Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 38 of 135
Found at i:14367804 original size:11 final size:11
Alignment explanation
Indices: 14367788--14367841 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
14367778 TGATTAAATT
14367788 TAAATTTAAAA
1 TAAATTTAAAA
14367799 TAAATTT-AAA
1 TAAATTTAAAA
* *
14367809 T-AA-GTAAATT
1 TAAATTTAAA-A
14367819 TAAATTTAAAA
1 TAAATTTAAAA
14367830 TAAATTTAAAA
1 TAAATTTAAAA
14367841 T
1 T
14367842 CTATTTAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.03
9 4 0.11
10 5 0.14
11 21 0.60
12 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:14373727 original size:30 final size:27
Alignment explanation
Indices: 14373653--14373727 Score: 69
Period size: 30 Copynumber: 2.6 Consensus size: 27
14373643 AGGCTTGTTC
*
14373653 ATATTATTTTTTTTAATTTTTTTTAAAA
1 ATATTATTTTTTTT-ATTTTTTTGAAAA
* *
14373681 ATATTTATATTGTTTTATTTTTTGGTGAAAT
1 ATA-TTAT-TTTTTTTATTTTTT--TGAAAA
14373712 ATATTATTTTATTTTA
1 ATATTATTTT-TTTTA
14373728 ATATTTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 3 0.08
29 13 0.34
30 15 0.39
31 7 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (27 bp):
ATATTATTTTTTTTATTTTTTTGAAAA
Found at i:14373750 original size:25 final size:25
Alignment explanation
Indices: 14373722--14373770 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14373712 ATATTATTTT
14373722 ATTTTAATAT-TTAATAATTTTATAC
1 ATTTTAATATATTAA-AATTTTATAC
* *
14373747 ATTTTTATTTATTAAAATTTTATA
1 ATTTTAATATATTAAAATTTTATA
14373771 TAGTCATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTAATATATTAAAATTTTATAC
Found at i:14378728 original size:35 final size:35
Alignment explanation
Indices: 14378639--14378730 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 35
14378629 GTATATTCTA
*
14378639 TTTTGTCGATTTCTTAATCATATACATATCTTTCT
1 TTTTGTCGATTTCTTAATCATATACATATCTTTAT
* * * *
14378674 TTTTGTCG-TAATATAAATCAT-TA-ATATATTATTAT
1 TTTTGTCGAT-TTCTTAATCATATACATAT-CT-TTAT
14378709 TTTTGTCGATTTCTTAATCATA
1 TTTTGTCGATTTCTTAATCATA
14378731 CATTTAACTC
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
33 4 0.09
34 4 0.09
35 35 0.80
36 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (35 bp):
TTTTGTCGATTTCTTAATCATATACATATCTTTAT
Found at i:14386636 original size:34 final size:34
Alignment explanation
Indices: 14386598--14386663 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
14386588 TGAACTATAA
* *
14386598 TGTTATGCAAACCTGTATTATGTGTTAATTATTC
1 TGTTATGCAAACCTATATTATGTGTGAATTATTC
* * *
14386632 TGTTATGCGAGCCTATGTTATGTGTGAATTAT
1 TGTTATGCAAACCTATATTATGTGTGAATTAT
14386664 GCTTATATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (34 bp):
TGTTATGCAAACCTATATTATGTGTGAATTATTC
Found at i:14386674 original size:17 final size:17
Alignment explanation
Indices: 14386644--14386685 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
14386634 TTATGCGAGC
*
14386644 CTATGTTATGTGTGAAT
1 CTATGTTATATGTGAAT
14386661 -TATGCTTATATGTGAAT
1 CTATG-TTATATGTGAAT
14386678 CTATGTTA
1 CTATGTTA
14386686 CGCGAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (17 bp):
CTATGTTATATGTGAAT
Found at i:14390104 original size:4 final size:4
Alignment explanation
Indices: 14390095--14390142 Score: 82
Period size: 4 Copynumber: 12.5 Consensus size: 4
14390085 ATCTGAATAT
14390095 ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
14390141 AT
1 AT
14390143 GTCTCATTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
4 40 0.95
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:14397968 original size:6 final size:6
Alignment explanation
Indices: 14397957--14397983 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14397947 CATGTTACTA
14397957 TGGTAT TGGTAT TGGTAT TGGTAT TGG
1 TGGTAT TGGTAT TGGTAT TGGTAT TGG
