Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008397.1 Hibiscus syriacus cultivar Beakdansim tig00111166_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: 2560905
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 13
Found at i:453457 original size:20 final size:20
Alignment explanation
Indices: 453432--453526 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
453422 AATTGGGAAA
*
453432 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
453452 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
453473 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
453493 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
453513 TTCGCAACGCGATA
1 ATCGCAACGCGATA
453527 ACATAATCGC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:453737 original size:22 final size:22
Alignment explanation
Indices: 453709--453752 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
453699 CACTCTCTCA
453709 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
453731 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
453753 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:455385 original size:18 final size:18
Alignment explanation
Indices: 455364--455408 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
455354 TCCACTTCGG
*
455364 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
455382 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
455400 GAGCCATCA
1 GAGCCATCA
455409 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:455913 original size:20 final size:20
Alignment explanation
Indices: 455888--455933 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
455878 TAGTTTACTT
455888 TCGCAACACGAAAAT-GACTA
1 TCGCAACACGAAAATGGA-TA
* *
455908 TCGCAACGCGGAAATGGATA
1 TCGCAACACGAAAATGGATA
455928 TCGCAA
1 TCGCAA
455934 TGCGAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGGATA
Found at i:455942 original size:19 final size:17
Alignment explanation
Indices: 455927--456022 Score: 87
Period size: 19 Copynumber: 5.7 Consensus size: 17
455917 GGAAATGGAT
455927 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAAT--AA
*
455946 ATCGCAA--CGACA-AA
1 ATCGCAATGCGAAATAA
455960 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAAT-AA
455978 ATCGCAA--CGAAA-AA
1 ATCGCAATGCGAAATAA
*
455992 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAAT--AA
456011 ATCGCAATGCGA
1 ATCGCAATGCGA
456023 TTTGTATTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
14 18 0.28
16 14 0.22
17 4 0.06
18 9 0.14
19 20 0.31
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (17 bp):
ATCGCAATGCGAAATAA
Found at i:455962 original size:14 final size:14
Alignment explanation
Indices: 455943--456000 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
455933 ATGCGAAATG
*
455943 AAAATCGCAACGAC
1 AAAATCGCAACGAA
455957 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAA
455973 ATGAAATCGCAACGAA
1 A--AAATCGCAACGAA
455989 AAAATCGCAACG
1 AAAATCGCAACG
456001 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 21 0.54
16 9 0.23
18 9 0.23
ACGTcount: A:0.50, C:0.22, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:455985 original size:32 final size:33
Alignment explanation
Indices: 455927--456017 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
455917 GGAAATGGAT
*
455927 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
455960 ATCGCAATGCGAAATG-AAATCGCAACGAAAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
*
455992 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
456018 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
Found at i:456074 original size:19 final size:19
Alignment explanation
Indices: 456048--456114 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
456038 GCGATTTTGT
**
456048 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
456067 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
456087 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
456106 CGTTGCGAT
1 CGTTGCGAT
456115 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:456094 original size:20 final size:19
Alignment explanation
Indices: 456060--456114 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
456050 TTGCGATTTT
*
456060 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
456079 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
456099 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
456115 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:458143 original size:19 final size:19
Alignment explanation
Indices: 458121--458188 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
458111 ATCGCAACGA
458121 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
458140 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
458159 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
458173 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
458189 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:458264 original size:20 final size:20
Alignment explanation
Indices: 458207--458264 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
458197 TCGCATTGCG
* *
458207 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
458227 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
458247 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
458265 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:459353 original size:24 final size:24
Alignment explanation
Indices: 459326--459379 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
459316 GTATTCGAAA
* *
459326 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
459350 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
459374 TTTGAT
1 TTTGAT
459380 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:461865 original size:20 final size:19
Alignment explanation
Indices: 461840--461888 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
461830 CTTAATGTCC
* **
461840 ATCGCAACGCGGAAATTACT
1 ATCGCAACGC-GAAATGAAA
*
461860 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
461879 ATCGCAACGC
1 ATCGCAACGC
461889 TAATTTCGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:461906 original size:33 final size:32
Alignment explanation
Indices: 461860--461958 Score: 121
Period size: 33 Copynumber: 3.1 Consensus size: 32
461850 GGAAATTACT
*
461860 ATCGCAATGCGAAATGAAAATCGCAAC-GCTA
1 ATCGCAATGCGAAATGAAAATCGCAACAGCGA
* * *
461891 ATTTCGCAATACGAAATGCAAATCGCAACGAGGGA
1 A--TCGCAATGCGAAATGAAAATCGCAAC-AGCGA
461926 ATCGCAATGCGAAATGAAAATCGCAACA-CGA
1 ATCGCAATGCGAAATGAAAATCGCAACAGCGA
461957 AT
1 AT
461959 TTAATTTCGC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
31 5 0.09
32 1 0.02
33 48 0.84
35 3 0.05
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.16
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAAATCGCAACAGCGA
Found at i:462155 original size:14 final size:14
Alignment explanation
Indices: 462136--462172 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
462126 CATCAATTAA
462136 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
462150 ACAAATCACCTTTT
1 ACAAATCAACTTTT
462164 ACAAATCAA
1 ACAAATCAA
462173 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:463566 original size:21 final size:20
Alignment explanation
Indices: 463537--463615 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 20
463527 GAATGGTGGG
463537 AGGGACCTCTTCAACGATGAT
1 AGGG-CCTCTTCAACGATGAT
* *
463558 AGTGGCCTCTTGAACGGTGGA-
1 AG-GGCCTCTTCAACGAT-GAT
* * * *
463579 GGGGACTC-TCGAGGAATGAT
1 AGGGCCTCTTCAACG-ATGAT
463599 AGGGCCTCTTCAACGAT
1 AGGGCCTCTTCAACGAT
463616 AGGAGTGGAC
Statistics
Matches: 41, Mismatches: 12, Indels: 11
0.64 0.19 0.17
Matches are distributed among these distances:
19 5 0.12
20 14 0.34
21 18 0.44
22 4 0.10
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (20 bp):
AGGGCCTCTTCAACGATGAT
Found at i:463584 original size:42 final size:40
Alignment explanation
Indices: 463522--463628 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 40
463512 GTGAATCGGG
*
463522 CTCTTGAATGGTGGGAGGGACCTCTTCAACG-ATGATAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTC-TCAACGAATGATAG-GGC
* *
463564 CTCTTGAACGGT-GGAGGGGACTCTCGAGGAATGATAGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTCAACGAATGATAGGGC
* * *
463604 CTCTTCAACGATAGGAGTGGACTCT
1 CTCTTGAACGGTGGGAG-GGACTCT
463629 TGAGGATGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
40 18 0.32
41 23 0.41
42 15 0.27
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (40 bp):
