATACTTTTTATAAATGTATCGACAC
444002 ATTTGTTTAC
Statistics
Matches: 1259, Mismatches: 97, Indels: 20
0.91 0.07 0.01
Matches are distributed among these distances:
198 2 0.00
199 188 0.15
200 549 0.44
201 500 0.40
202 18 0.01
203 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACGCTTTTCTAATTAAACCG
GTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTGATTCT
GGAC
Found at i:443179 original size:399 final size:401
Alignment explanation
Indices: 442435--443995 Score: 2218
Period size: 402 Copynumber: 3.9 Consensus size: 401
442425 CATGAAATTT
* * *
442435 AAAAAGGTATCGACGCGAATTTAAAAAGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAAC
1 AAAAA-GTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGATTTTCTAATTAAAC
* * *
442500 CGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATGTT
65 CGGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * *
442565 TTTGGGATCGGTACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTGAAT
130 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCAAT
* * * * * *
442630 CTGCAC-AAAAAGTATCAACACAAATTTAAAAAGTGTTGATACATTATGTTGATCGCTTTTCTAA
195 CTGGACAAAAAAGTATCGACACAAATTCAAAAAGTGTTGATACATTATGTAGACCGCTTCTCTAA
* * * * *
442694 TTAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTATATTATAATTATCGGTTTC
260 TAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTC
* *
442759 GATGTTTTTGGGATTGATAC-TTTTATAAATGTATTGACACTTTATGCGTGCACCTCGTTGGGCA
325 GATGTTTTTGGGATCGATACTTTTTATAAATGTATTGACACTTTATGTGTGCACCTCGTTGGGCA
*
442823 TTGATTCTAGAC
390 TTGATTCTGGAC
* *
442835 AAAAAGTATCGACACAAATTTTAAAAGTGGCGATACATTATGTTGACCGATTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGATTTTCTAATTAAACC
*
442900 GTTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
66 GGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
442965 TTGGGATCGATACTTTTTATAAATGTATCCACACTTTACGCGTGCACCTCGTTGGGCATTGAATC
131 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCAATC
* * *
443030 TGGACAAAAAA-TATCGACACAAATTTAAAAAGTGTTGATACATTATGTTGACCGCTTTTCTAAT
196 TGGACAAAAAAGTATCGACACAAATTCAAAAAGTGTTGATACATTATGTAGACCGCTTCTCTAAT
* * * * *
443094 TAAACCGGTATATTTATGCCGGTTACATTGGAAATTTACCTATTATATTATAATTATCGGTTTCG
261 AAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCG
443159 ATGTTTTTGGGATCGATACTTTTTATAAATGTATTGACACTTTATGTGTGCACCTCGTTGGGCAT
326 ATGTTTTTGGGATCGATACTTTTTATAAATGTATTGACACTTTATGTGTGCACCTCGTTGGGCAT
443224 TGATTCTGGAC
391 TGATTCTGGAC
* * * **
443235 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGATCGCTTTTCTAATTAAAAT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGATTTTCTAATTAAACC
* *
443300 GGTATATTTATACCGGTTACATTGGAAATTTACCTATTACTTTATAATTATCGGTTTCAATGTTT
66 GGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* *
443365 TTGGGATCGATACTTTTTATAAATGTAT-GA-ACGTTTTATGTGTGCACCTCGTTGGGCATTCAT
131 TTGGGATCGATACTTTTTATAAATGTATCGACAC--TTTATGCGTGCACCTCGTTGGGCATTCAA
* * * * *
443428 TCTGGTCAAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTAC-TCTCT
194 TCTGGACAAAAAAGTATCGACACAAATTCAAAAAGTGTTGATACATTATGTAGACC-GCTTCTCT
* * *
443492 CATAAAACCGGTATATTTAAACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTT
258 AATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTT
* * * * *
443557 TCGATGTTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATGTGTGCACCCCTTTTGA
323 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATTGACACTTTATGTGTGCACCTC-GTTGG
* *
443622 GCATTCATTCTGGAT
387 GCATTGATTCTGGAC
* ** * * * * * * * *
443637 AAAAAGTATCGACATAAATTCCACAAGTGTTGATACATTATGTAGACCTATTCTCTCATAAAATC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGATTTTCTAATTAAACC
* * * *
443702 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTT
66 GGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
443767 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATT
131 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTC-GTTGGGCATTCAAT
* * * ** **
443832 CTGGA-AAAAAAGTATCGACACAAATTCCACAAGTGTTGATACATTCTGTAGACCTATTCTCTCG
195 CTGGACAAAAAAGTATCGACACAAATTCAAAAAGTGTTGATACATTATGTAGACCGCTTCTCTAA
* *
443896 TAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTT
260 TAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTC
*
443961 GATGTTTTTGGGATCGATACTTTTTATAACTGTAT
325 GATGTTTTTGGGATCGATACTTTTTATAAATGTAT
443996 CAACACATTT
Statistics
Matches: 1056, Mismatches: 94, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
398 2 0.00
399 313 0.30
400 249 0.24
401 154 0.15
402 317 0.30
403 19 0.02
404 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (401 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGATTTTCTAATTAAACC
GGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCAATC
TGGACAAAAAAGTATCGACACAAATTCAAAAAGTGTTGATACATTATGTAGACCGCTTCTCTAAT
AAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCG
ATGTTTTTGGGATCGATACTTTTTATAAATGTATTGACACTTTATGTGTGCACCTCGTTGGGCAT
TGATTCTGGAC
Found at i:444450 original size:19 final size:19
Alignment explanation
Indices: 444426--444470 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
444416 TTACATTCAC
444426 ATACAAAATTATAAATCAT
1 ATACAAAATTATAAATCAT
*
444445 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCAT
444464 ATACAAA
1 ATACAAA
444471 CTTAACCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:446060 original size:18 final size:19
Alignment explanation
Indices: 446016--446063 Score: 80