14397984 ATGTTATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (6 bp):
TGGTAT
Found at i:14413916 original size:36 final size:35
Alignment explanation
Indices: 14413857--14413938 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 35
14413847 CTATACTTAA
* *
14413857 AAAAAATTAATCTTACTTACTTCAAAATAAAAATT
1 AAAAAATTAATCTTACTTACTTCAAAACAAAAAAT
* * * *
14413892 AAAAAATATAATTTTATTTTCTTCATAACAAAAAAT
1 AAAAAAT-TAATCTTACTTACTTCAAAACAAAAAAT
14413928 AAAACAATTAA
1 AAAA-AATTAA
14413939 ATTAAATTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
35 7 0.18
36 29 0.74
37 3 0.08
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (35 bp):
AAAAAATTAATCTTACTTACTTCAAAACAAAAAAT
Found at i:14414749 original size:62 final size:61
Alignment explanation
Indices: 14414661--14414811 Score: 149
Period size: 61 Copynumber: 2.5 Consensus size: 61
14414651 GTTTACGTAT
* * * * * *
14414661 TCTATCAATTTGATCTTAAATATAAAAAAAATAAACAAATTTAACCCTTAATGTTTACAAAA
1 TCTATCAATTTAATCCTAACTCTAAAAAAAAT-AACAAATTTAACCCTCAATATTTACAAAA
* * * * * * * * **
14414723 TTTGTCATTTTAGTTCTAATTCTAAAAATAATAATAAATTTGGCCCTCAATATTTACAAAA
1 TCTATCAATTTAATCCTAACTCTAAAAAAAATAACAAATTTAACCCTCAATATTTACAAAA
14414784 TCTATCAATTTAATCCTAACTCTAAAAA
1 TCTATCAATTTAATCCTAACTCTAAAAA
14414812 TTTTAAAATA
Statistics
Matches: 68, Mismatches: 21, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
61 46 0.68
62 22 0.32
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (61 bp):
TCTATCAATTTAATCCTAACTCTAAAAAAAATAACAAATTTAACCCTCAATATTTACAAAA
Found at i:14419471 original size:17 final size:18
Alignment explanation
Indices: 14419441--14419482 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
14419431 ATTATATCTT
* *
14419441 TAAAAAAATTTAAAGAATA
1 TAAAAAAA-TTAAAAAAAA
14419460 TAAAAAAA-TAAAAAAAA
1 TAAAAAAATTAAAAAAAA
14419477 TAAAAA
1 TAAAAA
14419483 TCTGAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
TAAAAAAATTAAAAAAAA
Found at i:14419478 original size:19 final size:19
Alignment explanation
Indices: 14419441--14419482 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
14419431 ATTATATCTT
** *
14419441 TAAAAAAATTTAAAGAATA
1 TAAAAAAATAAAAAAAATA
14419460 TAAAAAAATAAAAAAAATA
1 TAAAAAAATAAAAAAAATA
14419479 -AAAA
1 TAAAA
14419483 TCTGAAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (19 bp):
TAAAAAAATAAAAAAAATA
Found at i:14422529 original size:23 final size:22
Alignment explanation
Indices: 14422502--14422552 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
14422492 CCCTAAAACC
*
14422502 AGAAAGAAAATAAATAATAAAAG
1 AGAAAGAAAATAAA-AAGAAAAG
*
14422525 AGAAAAGAAAGTAAAAAGAAAAG
1 AG-AAAGAAAATAAAAAGAAAAG
14422548 A-AAAG
1 AGAAAG
14422553 TTAAAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.16
23 10 0.40
24 11 0.44
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.08
Consensus pattern (22 bp):
AGAAAGAAAATAAAAAGAAAAG
Found at i:14422531 original size:24 final size:23
Alignment explanation
Indices: 14422504--14422548 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
14422494 CTAAAACCAG
*
14422504 AAAGAAAATAAATAATAAAAGAGA
1 AAAGAAAATAAA-AAGAAAAGAGA
*
14422528 AAAGAAAGTAAAAAGAAAAGA
1 AAAGAAAATAAAAAGAAAAGA
14422549 AAAGTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.09
Consensus pattern (23 bp):
AAAGAAAATAAAAAGAAAAGAGA
Found at i:14422543 original size:18 final size:19
Alignment explanation
Indices: 14422519--14422563 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
14422509 AAATAAATAA
14422519 TAAAAGAGAAAAG-AAAG-
1 TAAAAGAGAAAAGAAAAGT
14422536 TAAAA-AGAAAAGAAAAGT
1 TAAAAGAGAAAAGAAAAGT
14422554 TAAAAAGAGA
1 T-AAAAGAGA
14422564 GAGGCTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.29
17 9 0.38
18 1 0.04
19 4 0.17
