Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold36
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: 4808052
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18886 characters in sequence are not A, C, G, or T
File 3 of 28
Found at i:396960 original size:4 final size:4
Alignment explanation
Indices: 396953--396983 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
396943 GCACAAACAA
*
396953 AAAT AAAT AAAT AAAT ATAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
396984 ATTATGGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:398663 original size:80 final size:79
Alignment explanation
Indices: 398564--398750 Score: 196
Period size: 79 Copynumber: 2.4 Consensus size: 79
398554 TGTTCCCTTA
* * * * * *
398564 AAAATAACGGGGCTCGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAAAATCAAGA
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAG-AAAAAAAAACCAAGA
398628 TTGGAGTATCCCCTCG
64 TTGGAGTATCCCCTCG
* * ** * * ** *
398644 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAACCAAGATT
398709 GGAGTATCCCCTCG
66 GGAGTATCCCCTCG
* *
398723 GAAGTAACGGGGTTGGAGTATCCCCGAT
1 AAAATAACGGGGTTGGAGTATCCCCGAT
398751 GAAATAACGA
Statistics
Matches: 88, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
79 49 0.56
80 39 0.44
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (79 bp):
AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAACCAAGATT
GGAGTATCCCCTCG
Found at i:398742 original size:28 final size:28
Alignment explanation
Indices: 398702--398773 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
398692 GGAATAAAGC
** *
398702 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
398730 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
398758 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
398774 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:398759 original size:107 final size:106
Alignment explanation
Indices: 398628--399040 Score: 338
Period size: 107 Copynumber: 3.9 Consensus size: 106
398618 AAAATCAAGA
* * * * *
398628 TTGGAGTATCCCC--TCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTT
1 TTGGAGTATCCCCGAT-G-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTT
* * *
398691 GGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGG
64 GGAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAATAACGGGG
* * *
398735 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTG
1 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTA-TTTTG
** * * * **
398800 GAAATAAAATTGGAGTTGGAGTAT-CCC-CG-ATTAAAGGAAAA
65 GAAATAAAACCGGGGTTGGAGTATCCCCTCGAAATAACGG--GG
* * ***** * * *
398841 TTGGTGTTTTGAAAAT-AAA-ACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTA
1 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTTG
* * *
398904 GCAATAAAACCGGGGTTGGAGCATCCCCTCAGAAATAACAGGG
65 GAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAATAACGGGG
* * *
398947 TTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTT
1 TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATT--AGTATTT
** *
399011 TGGAAATAAAATTGGAGTTGGAGTATCCCC
63 TGGAAATAAAACCGGGGTTGGAGTATCCCC
399041 GATTATAGAA
Statistics
Matches: 234, Mismatches: 57, Indels: 28
0.73 0.18 0.09
Matches are distributed among these distances:
104 52 0.22
105 17 0.07
106 24 0.10
107 81 0.35
108 30 0.13
109 30 0.13
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (106 bp):
TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTGG
AAATAAAACCGGGGTTGGAGTATCCCCTCGAAATAACGGGG
Found at i:398831 original size:52 final size:51
Alignment explanation
Indices: 398762--399098 Score: 227
Period size: 52 Copynumber: 6.4 Consensus size: 51
398752 AAATAACGAG
* * *
398762 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTTGGAAATAAAATCGGA
** * * * *
398814 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * *
398866 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * *** * * *
398918 GTTGGAGCATCCCC--TCAG-AAATAACAGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGAT-TGTGAA-AA-A---TTGGTGT-T-TTGGA-AATAAAATCGGA
*
398973 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTG--TTTTGGAAATAAAATCGGA
* * *
399027 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGGAAATAAAATCGGA
*
399078 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
399099 GAGAATTGAG
Statistics
Matches: 220, Mismatches: 45, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
49 2 0.01
50 3 0.01
51 37 0.17
52 91 0.41
53 28 0.13
54 28 0.13
55 19 0.09
56 5 0.02
57 7 0.03
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:398950 original size:212 final size:212
Alignment explanation
Indices: 398651--399100 Score: 663
Period size: 212 Copynumber: 2.1 Consensus size: 212
398641 TCGAAAATAA
* * * * * * *
398651 CGGGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGCA
* * * *
398715 TCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATT
66 TCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATT
398780 GTGAA-AAATTGGT-ATTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGGAAAATT
130 GTGAAGAAATTGGTGATTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAA-GAAAATT
*
398843 GGTGTTTTGAAAATAAAAC
194 AGTGTTTTGAAAATAAAAC
* * *
398862 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGCA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGCA
* *
398927 TCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTG
66 TCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
* *
398992 TGAAGAAATTGGTGTTTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTATAGAAAATTAG
131 TGAAGAAATTGGTGATTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGAAAATTAG
*
399057 TGTTTTGAAAATAAAAT
196 TGTTTTGAAAATAAAAC
* *
399074 CGGAGTTGGAATATCCCCGATTGTGGA
1 CGGGGTTGGAGTATCCCCGATTGTGGA
399101 GAATTGAGAA
Statistics
Matches: 214, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
211 51 0.24
212 123 0.57
213 40 0.19
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (212 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGCA
TCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
TGAAGAAATTGGTGATTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGAAAATTAG
TGTTTTGAAAATAAAAC
Found at i:401478 original size:13 final size:13
Alignment explanation
Indices: 401460--401485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
401450 ACAAAGATCC
401460 ATGTATCGATACA
1 ATGTATCGATACA
401473 ATGTATCGATACA
1 ATGTATCGATACA
401486 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:401481 original size:33 final size:33
Alignment explanation
Indices: 401439--401505 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
401429 AAAATTTCCA
***
401439 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
401472 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
401505 A
1 A
401506 TATCTTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:401569 original size:32 final size:32
Alignment explanation
Indices: 401528--401590 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
401518 TAGCTAATTA
*
401528 TGTATCGATACAATACTTATGTATCAATACAT
1 TGTATCGATACAAAACTTATGTATCAATACAT
*
401560 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCAATACA
401591 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCAATACAT
Found at i:401592 original size:19 final size:19
Alignment explanation
Indices: 401525--401592 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
401515 CAATAGCTAA
*
401525 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
*
401544 TTATGTATCAATAC---A-
1 TTATGTATCGATACAAAAC
401559 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
401576 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
401593 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.66
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:403001 original size:20 final size:20
Alignment explanation
Indices: 402973--403047 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
402963 TTTTACCTTG
402973 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
402993 ATATATCGATACATGTATAA
1 ATGTATCGATACATTTTTCA
* * *
