Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008702.1 Hibiscus syriacus cultivar Beakdansim tig00111741_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: 3201804
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 14
Found at i:654380 original size:13 final size:13
Alignment explanation
Indices: 654362--654387 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
654352 TATATTAGAT
654362 GTTAGAATATTAA
1 GTTAGAATATTAA
654375 GTTAGAATATTAA
1 GTTAGAATATTAA
654388 TTCTATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
GTTAGAATATTAA
Found at i:654411 original size:14 final size:14
Alignment explanation
Indices: 654394--654424 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
654384 TTAATTCTAT
654394 TATATATTCTAATA
1 TATATATTCTAATA
654408 TATATATTCTAATA
1 TATATATTCTAATA
654422 TAT
1 TAT
654425 TTTCTAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATATTCTAATA
Found at i:654416 original size:26 final size:24
Alignment explanation
Indices: 654380--654431 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
654370 ATTAAGTTAG
*
654380 AATATTAATTCTATTATATATTCT
1 AATATTAATTCTAATATATATTCT
*
654404 AATATATATATTCTAATATATTTTCT
1 AATAT-TA-ATTCTAATATATATTCT
654430 AA
1 AA
654432 AAGGATCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 2 0.08
26 17 0.71
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (24 bp):
AATATTAATTCTAATATATATTCT
Found at i:654431 original size:12 final size:12
Alignment explanation
Indices: 654388--654431 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
654378 AGAATATTAA
* *
654388 TTCTATTATATA
1 TTCTAATATATT
654400 TTCTAATATATAT
1 TTCTAATATAT-T
654413 ATTCTAATATATT
1 -TTCTAATATATT
654426 TTCTAA
1 TTCTAA
654432 AAGGATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 16 0.57
13 1 0.04
14 11 0.39
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (12 bp):
TTCTAATATATT
Found at i:655340 original size:17 final size:17
Alignment explanation
Indices: 655318--655351 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
655308 TCTTTTACCT
655318 TTTTTTTACTTAACTTA
1 TTTTTTTACTTAACTTA
655335 TTTTTTTACTTAACTTA
1 TTTTTTTACTTAACTTA
655352 AACTTAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTTACTTAACTTA
Found at i:656160 original size:7 final size:7
Alignment explanation
Indices: 656148--656188 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
656138 ATAGAACCCC
656148 TATATTA
1 TATATTA
656155 TATATTA
1 TATATTA
656162 TATATTA
1 TATATTA
656169 TATATTA
1 TATATTA
656176 TAT-TTA
1 TATATTA
656182 TTATATT
1 -TATATT
656189 CTAGGAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 3 0.09
7 27 0.84
8 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:656244 original size:16 final size:16
Alignment explanation
Indices: 656223--656257 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
656213 TGCATGATAC
656223 TTACACCAAGAAACAT
1 TTACACCAAGAAACAT
656239 TTACACCAAGAAACAT
1 TTACACCAAGAAACAT
656255 TTA
1 TTA
656258 TATGGTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.23
Consensus pattern (16 bp):
TTACACCAAGAAACAT
Found at i:657550 original size:9 final size:9
Alignment explanation
Indices: 657536--657594 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
657526 GCTGCTGGAA
657536 ACCGGTTTG
1 ACCGGTTTG
*
657545 ACCGGTTCG
1 ACCGGTTTG
*
657554 AACCGTTTTG
1 -ACCGGTTTG
*
657564 ACCGGTCTG
1 ACCGGTTTG
657573 AACCGGTTTG
1 -ACCGGTTTG
*
657583 ACCGGTCTG
1 ACCGGTTTG
657592 ACC
1 ACC
657595 CGACCCAACC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 26 0.63
10 15 0.37
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:657563 original size:19 final size:20
Alignment explanation
Indices: 657535--657592 Score: 86
Period size: 19 Copynumber: 3.0 Consensus size: 20
657525 CGCTGCTGGA
657535 AACCGGTTTGACCGGTTC-G
1 AACCGGTTTGACCGGTTCTG
*
657554 AACCGTTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
657573 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
657592 A
1 A
657593 CCCGACCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 2 0.06
19 34 0.94
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (20 bp):
AACCGGTTTGACCGGTTCTG
Found at i:657605 original size:5 final size:5
Alignment explanation
Indices: 657591--657646 Score: 67
Period size: 5 Copynumber: 10.8 Consensus size: 5
657581 TGACCGGTCT
* * *
657591 GACCC GACCC AACCC GACCC GACCC AACCC GACCGTT GACCC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC--C GACCC GACCC GACCC
657643 GACC
1 GACC
657647 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
5 39 0.91
7 4 0.09
ACGTcount: A:0.23, C:0.55, G:0.18, T:0.04
Consensus pattern (5 bp):
GACCC
Found at i:657611 original size:15 final size:15
Alignment explanation
Indices: 657591--657646 Score: 76
Period size: 15 Copynumber: 3.6 Consensus size: 15
657581 TGACCGGTCT
657591 GACCCGACCCAACCC
1 GACCCGACCCAACCC
657606 GACCCGACCCAACCC
1 GACCCGACCCAACCC
* *
657621 GACCGTTGACCCGACCC
1 GACC--CGACCCAACCC
657638 GACCCGACC
1 GACCCGACC
657647 GTTGACCGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 23 0.64
17 13 0.36
ACGTcount: A:0.23, C:0.55, G:0.18, T:0.04
Consensus pattern (15 bp):
GACCCGACCCAACCC
Found at i:657634 original size:22 final size:22
Alignment explanation
Indices: 657606--657653 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
657596 GACCCAACCC
657606 GACCCGACCCAACCCGACCGTT
1 GACCCGACCCAACCCGACCGTT
*
657628 GACCCGACCCGACCCGACCGTT
1 GACCCGACCCAACCCGACCGTT
657650 GACC
1 GACC
657654 GTTGACTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.50, G:0.21, T:0.08
Consensus pattern (22 bp):
GACCCGACCCAACCCGACCGTT
Found at i:664912 original size:9 final size:9
Alignment explanation
Indices: 664898--665015 Score: 101
Period size: 9 Copynumber: 12.3 Consensus size: 9
664888 GCTGCTGGAA
664898 ACCGGTTTG
1 ACCGGTTTG
*
664907 ACCGGTTTTCA
1 ACCGG-TTT-G
*
664918 ACCAGTTTTG
1 ACC-GGTTTG
*
664928 ACCTGTTTG
1 ACCGGTTTG
*
664937 ACTGGTTTCG
1 ACCGGTTT-G
664947 ACCGGTTTTG
1 ACCGG-TTTG
*
664957 ACCGGTTCG
1 ACCGGTTTG
*
664966 AACCGTTTTG
1 -ACCGGTTTG
*
664976 ACCGGTCTG
1 ACCGGTTTG
664985 AACCGGTTTG
1 -ACCGGTTTG
664995 ACCGGTTTG
1 ACCGGTTTG
*
665004 ACCGGTCTG
1 ACCGGTTTG
665013 ACC
1 ACC
665016 TGACCCAACC
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
9 45 0.52
10 32 0.37
11 9 0.10
12 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.33
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:664955 original size:29 final size:30
Alignment explanation
Indices: 664902--664959 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
664892 CTGGAAACCG
664902 GTTTGACCGGTTTTCAACCAGTTTTGACCT
1 GTTTGACCGGTTTTCAACCAGTTTTGACCT
* * *
664932 GTTTGACTGG-TTTCGACCGGTTTTGACC
1 GTTTGACCGGTTTTCAACCAGTTTTGACC
664960 GGTTCGAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (30 bp):
GTTTGACCGGTTTTCAACCAGTTTTGACCT
Found at i:664965 original size:19 final size:20
Alignment explanation
Indices: 664933--665001 Score: 83
Period size: 19 Copynumber: 3.5 Consensus size: 20
664923 TTTTGACCTG
*
664933 TTTGACTGGTTTCG-ACCGGT
1 TTTGACCGG-TTCGAACCGGT
664953 TTTGACCGGTTCGAACC-GT
1 TTTGACCGGTTCGAACCGGT
664972 TTTGACCGG-TCTGAACCGG-
1 TTTGACCGGTTC-GAACCGGT
664991 TTTGACCGGTT
1 TTTGACCGGTT
665002 TGACCGGTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 2 0.05
19 29 0.66
20 13 0.30
ACGTcount: A:0.13, C:0.23, G:0.29, T:0.35
Consensus pattern (20 bp):
TTTGACCGGTTCGAACCGGT
Found at i:667579 original size:2 final size:2
Alignment explanation
Indices: 667572--667608 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
667562 GGGTTTGAAG
* *
667572 TA TA TA TA TA TA TA TG TA TG 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
667609 TAGGATCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:670569 original size:17 final size:15
Alignment explanation
Indices: 670556--670584 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
670546 ATGATTACAT
670556 ATATATTATTATTAA
1 ATATATTATTATTAA
670571 ATATATTATT-TTAA
1 ATATATTATTATTAA
670585 TTATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATTATTATTAA
Found at i:670596 original size:24 final size:25
Alignment explanation
Indices: 670560--670607 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
670550 TTACATATAT
*
670560 ATTATTATTAAATA-TATTATTTTA
1 ATTATTATTAAATACTAATATTTTA
670584 ATTATT-TTAAAATACTAATATTTT
1 ATTATTATT-AAATACTAATATTTT
670608 GTATATAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 11 0.52
25 8 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTATTATTAAATACTAATATTTTA
Found at i:678893 original size:19 final size:20
Alignment explanation
Indices: 678871--678919 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
678861 AAAATTAATT
*
678871 TTTCTCATTTTTA-ATTTTG
1 TTTCTCAATTTTATATTTTG
*
678890 TTTCTTAATTTTATATTTT-
1 TTTCTCAATTTTATATTTTG
*
678909 TTTTTCAATTT
1 TTTCTCAATTT
678920 AATCTTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTCTCAATTTTATATTTTG
Found at i:679292 original size:4 final size:4
Alignment explanation
Indices: 679285--679311 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
679275 ACTATATATA
679285 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
679312 ACATGATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:684358 original size:35 final size:35
Alignment explanation
Indices: 684312--684450 Score: 172
Period size: 35 Copynumber: 3.9 Consensus size: 35
684302 TGAATAAGAA
684312 GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
* * *
684347 GAACGGAAGGAAGCATCGACATTTTCGATTCAAGAA
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAG-T
* *
684383 GAACAAAAAGAAGCATCGACACTTTCGATTCAAGT
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
* * * *
684418 GAATGGAAGGAAGCAT-AAGCACTTTCAATTCAA
1 GAACGAAAGGAAGCATCGA-CACTTTCGATTCAA
684451 TGGTTCATTT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
34 1 0.01
35 57 0.65
36 30 0.34
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (35 bp):
GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
Found at i:684449 original size:71 final size:71
Alignment explanation
Indices: 684307--684450 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
684297 GAAGGTGAAT
* * * *
684307 AAGAAGAACGAAAGGAAGCATCGACACTTTCGATTCAAGTGAACGGAAGGAAGCATCGACATTTT
1 AAGAAGAACAAAAAGAAGCATCGACACTTTCGATTCAAGTGAACGGAAGGAAGCATAGACACTTT
*
684372 CGATTC
66 CAATTC
*
684378 AAGAAGAACAAAAAGAAGCATCGACACTTTCGATTCAAGTGAATGGAAGGAAGCATA-AGCACTT
1 AAGAAGAACAAAAAGAAGCATCGACACTTTCGATTCAAGTGAACGGAAGGAAGCATAGA-CACTT
684442 TCAATTC
65 TCAATTC
684449 AA
1 AA
684451 TGGTTCATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 65 0.98
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (71 bp):
AAGAAGAACAAAAAGAAGCATCGACACTTTCGATTCAAGTGAACGGAAGGAAGCATAGACACTTT
CAATTC
Found at i:686092 original size:14 final size:14
Alignment explanation
Indices: 686069--686110 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
686059 TTACCTTATA
*
686069 ATTTTT-TAAAGTT
1 ATTTTTATAAAATT
686082 ATTTTTATAAAATT
1 ATTTTTATAAAATT
*
686096 GTATTTTATAAAATT
1 AT-TTTTATAAAATT
686111 TTGTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 6 0.24
14 7 0.28
15 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (14 bp):
ATTTTTATAAAATT
Found at i:686497 original size:24 final size:22
Alignment explanation
Indices: 686445--686501 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
686435 TTTGTCCGGG
686445 TATT-TTATT-TTATATTTTAT
1 TATTATTATTATTATATTTTAT
*
686465 TAATAATTATTATTATATGTTTAT
1 T-ATTATTATTATTATAT-TTTAT
686489 CTATTATTATTAT
1 -TATTATTATTAT
686502 AATTTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 2 0.07
22 5 0.17
23 6 0.20
24 15 0.50
25 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTATTATTATTATATTTTAT
Found at i:687432 original size:2 final size:2
Alignment explanation
Indices: 687425--687481 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
687415 CTTTGTTTCG
687425 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
687467 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
687482 TAACCGAAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:688750 original size:19 final size:19
Alignment explanation
Indices: 688726--688774 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
688716 ACCAACTAAA
* *
688726 TCGCAATGCGAAATATAAT
1 TCGCAACGCGAAAGATAAT
**
688745 TCGCAACGCGATCGATAAT
1 TCGCAACGCGAAAGATAAT
688764 TCGCAACGCGA
1 TCGCAACGCGA
688775 TCTCCGGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (19 bp):
TCGCAACGCGAAAGATAAT
Found at i:688775 original size:19 final size:19
Alignment explanation
Indices: 688740--688776 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
688730 AATGCGAAAT
688740 ATAATTCGCAACGCGATCG
1 ATAATTCGCAACGCGATCG
688759 ATAATTCGCAACGCGATC
1 ATAATTCGCAACGCGATC
688777 TCCGGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (19 bp):
ATAATTCGCAACGCGATCG
Found at i:688854 original size:21 final size:21
Alignment explanation
Indices: 688830--688895 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
688820 GACTATCGCA
688830 TTGCGATTTATTCCAAGTTCG
1 TTGCGATTTATTCCAAGTTCG
* *
688851 TTGCGA--TAGTCGAAGTTCGCG
1 TTGCGATTTATTCCAAGTT--CG
*
688872 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAGTTCG
688893 TTG
1 TTG
688896 TGATAGTCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 9 0.25
21 19 0.53
23 8 0.22
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (21 bp):
TTGCGATTTATTCCAAGTTCG
Found at i:688934 original size:21 final size:21
Alignment explanation
Indices: 688908--688982 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
688898 ATAGTCCAAA
* *
688908 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTGGACT
* *
688929 ATCGCAA--CGAATTTGGAAT
1 ATCGCAATGCGAACTTGGACT
688948 AAATCGCAATGCGAACTTGGACT
1 --ATCGCAATGCGAACTTGGACT
688971 ATCGCAATGCGA
1 ATCGCAATGCGA
688983 TAGTCGAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 9 0.20
21 26 0.58
23 10 0.22
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (21 bp):
ATCGCAATGCGAACTTGGACT
Found at i:688996 original size:21 final size:21
Alignment explanation
Indices: 688972--689080 Score: 146
Period size: 21 Copynumber: 5.2 Consensus size: 21
688962 ACTTGGACTA
*
688972 TCGCAATGCGATAGTCGAAAT
1 TCGCAATGCGATAGTCGAAGT
*
688993 TCGCAATGCGATAGTCGAAAT
1 TCGCAATGCGATAGTCGAAGT
* *
689014 TTGCAATGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCGAAGT
** *
689035 TCGCGTTGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCGAAGT
*
689056 TCGCATTGCGATAGTCGAAGT
1 TCGCAATGCGATAGTCGAAGT
689077 TCGC
1 TCGC
689081 GTTGCGAATC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 80 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (21 bp):
TCGCAATGCGATAGTCGAAGT
Found at i:693860 original size:17 final size:17
Alignment explanation
Indices: 693816--693859 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
693806 AGGATTTGGA
693816 ATTAGAGTTTTCAAAGT
1 ATTAGAGTTTTCAAAGT
693833 ATTAGAGTTTTCAAAGT
1 ATTAGAGTTTTCAAAGT
*
693850 -TTTGAGTTTT
1 ATTAGAGTTTT
693860 TTTTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (17 bp):
ATTAGAGTTTTCAAAGT
Found at i:694919 original size:33 final size:33
Alignment explanation
Indices: 694872--694935 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
694862 TATTTGCATT
*
694872 AAAAAAATTAGCTACAACGATAAGAAAATGACA
1 AAAAAAATTAGCTACAACAATAAGAAAATGACA
*
694905 AAAAAAAGTT-GCTACAACAATAAGCAAATGA
1 AAAAAAA-TTAGCTACAACAATAAGAAAATGA
694936 AAAGAGAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (33 bp):
AAAAAAATTAGCTACAACAATAAGAAAATGACA
Found at i:697812 original size:65 final size:64
Alignment explanation
Indices: 697657--697836 Score: 236
Period size: 65 Copynumber: 2.8 Consensus size: 64
697647 TTGGACTCTC
* * * * * * * *
697657 AATGCATCGGTGCATTA-ATAGTGCATCGATTCATAAAATGCATTTGATGTTTTGAAATAGCCTG
1 AATGCATCGATGCATGATAT-GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAACCCTG
* * *
697721 AGTGCATCGATGCATGGTCTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCTG
1 AATGCATCGATGCATGATATGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAAACCCTG
697786 AATGCATCGATGCATGATATGTGCATCGATGCATCAAATGCATTCGATGTT
1 AATGCATCGATGCATGATATGTGCATCGATGCATCAAATGCATTCGATGTT
697837 CAATTAATTC
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 44 0.44
65 56 0.56
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (64 bp):
AATGCATCGATGCATGATATGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAACCCTG
Found at i:697876 original size:65 final size:64
Alignment explanation
Indices: 697677--697878 Score: 214
Period size: 65 Copynumber: 3.1 Consensus size: 64
697667 TGCATTAATA
* * *
697677 GTGCATCGATTCATAAAATGCATTTGATGTTT--TGAAATAGCC-TGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAT-AAA-A-CCATGAGTGCATCGATGCATGGT
*
697739 CT
63 AT
* * *
697741 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCTGAATGCATCGATGCATGATAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAACCATGAGTGCATCGATGCATGGTAT
* ** * *
697806 GTGCATCGATGCATCAAATGCATTCGATG-TTCAATTAATTCATTAGTGCATCGATGCATGGTTT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAACCATGAGTGCATCGATGCATGGTAT
697870 GATGCATCG
1 G-TGCATCG
697879 GTGTATGCCT
Statistics
Matches: 118, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
63 3 0.03
64 52 0.44
65 59 0.50
66 3 0.03
67 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAACCATGAGTGCATCGATGCATGGTAT
Found at i:699508 original size:15 final size:15
Alignment explanation
Indices: 699488--699517 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
699478 ATTTTCATAT
699488 TCATTATATAACCCA
1 TCATTATATAACCCA
*
699503 TCATTATCTAACCCA
1 TCATTATATAACCCA
699518 AAACGTGAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
TCATTATATAACCCA
Found at i:706115 original size:65 final size:64
Alignment explanation
Indices: 705977--706136 Score: 221