20 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (19 bp):
TAAAAGAGAAAAGAAAAGT
Found at i:14422668 original size:6 final size:6
Alignment explanation
Indices: 14422657--14422694 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
14422647 GATAATGTGA
*
14422657 CTTTCT CTTTCT CTTCCT CTTTCT CTTTCT CTTTCT CT
1 CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CT
14422695 CAGACCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (6 bp):
CTTTCT
Found at i:14424272 original size:22 final size:23
Alignment explanation
Indices: 14424226--14424272 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
14424216 ATTTACAACT
14424226 AAATATAATCTATGGACATGAAGA
1 AAATATAATC-ATGGACATGAAGA
* *
14424250 AAATATAATC-TGGAGATGCAGA
1 AAATATAATCATGGACATGAAGA
14424272 A
1 A
14424273 TAAGGGTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (23 bp):
AAATATAATCATGGACATGAAGA
Found at i:14433755 original size:14 final size:14
Alignment explanation
Indices: 14433713--14433744 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
14433703 CATTTTACAA
14433713 TTATTTA-TTTA-T
1 TTATTTATTTTATT
14433725 TTATTTATTTTATT
1 TTATTTATTTTATT
14433739 TTATTT
1 TTATTT
14433745 TTATTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 4 0.22
14 7 0.39
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATTTATTTTATT
Found at i:14436037 original size:30 final size:30
Alignment explanation
Indices: 14435972--14436037 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
14435962 TGATTATGCA
* *
14435972 GATTTTTTTAAAAAATTAAGGAATTCGGCC
1 GATTTTTTTAAAAAATTAAGGAATACCGCC
* * *
14436002 AATTTTTTTAGAAAATT-AGGGATACACGCC
1 GATTTTTTTAAAAAATTAAGGAATAC-CGCC
14436032 GATTTT
1 GATTTT
14436038 CATATGCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (30 bp):
GATTTTTTTAAAAAATTAAGGAATACCGCC
Found at i:14442573 original size:17 final size:17
Alignment explanation
Indices: 14442548--14442581 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14442538 AAATACAATT
14442548 TAATAATATTTTTAATA
1 TAATAATATTTTTAATA
*
14442565 TAATTATATTTTTAATA
1 TAATAATATTTTTAATA
14442582 CCCAAGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATAATATTTTTAATA
Found at i:14453996 original size:16 final size:17
Alignment explanation
Indices: 14453972--14454006 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14453962 CGTGGTGGAG
14453972 AGATATTGATT-AATGA
1 AGATATTGATTGAATGA
*
14453988 AGATGTTGATTGAATGA
1 AGATATTGATTGAATGA
14454005 AG
1 AG
14454007 TGTCGATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (17 bp):
AGATATTGATTGAATGA
Found at i:14454098 original size:35 final size:35
Alignment explanation
Indices: 14454050--14454127 Score: 122
Period size: 35 Copynumber: 2.2 Consensus size: 35
14454040 GTATTGGCGT
* *
14454050 GTTGTGGCTAGATGATTGATAGATGAAGTTCTGGC
1 GTTGTGGCTAGATGATTGATAAAAGAAGTTCTGGC
14454085 GTTGTGG-TGAGATGATTGATAAAAGAAGTTCTGGC
1 GTTGTGGCT-AGATGATTGATAAAAGAAGTTCTGGC
14454120 GTTGTGGC
1 GTTGTGGC
14454128 GGGACGTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
34 1 0.03
35 38 0.97
ACGTcount: A:0.23, C:0.08, G:0.36, T:0.33
Consensus pattern (35 bp):
GTTGTGGCTAGATGATTGATAAAAGAAGTTCTGGC
Found at i:14455596 original size:22 final size:22
Alignment explanation
Indices: 14455561--14455603 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14455551 ACGTTAAGTT
** *
14455561 AAAATTATTGTGGGTTAAAATC
1 AAAATTATCATGGGTGAAAATC
14455583 AAAATTATCATGGGTGAAAAT
1 AAAATTATCATGGGTGAAAAT
14455604 GATGACATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.33
Consensus pattern (22 bp):
AAAATTATCATGGGTGAAAATC
Found at i:14455648 original size:14 final size:14
Alignment explanation
Indices: 14455621--14455654 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14455611 TCATATGTCA