Period size: 18 Copynumber: 2.6 Consensus size: 19
446006 CATCGACATC
*
446016 TTTCTTCCTCACTCAATCT
1 TTTCTTCTTCACTCAATCT
446035 TTTCTTCTTC-CTCAATCT
1 TTTCTTCTTCACTCAATCT
446053 TTTCTTCTTCA
1 TTTCTTCTTCA
446064 TATTTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTCTTCTTCACTCAATCT
Found at i:448927 original size:181 final size:182
Alignment explanation
Indices: 448611--448963 Score: 548
Period size: 181 Copynumber: 1.9 Consensus size: 182
448601 AGCTTTACCA
* * *
448611 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACT
1 GTTTTATCATATTTTTACCTATTACATTGTTATGGATCAATACATTTTTATAAAGTATCGACACT
* *
448676 TTATAGGCGCTATTACTGCTTGTCTTTTAAATTCCCAAAGTATCGATACTCATAATAAAGTATTG
66 TTATAGGCGCTATTACTGCTTGTCTTTTAAATTCCAAAAGTATCGATACTCATAATAAAGTATCG
* *
448741 ACACTTTCAACATATCTGGTAG-TGCTTTACCAGTTTTGTCATTTTGAGACCG
131 ACACTTTCAACATATCCGATAGCT-CTTTACCAGTTTTGTCATTTTGAGACCG
* * *
448793 GTTTTATCATA-TTTTACCTATTGCATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
1 GTTTTATCATATTTTTACCTATTACATTGTTATGGATCAATACATTTTTATAAAGTATCGACACT
* * *
448857 TTATAGGCGCTATTACTTCTTGTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCG
66 TTATAGGCGCTATTACTGCTTGTCTTTTAAATTCCAAAAGTATCGATACTCATAATAAAGTATCG
**
448922 ACACTTTCAACATATCCGATAGCTCTTTACTGGTTTTGTCAT
131 ACACTTTCAACATATCCGATAGCTCTTTACCAGTTTTGTCAT
448964 ATTTTTACCT
Statistics
Matches: 155, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
181 144 0.93
182 11 0.07
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (182 bp):
GTTTTATCATATTTTTACCTATTACATTGTTATGGATCAATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTATTACTGCTTGTCTTTTAAATTCCAAAAGTATCGATACTCATAATAAAGTATCG
ACACTTTCAACATATCCGATAGCTCTTTACCAGTTTTGTCATTTTGAGACCG
Found at i:449664 original size:24 final size:25
Alignment explanation
Indices: 449615--449664 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
449605 GCCATCACCC
* *
449615 TTTCATAACCATTCCTTTTATTTAT
1 TTTCATAACCATTCATTTTATCTAT
449640 TTTCAT-ACCA-TCATTTTCATCTAT
1 TTTCATAACCATTCATTTT-ATCTAT
449664 T
1 T
449665 ACTTCTGCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 6 0.27
24 10 0.45
25 6 0.27
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTCATAACCATTCATTTTATCTAT
Found at i:459492 original size:21 final size:21
Alignment explanation
Indices: 459466--459518 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
459456 CACTTCCATA
*
459466 TCAGATGCCACCGTAATTGGGT
1 TCAGATGCCACCGCAATT-GGT
* *
459488 T-AGATGACACCGCAGTTGGT
1 TCAGATGCCACCGCAATTGGT
459508 TCAGATGCCAC
1 TCAGATGCCAC
459519 TGTTACAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.15
21 21 0.81
22 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (21 bp):
TCAGATGCCACCGCAATTGGT
Found at i:462036 original size:12 final size:12
Alignment explanation
Indices: 462019--462043 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
462009 TTATCACATT
462019 AGACATAGTGGC
1 AGACATAGTGGC
462031 AGACATAGTGGC
1 AGACATAGTGGC
462043 A
1 A
462044 TGATGACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (12 bp):
AGACATAGTGGC
Found at i:462215 original size:232 final size:232
Alignment explanation
Indices: 461808--462237 Score: 797
Period size: 232 Copynumber: 1.9 Consensus size: 232
461798 TTTGACCATG
* * *
461808 GGCATGATGGCTTGGTAGATAATGTCGGAGTCCAAGTTGGGATGATCCTAGTTGATCTCTCCAGT
1 GGCATGATGACTTGGTAGATAATGTCGGAGTCCAAGTTGGGATGATCCTAGTTGATCCCTCCAAT
**
461873 AAAACCTGTTGTTCCCATATATTGTTTTTCCTCTTCCTCTTCGATACACGAACCATCTAGTTGTA
66 AAAACCTGTTGTTCCCATATATTGTTTTTCCTCTTCCTCTTCGATACACGAACCATCTAGTTACA
*
461938 TCCATTATCACATTAGACATAGTGGCAGACATACTTTTCGGTAGAGGTGCACAAAAAATCCGAAT
131 TCAATTATCACATTAGACATAGTGGCAGACATACTTTTCGGTAGAGGTGCACAAAAAATCCGAAT
462003 ATCACATTATCACATTAGACATAGTGGCAGACATAGT
196 ATCACATTATCACATTAGACATAGTGGCAGACATAGT
462040 GGCATGATGACTTGGTAGATAATGTCGGAGTCCAAGTTGGGATGATCCTAGTTGATCCCTCCAAT
1 GGCATGATGACTTGGTAGATAATGTCGGAGTCCAAGTTGGGATGATCCTAGTTGATCCCTCCAAT
462105 AAAACCTGTTGTTCCCATATATTGTTTTTCCTCTTCCTCTTCGATACACGAACCATCTAGTTACA
66 AAAACCTGTTGTTCCCATATATTGTTTTTCCTCTTCCTCTTCGATACACGAACCATCTAGTTACA
*
462170 TCAATTATCACATTAGACATAGTGGCAGACATACTTTTTGGTAGAGGTGCACAAAAAATCCGAAT
131 TCAATTATCACATTAGACATAGTGGCAGACATACTTTTCGGTAGAGGTGCACAAAAAATCCGAAT
462235 ATC
196 ATC
462238 CAATTTTGCG
Statistics
Matches: 191, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
232 191 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (232 bp):
GGCATGATGACTTGGTAGATAATGTCGGAGTCCAAGTTGGGATGATCCTAGTTGATCCCTCCAAT
AAAACCTGTTGTTCCCATATATTGTTTTTCCTCTTCCTCTTCGATACACGAACCATCTAGTTACA
TCAATTATCACATTAGACATAGTGGCAGACATACTTTTCGGTAGAGGTGCACAAAAAATCCGAAT
ATCACATTATCACATTAGACATAGTGGCAGACATAGT
Found at i:462521 original size:15 final size:16
Alignment explanation
Indices: 462501--462533 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
462491 TTTTACCAGA
*
462501 TTAAAAAC-CGGTTTT
1 TTAAAAACGCAGTTTT
462516 TTAAAAACGCAGTTTT
1 TTAAAAACGCAGTTTT
462532 TT
1 TT
462534 TCAAACCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (16 bp):
TTAAAAACGCAGTTTT
Found at i:463158 original size:60 final size:60
Alignment explanation
Indices: 463051--463168 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
463041 CCACGATGCT
* * ** * *
463051 GACATTTAGGTCGAATAAGCTGGTAGTTGAATGCCTTCCTCTTGAACTTTAAGGCATCTC
1 GACATTGAGGTCGAAAAAGCTCATAGTTGAATGCCTTCCTCTGGAACTTGAAGGCATCTC