CTCTTGAACGGTGGGAGGGACTCTCAACGAATGATAGGGC
Found at i:463598 original size:41 final size:40
Alignment explanation
Indices: 463552--463641 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
463542 CCTCTTCAAC
* *
463552 GATGATAGTGGCCTCTTGAACGGT-GGAGGGGACTCTCGAG
1 GATGATAG-GGCCTCTTCAACGATAGGAGGGGACTCTCGAG
* *
463592 GAATGATAGGGCCTCTTCAACGATAGGAGTGGACTCTTGAG
1 G-ATGATAGGGCCTCTTCAACGATAGGAGGGGACTCTCGAG
463633 GATGATAGG
1 GATGATAGG
463642 CGAGTCAGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 22 0.50
41 22 0.50
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.23
Consensus pattern (40 bp):
GATGATAGGGCCTCTTCAACGATAGGAGGGGACTCTCGAG
Found at i:465714 original size:33 final size:33
Alignment explanation
Indices: 465657--465755 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
465647 ACGAGATAAT
*
465657 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
465691 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
465724 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
465756 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:465749 original size:19 final size:19
Alignment explanation
Indices: 465632--465816 Score: 174
Period size: 19 Copynumber: 10.1 Consensus size: 19
465622 TCTTTTGGTT
*
465632 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
465651 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
465671 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
465689 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
465705 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
465723 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
465738 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
465758 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
465777 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
465796 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
465815 GA
1 GA
465817 TTTTGGTTTC
Statistics
Matches: 138, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 62 0.45
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:465770 original size:39 final size:38
Alignment explanation
Indices: 465727--465816 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
465717 GCGACCAGAC
465727 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
465766 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
465804 AATCGCAATGCGA
1 AATCGCAACGCGA
465817 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:466410 original size:20 final size:20
Alignment explanation
Indices: 466385--466437 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
466375 GCGCTATGTA
*
466385 AATCGCGTTGCGAAAGTTAG
1 AATCGCGTTGCGAAAGTCAG
466405 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
466425 TATCTCGTTGCGA
1 AATCGCGTTGCGA
466438 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:466497 original size:21 final size:21
Alignment explanation
Indices: 466468--466560 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
466458 ATAGTAAGTA
466468 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
466489 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
466509 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
466530 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
466550 TCGCATTGCGA
1 TCGCATTGCGA
466561 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:466498 original size:41 final size:41
Alignment explanation
Indices: 466407--466541 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
466397 AAAGTTAGAA
* * * * ** *
466407 TCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
466447 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
466489 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
466530 TCGCGTTGCGAT
1 TCGCGTTGCGAT
466542 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:466542 original size:41 final size:41
Alignment explanation
Indices: 466468--466560 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
466458 ATAGTAAGTA
466468 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
466509 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
466550 TCGCATTGCGA
1 TCGCATTGCGA
466561 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:469284 original size:50 final size:50
Alignment explanation
Indices: 469217--469347 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 50
469207 TATCCGTAGC
* * *
469217 AGTAAAGCGCGCTCCCTGAACCGCGTTATACGCTGATTTGACGCCACGTG
1 AGTATAGCGCGCCCCCTGAACCGCGATATACGCTGATTTGACGCCACGTG
* ** * *
469267 GGTATAGCGCGCCCCCTGCCCCGCGATATACGGTGATTTGGCGCCACGTG
1 AGTATAGCGCGCCCCCTGAACCGCGATATACGCTGATTTGACGCCACGTG
* *
469317 AGTATAGCGCGCCCCCTGATCCGCGCTATAC
1 AGTATAGCGCGCCCCCTGAACCGCGATATAC
469348 CTGGGTGTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (50 bp):
AGTATAGCGCGCCCCCTGAACCGCGATATACGCTGATTTGACGCCACGTG
Found at i:469588 original size:17 final size:18
Alignment explanation
Indices: 469551--469591 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
469541 CTATTATGTA
*
469551 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
469569 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
469586 TTTACT
1 TTTACT
469592 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:469847 original size:111 final size:111
Alignment explanation
Indices: 469653--469985 Score: 639
Period size: 111 Copynumber: 3.0 Consensus size: 111
469643 TGGAAATCAT
*
469653 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
469718 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
469764 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
469829 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGGATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
469875 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
469940 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
469986 TTTTTGTAAT
Statistics
Matches: 218, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 218 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:471876 original size:3 final size:3
Alignment explanation
Indices: 471868--471896 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
471858 ACCTGCTCAG
471868 GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
471897 TGATAGCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:472152 original size:35 final size:33
Alignment explanation
Indices: 472113--472197 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
472103 ATATTTCAGT
472113 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
472148 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
472183 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
472198 TAAATACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:477810 original size:18 final size:18
Alignment explanation
Indices: 477750--477812 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
477740 TTATAATAAA
*
477750 ATATTAATTATGATAATT
1 ATATTAATTATGATTATT
* *
477768 AAATTAATAAATAGACTTATT
1 ATATTAAT-TAT-GA-TTATT
*
477789 ATATTAATTATGATTCTT
1 ATATTAATTATGATTATT
477807 ATATTA
1 ATATTA
477813 TGATTCTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 17 0.47
19 4 0.11
20 4 0.11
21 11 0.31
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (18 bp):
ATATTAATTATGATTATT
Found at i:477814 original size:14 final size:14
Alignment explanation
Indices: 477795--477827 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
477785 TATTATATTA
477795 ATTATGATTCTTAT
1 ATTATGATTCTTAT
477809 ATTATGATTCTTAT
1 ATTATGATTCTTAT
*
477823 GTTAT
1 ATTAT
477828 AAATCTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (14 bp):
ATTATGATTCTTAT
Found at i:481326 original size:55 final size:55
Alignment explanation
Indices: 481179--481329 Score: 133
Period size: 61 Copynumber: 2.6 Consensus size: 55
481169 TGGTTAGATG
* * * * * *
481179 GGTTACAGAAGATGAACAGAGACAGAGGAAGAAGATGATGAACAATATCAGTTAA
1 GGTTAGAGAAGATGAAAAGAGATAGAAGATGAAGATGATGAACAATATAAGTTAA
* * * * *
481234 GGTTAGATAAGATGTACAGAAAAAGATGATGATGATGATGATGATGAACAGTA-AAGGTTAA
1 GGTTAGAGAAGATG---A-AAAGAGAT-A-GAAGATGAAGATGATGAACAATATAA-GTTAA
481295 GGTTAGAGAAGATGAAAAGAGATAGAAGATGAAGA
1 GGTTAGAGAAGATGAAAAGAGATAGAAGATGAAGA
481330 GGCTCAATTT
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
55 21 0.28
56 1 0.01
57 7 0.09
58 2 0.03
59 5 0.07
60 2 0.03
61 37 0.49
ACGTcount: A:0.47, C:0.05, G:0.29, T:0.19
Consensus pattern (55 bp):
GGTTAGAGAAGATGAAAAGAGATAGAAGATGAAGATGATGAACAATATAAGTTAA
Found at i:481326 original size:61 final size:61
Alignment explanation
