Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008676.1 Hibiscus syriacus cultivar Beakdansim tig00111693_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: 957917
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 3 of 4
Found at i:640926 original size:33 final size:33
Alignment explanation
Indices: 640859--640940 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
640849 GCGATTTTGG
***
640859 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
640892 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
640925 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
640941 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:640945 original size:20 final size:20
Alignment explanation
Indices: 640871--640959 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
640861 TCGCGTTGCG
640871 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
640891 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
640904 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
640924 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
640944 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
640960 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:641081 original size:33 final size:33
Alignment explanation
Indices: 641039--641109 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
641029 AATACTAACT
*
641039 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
641072 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
641105 TGAAA
1 TGAAA
641110 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:641343 original size:22 final size:22
Alignment explanation
Indices: 641291--641345 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
641281 TGGTTGTGAG
**
641291 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
641313 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
641335 GGATTTCTTCG
1 GGATTTCTTCG
641346 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:641516 original size:20 final size:20
Alignment explanation
Indices: 641491--641683 Score: 210
Period size: 20 Copynumber: 9.6 Consensus size: 20
641481 CTTTAAATAT
641491 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
641511 CGCGTTGCAATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
641533 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
641552 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
641572 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
641592 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
641612 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
641632 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
641652 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
641672 CGCGTTGCGATT
1 CGCGTTGCGATT
641684 ATGGAAAATC
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.88
21 14 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:641678 original size:60 final size:60
Alignment explanation
Indices: 641491--641683 Score: 242
Period size: 60 Copynumber: 3.2 Consensus size: 60
641481 CTTTAAATAT
* **
641491 CGCGTTGCGATTTACGGATACGCGTTGCAATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
641552 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
641612 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
641672 CGCGTTGCGATT
1 CGCGTTGCGATT
641684 ATGGAAAATC
Statistics
Matches: 110, Mismatches: 22, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
60 83 0.75
61 27 0.25
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:641764 original size:20 final size:20
Alignment explanation
Indices: 641739--641790 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
641729 AAGAATCGCG
*
641739 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
641759 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
641779 TTGCGATTCTGG
1 TTGCGATTCTGG
641791 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:644830 original size:20 final size:21
Alignment explanation
Indices: 644805--644844 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
644795 TTTTACGCAA
644805 TAAAAATATA-AAAAAGTAAT
1 TAAAAATATAGAAAAAGTAAT
*
644825 TAAAAATATAGAAAGAGTAA
1 TAAAAATATAGAAAAAGTAA
644845 AATTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (21 bp):
TAAAAATATAGAAAAAGTAAT
Found at i:649641 original size:31 final size:31
Alignment explanation
Indices: 649598--649705 Score: 162
Period size: 31 Copynumber: 3.5 Consensus size: 31
649588 AGTTACGTCG
649598 GGGACCATATTGCAAACGGACTAAATGTTGA
1 GGGACCATATTGCAAACGGACTAAATGTTGA
*
649629 GGGATCATATTGCAAACGGACTAAATGTTGA
1 GGGACCATATTGCAAACGGACTAAATGTTGA
* * *
649660 GGGACCATGTTGCAAATGGACTAAATGTTGG
1 GGGACCATATTGCAAACGGACTAAATGTTGA
**
649691 GGGATTATATTGCAA
1 GGGACCATATTGCAA
649706 GTTTTAAAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (31 bp):
GGGACCATATTGCAAACGGACTAAATGTTGA
Found at i:651539 original size:31 final size:28
Alignment explanation
Indices: 651495--651558 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 28
651485 TAGTTACACC
*
651495 GGGGATCATATTGCAAACAGACTAAATGTT
1 GGGGACCATATTGC-AACAGACT-AATGTT
*
651525 GAGGGACCATATTGCAACGGACTAATGTT
1 G-GGGACCATATTGCAACAGACTAATGTT
651554 GGGGA
1 GGGGA
651559 TTATATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.13
29 7 0.23
30 8 0.26
31 12 0.39
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (28 bp):
GGGGACCATATTGCAACAGACTAATGTT
Found at i:652429 original size:23 final size:23
Alignment explanation
Indices: 652403--652465 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
652393 CAGCTCATAT
*
652403 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* * *
652426 AATTGCATCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
652449 AA-TGCACTGTAGTGCCA
1 AATTGCACCGAAGTGCCA
652466 TATAATAATG
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 11 0.34
23 21 0.66
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:652741 original size:102 final size:103
Alignment explanation
Indices: 652485--652800 Score: 589
Period size: 103 Copynumber: 3.1 Consensus size: 103
652475 GTCCATAAGA
652485 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACT
*
652550 TCACACATGTTCCAAAGAATACATATATGTCTCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
* *
652588 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACC
1 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACT
652653 TCACACATGTTCCAAAGAATACATATA-GTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
*
652690 ACCACATATCATTCCTTAAGAATCATATGCATATGCCAAGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACT
652755 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
652793 ACCACATA
1 ACCACATA
652801 GACCCTCTAC
Statistics
Matches: 206, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
102 98 0.48
103 108 0.52
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACT
TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
Found at i:653316 original size:19 final size:20
Alignment explanation
Indices: 653279--653316 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
653269 TTTTTTATTA
*
653279 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
653299 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
653317 TCTAGCGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:655801 original size:15 final size:17
Alignment explanation
Indices: 655770--655801 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
655760 TATTAACGTA
655770 TGAATCATTTATATTTT
1 TGAATCATTTATATTTT
655787 TGAAT-ATTT-TATTTT
1 TGAATCATTTATATTTT
655802 AATAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
TGAATCATTTATATTTT
Found at i:666368 original size:22 final size:20
Alignment explanation
Indices: 666312--666370 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
666302 ATAACCAACG
*
666312 AATTCGCAACAAGAATTTAC
1 AATTCGCAACACGAATTTAC
* *
666332 ATTTCGTAACACGAATTTAC
1 AATTCGCAACACGAATTTAC
*
666352 AAAATTCGCAACTCGAATT
1 --AATTCGCAACACGAATT
666371 CGGATTTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 17 0.55
22 14 0.45
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (20 bp):
AATTCGCAACACGAATTTAC
Found at i:666406 original size:22 final size:20
Alignment explanation
Indices: 666356--666411 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
666346 ATTTACAAAA
*
666356 TTCGCAACTCGAATTCGGAT
1 TTCGCAACTCGAATTCGAAT
666376 TTCGCAACTCGAATTCGTCAAT
1 TTCGCAACTCGAATTCG--AAT
*
666398 TTCGTAACTC-AATT
1 TTCGCAACTCGAATT
666412 TTATCACGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 17 0.53
21 4 0.12
22 11 0.34
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (20 bp):
TTCGCAACTCGAATTCGAAT
Found at i:666515 original size:22 final size:20
Alignment explanation
Indices: 666464--666522 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
666454 GAATTTATCA
666464 AATTT-ACAACTCGAATTCG
1 AATTTCACAACTCGAATTCG
* *
666483 GATTTCGCAACTCGAATTCG
1 AATTTCACAACTCGAATTCG
*
666503 CCAATTTCACAACTCAAATT
1 --AATTTCACAACTCGAATT
666523 TACCGCGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.12
20 13 0.41
22 15 0.47
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (20 bp):
AATTTCACAACTCGAATTCG
Found at i:666518 original size:110 final size:110
Alignment explanation
Indices: 666325--666538 Score: 331
Period size: 110 Copynumber: 1.9 Consensus size: 110
666315 TCGCAACAAG
* *
666325 AATTTACATTTCGTAACACGAATTTACAAAATTCGCAACTCGAATTCGGATTTCGCAACTCGAAT