**
463111 GACATTGAGGTCGAAAAAGCTCATAGTTGAATTTC-TCCTCATGGAACTTGAAGGCATC
1 GACATTGAGGTCGAAAAAGCTCATAGTTGAATGCCTTCCTC-TGGAACTTGAAGGCATC
463169 GTGTCAAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 5 0.10
60 44 0.90
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (60 bp):
GACATTGAGGTCGAAAAAGCTCATAGTTGAATGCCTTCCTCTGGAACTTGAAGGCATCTC
Found at i:466925 original size:13 final size:14
Alignment explanation
Indices: 466905--466944 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
466895 TTGGGCTATT
466905 GTTTATTGTTTATG
1 GTTTATTGTTTATG
*
466919 G-TTATTGTATATG
1 GTTTATTGTTTATG
*
466932 GTTTATGGTTTAT
1 GTTTATTGTTTAT
466945 TGCTTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (14 bp):
GTTTATTGTTTATG
Found at i:467017 original size:24 final size:24
Alignment explanation
Indices: 466990--467063 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
466980 GAGCTTATGG
466990 AATAAATGGTAAGTATATTGGTAA
1 AATAAATGGTAAGTATATTGGTAA
* ** *
467014 AATAAGCTTATGAGCT-TA-TGG---
1 AATAA-ATGGTAAG-TATATTGGTAA
467035 AATAAATGGTAAGTATATTGGTAA
1 AATAAATGGTAAGTATATTGGTAA
467059 AATAA
1 AATAA
467064 GCTTACGAGC
Statistics
Matches: 35, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 8 0.23
24 13 0.37
25 6 0.17
26 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (24 bp):
AATAAATGGTAAGTATATTGGTAA
Found at i:467113 original size:91 final size:90
Alignment explanation
Indices: 466968--467138 Score: 288
Period size: 91 Copynumber: 1.9 Consensus size: 90
466958 GTAAGCATGC
* * *
466968 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTATGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGCTAAAATAAGCTTACGAGCTTAT
467033 GGAATAAATGGTAAGTATATTGGTA
66 GGAATAAATGGTAAGTATATTGGTA
*
467058 AAATAAGCTTACGAGCTTATGGAATTAAATGATAAGTATTTTGCTAAAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTATGGAA-TAAATGATAAGTATATTGCTAAAATAAGCTTACGAGCTTA
*
467123 TGGGATAAATGGTAAG
65 TGGAATAAATGGTAAG
467139 AGATTTTATA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 24 0.32
91 51 0.68
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (90 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGCTAAAATAAGCTTACGAGCTTAT
GGAATAAATGGTAAGTATATTGGTA
Found at i:467145 original size:46 final size:45
Alignment explanation
Indices: 466968--467138 Score: 288
Period size: 45 Copynumber: 3.8 Consensus size: 45
466958 GTAAGCATGC
466968 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
467013 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
467058 AAATAAGCTTACGAGCTTATGGAATTAAATGATAAGTATTTTGCTA
1 AAATAAGCTTACGAGCTTATGGAA-TAAATGGTAAGTATATTGGTA
*
467104 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
467139 AGATTTTATA
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
45 77 0.65
46 41 0.35
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:468699 original size:2 final size:2
Alignment explanation
Indices: 468692--468736 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
468682 TAAATTATTG
468692 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
468734 AT A
1 AT A
468737 AATTAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:468777 original size:18 final size:18
Alignment explanation
Indices: 468743--468777 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
468733 TATAAATTAA
468743 AAAATTAAAATATATCAC
1 AAAATTAAAATATATCAC
468761 AAAATATAAAATA-ATCA
1 AAAAT-TAAAATATATCA
468778 ATTATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTAAAATATATCAC
Found at i:469235 original size:2 final size:2
Alignment explanation
Indices: 469228--469264 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
469218 AAAATACTGA
469228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
469265 ATTAAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:481933 original size:13 final size:13
Alignment explanation
Indices: 481915--481949 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
481905 ATTGAAGGTT
481915 TTGGAAAAGAGCA
1 TTGGAAAAGAGCA
*
481928 TTGGAAAAGAGTA
1 TTGGAAAAGAGCA
*
481941 TTGGTAAAG
1 TTGGAAAAG
481950 TTGTAAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.03, G:0.31, T:0.23
Consensus pattern (13 bp):
TTGGAAAAGAGCA
Found at i:487006 original size:81 final size:81
Alignment explanation
Indices: 486920--487415 Score: 589
Period size: 82 Copynumber: 6.0 Consensus size: 81
486910 CAACTAATCC
** * * * * * *
486920 ATTATTCTTTTACTCAACAATGTTTAACTGTTCACCAAACTAGCGTAATTGACACCTTTCTGCCA
1 ATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
486985 ATTGCACAATTAGGCT
66 ATTGCACAATTAGGCT
* * *
487001 ATTATTCTTTTACTCAATGGTATTTAACAGTTCATCTAACTGACATAATTGACACCTTTTTACCA
1 ATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACC--TTT--C-
**
487066 ATTGCACAATTGCACAATTATACT
61 --TGC-CAATTGCACAATTAGGCT
* *
487090 ATTATTATTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGAAACCTTTCTGCC
1 ATTATT-CTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
**
487155 AATTGCACCTTTAGGCT
65 AATTGCACAATTAGGCT
* * *
487172 ATTATTCTTTTACTCAACGATATTTAACCGTTCATCCAACTGGCATAATTGACACATTTCTGCCA
1 ATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
* *
487237 ATTGCA-AAGCTAAGCT
66 ATTGCACAA-TTAGGCT
* * **
487253 ATTATACTTTTTACTCAACGGTATTCAACCGTTCATCTAACTGGCATAATTGACACAATTCTGCC
1 ATTATTC-TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
*
487318 AATTGCACAGTTAGGCT
65 AATTGCACAATTAGGCT
* *