Indices: 481212--481326 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
481202 AGAGGAAGAA
* * * * *
481212 GATGATGAACAATATCAGTTAAGGTTAGATAAGATGTACAGAAAAAGATGATGATGATGAT
1 GATGATGAACAATATAAGTTAAGGTTAGAGAAGATGAAAAGAAAAAGAAGATGATGATGAT
* * *
481273 GATGATGAACAGTA-AAGGTTAAGGTTAGAGAAGATGAAAAGAGATAGAAGATGA
1 GATGATGAACAATATAA-GTTAAGGTTAGAGAAGATGAAAAGAAAAAGAAGATGA
481327 AGAGGCTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
60 1 0.02
61 44 0.98
ACGTcount: A:0.46, C:0.03, G:0.28, T:0.23
Consensus pattern (61 bp):
GATGATGAACAATATAAGTTAAGGTTAGAGAAGATGAAAAGAAAAAGAAGATGATGATGAT
Found at i:481499 original size:53 final size:52
Alignment explanation
Indices: 481389--481515 Score: 123
Period size: 53 Copynumber: 2.4 Consensus size: 52
481379 AACATGCTTA
* * ** * *
481389 GTTTGGGGTTA-AATAAGATAAATATAGACAAAAGGTGAAGAGGTTAGGTTAGT
1 GTTT-GGGTTAGAA-AAGATGAACATAGACAAAAGGTGAAGAGACTAGATTAGG
*
481442 GTTTGGGATTAGAAAAGATGAACATAGACAGAAA-GTGAAGAGACTCGATTAGG
1 GTTTGGG-TTAGAAAAGATGAACATAGACA-AAAGGTGAAGAGACTAGATTAGG
* *
481495 GTTTGGGTTTGAGAAGATGAA
1 GTTTGGGTTAGAAAAGATGAA
481516 TAATTGTGGG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
52 15 0.24
53 42 0.68
54 5 0.08
ACGTcount: A:0.39, C:0.04, G:0.31, T:0.26
Consensus pattern (52 bp):
GTTTGGGTTAGAAAAGATGAACATAGACAAAAGGTGAAGAGACTAGATTAGG
Found at i:482278 original size:26 final size:26
Alignment explanation
Indices: 482223--482468 Score: 147
Period size: 26 Copynumber: 9.2 Consensus size: 26
482213 TCAATTAATA
* *
482223 TATATAGGTTTATAT-TAATAAATTAA-
1 TATATA-GTTTATATATACT-AATGAAC
482249 TATATAGTTTATATATACTAATGAAC
1 TATATAGTTTATATATACTAATGAAC
*
482275 TATATAGTTTATATATATTAATGAAC
1 TATATAGTTTATATATACTAATGAAC
*
482301 TATATAGTTTATATATAATTCATAT-ACAC
1 TATATAGTTTATATAT-ACT-A-ATGA-AC
* * **
482330 TA-ATGAACTATATAATATA-TAATTTA-
1 TATAT--AGTTTAT-ATATACTAATGAAC
*
482356 TATATA--CTA-ATGA-AC-AAT-ATAC
1 TATATAGTTTATAT-ATACTAATGA-AC
*
482378 TATATAGTTTATATATAATAATGAAC
1 TATATAGTTTATATATACTAATGAAC
*
482404 TATATAGTTTATATAAACTAATGAAC
1 TATATAGTTTATATATACTAATGAAC
482430 TATATGAAGTATATGAAATATATACTAATGAAC
1 TATAT--AGT-T-T---ATATATACTAATGAAC
482463 TATATA
1 TATATA
482469 CTATATAGTT
Statistics
Matches: 179, Mismatches: 13, Indels: 51
0.74 0.05 0.21
Matches are distributed among these distances:
21 7 0.04
22 7 0.04
23 2 0.01
24 3 0.02
25 17 0.09
26 86 0.48
27 9 0.05
28 8 0.04
29 8 0.04
30 7 0.04
31 5 0.03
33 20 0.11
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (26 bp):
TATATAGTTTATATATACTAATGAAC
Found at i:482353 original size:33 final size:33
Alignment explanation
Indices: 482275--482541 Score: 203
Period size: 33 Copynumber: 7.8 Consensus size: 33
482265 ACTAATGAAC
* *
482275 TATATAGTTTATATATATTAATGAACTATATAGTTTA
1 TATATAATTTATATATACTAATGAACTATATA----A
* *
482312 TATATAATTCATATACACTAATGAACTATATAA
1 TATATAATTTATATATACTAATGAACTATATAA
* *
482345 TATATAATTTATATATACTAATGAACAATATAC
1 TATATAATTTATATATACTAATGAACTATATAA
* * *
482378 TATATAGTTTATATATAATAATGAACTATATAG
1 TATATAATTTATATATACTAATGAACTATATAA
482411 T-T-T-A--TATA-A-ACTAATGAACTATATGAA
1 TATATAATTTATATATACTAATGAACTATAT-AA
482438 GTATATGAA---ATATATACTAATGAACTATATACTATATA
1 -TATAT-AATTTATATATACTAATGAAC----TA-TATA-A
*
482476 GTTTATATAAAGTTTACATATACTAATGAACTATATAA
1 ---TATAT-AA-TTTATATATACTAATGAACTATATAA
*
482514 TATATAGTTTATATATACTAATGAACTA
1 TATATAATTTATATATACTAATGAACTA
482542 GTTTATTAAT
Statistics
Matches: 190, Mismatches: 20, Indels: 44
0.75 0.08 0.17
Matches are distributed among these distances:
26 14 0.07
27 2 0.01
28 5 0.03
29 1 0.01
30 1 0.01
31 4 0.02
32 3 0.02
33 90 0.47
34 1 0.01
35 5 0.03
37 31 0.16
38 5 0.03
39 4 0.02
40 9 0.05
44 15 0.08
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (33 bp):
TATATAATTTATATATACTAATGAACTATATAA
Found at i:482408 original size:59 final size:58
Alignment explanation
Indices: 482345--482468 Score: 151
Period size: 59 Copynumber: 2.1 Consensus size: 58
482335 AACTATATAA
* **
482345 TATATAATTTATATATACTAATGAACAATAT-ACTATATAGTTTATATATAATAATGAAC
1 TATATAATTTATATAAACTAATGAACAATATAACTATAT-G-AAATATATAATAATGAAC
* * * *
482404 TATATAGTTTATATAAACTAATGAACTATATGAAGTATATGAAATATATACTAATGAAC
1 TATATAATTTATATAAACTAATGAACAATAT-AACTATATGAAATATATAATAATGAAC
482463 TATATA
1 TATATA
482469 CTATATAGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 49 0.88
60 1 0.02
61 6 0.11
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (58 bp):
TATATAATTTATATAAACTAATGAACAATATAACTATATGAAATATATAATAATGAAC
Found at i:482436 original size:9 final size:9
Alignment explanation
Indices: 482413--482467 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
482403 CTATATAGTT
*
482413 TATATAAAC
1 TATATGAAC
482422 TA-ATGAAC
1 TATATGAAC
*
482430 TATATGAAG
1 TATATGAAC
*
482439 TATATGAAA
1 TATATGAAC
482448 TATAT--AC
1 TATATGAAC
482455 TA-ATGAAC
1 TATATGAAC
482463 TATAT
1 TATAT
482468 ACTATATAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 2 0.05
7 3 0.08
8 11 0.29
9 22 0.58
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (9 bp):
TATATGAAC
Found at i:482469 original size:92 final size:90
Alignment explanation
Indices: 482312--482484 Score: 258
Period size: 92 Copynumber: 1.9 Consensus size: 90
482302 ATATAGTTTA
*
482312 TATATAATTCATATACACTAATGAACTATATAATATATAATTTATATATACTAATGAACAATATA
1 TATATAATTCATATAAACTAATGAACTATATAATATATAA--TATATATACTAATGAACAATATA
482377 CTATATAGTTTATATATAATAATGAAC
64 CTATATAGTTTATATATAATAATGAAC
* * *
482404 TATATAGTTTATATAAACTAATGAACTATATGAAGTATATGAA-ATATATACTAATGAACTATAT
1 TATATAATTCATATAAACTAATGAACTATAT-AA-TATAT-AATATATATACTAATGAACAATAT
482468 ACTATATAGTTTATATA
63 ACTATATAGTTTATATA
482485 AAGTTTACAT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 65 0.88
93 2 0.03
94 5 0.07
95 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (90 bp):
TATATAATTCATATAAACTAATGAACTATATAATATATAATATATATACTAATGAACAATATACT
ATATAGTTTATATATAATAATGAAC
Found at i:482676 original size:11 final size:11
Alignment explanation
Indices: 482646--482686 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
482636 ATATTAATAA
482646 ATATATAGTAT-
1 ATATATAGT-TC
482657 ATAATATAGTTC
1 AT-ATATAGTTC
482669 ATATATAGTTC
1 ATATATAGTTC
482680 ATATATA
1 ATATATA
482687 CACTACATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (11 bp):
ATATATAGTTC
Found at i:482743 original size:2 final size:2
Alignment explanation
Indices: 482731--482774 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
482721 AAATATAAAC
482731 TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
482773 TA
1 TA
482775 ATTTTTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 37 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:485096 original size:16 final size:15
Alignment explanation
Indices: 485070--485103 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
485060 GCTACAATCT
485070 AACAAACTATTCTAG
1 AACAAACTATTCTAG
485085 AACAACACTATTCTAG
1 AACAA-ACTATTCTAG
485101 AAC
1 AAC
485104 TCACAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.24
Consensus pattern (15 bp):
AACAAACTATTCTAG
Found at i:487795 original size:30 final size:31
Alignment explanation
Indices: 487739--487827 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 31
487729 TTTGATGAGT
*
487739 CATGTGTTGATGGAG-AAGCACATGGTGG-CA
1 CATGTGTTGATGGAGCAGGCAC-TGGTGGACA
* *
487769 GATGTGTTGATGGAGCAGGTACTGGTGGAACA
1 CATGTGTTGATGGAGCAGGCACTGGTGG-ACA
*
487801 CA-CT-TTGATGGAGCAGGCACTGGTGGA
1 CATGTGTTGATGGAGCAGGCACTGGTGGA
487828 ACGTAGGTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 1 0.02
30 41 0.82
31 5 0.10
32 3 0.06
ACGTcount: A:0.25, C:0.13, G:0.38, T:0.24
Consensus pattern (31 bp):
CATGTGTTGATGGAGCAGGCACTGGTGGACA
Found at i:490773 original size:16 final size:15
Alignment explanation
Indices: 490747--490780 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
490737 GCTACAATCT
490747 AACAAACTATTCTAG
1 AACAAACTATTCTAG
490762 AACAACACTATTCTAG
1 AACAA-ACTATTCTAG
490778 AAC
1 AAC
490781 TCACAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.24
Consensus pattern (15 bp):
AACAAACTATTCTAG
Found at i:491181 original size:50 final size:50
Alignment explanation
Indices: 491119--491244 Score: 171
Period size: 50 Copynumber: 2.5 Consensus size: 50
491109 GTAGCAGTAA
* *
491119 AGCGCGCTCCCTGAACCGCGTTATACGCTGATTTGACGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGATATACGCTGATTTGACGCCACGTGGGTAT
** * * *
491169 AGCGCGCCCCCTGCCCCGTGATATACGGTGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGATATACGCTGATTTGACGCCACGTGGGTAT