1 AATTTACATTTCGCAACACGAATTTACAAAATTCACAACTCGAATTCGGATTTCGCAACTCGAAT
* ** * *
666390 TCGTCAATTTCGTAACTCAATTTTATCACGTTTACCTATATAGGT
66 TCGCCAATTTCACAACTCAAATTTACCACGTTTACCTATATAGGT
*
666435 AATTTACATTTCGCAACACGAATTTATC-AAATTTACAACTCGAATTCGGATTTCGCAACTCGAA
1 AATTTACATTTCGCAACACGAATTTA-CAAAATTCACAACTCGAATTCGGATTTCGCAACTCGAA
*
666499 TTCGCCAATTTCACAACTCAAATTTACCGCGTTTACCTAT
65 TTCGCCAATTTCACAACTCAAATTTACCACGTTTACCTAT
666539 TTAAATAATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
110 93 0.99
111 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (110 bp):
AATTTACATTTCGCAACACGAATTTACAAAATTCACAACTCGAATTCGGATTTCGCAACTCGAAT
TCGCCAATTTCACAACTCAAATTTACCACGTTTACCTATATAGGT
Found at i:666853 original size:40 final size:40
Alignment explanation
Indices: 666802--666878 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
666792 TGGTAAATTC
* * *
666802 GTGTTGTGAAA-TGTAAATTCTTGTTGCGAATTCGAAAACT
1 GTGTTGAGAAATTG-AAATTCGTGTTACGAATTCGAAAACT
*
666842 GTGTTGAGAAATTGGAATTCGTGTTACGAATTCGAAA
1 GTGTTGAGAAATTGAAATTCGTGTTACGAATTCGAAA
666879 TCGCGTTGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (40 bp):
GTGTTGAGAAATTGAAATTCGTGTTACGAATTCGAAAACT
Found at i:666890 original size:19 final size:19
Alignment explanation
Indices: 666823--666890 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
666813 TGTAAATTCT
*
666823 TGTTGCGAATTCGAAAACTG
1 TGTTGCGAATTCGAAATC-G
* * *
666843 TGTTGAGAAATTGGAATTCG
1 TGTTGCG-AATTCGAAATCG
*
666863 TGTTACGAATTCGAAATCG
1 TGTTGCGAATTCGAAATCG
*
666882 CGTTGCGAA
1 TGTTGCGAA
666891 ATCGTTGGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
19 17 0.46
20 12 0.32
21 8 0.22
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.31
Consensus pattern (19 bp):
TGTTGCGAATTCGAAATCG
Found at i:671051 original size:29 final size:29
Alignment explanation
Indices: 671018--671075 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
671008 CACTCTAGCG
671018 CATTTCTATCTCTACTCTAGAGATAAACA
1 CATTTCTATCTCTACTCTAGAGATAAACA
*
671047 CATTTCTATCTCTATTCTAGAGATAAACA
1 CATTTCTATCTCTACTCTAGAGATAAACA
671076 GTAATTCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (29 bp):
CATTTCTATCTCTACTCTAGAGATAAACA
Found at i:674306 original size:18 final size:18
Alignment explanation
Indices: 674280--674314 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
674270 AAGAACAAAT
* *
674280 CTACGTACACATCACCTA
1 CTACATACACAACACCTA
674298 CTACATACACAACACCT
1 CTACATACACAACACCT
674315 GCAAGTAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.40, G:0.03, T:0.20
Consensus pattern (18 bp):
CTACATACACAACACCTA
Found at i:681658 original size:177 final size:180
Alignment explanation
Indices: 681428--681805 Score: 549
Period size: 183 Copynumber: 2.1 Consensus size: 180
681418 ATTTTATAAT
* * * *
681428 TTATATAA-AAATTAAATA-TTTTTAATTCAAAAAAAGTTTATAATTAATTT-A-AATATAT-A-
1 TTATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAAATAATTTAATAATATATAAT
* *
681487 TATAAAAT-AAAATTTTAGATAAATTTTTAATTAATTAGTATTGATTTAAGTTTAAAAGTTATTG
66 TATAAAATAAAAAATTTAGATAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
*
681551 GATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTT-AGCCCATATG
131 GATCTTAAATTATTAATTGAGTTTTAAATGATTTGGG-TTGAGCCCATATG
681601 TTATATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTACAAATAATTTAAATAATATA
1 -T-TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTACAAATAATTT-AATAATATA
* *
681665 TAATTATAAAATAAAAAATTTATATAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTT
62 TAATTATAAAATAAAAAATTTAGATAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTT
* *
681730 ATTGGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCTCATATG
127 ATTGGATCTTAAATTATTAATTGAGTTTTAAATGATTTGGGTTGAGCCCATATG
681784 TTATATAATATATTTAATATTT
1 TTATATAATATATTTAATATTT
681806 AAAATTTAAT
Statistics
Matches: 182, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
174 1 0.01
175 7 0.04
176 14 0.08
177 23 0.13
179 1 0.01
180 7 0.04
181 22 0.12
182 11 0.06
183 96 0.53
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (180 bp):
TTATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAAATAATTTAATAATATATAAT
TATAAAATAAAAAATTTAGATAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
GATCTTAAATTATTAATTGAGTTTTAAATGATTTGGGTTGAGCCCATATG
Found at i:683674 original size:14 final size:14
Alignment explanation
Indices: 683657--683685 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
683647 TAATCCCTGT
683657 AAATAATTCCCTAC
1 AAATAATTCCCTAC
683671 AAATAATTCCCTAC
1 AAATAATTCCCTAC
683685 A
1 A
683686 TAGAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAATTCCCTAC
Found at i:684076 original size:447 final size:445
Alignment explanation
Indices: 683242--684139 Score: 1699
Period size: 448 Copynumber: 2.0 Consensus size: 445
683232 TTTTGAAATA
683242 AAATCTTAACCCGATACAATCTGAAATAATAAAAAAATATTTTTATTCAATTAAAAAATGATTTA
1 AAATCTTAACCCGATACAATCTGAAATAATAAAAAAATATTTTTATTCAATTAAAAAATGATTTA
683307 ATTGAAAAAATAATATATAAAATGGTATTATTGTAATTATTCATAAATTTATAATGTAAAATTAT
66 ATTGAAAAAATAATATATAAAATGGTATTATTGTAATTATTCATAAATTTATAATGTAAAATTAT
*
683372 TTTTTTACGTCAAGTATTGTTCACCCTAAACTCGAATCTGACCCGACCCGAACAACAACAACAAA
131 TTTTTTACGTCAAGTATTGCTCACCCTAAACTCGAATCTGACCCGACCCGAACAACAACAACAAA
*
683437 ACCCTGATTCCCATATACAATGAGATAAGGGGGAGGTAGGGTAGTATGCTGACCCCAACGCCAGG
196 ACCCTGATTCCCATATACAATGAGATAAGGGGGAGGTAGGGTAGTAGGCTGACCCCAACGCCAGG
683502 TTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAGTAAGAAAATTAAAAATAAAGATAAGATGCAAA
261 TTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAGTAAGAAAATTAAAAATAAAGATAAGATGCAAA
683567 TGCGTGTATAAATAAATAAATAAATACATAGATGAACAGTCTTCATATGCAGTCTTGATATGTGC
326 TGCGTGTATAAATAAATAAATAAATACATAGATGAACAGTCTTCATATGCAGTCTTGATATGTGC
683632 GTCTGTAATGGGGAGTAATCCCTGTAAATAATTCCCTACAAATAATTCCCTACATAG
391 GTCTGTAAT-GGGAGTAATCCCTGT-AATAATTCCCTACAAATAATTCCCTACATAG
683689 AAATCTTAACCCGATACAATCTGAAATAATAAAAAAATATTTTTATTCAATTAAAAAATGATTTA
1 AAATCTTAACCCGATACAATCTGAAATAATAAAAAAATATTTTTATTCAATTAAAAAATGATTTA
683754 ATTGAAAAAATAATATATAAAATGGTATTATTGTAATTATTCATAAATTTATAATGTAAAATTAT
66 ATTGAAAAAATAATATATAAAATGGTATTATTGTAATTATTCATAAATTTATAATGTAAAATTA-
*
683819 TTTTTTTACGTCATGTATTGCTCACCCTAAACTCGAATCTGACCCGACCCGAACAACAACAACAA
130 TTTTTTTACGTCAAGTATTGCTCACCCTAAACTCGAATCTGACCCGACCCGAACAACAACAACAA
* *
683884 AACCCTTATTCCCATATACAATGAGGTAAGGGGGAGGTAGGGTAGTAGGCTGACCCCAACGCCAG
195 AACCCTGATTCCCATATACAATGAGATAAGGGGGAGGTAGGGTAGTAGGCTGACCCCAACGCCAG
683949 GTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAGTAAGAAAATTAAAAATAAAGATAAGATGCAA
260 GTTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAGTAAGAAAATTAAAAATAAAGATAAGATGCAA
*
684014 ATGCGTGTATAAATAAATAAA-AAATACATAGATGAATAGTCTTCATATGCAGTCTTGATATGTG
325 ATGCGTGTATAAATAAATAAATAAATACATAGATGAACAGTCTTCATATGCAGTCTTGATATGTG
*
684078 CGTCTGTAATGGGAGTAATCCCTGTAATAATTCCCTACAAATAATTTCCTACATAG
390 CGTCTGTAATGGGAGTAATCCCTGTAATAATTCCCTACAAATAATTCCCTACATAG
684134 AAATCT
1 AAATCT
684140 CTGCATATAG
Statistics
Matches: 443, Mismatches: 7, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
445 36 0.08
446 15 0.03
447 181 0.41
448 211 0.48
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (445 bp):
AAATCTTAACCCGATACAATCTGAAATAATAAAAAAATATTTTTATTCAATTAAAAAATGATTTA
ATTGAAAAAATAATATATAAAATGGTATTATTGTAATTATTCATAAATTTATAATGTAAAATTAT
TTTTTTACGTCAAGTATTGCTCACCCTAAACTCGAATCTGACCCGACCCGAACAACAACAACAAA
ACCCTGATTCCCATATACAATGAGATAAGGGGGAGGTAGGGTAGTAGGCTGACCCCAACGCCAGG
TTGAGAGCAGCTTCCGTGGAAGACCTCCGGCAGTAAGAAAATTAAAAATAAAGATAAGATGCAAA
TGCGTGTATAAATAAATAAATAAATACATAGATGAACAGTCTTCATATGCAGTCTTGATATGTGC
GTCTGTAATGGGAGTAATCCCTGTAATAATTCCCTACAAATAATTCCCTACATAG
Found at i:688071 original size:26 final size:26
Alignment explanation
Indices: 688035--688090 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
688025 TGTTACCAAA
688035 GGAGATCTGAAAAGCGAAAGTGGAAT
1 GGAGATCTGAAAAGCGAAAGTGGAAT
*
688061 GGAGATCTGAAAAGCGAAAGTGGGAT
1 GGAGATCTGAAAAGCGAAAGTGGAAT
688087 GGAG
1 GGAG
688091 CATTTCCCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.39, T:0.14
Consensus pattern (26 bp):
GGAGATCTGAAAAGCGAAAGTGGAAT
Found at i:702775 original size:22 final size:22
Alignment explanation
Indices: 702731--702776 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
702721 AAAAATGTTA
*
702731 AATTATAAATTATTAAACGTAT
1 AATTATAAATTATTAAACATAT
702753 AATTATAAATTAGTTAAA-ATAT
1 AATTATAAATTA-TTAAACATAT
702775 AA
1 AA
702777 ATGTAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (22 bp):
AATTATAAATTATTAAACATAT
Found at i:703716 original size:22 final size:23
Alignment explanation
Indices: 703669--703716 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
703659 CATTTTGATT
*
703669 TTTAACTAATTTATAATTATATG
1 TTTAACTAATTTATAATTATACG
*
703692 TTTAA-TACTTTATAATT-TAACG
1 TTTAACTAATTTATAATTAT-ACG
703714 TTT
1 TTT
703717 TATAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.05
22 16 0.73
23 5 0.23
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTAACTAATTTATAATTATACG
Found at i:704485 original size:2 final size:2
Alignment explanation
Indices: 704478--704511 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
704468 TTTGAAAAAC
*
704478 AT AT AT AT AT GT 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
704512 TCTGAAGGCT
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:705500 original size:2 final size:2