Period size: 65 Copynumber: 2.5 Consensus size: 64
705967 TGCACTAAGA
* * * * * * * *
705977 GTGCATCGATGTATAAAATGCATTCGATGTTTTGAAATAGCCTGATTGCATCGATGCATGGTCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAACCCTGAATGCATCAATGCATGGTAT
*
706041 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCTGAATGTATCAATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAAACCCTGAATGCATCAATGCATGGTAT
*
706106 GTGCATCGATACATCAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
706137 CAATTAATTC
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
64 32 0.38
65 53 0.62
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAACCCTGAATGCATCAATGCATGGTAT
Found at i:709256 original size:21 final size:22
Alignment explanation
Indices: 709234--709276 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
709224 TATTATATTA
709234 TTAAATTAAC-AAAATTTAATAT
1 TTAAA-TAACTAAAATTTAATAT
*
709256 TTCAATAACTAAAATTTAATA
1 TTAAATAACTAAAATTTAATA
709277 AAACGATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAATAACTAAAATTTAATAT
Found at i:709592 original size:2 final size:2
Alignment explanation
Indices: 709585--709618 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
709575 ACGTGTTGAT
709585 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
709619 ATGTATGCTG
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:713401 original size:20 final size:21
Alignment explanation
Indices: 713362--713417 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
713352 AGGCCTGTCC
*
713362 ATATTATTTTATTTTAAATATA
1 ATATT-TTTTATTTTAAATAAA
713384 ATATTTTTTATTTT-AATAAA
1 ATATTTTTTATTTTAAATAAA
713404 AGTA-TTTTTATTTT
1 A-TATTTTTTATTTT
713418 GTTATATGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.50
21 11 0.34
22 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATATTTTTTATTTTAAATAAA
Found at i:713533 original size:59 final size:59
Alignment explanation
Indices: 713436--713557 Score: 208
Period size: 59 Copynumber: 2.1 Consensus size: 59
713426 TTACCCTGTA
* *
713436 GTCGTTGATACTCAAATCCGAAATCTTTATGGATAACAACCATCCCTTTAATCATTGAG
1 GTCGCTGATACTCAAATCCGAAATCTTTATGGATAACAACAATCCCTTTAATCATTGAG
* *
713495 GTCGCTGATACTCAAATCCGAAATCTTTATGGATAACAATAATCTCTTTAATCATTGAG
1 GTCGCTGATACTCAAATCCGAAATCTTTATGGATAACAACAATCCCTTTAATCATTGAG
713554 GTCG
1 GTCG
713558 TTTATTTCAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (59 bp):
GTCGCTGATACTCAAATCCGAAATCTTTATGGATAACAACAATCCCTTTAATCATTGAG
Found at i:713726 original size:14 final size:14
Alignment explanation
Indices: 713707--713755 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
713697 ATTGGTTTTC
713707 TGGAAATTGAATTA
1 TGGAAATTGAATTA
*
713721 TGGAAAATGAATTA
1 TGGAAATTGAATTA
*
713735 CTGGAAATTGAATTC
1 -TGGAAATTGAATTA
713750 TGGAAA
1 TGGAAA
713756 ATATTACATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.31
Consensus pattern (14 bp):
TGGAAATTGAATTA
Found at i:713728 original size:15 final size:15
Alignment explanation
Indices: 713710--713757 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
713700 GGTTTTCTGG
713710 AAATTGAATTATGGA
1 AAATTGAATTATGGA
713725 AAA-TGAATTACTGG-
1 AAATTGAATTA-TGGA
*
713739 AAATTGAATTCTGGA
1 AAATTGAATTATGGA
713754 AAAT
1 AAAT
713758 ATTACATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (15 bp):
AAATTGAATTATGGA
Found at i:717634 original size:22 final size:22
Alignment explanation
Indices: 717602--717672 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
717592 CCACATTCTA
717602 CAAATATTTAC-CAAACTAACACC
1 CAAAT-TTTACACAAA-TAACACC
717625 CAAATTTTACACAAATAACACC
1 CAAATTTTACACAAATAACACC
* *
717647 CAAATTTTACACATATAGCACC
1 CAAATTTTACACAAATAACACC
717669 CAAA
1 CAAA
717673 CAGAAATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
22 36 0.80
23 9 0.20
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (22 bp):
CAAATTTTACACAAATAACACC
Found at i:718743 original size:27 final size:27
Alignment explanation
Indices: 718658--718743 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
718648 ATTATTAGAT
*
718658 TATTATATTAATATTAAATAAATAAATAA
1 TATTAT-TT-ATATTAAATTAATAAATAA
* * *
718687 TATTAGTCATTATT-AA-TAATTTAATAA
1 TATTATTTA-TATTAAATTAA-TAAATAA
*
718714 TATTATTTATATTAAATTAATAAATCA
1 TATTATTTATATTAAATTAATAAATAA
718741 TAT
1 TAT
718744 AAATTTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
26 6 0.13
27 26 0.58
28 8 0.18
29 5 0.11
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (27 bp):
TATTATTTATATTAAATTAATAAATAA
Found at i:718773 original size:21 final size:22
Alignment explanation
Indices: 718729--718776 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
718719 TTTATATTAA
718729 ATTAATAAATCATATAAATTTT
1 ATTAATAAATCATATAAATTTT
* * *
718751 ATTAATAATTTAT-TAATTTTT
1 ATTAATAAATCATATAAATTTT
718772 ATTAA
1 ATTAA
718777 AATAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTAATAAATCATATAAATTTT
Found at i:718846 original size:22 final size:23
Alignment explanation
Indices: 718821--718898 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 23
718811 ATTGATTTTT
718821 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
718843 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
* * * *
718866 TAATAT-ATTTTAAATATTTTAA
1 TATTATAATATTAAAAATATTAA
*
718888 TAAT-TAATATT
1 TATTATAATATT
718899 TTGATTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 1 0.02
22 36 0.80
23 8 0.18
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:719152 original size:42 final size:42
Alignment explanation
Indices: 719105--719191 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
719095 ACGAAACATT
* *
719105 GGAAAACATTTTCCGGAAAATGAATTACGTGAAACAAACAAG
1 GGAAAACATTTTCCAGAAAATGAAATACGTGAAACAAACAAG
* * *
719147 GGAAAACATTTTCCAGAAAATGAAATATGTGAAACGAACACG
1 GGAAAACATTTTCCAGAAAATGAAATACGTGAAACAAACAAG
719189 GGA
1 GGA
719192 TCTCGGGGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (42 bp):
GGAAAACATTTTCCAGAAAATGAAATACGTGAAACAAACAAG
Found at i:720731 original size:3 final size:3
Alignment explanation
Indices: 720718--720793 Score: 143
Period size: 3 Copynumber: 25.0 Consensus size: 3
720708 TTAACCTGGT
720718 TAA TCAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
720764 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
720794 ACCGGCTGAT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 69 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:729857 original size:11 final size:11
Alignment explanation
Indices: 729841--729867 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
729831 ACCAAACTAC
729841 CAATGGCCATA
1 CAATGGCCATA
729852 CAATGGCCATA
1 CAATGGCCATA
729863 CAATG
1 CAATG
729868 AACGTAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (11 bp):
CAATGGCCATA
Found at i:730741 original size:37 final size:37
Alignment explanation
Indices: 730697--730801 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
730687 TATTTTCGTC
*
730697 CTACTAGGATTCAAACTCATAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
730734 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
730771 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
730802 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:731339 original size:24 final size:24
Alignment explanation
Indices: 731312--731426 Score: 88
Period size: 24 Copynumber: 5.1 Consensus size: 24
731302 TTCTTTGCAT
*
731312 TTTATTTTTATTATTACTATTATA
1 TTTATTATTATTATTACTATTATA
*
731336 TTTATTATTATTTTTACTATTATA
1 TTTATTATTATTATTACTATTATA
** *
731360 TTT-TCCTT-TTATT-CTACT-TA
1 TTTATTATTATTATTACTATTATA
731380 TTTA-TATTATATATGTA-TATT-T-
1 TTTATTATTAT-TAT-TACTATTATA
*
731402 TTTA-TATT-TTATTATTATTATA
1 TTTATTATTATTATTACTATTATA
731424 TTT
1 TTT
731427 TTTTACTTTC
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
19 2 0.03
20 14 0.19
21 7 0.09
22 18 0.24
23 8 0.11
24 25 0.34
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (24 bp):
TTTATTATTATTATTACTATTATA
Found at i:731430 original size:27 final size:28
Alignment explanation
Indices: 731378--731429 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
731368 TTATTCTACT
731378 TATTTATATTATATATGTATATTTTTTA
1 TATTTATATTATATATGTATATTTTTTA
731406 TATTT-TATTAT-TAT-TATATTTTTT
1 TATTTATATTATATATGTATATTTTTT
731430 TACTTTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.42
26 3 0.12
27 6 0.25
28 5 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TATTTATATTATATATGTATATTTTTTA
Found at i:731755 original size:24 final size:22
Alignment explanation
Indices: 731708--731755 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
731698 TGTTTATTTG
*
731708 TTTTATTTATTTTCTTTTTCTT
1 TTTTATTTATTTTATTTTTCTT
*
731730 TTTTATATATATTTTATTATT-TT
1 TTTTAT-T-TATTTTATTTTTCTT
731753 TTT
1 TTT
731756 ACTTACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 6 0.27
23 6 0.27
24 10 0.45
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTATTTATTTTATTTTTCTT
Found at i:736187 original size:16 final size:16
Alignment explanation