* *
491219 AGCGCGCCCCCTGATCCGCGCTATAC
1 AGCGCGCCCCCTGAACCGCGATATAC
491245 CTGGGTGTCT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.16, C:0.34, G:0.29, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGATATACGCTGATTTGACGCCACGTGGGTAT
Found at i:491483 original size:17 final size:18
Alignment explanation
Indices: 491446--491486 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
491436 CTATTATGTA
*
491446 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
491464 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
491481 TTTACT
1 TTTACT
491487 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:493412 original size:19 final size:19
Alignment explanation
Indices: 493384--493423 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
493374 TATATTATCA
*
493384 TTAATGAAATTATAAGATT
1 TTAATAAAATTATAAGATT
* *
493403 TTAATAAAATTTTGAGATT
1 TTAATAAAATTATAAGATT
493422 TT
1 TT
493424 GAGTTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (19 bp):
TTAATAAAATTATAAGATT
Found at i:493545 original size:14 final size:14
Alignment explanation
Indices: 493526--493557 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
493516 ATTATATTAA
493526 TTATGATTCTTATG
1 TTATGATTCTTATG
*
493540 TTATGATTTTTATG
1 TTATGATTCTTATG
493554 TTAT
1 TTAT
493558 AAATCTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.12, T:0.62
Consensus pattern (14 bp):
TTATGATTCTTATG
Found at i:497680 original size:22 final size:22
Alignment explanation
Indices: 497655--497697 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
497645 ATATTAGTCC
*
497655 TTCGGGATGTATCCAGTGGTTT
1 TTCGGGACGTATCCAGTGGTTT
497677 TTCGGGACGTATCCAGTGGTT
1 TTCGGGACGTATCCAGTGGTT
497698 CTTCAGGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.33, T:0.37
Consensus pattern (22 bp):
TTCGGGACGTATCCAGTGGTTT
Found at i:503972 original size:66 final size:64
Alignment explanation
Indices: 503886--504008 Score: 149
Period size: 66 Copynumber: 1.9 Consensus size: 64
503876 TTTGTTGAAG
* * *
503886 GTGCATCGATGCACATGGAGTGTATCAATGCA-CTCATTTAAAATAAATGAACATCGAATGTCAT
1 GTGCATCGATGCACAAGGAGTGCATCAATGCATCTC-CTTAAAATAAA--AACATCGAATGTCAT
503950 TA
63 TA
* * * *
503952 GTGCATTGATGCATAAGGAGTGCATCGATGCATCTCCTTAAAATACAAACATCGAAT
1 GTGCATCGATGCACAAGGAGTGCATCAATGCATCTCCTTAAAATAAAAACATCGAAT
504009 AGGATTTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
64 10 0.20
66 36 0.73
67 3 0.06
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCACAAGGAGTGCATCAATGCATCTCCTTAAAATAAAAACATCGAATGTCATTA
Found at i:504627 original size:22 final size:22
Alignment explanation
Indices: 504598--504675 Score: 129
Period size: 22 Copynumber: 3.5 Consensus size: 22
504588 GGGTATATTA
504598 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
* *
504620 GTCATTCGGTACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
504642 GTCCTTTGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
504664 GTCCTTCGGGAC
1 GTCCTTCGGGAC
504676 AAATACTGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:506132 original size:58 final size:58
Alignment explanation
Indices: 506021--506132 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
506011 AGAGGAAGAA
** * * *
506021 GATGATGAACAATATCGGTTAAGGTTAGAGAAGATGTACAGAAAAAGATGATGATGAT
1 GATGATGAACAATAAAGGTTAAGGTTAGAGAAGATGAAAAGAAAAAGAAGATGATGAT
* * *
506079 GATGATGAACAGTAAAGGTTAAGGTTAGAGAAGATGAAAAGATATAGAAGATGA
1 GATGATGAACAATAAAGGTTAAGGTTAGAGAAGATGAAAAGAAAAAGAAGATGA
506133 AGAGGCTCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.46, C:0.04, G:0.29, T:0.22
Consensus pattern (58 bp):
GATGATGAACAATAAAGGTTAAGGTTAGAGAAGATGAAAAGAAAAAGAAGATGATGAT
Found at i:506656 original size:88 final size:90
Alignment explanation
Indices: 506507--506672 Score: 246
Period size: 88 Copynumber: 1.9 Consensus size: 90
506497 AGGGTTGAAT
*
506507 TTTTGGGTGTTTAATCGAAAAAAACAAGAATGAGTTTGGTTTTTGGTGTTTGTGAAGATCAAATG
1 TTTTGGGTGTTTAATCGAAAAAAACAAGAATGAGTTTGGGTTTTGGTGTTTGTGAAGATCAAATG
* *
506572 GGGGTTTTTGGGACAACAGTTTAAA
66 AGGGTTTTCGGGACAACAGTTTAAA
* * ** *
506597 TTTTGGGTGTTTGATCGGAAAAAAGGA-AATG-GTTTGGGTTTTGGTGTTTGTGAATATCAAATG
1 TTTTGGGTGTTTAATCGAAAAAAACAAGAATGAGTTTGGGTTTTGGTGTTTGTGAAGATCAAATG
506660 AGGGTTTTCGGGA
66 AGGGTTTTCGGGA
506673 TGAATACGGA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
88 41 0.60
89 4 0.06
90 23 0.34
ACGTcount: A:0.27, C:0.05, G:0.31, T:0.37
Consensus pattern (90 bp):
TTTTGGGTGTTTAATCGAAAAAAACAAGAATGAGTTTGGGTTTTGGTGTTTGTGAAGATCAAATG
AGGGTTTTCGGGACAACAGTTTAAA
Found at i:506695 original size:21 final size:21
Alignment explanation
Indices: 506670--506728 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
506660 AGGGTTTTCG
*
506670 GGATGAATACGGATGAACAAA
1 GGATGAACACGGATGAACAAA
*
506691 TGATGAACACGGATGAACAAA
1 GGATGAACACGGATGAACAAA
506712 GGATGAACACGGATGAA
1 GGATGAACACGGATGAA
506729 TTTCTAGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.29, T:0.14
Consensus pattern (21 bp):
GGATGAACACGGATGAACAAA
Found at i:506697 original size:11 final size:11
Alignment explanation
Indices: 506680--506720 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
506670 GGATGAATAC
506680 GGATGAACAAA
1 GGATGAACAAA
* *
506691 TGATGAAC-AC
1 GGATGAACAAA
506701 GGATGAACAAA
1 GGATGAACAAA
506712 GGATGAACA
1 GGATGAACA
506721 CGGATGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.49, C:0.12, G:0.27, T:0.12
Consensus pattern (11 bp):
GGATGAACAAA
Found at i:507102 original size:26 final size:26
Alignment explanation
Indices: 507047--507166 Score: 131
Period size: 26 Copynumber: 4.7 Consensus size: 26
507037 TTTCAATTAA
* *
507047 TATATATGTTTATAT-TAATAAATTAA-
1 TATATA-GTTTATATATACT-AATGAAC
507073 TATATAGTTTATATATACTAATGAAC
1 TATATAGTTTATATATACTAATGAAC
* * * *
507099 TATATACTATATAGTTTA-T-ATAAAC
1 TATATAGTTTATA-TATACTAATGAAC
507124 TATATAGTTTATATATACTAATGAAC
1 TATATAGTTTATATATACTAATGAAC
507150 TATATAGTTTATATATA
1 TATATAGTTTATATATA
507167 ATTCATATAC
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.04
25 30 0.38
26 43 0.54
27 3 0.04
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (26 bp):
TATATAGTTTATATATACTAATGAAC
Found at i:507125 original size:18 final size:18
Alignment explanation
Indices: 507073--507143 Score: 87
Period size: 18 Copynumber: 4.1 Consensus size: 18
507063 AATAAATTAA
507073 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
*
507091 TA-AT-G--AACTATATAC
1 TATATAGTTTA-TATATAC
*
507106 TATATAGTTTATATAAAC
1 TATATAGTTTATATATAC
507124 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
507142 TA
1 TA
507144 ATGAACTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.02
15 9 0.20
16 3 0.07
17 3 0.07
18 27 0.61
19 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:507198 original size:44 final size:43
Alignment explanation
Indices: 507072--507287 Score: 179
Period size: 44 Copynumber: 5.2 Consensus size: 43
507062 TAATAAATTA
* * *
507072 ATATATAGTTTATATATACTAATGAACTATATACTATATAGTTT
1 ATATATA-ATTATATACACTAATGAACTATATAATATATAGTTT
* ***
507116 ATATA-AACTATATAGTTTATAT-ATACTA-ATGAACTATATAGTTT
1 ATATATAATTATATACACTA-ATGA-ACTATAT-AA-TATATAGTTT
507160 ATATATAATTCATATACACTAATGAACTATATAATATATA----
1 ATATATAATT-ATATACACTAATGAACTATATAATATATAGTTT
* *
507200 AT-T-T-A-TATAT--ACTAATGAACAATATACTATATAGTTT
1 ATATATAATTATATACACTAATGAACTATATAATATATAGTTT
* *
507237 ATATATAGTTTATATACACTAATGAACTATATAATATATAATTT
1 ATATATA-ATTATATACACTAATGAACTATATAATATATAGTTT
507281 ATATATA
1 ATATATA
507288 CTAATGAACA
Statistics
Matches: 137, Mismatches: 16, Indels: 38
0.72 0.08 0.20
Matches are distributed among these distances:
33 21 0.15
35 4 0.03
36 1 0.01
37 3 0.02
38 2 0.01
39 2 0.01
40 2 0.01
42 16 0.12
43 8 0.06
44 57 0.42
45 11 0.08
46 10 0.07
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (43 bp):
ATATATAATTATATACACTAATGAACTATATAATATATAGTTT
Found at i:507202 original size:33 final size:33
Alignment explanation
Indices: 507115--507335 Score: 208
Period size: 33 Copynumber: 6.2 Consensus size: 33
507105 CTATATAGTT
*
507115 TATATAAACTATATAGTTTATATATACTAATGAAC
1 TATAT-AA-TATATAATTTATATATACTAATGAAC
* *
507150 TATATAGTTTATATATAATTCATATACACTAATGAAC
1 TATATA----ATATATAATTTATATATACTAATGAAC
507187 TATATAATATATAATTTATATATACTAATGAAC
1 TATATAATATATAATTTATATATACTAATGAAC
*
507220 AATATACTATATAGTTTATATATAGTTTATATACACTAATGAAC
1 ----TA-TATA-A---TATATA-A-TTTATATATACTAATGAAC
507264 TATATAATATATAATTTATATATACTAATGAAC
1 TATATAATATATAATTTATATATACTAATGAAC
* * * * *