Alignment explanation
Indices: 705490--705525 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
705480 TAAGTGTGTT
*
705490 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
705526 ATGTTGTAAT
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):
TA
Found at i:712925 original size:20 final size:20
Alignment explanation
Indices: 712831--713199 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
712821 GATTTTCAAT
* ** *
712831 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
712851 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
712871 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
712891 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
712911 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
712931 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
712951 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
712971 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
712991 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
713011 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
713031 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
713051 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
713071 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
713091 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
713111 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
713131 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
713151 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
713171 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
713191 AATCACAAC
1 AATCGCAAC
713200 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:713917 original size:24 final size:24
Alignment explanation
Indices: 713878--713924 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
713868 AAATTTGGTC
713878 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
713902 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
713925 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:716420 original size:19 final size:19
Alignment explanation
Indices: 716398--716633 Score: 260
Period size: 19 Copynumber: 13.4 Consensus size: 19
716388 CGGAAAATAC
*
716398 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
716417 AATCTCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
716431 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
716451 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
716465 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
716484 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
716503 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
716517 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
716536 AAACGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
716555 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
716569 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
716588 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
716607 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
716626 AATCGCAA
1 AATCGCAA
716634 CGAGATAATC
Statistics
Matches: 184, Mismatches: 12, Indels: 42
0.77 0.05 0.18
Matches are distributed among these distances:
14 40 0.22
15 2 0.01
16 10 0.05
17 8 0.04
18 3 0.02
19 108 0.59
20 13 0.07
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:716485 original size:33 final size:33
Alignment explanation
Indices: 716398--716655 Score: 245
Period size: 33 Copynumber: 7.5 Consensus size: 33
716388 CGGAAAATAC
* *
716398 AATCGCAACGCGAAATGAAAATCTCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
716431 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
716465 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
* * * * *
716503 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-AA
1 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAA
* *
716537 AA-CGCAATGCGAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
*
716569 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
716607 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
716640 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
716656 TATAAACGCA
Statistics
Matches: 187, Mismatches: 20, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
31 7 0.04
32 9 0.05
33 75 0.40
34 34 0.18
35 5 0.03
36 3 0.02
37 2 0.01
38 41 0.22
39 6 0.03
40 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:716513 original size:52 final size:52
Alignment explanation
Indices: 716426--716614 Score: 342
Period size: 52 Copynumber: 3.6 Consensus size: 52
716416 AAATCTCAAC
716426 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
716479 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
716531 ATGAAAAACGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
716583 ATTAAAATCGCAATGCGAAATGAAAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA
716615 TGCGAAATGA
Statistics
Matches: 132, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 116 0.88
53 16 0.12
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:716644 original size:52 final size:49
Alignment explanation
Indices: 716398--716655 Score: 221
Period size: 52 Copynumber: 4.9 Consensus size: 49
716388 CGGAAAATAC
*
716398 AATCGCAACGCGAAATGAAAATCTCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGCGAAATG-AAATCGCAAC--GAAAATCGCAATGC-GAAATGAA
* * * *
716451 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGA-AAT-GAAAT-CGCAACGAAAATCGCAATGCGAAATGAA
* * * * *
716503 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAAACGCAATGCGAAATGAA
1 AATCGCAACGCGA-AAT-GAAAT-CGCAACGAAAATCGCAATGCGAAATGAA
* * **
716555 AATCGCAACGAC-AGAATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAACG-CGA-AAT-GAAAT-CGCAACGAAAATCGCAATGCGAAATGAA
*
716607 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAACGCGAAATG-AAATCGCAACGA-A-AATCGCAATGCGAAAT
716656 TATAAACGCA
Statistics
Matches: 183, Mismatches: 14, Indels: 17
0.86 0.07 0.08
Matches are distributed among these distances:
50 6 0.03
51 8 0.04
52 133 0.73
53 26 0.14
54 6 0.03
55 4 0.02
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (49 bp):
AATCGCAACGCGAAATGAAATCGCAACGAAAATCGCAATGCGAAATGAA
Found at i:716671 original size:71 final size:70
Alignment explanation
Indices: 716398--716655 Score: 289
Period size: 71 Copynumber: 3.7 Consensus size: 70
716388 CGGAAAATAC
* *
716398 AATCGCAACGCGAAATGAAAATCTCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAACGA-G-AAATCGCAATGC-GAAATGAAAATCGCAATGC
*
716460 G--A-GAG
63 GAAATGAA
* * * * *
716465 AATCGCAATGCGAAATGAAAATCGCAATGCGAAAT-GAAAAT-CGCAACGAGAGAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAATCG-CAATGCGAAATGA-A-AATCGCAATGC
716528 GAAATGAA
63 GAAATGAA
* * *
716536 AAACGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAATGAAAATCGCAATGCGA
716601 AATGAA
65 AATGAA
716607 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAAT
716656 TATAAACGCA
Statistics
Matches: 160, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
64 5 0.03
65 3 0.02
66 15 0.09
67 26 0.16
68 2 0.01
70 1 0.01
71 95 0.59
72 7 0.04
73 6 0.04
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
ATGAA
Found at i:716771 original size:19 final size:19
Alignment explanation
Indices: 716662--716763 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
716652 AAATTATAAA
716662 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
716681 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
716701 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
716717 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
716734 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
716753 CGCATTGCGAT
1 CGCATTGCGAT
716764 GGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:716889 original size:14 final size:14
Alignment explanation
Indices: 716870--716906 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
716860 CATCAATTAC
716870 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
716884 ACAAATCATCTTTT
1 ACAAATCAACTTTT
716898 ACAAATCAA
1 ACAAATCAA
716907 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:718850 original size:20 final size:19
Alignment explanation
Indices: 718825--718889 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
718815 TAGTTTACTT
*
718825 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
718845 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
718863 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
718882 TCGCAACG
1 TCGCAACG
718890 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 16 0.40
19 11 0.28
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:718884 original size:19 final size:19
Alignment explanation
Indices: 718825--718958 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
718815 TAGTTTACTT
* *
718825 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
718845 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATGAAAA
718863 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
718882 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
718896 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
718915 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
718929 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
718948 TCGCAATGCGA
1 TCGCAACGCGA
718959 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
18 16 0.17
19 29 0.31