Indices: 736168--736211 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
736158 CAAAAAGGGC
*
736168 AAAAACAAAAAAGAAG
1 AAAAACAAAAAAAAAG
736184 -AAAACAAAAAAAAAAG
1 AAAAAC-AAAAAAAAAG
736200 AAAGAACAAAAA
1 AAA-AACAAAAA
736212 TCAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 5 0.21
16 9 0.38
17 7 0.29
18 3 0.12
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAAAAAG
Found at i:736197 original size:20 final size:20
Alignment explanation
Indices: 736167--736224 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
736157 ACAAAAAGGG
736167 CAAAAACAAAAAAGAAGAAAA
1 CAAAAACAAAAAAGAA-AAAA
*
736188 C-AAAA-AAAAAAGAAAGAA
1 CAAAAACAAAAAAGAAAAAA
736206 CAAAAATC-AAAAAGAAAAA
1 CAAAAA-CAAAAAAGAAAAA
736225 GGGACAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 14 0.44
21 1 0.03
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.02
Consensus pattern (20 bp):
CAAAAACAAAAAAGAAAAAA
Found at i:736203 original size:23 final size:25
Alignment explanation
Indices: 736168--736225 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
736158 CAAAAAGGGC
* *
736168 AAAAACAAA-AAAGAA-GAAAA-CA
1 AAAAAAAAAGAAAGAACAAAAATCA
736190 AAAAAAAAAGAAAGAACAAAAATCA
1 AAAAAAAAAGAAAGAACAAAAATCA
736215 AAAAGAAAAAG
1 AAAA-AAAAAG
736226 GGACAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 8 0.27
23 6 0.20
24 4 0.13
25 6 0.20
26 6 0.20
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAGAAAGAACAAAAATCA
Found at i:736855 original size:22 final size:22
Alignment explanation
Indices: 736827--736879 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
736817 GCTACCCCAT
736827 CAAACCTTTGAGCATAAAATGC
1 CAAACCTTTGAGCATAAAATGC
*
736849 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATAAAATGC
736871 CAAACCTTT
1 CAAACCTTT
736880 AACCAAACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATAAAATGC
Found at i:737905 original size:106 final size:106
Alignment explanation
Indices: 737694--739274 Score: 2201
Period size: 106 Copynumber: 15.0 Consensus size: 106
737684 ATATCGTGCC
* * * * * * * *
737694 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGACAAC-AATAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
737758 AATTTCGGAGCCAATTTCAACTACACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
737799 ACTCCAGACAACACAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
737864 AATTTTAGAGCCAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
737905 ACTCCAGATAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTT-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCC
*
737969 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
738011 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
738076 AATTTCAGAGACAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
738117 ACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
738182 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
738223 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
738288 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
738329 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
738394 AATTTCAGAGCCAATTTCAACTTCATAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
738435 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
738500 AATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
738541 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
738606 AATTTCAGAGCCAATTTCAACTCCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
738647 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
738712 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
738753 ACTCCAAACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
738818 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
738859 ACTCAAGACAACGCAAGTTCAACTTCACAACGAAGGGAGCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
738924 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
738965 AC-CCAAGACAACACAAGCTCAACTTCACGATGAAAGGG-CGGCTGATTGTCAAC-AA-AATTT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACG-AAGGGACCGCTGGTTGTCAACAAACAATTTC
* *
739025 -C-A-TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
739065 ACTCAAGACAACACAAGCTCAACTTCACGACGAAAGGG-CGGCTGATTGTCAAC-AA-AATTT--
1 ACTCCAGACAACGCAAGTTCAACTTCACGACG-AAGGGACCGCTGGTTGTCAACAAACAATTTCC
* *
739125 C-A-TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
739165 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAATAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCC
** * * *
739229 CGGTTCCAGAGCTAATTTCAACTTCAC-GACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
739271 ACTC
1 ACTC
739275 GGAACAATGC
Statistics
Matches: 1352, Mismatches: 109, Indels: 29
0.91 0.07 0.02
Matches are distributed among these distances:
99 6 0.00
100 171 0.13
101 4 0.00
102 6 0.00
104 5 0.00
105 51 0.04
106 1101 0.81
107 8 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:740066 original size:37 final size:37
Alignment explanation
Indices: 739972--740076 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
739962 CATTTTCGTC
* *
739972 CTACTAGGATTCAAACTCATAAAAATAAGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
740009 TTTCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
740046 CTACTATGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
740077 CCACAAGAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:740673 original size:9 final size:9
Alignment explanation
Indices: 740645--740805 Score: 77
Period size: 9 Copynumber: 17.2 Consensus size: 9
740635 TCTTTGCATT
740645 TTATTTTTA
1 TTATTTTTA
**
740654 TTATTACTA
1 TTATTTTTA
740663 TTATTTTTA
1 TTATTTTTA
740672 TTATTTTTA
1 TTATTTTTA
* *
740681 CTA-TTATA
1 TTATTTTTA
740689 TT-TCCTTTTA
1 TTAT--TTTTA
740699 TTCTACTTATTTA
1 -T-TA-TT-TTTA
*
740712 -TATTATATA
1 TTATT-TTTA
740721 TGTATATTTT-
1 T-TAT-TTTTA
740731 TTATATTTTA
1 TTAT-TTTTA
*
740741 TTATTATTA
1 TTATTTTTA
740750 -TATTTTT-
1 TTATTTTTA
*
740757 TTACTTTCTA
1 TTA-TTTTTA
740767 TT-TTTTTA
1 TTATTTTTA
740775 TTATTCTTGTA
1 TTATT-TT-TA
740786 TTATTTTTA
1 TTATTTTTA
740795 -TATTATTTA
1 TTATT-TTTA
740804 TT
1 TT
740806 TTGTTATATA
Statistics
Matches: 118, Mismatches: 14, Indels: 39
0.69 0.08 0.23
Matches are distributed among these distances:
8 24 0.20
9 55 0.47
10 18 0.15
11 13 0.11
12 3 0.03
13 4 0.03
14 1 0.01
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.69
Consensus pattern (9 bp):
TTATTTTTA
Found at i:740752 original size:16 final size:16
Alignment explanation
Indices: 740731--740779 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
740721 TGTATATTTT
*
740731 TTATATTTTATTATTA
1 TTATATTTTTTTATTA
*
740747 TTATATTTTTTTACT-
1 TTATATTTTTTTATTA
*
740762 TTCTATTTTTTTATTA
1 TTATATTTTTTTATTA
740778 TT
1 TT
740780 CTTGTATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATATTTTTTTATTA
Found at i:740802 original size:11 final size:11
Alignment explanation
Indices: 740739--740802 Score: 58
Period size: 11 Copynumber: 5.7 Consensus size: 11
740729 TTTTATATTT
*
740739 TATTATTATTA
1 TATTATTTTTA
740750 TATT-TTTTTA
1 TATTATTTTTA
* *
740760 CTTTCTATTTTTT
1 -TAT-TATTTTTA
* *
740773 TATTATTCTTG
1 TATTATTTTTA
740784 TATTATTTTTA
1 TATTATTTTTA
740795 TATTATTT
1 TATTATTT
740803 ATTTTGTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
10 5 0.12
11 29 0.69
12 3 0.07
13 5 0.12
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:741027 original size:22 final size:21
Alignment explanation
Indices: 741001--741073 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
740991 TCGTACTTTG
741001 TATTTATTTTGTTTATTTGTTT
1 TATTTATTTT-TTTATTTGTTT
*
741023 TATTTATTTTCTTT-TTCTTTTT
1 TATTTATTTT-TTTATT-TGTTT
*
741045 TATATATATTTTATTATTTGTTT
1 TAT-T-TATTTTTTTATTTGTTT
*
741068 TTTTTA
1 TATTTA
741074 CTTACTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 4 0.10
22 21 0.50
23 9 0.21
24 8 0.19
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.77
Consensus pattern (21 bp):
TATTTATTTTTTTATTTGTTT
Found at i:741056 original size:24 final size:23
Alignment explanation
Indices: 741020--741070 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
741010 TGTTTATTTG
*
741020 TTTTATTTATTTTCTT-TTTCTT
1 TTTTATTTATTTTATTATTTCTT
*
741042 TTTTATATATATTTTATTATTTGTT
1 TTTTAT-T-TATTTTATTATTTCTT
741067 TTTT
1 TTTT
741071 TTACTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 8 0.33
25 9 0.38
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTATTTATTTTATTATTTCTT
Found at i:741130 original size:40 final size:38
Alignment explanation
Indices: 741069--741143 Score: 89
Period size: 40 Copynumber: 1.9 Consensus size: 38
741059 TATTTGTTTT
*
741069 TTTTACTTACTATTTTATCTTTGCTTTCTTCATTTTATCA
1 TTTTACTTAATATTTTATCTTTGC-TT-TTCATTTTATCA
* *
741109 TTTTACTTAAT-TTGTTTTCTTTTCTTTTCATTTTA
1 TTTTACTTAATATT-TTATCTTTGCTTTTCATTTTA
741144 ATTTAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 9 0.29
39 4 0.13
40 18 0.58
ACGTcount: A:0.16, C:0.15, G:0.03, T:0.67
Consensus pattern (38 bp):