507297 AATATACTATATAGTTTATATATAATAGTGAAC
1 TATATAATATATAATTTATATATACTAATGAAC
507330 TATATA
1 TATATA
507336 GTTTATATAT
Statistics
Matches: 158, Mismatches: 13, Indels: 32
0.78 0.06 0.16
Matches are distributed among these distances:
33 76 0.48
34 2 0.01
35 11 0.07
37 31 0.20
38 6 0.04
39 5 0.03
40 2 0.01
42 6 0.04
43 1 0.01
44 18 0.11
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (33 bp):
TATATAATATATAATTTATATATACTAATGAAC
Found at i:507243 original size:11 final size:11
Alignment explanation
Indices: 507227--507252 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
507217 AACAATATAC
507227 TATATAGTTTA
1 TATATAGTTTA
507238 TATATAGTTTA
1 TATATAGTTTA
507249 TATA
1 TATA
507253 CACTAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:507301 original size:26 final size:28
Alignment explanation
Indices: 507237--507355 Score: 89
Period size: 33 Copynumber: 4.0 Consensus size: 28
507227 TATATAGTTT
* *
507237 ATATATAGTTTATATACACTAATGAACTATATA
1 ATATATAATTTATATATACTAATGAAC-----A
507270 ATATATAATTTATATATACTAATGAACAA
1 ATATATAATTTATATATACTAATGAAC-A
* *
507299 TATACTATATAGTTTATATATAATAGTGAAC-
1 -ATA-TATA-A-TTTATATATACTAATGAACA
*
507330 -TATATAGTTTATATATACTAATGAAC
1 ATATATAATTTATATATACTAATGAAC
507356 TAGTTTATTA
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
26 17 0.23
28 4 0.05
29 3 0.04
30 3 0.04
31 4 0.05
32 1 0.01
33 42 0.57
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (28 bp):
ATATATAATTTATATATACTAATGAACA
Found at i:507340 original size:92 final size:94
Alignment explanation
Indices: 507238--507415 Score: 236
Period size: 94 Copynumber: 1.9 Consensus size: 94
507228 ATATAGTTTA
* * * *
507238 TATATAGTTTATATACACTAATGAACTA-TATAAT-ATATAATT-TATATATACTAATGAACAAT
1 TATATAGTTTATATACACTAATGAACTAGTATAATAATATAATTATATAAAGAATAA-AAACAAT
*
507300 ATACTATATAGTTTATATATAATAGTGAAC
65 ATACTATATAGTTTATAAATAATAGTGAAC
* * * *
507330 TATATAGTTTATATATACTAATGAACTAGTTTATTAATATAATTATATAAAGAATAAAAACTATA
1 TATATAGTTTATATACACTAATGAACTAGTATAATAATATAATTATATAAAGAATAAAAACAATA
*
507395 TACTTTATAGTTTATAAATAA
66 TACTATATAGTTTATAAATAA
507416 AATTATATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 27 0.37
93 4 0.05
94 33 0.45
95 9 0.12
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (94 bp):
TATATAGTTTATATACACTAATGAACTAGTATAATAATATAATTATATAAAGAATAAAAACAATA
TACTATATAGTTTATAAATAATAGTGAAC
Found at i:507346 original size:77 final size:77
Alignment explanation
Indices: 507148--507322 Score: 323
Period size: 77 Copynumber: 2.3 Consensus size: 77
507138 ATACTAATGA
*
507148 ACTATATAGTTTATATATAATTCATATACACTAATGAACTATATAATATATAATTTATATATACT
1 ACTATATAGTTTATATATAATTGATATACACTAATGAACTATATAATATATAATTTATATATACT
507213 AATGAACAATAT
66 AATGAACAATAT
* *
507225 ACTATATAGTTTATATATAGTTTATATACACTAATGAACTATATAATATATAATTTATATATACT
1 ACTATATAGTTTATATATAATTGATATACACTAATGAACTATATAATATATAATTTATATATACT
507290 AATGAACAATAT
66 AATGAACAATAT
507302 ACTATATAGTTTATATATAAT
1 ACTATATAGTTTATATATAAT
507323 AGTGAACTAT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 95 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.42
Consensus pattern (77 bp):
ACTATATAGTTTATATATAATTGATATACACTAATGAACTATATAATATATAATTTATATATACT
AATGAACAATAT
Found at i:507356 original size:26 final size:26
Alignment explanation
Indices: 507302--507357 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
507292 TGAACAATAT
*
507302 ACTATATAGTTTATATATAATAGTGA
1 ACTATATAGTTTATATATAATAATGA
*
507328 ACTATATAGTTTATATATACTAATGA
1 ACTATATAGTTTATATATAATAATGA
507354 ACTA
1 ACTA
507358 GTTTATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (26 bp):
ACTATATAGTTTATATATAATAATGA
Found at i:507369 original size:26 final size:26
Alignment explanation
Indices: 507302--507370 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
507292 TGAACAATAT
* *
507302 ACTATATAGTTTATATATAATAGTGA
1 ACTATATAGTTAATATATAATAATGA
* *
507328 ACTATATAGTTTATATATACTAATGA
1 ACTATATAGTTAATATATAATAATGA
*
507354 ACTAGTTTA-TTAATATA
1 ACTA-TATAGTTAATATA
507371 ATTATATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 35 0.92
27 3 0.08
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (26 bp):
ACTATATAGTTAATATATAATAATGA
Found at i:507422 original size:46 final size:45
Alignment explanation
Indices: 507356--507514 Score: 187
Period size: 45 Copynumber: 3.5 Consensus size: 45
507346 ACTAATGAAC
*
507356 TAGTTTATTAATATAATTATATAAAGAATAAAAACTATATACTTTA
1 TAGTTTATAAATATAATTATATAAA-AATAAAAACTATATACTTTA
* * *
507402 TAGTTTATAAATAAAATTATATAAATATAGAAACTATATACTTTA
1 TAGTTTATAAATATAATTATATAAAAATAAAAACTATATACTTTA
* * * * *
507447 TAGTTTATAAATATAATTATAT-AAATTATATACTTTATAGTTTA
1 TAGTTTATAAATATAATTATATAAAAATAAAAACTATATACTTTA
* *
507491 TA-TTAATAAATATATAGTATATAA
1 TAGTTTATAAATATA-ATTATATAA
507515 TATAGTTTAT
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
43 11 0.11
44 24 0.24
45 40 0.41
46 23 0.23
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (45 bp):
TAGTTTATAAATATAATTATATAAAAATAAAAACTATATACTTTA
Found at i:507505 original size:37 final size:37
Alignment explanation
Indices: 507417--507506 Score: 121
Period size: 37 Copynumber: 2.4 Consensus size: 37
507407 TATAAATAAA
*
507417 ATTATATAAATATAGAAACTATATACTTTATAGTTTAT
1 ATTA-ATAAATATATAAACTATATACTTTATAGTTTAT
*
507455 A--AATATAATTATATAAATTATATACTTTATAGTTTAT
1 ATTAATA-AA-TATATAAACTATATACTTTATAGTTTAT
507492 ATTAATAAATATATA
1 ATTAATAAATATATA
507507 GTATATAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 33 0.72
38 3 0.07
39 4 0.09
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (37 bp):
ATTAATAAATATATAAACTATATACTTTATAGTTTAT
Found at i:507517 original size:12 final size:11
Alignment explanation
Indices: 507482--507628 Score: 73
Period size: 10 Copynumber: 14.1 Consensus size: 11
507472 TTATATACTT
*
507482 TATAGTTTATA
1 TATAGTATATA
* *
507493 T-TAATAAATA
1 TATAGTATATA
507503 TATAGTATATAA
1 TATAGTATAT-A
*
507515 TATAGTTTATA
1 TATAGTATATA
507526 TATAGT-TCATA
1 TATAGTAT-ATA
* *
507537 TATA-CA-CTA
1 TATAGTATATA
*
507546 CATAGT-T-TA
1 TATAGTATATA
**
507555 TATACAATATA
1 TATAGTATATA
* *
507566 TAAAAT-TATA
1 TATAGTATATA
* *
507576 AATA-TAAACTA
1 TATAGTATA-TA
507587 TATAGTATATA
1 TATAGTATATA
507598 TATA-TATATA
1 TATAGTATATA
507608 TATA-TATATA
1 TATAGTATATA
507618 TATA-TATATA
1 TATAGTATATA
507628 T
1 T
507629 TATAATTTTT
Statistics
Matches: 104, Mismatches: 21, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
9 11 0.11
10 43 0.41
11 37 0.36
12 13 0.12
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (11 bp):
TATAGTATATA
Found at i:507530 original size:11 final size:11
Alignment explanation
Indices: 507482--507540 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
507472 TTATATACTT
507482 TATAGTTTATA
1 TATAGTTTATA
* **
507493 T-TAATAAATA
1 TATAGTTTATA
*
507503 TATAGTATATAA
1 TATAGTTTAT-A
507515 TATAGTTTATA
1 TATAGTTTATA
*
507526 TATAGTTCATA
1 TATAGTTTATA
507537 TATA
1 TATA
507541 CACTACATAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 7 0.18
11 22 0.56
12 10 0.26
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (11 bp):
TATAGTTTATA
Found at i:507597 original size:2 final size:2
Alignment explanation
Indices: 507585--507632 Score: 80
Period size: 2 Copynumber: 24.0 Consensus size: 2
507575 AAATATAAAC
507585 TA TA TA GTA 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
507628 T- TA TA
1 TA TA TA
507633 ATTTTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:512358 original size:14 final size:15
Alignment explanation
Indices: 512339--512375 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
512329 TAATACATAA
512339 TTTATTTTAA-TATT
1 TTTATTTTAATTATT
512353 TTTATTTTAATTATT
1 TTTATTTTAATTATT
*
512368 TATATTTT
1 TTTATTTT
512376 TTAATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTTAATTATT
Found at i:512535 original size:27 final size:26
Alignment explanation
Indices: 512504--512563 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
512494 AATTCGTCTT
512504 AATTTAAAA-TAATTCAATAAATATTTA
1 AATTTAAAATTAATT-AATAAAT-TTTA
*
512531 AATTTAAAATTAATTAATTAATTTTA
1 AATTTAAAATTAATTAATAAATTTTA
*
512557 ATTTTAA
1 AATTTAA
512564 TTCAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 10 0.33
27 15 0.50
28 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
AATTTAAAATTAATTAATAAATTTTA
Found at i:512551 original size:20 final size:21
Alignment explanation
Indices: 512528--512578 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
512518 CAATAAATAT