487335 ATTATTCTTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAGTTGACACCTTTCTGTC
1 ATTATTC-TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
* * *
487400 AAATGCATAGTTAGGC
65 AATTGCACAATTAGGC
487416 CTCAAAGGCA
Statistics
Matches: 357, Mismatches: 46, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
81 117 0.33
82 158 0.44
83 7 0.02
85 1 0.00
86 1 0.00
88 6 0.02
89 22 0.06
90 45 0.13
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (81 bp):
ATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
ATTGCACAATTAGGCT
Found at i:487334 original size:163 final size:167
Alignment explanation
Indices: 486965--487406 Score: 617
Period size: 171 Copynumber: 2.6 Consensus size: 167
486955 CAAACTAGCG
* *
486965 TAATTGACACCTTTCTGCCAATTGCACAATTAGGCTATTATTCTTTTACTCAATGGTATTTAACA
1 TAATTGACACCTTTCTGCCAATTGCACAATTAGGCTATTATTCTTTTACTCAACGGTATTTAACC
* * *
487030 GTTCATCTAACTGACATAATTGACACCTTTTTACCAATTGCACAATTGCACAATTATACTATTAT
66 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAA-TG-AC-A-TATACTATTAT
*
487095 TATTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCA
127 TATTTTTACTCAACGGTATTCAACCGTTCATCTAACTGGCA
* ** *
487136 TAATTGAAACCTTTCTGCCAATTGCACCTTTAGGCTATTATTCTTTTACTCAACGATATTTAACC
1 TAATTGACACCTTTCTGCCAATTGCACAATTAGGCTATTATTCTTTTACTCAACGGTATTTAACC
* *
487201 GTTCATCCAACTGGCATAATTGACACATTTCTGCCAATTGCA-AA-G-C-TA-AGCTATTA-TAC
66 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAATGACATATA-CTATTATTA-
487260 TTTTTACTCAACGGTATTCAACCGTTCATCTAACTGGCA
129 TTTTTACTCAACGGTATTCAACCGTTCATCTAACTGGCA
** *
487299 TAATTGACACAATTCTGCCAATTGCACAGTTAGGCTATTATTCTTTTTACTCAACGGTATTTAAC
1 TAATTGACACCTTTCTGCCAATTGCACAATTAGGCTATTATTC-TTTTACTCAACGGTATTTAAC
* * *
487364 CGTTCATCTAACTGGCATAGTTGACACCTTTCTGTCAAATGCA
65 CGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCA
487407 TAGTTAGGCC
Statistics
Matches: 245, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
162 3 0.01
163 84 0.34
164 58 0.24
166 1 0.00
168 1 0.00
170 2 0.01
171 96 0.39
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (167 bp):
TAATTGACACCTTTCTGCCAATTGCACAATTAGGCTATTATTCTTTTACTCAACGGTATTTAACC
GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAATGACATATACTATTATTATT
TTTACTCAACGGTATTCAACCGTTCATCTAACTGGCA
Found at i:487457 original size:68 final size:68
Alignment explanation
Indices: 487366--487756 Score: 613
Period size: 68 Copynumber: 5.8 Consensus size: 68
487356 TATTTAACCG
** * *
487366 TTCATCTAACTGGCATAGTTGACACCTTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
487431 CCT
66 CCT
* * * * *
487434 TTCCTCTAACTTGCATAAATGACACCTTTATGTCAAATACACA-TTAGGTCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
487498 CAT
66 CCT
* *
487501 TTCATCTAACTGGCATAAATGACACTTTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
487566 CCT
66 CCT
* * *
487569 TTCATCTAACTGGCATAAATGACGCCTTTCTGTAAAATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
487634 CCT
66 CCT
* *
487637 TTCATCTAACTGGTATAAATGACACCTTTCTGTCAAATGCACAGTTAGACCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
487702 CCT
66 CCT
*
487705 TTCATCTAACTGGCGTAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCT
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCT
487757 ATAAATCTTT
Statistics
Matches: 293, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
67 58 0.20
68 235 0.80
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:488101 original size:59 final size:59
Alignment explanation
Indices: 487968--488187 Score: 290
Period size: 59 Copynumber: 3.8 Consensus size: 59
487958 TATATTTCTC
* * * * *
487968 ATACGGAAATACATACAATTGATATGAATTTCTT---ATTTCA-CACACATAGTGCCC-
1 ATACGGAAATTCATACACTTAATATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
* *
488022 ATACGGAAATTTATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAATATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
** * * *
488081 ATACAAAAATTCATACACTTAATATGAATTTATTAACCTTTTAACACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAATATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
488140 ATACGGAAATTCATACACTTAATATGAATTTCTTAACATTTT-GCACAC
1 ATACGGAAATTCATACACTTAATATGAATTTCTTAACATTTTAGCACAC
488188 TTAGTGCCAT
Statistics
Matches: 142, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.20
57 5 0.04
58 18 0.13
59 90 0.63
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAATATGAATTTCTTAACATTTTAGCACACAAAGTGCCCA
Found at i:490330 original size:23 final size:24
Alignment explanation
Indices: 490286--490331 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
490276 TTTGGATCAG
* **
490286 TTTTTGGTGGTATTCATCGATGAC
1 TTTTTGGTGGTACTCAAAGATGAC
490310 TTTTTGGT-GTACTCAAAGATGA
1 TTTTTGGTGGTACTCAAAGATGA
490332 ATGAGGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (24 bp):
TTTTTGGTGGTACTCAAAGATGAC
Found at i:511112 original size:20 final size:20
Alignment explanation
Indices: 511075--511115 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
511065 AGACTAAATG
* *
511075 TAGGATCATTTAGATGCATT
1 TAGGAGCATATAGATGCATT
*
511095 TAGGAGCATATAGTTGCATT
1 TAGGAGCATATAGATGCATT
511115 T
1 T
511116 GTTGGTTTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:513362 original size:17 final size:16
Alignment explanation
Indices: 513316--513362 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
513306 ACAACTAAAC
*
513316 ATATTATATATTATTT
1 ATATTATAAATTATTT
*
513332 ATGTTATAATATTATTT