403013 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
403033 ATGTATCGATACATT
1 ATGTATCGATACATT
403048 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:408560 original size:15 final size:16
Alignment explanation
Indices: 408532--408569 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
408522 TAAACTTTTC
408532 AATTAAATCCTTTATTT
1 AATTAAAT-CTTTATTT
408549 AATTAAAT-TTTATTT
1 AATTAAATCTTTATTT
408564 AATTAA
1 AATTAA
408570 GGATTTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.62
17 8 0.38
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTAAATCTTTATTT
Found at i:411265 original size:81 final size:80
Alignment explanation
Indices: 411120--411273 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 80
411110 TGACTTTTCA
* * * *
411120 ATTTTAATTTGTTTAGATAATTCCTAATCAGATTATGATAAGAGGTAGACTTTATCCTTATTGAT
1 ATTTTAAGTTGTTTAGATAAGTCCTAATCAGATTAGGATAAGAGATAGACTTTATCCTTATTGA-
*
411185 TAGGATTGTGTTTAGG
65 TAAGATTGTGTTTAGG
*
411201 ATTTTAAGTTGTTTAGATAAGTCCTAATCATATTAGGATAA-AGAATAGACTTT-TCCTTATTTG
1 ATTTTAAGTTGTTTAGATAAGTCCTAATCAGATTAGGATAAGAG-ATAGACTTTATCCTTA-TTG
411264 ATAAGATTGT
64 ATAAGATTGT
411274 TTTTGTTTAG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
80 16 0.25
81 49 0.75
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.44
Consensus pattern (80 bp):
ATTTTAAGTTGTTTAGATAAGTCCTAATCAGATTAGGATAAGAGATAGACTTTATCCTTATTGAT
AAGATTGTGTTTAGG
Found at i:416153 original size:22 final size:23
Alignment explanation
Indices: 416122--416181 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
416112 ATTTATGTTA
416122 TTTTTA-ATTTAAATTGT-TAAT
1 TTTTTATATTTAAATTGTCTAAT
* *
416143 TTTTTATATTT-TATTTTCTAAT
1 TTTTTATATTTAAATTGTCTAAT
*
416165 TTTTTATTTTTTAAATT
1 TTTTTA-TATTTAAATT
416182 TTATTAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 10 0.32
22 14 0.45
23 4 0.13
24 3 0.10
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTATATTTAAATTGTCTAAT
Found at i:416168 original size:14 final size:15
Alignment explanation
Indices: 416148--416186 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
416138 TTAATTTTTT
416148 ATATTTTATTTTCTA
1 ATATTTTATTTTCTA
* *
416163 ATTTTTTATTTTTTA
1 ATATTTTATTTTCTA
416178 A-ATTTTATT
1 ATATTTTATT
416187 AAAGATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
ATATTTTATTTTCTA
Found at i:418242 original size:14 final size:14
Alignment explanation
Indices: 418219--418252 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
418209 TAATTCTAGT
418219 TTTTTA-TTTTTTA
1 TTTTTATTTTTTTA
418232 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
418246 TTTTTAT
1 TTTTTAT
418253 ATTTGGATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:418931 original size:22 final size:22
Alignment explanation
Indices: 418906--418952 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
418896 ATATATGATG
418906 AAATAACAAT-TTATCAAAAAGT
1 AAATAA-AATCTTATCAAAAAGT
* *
418928 AAATTATATCTTATCAAAAAGT
1 AAATAAAATCTTATCAAAAAGT
418950 AAA
1 AAA
418953 ATTATATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (22 bp):
AAATAAAATCTTATCAAAAAGT
Found at i:418954 original size:23 final size:22
Alignment explanation
Indices: 418916--418960 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
418906 AAATAACAAT
418916 TTATCAAAAAGTAAATTATATC
1 TTATCAAAAAGTAAATTATATC
418938 TTATCAAAAAGTAAAATTATATC
1 TTATCAAAAAGT-AAATTATATC
418961 ATAAGCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (22 bp):
TTATCAAAAAGTAAATTATATC
Found at i:419327 original size:17 final size:17
Alignment explanation
Indices: 419296--419329 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
419286 TTTAAAAATT
*
419296 AATATTTATTATCAAAC
1 AATATTTATGATCAAAC
*
419313 AATATTTATGCTCAAAC
1 AATATTTATGATCAAAC
419330 CCAATCACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (17 bp):
AATATTTATGATCAAAC
Found at i:420519 original size:28 final size:28
Alignment explanation
Indices: 420479--420548 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
420469 AATAAAGCCA
** *
420479 GGGTTGGAGTATCCCCTCGGAAGTAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
*
420507 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
*
420535 AGGTTGGAGTATCC
1 GGGTTGGAGTATCC
420549 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACG
Found at i:420606 original size:52 final size:52
Alignment explanation
Indices: 420537--420873 Score: 185
Period size: 52 Copynumber: 6.4 Consensus size: 52
420527 AAATAACGAG
*
420537 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
420589 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * * *
420642 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
420693 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
420748 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * *
420802 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
* *
420853 GTTGAAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
420874 GAGAATTGAT
Statistics
Matches: 215, Mismatches: 43, Indels: 54
0.69 0.14 0.17
Matches are distributed among these distances:
48 4 0.02
49 2 0.01
50 2 0.01
51 36 0.17
52 79 0.37
53 33 0.15
54 28 0.13
55 19 0.09
56 2 0.01
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:420752 original size:27 final size:28
Alignment explanation
Indices: 420689--420764 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
420679 GCGATAAAAC
***
420689 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
420717 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
420744 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
420765 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:420846 original size:212 final size:212
Alignment explanation
Indices: 420470--420875 Score: 638
Period size: 212 Copynumber: 1.9 Consensus size: 212
420460 ATGATTAGAA
* *
420470 ATAAAGCCAGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
420535 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* * *
420600 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGAAATATCCCCGATTGTGGA
420664 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
* *
420682 ATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
420746 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* * *
420811 TCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGAAATATCCCCGATTGTGG
129 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGAAATATCCCCGATTGTGG
420875 A
194 A
420876 GAATTGATAA
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 32 0.18
212 106 0.60
213 39 0.22
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGAAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:420848 original size:51 final size:52
Alignment explanation
Indices: 420752--420870 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 52
420742 AACGGGGTTG
* * *
420752 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTT
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTT
420805 AGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTT
1 -GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTT
*
420856 GAAATATCCCCGATT
1 G-AGTATCCCCGATT
420871 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
50 1 0.02
51 33 0.56
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (52 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTT
Found at i:423244 original size:13 final size:13
Alignment explanation
Indices: 423226--423251 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
423216 ACAAAGATCC
423226 ATGTATCGATACA
1 ATGTATCGATACA
423239 ATGTATCGATACA
1 ATGTATCGATACA
423252 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:423247 original size:33 final size:33
Alignment explanation
Indices: 423205--423271 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
423195 AAAATTTCCA
***
423205 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
423238 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
423271 A
1 A
423272 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:423315 original size:19 final size:18
Alignment explanation
Indices: 423291--423358 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