512528 TTAAATTTAAAATTAATT-AA
1 TTAAATTTAAAATTAATTCAA
* **
512548 TTAATTTTAATTTTAATTCAA
1 TTAAATTTAAAATTAATTCAA
512569 -TAAATTTAAA
1 TTAAATTTAAA
512579 CAACCTTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAAATTTAAAATTAATTCAA
Found at i:520206 original size:30 final size:30
Alignment explanation
Indices: 520172--520259 Score: 140
Period size: 30 Copynumber: 2.9 Consensus size: 30
520162 GCAGACGTAC
*
520172 AAGATTTAGAGATTGAATAGCTCGATGTAT
1 AAGATTTGGAGATTGAATAGCTCGATGTAT
*
520202 AAGATTTGGAGATTCAATAGCTCGATGTAT
1 AAGATTTGGAGATTGAATAGCTCGATGTAT
* *
520232 AAGATTTGGAGGTTGAATAGCTTGATGT
1 AAGATTTGGAGATTGAATAGCTCGATGT
520260 CAAGACAACG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (30 bp):
AAGATTTGGAGATTGAATAGCTCGATGTAT
Found at i:521771 original size:21 final size:21
Alignment explanation
Indices: 521729--521771 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
521719 TTTCTGGGCT
*
521729 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
521750 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
521771 A
1 A
521772 ACGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:522645 original size:103 final size:103
Alignment explanation
Indices: 522317--522637 Score: 563
Period size: 103 Copynumber: 3.1 Consensus size: 103
522307 GTAGAGGGTC
522317 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
522382 TTGATCCTTGGCATATGTATATGATTCTTAAGAAATGA
66 TTGATCATTGTCATATGTATATGATTCTTAAGGAATGA
*
522420 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
522485 TTGATCATTGGT-ATATGTATATGATTCTTAAGGAATGA
66 TTGATCATT-GTCATATGTATATGATTCTTAAGGAATGA
* *
522523 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGAAACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
522588 TTGATCATTGTCATATGTATATGATTCTTAAGGAATGA
66 TTGATCATTGTCATATGTATATGATTCTTAAGGAATGA
*
522626 TATATGGTCCTT
1 TATGTGGTCCTT
522638 ATGGACATTA
Statistics
Matches: 207, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
102 2 0.01
103 204 0.99
104 1 0.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCATTGTCATATGTATATGATTCTTAAGGAATGA
Found at i:522687 original size:23 final size:23
Alignment explanation
Indices: 522654--522716 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
522644 ATTATTATAT
*
522654 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
522677 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
522700 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
522717 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:529630 original size:103 final size:103
Alignment explanation
Indices: 529302--529622 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
529292 GTAGAGGGTC
*
529302 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
529367 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
529405 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
529470 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
529508 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
529573 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
529611 TATATGGTCCTT
1 TATGTGGTCCTT
529623 ATGGACATTA
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:529672 original size:23 final size:23
Alignment explanation
Indices: 529639--529701 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
529629 ATTATTATAT
529639 GGCACTACGGTGCAATTCTACAC
1 GGCACTACGGTGCAATTCTACAC
* **
529662 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACAC
529685 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
529702 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACAC
Found at i:530920 original size:20 final size:20
Alignment explanation
Indices: 530867--530921 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
530857 TAAAAGCTTT
*
530867 TGGAAGAGTGTGGAATCCTC
1 TGGAAGAGTGTGGAATCCTA
530887 TGG-AGATGTGTGGAA-CCTTA
1 TGGAAGA-GTGTGGAATCC-TA
*
530907 TGGAAGAGTATGGAA
1 TGGAAGAGTGTGGAA
530922 GAATACGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.29, C:0.09, G:0.36, T:0.25
Consensus pattern (20 bp):
TGGAAGAGTGTGGAATCCTA
Found at i:534671 original size:31 final size:31
Alignment explanation
Indices: 534636--534722 Score: 111
Period size: 32 Copynumber: 2.8 Consensus size: 31
534626 TTATTAAACC
*
534636 ATCATTAAATTTATCAAACTTTTATAAAGTA
1 ATCATTAAATTTATCAAACTTTTATAAAATA
* *
534667 ATCATTAAATTTTGTCAAACTATTATAAAATA
1 ATCATTAAA-TTTATCAAACTTTTATAAAATA
* * *
534699 ATAATTAAATTGATCAAAATTTTA
1 ATCATTAAATTTATCAAACTTTTA
534723 CATTTATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 20 0.43
32 27 0.57
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (31 bp):
ATCATTAAATTTATCAAACTTTTATAAAATA
Found at i:536834 original size:31 final size:31
Alignment explanation
Indices: 536792--536850 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
536782 AAGAGACACC
* *
536792 AAAATCGTCTACAAT-TGTTCACAATTTTATT
1 AAAATCATCTAC-ATGTGATCACAATTTTATT
536823 AAAATCATCTACATGTGATCACAATTTT
1 AAAATCATCTACATGTGATCACAATTTT
536851 GACATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (31 bp):
AAAATCATCTACATGTGATCACAATTTTATT
Found at i:537089 original size:2 final size:2
Alignment explanation
Indices: 537082--537115 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
537072 ACTATAAAAC
537082 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
537116 AGCTTGAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:550975 original size:29 final size:29
Alignment explanation
Indices: 550928--550993 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
550918 TTCAGTCACA
*
550928 GAGTCAACTCGGGCCGAGTTAA-CTCGTCC
1 GAGTCAACTCGGGCCGAGTCAATCT-GTCC
* * *
550957 GAGTTAACTCGGTCTGAGTCAATCTGTCC
1 GAGTCAACTCGGGCCGAGTCAATCTGTCC
550986 GAGTCAAC
1 GAGTCAAC
550994 CCATTGACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 29 0.94
30 2 0.06
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (29 bp):
GAGTCAACTCGGGCCGAGTCAATCTGTCC
Found at i:550991 original size:14 final size:15
Alignment explanation
Indices: 550928--550993 Score: 73
Period size: 14 Copynumber: 4.5 Consensus size: 15
550918 TTCAGTCACA
*
550928 GAGTCAACTCGGGCC
1 GAGTCAACTCGGTCC
*
550943 GAGTTAACTC-GTCC
1 GAGTCAACTCGGTCC
* *
550957 GAGTTAACTCGGTCT
1 GAGTCAACTCGGTCC
*
550972 GAGTCAA-TCTGTCC
1 GAGTCAACTCGGTCC
550986 GAGTCAAC
1 GAGTCAAC
550994 CCATTGACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
14 25 0.58
15 18 0.42
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (15 bp):
GAGTCAACTCGGTCC
Found at i:558549 original size:19 final size:19
Alignment explanation
Indices: 558527--558567 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
558517 TTATAAAATT
* *
558527 ATTTTAAAATAGTTATCAA
1 ATTTTAAAATAATTATAAA
*
558546 ATTTTAAAGTAATTATAAA
1 ATTTTAAAATAATTATAAA
558565 ATT
1 ATT
558568 ACCATTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (19 bp):
ATTTTAAAATAATTATAAA
Found at i:558784 original size:156 final size:156
Alignment explanation
Indices: 558571--558859 Score: 368
Period size: 156 Copynumber: 1.9 Consensus size: 156
558561 TAAAATTACC
* * *
558571 ATTAAATTTATTGAACTATTATAAAATGATTATTAAAGTTATTAAGCTATTAGAAAAT-AGTCAT
1 ATTAAATTTATTGAACTATTACAAAATGATTATTAAACTTATTAAACTATTAGAAAATGA-TCAT
* * * *
558635 TAAACTTCTC-AAGTGATTACAAAATGGTCATTTAATTTATCGAAGTATCACAAAATGATCATTA
65 TAAACTT-TCAAAATGATTACAAAATGGTCATTAAATTTATCAAAGTATCACAAAATAATCATTA
558699 AATTTCTCAAATAGTTATAAAAATGATA
129 AATTTCTCAAATAGTTATAAAAATGATA
* * * *
558727 ATTAAATTTA-TGAAATTGTTACAAAATGATTATTAAACTTATTAAACTATTATAAAATGATCCT
1 ATTAAATTTATTG-AACTATTACAAAATGATTATTAAACTTATTAAACTATTAGAAAATGATCAT
** * * * * *
558791 TTGACTTTCAAAATGATTAGAAAATGGTCATTAAATTTATTAAATTATTACAAAATAATCGTTAA
65 TAAACTTTCAAAATGATTACAAAATGGTCATTAAATTTATCAAAGTATCACAAAATAATCATTAA
558856 ATTT
130 ATTT
558860 ATTAAATAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
155 4 0.04
156 107 0.96
157 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (156 bp):
ATTAAATTTATTGAACTATTACAAAATGATTATTAAACTTATTAAACTATTAGAAAATGATCATT
AAACTTTCAAAATGATTACAAAATGGTCATTAAATTTATCAAAGTATCACAAAATAATCATTAAA
TTTCTCAAATAGTTATAAAAATGATA
Found at i:558846 original size:31 final size:31
Alignment explanation
Indices: 558501--558866 Score: 197
Period size: 31 Copynumber: 11.8 Consensus size: 31
558491 CAAATGTTAT
* * **
558501 AAAATAATCATTAAATTTATAAAATTATTTT
1 AAAATGATCATTAAATTTATTAAATTATTAC
* * * *
558532 AAAAT-AGTTATCAAA-TT-TTAAAGTAATTAT
1 AAAATGA-TCATTAAATTTATTAAA-TTATTAC
* * * * *