*
14455621 TAATT-ATTTTATT
1 TAATTAATTTAATT
14455634 TAATTAATTTAATT
1 TAATTAATTTAATT
14455648 TAATTAA
1 TAATTAA
14455655 GAGATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTAATTTAATT
Found at i:14459742 original size:12 final size:12
Alignment explanation
Indices: 14459725--14459767 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
14459715 TACGGGAAGA
14459725 GAGCCCAAGCAT
1 GAGCCCAAGCAT
*
14459737 GAGCCCAAGTAT
1 GAGCCCAAGCAT
14459749 GAGCCCAAGCAT
1 GAGCCCAAGCAT
14459761 GAGCCCA
1 GAGCCCA
14459768 GGTATGTCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.26, T:0.09
Consensus pattern (12 bp):
GAGCCCAAGCAT
Found at i:14459757 original size:24 final size:24
Alignment explanation
Indices: 14459725--14459773 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
14459715 TACGGGAAGA
14459725 GAGCCCAAGCATGAGCCCAAGTAT
1 GAGCCCAAGCATGAGCCCAAGTAT
*
14459749 GAGCCCAAGCATGAGCCCAGGTAT
1 GAGCCCAAGCATGAGCCCAAGTAT
14459773 G
1 G
14459774 TCGCCTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.29, T:0.12
Consensus pattern (24 bp):
GAGCCCAAGCATGAGCCCAAGTAT
Found at i:14464058 original size:13 final size:13
Alignment explanation
Indices: 14464040--14464069 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14464030 AATTACGTTT
14464040 ATTTTTTAAATTA
1 ATTTTTTAAATTA
*
14464053 ATTTTTTAATTTA
1 ATTTTTTAAATTA
14464066 ATTT
1 ATTT
14464070 AATGTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTTAAATTA
Found at i:14470115 original size:20 final size:20
Alignment explanation
Indices: 14470083--14470124 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14470073 TTGTACCCGT
14470083 CCAACTCTGCCTCATCCCCA
1 CCAACTCTGCCTCATCCCCA
*
14470103 CCAACCTCT-CCTCATCTCCA
1 CCAA-CTCTGCCTCATCCCCA
14470123 CC
1 CC
14470125 CGCCCCGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.19, C:0.57, G:0.02, T:0.21
Consensus pattern (20 bp):
CCAACTCTGCCTCATCCCCA
Found at i:14471389 original size:15 final size:15
Alignment explanation
Indices: 14471369--14471456 Score: 52
Period size: 18 Copynumber: 5.4 Consensus size: 15
14471359 TATTTGAAAT
14471369 ATATTTTAATATAAA
1 ATATTTTAATATAAA
*
14471384 ATATTTT-ATTTCAAA
1 ATATTTTAATAT-AAA
*
14471399 ATATAATTTAAAATAAA
1 ATAT--TTTAATATAAA
* **
14471416 TTATTTTTAATATTTTA
1 ATA-TTTTAATA-TAAA
14471433 ATATGATTTAATATAAAA
1 ATAT--TTTAATAT-AAA
14471451 ATATTT
1 ATATTT
14471457 ATATTAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 17
0.67 0.12 0.21
Matches are distributed among these distances:
14 3 0.06
15 14 0.26
16 9 0.17
17 13 0.24
18 15 0.28
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (15 bp):
ATATTTTAATATAAA
Found at i:14472460 original size:45 final size:45
Alignment explanation
Indices: 14472396--14472484 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
14472386 ATATATGTTT
**
14472396 CTATAACATGTTTGGATATCATAGATGGGCTTACACATGTCCAAC
1 CTATAACATGTTTGGATATCATAGAAAGGCTTACACATGTCCAAC
* *
14472441 CTATAACA-GATTTGGATATCATAGAAAGGTTTGCACATGTCCAA
1 CTATAACATG-TTTGGATATCATAGAAAGGCTTACACATGTCCAA
14472485 AGTATCAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (45 bp):
CTATAACATGTTTGGATATCATAGAAAGGCTTACACATGTCCAAC
Found at i:14474230 original size:14 final size:15
Alignment explanation
Indices: 14474206--14474234 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14474196 TAAAATTACA
14474206 AGAAGTTATAAAATT
1 AGAAGTTATAAAATT
14474221 AGAA-TTATAAAATT
1 AGAAGTTATAAAATT
14474235 TATCACAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
AGAAGTTATAAAATT
Found at i:14474277 original size:25 final size:24
Alignment explanation
Indices: 14474249--14474313 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 24
14474239 ACAAACTAAT
14474249 AAATGTTTATAAA-TTATATTCAAAA