TTTTACTTAATATTTTATCTTTGCTTTTCATTTTATCA
Found at i:742315 original size:43 final size:42
Alignment explanation
Indices: 742250--742357 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 42
742240 TTTATTTTAT
* *
742250 AATG-TTA-AAATATATT-CTTTAATAGTAAAAAATGTAACA
1 AATGATTATAAATATATTATTTTAATAGTAAAAAATATAACA
* * ** *
742289 AATTATTATAAAGTATATTATTTTAATCGTTTAAAATATAATA
1 AATGATTATAAA-TATATTATTTTAATAGTAAAAAATATAACA
*
742332 AATGATTATAGATATATTATTATTAA
1 AATGATTATAAATATATTATT-TTAA
742358 ATATATTATT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
39 3 0.05
40 3 0.05
41 3 0.05
42 15 0.27
43 31 0.56
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (42 bp):
AATGATTATAAATATATTATTTTAATAGTAAAAAATATAACA
Found at i:759505 original size:17 final size:18
Alignment explanation
Indices: 759472--759505 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
759462 TCTATTTTGT
*
759472 CTTATTATTTAATTCCAA
1 CTTATCATTTAATTCCAA
759490 CTTATCATTT-ATTCCA
1 CTTATCATTTAATTCCA
759506 GACCTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTATCATTTAATTCCAA
Found at i:760878 original size:22 final size:23
Alignment explanation
Indices: 760846--760894 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
760836 CCACATTCTA
760846 CAAATATTTAC-CAAACTAACACC
1 CAAATATTTACACAAA-TAACACC
*
760869 CAAAT-TTTACACAAATAGCACC
1 CAAATATTTACACAAATAACACC
760891 CAAA
1 CAAA
760895 CATAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (23 bp):
CAAATATTTACACAAATAACACC
Found at i:765301 original size:17 final size:18
Alignment explanation
Indices: 765268--765302 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
765258 TCCATTCTGT
*
765268 CTTATTATTTAATTCCAG
1 CTTATCATTTAATTCCAG
765286 CTTATCATTT-ATTCCAG
1 CTTATCATTTAATTCCAG
765303 ACCTTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.49
Consensus pattern (18 bp):
CTTATCATTTAATTCCAG
Found at i:771356 original size:18 final size:18
Alignment explanation
Indices: 771333--771368 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
771323 TCGAATAGTC
771333 TTTTTTTTTGCTTTTGTT
1 TTTTTTTTTGCTTTTGTT
771351 TTTTTTTTTGCTTTTGTT
1 TTTTTTTTTGCTTTTGTT
771369 CTTGAATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTGCTTTTGTT
Found at i:791748 original size:39 final size:39
Alignment explanation
Indices: 791693--791855 Score: 202
Period size: 39 Copynumber: 4.2 Consensus size: 39
791683 TCGCTTTCTA
* * * *
791693 CAAGCTCCTTGGCTTTGTGCTCAGGGTAAATCCTTATTG
1 CAAGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACTG
*
791732 CAAGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACCG
1 CAAGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACTG
* * * *
791771 CATGCTCATCGGCTTTGTGCTCAGGGTAAGTCATTACTG
1 CAAGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACTG
* *
791810 CAAGCTCCTC-AGCTTTTTGCTCAAGGTAAGTCCTTACTG
1 CAAGCTCCTCGA-CTTTGTGCTCAGGGTAAGTCCTTACTG
*
791849 CAGGCTC
1 CAAGCTC
791856 ACAAGATAAG
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (39 bp):
CAAGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACTG
Found at i:791832 original size:78 final size:78
Alignment explanation
Indices: 791703--791856 Score: 229
Period size: 78 Copynumber: 2.0 Consensus size: 78
791693 CAAGCTCCTT
* * *
791703 GGCTTTGTGCTCAGGGTAAATCCTTATTGCAAGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTA
1 GGCTTTGTGCTCAGGGTAAATCATTACTGCAAGCTCCTCGACTTTGTGCTCAAGGTAAGTCCTTA
*
791768 CCGCATGCTCATC
66 CCGCAGGCTCATC
* *
791781 GGCTTTGTGCTCAGGGTAAGTCATTACTGCAAGCTCCTC-AGCTTTTTGCTCAAGGTAAGTCCTT
1 GGCTTTGTGCTCAGGGTAAATCATTACTGCAAGCTCCTCGA-CTTTGTGCTCAAGGTAAGTCCTT
*
791845 ACTGCAGGCTCA
65 ACCGCAGGCTCA
791857 CAAGATAAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
77 1 0.01
78 67 0.99
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (78 bp):
GGCTTTGTGCTCAGGGTAAATCATTACTGCAAGCTCCTCGACTTTGTGCTCAAGGTAAGTCCTTA
CCGCAGGCTCATC
Found at i:797704 original size:39 final size:39
Alignment explanation
Indices: 797650--797829 Score: 220
Period size: 39 Copynumber: 4.6 Consensus size: 39
797640 AAACTCCTTA
* *
797650 GCTTTGTCCTTAGGGTAAGTCCTTACTGCAGGCTCCTCG
1 GCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCG
* *
797689 TCTTTGTGCTCAGGGTAAGCCCTTACTGCAGGCTCCTCG
1 GCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCG
* * * *
797728 GCTTTGTGCTAAGAGTAAGTCCTTACTGCA-ACTTCTTCG
1 GCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGC-TCCTCG
* * * *
797767 GCTTTGTGCTGA-GGTAAGTCCTTATTGTAGGCTCCTCT
1 GCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCG
*
797805 GCTTTGTGCACAGGGTAAGTCCTTA
1 GCTTTGTGCTCAGGGTAAGTCCTTA
797830 TTGGGTGTAC
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 29 0.24
39 90 0.76
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (39 bp):
GCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCG
Found at i:797812 original size:77 final size:78
Alignment explanation
Indices: 797650--797829 Score: 222
Period size: 77 Copynumber: 2.3 Consensus size: 78
797640 AAACTCCTTA
* * * *
797650 GCTTTGTCCTTAGGGTAAGTCCTTACTGCAGGCTCCTCGTCTTTGTGCTCAGGGTAAGCCCTTAC
1 GCTTTGTGCTAAGGGTAAGTCCTTACTGCAGACTCCTCGGCTTTGTGCTCAGGGTAAGCCCTTAC
797715 TGCAGGCTCCTCG
66 TGCAGGCTCCTCG
* * * *
797728 GCTTTGTGCTAAGAGTAAGTCCTTACTGCA-ACTTCTTCGGCTTTGTGCTGA-GGTAAGTCCTTA
1 GCTTTGTGCTAAGGGTAAGTCCTTACTGCAGAC-TCCTCGGCTTTGTGCTCAGGGTAAGCCCTTA
* * *
797791 TTGTAGGCTCCTCT
65 CTGCAGGCTCCTCG
797805 GCTTTGTGC-ACAGGGTAAGTCCTTA
1 GCTTTGTGCTA-AGGGTAAGTCCTTA
797830 TTGGGTGTAC
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
76 1 0.01
77 45 0.51
78 42 0.48
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (78 bp):
GCTTTGTGCTAAGGGTAAGTCCTTACTGCAGACTCCTCGGCTTTGTGCTCAGGGTAAGCCCTTAC
TGCAGGCTCCTCG
Found at i:799074 original size:55 final size:55
Alignment explanation
Indices: 798934--799191 Score: 249
Period size: 54 Copynumber: 4.7 Consensus size: 55
798924 TGATTTTTTT
* * * * ** *
798934 AGAAACTAAGCTTAATTTTCAGGGGTTTCTTGAT-AT-TTTAAAATGAGTTTTTAA
1 AGAAGCTAAGCCTGATTTTCAGGGGTTTCTTAATGATATTTCCAATGA-ATTTTAA
* * **
798988 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTAATGAT-TTTCCAATGAATTTTAA
1 AGAAGCTAAGCCTGATTTTCAGGGGTTTCTTAATGATATTTCCAATGAATTTTAA
* *
799042 AGAAGCTGAGCCTGATTTTCAGGAGTTTTCTT-ATGATTATTTCCAATGAATTTTAA
1 AGAAGCTAAGCCTGATTTTCAGG-GGTTTCTTAATGA-TATTTCCAATGAATTTTAA
** *
799098 AGAAGCTAAGTTTGATTTTCA-GGTTTTCTTAATGATTATTTCCAAAT-AATTTTAAA
1 AGAAGCTAAGCCTGATTTTCAGGGGTTTCTTAATGA-TATTTCC-AATGAATTTT-AA
* * *
799154 AAAAGCTAAGCCTAATTTTTAGGGGTTTCTTAATGATA
1 AGAAGCTAAGCCTGATTTTCAGGGGTTTCTTAATGATA
799192 ATTGTACACA
Statistics
Matches: 172, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
54 65 0.38
55 36 0.21
56 58 0.34
57 13 0.08
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (55 bp):
AGAAGCTAAGCCTGATTTTCAGGGGTTTCTTAATGATATTTCCAATGAATTTTAA
Found at i:799102 original size:56 final size:56
Alignment explanation
Indices: 798982--799190 Score: 250
Period size: 56 Copynumber: 3.8 Consensus size: 56
798972 TAAAATGAGT
* * *
798982 TTTTAAAGAAACTAAGTCTGATTTTCAGAAG-TTTCTTAATGA-T-TTTCCAATGAA
1 TTTTAAAGAAGCTAAGCCTGATTTTCAG-GGTTTTCTTAATGATTATTTCCAATGAA
*
799036 TTTTAAAGAAGCTGAGCCTGATTTTCAGGAGTTTTCTT-ATGATTATTTCCAATGAA
1 TTTTAAAGAAGCTAAGCCTGATTTTCAGG-GTTTTCTTAATGATTATTTCCAATGAA
**
799092 TTTTAAAGAAGCTAAGTTTGATTTTCA-GGTTTTCTTAATGATTATTTCCAAAT-AA
1 TTTTAAAGAAGCTAAGCCTGATTTTCAGGGTTTTCTTAATGATTATTTCC-AATGAA
* * * *
799147 TTTTAAAAAAAGCTAAGCCTAATTTTTAGGGGTTTCTTAATGAT
1 TTTT-AAAGAAGCTAAGCCTGATTTTCAGGGTTTTCTTAATGAT
799191 AATTGTACAC
Statistics
Matches: 134, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
54 38 0.28
55 26 0.19
56 56 0.42
57 14 0.10
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (56 bp):
TTTTAAAGAAGCTAAGCCTGATTTTCAGGGTTTTCTTAATGATTATTTCCAATGAA
Found at i:800039 original size:240 final size:239
Alignment explanation
Indices: 799235--800040 Score: 1068
Period size: 233 Copynumber: 3.4 Consensus size: 239
799225 ATTTTCATGG
* * * *
799235 GTTTCTTTA-TTAGAAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATATTTAAATTCTT
1 GTTTC-TTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTT
* * *
799299 TGGGTCATC---AAGTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGTCCTTCGGG
65 CGGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGG
* *
799361 CAGGATGTTTTCACATGATTTTTGAAAAACGAGAAAGTGATTTCCAAAGTTTCTCATTTAAATAT
130 CAGGATGTTTTCACATGATTTTTG-AAAATGAGAAAG-AATTTCCAAAGTTTCTCATTTAAATAT
* * *
799426 TTTCT-AAAAACT-AATATTTCTGAAAAGTAAGAAAATGATTTCCATA
193 TTTCTGAAAGACTGAAT-TTTCTTAAAAGTAAGAAAATGATTTCCAAA
* * * * * * * * *
799472 GTTTCATAC-TAGTAAATCCTTTGGGCCATCAGAAAGTCTTTCAAGCCTTATTTTTAAATCATTT
1 GTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTTC
* *
799536 GGGTCATCTATAAGTCTTTTCAA-CAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTGAGG
66 GGGTCATCTATAAGTC-TTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGG
*
799600 CAGGATGTTTTCACATGATTTTTGAAAATGAGAAAGAGATTTCCAAAGTTTCTCATTTAAATCTT