423281 CAGTAGCTAA
423291 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
423310 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
423325 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
423342 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
423359 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:423331 original size:13 final size:13
Alignment explanation
Indices: 423313--423337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
423303 ACAATACTTA
423313 TGTATCGATACAT
1 TGTATCGATACAT
423326 TGTATCGATACA
1 TGTATCGATACA
423338 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:423335 original size:32 final size:32
Alignment explanation
Indices: 423294--423356 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
423284 TAGCTAATTA
*
423294 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
423326 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
423357 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:424252 original size:55 final size:55
Alignment explanation
Indices: 424177--425164 Score: 1645
Period size: 55 Copynumber: 18.0 Consensus size: 55
424167 AGGAGTAAAA
* ** * *
424177 AAAATGCCACAAACACGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACT-G
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
* *
424231 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCCTGCTCTTTGAGGACT-G
1 AAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
*
424286 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT-G
1 AAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
*
424341 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
424397 AAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
424452 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
*
424507 AAAATGCCACCAACTTAG-GTAGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTT-GTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
424562 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
424617 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
*
424672 AAAATACCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
424727 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
424782 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
*
424837 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTTCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
424892 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
424947 AAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
*
425002 AAAATGCCACCAACTTGTGTGGGCTTT-AAGGGGTGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
* * *
425057 AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTCGGGGACT-G
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
* * *
425111 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGGGGACT
1 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
425165 AAAAAGCGGA
Statistics
Matches: 902, Mismatches: 21, Indels: 21
0.96 0.02 0.02
Matches are distributed among these distances:
54 14 0.02
55 877 0.97
56 11 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (55 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:438665 original size:28 final size:28
Alignment explanation
Indices: 438625--438694 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
438615 AATAAAGCCA
** *
438625 GGGTTGGAGTATCCCCTCGGAAGTAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
*
438653 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
*
438681 AGGTTGGAGTATCC
1 GGGTTGGAGTATCC
438695 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACG
Found at i:438892 original size:27 final size:28
Alignment explanation
Indices: 438829--438904 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
438819 GCGATAAAAC
438829 CGGGGTTGGAGTATCTCCTCG--GAAATAA
1 CGGGGTTGGAGTATC-CC-CGATGAAATAA
*
438857 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
438884 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
438905 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.04
27 27 0.60
28 16 0.36
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:438969 original size:206 final size:206
Alignment explanation
Indices: 438616--438987 Score: 604
Period size: 206 Copynumber: 1.8 Consensus size: 206
438606 ATGATTAGAA
* *
438616 ATAAAGCCAGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
438681 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
*
438746 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGGGATTGTGGAAAAATTA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCAGGATTGGAGGGATTGTGGAAAAATTA
438811 GTGTTTTAGCG
196 GTGTTTTAGCG
* * *
438822 ATAAAACCGGGGTTGGAGTATCTCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
438886 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* *
438951 TCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAA
129 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAA
438988 TCGGAGTTGG
Statistics
Matches: 152, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
205 29 0.19
206 84 0.55
207 39 0.26
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (206 bp):
ATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCAGGATTGGAGGGATTGTGGAAAAATTA
GTGTTTTAGCG
Found at i:438988 original size:51 final size:53
Alignment explanation
Indices: 438892--439010 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
438882 AACGGGGTTG
* * *
438892 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
438946 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
438997 GAATATCCCCGATT
1 GAGTATCCCCGATT
439011 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:441386 original size:13 final size:13
Alignment explanation
Indices: 441368--441393 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
441358 ACAAAGATCC
441368 ATGTATCGATACA
1 ATGTATCGATACA
441381 ATGTATCGATACA
1 ATGTATCGATACA
441394 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:441389 original size:33 final size:33
Alignment explanation
Indices: 441347--441413 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
441337 AAAATTTCCA
***
441347 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
441380 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
441413 A
1 A
441414 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:441457 original size:19 final size:18
Alignment explanation
Indices: 441433--441500 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
441423 CAGTAGCTAA
441433 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
441452 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
441467 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
441484 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
441501 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:441473 original size:13 final size:13
Alignment explanation
Indices: 441455--441479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
441445 ACAATACTTA
441455 TGTATCGATACAT
1 TGTATCGATACAT
441468 TGTATCGATACA
1 TGTATCGATACA
441480 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:441477 original size:32 final size:32
Alignment explanation
Indices: 441436--441498 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
441426 TAGCTAATTA
*
441436 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
441468 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
441499 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:441562 original size:21 final size:21
Alignment explanation
Indices: 441536--441613 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
441526 GTTGGGACCC
441536 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
441557 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
* *
441577 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTA-GAA
441598 TGTATCGATACATTTG
1 TGTATCGATACATTTG
441614 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 31 0.61
22 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:441600 original size:41 final size:40
Alignment explanation
Indices: 441536--441617 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