1 AAATGTTTATAAAGTT-TATT-AAAA
14474274 AAATGTTTATAAAAAAGTTTATTAAAA
1 AAATGTTTAT---AAAGTTTATTAAAA
14474301 AAATGTTTATAAA
1 AAATGTTTATAAA
14474314 CACTTTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
24 3 0.08
25 10 0.28
27 14 0.39
28 7 0.19
29 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATGTTTATAAAGTTTATTAAAA
Found at i:14474288 original size:15 final size:14
Alignment explanation
Indices: 14474270--14474313 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
14474260 AATTATATTC
14474270 AAAAAAATGTTTAT
1 AAAAAAATGTTTAT
14474284 -AAAAAA-GTTTATT
1 AAAAAAATGTTTA-T
14474297 AAAAAAATGTTTAT
1 AAAAAAATGTTTAT
14474311 AAA
1 AAA
14474314 CACTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.19
13 7 0.26
14 10 0.37
15 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AAAAAAATGTTTAT
Found at i:14474293 original size:12 final size:13
Alignment explanation
Indices: 14474249--14474313 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
14474239 ACAAACTAAT
14474249 AAATGTTTATAAA
1 AAATGTTTATAAA
** * *
14474262 TTATATTCA-AAA
1 AAATGTTTATAAA
14474274 AAATGTTTATAAA
1 AAATGTTTATAAA
14474287 AAA-GTTTATTAAAA
1 AAATGTTTA-T-AAA
14474301 AAATGTTTATAAA
1 AAATGTTTATAAA
14474314 CACTTTAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
12 13 0.32
13 15 0.38
14 7 0.17
15 5 0.12
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
AAATGTTTATAAA
Found at i:14481746 original size:30 final size:27
Alignment explanation
Indices: 14481685--14481737 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
14481675 ATCCATACTA
* *
14481685 TTATTACAAGGCATCAATTCTAATTTC
1 TTATTACAAGGAATCAATTCAAATTTC
14481712 TTATTACAAGGAATCAATTCAAATTT
1 TTATTACAAGGAATCAATTCAAATTT
14481738 ATTCTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (27 bp):
TTATTACAAGGAATCAATTCAAATTTC
Found at i:14481831 original size:14 final size:14
Alignment explanation
Indices: 14481812--14481838 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14481802 TTAGTTCATT
14481812 AGAACAAATAAAAC
1 AGAACAAATAAAAC
14481826 AGAACAAATAAAA
1 AGAACAAATAAAA
14481839 GCTTACCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.11, G:0.07, T:0.07
Consensus pattern (14 bp):
AGAACAAATAAAAC
Found at i:14489648 original size:18 final size:18
Alignment explanation
Indices: 14489609--14489648 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14489599 ATTATATAAT
*
14489609 ATTTAAATATATAATTTG
1 ATTTAAATATATAATTTC
* *
14489627 ATTTAAATGTATATTTTC
1 ATTTAAATATATAATTTC
14489645 ATTT
1 ATTT
14489649 TAATTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTTAAATATATAATTTC
Found at i:14490251 original size:28 final size:28
Alignment explanation
Indices: 14490218--14490275 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
14490208 AAATGTTATT
*
14490218 TTGGCTATCTTGCTAATATAAATTTTGA
1 TTGGCTATCTTGCTAATATAAATTTCGA
14490246 TTGGCTATCTTGCTAATATAAATTTCGA
1 TTGGCTATCTTGCTAATATAAATTTCGA
14490274 TT
1 TT
14490276 TATGATGGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (28 bp):
TTGGCTATCTTGCTAATATAAATTTCGA
Found at i:14492778 original size:23 final size:21
Alignment explanation
Indices: 14492748--14492794 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
14492738 GAATCAATTG
*
14492748 TTTCCCTTTTATTTTGCTACCA
1 TTTCCC-TTTATATTGCTACCA
*
14492770 TTTCACCTTTATATTGCTACTA
1 TTTC-CCTTTATATTGCTACCA
14492792 TTT
1 TTT
14492795 TAGAGGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.17, C:0.23, G:0.04, T:0.55
Consensus pattern (21 bp):
TTTCCCTTTATATTGCTACCA
Found at i:14495316 original size:91 final size:90
Alignment explanation
Indices: 14495143--14495324 Score: 253
Period size: 91 Copynumber: 2.0 Consensus size: 90
14495133 TTTTAATTTT
*