130 CAGGATGTTTTCACATGATTTTTGAAAATGAGAAAGA-ATTTCCAAAGTTTCTCATTTAAATATT
* *
799665 TTTTGAAAGACTG-A-CTT-TT----GTAAGAAAATGATTTCCAAA
194 TTCTGAAAGACTGAATTTTCTTAAAAGTAAGAAAATGATTTCCAAA
*
799704 GTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTC
1 GTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTTC
* * *
799769 GGGTCATCTATAAGTCTTTTAACCAAGATGATAAGTACTTCGGGCCATCCATAAGACCTTCAGGC
66 GGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGC
* *
799834 ATGATGTTTTCACATGATTTTTGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAGTATTT
131 AGGATGTTTTCACATGATTTTTGAAAATGAGAAAG-AATTTCCAAAGTTTCTCATTTAAATATTT
*
799899 TCTGAAAGACTGAATTTTCTTAAAAGTAAGAAAAAGATTTCCAAA
195 TCTGAAAGACTGAATTTTCTTAAAAGTAAGAAAATGATTTCCAAA
* ** *
799944 GTTTCTTACTTAGTAAGTCATTCGGAACATCAGTAAGTCTTTCTAA-CATGCTGTTTAAATCCTT
1 GTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTC-AAGCATGATGTTTAAATCCTT
* * *
800008 CGGATCATCTATAAGTCTTTCGAGTAAGATGAT
65 CGGGTCATCTATAAGTCTTTCAAGCAAGATGAT
800041 TGTTGAAAAC
Statistics
Matches: 497, Mismatches: 53, Indels: 35
0.85 0.09 0.06
Matches are distributed among these distances:
232 32 0.06
233 172 0.35
234 2 0.00
235 2 0.00
236 58 0.12
237 7 0.01
238 40 0.08
239 73 0.15
240 110 0.22
241 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (239 bp):
GTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTTC
GGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGC
AGGATGTTTTCACATGATTTTTGAAAATGAGAAAGAATTTCCAAAGTTTCTCATTTAAATATTTT
CTGAAAGACTGAATTTTCTTAAAAGTAAGAAAATGATTTCCAAA
Found at i:800488 original size:64 final size:65
Alignment explanation
Indices: 800334--800490 Score: 244
Period size: 65 Copynumber: 2.4 Consensus size: 65
800324 TTAATTGAAT
* * * *
800334 ATCGAATGCATTTGATGCATCGATGGACAGACCATGCATCGATGCACTCGGGGTTTTATGAAAAC
1 ATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCGAGATTTTATCAAAAC
*
800399 ATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTC-AGATTTTTTCAAAAC
1 ATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCGAGATTTTATCAAAAC
* *
800463 ATCGAATGCATTTTATGGATCGATGCAC
1 ATCGAATGCATTTGATGCATCGATGCAC
800491 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (65 bp):
ATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCGAGATTTTATCAAAAC
Found at i:806337 original size:24 final size:23
Alignment explanation
Indices: 806305--806385 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 23
806295 GCACTTAACA
806305 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CCTTTGAAT
* *
806329 GTGCATCGATTCATCATGTTG-A-
1 GTGCATCGATGCATCCT-TTGAAT
*
806351 -TGCACCGATGCATGCC-TTGAAT
1 GTGCATCGATGCAT-CCTTTGAAT
806373 GTGCATCGATGCA
1 GTGCATCGATGCA
806386 CAGGGTCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.07
21 12 0.26
22 1 0.02
23 14 0.30
24 16 0.35
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTTGAAT
Found at i:809207 original size:45 final size:46
Alignment explanation
Indices: 809121--809225 Score: 149
Period size: 45 Copynumber: 2.3 Consensus size: 46
809111 TGCACAGACC
* * * * *
809121 ATGCATCGATGCACTTGGGGTTTTATGAAAACATTGAATGCATTTG
1 ATGCATCGATGCACGTAGGCTTTTATCAAAACATCGAATGCATTTG
*
809167 ATGCATCGATGCACGTAGGCTTTT-TCAAAACATCGAATGCATTTT
1 ATGCATCGATGCACGTAGGCTTTTATCAAAACATCGAATGCATTTG
809212 ATGCATCGATGCAC
1 ATGCATCGATGCAC
809226 TCTTAGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 32 0.60
46 21 0.40
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (46 bp):
ATGCATCGATGCACGTAGGCTTTTATCAAAACATCGAATGCATTTG
Found at i:811499 original size:109 final size:109
Alignment explanation
Indices: 811275--811525 Score: 262
Period size: 109 Copynumber: 2.3 Consensus size: 109
811265 CACGTAGTTC
* * * * * *
811275 CCCT-TAAGTTTAGTTTGTTTTTGCATTTTGGTCACATGTAGGGTCCAAAATTGTTATTTTCTCC
1 CCCTCTAAATTTAGCTTGTTTTTACATTTTGGTCACATGTAGGGACCAAAACTATTATTTTCTCC
* * * * *
811339 TTTCCTTGCGTGTTTTTTAATTTTTGGGTTATTCACATTTTAGT
66 TTTCCTTGCATGTTATATAATTTTTGGGTAATTCACATATTAGT
*
811383 CCCTCTAAATTTAGCTTGTTTTTACATTTTGGTCACCTG-AGGGGACCAAAACTATTATTTTC-C
1 CCCTCTAAATTTAGCTTGTTTTTACATTTTGGTCACATGTA-GGGACCAAAACTATTATTTTCTC
* * *
811446 CTTTTCTTTGCATGTTATATATATTTTT-GGTAAATTTAC-TATTGGT
65 C-TTTCCTTGCATGTTATATA-ATTTTTGGGT-AATTCACATATTAGT
* * *
811492 CCTTCTAAGTTTAGCTTG-TTTTACACTTTGGTCA
1 CCCTCTAAATTTAGCTTGTTTTTACATTTTGGTCA
811526 TGTGTAGTAA
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
108 22 0.18
109 87 0.73
110 11 0.09
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (109 bp):
CCCTCTAAATTTAGCTTGTTTTTACATTTTGGTCACATGTAGGGACCAAAACTATTATTTTCTCC
TTTCCTTGCATGTTATATAATTTTTGGGTAATTCACATATTAGT
Found at i:812033 original size:2 final size:2
Alignment explanation
Indices: 812026--812097 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
812016 GCATGTGTTA
812026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
812068 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
812098 TGCTTTGATC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:815257 original size:2 final size:2
Alignment explanation
Indices: 815250--815286 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
815240 CAAATAAATA
815250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
815287 GTAACAATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:815418 original size:6 final size:6
Alignment explanation
Indices: 815409--815461 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
815399 ACATATGCAT
815409 ACGCAC ACGCAC ACGCAC ACGCAC ACGCAC ACGCAC ACGCAC ACGCAC
1 ACGCAC ACGCAC ACGCAC ACGCAC ACGCAC ACGCAC ACGCAC ACGCAC
815457 ACGCA
1 ACGCA
815462 TACACATACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.34, C:0.49, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGCAC
Found at i:816893 original size:3 final size:3
Alignment explanation
Indices: 816885--817072 Score: 90
Period size: 3 Copynumber: 59.0 Consensus size: 3
816875 TAATATTTTA
* * *
816885 AAT AAT AAT AAT AAT AAT AACT ACT AAC AATT AAT AAT AAT AACT ATT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT AA-T AAT
* * * * * *
816933 AAT AAT AAT AAT AAT AAT AATT ATT ATT ATT ATT ATT AAT AAAT ACT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * * * **
816980 GAC AAT GATT AAT GAT AAT AAT AATT TAT ATTT TTT AAT AAT -AT CAAT
1 AAT AAT -AAT AAT AAT AAT AAT AA-T AAT A-AT AAT AAT AAT AAT -AAT
* *
817028 AAT AAAT CAT AAT AAT AAT AAT AACT AAT AAT AACC AAT AAT AAT
1 AAT -AAT AAT AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT
817073 TACAAGTTTC
Statistics
Matches: 144, Mismatches: 28, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
2 2 0.01
3 116 0.81
4 26 0.18
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:818678 original size:9 final size:8
Alignment explanation
Indices: 818666--818735 Score: 52
Period size: 9 Copynumber: 8.0 Consensus size: 8
818656 ATTTAATTCA
818666 TTTTTCATT
1 TTTTTC-TT
818675 TTTTTCTTT
1 TTTTTC-TT
*
818684 TCTTTTCATC
1 T-TTTTC-TT
818694 TTTTTCATT
1 TTTTTC-TT
818703 TTTCTTCTT
1 TTT-TTCTT
*
818712 TTCTT-TT
1 TTTTTCTT
818719 TTTTTCTCT
1 TTTTTCT-T
818728 TTTTTCTT
1 TTTTTCTT
818736 CAGGTGTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
7 6 0.12
8 4 0.08
9 31 0.61
10 10 0.20
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCTT
Found at i:818683 original size:29 final size:29
Alignment explanation
Indices: 818651--818714 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
818641 CTTGAACCCC
818651 CTTTT-ATTTAATTCATTTTTCATTTTT-TT
1 CTTTTCATTTAA-TC-TTTTTCATTTTTCTT
* *
818680 CTTTTCTTTTCATCTTTTTCATTTTTCTT
1 CTTTTCATTTAATCTTTTTCATTTTTCTT
818709 CTTTTC
1 CTTTTC
818715 TTTTTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 12 0.39
29 15 0.48
30 4 0.13
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (29 bp):
CTTTTCATTTAATCTTTTTCATTTTTCTT
Found at i:818691 original size:19 final size:20
Alignment explanation
Indices: 818667--818704 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
818657 TTTAATTCAT
*
818667 TTTTCATTTTTTTC-TTTTC
1 TTTTCATCTTTTTCATTTTC
818686 TTTTCATCTTTTTCATTTT
1 TTTTCATCTTTTTCATTTT
818705 TCTTCTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCATCTTTTTCATTTTC
Found at i:818732 original size:19 final size:18
Alignment explanation
Indices: 818674--818735 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 18
818664 CATTTTTCAT
*
818674 TTTTTTCTTTTCTTTTCATC
1 TTTTTT-TTTTCTTTT-TTC
818694 TTTTTCATTTTTCTTCTTTTC
1 TTTTT--TTTTTCTT-TTTTC
818715 TTTTTTTTTCTCTTTTTTC
1 TTTTTTTTT-TCTTTTTTC
818734 TT
1 TT
818736 CAGGTGTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
19 11 0.30
20 9 0.24
21 14 0.38
22 3 0.08
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTTTTCTTTTTTC
Found at i:818733 original size:34 final size:35
Alignment explanation
Indices: 818662--818731 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
818652 TTTTATTTAA
*
818662 TTCATTTTTCATTTTTTTCTTTTCTTTTCATCTTT
1 TTCATTTTTCATTCTTTTCTTTTCTTTTCATCTTT