558562 AAAATTACCATTAAATTTATTGAACTATTAT
1 AAAATGATCATTAAATTTATTAAATTATTAC
* * ** *
558593 AAAATGATTATTAAAGTTATTAAGCTATTAG
1 AAAATGATCATTAAATTTATTAAATTATTAC
* * * * *
558624 AAAAT-AGTCATTAAACTTCTCAAGTGATTAC
1 AAAATGA-TCATTAAATTTATTAAATTATTAC
* * ** * *
558655 AAAATGGTCATTTAATTTATCGAAGTATCAC
1 AAAATGATCATTAAATTTATTAAATTATTAC
* * *
558686 AAAATGATCATTAAATTTCTCAAA-TAGTTATA
1 AAAATGATCATTAAATTTATTAAATTA-TTA-C
* * *
558718 AAAATGATAATTAAATTTATGAAATTGTTAC
1 AAAATGATCATTAAATTTATTAAATTATTAC
* * * *
558749 AAAATGATTATTAAACTTATTAAACTATTAT
1 AAAATGATCATTAAATTTATTAAATTATTAC
* * * * *
558780 AAAATGATCCTTTGACTTTCA--AAATGATTAG
1 AAAATGAT-CATTAAATTT-ATTAAATTATTAC
*
558811 AAAATGGTCATTAAATTTATTAAATTATTAC
1 AAAATGATCATTAAATTTATTAAATTATTAC
* *
558842 AAAATAATCGTTAAATTTATTAAAT
1 AAAATGATCATTAAATTTATTAAAT
558867 AAATATTAAA
Statistics
Matches: 253, Mismatches: 68, Indels: 28
0.72 0.19 0.08
Matches are distributed among these distances:
29 5 0.02
30 28 0.11
31 185 0.73
32 33 0.13
33 2 0.01
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (31 bp):
AAAATGATCATTAAATTTATTAAATTATTAC
Found at i:566446 original size:16 final size:16
Alignment explanation
Indices: 566418--566459 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
566408 ACAGAATTAA
*
566418 ATTA-AATAAACTATC
1 ATTAGAATATACTATC
566433 ATTAGAATATACTATC
1 ATTAGAATATACTATC
566449 ATTAGACATAT
1 ATTAGA-ATAT
566460 GAAAATGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTAGAATATACTATC
Found at i:567598 original size:35 final size:34
Alignment explanation
Indices: 567512--567599 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
567502 AATTCACGTT
***
567512 TAGCCCAATTCACGTTTTATGTGCATTTTAGCCA
1 TAGCCCAATTCACGTTTTATGTGCATGAAAGCCA
* * *
567546 TAGCCTAATTCACGTTTTATGTGCACTGAAATCTGA
1 TAGCCCAATTCACGTTTTATGTGCA-TGAAAGC-CA
567582 -AGCCCAATTCACGTTTTA
1 TAGCCCAATTCACGTTTTA
567600 ATTTGATGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
34 24 0.53
35 20 0.44
36 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (34 bp):
TAGCCCAATTCACGTTTTATGTGCATGAAAGCCA
Found at i:567783 original size:39 final size:39
Alignment explanation
Indices: 567740--567869 Score: 104
Period size: 39 Copynumber: 3.1 Consensus size: 39
567730 ATATATATAA
567740 ATAAGCCATAAAACGTTTATTATACTACAATAATTAATC
1 ATAAGCCATAAAACGTTTATTATACTACAATAATTAATC
* * * *
567779 ATAAG--AAAAACTACCATTTATAATTAATACCATCAAT-ATATATATAA
1 ATAAGCCATAAA--A-C-GTT-T-ATT-ATACTA-CAATAAT-TA-AT-C
567826 ATAAGCCATAAAACGTTTATTATACTACAATAATTAATC
1 ATAAGCCATAAAACGTTTATTATACTACAATAATTAATC
567865 ATAAG
1 ATAAG
567870 AAAAACTATA
Statistics
Matches: 69, Mismatches: 8, Indels: 28
0.66 0.08 0.27
Matches are distributed among these distances:
37 4 0.06
39 11 0.16
40 3 0.04
41 8 0.12
42 8 0.12
43 6 0.09
44 8 0.12
45 8 0.12
46 3 0.04
47 6 0.09
49 4 0.06
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (39 bp):
ATAAGCCATAAAACGTTTATTATACTACAATAATTAATC
Found at i:567818 original size:86 final size:86
Alignment explanation
Indices: 567704--567877 Score: 348
Period size: 86 Copynumber: 2.0 Consensus size: 86
567694 TATATGTATT
567704 TACCATTTATAATTAATACCATCAATATATATATAAATAAGCCATAAAACGTTTATTATACTACA
1 TACCATTTATAATTAATACCATCAATATATATATAAATAAGCCATAAAACGTTTATTATACTACA
567769 ATAATTAATCATAAGAAAAAC
66 ATAATTAATCATAAGAAAAAC
567790 TACCATTTATAATTAATACCATCAATATATATATAAATAAGCCATAAAACGTTTATTATACTACA
1 TACCATTTATAATTAATACCATCAATATATATATAAATAAGCCATAAAACGTTTATTATACTACA
567855 ATAATTAATCATAAGAAAAAC
66 ATAATTAATCATAAGAAAAAC
567876 TA
1 TA
567878 TATACATGTA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (86 bp):
TACCATTTATAATTAATACCATCAATATATATATAAATAAGCCATAAAACGTTTATTATACTACA
ATAATTAATCATAAGAAAAAC
Found at i:568615 original size:14 final size:14
Alignment explanation
Indices: 568596--568652 Score: 80
Period size: 14 Copynumber: 4.1 Consensus size: 14
568586 TGTTCATTTA
568596 TGTTCGTTTATGTT
1 TGTTCGTTTATGTT
568610 TGTTCGTTTACT-TT
1 TGTTCGTTTA-TGTT
*
568624 CGTTCGTTTATGTT
1 TGTTCGTTTATGTT
*
568638 TGTTCATTTATGTT
1 TGTTCGTTTATGTT
568652 T
1 T
568653 ACCCCAATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 1 0.03
14 36 0.95
15 1 0.03
ACGTcount: A:0.09, C:0.11, G:0.18, T:0.63
Consensus pattern (14 bp):
TGTTCGTTTATGTT
Found at i:568885 original size:13 final size:12
Alignment explanation
Indices: 568841--568908 Score: 56
Period size: 13 Copynumber: 5.8 Consensus size: 12
568831 TGTGTTTTAT
568841 GTTCATTTA-TA
1 GTTCATTTATTA
568852 -TTCATTTATTA
1 GTTCATTTATTA
568863 CGTT-AGTTTATTA
1 -GTTCA-TTTATTA
568876 CGTTCATTTA-T-
1 -GTTCATTTATTA
568887 GTTCATTTATTA
1 GTTCATTTATTA
*
568899 TGTTCGTTTA
1 -GTTCATTTA
568909 CATTCGTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
10 17 0.35
11 3 0.06
12 2 0.04
13 25 0.52
14 1 0.02
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.57
Consensus pattern (12 bp):
GTTCATTTATTA
Found at i:568918 original size:23 final size:23
Alignment explanation
Indices: 568868--568920 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
568858 TATTACGTTA
**
568868 GTTTATTACGTTCATTTATGTTC
1 GTTTATTACGTTCATTTACATTC
* * *
568891 ATTTATTATGTTCGTTTACATTC
1 GTTTATTACGTTCATTTACATTC
568914 GTTTATT
1 GTTTATT
568921 GTATTCATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.58
Consensus pattern (23 bp):
GTTTATTACGTTCATTTACATTC
Found at i:568928 original size:36 final size:34
Alignment explanation
Indices: 568841--568932 Score: 87
Period size: 36 Copynumber: 2.5 Consensus size: 34
568831 TGTGTTTTAT
568841 GTTCATTTATATTCATTTATTACGTTAGTTTATTAC
1 GTTCA-TT-TATTCATTTATTACGTTAGTTTATTAC
* *
568877 GTTCATTTATGTTCATTTATTATGTTCGTTTACATT-C
1 GTTCATTTA--TTCATTTATTACGTTAGTTT--ATTAC
*
568914 GTTTATTGTATTCATTTAT
1 GTTCATT-TATTCATTTAT
568933 GGTTTTTTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
34 2 0.04
35 2 0.04
36 32 0.67
37 7 0.15
38 5 0.10
ACGTcount: A:0.22, C:0.11, G:0.10, T:0.58
Consensus pattern (34 bp):
GTTCATTTATTCATTTATTACGTTAGTTTATTAC
Found at i:568931 original size:23 final size:23
Alignment explanation
Indices: 568869--568931 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
568859 ATTACGTTAG
** **
568869 TTTATTACGTTCATTTATGTTCA
1 TTTATTATATTCATTTACATTCA
* * *
568892 TTTATTATGTTCGTTTACATTCG
1 TTTATTATATTCATTTACATTCA
*
568915 TTTATTGTATTCATTTA
1 TTTATTATATTCATTTA
568932 TGGTTTTTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.21, C:0.11, G:0.10, T:0.59
Consensus pattern (23 bp):
TTTATTATATTCATTTACATTCA
Found at i:581443 original size:2 final size:2
Alignment explanation
Indices: 581436--581480 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
581426 AATAATAATT
581436 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
581478 TA T
1 TA T
581481 TCATCTTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:588539 original size:30 final size:30
Alignment explanation
Indices: 588480--588568 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
588470 CCCGAATGAC
* * *
588480 CTATCCAGAGGTCACACAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
588509 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
588539 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
588569 ACTGTCCATA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
29 18 0.33
30 37 0.67
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:588604 original size:31 final size:31
Alignment explanation
Indices: 588564--588664 Score: 132
Period size: 31 Copynumber: 3.2 Consensus size: 31
588554 AAAGATCCTC
*
588564 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
588595 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
*
588626 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
588658 GGTAAAC
1 GGTAAAC
588665 CCTCGACTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 33 0.56
32 26 0.44
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:588985 original size:21 final size:21
Alignment explanation
Indices: 588961--589000 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
588951 CATATGTCTG
*
588961 TCTTATCTCATATCCTATAAT
1 TCTTAGCTCATATCCTATAAT
* *
588982 TCTTAGCTTATATCTTATA
1 TCTTAGCTCATATCCTATA
589001 TCACATGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.20, G:0.03, T:0.50
Consensus pattern (21 bp):
TCTTAGCTCATATCCTATAAT
Found at i:589497 original size:2 final size:2
Alignment explanation
Indices: 589490--589514 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
589480 ATACAATTCC
589490 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 T