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:718899 original size:14 final size:14
Alignment explanation
Indices: 718880--718936 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
718870 GCGAAATGAA
*
718880 AATCGCAACGACAG
1 AATCGCAACGAAAG
718894 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
718911 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
718927 AATCGCAACG
1 AATCGCAACG
718937 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:718907 original size:33 final size:33
Alignment explanation
Indices: 718825--718953 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
718815 TAGTTTACTT
* * *
718825 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAA
1 TCGCAACGCGAAA-TGAAAATCGCAA--CGAAA--GAA
*
718863 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
*
718896 TCGCAATGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
718929 TCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAATGAAAATCGCAA
718954 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 57 0.68
35 4 0.05
37 11 0.13
38 12 0.14
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
Found at i:718976 original size:19 final size:19
Alignment explanation
Indices: 718954--719081 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
718944 AAAATCGCAA
718954 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
718973 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
718987 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
719006 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
719020 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
719039 TGCGATTTTGGTTTCGCG-
1 TGCGATTTTGGTTTCGCGT
* *
719057 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
719077 TGCGA
1 TGCGA
719082 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 11 0.12
19 45 0.51
20 5 0.06
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:718996 original size:33 final size:33
Alignment explanation
Indices: 718954--719045 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
718944 AAAATCGCAA
718954 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
718987 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
719020 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
719046 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:719415 original size:92 final size:93
Alignment explanation
Indices: 719125--719778 Score: 1257
Period size: 92 Copynumber: 7.1 Consensus size: 93
719115 TTGAATGGAT
719125 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
719190 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
719218 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
719283 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
719311 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
719375 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
719403 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
719467 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
719495 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
719559 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
719587 AAATTTACTTTC-ACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
719650 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
719678 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
719742 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
719770 AAATTTACT
1 AAATTTACT
719779 AAGCAATCTA
Statistics
Matches: 555, Mismatches: 1, Indels: 11
0.98 0.00 0.02
Matches are distributed among these distances:
91 112 0.20
92 294 0.53
93 149 0.27
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:721504 original size:14 final size:14
Alignment explanation
Indices: 721485--721574 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
721475 TTGAAATGAA
721485 AATCGCAACGAGAG
1 AATCGCAACGAGAG
721499 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
721516 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
721532 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
721551 AATCGCAACGAGAG
1 AATCGCAACGAGAG
721565 AATCGCAACG
1 AATCGCAACG
721575 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:721522 original size:33 final size:33
Alignment explanation
Indices: 721477--721591 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
721467 TCTTTTGGTT
721477 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
721510 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
721543 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
721576 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
721592 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:721523 original size:19 final size:18
Alignment explanation
Indices: 721484--721596 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
721474 GTTGAAATGA
721484 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
721499 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
721516 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
721532 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
721549 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
721565 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
721582 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
721597 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:721627 original size:14 final size:14
Alignment explanation
Indices: 721608--721662 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
721598 TTTGGTTTCG
721608 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
721622 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
721641 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
721655 CGTTGCGA
1 CGTTGCGA
721663 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:721640 original size:33 final size:33
Alignment explanation
Indices: 721592--721662 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
721582 AAAATCGCAA
**
721592 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
721625 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
721658 TGCGA
1 TGCGA
721663 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:721670 original size:33 final size:33
Alignment explanation
Indices: 721603--721684 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
721593 GCGATTTTGG
***
721603 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
721636 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
721669 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
721685 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:721689 original size:20 final size:20
Alignment explanation
Indices: 721615--721703 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
721605 TCGCGTTGCG
721615 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
721635 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
721648 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
721668 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
721688 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
721704 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:721824 original size:33 final size:33
Alignment explanation
Indices: 721782--721852 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
721772 AATACTAACT
*
721782 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
721815 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
721848 TGAAA
1 TGAAA
721853 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:722085 original size:22 final size:22
Alignment explanation
Indices: 722033--722087 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
722023 TGGTTGTGAG
**
722033 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
722055 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
722077 GGATTTCTTCG
1 GGATTTCTTCG
722088 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:722258 original size:20 final size:20
Alignment explanation
Indices: 722233--722425 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
722223 CTTTAAATAT
722233 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
722253 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
722275 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
722294 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
722314 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
722334 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
722354 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
722374 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
722394 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
722414 CGCGTTGCGATT
1 CGCGTTGCGATT
722426 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:722420 original size:60 final size:60
Alignment explanation
Indices: 722233--722425 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
722223 CTTTAAATAT
**
722233 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
722294 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
722354 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
722414 CGCGTTGCGATT
1 CGCGTTGCGATT
722426 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:722506 original size:20 final size:20
Alignment explanation
Indices: 722481--722532 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
722471 AAGAATCGCG
*
722481 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
722501 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