*
818697 TTCATTTTTC-TTCTTTTCTTTTTTTTTC-TCTTT
1 TTCATTTTTCATTCTTTTCTTTTCTTTTCATCTTT
818730 TT
1 TT
818732 TCTTCAGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 7 0.21
34 16 0.48
35 10 0.30
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (35 bp):
TTCATTTTTCATTCTTTTCTTTTCTTTTCATCTTT
Found at i:824639 original size:31 final size:31
Alignment explanation
Indices: 824604--824663 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
824594 CCATTGTTGT
824604 GGATACTGAAGAAAGCTTTCATTATGTTTGA
1 GGATACTGAAGAAAGCTTTCATTATGTTTGA
*
824635 GGATACTGGAGAAAGCTTTCATTATGTTT
1 GGATACTGAAGAAAGCTTTCATTATGTTT
824664 CATCTCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (31 bp):
GGATACTGAAGAAAGCTTTCATTATGTTTGA
Found at i:835143 original size:9 final size:11
Alignment explanation
Indices: 835112--835137 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
835102 GAGAAGTGTT
835112 AAGTGTGTTAA
1 AAGTGTGTTAA
835123 AAGTGTGTTAA
1 AAGTGTGTTAA
835134 AAGT
1 AAGT
835138 TTTAAAGGGA
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:0.27, T:0.35
Consensus pattern (11 bp):
AAGTGTGTTAA
Found at i:835672 original size:64 final size:65
Alignment explanation
Indices: 835570--835692 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 65
835560 AATGCATTTG
* * * *
835570 ATGCATCGATGCATTCAGGGTTTTATGAAAACATCGAATGCATTTGATGCATCGATGCATAGACC
1 ATGCATCGATGCACTCAGGCTATTATCAAAACATCGAATGCATTTGATGCATCGATGCATAGACC
* *
835635 ATGCATCGATGCACTCAGGCTATT-TCAAAACATCGAATGCATTTTATTCATCGATGCA
1 ATGCATCGATGCACTCAGGCTATTATCAAAACATCGAATGCATTTGATGCATCGATGCA
835693 CTTTTAGTGC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
64 31 0.60
65 21 0.40
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGGCTATTATCAAAACATCGAATGCATTTGATGCATCGATGCATAGACC
Found at i:836445 original size:21 final size:21
Alignment explanation
Indices: 836421--836514 Score: 75
Period size: 21 Copynumber: 4.4 Consensus size: 21
836411 CTAAACAGTG
*
836421 CCACATAATTATCCCAAAGGA
1 CCACATAATTGTCCCAAAGGA
* * *
836442 CCACATAGGTTTGTACCAAAATG-
1 CCACATA--ATTGT-CCCAAAGGA
*
836465 CCACATATTTGTCCCGAAA-GA
1 CCACATAATTGTCCC-AAAGGA
* *
836486 CCATATAATTGTCCTAAAGGA
1 CCACATAATTGTCCCAAAGGA
836507 CCACATAA
1 CCACATAA
836515 AACCCTCGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 10 0.17
24 6 0.10
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (21 bp):
CCACATAATTGTCCCAAAGGA
Found at i:837131 original size:54 final size:54
Alignment explanation
Indices: 837072--837195 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
837062 GAAACTTCCC
* * *
837072 TTCAAGGGTATCGATACCTCATCATGGTACCGATACCAGTATAGCATTC-ATTGT
1 TTCAAGGGTATCGATACCTCATCAAGGTACCAATACCAATATAGCATTCGA-TGT
* * *
837126 TTCAAGGGTATCGATACCTCCTCAAGGTACCAATACCAATCTGGCATTCGATGT
1 TTCAAGGGTATCGATACCTCATCAAGGTACCAATACCAATATAGCATTCGATGT
*
837180 TTTAAGGGTATCGATA
1 TTCAAGGGTATCGATA
837196 TCATCCTTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 61 0.98
55 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCTCATCAAGGTACCAATACCAATATAGCATTCGATGT
Found at i:837223 original size:20 final size:22
Alignment explanation
Indices: 837186--837236 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
837176 ATGTTTTAAG
*
837186 GGTATCGATA-TCATCCTT-CA
1 GGTATCGATACTCACCCTTACA
837206 GGTATCGATACT-ACCCTTACA
1 GGTATCGATACTCACCCTTACA
*
837227 -GTATTGATAC
1 GGTATCGATAC
837237 CTCTTCAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (22 bp):
GGTATCGATACTCACCCTTACA
Found at i:843365 original size:23 final size:23
Alignment explanation
Indices: 843336--843384 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
843326 GAATGACCAT
* *
843336 ATAGGTTTGCACCAAAGTGCCAC
1 ATAGGTTTACAACAAAGTGCCAC
843359 ATAGGTTTACAACAAAGTGCCAC
1 ATAGGTTTACAACAAAGTGCCAC
843382 ATA
1 ATA
843385 TTTGTCCCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (23 bp):
ATAGGTTTACAACAAAGTGCCAC
Found at i:843404 original size:21 final size:21
Alignment explanation
Indices: 843378--843427 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
843368 CAACAAAGTG
* *
843378 CCACATATTTGTCCCG-ATGGA
1 CCACATAATTATCCCGAAT-GA
843399 CCACATAATTATCCCGAATGA
1 CCACATAATTATCCCGAATGA
843420 CCACATAA
1 CCACATAA
843428 AACCCTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (21 bp):
CCACATAATTATCCCGAATGA
Found at i:844067 original size:54 final size:54
Alignment explanation
Indices: 843984--844128 Score: 229
Period size: 54 Copynumber: 2.7 Consensus size: 54
843974 ATACTTCCCC
*
843984 TTCAAGGGTATCGATACCTCCTCATGGTACCGATACCAATATAGCATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATATAGCATTCGATGT
*
844038 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATCTAGCATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATATAGCATTCGATGT
* *
844092 TTTAAGGGTATCGATACCATCCTTC-AGGTATCGATAC
1 TTCAAGGGTATCGATACC-TCC-TCAAGGTACCGATAC
844129 TACCCTTACA
Statistics
Matches: 85, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
54 69 0.81
55 14 0.16
56 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATATAGCATTCGATGT
Found at i:844123 original size:20 final size:21
Alignment explanation
Indices: 844098--844149 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
844088 ATGTTTTAAG
*
844098 GGTATCGATACCATCCTT-CA
1 GGTATCGATACCACCCTTACA
*
844118 GGTATCGATACTACCCTTACA
1 GGTATCGATACCACCCTTACA
844139 -GTATCGATACC
1 GGTATCGATACC
844150 TATTCAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCACCCTTACA
Found at i:847158 original size:4 final size:4
Alignment explanation
Indices: 847149--847174 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
847139 ACACATTTGA
847149 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
847175 GTTTAGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:848453 original size:21 final size:21
Alignment explanation
Indices: 848411--848469 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
848401 GTCAATACTT
* *
848411 AAATTTAAGTAAAACATAATA
1 AAATTTAAATAAAATATAATA
848432 AAATTTAAATAAAATA-ACATA
1 AAATTTAAATAAAATATA-ATA
*
848453 AAA-ATAGAATAAAATAT
1 AAATTTA-AATAAAATAT
848470 TACTATCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 3 0.09
21 29 0.91
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (21 bp):
AAATTTAAATAAAATATAATA
Found at i:848840 original size:6 final size:6
Alignment explanation
Indices: 848829--848861 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
848819 TAAATAAATA
848829 ATATAC ATATAC ATATAC ATATAC ATATAC ATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATA
848862 ATAATGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:849916 original size:3 final size:3
Alignment explanation
Indices: 849908--850077 Score: 128
Period size: 3 Copynumber: 53.7 Consensus size: 3
849898 TTAGTATTTC
* * * * *
849908 AAT AAT AAT AAT AAT AAT AAT AAGC ACT ACT AAC AATT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AA-T AAT AAT AAT
**
849955 AAGT AAT AAT AAT AAT AATT AAT AAT AAT AAT AAT AAT AAT AAAT GCT
1 AA-T AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * *
850003 GAT AAT AAT GAAT AAT AAT AATT AAT ATTT ATT AAT -AT TAT CAAT AAT
1 AAT AAT AAT -AAT AAT AAT AA-T AAT A-AT AAT AAT AAT AAT -AAT AAT
850051 AAAT AAT AAT AAT -AT AACT AAT AAT AA
1 -AAT AAT AAT AAT AAT AA-T AAT AAT AA
850078 CAAGTTTCGG
Statistics
Matches: 139, Mismatches: 15, Indels: 26
0.77 0.08 0.14
Matches are distributed among these distances:
2 4 0.03
3 107 0.77
4 28 0.20
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:849966 original size:16 final size:15
Alignment explanation
Indices: 849945--850077 Score: 108
Period size: 16 Copynumber: 8.4 Consensus size: 15
849935 TACTAACAAT
*
849945 TAATAACAATAAGTAA
1 TAATAATAATAA-TAA
849961 TAATAATAATAATTAA
1 TAATAATAATAA-TAA
849977 TAATAATAATAATAA
1 TAATAATAATAATAA
** *
849992 TAATAAATGCTGATAA
1 TAAT-AATAATAATAA
850008 TAATGAATAATAATAA
1 TAAT-AATAATAATAA
* *
850024 TTAATATTTATTAAT-A
1 -TAATA-ATAATAATAA
*
850040 TTATCAATAATAAATAA
1 TAAT-AATAAT-AATAA
850057 TAATAAT-ATAACTAA
1 TAATAATAATAA-TAA
850072 TAATAA
1 TAATAA
850078 CAAGTTTCGG
Statistics
Matches: 95, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.02
15 24 0.25
16 55 0.58
17 14 0.15
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:850017 original size:67 final size:67
Alignment explanation
Indices: 849908--850064 Score: 176
Period size: 67 Copynumber: 2.3 Consensus size: 67
849898 TTAGTATTTC
* *
849908 AATAATAATAATAATAATAATAAGCACTACTAACAATTAATAACAATAAGTAATA-ATAATAATA
1 AATAATAATAATAATAATAATAAACACTACTAACAATGAATAACAATAAGTAATATATAATAAT-
849972 ATT
65 ATT
** * * * * *
849975 AATAATAATAATAATAATAATAAATGCTGA-TAATAATGAATAATAATAATTAATATTTATTAAT
1 AATAATAATAATAATAATAATAAACACT-ACTAACAATGAATAACAATAAGTAATATATAATAAT
850039 ATT
65 ATT
850042 -ATCAATAATAAATAATAATAATA
1 AAT-AATAAT-AATAATAATAATA
850065 TAACTAATAA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
66 2 0.03
67 55 0.71
68 20 0.26