441526 GTTGGGACCC
* *
441536 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTCTAAAATGTATCGATACATTTG-GAA
441577 TGTATCGATACA-TTCTACAAATGTATCGATACATTTGGAA
1 TGTATCGATACATTTCTA-AAATGTATCGATACATTTGGAA
441617 T
1 T
441618 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTATCGATACATTTCTAAAATGTATCGATACATTTGGAA
Found at i:442332 original size:28 final size:28
Alignment explanation
Indices: 442296--442363 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
442286 ATAGATCTTA
*
442296 ATAACTAAATATATAAAAAATAATATATT
1 ATAA-TAAAAATATAAAAAATAATATATT
*
442325 ATAATAAAAATTTAAAAAATAATATATT
1 ATAATAAAAATATAAAAAATAATATATT
442353 ATAATAAAAAT
1 ATAATAAAAAT
442364 TTACTTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 33 0.89
29 4 0.11
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (28 bp):
ATAATAAAAATATAAAAAATAATATATT
Found at i:442364 original size:28 final size:28
Alignment explanation
Indices: 442309--442387 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 28
442299 ACTAAATATA
442309 TAAAAAATAATATATTATAATAAAAATT
1 TAAAAAATAATATATTATAATAAAAATT
442337 TAAAAAATAATATATTATAATAAAAATT
1 TAAAAAATAATATATTATAATAAAAATT
*
442365 TACTTAAAATAATA-ATT-TAATAA
1 TA--AAAAATAATATATTATAATAA
442388 TTTACTTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
28 36 0.75
29 3 0.06
30 9 0.19
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
TAAAAAATAATATATTATAATAAAAATT
Found at i:442381 original size:17 final size:16
Alignment explanation
Indices: 442336--442383 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
442326 TAATAAAAAT
*
442336 TTAAAA-AATAATATA
1 TTAAAATAATAATTTA
* *
442351 TTATAATAAAAATTTA
1 TTAAAATAATAATTTA
442367 CTTAAAATAATAATTTA
1 -TTAAAATAATAATTTA
442384 ATAATTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 5 0.19
16 7 0.27
17 14 0.54
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAATAATAATTTA
Found at i:443476 original size:10 final size:10
Alignment explanation
Indices: 443461--443485 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
443451 AATTTTAAAT
443461 TTTATTTATA
1 TTTATTTATA
443471 TTTATTTATA
1 TTTATTTATA
443481 TTTAT
1 TTTAT
443486 AAAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTATTTATA
Found at i:443553 original size:44 final size:42
Alignment explanation
Indices: 443471--443553 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 42
443461 TTTATTTATA
*
443471 TTTATTTATATTTATAAAAAAATTTAAATTCATTTATTTCGG
1 TTTATTTATATTTATAAAAAAATTTAAAATCATTTATTTCGG
* *
443513 TTTATATTATATTTTTAAATAAATTTTAAAAAT-ATTTATTT
1 TTTAT-TTATATTTATAAA-AAAATTT-AAAATCATTTATTT
443554 TTATTTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 5 0.14
43 12 0.34
44 14 0.40
45 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (42 bp):
TTTATTTATATTTATAAAAAAATTTAAAATCATTTATTTCGG
Found at i:443595 original size:28 final size:27
Alignment explanation
Indices: 443516--443597 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
443506 ATTTCGGTTT
* *
443516 ATATTATATTTTTAAATAAATTTTAAAA
1 ATATTATATTTTT-ATTAATTTTTAAAA
* *
443544 ATATT-TATTTTTATTTAATCTTTAATA
1 ATATTATATTTTTA-TTAATTTTTAAAA
*
443571 ATTTTATATTTTTATTAAGTTTTTAAA
1 ATATTATATTTTTATTAA-TTTTTAAA
443598 CATGAATAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.02
27 24 0.55
28 19 0.43
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
ATATTATATTTTTATTAATTTTTAAAA
Found at i:443662 original size:22 final size:24
Alignment explanation
Indices: 443622--443668 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
443612 CATATTTTTA
*
443622 ATATTTAAATTTATAATATTATAT
1 ATATTTAAATTTATAATATGATAT
*
443646 ATATTTAAGTTT-T-ATATGATAT
1 ATATTTAAATTTATAATATGATAT
443668 A
1 A
443669 AATTATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 1 0.05
24 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
ATATTTAAATTTATAATATGATAT
Found at i:443683 original size:16 final size:15
Alignment explanation
Indices: 443633--443684 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
443623 TATTTAAATT
443633 TATAATATTATATATA
1 TATAA-ATTATATATA
* * *
443649 TTTAAGTTTTATATGA
1 TATAAATTATATAT-A
443665 TATAAATTATATAATA
1 TATAAATTATAT-ATA
443681 TATA
1 TATA
443685 GTAAAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 7 0.25
16 19 0.68
17 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (15 bp):
TATAAATTATATATA
Found at i:447101 original size:29 final size:28
Alignment explanation
Indices: 447051--447106 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
447041 ACACAATTCC
*
447051 TTCTTTTTTCTTCAAATCTTTTCATTTGT
1 TTCTATTTTCTTCAAATCTTTTC-TTTGT
* * *
447080 TTCTATTTTCTTCTAGTTTTTTCTTTG
1 TTCTATTTTCTTCAAATCTTTTCTTTG
447107 CTTAACTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (28 bp):
TTCTATTTTCTTCAAATCTTTTCTTTGT
Found at i:447636 original size:2 final size:2
Alignment explanation
Indices: 447623--447653 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
447613 AGAAAGAAAA
*
447623 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
447654 TATGAACAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:447638 original size:12 final size:12
Alignment explanation
Indices: 447611--447651 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
447601 CAAGCCACGA
* *
447611 AGAGAAAGAAAA
1 AGAGAAAGAGAG
447623 AGAGAAAGAGAG
1 AGAGAAAGAGAG
*
447635 AGAGAGAGAGAG
1 AGAGAAAGAGAG
447647 AGAGA
1 AGAGA
447652 GATATGAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (12 bp):
AGAGAAAGAGAG
Found at i:447909 original size:34 final size:33
Alignment explanation
Indices: 447859--448074 Score: 234
Period size: 34 Copynumber: 6.4 Consensus size: 33
447849 TTATATTACA
* **
447859 TGTTGATTAAATGGTGATTTGGTAGTTTATTAT
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCAT
* * *
447892 TGTTGATTAAATAGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCAT
* * *
447926 TGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCAT
** *
447960 TGTTGATTAAATGAGAAATTTGGTAACTTACCAT
1 TGTTGATTAAATG-GTGATTTGGTAGCTTACCAT
* *
447994 TATTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCAT
* * *
448028 TGTTGACTAAATGGTAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGT-GATTTGGTAGCTTACCAT
448062 TGTTGATTAAATG
1 TGTTGATTAAATG
448075 ATGGTTTTTA
Statistics
Matches: 153, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
33 16 0.10
34 136 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (33 bp):
TGTTGATTAAATGGTGATTTGGTAGCTTACCAT
Found at i:448000 original size:102 final size:102
Alignment explanation
Indices: 447859--448075 Score: 301
Period size: 102 Copynumber: 2.1 Consensus size: 102
447849 TTATATTACA
** ** ** * * *
447859 TGTTGATTAAATG-GTGATTTGGTAGTTTATTATTGTTGATTAAATAGGTGATTTGGTGGTTTGC
1 TGTTGATTAAATGAGAAATTTGGTAACTTACCATTATTGATTAAATAGGTGATTTGGTGGCTTAC
447923 CATTGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
66 CATTGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
*
447960 TGTTGATTAAATGAGAAATTTGGTAACTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAATGAGAAATTTGGTAACTTACCATTATTGATTAAATAGGTGATTTGGTGGCTTAC
* * * *
448025 CATTGTTGACTAAATGGTAGATTTGGTAGGTTGCCAT
66 CATTGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
448062 TGTTGATTAAATGA
1 TGTTGATTAAATGA
448076 TGGTTTTTAC
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 13 0.13
102 88 0.87
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.41
Consensus pattern (102 bp):
TGTTGATTAAATGAGAAATTTGGTAACTTACCATTATTGATTAAATAGGTGATTTGGTGGCTTAC
CATTGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:452541 original size:34 final size:34
Alignment explanation
Indices: 452498--452701 Score: 266
Period size: 34 Copynumber: 6.0 Consensus size: 34
452488 TGGGAGAATT
*
452498 GGTGATTTGGTAGTTTACCATTGTTGATTAAATG
1 GGTGATTTGGTAGCTTACCATTGTTGATTAAATG
* * * *
452532 GGTGATTTGGTGGTTTGCCATTGTTGACTAAATG
1 GGTGATTTGGTAGCTTACCATTGTTGATTAAATG
*
452566 GGAGATTTGGTAGCTTACCATTGTTGATTAAATG
1 GGTGATTTGGTAGCTTACCATTGTTGATTAAATG
* ** *
452600 AGAAATTTGGTAGCTTACCATTATTGATTAAATG
1 GGTGATTTGGTAGCTTACCATTGTTGATTAAATG
* *
452634 GGTGATTTGGTGGCTTACCATTGTTGACTAAAT-