14495143 TTTATTCAATCAATCATTTAAAAAAAATATTTACCATAAAATATTAAATCCAATCAATCATATTT
1 TTTATTCAATCAATCATTTAAAAAAAATATTTACCATAAAATACTAAATCC-A-CAATCATATTT
*
14495208 AATAAAGTTACTTAAATTCATTTATTG
64 AATAAAGTTACTTAAATTAATTTATTG
*
14495235 TTTATTCAATCAATCATTTAATAAAAAAATATTTATCATAAAAATACTAAAT-C-CAATCATATT
1 TTTATTCAATCAATCATTT-A-AAAAAAATATTTACCAT-AAAATACTAAATCCACAATCATATT
*
14495298 TAATAAAGTT-GTCTAAATTAATTTATT
63 TAATAAAGTTACT-TAAATTAATTTATT
14495325 ATTCATTAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 9
0.86 0.04 0.09
Matches are distributed among these distances:
90 1 0.01
91 33 0.40
92 19 0.23
93 1 0.01
94 17 0.21
95 11 0.13
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (90 bp):
TTTATTCAATCAATCATTTAAAAAAAATATTTACCATAAAATACTAAATCCACAATCATATTTAA
TAAAGTTACTTAAATTAATTTATTG
Found at i:14498945 original size:36 final size:35
Alignment explanation
Indices: 14498859--14498958 Score: 114
Period size: 35 Copynumber: 2.8 Consensus size: 35
14498849 TGGTAACAGG
*
14498859 CATGACCTTTGGGTCAACAGGGAGA-AACATGAAGA
1 CATGACCTTTGGGTCAACAGGGA-ATAAAATGAAGA
*
14498894 AATGACCTTTGGGTCAACAGGGAATAAAATG-AGTA
1 CATGACCTTTGGGTCAACAGGGAATAAAATGAAG-A
* * *
14498929 TCATGACCTTTAGGTCAACAAGGAGTAAAA
1 -CATGACCTTTGGGTCAACAGGGAATAAAA
14498959 CGAATAACGA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
34 3 0.05
35 28 0.50
36 25 0.45
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (35 bp):
CATGACCTTTGGGTCAACAGGGAATAAAATGAAGA
Found at i:14499620 original size:117 final size:117
Alignment explanation
Indices: 14499447--14499808 Score: 555
Period size: 117 Copynumber: 3.1 Consensus size: 117
14499437 AGAACTCATG
* *
14499447 CTTGTATCGGTAAAAG-TACAGGGTAGGAGAGAGGTTATTCACTGACTTGAGTTGTTTCGGTAGT
1 CTTGTATCGGTAAAAGTTGCAGGGTAGGAGAGAGGTTGTTCACTGACTTGAGTTGTTTCGGTAGT
* * *
14499511 TGTATAATAGGTATTGGTAGTTCTGTACACTGGGGTATCGGCAGTTTAAGTA
66 TGTATAATAGGTATTGGTAGTTCTGTACATTGAGGTATCGGTAGTTTAAGTA
* * * * *
14499563 ATTGTATCGGTAGAAGTTGCAAGGTAGAAGAGAGGTTGTTCACTGACTTGAGTTGTTTCAGTAGT
1 CTTGTATCGGTAAAAGTTGCAGGGTAGGAGAGAGGTTGTTCACTGACTTGAGTTGTTTCGGTAGT
* * * *
14499628 TATATAATAGGTATCGATAGTTCTGTACATTGAGGTATCGGTAGTTGAAGTA
66 TGTATAATAGGTATTGGTAGTTCTGTACATTGAGGTATCGGTAGTTTAAGTA
*
14499680 CTTGTATCGATAAAAGTTGCAGGGTAGGAGAGAGGTTGTTCACTGACTTGAGTTGTTTCGGTAGT
1 CTTGTATCGGTAAAAGTTGCAGGGTAGGAGAGAGGTTGTTCACTGACTTGAGTTGTTTCGGTAGT
* * *
14499745 TGTATAATAGATATTGGTAGTTTTGTACATTGAGGTATCGATAGTTTAAGTA
66 TGTATAATAGGTATTGGTAGTTCTGTACATTGAGGTATCGGTAGTTTAAGTA
14499797 CTTGTATCGGTA
1 CTTGTATCGGTA
14499809 GAAGCTATAG
Statistics
Matches: 217, Mismatches: 28, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
116 14 0.06
117 203 0.94
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.36
Consensus pattern (117 bp):
CTTGTATCGGTAAAAGTTGCAGGGTAGGAGAGAGGTTGTTCACTGACTTGAGTTGTTTCGGTAGT
TGTATAATAGGTATTGGTAGTTCTGTACATTGAGGTATCGGTAGTTTAAGTA
Found at i:14502421 original size:23 final size:25
Alignment explanation
Indices: 14502395--14502440 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14502385 CCAATTAGGG
14502395 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
14502418 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
14502441 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:14508920 original size:18 final size:18
Alignment explanation
Indices: 14508864--14508921 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
14508854 ATTGCTTCTC
*
14508864 AAAAGCACTTTTAGGATA
1 AAAAACACTTTTAGGATA
* * *
14508882 AAAAATATTTTTAGGACA
1 AAAAACACTTTTAGGATA
14508900 AAAAACACTTTT-GAGATA
1 AAAAACACTTTTAG-GATA
14508918 AAAA
1 AAAA
14508922 CATTACTAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.28
Consensus pattern (18 bp):
AAAAACACTTTTAGGATA
Found at i:14509058 original size:21 final size:20