722521 TTGCGATTCTGG
1 TTGCGATTCTGG
722533 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:725465 original size:60 final size:61
Alignment explanation
Indices: 725372--725560 Score: 171
Period size: 60 Copynumber: 3.1 Consensus size: 61
725362 GTATATACGT
* * * *
725372 ATAGTTTGG-GATGAAATTGGAATGTTTGAAAAGTTTG-GAGACTAATTTATAATGA-AGGTC
1 ATAGTTTGGTGATGAAATTGAAATGTCTCAAAAGTTTGAG-GACTAATTTAGAATGATA-GTC
725432 ATAGTTTGGTGATGAAATTGAAATG-CTCAAAAGTTTGAGGACTAATTTAGAATGATAGTC
1 ATAGTTTGGTGATGAAATTGAAATGTCTCAAAAGTTTGAGGACTAATTTAGAATGATAGTC
* ** * *
725492 ATAATTTAATGATGAAATTAGAATAT-T-T-AAAAGTTT-ACGGACCAATTTAAAATGAT-GATC
1 ATAGTTTGGTGATGAAATT-GAA-ATGTCTCAAAAGTTTGA-GGACTAATTTAGAATGATAG-TC
*
725552 ATACTTTGG
1 ATAGTTTGG
725561 GGACATAATG
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
59 2 0.02
60 85 0.78
61 20 0.18
62 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (61 bp):
ATAGTTTGGTGATGAAATTGAAATGTCTCAAAAGTTTGAGGACTAATTTAGAATGATAGTC
Found at i:726235 original size:20 final size:20
Alignment explanation
Indices: 726201--726250 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
726191 AGAGGGCACG
* *
726201 ATATTGTAATTTTAAAAAAT
1 ATATTATAATGTTAAAAAAT
* *
726221 GTTTTATAATGTTAAAAAAT
1 ATATTATAATGTTAAAAAAT
726241 ATATTATAAT
1 ATATTATAAT
726251 ATATATATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (20 bp):
ATATTATAATGTTAAAAAAT
Found at i:732790 original size:19 final size:20
Alignment explanation
Indices: 732762--732803 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
732752 AAATTACATA
* *
732762 TTTAATATTT-AAATTTTAT
1 TTTAAAATTTAAAATTTAAT
732781 TTTAAAATTTAAAATTTAAT
1 TTTAAAATTTAAAATTTAAT
732801 TTT
1 TTT
732804 TTAAGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAAATTTAAAATTTAAT
Found at i:735916 original size:98 final size:98
Alignment explanation
Indices: 735796--735992 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
735786 CGTTATGATG
* *
735796 TAGACGCTTAAAATTGTAATGTTGAAAACATTAGATATGTATTTCGAGCGAAAAATCCTTTAGAC
1 TAGACACTTAAAATTGTAATGTTGAAAACATTAGATACGTATTTCGAGCGAAAAATCCTTTAGAC
*
735861 GTATAATGTTGACTTTAGATACAGTTTAGACAC
66 GTATAATATTGACTTTAGATACAGTTTAGACAC
* **
735894 TAGACACTTAAAATTGTAATGTTGAAAACATTATATACGTATTTCGAGCGAAAAATCCTTTAGGT
1 TAGACACTTAAAATTGTAATGTTGAAAACATTAGATACGTATTTCGAGCGAAAAATCCTTTAGAC
735959 GTATAATATTGACTTTAGATACAGTTTAGACAC
66 GTATAATATTGACTTTAGATACAGTTTAGACAC
735992 T
1 T
735993 TATTTTTACA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (98 bp):
TAGACACTTAAAATTGTAATGTTGAAAACATTAGATACGTATTTCGAGCGAAAAATCCTTTAGAC
GTATAATATTGACTTTAGATACAGTTTAGACAC
Found at i:743245 original size:111 final size:111
Alignment explanation
Indices: 743107--743328 Score: 372
Period size: 111 Copynumber: 2.0 Consensus size: 111
743097 ATTACAAAAA
* * *
743107 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAACAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* * *
743172 AATTAAAACGTTAAAATGTTACTGTATTAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
743218 TTAATTCTTAATCTAACAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAACAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* *
743283 TATTAAAATGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
743329 ATGATTTCCA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 103 1.00
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAACAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:743734 original size:50 final size:50
Alignment explanation
Indices: 743629--743738 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 50
743619 TAGCGCGGAT
* * * *
743629 CAGGGGGCGCACTAAACCCACGTGGCGCCAGATCACCGTATATCGCGGGG
1 CAGGGGGCGCACTAAACCCACGTGGCGCCAAATCACCATATAGCACGGGG
* ** * * * *
743679 GAGGGGGCGCGTTATACCCATGTGGCGCCAAATCAGCATATAGCACGGTG
1 CAGGGGGCGCACTAAACCCACGTGGCGCCAAATCACCATATAGCACGGGG
743729 CAGGGGGCGC
1 CAGGGGGCGC
743739 TTTCCTGCTA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (50 bp):
CAGGGGGCGCACTAAACCCACGTGGCGCCAAATCACCATATAGCACGGGG
Found at i:755789 original size:5 final size:5
Alignment explanation
Indices: 755779--755804 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
755769 TGACTTAGAA
755779 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
755805 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:764153 original size:102 final size:103
Alignment explanation
Indices: 763974--764180 Score: 301
Period size: 102 Copynumber: 2.0 Consensus size: 103
763964 TTAATATTGA
* ** * *
763974 TTGTGTTTATCTTTTATCGTTGAATTTTTAACATTTTTTTGTACAATACTTATCTACCGATTAAT
1 TTGTGTTTATCTTGTATCGTTGAATTTTTAACATTTCCTTATACAATAATTATCTACCGATTAAT
*
764039 ATGTGAACTATTCCAGAAAATGATAAG-T-TAATGTGG
66 ATGTGAAATATTCCAGAAAATGATAAGTTATAATGTGG
* **
764075 TTGTGTTTATCTTGTATCGTTGAATTTTTAACATTTCCCTTATTCAATAATTATCTAGTGATTAA
1 TTGTGTTTATCTTGTATCGTTGAATTTTTAACATTT-CCTTATACAATAATTATCTACCGATTAA
*
764140 TCTGTGAAATATTCCAGAAAATGATAAGTTATAATGTGG
65 TATGTGAAATATTCCAGAAAATGATAAGTTATAATGTGG
764179 TT
1 TT
764181 TTATTTTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 35 0.38
102 47 0.51
103 1 0.01
104 10 0.11
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (103 bp):
TTGTGTTTATCTTGTATCGTTGAATTTTTAACATTTCCTTATACAATAATTATCTACCGATTAAT
ATGTGAAATATTCCAGAAAATGATAAGTTATAATGTGG
Found at i:771084 original size:6 final size:6
Alignment explanation
Indices: 771073--771098 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
771063 GAAGGGAGAA
771073 GAAGGG GAAGGG GAAGGG GAAGGG GA
1 GAAGGG GAAGGG GAAGGG GAAGGG GA
771099 CAGCCTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:776117 original size:30 final size:30
Alignment explanation
Indices: 776076--776142 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
776066 CATTCTTTTG
776076 TGTATAATAAGATTTAATATATTAGGTTTAA
1 TGTA-AATAAGATTTAATATATTAGGTTTAA
*
776107 TGTAAATAAGATTTGATATATTAGGTTTAA
1 TGTAAATAAGATTTAATATATTAGGTTTAA
776137 TGTAAA
1 TGTAAA
776143 AATATGAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (30 bp):
TGTAAATAAGATTTAATATATTAGGTTTAA
Found at i:776512 original size:22 final size:23
Alignment explanation
Indices: 776472--776514 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
776462 TATTTTTACA
776472 TTAAACTAATATATTATAATATT
1 TTAAACTAATATATTATAATATT
776495 TTAAA-TAAT-TATTAATAATA
1 TTAAACTAATATATT-ATAATA
776515 AAATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAACTAATATATTATAATATT
Found at i:777020 original size:18 final size:18
Alignment explanation
Indices: 776997--777031 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
776987 TGACCGGATC
776997 GTCAAGCTCTTCGCCATT
1 GTCAAGCTCTTCGCCATT
777015 GTCAAGCTCTTCGCCAT
1 GTCAAGCTCTTCGCCAT
777032 CGACCCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.31
Consensus pattern (18 bp):
GTCAAGCTCTTCGCCATT
Found at i:783786 original size:26 final size:26
Alignment explanation
Indices: 783750--783811 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
783740 CATACTCGTT
783750 CTCCATTTCCAATTATGATAATCAGA
1 CTCCATTTCCAATTATGATAATCAGA
783776 CTCCATTTCCAATTATGATAATCAGA
1 CTCCATTTCCAATTATGATAATCAGA
783802 CTCCATTTCC
1 CTCCATTTCC
783812 TGTCACCAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (26 bp):
CTCCATTTCCAATTATGATAATCAGA
Found at i:793547 original size:3 final size:3
Alignment explanation
Indices: 793539--793571 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
793529 CCTCAGATTT
793539 ATA ATA AT- ATA ATA ATA ATA ATA ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
793572 GTTTGCATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:807541 original size:21 final size:21
Alignment explanation
Indices: 807516--807557 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
807506 CTTAGTTTCT
*
807516 AAAATCACAGCGTGAATAGTA
1 AAAATCACAACGTGAATAGTA
* *
807537 AAAATCGCAATGTGAATAGTA
1 AAAATCACAACGTGAATAGTA
807558 TAATCGCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (21 bp):
AAAATCACAACGTGAATAGTA
Found at i:807564 original size:20 final size:21
Alignment explanation
Indices: 807527--807573 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
807517 AAATCACAGC
807527 GTGAATAGTAAAAATCGCAAT
1 GTGAATAGTAAAAATCGCAAT
*
807548 GTGAATAGT-ATAATCGCAAT
1 GTGAATAGTAAAAATCGCAAT
*
807568 GCGAAT
1 GTGAAT
807574 TTAGAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (21 bp):
GTGAATAGTAAAAATCGCAAT
Found at i:807966 original size:20 final size:20
Alignment explanation
Indices: 807937--808005 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
807927 CATATAGATT
*
807937 CGTTGTGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
807957 CGTTGCGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
* *
807977 CGTTACGGTTTTTACTATTCA
1 CGTTGC-GATTTTACTATTCA
*
807998 TGTTGCGA
1 CGTTGCGA
808006 ATTTGACTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 25 0.60
21 17 0.40
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTACTATTCA
Found at i:808024 original size:20 final size:20
Alignment explanation
Indices: 807999--808045 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
807989 TACTATTCAT
*
807999 GTTGCGAATTTGACTTTTGC
1 GTTGCGAATTTGACTTCTGC
*
808019 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGC
808039 GTTGCGA
1 GTTGCGA
808046 TTTACAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.43
Consensus pattern (20 bp):
GTTGCGAATTTGACTTCTGC