1 GGTGATTTGGTAGCTTACCATTGTTGATTAAATG
* *
452667 GGTAGATTTGGTAGGTTGCCATTGTTGATTAAATG
1 GGT-GATTTGGTAGCTTACCATTGTTGATTAAATG
452702 ATGGTTTTTA
Statistics
Matches: 147, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
33 3 0.02
34 144 0.98
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
GGTGATTTGGTAGCTTACCATTGTTGATTAAATG
Found at i:452678 original size:102 final size:102
Alignment explanation
Indices: 452502--452702 Score: 339
Period size: 102 Copynumber: 2.0 Consensus size: 102
452492 AGAATTGGTG
* * * *
452502 ATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCCATTGTTGACTAAATGG
1 ATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGG
452567 GAGATTTGGTAGCTTACCATTGTTGATTAAATGAGAA
66 GAGATTTGGTAGCTTACCATTGTTGATTAAATGAGAA
452604 ATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGG
1 ATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGG
* * *
452669 TAGATTTGGTAGGTTGCCATTGTTGATTAAATGA
66 GAGATTTGGTAGCTTACCATTGTTGATTAAATGA
452703 TGGTTTTTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.40
Consensus pattern (102 bp):
ATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGG
GAGATTTGGTAGCTTACCATTGTTGATTAAATGAGAA
Found at i:453579 original size:28 final size:28
Alignment explanation
Indices: 453535--453591 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
453525 TGTCTTTGCC
453535 TTTACTCCCAACACCTTCTAAAACGATT
1 TTTACTCCCAACACCTTCTAAAACGATT
*
453563 TTTACTCCCAACGCCTTCTAAAACGATT
1 TTTACTCCCAACACCTTCTAAAACGATT
453591 T
1 T
453592 CATCTTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.05, T:0.33
Consensus pattern (28 bp):
TTTACTCCCAACACCTTCTAAAACGATT
Found at i:458495 original size:13 final size:13
Alignment explanation
Indices: 458477--458503 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
458467 AAGTATTATT
458477 TTATTTTTTAAAA
1 TTATTTTTTAAAA
458490 TTATTTTTTAAAA
1 TTATTTTTTAAAA
458503 T
1 T
458504 GTTAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:458716 original size:27 final size:25
Alignment explanation
Indices: 458659--458718 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
458649 GATAATATTC
* *
458659 TATTAAATATAATAATAAGTAATAT
1 TATTAAAAATAATAATAAGAAATAT
458684 TATTAAAAATAATAAATCAAGAAATTAT
1 TATTAAAAATAAT-AAT-AAGAAA-TAT
458712 T-TTAAAA
1 TATTAAAA
458719 TATTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 12 0.40
26 3 0.10
27 11 0.37
28 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (25 bp):
TATTAAAAATAATAATAAGAAATAT
Found at i:458760 original size:13 final size:13
Alignment explanation
Indices: 458744--458770 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
458734 AGTAATAATT
458744 TTATTTTTTAAAA
1 TTATTTTTTAAAA
458757 TTATTTTTTAAAA
1 TTATTTTTTAAAA
458770 T
1 T
458771 GTTAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:458963 original size:27 final size:25
Alignment explanation
Indices: 458906--458965 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
458896 GATAATATTC
* *
458906 TATTAAATATAATAATAAGTAATAT
1 TATTAAAAATAATAATAAGAAATAT
458931 TATTAAAAATAATAAATCAAGAAATTAT
1 TATTAAAAATAAT-AAT-AAGAAA-TAT
458959 T-TTAAAA
1 TATTAAAA
458966 TATTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 12 0.40
26 3 0.10
27 11 0.37
28 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (25 bp):
TATTAAAAATAATAATAAGAAATAT
Found at i:463198 original size:24 final size:23
Alignment explanation
Indices: 463173--463242 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
463163 TTATACCTTA
463173 AAAAATAAATACTAACATCTAAT
1 AAAAATAAATACTAACATCTAAT
* *
463196 AAAAAT-AATAACTAATTTAT-TATT
1 AAAAATAAAT-ACTAA--CATCTAAT
*
463220 TAAAATAAATACTAACATCTAAT
1 AAAAATAAATACTAACATCTAAT
463243 CTAGGACAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
22 5 0.14
23 14 0.38
24 13 0.35
25 5 0.14
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAATAAATACTAACATCTAAT
Found at i:465842 original size:25 final size:25
Alignment explanation
Indices: 465813--465888 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 25
465803 GATTTAAATT
465813 ATTATTTAATAATAAAAATAATATA
1 ATTATTTAATAATAAAAATAATATA
*
465838 TTTATTTAAATTTAATTATAAAAT-ATATA
1 ATTATTT-AA--TAA-TA-AAAATAATATA
*
465867 AATATTT-AT-ATAAAAATAATAT
1 ATTATTTAATAATAAAAATAATAT
465889 TTTGATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
22 5 0.12
23 6 0.14
24 1 0.02
25 7 0.17
26 2 0.05
27 1 0.02
28 3 0.07
29 12 0.29
30 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTATTTAATAATAAAAATAATATA
Found at i:465851 original size:31 final size:33
Alignment explanation
Indices: 465816--465880 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
465806 TTAAATTATT
* *
465816 ATTTAATAATAAAA-ATA-ATATATTTATTTAA
1 ATTTAATAATAAAATATATAAATATTTATATAA
*
465847 ATTTAATTATAAAATATATAAATATTTATATAA
1 ATTTAATAATAAAATATATAAATATTTATATAA
465880 A
1 A
465881 AATAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.45
32 3 0.10
33 13 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATTTAATAATAAAATATATAAATATTTATATAA
Found at i:467114 original size:19 final size:18
Alignment explanation
Indices: 467090--467134 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
467080 TGAATACTAT
*
467090 TTTTATTATAATAGTTATA
1 TTTTATTAT-ATAATTATA
* *
467109 TTTTATAATATAATTTTA
1 TTTTATTATATAATTATA
467127 TTTTATTA
1 TTTTATTA
467135 GTTATTGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTATTATATAATTATA
Found at i:468117 original size:2 final size:2
Alignment explanation
Indices: 468110--468153 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
468100 TGTTATATTT
468110 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
468151 TA T
1 TA T
468154 TAATATTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:472353 original size:43 final size:43
Alignment explanation
Indices: 472290--472375 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
472280 TCTCACAAAA
*
472290 TCCCTTTATTTATTTGTTGTGCAACCTAAGGCCATATAAATGG
1 TCCCTTTATTTATTTATTGTGCAACCTAAGGCCATATAAATGG
*
472333 TCCCTTTTTTTATTTATTGTGCAACCTAAGGCCATATAAATGG
1 TCCCTTTATTTATTTATTGTGCAACCTAAGGCCATATAAATGG
472376 AAAGGAAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (43 bp):
TCCCTTTATTTATTTATTGTGCAACCTAAGGCCATATAAATGG
Found at i:475643 original size:45 final size:45
Alignment explanation
Indices: 475585--475675 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
475575 AAGCCACTAT
475585 AATATTTTGATCCCATTTCAAACAATTCAAGTTCTCAACCTATAG
1 AATATTTTGATCCCATTTCAAACAATTCAAGTTCTCAACCTATAG
*
475630 AATATTTTGATCCCATTTCAAACAATTCAAGTTCTCAACCTGTAG
1 AATATTTTGATCCCATTTCAAACAATTCAAGTTCTCAACCTATAG
475675 A
1 A
475676 GTTATTAGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (45 bp):
AATATTTTGATCCCATTTCAAACAATTCAAGTTCTCAACCTATAG
Found at i:475952 original size:90 final size:90
Alignment explanation
Indices: 475794--475960 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
475784 CATTGAACCA
* * * * *
475794 AGTCTTGGAAATGAGATAACAACTCTTGAACCAAATTCCATGTTTATACGGCAATCCAAGCCTTA
1 AGTCCTGGAAATGAGATAACAAATCTTAAACCAAATTCCATGTTTATACGGCAATCCAAACCTCA
475859 TAATTATGAGCAATCAACTGAATCG
66 TAATTATGAGCAATCAACTGAATCG
* * * * * *
475884 AGTCCTGGAAATGAGGTAATAAATCTTAAACTAAATTTCATGTTTATATC-GCAATCTAAATCTC
1 AGTCCTGGAAATGAGATAACAAATCTTAAACCAAATTCCATGTTTATA-CGGCAATCCAAACCTC
*
475948 ATAATTTTGAGCA
65 ATAATTATGAGCA
475961 TGACCTATCA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
90 63 0.98
91 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (90 bp):
AGTCCTGGAAATGAGATAACAAATCTTAAACCAAATTCCATGTTTATACGGCAATCCAAACCTCA
TAATTATGAGCAATCAACTGAATCG
Found at i:479433 original size:24 final size:24
Alignment explanation
Indices: 479397--479442 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
479387 GGGAAGCGGG
* * *
479397 ATTGTTGCGGATTTGAAGGTGGTC
1 ATTGGTGCAGATTTGAAAGTGGTC
479421 ATTGGTGCAGATTTGAAAGTGG
1 ATTGGTGCAGATTTGAAAGTGG
479443 AAAAAGTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.07, G:0.37, T:0.35
Consensus pattern (24 bp):
ATTGGTGCAGATTTGAAAGTGGTC
Found at i:480278 original size:62 final size:63