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (67 bp):
AATAATAATAATAATAATAATAAACACTACTAACAATGAATAACAATAAGTAATATATAATAATA
TT
Found at i:850072 original size:22 final size:20
Alignment explanation
Indices: 849908--850077 Score: 112
Period size: 22 Copynumber: 8.0 Consensus size: 20
849898 TTAGTATTTC
849908 AATAATAATAATAATAATAAT
1 AATAAT-ATAATAATAATAAT
* * * *
849929 AAGCACTACTAACAATTAATAAC
1 AA-TAATA-TAATAA-TAATAAT
849952 AATAAGTAATAATAATAATAATT
1 AATAA-T-ATAATAATAATAA-T
849975 AATAATAATAATAATAATAAT
1 AATAAT-ATAATAATAATAAT
**
849996 AAATGCTGATAATAATGAATAAT
1 -AATAAT-ATAATAAT-AATAAT
* *
850019 AATAAT-TAAT-AT-TTATT
1 AATAATATAATAATAATAAT
*
850036 AATATTATCAATAATAAATAAT
1 AATAATAT-AATAAT-AATAAT
850058 AATAATATAACTAATAATAA
1 AATAATATAA-TAATAATAA
850078 CAAGTTTCGG
Statistics
Matches: 116, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
17 8 0.07
18 1 0.01
19 5 0.04
20 6 0.05
21 11 0.09
22 59 0.51
23 25 0.22
24 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
AATAATATAATAATAATAAT
Found at i:853169 original size:37 final size:39
Alignment explanation
Indices: 853138--853216 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
853128 AAAAATCGGT
**
853138 TTTTAAAAAAACCA-GA-TTTTTT-GGATAAAAAACTAG
1 TTTTAAAAAAAAAAGGATTTTTTTCGGATAAAAAACTAG
853174 TTTTAAAAAAAAAAGGATTTTTTTCGGATAAAAAACTAG
1 TTTTAAAAAAAAAAGGATTTTTTTCGGATAAAAAACTAG
853213 TTTT
1 TTTT
853217 TTATCCAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 12 0.32
37 2 0.05
38 6 0.16
39 18 0.47
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (39 bp):
TTTTAAAAAAAAAAGGATTTTTTTCGGATAAAAAACTAG
Found at i:864097 original size:3 final size:3
Alignment explanation
Indices: 864084--864144 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
864074 GTACCCAGAA
* * * *
864084 AAT AA- AAT AAT AAT ATT AAT ATT AAT AAAT AGT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
864129 AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
864145 ATTATGACCC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:864119 original size:22 final size:22
Alignment explanation
Indices: 864088--864144 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
864078 CCAGAAAATA
*
864088 AAATAATAATATTAAT-ATTAAT
1 AAATAATAATAATAATGA-TAAT
*
864110 AAATAGTAATAATAATGATAAT
1 AAATAATAATAATAATGATAAT
864132 ATAATAATAATAA
1 A-AATAATAATAA
864145 ATTATGACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATAATAATAATAATGATAAT
Found at i:864137 original size:14 final size:14
Alignment explanation
Indices: 864085--864140 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 14
864075 TACCCAGAAA
864085 ATAA-AATAATAAT
1 ATAATAATAATAAT
*
864098 ATTAATATTAATAA-
1 A-TAATAATAATAAT
*
864112 ATAGTAATAATAAT
1 ATAATAATAATAAT
864126 GATAAT-ATAATAAT
1 -ATAATAATAATAAT
864140 A
1 A
864141 ATAAATTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 12 0.34
14 12 0.34
15 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:864757 original size:133 final size:134
Alignment explanation
Indices: 864342--864759 Score: 487
Period size: 133 Copynumber: 3.1 Consensus size: 134
864332 CTACTGTTCC
* * * * *
864342 TCAGGGAAGATTGGATCAAGGTAGTC-TGTTCCACTATCACTCAGGGAATATCAAATCTT-AAAA
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAA
* * * * *
864405 GAGACGGATAT-GTTCTGCTTCTTATTGAGGG-AAAATTAGATCTAGGGACT-TTGATTAACTCC
66 GAG--GGATATATTTC-GCTTCTTCTTGAGGGAAAAATCAGATCTAGGGA-TGTTGATTCATTCC
*
864467 ACTTTTCT
127 ACTATTCT
* * * * * *
864475 TTAGGGAAGATTGAATCAAGGTAGACTTG-TCAAGTGTTACTCAAGGAATATCAAACCTTGAAAA
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAA
* *
864539 GAGGGATCTATTTCGCTTCTTCTTGA-GGAAAAATCAGATCTAGGGATGTTGATTCATTCCACTG
66 GAGGGATATATTTCGCTTCTTCTTGAGGGAAAAATCAGATCTAGGGATGTTGATTCATTCCACTA
864603 TTCT
131 TTCT
*
864607 TCAGGGAAGATTGAATCGATGTAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAA
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAA
* * *
864672 GAGGGATATATTTCGTTTCTTCTTAAGGGAAAAATCAG-T-TATGGGTATGTTGATTCATTCTAC
66 GAGGGATATATTTCGCTTCTTCTTGAGGGAAAAATCAGATCTA-GGG-ATGTTGATTCATTCCAC
864735 TATTCT
129 TATTCT
* *
864741 TCA-GGAAAATTTAATCGAG
1 TCAGGGAAGATTGAATCGAG
864760 TTTAATTCGC
Statistics
Matches: 245, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
131 3 0.01
132 77 0.31
133 121 0.49
134 44 0.18
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (134 bp):
TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAA
GAGGGATATATTTCGCTTCTTCTTGAGGGAAAAATCAGATCTAGGGATGTTGATTCATTCCACTA
TTCT
Found at i:870970 original size:15 final size:15
Alignment explanation
Indices: 870952--870985 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
870942 GTTTATATGG
870952 AAATGTTCAAAGTGA
1 AAATGTTCAAAGTGA
* *
870967 AAATGTTCCACGTGA
1 AAATGTTCAAAGTGA
870982 AAAT
1 AAAT
870986 ACCTATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (15 bp):
AAATGTTCAAAGTGA
Found at i:871207 original size:23 final size:23
Alignment explanation
Indices: 871121--871207 Score: 113
Period size: 23 Copynumber: 3.8 Consensus size: 23
871111 AGGGTTCAAC
* *
871121 GTGGTCCTTTGGGACATATCTAT
1 GTGGTCCTTCGGGACAAATCTAT
* *
871144 GTGGTCCTTCGGGA-GAATCTAC
1 GTGGTCCTTCGGGACAAATCTAT
* *
871166 GTGGTCCTTCAGGATAAATCTAT
1 GTGGTCCTTCGGGACAAATCTAT
871189 GTGGTCCTTCGGGACAAAT
1 GTGGTCCTTCGGGACAAAT
871208 TCTACGCATT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.33
23 36 0.67
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
GTGGTCCTTCGGGACAAATCTAT
Found at i:874175 original size:16 final size:17
Alignment explanation
Indices: 874154--874187 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
874144 AGGTGTCACA
874154 TTGACTT-TTCAAAACT
1 TTGACTTGTTCAAAACT
*
874170 TTGACTTGTTGAAAACT
1 TTGACTTGTTCAAAACT
874187 T
1 T
874188 ATTGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (17 bp):
TTGACTTGTTCAAAACT
Found at i:874794 original size:23 final size:23
Alignment explanation
Indices: 874768--874896 Score: 143
Period size: 23 Copynumber: 5.6 Consensus size: 23
874758 TGTCCCAAAT
* *
874768 GACCATATAGTTTTGTCTCGAAG
1 GACCACATAGTTTTGTCACGAAG
* * * *
874791 GACCGCATAGGTTTATCCCGAAG
1 GACCACATAGTTTTGTCACGAAG
*
874814 GACCACATA-TGCTTGTCACGAAG
1 GACCACATAGT-TTTGTCACGAAG
**
874837 GACCACATAGGCTTGTCACGAAG
1 GACCACATAGTTTTGTCACGAAG
*
874860 GACCACATAGTTTTGTCTCGAAG
1 GACCACATAGTTTTGTCACGAAG
*
874883 GACCATATAGTTTT
1 GACCACATAGTTTT
874897 AACCCGAAGA
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
23 89 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
GACCACATAGTTTTGTCACGAAG
Found at i:874915 original size:46 final size:46
Alignment explanation
Indices: 874768--874905 Score: 170
Period size: 46 Copynumber: 3.0 Consensus size: 46
874758 TGTCCCAAAT
* *
874768 GACCATATAGTTTTGTCTCGAAGGACCGCATAGGTTTATCCCGAAG
1 GACCACATAGTTTTGTCTCGAAGGACCACATAGGTTTATCCCGAAG
* * * * *
874814 GACCACATA-TGCTTGTCACGAAGGACCACATAGGCTTGTCACGAAG
1 GACCACATAGT-TTTGTCTCGAAGGACCACATAGGTTTATCCCGAAG
* * *
874860 GACCACATAGTTTTGTCTCGAAGGACCATATAGTTTTAACCCGAAG
1 GACCACATAGTTTTGTCTCGAAGGACCACATAGGTTTATCCCGAAG
874906 AATTACATAG
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
45 1 0.01
46 73 0.97
47 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (46 bp):
GACCACATAGTTTTGTCTCGAAGGACCACATAGGTTTATCCCGAAG
Found at i:881676 original size:23 final size:23
Alignment explanation
Indices: 881585--881676 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
881575 GTGCAACATA
* * * *
881585 TTTGTCCCGAAGGGCTATATAGT
1 TTTGTCCCGAAGGACCACATAGG
**
881608 TTTCACCCGAAGGACCACATAGG
1 TTTGTCCCGAAGGACCACATAGG
*
881631 TTTGTCCCCAAGGACCACATAGG
1 TTTGTCCCGAAGGACCACATAGG
881654 TTTGTCCCGAAGGACCACATAGG
1 TTTGTCCCGAAGGACCACATAGG
881677 ACCCTCAACT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (23 bp):
TTTGTCCCGAAGGACCACATAGG
Found at i:886328 original size:18 final size:18
Alignment explanation
Indices: 886283--886329 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
886273 TCAATTAGAG
*
886283 GATTCCATCAATCTTTCA
1 GATTCCATCGATCTTTCA
886301 GATTCCATCGATCTTTCA
1 GATTCCATCGATCTTTCA
*
886319 GATTACATCGA
1 GATTCCATCGA
886330 ATTATACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.36
Consensus pattern (18 bp):
GATTCCATCGATCTTTCA
Found at i:887972 original size:45 final size:45
Alignment explanation
Indices: 887851--887986 Score: 209
Period size: 46 Copynumber: 3.0 Consensus size: 45
887841 GATGATAGTT
*
887851 GCATCCTTTCATGTCTTTAATGCACCGTTATGCATTTTCATTTATG
1 GCATCC-TTCATGCCTTTAATGCACCGTTATGCATTTTCATTTATG
*
887897 GCATCATTTCATGCCTTTAATGCACCGTTATGCATTTTCATTTATG
1 GCATC-CTTCATGCCTTTAATGCACCGTTATGCATTTTCATTTATG
* **
887943 GTATCCTTCATGCCTTTAATGCATTGTTATGCATTTTCATTTAT
1 GCATCCTTCATGCCTTTAATGCACCGTTATGCATTTTCATTTAT
887987 TCATTCATTT
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
45 36 0.43
46 47 0.57
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (45 bp):
GCATCCTTCATGCCTTTAATGCACCGTTATGCATTTTCATTTATG
Done.