Found at i:809213 original size:2 final size:2
Alignment explanation
Indices: 809191--809248 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
809181 ATTCTTCTAG
*
809191 TA TA T- TA TA TA -A TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
809231 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
809249 GAACAAAACT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:809523 original size:36 final size:36
Alignment explanation
Indices: 809476--809567 Score: 184
Period size: 36 Copynumber: 2.6 Consensus size: 36
809466 TTGGAACATT
809476 ATTGGATTCACTGGAACTGGGAACACTGGTTGCATC
1 ATTGGATTCACTGGAACTGGGAACACTGGTTGCATC
809512 ATTGGATTCACTGGAACTGGGAACACTGGTTGCATC
1 ATTGGATTCACTGGAACTGGGAACACTGGTTGCATC
809548 ATTGGATTCACTGGAACTGG
1 ATTGGATTCACTGGAACTGG
809568 AAATATAACT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (36 bp):
ATTGGATTCACTGGAACTGGGAACACTGGTTGCATC
Found at i:809525 original size:21 final size:21
Alignment explanation
Indices: 809499--809561 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
809489 GAACTGGGAA
809499 CACTGGTTGCATCATTGGATT
1 CACTGGTTGCATCATTGGATT
* * *
809520 CACT-G--G-AAC-TGGGA-A
1 CACTGGTTGCATCATTGGATT
809535 CACTGGTTGCATCATTGGATT
1 CACTGGTTGCATCATTGGATT
809556 CACTGG
1 CACTGG
809562 AACTGGAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
15 4 0.13
16 5 0.17
17 2 0.07
18 2 0.07
19 2 0.07
20 5 0.17
21 10 0.33
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (21 bp):
CACTGGTTGCATCATTGGATT
Found at i:820093 original size:12 final size:12
Alignment explanation
Indices: 820076--820100 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
820066 TGATAAAAAA
820076 AAATAATATTTT
1 AAATAATATTTT
820088 AAATAATATTTT
1 AAATAATATTTT
820100 A
1 A
820101 CTAAAAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:820135 original size:12 final size:12
Alignment explanation
Indices: 820118--820142 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
820108 TATTAAAAAA
820118 TAATAATATTTT
1 TAATAATATTTT
820130 TAATAATATTTT
1 TAATAATATTTT
820142 T
1 T
820143 TTAATTGTAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATAATATTTT
Found at i:852243 original size:20 final size:20
Alignment explanation
Indices: 852218--852260 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
852208 TCTAAAGGCC
852218 CATTTAGAACCATATAGATG
1 CATTTAGAACCATATAGATG
* * *
852238 CATTTAGAAGCATTTAGTTG
1 CATTTAGAACCATATAGATG
852258 CAT
1 CAT
852261 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (20 bp):
CATTTAGAACCATATAGATG
Found at i:854439 original size:749 final size:754
Alignment explanation
Indices: 853433--855668 Score: 3876
Period size: 746 Copynumber: 3.0 Consensus size: 754
853423 ATATCCTATT
853433 AACTGAACCAATAGGGTCACTGCAAGGGCTTACGCCAATCGGTTTTTGCCA-TGCATC-TTAATC
1 AACTGAACCAATAGGGTCACTGCAAGGGCTTACGCCAATCGG-TTTTGCCAGTGCATCTTTAATC
853496 TGTCGAGTCCCTTACTAGAGATAGCATAGGGCATTTCAGTAGACTCTGTC-GGCAGGGTAAGCTT
65 TGTCGAGTCCCTTACTAGAGATAGCATAGGGCATTTCAGTAGACTCTGTCGGGCAGGGTAAGCTT
853560 AGAAGAAACACCATTCAGAGAC-TGGACTTAGATTTTCCTTGTGACTCCTTCCACTCATTCCCAT
130 AGAAGAAACACCATTCAGAGACATGGACTTAGATTTTCCTTGTGACTCCTTCCACTCATTCCCAT
853624 TGCTG-TTGTCATTTGAAAAAGCTAAAGTCCTATATTTATTAAATCGTATTTACATTTTATTTTG
195 TGCTGCTTGTCATTTGAAAAAGCTAAAGTCCTATA-TTATTAAATCGTATTTACATTTTATTTTG
**
853688 CCTTTTCATTTCCATTTGCTTGCACGTATTAC-ATTTAATTTGCCACAACATTTTCAATTACCAT
259 CCTTGACATTTCCATTTGCTTGCACGTATTACAATTTAATTTGCCACAACATTTTCAATTACCAT
* *
853752 CACTCTACCATTA-TCAATTTCTACATCAGCTATTCCATTTTGCCATAGCA-TCTCATTGTACAT
324 CACTCTACCATCATTCCATTTCTACATCAGCTATTCCATTTTGCCATAGCATTCTCATTGTACAT
853815 ACCATCACTAAC-TTACTTAGGTGACAAAGTAAAGTGGCTTGAC-AACCTA-TTGATTTCCCCAA
389 ACCATCACTAACTTTACTTAGGTGACAAAGTAAAGTGGCTTGACAAACCTATTTGATTTCCCCAA
*
853877 TTCCCTGTGGAGACGATACTCGACTTATCATTTTATTACTTGTTCGATTGTGTATACTTGCACAC
454 TTCCCTGTGGAGACGATACTCGACTTATCACTTTATTACTTGTTCGATTGTGTATACTTGCACAC
853942 ATATCCACATCATATTTTAGTACTCACAAAGAGCGGACAGGTATCATCAAATACACTATGAGGAA
519 ATATCCACATCATATTTTAGTACTCACAAAGAGC-GACA-GTATCATCAAATACACTATGAGGAA
854007 GTCACACAATTCATCATACGTCATCGATGTTAAATAAAACGTTAGCAAACGACATAAACTATTAC
582 GTCACACAATTCATCATACGTCATCGATGTTAAATAAAACGTTAGCAAACGACATAAACTATTAC
854072 ATGGATGAAAAGAGCACGGCAGAC-ACAGGTTGACAAAC-TTCCAAAAGCATCTGGAAGTATTGA
647 ATGGAT-AAAA-AGCACGGCAGACTACAGGTTGACAAACTTTCCAAAAGCATCTGGAAGTATTGA
854135 AAATATTCCTAGAAGGCAATGTAACAGTACATATGTACATATAGA
710 AAATATTCCTAGAAGGCAATGTAACAGTACATATGTACATATAGA
854180 AACTGAACCAATAGGGTCACTGCAAGGGCTTACGCCAATCGGTTTTGCCAGTGCATCTTTAATCT
1 AACTGAACCAATAGGGTCACTGCAAGGGCTTACGCCAATCGGTTTTGCCAGTGCATCTTTAATCT
854245 GTCGAGTCCCTTACTAGAGATAGCATAGGGCATTTCAGTAGACTCTGTCGGGCAGGGTAAGCTTA
66 GTCGAGTCCCTTACTAGAGATAGCATAGGGCATTTCAGTAGACTCTGTCGGGCAGGGTAAGCTTA
*
854310 GAA-AAACACCATTCAGAGACATGGACTTAGATTTTCCTTGTGACTCATTCCACTCATTCCCATT
131 GAAGAAACACCATTCAGAGACATGGACTTAGATTTTCCTTGTGACTCCTTCCACTCATTCCCATT
854374 GCTGCTTGTCATTTGAAAAAGCTAAAGTCCTATATTATTAAATCGTATTTACATTTTATTTTGCC
196 GCTGCTTGTCATTTGAAAAAGCTAAAGTCCTATATTATTAAATCGTATTTACATTTTATTTTGCC
854439 TTGACATTTCCATTTGCTTGCACGTATTACAATTTAA-TTGCCACAACATTTTC-ATTACCATCA
261 TTGACATTTCCATTTGCTTGCACGTATTACAATTTAATTTGCCACAACATTTTCAATTACCATCA
*
854502 CTCTACCACCATTCCATTTCTACATCAGCTATTCCATTTTGCCATAGCATTCTCATTGTACATAC
326 CTCTACCATCATTCCATTTCTACATCAGCTATTCCATTTTGCCATAGCATTCTCATTGTACATAC
854567 CATCACT-ACTTTACTTAGGTGACAAAGTAAAGTGGCTTGACAAACCTATTTGATTTCCCCAATT
391 CATCACTAACTTTACTTAGGTGACAAAGTAAAGTGGCTTGACAAACCTATTTGATTTCCCCAATT
854631 CCC-GTGGAGACGATACTCGACTTATCACTTTATTACTTGTTCG-TTGTGTATACTTGCACACAT
456 CCCTGTGGAGACGATACTCGACTTATCACTTTATTACTTGTTCGATTGTGTATACTTGCACACAT
854694 ATCCACATCATATTTTAGTACTCACAAAG-GCGACAGTATCATCAAATACACTATGAGGAAGTCA
521 ATCCACATCATATTTTAGTACTCACAAAGAGCGACAGTATCATCAAATACACTATGAGGAAGTCA
*
854758 CAC-ATTCACACCATACGTCA-CGATGTT-AATAAAACGTTAGCAAACGACATAAACTATTACAT
586 CACAATT--CATCATACGTCATCGATGTTAAATAAAACGTTAGCAAACGACATAAACTATTACAT
* * *
854820 GGA-AAAAATCACGGAAGACTACAGGTTGACAAACTTTCCAAAAGTATCTGGAAGTATTGAAAAA
649 GGATAAAAAGCACGGCAGACTACAGGTTGACAAACTTTCCAAAAGCATCTGGAAGTATTG-AAAA
854884 TATTCCTAGAAGGCAATGTAACAGTACATATGTACATATAGA
713 TATTCCTAGAAGGCAATGTAACAGTACATATGTACATATAGA
* *
854926 AACTGAACCAATAGGGTCACTGCAAGGGCTTACGCCAATCAGTTTTGCCAGGGCATCTTTAATCT
1 AACTGAACCAATAGGGTCACTGCAAGGGCTTACGCCAATCGGTTTTGCCAGTGCATCTTTAATCT
854991 GTCGAGTCCCTTACTAGAGATAGCATAGGGCATTTCAGTAGACTCTGTCGGGCAGGGTAAGCTTA
66 GTCGAGTCCCTTACTAGAGATAGCATAGGGCATTTCAGTAGACTCTGTCGGGCAGGGTAAGCTTA
855056 GAAGAAAC-CCATTCAGAGACATGGACTTAGA-TTTCCTTGTGACTCCTTCCACTCATTCCCATT
131 GAAGAAACACCATTCAGAGACATGGACTTAGATTTTCCTTGTGACTCCTTCCACTCATTCCCATT
855119 GCTGCTTGTCA-TTG-AAAAGCT-AAGTCCTATATTATTAAATCGTATATTACATTTTATTTTGC
196 GCTGCTTGTCATTTGAAAAAGCTAAAGTCCTATATTATTAAATCGTAT-TTACATTTTATTTTGC
855181 CTTGACA-TTCCATTTGCTTGCACGTATTACAATTT-ATTTGCCACAACATTTTCAATTACCATC
260 CTTGACATTTCCATTTGCTTGCACGTATTACAATTTAATTTGCCACAACATTTTCAATTACCATC
855244 ACTCTACCATCATTCCATTTCTACATCAGCTATTCCATTTTGCCATAGCATTCTCATTTGTACAT
325 ACTCTACCATCATTCCATTTCTACATCAGCTATTCCATTTTGCCATAGCATTCTCA-TTGTACAT
* * *
855309 ACCATCACTAACTTTACTTAGGTGACAAAGTGAAGTGGCTTGACAAACCTATTTAATTTCCCTAA
389 ACCATCACTAACTTTACTTAGGTGACAAAGTAAAGTGGCTTGACAAACCTATTTGATTTCCCCAA
855374 TT-CCTGTGGAGACGATACTCGACTTATCACTTTA-TACTTGTTC-ATTGTGTATACTTGCACAC
454 TTCCCTGTGGAGACGATACTCGACTTATCACTTTATTACTTGTTCGATTGTGTATACTTGCACAC
855436 --AT-C-CATCAT-TTTTAGTACTCACAAAGAGCGACATGTATCATCAAATACA-TATTGAGGAA
519 ATATCCACATCATATTTTAGTACTCACAAAGAGCGACA-GTATCATCAAATACACTA-TGAGGAA
855495 GTCACACAATTCATCATACGTCATCGATGTTAAATAAAAACGTTAGCAAACGACATAAACTA-TA
582 GTCACACAATTCATCATACGTCATCGATGTTAAAT-AAAACGTTAGCAAACGACATAAACTATTA
*
855559 CATGGATAAAAAGCACGACAGACTACAGGTTGACAAACTTTCCAAAAGCATCTGGAAGTATTGAA
646 CATGGATAAAAAGCACGGCAGACTACAGGTTGACAAACTTTCCAAAAGCATCTGGAAGTATTGAA
855624 AA-ATATCCTAGAAGGCAATGTAACAGT--ATATGTACATATAGA
711 AATAT-TCCTAGAAGGCAATGTAACAGTACATATGTACATATAGA
855666 AAC
1 AAC
855669 CAGTTTAGTA
Statistics
Matches: 1433, Mismatches: 23, Indels: 73
0.94 0.02 0.05
Matches are distributed among these distances:
739 17 0.01
740 43 0.03
741 40 0.03
742 110 0.08
743 182 0.13
744 67 0.05
745 148 0.10
746 249 0.17
747 91 0.06
748 107 0.07
749 179 0.12
750 137 0.10
751 45 0.03
752 18 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (754 bp):
AACTGAACCAATAGGGTCACTGCAAGGGCTTACGCCAATCGGTTTTGCCAGTGCATCTTTAATCT
GTCGAGTCCCTTACTAGAGATAGCATAGGGCATTTCAGTAGACTCTGTCGGGCAGGGTAAGCTTA
GAAGAAACACCATTCAGAGACATGGACTTAGATTTTCCTTGTGACTCCTTCCACTCATTCCCATT
GCTGCTTGTCATTTGAAAAAGCTAAAGTCCTATATTATTAAATCGTATTTACATTTTATTTTGCC
TTGACATTTCCATTTGCTTGCACGTATTACAATTTAATTTGCCACAACATTTTCAATTACCATCA
CTCTACCATCATTCCATTTCTACATCAGCTATTCCATTTTGCCATAGCATTCTCATTGTACATAC
CATCACTAACTTTACTTAGGTGACAAAGTAAAGTGGCTTGACAAACCTATTTGATTTCCCCAATT
CCCTGTGGAGACGATACTCGACTTATCACTTTATTACTTGTTCGATTGTGTATACTTGCACACAT
ATCCACATCATATTTTAGTACTCACAAAGAGCGACAGTATCATCAAATACACTATGAGGAAGTCA
CACAATTCATCATACGTCATCGATGTTAAATAAAACGTTAGCAAACGACATAAACTATTACATGG
ATAAAAAGCACGGCAGACTACAGGTTGACAAACTTTCCAAAAGCATCTGGAAGTATTGAAAATAT
TCCTAGAAGGCAATGTAACAGTACATATGTACATATAGA
Found at i:857358 original size:74 final size:70
Alignment explanation
Indices: 857241--857375 Score: 218
Period size: 74 Copynumber: 1.9 Consensus size: 70
857231 GTGGTACTTA
857241 CGCCAGAGTGAACAGCTCACGCGGTGGGGGGATTGATGACGTGTACGGTGGCGGTG-TGGTAAAC