Alignment explanation
Indices: 480201--480319 Score: 195
Period size: 63 Copynumber: 1.9 Consensus size: 63
480191 TCACGTTTTA
* *
480201 TTGTAATTGTATTATGACATTTATCG-AGTAGTTGCATCGTAATAATGTTATTTAATTGTTTG
1 TTGTAATTGTATTATGACATATATCGTAGTAGTTGCATCGTAATAATATTATTTAATTGTTTG
* *
480263 TTGTAGTTGTATTATGCCATATATCGTAGTAGTTGCATCGTAATAATATTATTTAAT
1 TTGTAATTGTATTATGACATATATCGTAGTAGTTGCATCGTAATAATATTATTTAAT
480320 ATTATTTACT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
62 23 0.44
63 29 0.56
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.47
Consensus pattern (63 bp):
TTGTAATTGTATTATGACATATATCGTAGTAGTTGCATCGTAATAATATTATTTAATTGTTTG
Found at i:480388 original size:33 final size:34
Alignment explanation
Indices: 480324--480389 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
480314 TTTAATATTA
*
480324 TTTACTTGTATTATGTTATCGTAGTTCTATCGTT
1 TTTACTTGTATTATGTTATCGTAGTACTATCGTT
* *
480358 TTTA-TTGTATTATGTTATGGTAGTAGTATCGT
1 TTTACTTGTATTATGTTATCGTAGTACTATCGT
480390 GAAGTTATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.20, C:0.08, G:0.18, T:0.55
Consensus pattern (34 bp):
TTTACTTGTATTATGTTATCGTAGTACTATCGTT
Found at i:480522 original size:28 final size:29
Alignment explanation
Indices: 480489--480545 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
480479 TTTAAAAAAG
480489 TTTAATATAAA-AAT-T-ATTTATATTTATT
1 TTTAATA-AAATAATATAATTTA-ATTTATT
480517 TTTAATAAAATAATATAATTTAATTTATT
1 TTTAATAAAATAATATAATTTAATTTATT
480546 GAGATTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 3 0.12
28 10 0.38
29 8 0.31
30 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTAATAAAATAATATAATTTAATTTATT
Found at i:481983 original size:6 final size:6
Alignment explanation
Indices: 481972--482041 Score: 52
Period size: 6 Copynumber: 10.8 Consensus size: 6
481962 AGAATTTTTA
* *
481972 TATATT TATA-T TATATT CGTATATTT TATATAT TATAAT TATAAT TATATT
1 TATATT TATATT TATATT --TATA-TT TATAT-T TATATT TATATT TATATT
*
482023 TAAAATT ATATATT TATAT
1 T-ATATT -TATATT TATAT
482042 AAATTATGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
5 5 0.09
6 24 0.45
7 17 0.32
8 5 0.09
9 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (6 bp):
TATATT
Found at i:482031 original size:18 final size:19
Alignment explanation
Indices: 481991--482073 Score: 63
Period size: 18 Copynumber: 4.6 Consensus size: 19
481981 ATTATATTCG
* *
481991 TATATTTTATATATTATAAT
1 TATATATTATAT-TTAAAAT
482011 TATA-ATTATATTTAAAAT
1 TATATATTATATTTAAAAT
*
482029 TATATATT-TATAT-AAAT
1 TATATATTATATTTAAAAT
*
482046 TAT-GA-TAT-TTTAATAAT
1 TATATATTATATTTAA-AAT
482063 TA-ATATTATAT
1 TATATATTATAT
482074 ATATTTTGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
15 3 0.06
16 3 0.06
17 13 0.26
18 17 0.34
19 10 0.20
20 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (19 bp):
TATATATTATATTTAAAAT
Found at i:482036 original size:14 final size:15
Alignment explanation
Indices: 481998--482069 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 15
481988 TCGTATATTT
* *
481998 TATATATTATAATTA
1 TATATTTTAAAATTA
482013 TAATTATATTTAAAATTA
1 T-A-TAT-TTTAAAATTA
482031 TATATTTATATAAATTA
1 TATATTT-TA-AAATTA
482048 TGATATTTTAATAATTA
1 T-ATATTTTAA-AATTA
482065 -ATATT
1 TATATT
482070 ATATATATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
15 8 0.17
16 7 0.15
17 18 0.38
18 15 0.31
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
TATATTTTAAAATTA
Found at i:482047 original size:17 final size:17
Alignment explanation
Indices: 482025--482076 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
482015 ATTATATTTA
482025 AAATTATATATTTATAT
1 AAATTATATATTTATAT
482042 AAATTATGATATTT-TA-
1 AAATTAT-ATATTTATAT
482058 ATAATTA-ATATTATATAT
1 A-AATTATATATT-TATAT
482076 A
1 A
482077 TTTTGACACG
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 5 0.17
16 2 0.07
17 16 0.53
18 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATTATATATTTATAT
Found at i:482144 original size:12 final size:12
Alignment explanation
Indices: 482127--482165 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
482117 TATCTCGATT
482127 ATATTTTATATC
1 ATATTTTATATC
*
482139 ATATTTTA-ATT
1 ATATTTTATATC
*
482150 ATTTTTTATATC
1 ATATTTTATATC
482162 ATAT
1 ATAT
482166 AATCATGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (12 bp):
ATATTTTATATC
Found at i:482821 original size:2 final size:2
Alignment explanation
Indices: 482814--482850 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
482804 AACTTAAATT
482814 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
482851 TCAAACAAAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:483710 original size:27 final size:27
Alignment explanation
Indices: 483673--483746 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
483663 AAACAACATG
* *
483673 CCACTATTTTTGACAAATAAAAAGAAA
1 CCACAATTTTTGACAAACAAAAAGAAA
* * *
483700 CCACCATTTTTGACAAACACAAAGTAA
1 CCACAATTTTTGACAAACAAAAAGAAA
483727 CCACAATTTTTGACAAACAA
1 CCACAATTTTTGACAAACAA
483747 TGGGTGGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (27 bp):
CCACAATTTTTGACAAACAAAAAGAAA
Found at i:488154 original size:13 final size:13
Alignment explanation
Indices: 488133--488166 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
488123 GAGGGATATA
*
488133 AGAGAGGATGCTTG
1 AGAG-GGATACTTG
488147 AGAGGGATACTTG
1 AGAGGGATACTTG
488160 AGAGGGA
1 AGAGGGA
488167 AGAGGGAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.32, C:0.06, G:0.44, T:0.18
Consensus pattern (13 bp):
AGAGGGATACTTG
Found at i:488307 original size:27 final size:27
Alignment explanation
Indices: 488250--488309 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
488240 ACATGCCACC
* *
488250 ATTTTTGACAAATAAAAAGAAACTATC
1 ATTTTTGACAAACAAAAAGAAACTATA
* *
488277 ATTTTTGACAAACACAAAGTAA-TCATA
1 ATTTTTGACAAACAAAAAGAAACT-ATA
488304 ATTTTT
1 ATTTTT
488310 AATAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.35
Consensus pattern (27 bp):
ATTTTTGACAAACAAAAAGAAACTATA
Found at i:488607 original size:18 final size:18
Alignment explanation
Indices: 488570--488622 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
488560 TAGCCCAAAA
**
488570 TTTTTTAATATTTACTTTT
1 TTTTTTAAT-TTTAAATTT
488589 TTTTTTAATTTTAAATTT
1 TTTTTTAATTTTAAATTT
** *
488607 TGATTCAATTTTAAAT
1 TTTTTTAATTTTAAAT
488623 AATATTAGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 20 0.69
19 9 0.31
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTTTAATTTTAAATTT
Found at i:488607 original size:19 final size:19
Alignment explanation
Indices: 488570--488607 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
488560 TAGCCCAAAA
*
488570 TTTTTTAATATTTACTTTT
1 TTTTTTAATATTTAATTTT
*
488589 TTTTTTAAT-TTTAAATTT
1 TTTTTTAATATTTAATTTT
488607 T
1 T
488608 GATTCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTAATATTTAATTTT
Found at i:489011 original size:3 final size:3
Alignment explanation
Indices: 489003--489044 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
488993 GGCAATGCAA
*
489003 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
489045 GTCTCATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:489907 original size:19 final size:20
Alignment explanation
Indices: 489879--489916 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
489869 ACATTCCAAA
*
489879 CTTTCGAAA-TAAAAAAAAC
1 CTTTCAAAATTAAAAAAAAC
489898 CTTTCAAAATTAAAAAAAA
1 CTTTCAAAATTAAAAAAAA
489917 AAAATTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.24
Consensus pattern (20 bp):
CTTTCAAAATTAAAAAAAAC
Found at i:490399 original size:20 final size:20
Alignment explanation
Indices: 490354--490399 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
490344 TCAGATGAAA
* *
490354 TGAAATGTAATTGCAATGGT
1 TGAAATGCAATTGCAATGAT
* *
490374 TAAAATGCAATTTCAATGAT
1 TGAAATGCAATTGCAATGAT
490394 TGAAAT
1 TGAAAT
490400 TTTACATTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (20 bp):
TGAAATGCAATTGCAATGAT
Found at i:490694 original size:2 final size:2
Alignment explanation
Indices: 490687--490721 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