1 ATATTATAA-ATTATTT
513349 ATTATTATAAATTA
1 A-TATTATAAATTA
513363 AATTTATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 7 0.27
17 12 0.46
18 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
ATATTATAAATTATTT
Found at i:514260 original size:3 final size:3
Alignment explanation
Indices: 514254--514280 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
514244 AAGAAGTGCA
514254 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
514281 GTGGGTACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:520995 original size:89 final size:88
Alignment explanation
Indices: 520844--521318 Score: 692
Period size: 89 Copynumber: 5.5 Consensus size: 88
520834 AAAGGGGAGT
* *
520844 CAACCTAAGGATATTCCTTGGGGCCTATGGGCCTACCCAAGGGTATCCTTAGATTCGTAGGGTTA
1 CAACCTAAGGATATGCCTTGGGGCCTAT-GGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTA
* * * *
520909 TCCTAAGTACACAACAAAGGGAAC
65 TCCTATGCACACAGCAAAGGAAAC
* *
520933 CAACCTAAGGATATGCCTTGGGGCCTATAGGCCTACCCAAGGGCATCCTTAGATCCGTAGGGTTG
1 CAACCTAAGGATATGCCTTGGGGCCTAT-GGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTA
*
520998 TCCTATGCATACAGCAAAGGAAAC
65 TCCTATGCACACAGCAAAGGAAAC
*
521022 CAACCTAAGGATATGCCTT--GG-----GGCCTACCCAAGGGTATCCTTAGATCCATAGGGTTAT
1 CAACCTAAGGATATGCCTTGGGGCCTATGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTAT
*
521080 CCTATGCACACATCAAAGGAAAC
66 CCTATGCACACAGCAAAGGAAAC
* *
521103 CAACCTAAGGATATG-CTTTGGGCCTA---CCT----TAGGGTATCCTTAGATCCGTAGGGTTAT
1 CAACCTAAGGATATGCCTTGGGGCCTATGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTAT
521160 CCTATGCACACAGCAAAGGAAAC
66 CCTATGCACACAGCAAAGGAAAC
521183 CAACCTAAGGATATGCCTTGGGGCCTATGAGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTA
1 CAACCTAAGGATATGCCTTGGGGCCTATG-GCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTA
521248 TCCTATGCACACAGCAAAGGAAAC
65 TCCTATGCACACAGCAAAGGAAAC
521272 CAACCTAAGGATATGCCTTGGGGCCTATGGGCCTACCCAAGGGTATC
1 CAACCTAAGGATATGCCTTGGGGCCTAT-GGCCTACCCAAGGGTATC
521319 ATTCGGTCCG
Statistics
Matches: 350, Mismatches: 20, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
80 66 0.19
81 80 0.23
82 2 0.01
84 3 0.01
85 3 0.01
87 2 0.01
89 193 0.55
90 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (88 bp):
CAACCTAAGGATATGCCTTGGGGCCTATGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTAT
CCTATGCACACAGCAAAGGAAAC
Found at i:521097 original size:81 final size:81
Alignment explanation
Indices: 520962--521298 Score: 523
Period size: 81 Copynumber: 4.1 Consensus size: 81
520952 GGGGCCTATA
* * *
520962 GGCCTACCCAAGGGCATCCTTAGATCCGTAGGGTTGTCCTATGCATACAGCAAAGGAAACCAACC
1 GGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTATCCTATGCACACAGCAAAGGAAACCAACC
521027 TAAGGATATGCCTTGG
66 TAAGGATATGCCTTGG
* *
521043 GGCCTACCCAAGGGTATCCTTAGATCCATAGGGTTATCCTATGCACACATCAAAGGAAACCAACC
1 GGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTATCCTATGCACACAGCAAAGGAAACCAACC
*
521108 TAAGGATATG-CTTTG
66 TAAGGATATGCCTTGG
**
521123 GGCCTACCTTAGGGTATCCTTAGATCCGTAGGGTTATCCTATGCACACAGCAAAGGAAACCAACC
1 GGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTATCCTATGCACACAGCAAAGGAAACCAACC
521188 TAAGGATATGCCTTGGGG
66 TAAGGATATGCCTT--GG
521206 CCTATGAGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTATCCTATGCACACAGCAAAGGAAA
1 -----G-GCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTATCCTATGCACACAGCAAAGGAAA
521271 CCAACCTAAGGATATGCCTTGG
60 CCAACCTAAGGATATGCCTTGG
521293 GGCCTA
1 GGCCTA
521299 TGGGCCTACC
Statistics
Matches: 234, Mismatches: 13, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
80 75 0.32
81 78 0.33
82 1 0.00
83 1 0.00
87 2 0.01
88 1 0.00
89 76 0.32
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (81 bp):
GGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTATCCTATGCACACAGCAAAGGAAACCAACC
TAAGGATATGCCTTGG
Found at i:524094 original size:30 final size:30
Alignment explanation
Indices: 524060--524129 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
524050 TTATTTTTGG
524060 TCAAAGTCAACGG-TCAAAGGGTTGACCCGA
1 TCAAAGTCAACGGTTCAAA-GGTTGACCCGA
* * * *
524090 TCAAAGTCAACGGTTTACAGGTTGACTCGG
1 TCAAAGTCAACGGTTCAAAGGTTGACCCGA
524120 TCAAAGTCAA
1 TCAAAGTCAA
524130 TGAGTTGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 32 0.91
31 3 0.09
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (30 bp):
TCAAAGTCAACGGTTCAAAGGTTGACCCGA
Found at i:546248 original size:59 final size:59
Alignment explanation
Indices: 546156--546284 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 59
546146 CGTAATGTAA
* * * * **
546156 TCCCGAGTAAGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* * ** *
546215 TCCCGAATATGACACATAAGGTTGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
546274 TCCCGAATATG
1 TCCCGAATATG
546285 CAGCCTGCTG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:551008 original size:16 final size:16
Alignment explanation
Indices: 550987--551020 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
550977 GAAATTTCTT
*
550987 AATATAATTAATATTA
1 AATATAATTAATAGTA
551003 AATATAATTAATAGTA
1 AATATAATTAATAGTA
551019 AA
1 AA
551021 AAAATTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AATATAATTAATAGTA
Found at i:552656 original size:2 final size:2
Alignment explanation
Indices: 552649--552674 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
552639 AAGGGGATAA