1 CGCCAGAGTGAACAGCTCACGCGGTGGGGGGATTGATGACGTGTACGGTGGCGGTGATGGTAAAC
857305 TTACG
66 TTACG
857310 CGCCATGAGTGAACAATGCTCACGACGGTGGGGGGATTGCATGACGTGTACGGTGGCGGTGATGG
1 CGCCA-GAGTGAAC-A-GCTCACG-CGGTGGGGGGATTG-ATGACGTGTACGGTGGCGGTGATGG
857375 T
61 T
857376 GGTGGTGAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
69 5 0.08
70 8 0.13
71 1 0.02
72 7 0.12
73 14 0.23
74 21 0.35
75 4 0.07
ACGTcount: A:0.20, C:0.19, G:0.41, T:0.21
Consensus pattern (70 bp):
CGCCAGAGTGAACAGCTCACGCGGTGGGGGGATTGATGACGTGTACGGTGGCGGTGATGGTAAAC
TTACG
Found at i:859050 original size:31 final size:31
Alignment explanation
Indices: 858972--859054 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
858962 AGGGTCGAGG
* * *
858972 GTTTACCTATGTTTTTCGGGATATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
859003 GTTTACCTATATTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
859034 GTTTACCTAGGCTCTTCGGGA
1 GTTTACCTATGTTCTTCGGGA
859055 TCTGTGGACT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:859063 original size:31 final size:31
Alignment explanation
Indices: 858972--859065 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 31
858962 AGGGTCGAGG
* * *
858972 GTTTACCTATGTTTTTCGGGATATATGGATT
1 GTTTACCTATGTTCTTCGGGATCTATGGACT
*
859003 GTTTACCTATATTCTTCGGGA-CATATGGACT
1 GTTTACCTATGTTCTTCGGGATC-TATGGACT
* * *
859034 GTTTACCTAGGCTCTTCGGGATCTGTGGACT
1 GTTTACCTATGTTCTTCGGGATCTATGGACT
859065 G
1 G
859066 GTCCTTCGGG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
31 52 0.98
32 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.24, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGATCTATGGACT
Found at i:859368 original size:22 final size:22
Alignment explanation
Indices: 859336--859385 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
859326 ATGATATGAG
859336 TATGATAAGTAT-ATTATGATA
1 TATGATAAGTATCATTATGATA
*
859357 TATGTATAAGTATGCATTATGTTA
1 TATG-ATAAGTAT-CATTATGATA
859381 TATGA
1 TATGA
859386 AATGGGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 4 0.16
22 8 0.32
23 1 0.04
24 12 0.48
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (22 bp):
TATGATAAGTATCATTATGATA
Found at i:863547 original size:21 final size:21
Alignment explanation
Indices: 863518--863570 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
863508 ATTCTGACTA
863518 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
863539 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
863560 TCGCAATGCGA
1 TCGCATTGCGA
863571 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:863585 original size:20 final size:20
Alignment explanation
Indices: 863560--863633 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
863550 TTTTCCTAAT
863560 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
863580 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
863601 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
863621 TCGCAATGCGAAT
1 TCGCAATGCGAAT
863634 CTGACTATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:863606 original size:41 final size:40
Alignment explanation
Indices: 863560--863651 Score: 139
Period size: 41 Copynumber: 2.3 Consensus size: 40
863550 TTTTCCTAAT
*
863560 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATCT-GAAAA
* **
863601 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACTA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATCTGAAAA
863641 TCGCAATGCGA
1 TCGCAATGCGA
863652 TTTACATAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 14 0.30
41 33 0.70
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGAATCTGAAAA
Found at i:863848 original size:22 final size:22
Alignment explanation
Indices: 863823--863884 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
863813 GGCGACATTC
863823 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
863845 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
863863 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
863885 TTCACGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:864237 original size:20 final size:20
Alignment explanation
Indices: 864212--864261 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
864202 CAACGAGTGA
864212 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
864232 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
864252 ATCGCAACGC
1 ATCGCAACGC
864262 AAGAATCGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:864275 original size:54 final size:53
Alignment explanation
Indices: 864193--864296 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 53
864183 GAACCGAGAA
* **
864193 TGACTATCGCAACGAGTGAATCGCAACGCGAAAATGACTATCGCAATGCGAATT
1 TGACTATCGCAACGAGAGAATCGCAACGCG-AAATGAAAATCGCAATGCGAATT
*
864247 TGACTATCGCAACGCA-AGAATCGCAACGCGAAATGAAAATCGCATTGCGA
1 TGACTATCGCAACG-AGAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
864297 TTCTCTCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
53 17 0.38
54 27 0.60
55 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (53 bp):
TGACTATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAATGCGAATT
Found at i:864348 original size:20 final size:20
Alignment explanation
Indices: 864303--864351 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
864293 GCGATTCTCT
864303 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
864323 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
864343 TGTTGCGAT
1 CGTTGCGAT
864352 TTAAAGTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:866220 original size:20 final size:20
Alignment explanation
Indices: 866195--866336 Score: 151
Period size: 20 Copynumber: 7.6 Consensus size: 20
866185 ATAATAGTTT
*
866195 ACTATCGTAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
866215 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
866235 ACTATCGCAACGCG-AAATG
1 ACTATCGCAATGCGAAAATG
*
866254 ACTAT--C---GCG-AGA-G
1 ACTATCGCAATGCGAAAATG
866267 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
866285 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
866305 ACTATCGCAATGTGAATTTG
1 ACTATCGCAATGCGAAAATG
866325 ACTATCGCAATG
1 ACTATCGCAATG
866337 AAAGCGCAAT
Statistics
Matches: 106, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
11 2 0.02
13 3 0.03
14 5 0.05
16 3 0.03
17 3 0.03
18 2 0.02
19 10 0.09
20 78 0.74
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:866354 original size:70 final size:70
Alignment explanation
Indices: 866203--866369 Score: 221
Period size: 70 Copynumber: 2.4 Consensus size: 70
866193 TTACTATCGT
* *
866203 AATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGCGAAATGACTATCGCGAGAGA
1 AATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGCGAAATGACTATCGCAAGAGA
*
866268 ATCGC
66 AGCGC
* * *
866273 AATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATGTGAATTTGACTATCGCAATGA
1 AATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGCGAA-ATGACTATCGCAA-GA
866338 -AAGCGC
64 GAAGCGC
** *
866344 AATGCG-AAATGAAAATCGCATTGCGA
1 AATGCGAAAATGACTATCGCAATGCGA
866370 TTCTCTCGTT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
70 62 0.72
71 22 0.26
72 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (70 bp):
AATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGCGAAATGACTATCGCAAGAGA
AGCGC
Found at i:866421 original size:20 final size:20
Alignment explanation
Indices: 866376--866424 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
866366 GCGATTCTCT
866376 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* ** *
866396 CATTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCG
866416 CGTTGCGAT
1 CGTTGCGAT
866425 TTTGTTGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:866488 original size:20 final size:20
Alignment explanation
Indices: 866463--866511 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
866453 GCGATTCTCT
*
866463 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCA
*
866483 CGTTGCGATAGTTATTTTCA
1 CGTTGCGATAGTCATTTTCA
866503 CGTTGCGAT
1 CGTTGCGAT
866512 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCA
Found at i:868698 original size:20 final size:19
Alignment explanation
Indices: 868672--868726 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 19
868662 CGCGAAACTA
*
868672 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
868691 ATTTTCGCATTGCGATTTTC
1 A-TTTCGCATTGCGATTTTC
868711 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
868727 CTCTCGTTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:868756 original size:20 final size:20
Alignment explanation
Indices: 868731--868819 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
868721 GCGATTCTCT
868731 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
868751 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* * *
868771 CATTGTGATAGTTATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
868791 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
868811 CGTTGCGAT
1 CGTTGCGAT
868820 TTCCGCGTTG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 56 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:871250 original size:24 final size:24
Alignment explanation
Indices: 871218--871269 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
871208 GAAAAATCAT
871218 CAAAATCCGAGTATTGACCAAGAA
1 CAAAATCCGAGTATTGACCAAGAA
* * *
871242 CAAAGTCCGGGTATTGACCAAGAT
1 CAAAATCCGAGTATTGACCAAGAA
871266 CAAA
1 CAAA
871270 TTTCGAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.17