589515 CTAACTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:589600 original size:29 final size:29
Alignment explanation
Indices: 589546--589601 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
589536 TTTCTCTTGT
* *
589546 TATCATATAAATCATTGCCATATAACACA
1 TATCATATAAATCATTACCACATAACACA
*
589575 TATCATATAAATTCA-TACCACCTAACA
1 TATCATATAAA-TCATTACCACATAACA
589602 TGTAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (29 bp):
TATCATATAAATCATTACCACATAACACA
Found at i:590014 original size:21 final size:21
Alignment explanation
Indices: 589990--590034 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
589980 TGTTGTTCGT
* *
589990 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
590011 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
590032 TTG
1 TTG
590035 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:593382 original size:30 final size:30
Alignment explanation
Indices: 593323--593411 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
593313 CCCGAAGGAC
* * *
593323 CTATCCAGAGGTCACACAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
593352 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
593382 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
593412 ACTGTCCATA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
29 18 0.33
30 37 0.67
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:593447 original size:31 final size:31
Alignment explanation
Indices: 593407--593507 Score: 132
Period size: 31 Copynumber: 3.2 Consensus size: 31
593397 AAAGATCCTC
*
593407 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
593438 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
*
593469 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
593501 GGTAAAC
1 GGTAAAC
593508 CCTCGACTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 33 0.56
32 26 0.44
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:594341 original size:2 final size:2
Alignment explanation
Indices: 594334--594358 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
594324 ATACAATTCC
594334 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 T
594359 CTAACTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:594857 original size:21 final size:21
Alignment explanation
Indices: 594833--594877 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
594823 TGTTGTTCGT
* *
594833 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
594854 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
594875 TTG
1 TTG
594878 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:601357 original size:31 final size:31
Alignment explanation
Indices: 601311--601377 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
601301 GAGTTGTTCT
*
601311 TTAAATTTTAAATAAAATACTAATTTGACCA
1 TTAAAATTTAAATAAAATACTAATTTGACCA
* * * *
601342 TTAAAATTTAGATAAAATATTAATTTTACCT
1 TTAAAATTTAAATAAAATACTAATTTGACCA
601373 TTAAA
1 TTAAA
601378 CTTTTGGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (31 bp):
TTAAAATTTAAATAAAATACTAATTTGACCA
Found at i:602648 original size:19 final size:19
Alignment explanation
Indices: 602598--602649 Score: 79
Period size: 18 Copynumber: 2.8 Consensus size: 19
602588 ACTTTGAGAT
* *
602598 TTTTTTATAAATAAATTAA
1 TTTTTTATTATTAAATTAA
602617 TTTTTTATT-TTAAATTAA
1 TTTTTTATTATTAAATTAA
602635 TTTTTTATTATTAAA
1 TTTTTTATTATTAAA
602650 ATATTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTTATTATTAAATTAA
Found at i:603772 original size:23 final size:23
Alignment explanation
Indices: 603735--603781 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
603725 TGTTATTTTC
*
603735 GGTAATTTTACATTACCAATAGT
1 GGTAATCTTACATTACCAATAGT
* *
603758 GGTAATCTTATATTACTAATAGT
1 GGTAATCTTACATTACCAATAGT
603781 G
1 G
603782 AATTTTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (23 bp):
GGTAATCTTACATTACCAATAGT
Found at i:605026 original size:21 final size:21
Alignment explanation
Indices: 605010--605098 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
605000 AGACCTTTCA
605010 ATGAAAGGACTTAACCTTTTG
1 ATGAAAGGACTTAACCTTTTG
* * **
605031 ATTAAAAGACTTCTCCTTTTG
1 ATGAAAGGACTTAACCTTTTG
* *
605052 ATGAAAGGGCTTAACCTTTTC
1 ATGAAAGGACTTAACCTTTTG
* * * *
605073 ATAAAAGGATTTAATCTTTTC
1 ATGAAAGGACTTAACCTTTTG
605094 ATGAA
1 ATGAA
605099 GAGAATTGTT
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (21 bp):
ATGAAAGGACTTAACCTTTTG
Found at i:605092 original size:42 final size:42
Alignment explanation
Indices: 605005--605098 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
604995 GGTTAAGACC
* *
605005 TTTCAATGAAAGGACTTAACCTTTTGATTAAAAGACTTCTCCT
1 TTTC-ATGAAAGGACTTAACCTTTTCATTAAAAGACTTATCCT
* * *
605048 TTTGATGAAAGGGCTTAACCTTTTCA-TAAAAGGATTTAAT-CT
1 TTTCATGAAAGGACTTAACCTTTTCATTAAAA-GACTT-ATCCT
605090 TTTCATGAA
1 TTTCATGAA
605099 GAGAATTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 5 0.12
42 34 0.79
43 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (42 bp):
TTTCATGAAAGGACTTAACCTTTTCATTAAAAGACTTATCCT
Found at i:608349 original size:21 final size:21
Alignment explanation
Indices: 608283--608365 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
608273 CATTTCGATG
608283 AAAA-GACTTAACCTTTTTATT
1 AAAATGACTTAACCTTTTTA-T
**
608304 AAAA-GACTTCTCCTTTTGT-T
1 AAAATGACTTAACCTTTT-TAT
* *
608324 GAAATGGCTTAACCTTTTTAT
1 AAAATGACTTAACCTTTTTAT
* **
608345 AAAATGATTTAATTTTTTTAT
1 AAAATGACTTAACCTTTTTAT
608366 GAAGAGAATT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
20 5 0.10
21 42 0.88
22 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (21 bp):
AAAATGACTTAACCTTTTTAT
Found at i:609872 original size:82 final size:84
Alignment explanation
Indices: 609747--609902 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 84
609737 TTAATGGGCG
* * *
609747 GAGTGATTAAAAAAATTAATGTATAAAGTTTAATTATTGAATTGAAAACTTTT-AAAATTAGTGA
1 GAGTGATTAAAAAAATCAATATATAAAGTTTAATTATTAAATTGAAAACTTTTGAAAATTAGTGA
609811 GTAAAATATTTTAACAGCA
66 GTAAAATATTTTAACAGCA
* * **
609830 GAGTGATT-AAAAAATCAATATATAAAGTTTAATTATTAAATTGCAATCTTTTGAAGTTTAGTGA
1 GAGTGATTAAAAAAATCAATATATAAAGTTTAATTATTAAATTGAAAACTTTTGAAAATTAGTGA
609894 GTAAAATAT
66 GTAAAATAT
609903 GAGAGAGTGT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
82 39 0.60
83 26 0.40
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (84 bp):
GAGTGATTAAAAAAATCAATATATAAAGTTTAATTATTAAATTGAAAACTTTTGAAAATTAGTGA
GTAAAATATTTTAACAGCA
Found at i:614704 original size:16 final size:17
Alignment explanation
Indices: 614680--614713 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
614670 ATTTCACAAA
*
614680 GAAATAGTAGA-ATTTT
1 GAAAGAGTAGACATTTT
614696 GAAAGAGTAGACATTTT
1 GAAAGAGTAGACATTTT
614713 G
1 G
614714 TAGTTTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (17 bp):
GAAAGAGTAGACATTTT
Found at i:628161 original size:63 final size:64
Alignment explanation
Indices: 628040--628162 Score: 151
Period size: 63 Copynumber: 1.9 Consensus size: 64
628030 ATGCACATGA
* ** * * *
628040 AGTGCATCGATGCACTCTTTTAAAATACAAACATTGAATGCCATCGATGCATTGATGCATAAAG
1 AGTGCATCGATGCACCCCATTAAAATACAAACATCGAATGCAATCGATGCATCGATGCATAAAG
**
628104 AGTGCATCGATGCACCCCATT-AAATACAAACATCGAATAG-AATTTATGCATCGATGCAT
1 AGTGCATCGATGCACCCCATTAAAATACAAACATCGAAT-GCAATCGATGCATCGATGCAT
628163 GGTGTAGTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
63 31 0.62
64 19 0.38
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (64 bp):
AGTGCATCGATGCACCCCATTAAAATACAAACATCGAATGCAATCGATGCATCGATGCATAAAG
Found at i:628558 original size:30 final size:30
Alignment explanation
Indices: 628524--628612 Score: 133
Period size: 30 Copynumber: 3.0 Consensus size: 30
628514 TTATATGAGT
628524 TATGTGATAAAGGTATGGAAATGATATGTC
1 TATGTGATAAAGGTATGGAAATGATATGTC
*
628554 TATGTGATAAAGGTATGGAAATGATATGCC
1 TATGTGATAAAGGTATGGAAATGATATGTC
* * * *
628584 AATGTGACAAAGGTATGAAAATAATATGT
1 TATGTGATAAAGGTATGGAAATGATATGT
628613 TTACGTAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.30
Consensus pattern (30 bp):
TATGTGATAAAGGTATGGAAATGATATGTC
Found at i:628869 original size:23 final size:23
Alignment explanation
Indices: 628835--628902 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
628825 ATTATTATAT
628835 GGCACTAC-GGTGCAATTCTACGC
1 GGCACT-CTGGTGCAATTCTACGC
* **
628858 GGCACTCTGGTGTAATTCTACAT
1 GGCACTCTGGTGCAATTCTACGC
*
628881 GGCACT-TCGGTGCAATTATACG
1 GGCACTCT-GGTGCAATTCTACG
628903 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (23 bp):
GGCACTCTGGTGCAATTCTACGC
Done.