552649 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
552675 CAAGGTAGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:563936 original size:16 final size:16
Alignment explanation
Indices: 563915--563948 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
563905 CAAATTTCTT
*
563915 AATATAATTAATATTA
1 AATATAATTAATAATA
563931 AATATAATTAATAATA
1 AATATAATTAATAATA
563947 AA
1 AA
563949 AATTATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAATTAATAATA
Found at i:568574 original size:14 final size:14
Alignment explanation
Indices: 568564--568595 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
568554 AACATTTATG
568564 TTGTGACATTTAAA
1 TTGTGACATTTAAA
568578 TTGTGACATTTAAA
1 TTGTGACATTTAAA
568592 TTGT
1 TTGT
568596 ATCGAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (14 bp):
TTGTGACATTTAAA
Found at i:576056 original size:48 final size:48
Alignment explanation
Indices: 576000--576147 Score: 206
Period size: 48 Copynumber: 3.1 Consensus size: 48
575990 TATAGTACTG
* * * *
576000 ATACGAAAAGGCAACATATACACTAAACAAAATCGATCGATAACCATC
1 ATACGAAAATGCAACTTATGCATTAAACAAAATCGATCGATAACCATC
* *
576048 ATACGAAAATGTAACTTATGCATTAAACAAAATCGATCGATAATCATC
1 ATACGAAAATGCAACTTATGCATTAAACAAAATCGATCGATAACCATC
* * * *
576096 ATACAAAAATGCAACTTTTGCATTAAACAAAATCAATTGATAACCATC
1 ATACGAAAATGCAACTTATGCATTAAACAAAATCGATCGATAACCATC
576144 ATAC
1 ATAC
576148 ACAAAGTATG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.24
Consensus pattern (48 bp):
ATACGAAAATGCAACTTATGCATTAAACAAAATCGATCGATAACCATC
Found at i:576102 original size:24 final size:24
Alignment explanation
Indices: 576026--576103 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
576016 TATACACTAA
*
576026 ACAAAATCGATCGATAACCATCAT
1 ACAAAATCGATCGATAATCATCAT
* * * *
576050 ACGAAAAT-G-T-AACTTATGCATTAA
1 AC-AAAATCGATCGA-TAAT-CATCAT
576074 ACAAAATCGATCGATAATCATCAT
1 ACAAAATCGATCGATAATCATCAT
576098 ACAAAA
1 ACAAAA
576104 ATGCAACTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
22 1 0.03
23 8 0.21
24 20 0.51
25 9 0.23
26 1 0.03
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (24 bp):
ACAAAATCGATCGATAATCATCAT
Found at i:577065 original size:20 final size:19
Alignment explanation
Indices: 577042--577099 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
577032 AAATCTCCTT
577042 ATAACATCCAAAATCTCAAA
1 ATAACA-CCAAAATCTCAAA
*
577062 ATAACACTCAAAA-CTAAAA
1 ATAACAC-CAAAATCTCAAA
* *
577081 ATTACACCAAAATTTCAAA
1 ATAACACCAAAATCTCAAA
577100 CATGTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 5 0.16
19 16 0.50
20 11 0.34
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.21
Consensus pattern (19 bp):
ATAACACCAAAATCTCAAA
Found at i:582655 original size:53 final size:53
Alignment explanation
Indices: 582577--582692 Score: 178
Period size: 53 Copynumber: 2.2 Consensus size: 53
582567 ATTGCACCTA
*
582577 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACAT
1 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATGCCATGGATGCACACAT
* * * * *
582630 AGTGCCGAAATGGTTATTTATAAACTCATTATGAATGCCATGGGTGCACACAT
1 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATGCCATGGATGCACACAT
582683 AGTGCCAAAA
1 AGTGCCAAAA
582693 GTACATATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (53 bp):
AGTGCCAAAATGGTAATTCACAAACTCATTATGAATGCCATGGATGCACACAT
Found at i:582809 original size:48 final size:46
Alignment explanation
Indices: 582708--582851 Score: 175
Period size: 48 Copynumber: 3.1 Consensus size: 46
582698 TATAATACTG
** * *
582708 ATACGAAAATGCAAGATATACATTAAACAAAATC--GATAACCATC
1 ATACGAAAATGCAACTTATGCATTAAACAAAATCATGATAATCATC
582752 ATACGAAAATGCAACTTATGCATTAAACAAAATCGATTGATAATCATC
1 ATACGAAAATGCAACTTATGCATTAAACAAAATC-A-TGATAATCATC
* * *
582800 ATGCGAAAATTCAACTTATGCATTAAACAAAATCTATCAATAATCATC
1 ATACGAAAATGCAACTTATGCATTAAACAAAATC-AT-GATAATCATC
582848 ATAC
1 ATAC
582852 ACAAAGTATG
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
44 31 0.36
47 1 0.01
48 54 0.63
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.26
Consensus pattern (46 bp):
ATACGAAAATGCAACTTATGCATTAAACAAAATCATGATAATCATC
Found at i:603593 original size:41 final size:39
Alignment explanation
Indices: 603520--603647 Score: 114
Period size: 39 Copynumber: 3.2 Consensus size: 39
603510 AGTCGCATCG
* * *
603520 AAGTGCTTATGCATAAGGTTGCGTTAACCCTTT-CTTTACCA
1 AAGTGCTTATGCATAAGGCTGCATCAACCCTTTGC---ACCA
* *
603561 AAGTGCTTATGCATAAGGCTGCATCAATCCTTTGCACCG
1 AAGTGCTTATGCATAAGGCTGCATCAACCCTTTGCACCA
* * ** * *
603600 AAGTGCTTACGCATAAGGCTACGCCAATCCTTTGCACCG
1 AAGTGCTTATGCATAAGGCTGCATCAACCCTTTGCACCA
*
603639 AATTGCTTA
1 AAGTGCTTA
603648 CCCAATATAC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
39 46 0.61
41 29 0.38
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (39 bp):
AAGTGCTTATGCATAAGGCTGCATCAACCCTTTGCACCA
Found at i:603615 original size:39 final size:39
Alignment explanation
Indices: 603561--603648 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 39
603551 TTCTTTACCA
* * *
603561 AAGTGCTTATGCATAAGGCTGCATCAATCCTTTGCACCG
1 AAGTGCTTACGCATAAGGCTACACCAATCCTTTGCACCG
*
603600 AAGTGCTTACGCATAAGGCTACGCCAATCCTTTGCACCG
1 AAGTGCTTACGCATAAGGCTACACCAATCCTTTGCACCG
*
603639 AATTGCTTAC
1 AAGTGCTTAC
603649 CCAATATACA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (39 bp):
AAGTGCTTACGCATAAGGCTACACCAATCCTTTGCACCG
Found at i:614982 original size:25 final size:25