Consensus pattern (24 bp):
CAAAATCCGAGTATTGACCAAGAA
Found at i:872139 original size:20 final size:20
Alignment explanation
Indices: 872116--872174 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
872106 TTGCGATAGT
*
872116 CAGAATCTCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
872136 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
* *
872156 C-GTATTCGCATTGTGATTT
1 CAG-AATCGCATTGCGATTT
872175 TCCAAATTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:872210 original size:20 final size:20
Alignment explanation
Indices: 872124--872212 Score: 99
Period size: 20 Copynumber: 4.4 Consensus size: 20
872114 GTCAGAATCT
872124 CATTGCGATTTACAG-ATTCG
1 CATTGCGATTTAC-GTATTCG
872144 CATTGCGATTTACGTATTCG
1 CATTGCGATTTACGTATTCG
* * **
872164 CATTGTGATTTTCCAAATTCG
1 CATTGCGA-TTTACGTATTCG
**
872185 TGTTGCGATTTACGTATTCG
1 CATTGCGATTTACGTATTCG
872205 CATTGCGA
1 CATTGCGA
872213 ATTAGGAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 1 0.02
20 40 0.73
21 14 0.25
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTGCGATTTACGTATTCG
Found at i:872232 original size:21 final size:21
Alignment explanation
Indices: 872202--872254 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
872192 ATTTACGTAT
*
872202 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
872223 TCGCAATGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
872244 TCGCAATGCGA
1 TCGCAATGCGA
872255 TAGTCAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:872233 original size:41 final size:41
Alignment explanation
Indices: 872124--872233 Score: 105
Period size: 41 Copynumber: 2.7 Consensus size: 41
872114 GTCAGAATCT
* * *
872124 CATTGCGATTTA-CAGATTCGCATTGCGATTTACGTATTCG
1 CATTGCGAATTACCAAAATCGCATTGCGATTTACGTATTCG
* * * * **
872164 CATTGTGATTTTCCAAATTCGTGTTGCGATTTACGTATTCG
1 CATTGCGAATTACCAAAATCGCATTGCGATTTACGTATTCG
** *
872205 CATTGCGAATTAGGAAAATCGCAATGCGA
1 CATTGCGAATTACCAAAATCGCATTGCGA
872234 ATTTGGGAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
40 10 0.18
41 45 0.82
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (41 bp):
CATTGCGAATTACCAAAATCGCATTGCGATTTACGTATTCG
Found at i:876771 original size:51 final size:51
Alignment explanation
Indices: 876711--876817 Score: 214
Period size: 51 Copynumber: 2.1 Consensus size: 51
876701 TTCCTTTGAA
876711 ATATTCATATTATTCTATGTGGATATCAATTATTTTACTATATATATATAT
1 ATATTCATATTATTCTATGTGGATATCAATTATTTTACTATATATATATAT
876762 ATATTCATATTATTCTATGTGGATATCAATTATTTTACTATATATATATAT
1 ATATTCATATTATTCTATGTGGATATCAATTATTTTACTATATATATATAT
876813 ATATT
1 ATATT
876818 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (51 bp):
ATATTCATATTATTCTATGTGGATATCAATTATTTTACTATATATATATAT
Found at i:877560 original size:2 final size:2
Alignment explanation
Indices: 877553--877631 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
877543 TATTTTTACG
877553 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
877595 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
877632 TTCACAAGTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:890087 original size:35 final size:35
Alignment explanation
Indices: 890034--890177 Score: 225
Period size: 35 Copynumber: 4.1 Consensus size: 35
890024 ACAATGGGCT
*
890034 AAGTGGGAGAGTATCCTTTTCAATCCTCAAACAGA
1 AAGTGGTAGAGTATCCTTTTCAATCCTCAAACAGA
* *
890069 AAGCGGTAGAGTGTCCTTTTCAATCCTCAAACAGA
1 AAGTGGTAGAGTATCCTTTTCAATCCTCAAACAGA
890104 AAGTGGTAGAGTATCCTTTTCAATCCTCAAACAGA
1 AAGTGGTAGAGTATCCTTTTCAATCCTCAAACAGA
* * * *
890139 AAGTGGGAGACTATCCTTTTCAACCCTCAAACAAA
1 AAGTGGTAGAGTATCCTTTTCAATCCTCAAACAGA
890174 AAGT
1 AAGT
890178 TAGGTCCCTC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (35 bp):
AAGTGGTAGAGTATCCTTTTCAATCCTCAAACAGA
Found at i:896689 original size:12 final size:12
Alignment explanation
Indices: 896661--896697 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
896651 TTTGGTAATC
896661 CCCGCCCCGATTA
1 CCCGCCCCGA-TA
896674 CCCGCCCCGATA
1 CCCGCCCCGATA
*
896686 CCCGACCCGATA
1 CCCGCCCCGATA
896698 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.19, C:0.54, G:0.16, T:0.11
Consensus pattern (12 bp):
CCCGCCCCGATA
Found at i:896830 original size:12 final size:12
Alignment explanation
Indices: 896801--896851 Score: 77
Period size: 12 Copynumber: 4.3 Consensus size: 12
896791 CGGCTCGATT
*
896801 CCCGGCCCAATA
1 CCCGACCCAATA
896813 -CCGACCCAATA
1 CCCGACCCAATA
896824 CCCGACCCAATA
1 CCCGACCCAATA
*
896836 CCCGGCCCAATA
1 CCCGACCCAATA
896848 CCCG
1 CCCG
896852 TTTAAATAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 10 0.28
12 26 0.72
ACGTcount: A:0.27, C:0.51, G:0.14, T:0.08
Consensus pattern (12 bp):
CCCGACCCAATA
Found at i:896849 original size:24 final size:24
Alignment explanation
Indices: 896786--896851 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
896776 ATATATACAT
* * * *
896786 ATACCCGGCTCGATTCCCGGCCCA
1 ATACCCGGCCCAATACCCGACCCA
*
896810 ATA-CCGACCCAATACCCGACCCA
1 ATACCCGGCCCAATACCCGACCCA
896833 ATACCCGGCCCAATACCCG
1 ATACCCGGCCCAATACCCG
896852 TTTAAATAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.26, C:0.47, G:0.15, T:0.12
Consensus pattern (24 bp):
ATACCCGGCCCAATACCCGACCCA
Found at i:897307 original size:2 final size:2
Alignment explanation
Indices: 897302--897332 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
897292 TCTCTCTCTC
897302 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
897333 AGCGCTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:900493 original size:23 final size:23
Alignment explanation
Indices: 900467--900511 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
900457 CACCACAGCT
*
900467 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
900490 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
900512 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:900746 original size:147 final size:148
Alignment explanation
Indices: 900479--900791 Score: 585
Period size: 147 Copynumber: 2.1 Consensus size: 148
900469 TATAATTGCA
900479 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
900543 TTCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTTTCCAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTTTCCAGACTTCACACATGTT
900608 CCAAAGAATATACATA-TC
130 CCAAAGAATATACATAGTC
*
900626 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATGAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
900691 TCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTTTCCAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTTTCCAGACTTCACACATGTTC
900756 CAAAGAATATACATATGTC
131 CAAAGAATATACATA-GTC
900775 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
900792 CCCTCGACTC
Statistics
Matches: 162, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
146 1 0.01
147 142 0.88
149 19 0.12
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (148 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTTTCCAGACTTCACACATGTTC
CAAAGAATATACATAGTC
Found at i:901691 original size:18 final size:18
Alignment explanation
Indices: 901670--901704 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
901660 TCCCATCTAG
901670 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
901688 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
901705 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:902309 original size:21 final size:21
Alignment explanation
Indices: 902285--902329 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
902275 TGTTGTTCGT
* *
902285 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
902306 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
902327 TTG
1 TTG
902330 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:902999 original size:12 final size:12
Alignment explanation
Indices: 902970--903020 Score: 77
Period size: 12 Copynumber: 4.3 Consensus size: 12
902960 CGGCTCGATT
*
902970 CCCGGCCCAATA
1 CCCGACCCAATA
902982 -CCGACCCAATA
1 CCCGACCCAATA
902993 CCCGACCCAATA
1 CCCGACCCAATA
*
903005 CCCGGCCCAATA
1 CCCGACCCAATA
903017 CCCG
1 CCCG
903021 TTTAAATAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 10 0.28
12 26 0.72
ACGTcount: A:0.27, C:0.51, G:0.14, T:0.08
Consensus pattern (12 bp):
CCCGACCCAATA
Found at i:903018 original size:24 final size:24
Alignment explanation
Indices: 902955--903020 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
902945 ATATATACAT
* * * *
902955 ATACCCGGCTCGATTCCCGGCCCA
1 ATACCCGGCCCAATACCCGACCCA
*
902979 ATA-CCGACCCAATACCCGACCCA
1 ATACCCGGCCCAATACCCGACCCA
903002 ATACCCGGCCCAATACCCG
1 ATACCCGGCCCAATACCCG
903021 TTTAAATAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.26, C:0.47, G:0.15, T:0.12
Consensus pattern (24 bp):
ATACCCGGCCCAATACCCGACCCA
Found at i:903474 original size:2 final size:2
Alignment explanation
Indices: 903469--903501 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
903459 TCTCTCTCTC
903469 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
903502 AGCGCTCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:906636 original size:23 final size:23
Alignment explanation
Indices: 906610--906654 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
906600 CACCACAGCT
*
906610 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
906633 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
906655 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Done.