490677 ATTTCATATT
490687 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
490722 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:491776 original size:2 final size:2
Alignment explanation
Indices: 491769--491802 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
491759 TTGGCATGTT
*
491769 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
491803 AATTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
TC
Found at i:497505 original size:2 final size:2
Alignment explanation
Indices: 497498--497534 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
497488 CCTAAAATAG
497498 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
497535 AACAATAAAA
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:500662 original size:54 final size:54
Alignment explanation
Indices: 500580--500685 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
500570 GTAAGGGTGC
* *
500580 GCAAAAGGTTCAATGCTGAGTGTAGTGATTTAATGTGGGCAAACTCATCCCTAT
1 GCAAAAGGTTCAACGCTAAGTGTAGTGATTTAATGTGGGCAAACTCATCCCTAT
500634 GCAAAAGGTTCAACGCTAAGTGTAGTGATTTAATGTGGGCAAACTCATCCCT
1 GCAAAAGGTTCAACGCTAAGTGTAGTGATTTAATGTGGGCAAACTCATCCCT
500686 TAAATAGTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (54 bp):
GCAAAAGGTTCAACGCTAAGTGTAGTGATTTAATGTGGGCAAACTCATCCCTAT
Found at i:508797 original size:22 final size:22
Alignment explanation
Indices: 508772--508813 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
508762 TTTTAAAATA
*
508772 ATTTTAAATATATTTAATACTT
1 ATTTTAAATATATATAATACTT
* *
508794 ATTTTTAATTTATATAATAC
1 ATTTTAAATATATATAATAC
508814 AAAATAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTAAATATATATAATACTT
Found at i:509598 original size:13 final size:14
Alignment explanation
Indices: 509531--509590 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 14
509521 TAAATATAAT
509531 ATATAATAATAAA-A
1 ATATAATAA-AAATA
*
509545 ATATAATACAATATTA
1 ATATAATA-AA-AATA
509561 ATATATATTTAAAAATA
1 ATATA-A--TAAAAATA
509578 ATATAATAAAAAT
1 ATATAATAAAAAT
509591 TATTAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
14 16 0.42
15 2 0.05
16 7 0.18
17 9 0.24
18 2 0.05
19 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:509618 original size:20 final size:18
Alignment explanation
Indices: 509576--509638 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
509566 TATTTAAAAA
509576 TAATATAATAAAAATTAT
1 TAATATAATAAAAATTAT
* *
509594 TAATATATTAAAATTTAT
1 TAATATAATAAAAATTAT
*
509612 ATAA-AT-ATAAAATATTTT
1 -TAATATAATAAAA-ATTAT
509630 TAATATAAT
1 TAATATAAT
509639 TATAATATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
17 8 0.22
18 23 0.64
19 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATATAATAAAAATTAT
Found at i:509683 original size:43 final size:43
Alignment explanation
Indices: 509524--509684 Score: 118
Period size: 43 Copynumber: 3.7 Consensus size: 43
509514 AATTATTTAA
* * *
509524 ATATAATATATAATAATAAAAATAT-AA-TACAATATTAAT-ATAT
1 ATATAA-ATATAAT-ATAAATATATAAATTATAATA-TAATAAAAT
* * *
509567 ATTTAAAAATAATAT-AATA-A-AAATTATTAATATATTAAAATTT
1 ATATAAATATAATATAAATATATAAATTA-TAATATAATAAAA--T
* ** *
509610 ATATAAATATAAAATATTTTTAATATAATTATAATATAATAAAAT
1 ATATAAATATAATATAAATAT-ATA-AATTATAATATAATAAAAT
509655 ATATAAATATAATATAAATATATAAATTAT
1 ATATAAATATAATATAAATATATAAATTAT
509685 CAAAACCATT
Statistics
Matches: 90, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
39 3 0.03
40 8 0.09
41 8 0.09
42 6 0.07
43 24 0.27
44 4 0.04
45 18 0.20
46 1 0.01
47 13 0.14
48 5 0.06
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (43 bp):
ATATAAATATAATATAAATATATAAATTATAATATAATAAAAT
Found at i:513199 original size:16 final size:16
Alignment explanation
Indices: 513157--513212 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
513147 AAGTCAAAAA
*
513157 CCCGAACCC-AAAATAG
1 CCCGAACCCGAGAA-AG
* * *
513173 CCTGAATCCGAGACAG
1 CCCGAACCCGAGAAAG
513189 CCCGAACCCGAGAAAG
1 CCCGAACCCGAGAAAG
513205 CCCGAACC
1 CCCGAACC
513213 TGAAAGAACC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.36, C:0.39, G:0.20, T:0.05
Consensus pattern (16 bp):
CCCGAACCCGAGAAAG
Found at i:513238 original size:16 final size:16
Alignment explanation
Indices: 513189--513249 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
513179 TCCGAGACAG
*
513189 CCCGAACCCGAGA-AA
1 CCCGAACTCGAGAGAA
*
513204 GCCCGAAC-CTGAAAGAA
1 -CCCGAACTC-GAGAGAA
*
513221 CCCTAACTCGAGAGAA
1 CCCGAACTCGAGAGAA
513237 CCCGAACTCGAGA
1 CCCGAACTCGAGA
513250 CTGACCCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 1 0.03
16 34 0.89
17 3 0.08
ACGTcount: A:0.38, C:0.34, G:0.21, T:0.07
Consensus pattern (16 bp):
CCCGAACTCGAGAGAA
Found at i:514432 original size:16 final size:16
Alignment explanation
Indices: 514395--514485 Score: 105
Period size: 16 Copynumber: 5.8 Consensus size: 16
514385 CGAACTTGAA
514395 CCCGAA-CCGAA-AAG
1 CCCGAACCCGAATAAG
514409 CCCTGAACCCGAATAAG
1 CCC-GAACCCGAATAAG
514426 CCCGAACCCGAATAAG
1 CCCGAACCCGAATAAG
* *
514442 CCCGAACTCGAATGAG
1 CCCGAACCCGAATAAG
* * **
514458 CTCGAACCCAAACGAG
1 CCCGAACCCGAATAAG
514474 CCCGAACCCGAA
1 CCCGAACCCGAA
514486 CCTGCCCAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
14 3 0.05
15 3 0.05
16 54 0.82
17 6 0.09
ACGTcount: A:0.36, C:0.37, G:0.20, T:0.07
Consensus pattern (16 bp):
CCCGAACCCGAATAAG
Found at i:516516 original size:2 final size:2
Alignment explanation
Indices: 516509--516537 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
516499 GATTTTCTGT
516509 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
516538 ATGTCTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:518411 original size:28 final size:29
Alignment explanation
Indices: 518380--518434 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
518370 TCAGTAAGAA
518380 AAATAAT-TAAAATAAAATAC-AATATAAC
1 AAATAATAT-AAATAAAATACAAATATAAC
*
518408 AAATAATATGAATAAAATACAAATATA
1 AAATAATATAAATAAAATACAAATATA
518435 TAAACATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.25
Consensus pattern (29 bp):
AAATAATATAAATAAAATACAAATATAAC
Found at i:520533 original size:50 final size:50
Alignment explanation
Indices: 520444--520710 Score: 302
Period size: 50 Copynumber: 5.3 Consensus size: 50
520434 GGTACAAAAG
* *
520444 AGGTGATCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATAGAGAA
1 AGGTGACCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATCGAGAA
* * *
520494 AGGTAACCGTAATTGTTAACTATTCTTCATCAACATTTGACAATCGAGAGA
1 AGGTGACCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATCGAGA-A
** * * *
520545 A-GTGGTCGTAATTGTTAACTATTCCTCACCAACTTTTGACAATCGAGAG
1 AGGTGACCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATCGAGAA
** * * * * * *
520594 AGGTGACTATAATTATTAACTATTCCTCACTAACGTTTGATAATCGAGAG
1 AGGTGACCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATCGAGAA
* * * *
520644 AGATGATCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAA
1 AGGTGACCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATCGAGAA
* *
520694 AGGTAACTGTAATTGTT
1 AGGTGACCGTAATTGTT
520711 GACTCTAAGC
Statistics
Matches: 179, Mismatches: 36, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 1 0.01
50 176 0.98
51 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (50 bp):
AGGTGACCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATCGAGAA
Found at i:520633 original size:100 final size:100
Alignment explanation
Indices: 520442--520707 Score: 374
Period size: 100 Copynumber: 2.7 Consensus size: 100
520432 TGGGTACAAA
* *
520442 AGAGGTGATCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATAGAGAAAGGTAACCGTAAT
1 AGAGATGATCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATAGAGAAAGGTAACTGTAAT
* *
520507 TGTTAACTATTCTTCATCAACATTTGACAATCGAG
66 TATTAACTATTCCTCATCAACATTTGACAATCGAG
* * * * * * *
520542 AGA-AGTGGTCGTAATTGTTAACTATTCCTCACCAACTTTTGACAATCGAGAGAGGTGACTATAA
1 AGAGA-TGATCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATAGAGAAAGGTAACTGTAA
* *
520606 TTATTAACTATTCCTCA-CTAACGTTTGATAATCGAG
65 TTATTAACTATTCCTCATC-AACATTTGACAATCGAG
*
520642 AGAGATGATCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAAAGGTAACTGTAAT
1 AGAGATGATCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATAGAGAAAGGTAACTGTAAT
520707 T
66 T
520708 GTTGACTCTA
Statistics
Matches: 142, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
99 1 0.01
100 140 0.99
101 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (100 bp):
AGAGATGATCGTAATTGTTAACTATTCTTCACCAACCTTTGACAATAGAGAAAGGTAACTGTAAT
TATTAACTATTCCTCATCAACATTTGACAATCGAG
Found at i:525158 original size:50 final size:50
Alignment explanation
Indices: 525082--525346 Score: 289
Period size: 50 Copynumber: 5.3 Consensus size: 50
525072 AAAGAAGTGG
* *
525082 TCGTAATTGTTGACTATTCTTCACCAAACTTTGACAATCGAGAGAGGTGA
1 TCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGATGTGA
* *
525132 CCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATTGAGAGATGTG-
1 TCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGATGTGA
* * * * * * * *
525181 GCTATAATTATTGACTATTCCTCACTAACCTTTGAAAATCAAGAGACGTGA
1 TC-GTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGATGTGA
* ** * * * *
525232 TCGTCATCATTAACTATTCCTCACCAACCTTTGACAATCGAGAAATGTGG
1 TCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGATGTGA
* * * * * *
525282 TCGTAATTCTTAACTATTCTTCACCAACCTTTAACAGTAGAGAAATGTGA
1 TCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGATGTGA
525332 TCGTAATTGTTGACT
1 TCGTAATTGTTGACT
525347 CTAAGCATCT
Statistics
Matches: 179, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 1 0.01
50 177 0.99
51 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (50 bp):
TCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGATGTGA
Found at i:525824 original size:18 final size:18
Alignment explanation
Indices: 525803--525841 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
525793 TTAGAAGTTT
*
525803 AATTTATTTAAATTTTTA
1 AATTTATTTAAAATTTTA
*
525821 AATTTTTTTAAAATTTTA
1 AATTTATTTAAAATTTTA
525839 AAT
1 AAT
525842 CTTTATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTATTTAAAATTTTA
Found at i:525850 original size:18 final size:18
Alignment explanation
Indices: 525811--525850 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
525801 TTAATTTATT
* * *
525811 TAAATTTTTAAATTTTTT
1 TAAAATTTTAAATCTTTA
525829 TAAAATTTTAAATCTTTA
1 TAAAATTTTAAATCTTTA
525847 TAAA
1 TAAA
525851 TAAGTATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAAATTTTAAATCTTTA
Found at i:525909 original size:29 final size:28
Alignment explanation
Indices: 525876--525935 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
525866 TATTTATTAT
525876 ATTTAAATTAAATTATTGATATATAAAAA
1 ATTTAAATT-AATTATTGATATATAAAAA
** * *
525905 ATTTAAATTCTTTGTTGATGTATAAAAA
1 ATTTAAATTAATTATTGATATATAAAAA
525933 ATT
1 ATT
525936 CAAGTCCTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (28 bp):
ATTTAAATTAATTATTGATATATAAAAA
Found at i:527108 original size:21 final size:22
Alignment explanation
Indices: 527079--527126 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
527069 AGTTTTTTAA
* *
527079 TAAATTTAAAATTTAA-TTTTT
1 TAAAATTAAAATATAATTTTTT
*
527100 TAAAATTAAAGTATAATTTTTT
1 TAAAATTAAAATATAATTTTTT
527122 TAAAA
1 TAAAA
527127 AAATTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TAAAATTAAAATATAATTTTTT
Found at i:528523 original size:2 final size:2
Alignment explanation
Indices: 528516--528541 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
528506 ATCTTTCCTA
528516 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
528542 CTGTTAATAC
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:531157 original size:17 final size:17
Alignment explanation
Indices: 531135--531171 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
531125 GTGTTGTGAC
531135 TTCTTTTCATTTTTCTT
1 TTCTTTTCATTTTTCTT
* *
531152 TTCTTTTCTTTTTTGTT
1 TTCTTTTCATTTTTCTT
531169 TTC
1 TTC
531172 GTGGAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (17 bp):
TTCTTTTCATTTTTCTT
Found at i:533825 original size:2 final size:2
Alignment explanation
Indices: 533818--533853 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
533808 TTTTGAAAGA
*
533818 AT AT AT AT AT AT AT AC 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
533854 CAAACTTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:535019 original size:2 final size:2
Alignment explanation
Indices: 535012--535037 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
535002 GGTTGATTTG
535012 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
535038 TTAATGTTTA
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:536358 original size:22 final size:21
Alignment explanation
Indices: 536298--536359 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
536288 TGAAGTGCAT
* *
536298 AATTTTTTTAGAAAAATAATA
1 AATTTTTATAAAAAAATAATA
*
536319 AGTTTTTCA-AAAACAAATAAGTA
1 AATTTTT-ATAAAA-AAATAA-TA
536342 AATTTTTATAAAAAAATA
1 AATTTTTATAAAAAAATA
536360 TTATTAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 9 0.27
22 12 0.36
23 12 0.36
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (21 bp):
AATTTTTATAAAAAAATAATA
Found at i:536421 original size:17 final size:18
Alignment explanation
Indices: 536392--536431 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
536382 ATAATTATTT
536392 TTATTTTTATTTAGTTTA
1 TTATTTTTATTTAGTTTA
* *
536410 TTATTTTT-TTTATTTTT
1 TTATTTTTATTTAGTTTA
536427 TTATT
1 TTATT
536432 AATTAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (18 bp):
TTATTTTTATTTAGTTTA
Found at i:536436 original size:24 final size:24
Alignment explanation
Indices: 536383--536436 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
536373 ATCAAAGATA
536383 TAATTATTTTTATTTTTATTTAGT
1 TAATTATTTTTATTTTTATTTAGT
* * *
536407 TTATTATTTTTTTTATTTTTTTA-T
1 TAATTATTTTTATT-TTTATTTAGT
536431 TAATTA
1 TAATTA
536437 AATTTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
TAATTATTTTTATTTTTATTTAGT
Found at i:538086 original size:18 final size:18
Alignment explanation
Indices: 538060--538101 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
538050 TTATAATAAA
*
538060 TTATTTAACAAATTAATT
1 TTATATAACAAATTAATT
*
538078 TTATATAACAAATTATTT
1 TTATATAACAAATTAATT
538096 TTATAT
1 TTATAT
538102 CTTTTTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATATAACAAATTAATT
Found at i:539335 original size:19 final size:19
Alignment explanation
Indices: 539313--539354 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
539303 TATTAAACAT
539313 AAATATTTAAAT-TACATAA
1 AAATATTTAAATCTA-ATAA
*
539332 AAAT-TTTATATCTAATAA
1 AAATATTTAAATCTAATAA
539350 AAATA
1 AAATA
539355 AAAAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATTTAAATCTAATAA
Found at i:539597 original size:3 final size:3
Alignment explanation
Indices: 539589--539625 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
539579 TTTTTAATTG
539589 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
539626 AAAAAAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:541737 original size:13 final size:15
Alignment explanation
Indices: 541700--541728 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
541690 TTCAAATGTT
541700 AATTGAATTTGATCA
1 AATTGAATTTGATCA
541715 AATTGAATTTGATC
1 AATTGAATTTGATC
541729 CATGAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (15 bp):
AATTGAATTTGATCA
Found at i:541820 original size:13 final size:13
Alignment explanation
Indices: 541799--541842 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
541789 TTTTTTAATA
*
541799 TTTATAATATTTT
1 TTTAAAATATTTT
541812 TTTAAAATATTTT
1 TTTAAAATATTTT
*
541825 TTAAAATATATTTT
1 TTTAAA-ATATTTT
541839 TTTA
1 TTTA
541843 TGATTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAAAATATTTT
Found at i:541826 original size:12 final size:12
Alignment explanation
Indices: 541799--541839 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
541789 TTTTTTAATA
*
541799 TTTATAATATTTT
1 TTTAAAATA-TTT
541812 TTTAAAATATTT
1 TTTAAAATATTT
541824 TTTAAAATATATT
1 TTTAAAATAT-TT
541837 TTT
1 TTT
541840 TTATGATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 13 0.50
13 13 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAAAATATTT
Done.