Alignment explanation
Indices: 614954--615038 Score: 152
Period size: 25 Copynumber: 3.4 Consensus size: 25
614944 AATCACTTTG
614954 TCTTCTTCCTCTCCCAAAACCTTCA
1 TCTTCTTCCTCTCCCAAAACCTTCA
*
614979 TCTTCTTTCTCTCCCAAAACCTTCA
1 TCTTCTTCCTCTCCCAAAACCTTCA
*
615004 TCTTCTTTCTCTCCCAAAACCTTCA
1 TCTTCTTCCTCTCCCAAAACCTTCA
615029 TCTTCTTCCT
1 TCTTCTTCCT
615039 TAGTAAGGTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.18, C:0.41, G:0.00, T:0.41
Consensus pattern (25 bp):
TCTTCTTCCTCTCCCAAAACCTTCA
Found at i:617819 original size:18 final size:18
Alignment explanation
Indices: 617796--617860 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
617786 ATGATAAATA
617796 ATATCATAGATAATAGTC
1 ATATCATAGATAATAGTC
* * **
617814 ATATCAAAGCCATGATAAAC
1 ATATCATAG--ATAATAGTC
*
617834 AATATCATACATAATAGTC
1 -ATATCATAGATAATAGTC
617853 ATATCATA
1 ATATCATA
617861 TTCTTTTACA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
18 16 0.46
19 6 0.17
20 6 0.17
21 7 0.20
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (18 bp):
ATATCATAGATAATAGTC
Found at i:617819 original size:39 final size:39
Alignment explanation
Indices: 617776--617858 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
617766 CTTATGATTT
* *
617776 TATCAAAACCATGATAAATAATATCATAGATAATAGTCA
1 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
*
617815 TATCAAAGCCATGATAAACAATATCATACATAATAGTCA
1 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
617854 TATCA
1 TATCA
617859 TATTCTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (39 bp):
TATCAAAACCATGATAAACAATATCATACATAATAGTCA
Found at i:617839 original size:21 final size:21
Alignment explanation
Indices: 617776--617840 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
617766 CTTATGATTT
* *
617776 TATCAAAACCATGATAAATAA
1 TATCAAAGCCATGATAAACAA
* * **
617797 TATCATAG--ATAATAGTC-A
1 TATCAAAGCCATGATAAACAA
617815 TATCAAAGCCATGATAAACAA
1 TATCAAAGCCATGATAAACAA
617836 TATCA
1 TATCA
617841 TACATAATAG
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 8 0.26
19 5 0.16
20 6 0.19
21 12 0.39
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.26
Consensus pattern (21 bp):
TATCAAAGCCATGATAAACAA
Found at i:624794 original size:81 final size:81
Alignment explanation
Indices: 624339--624774 Score: 559
Period size: 81 Copynumber: 5.4 Consensus size: 81
624329 TATTTAGCTT
* * * * * * * ** *
624339 TTCATTTAACTTGCATATTTGACACTTTTTTATCAATTGCACA-TCTAATCCAATATTCTTTTAC
1 TTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCACAGT-TAGGCCATTATTCTTTTAC
* *
624403 TCAACGGTGTTTAACTG
65 TCAATGGTGTTTAACCG
* * *
624420 TTCATTTAACTGGTATAATTGGCACCTTTCTACCAATTGCACAGTTAGACCATTATTCTTTTACT
1 TTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTACT
* *** *
624485 CAACGACCTTTAACTG
66 CAATGGTGTTTAACCG
**
624501 TTCATCTAACAAGCATAATTGGCACCTTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTACT
1 TTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTACT
624566 CAATGGTGTTTAACCG
66 CAATGGTGTTTAACCG
* *
624582 TTCATCTAACTAGCATAATTGGCACCTTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTATT
1 TTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTACT
624647 CAATGGTGTTTAACCG
66 CAATGGTGTTTAACCG
* * * * *
624663 TTCATTTAACTGACATAATTGGTACTTTTCTACTAATTGCACAGTTAGGCCATTATTCTTTTACT
1 TTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTACT
*
624728 CAATAGTGTTTAACCG
66 CAATGGTGTTTAACCG
* * *
624744 TACATCTAACTGGCATAATTGACACATTTCT
1 TTCATCTAACTGGCATAATTGGCACCTTTCT
624775 TTCAAATGAG
Statistics
Matches: 315, Mismatches: 39, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 314 1.00
82 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTACT
CAATGGTGTTTAACCG
Found at i:624835 original size:68 final size:68
Alignment explanation
Indices: 624746--624931 Score: 282
Period size: 68 Copynumber: 2.7 Consensus size: 68
624736 TTTAACCGTA
* * **
624746 CATCTAACTGGCATAATTGACACATTTCTTTCAAATGAGCAGTTAGGCCTCAAAGGCACTTAGCC
1 CATCTAACTGGCATAAATGACACATTTCTATCAAATGAGCAGTTAGGCCTCAAAAACACTTAGCC
624811 TTT
66 TTT
* * * * *
624814 CATCTAACTGACATAAATGACACCTTTCTATCAAATGCGCAGTTAGACCTCAAAAACGCTTAGCC
1 CATCTAACTGGCATAAATGACACATTTCTATCAAATGAGCAGTTAGGCCTCAAAAACACTTAGCC
624879 TTT
66 TTT
*
624882 CATCTAACTGGCATAAATGACACATTTCTGTCAAATGAGCAGTTAGGCCT
1 CATCTAACTGGCATAAATGACACATTTCTATCAAATGAGCAGTTAGGCCT
624932 ATTAATCTTT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 104 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (68 bp):
CATCTAACTGGCATAAATGACACATTTCTATCAAATGAGCAGTTAGGCCTCAAAAACACTTAGCC
TTT
Found at i:625190 original size:53 final size:54
Alignment explanation
Indices: 625125--625270 Score: 188
Period size: 55 Copynumber: 2.7 Consensus size: 54
625115 ACATATATTT
* *
625125 CCCATACAAAAATTCATACA-TTTGATATGAATTTCTTAG-TCACACACATAGTG
1 CCCATACAAAAATTCATACACTTAG-TATGAATTTCTTAGTTCACACACAAAGTG
* **
625178 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTG
1 CCCATACAAAAATTCATACACTTAGTATGAATTTCTTAG-TTCACACACAAAGTG
* * *
625233 CACATATATAAATTCATACACTTAGTATGAATTTCTTA
1 CCCATACAAAAATTCATACACTTAGTATGAATTTCTTA
625271 AATTTTTGTA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 33 0.41
54 3 0.04
55 45 0.56
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (54 bp):
CCCATACAAAAATTCATACACTTAGTATGAATTTCTTAGTTCACACACAAAGTG
Found at i:627308 original size:39 final size:39
Alignment explanation
Indices: 627254--627336 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
627244 CTCATGATTT
* *
627254 TATCAAAACCATGATAAATAATTTCATACATAATAGTCA
1 TATCAAAACCATGATAAACAATGTCATACATAATAGTCA
*
627293 TATCAAAGCCATGATAAACAATGTCATACATAATAGTCA
1 TATCAAAACCATGATAAACAATGTCATACATAATAGTCA
627332 TATCA
1 TATCA
627337 TATTCTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (39 bp):
TATCAAAACCATGATAAACAATGTCATACATAATAGTCA
Found at i:627416 original size:19 final size:19
Alignment explanation
Indices: 627382--627418 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
627372 ATATCTTATT
627382 TTCATCTTTCACTTTCATA
1 TTCATCTTTCACTTTCATA
627401 TTCA-CTTTCACATTTCAT
1 TTCATCTTTCAC-TTTCAT
627419 TTTTCATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (19 bp):
TTCATCTTTCACTTTCATA
Found at i:627509 original size:18 final size:19
Alignment explanation
Indices: 627482--627525 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
627472 GTTTCCATAC
*
627482 TCATAACTTA-TTTC-AGAT
1 TCATAGCTTATTTTCAAG-T
627500 TCATAGCTTATTTTCAAGT
1 TCATAGCTTATTTTCAAGT
627519 TCATAGC
1 TCATAGC
627526 CCAATGCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 12 0.52
20 2 0.09
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (19 bp):
TCATAGCTTATTTTCAAGT
Found at i:632648 original size:76 final size:76
Alignment explanation
Indices: 632550--632717 Score: 180
Period size: 75 Copynumber: 2.2 Consensus size: 76
632540 AACATAACTC
* * * * * * **
632550 TATCTCGCTTGAGATAGTTTTTTCCTCAAGAATAGTTTTTGTATCACTT-GAGAGAGTATAT-TT
1 TATCTCACTTGAGATAGATTTTTCCTCAAAAATAATTTATGTATCA-TTCGAGACAGT-T-TCAA
*
632613 TGAAAACAAAATTT
63 TCAAAACAAAATTT
* * *
632627 TATCTCACTGGAGATA-ATTTTTGCTCAAAAATAATTTATGTCTCATTCGAGACAGTTTCAATCA
1 TATCTCACTTGAGATAGATTTTTCCTCAAAAATAATTTATGTATCATTCGAGACAGTTTCAATCA
632691 AAACAAAATTT
66 AAACAAAATTT
632702 TATCTCACTTGAGATA
1 TATCTCACTTGAGATA
632718 TTATCCTTGA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
74 1 0.01
75 31 0.41
76 30 0.39
77 14 0.18
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (76 bp):
TATCTCACTTGAGATAGATTTTTCCTCAAAAATAATTTATGTATCATTCGAGACAGTTTCAATCA
AAACAAAATTT
Found at i:632783 original size:70 final size:68
Alignment explanation
Indices: 632675--632872 Score: 195
Period size: 69 Copynumber: 2.9 Consensus size: 68
632665 TGTCTCATTC
* * *
632675 GAGACAGTTTCAATCAAAACAAAATTTT-ATCTCACTTGAGATATTATCCTTGAAAGTTTTTGTC
1 GAGACAGTTTCTATCAAAACAAAATTTTCATCTCCCTTGAGATATTATCCTTG--A-TTTTTATC
632739 GCACTT
63 GCACTT
* * * *
632745 GAGACAGTTTCTCTCAAAAC-AATTTTTCATCTCCCTTGAGATACTTTTCCTTGATTTTTATCTC
1 GAGACAGTTTCTATCAAAACAAAATTTTCATCTCCCTTGAGATA-TTATCCTTGATTTTTATCGC
632809 ACTT
65 ACTT
* * * ** * *
632813 AAGAAAGTTTCTTTTGAAACAAAAGTTTCATCTCCCTTGTGATATT-TCCCCTTGATTTTT
1 GAGACAGTTTCTATCAAAACAAAATTTTCATCTCCCTTGAGATATTAT--CCTTGATTTTT
632873 TTTCATATCA
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
67 1 0.01
68 29 0.27
69 38 0.35
70 32 0.30
71 8 0.07
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (68 bp):
GAGACAGTTTCTATCAAAACAAAATTTTCATCTCCCTTGAGATATTATCCTTGATTTTTATCGCA
CTT
Found at i:632824 original size:68 final size:70
Alignment explanation
Indices: 632676--632947 Score: 248
Period size: 73 Copynumber: 3.9 Consensus size: 70
632666 GTCTCATTCG
** * * * * *
632676 AGACAGTTTCAATCAAAACAAAATTTT-ATCTCACTTGAGATATTATCCTTGAAAGTTTTTGTCG
1 AGACAGTTTCTCTCAAAACAAAATTTTCATCTCCCTTGAGATATTTTCCTTG-AATTTTTTATCT
*
632740 CACTTG
65 CACTTA
*
632746 AGACAGTTTCTCTCAAAAC-AATTTTTCATCTCCCTTGAGATACTTTTCCTTG-A-TTTTTATCT
1 AGACAGTTTCTCTCAAAACAAAATTTTCATCTCCCTTGAGATA-TTTTCCTTGAATTTTTTATCT
632808 CACTTA
65 CACTTA
* * ** * * * *
632814 AGAAAGTTTCTTTTGAAACAAAAGTTTCATCTCCCTTGTGATATTTCCCCTTGATTTTTTTTCAT
1 AGACAGTTTCTCTCAAAACAAAATTTTCATCTCCCTTGAGATATTT-TCCTTGA-ATTTTTT-AT
* * *
632879 ATCAGTCA
63 CTCACTTA
**
632887 AGACAGTTTCTCTTGAAAC-AAATATTTCATCTCCCTTGAGATATTTTCCCTTGAATTTTTT
1 AGACAGTTTCTCTCAAAACAAAAT-TTTCATCTCCCTTGAGATATTTT-CCTTGAATTTTTT
632948 TTTGTCTCAG
Statistics
Matches: 166, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
68 30 0.18
69 32 0.19
70 31 0.19
71 8 0.05
72 14 0.08
73 51 0.31
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (70 bp):
AGACAGTTTCTCTCAAAACAAAATTTTCATCTCCCTTGAGATATTTTCCTTGAATTTTTTATCTC
ACTTA
Found at i:632918 original size:73 final size:71
Alignment explanation
Indices: 632746--632978 Score: 242
Period size: 73 Copynumber: 3.3 Consensus size: 71
632736 GTCGCACTTG
** * *
632746 AGACAGTTTCTCTCAAAAC-AATTTTTCATCTCCCTTGAGATACTTTTCCTTGA---TTTTTATC
1 AGACAGTTTCTCTTGAAACAAATATTTCATCTCCCTTGAGATA-TTTCCCTTGATTTTTTTTATC
* *
632807 TCACTTA
65 TCAGTCA
* * *
632814 AGAAAGTTTCTTTTGAAACAAA-AGTTTCATCTCCCTTGTGATATTTCCCCTTGATTTTTTTTCA
1 AGACAGTTTCTCTTGAAACAAATA-TTTCATCTCCCTTGAGATATTT-CCCTTGATTTTTTTT-A
*
632878 TATCAGTCA
63 TCTCAGTCA
*
632887 AGACAGTTTCTCTTGAAACAAATATTTCATCTCCCTTGAGATATTTTCCCTTGAATTTTTTTTTG
1 AGACAGTTTCTCTTGAAACAAATATTTCATCTCCCTTGAGATA-TTTCCCTTG-A-TTTTTTTTA
*
632952 TCTCAGTCG
63 TCTCAGTCA
* *
632961 AGACAATTTCCCTTGAAA
1 AGACAGTTTCTCTTGAAA
632979 AAAAAAGTTA
Statistics
Matches: 136, Mismatches: 18, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
68 18 0.13
69 26 0.19
72 5 0.04
73 51 0.38
74 28 0.21
75 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (71 bp):
AGACAGTTTCTCTTGAAACAAATATTTCATCTCCCTTGAGATATTTCCCTTGATTTTTTTTATCT
CAGTCA
Done.