Alignment explanation
Indices: 14509025--14509066 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
14509015 TTTTTTTTAA
*
14509025 TTTTTTCTTAAAAAT-ACTTT
1 TTTTTTC-TCAAAATCACTTT
14509045 TTTTTTGCTCAAAATCACTTT
1 TTTTTT-CTCAAAATCACTTT
14509066 T
1 T
14509067 AAAAAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.26, C:0.14, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTTTCTCAAAATCACTTT
Found at i:14520696 original size:18 final size:18
Alignment explanation
Indices: 14520669--14520703 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14520659 AGCACCAAAG
14520669 CTTTCATCCTCCTCCTCA
1 CTTTCATCCTCCTCCTCA
* *
14520687 CTTTCTTCCTCTTCCTC
1 CTTTCATCCTCCTCCTC
14520704 TTCTTCATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.49, G:0.00, T:0.46
Consensus pattern (18 bp):
CTTTCATCCTCCTCCTCA
Found at i:14521507 original size:25 final size:25
Alignment explanation
Indices: 14521473--14521522 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
14521463 TGTTTTCAAA
*
14521473 CTCAGGAATCAAAAAAATAAAATAG
1 CTCAGAAATCAAAAAAATAAAATAG
*
14521498 CTCAGAAATCAGAAAAATAAAATAG
1 CTCAGAAATCAAAAAAATAAAATAG
14521523 AATAAGCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (25 bp):
CTCAGAAATCAAAAAAATAAAATAG
Found at i:14525616 original size:29 final size:30
Alignment explanation
Indices: 14525583--14525649 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
14525573 TCAAAATTTT
14525583 ATGTATAAAATTACACA-AAATCAAAGTTC
1 ATGTATAAAATTACACATAAATCAAAGTTC
* **
14525612 ATGTATACAATTACACATTAAATCGTAGTTC
1 ATGTATAAAATTACACA-TAAATCAAAGTTC
14525643 ATGTATA
1 ATGTATA
14525650 GTTTTGGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 16 0.48
31 17 0.52
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (30 bp):
ATGTATAAAATTACACATAAATCAAAGTTC
Found at i:14542789 original size:26 final size:26
Alignment explanation
Indices: 14542760--14542817 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
14542750 GAGACCGACC
14542760 AAAGCACTGAAGAAAC-ATATAAATAA
1 AAAGCACT-AAGAAACTATATAAATAA
* * * *
14542786 AAAGCAGTTAGAAACTATATGAATGA
1 AAAGCACTAAGAAACTATATAAATAA
14542812 AAAGCA
1 AAAGCA
14542818 TCCATCACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.17
Consensus pattern (26 bp):
AAAGCACTAAGAAACTATATAAATAA
Found at i:14563083 original size:71 final size:71
Alignment explanation
Indices: 14562989--14563131 Score: 205
Period size: 71 Copynumber: 2.0 Consensus size: 71
14562979 TATCAAATGT
* * * ** *
14562989 TTTTGGTTCTTTCCTAAGAAGTGTTTTTTTTTTCTGGTCGACTTCTTGCTTCTCATGTTTATTCC
1 TTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTAGTCGAAATCTTGCTTCTCATGTTCATTCC
14563054 ATGGTA
66 ATGGTA
* * *
14563060 TTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTAGTTGAAATCTTGCTTCTCCTGTTCATTCT
1 TTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTAGTCGAAATCTTGCTTCTCATGTTCATTCC
14563125 ATGGTA
66 ATGGTA
14563131 T
1 T
14563132 CAGATGTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.14, C:0.17, G:0.16, T:0.52
Consensus pattern (71 bp):
TTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTAGTCGAAATCTTGCTTCTCATGTTCATTCC
ATGGTA
Found at i:14583385 original size:58 final size:59
Alignment explanation
Indices: 14583226--14583598 Score: 513
Period size: 59 Copynumber: 6.4 Consensus size: 59
14583216 CTTGAACTGT
* *
14583226 CCAAAAATTA-TATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAATCC-CGATTTC-
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTCA
* * *
14583283 CCAAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCTTGATTTCA
1 CC-AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * * * *
14583343 CC-AAAATTACCATTTTACCCCTAAACTTTCCCAAATTTCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * *
14583401 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* *
14583459 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTTA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * * * *
14583518 CCAAAAAGTACCATTTTACCCCCGAACTTTTCAAAATCCCATTTTTAACCTCGATATCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
14583577 CCAAAAATTACCATTTTACCCC
1 CCAAAAATTACCATTTTACCCC
14583599 GGTTTCACCA
Statistics
Matches: 282, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
57 2 0.01
58 117 0.41
59 161 0.57
60 2 0.01
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
Found at i:14583421 original size:117 final size:117
Alignment explanation
Indices: 14583226--14583598 Score: 520
Period size: 117 Copynumber: 3.2 Consensus size: 117
14583216 CTTGAACTGT
* * *
14583226 CCAAAAATTA-TATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAATCCCGATTTC-CCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC-AAA
*
14583289 AATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCTTGATTTCA
65 AATTACCATTTTACCC-CAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* * * *
14583343 CC-AAAATTACCATTTTACCCCTAAACTTTCCCAAATTTCATTTTTAACCCCAATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * *
14583407 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
66 ATTACCATTTTACCCC-AAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* * *
14583459 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTTACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * * *
14583524 AGTACCATTTTACCCCCGAACTTTTCAAAATCCCATTTTTAACCTCGATATCA
66 ATTACCATTTTA-CCCCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
14583577 CCAAAAATTACCATTTTACCCC
1 CCAAAAATTACCATTTTACCCC
14583599 GGTTTCACCA
Statistics
Matches: 225, Mismatches: 25, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
116 24 0.11
117 159 0.71
118 42 0.19
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
ATTACCATTTTACCCCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
Found at i:14583606 original size:29 final size:29
Alignment explanation
Indices: 14583336--14583626 Score: 157
Period size: 29 Copynumber: 10.0 Consensus size: 29
14583326 TTTTAACCTT
14583336 GATTTCACC-AAAATTACCATTTTACCCC
1 GATTTCACCAAAAATTACCATTTTACCCC
* *
14583364 TAAACTTTC-CC--AAATT-TCATTTTTAACCCC
1 --GA-TTTCACCAAAAATTACCA-TTTT-ACCCC
*
14583394 AATTTCACCAAAAATTACCATTTTACCCC
1 GATTTCACCAAAAATTACCATTTTACCCC
*
14583423 TAAACTTT--CC-AAAATT-CCATTTTAACCCC
1 --GA-TTTCACCAAAAATTACCATTTT-ACCCC
*
14583452 AATTTCACCAAAAATTACCATTTTACCCCC
1 GATTTCACCAAAAATTACCATTTTA-CCCC
* *
14583482 AAACTTT--CC-AAAATT-CCATTTTTGACCTC
1 -GA-TTTCACCAAAAATTACCA-TTTT-ACCCC
* *
14583511 GATTTTACCAAAAAGTACCATTTTACCCCC
1 GATTTCACCAAAAATTACCATTTTA-CCCC
* * *
14583541 GAACTTT--TC-AAAA-TCCCATTTTTAACCTC
1 G-A-TTTCACCAAAAATTACCA-TTTT-ACCCC
*
14583570 GATATCACCAAAAATTACCATTTTACCCC
1 GATTTCACCAAAAATTACCATTTTACCCC
* *
14583599 GGTTTCACCAAAAATTACCAGTTTACCC
1 GATTTCACCAAAAATTACCATTTTACCC
14583627 TCAAACTTTC
Statistics
Matches: 211, Mismatches: 17, Indels: 67
0.72 0.06 0.23
Matches are distributed among these distances:
26 3 0.01
27 11 0.05
28 24 0.11
29 90 0.43
30 56 0.27
31 18 0.09
32 9 0.04
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (29 bp):
GATTTCACCAAAAATTACCATTTTACCCC
Found at i:14583642 original size:88 final size:87
Alignment explanation
Indices: 14583491--14583685 Score: 232
Period size: 88 Copynumber: 2.2 Consensus size: 87
14583481 CAAACTTTCC
* * * *
14583491 AAAATT-CCATTTTTGACCTCGATTTTACCAAAAAGTACCATTTTACCCCCGAACTTTTCAAAAT
1 AAAATTACCA-TTTT-ACCCCGATTTCACCAAAAAGTACCAGTTTACCCCCAAACTTTTCAAAAT
*
14583555 CCCATTTTTAACCTCGATATCACCA
64 CCCA-TTTTAACCTCAATATCACCA
* * *
14583580 AAAATTACCATTTTACCCCGGTTTCACCAAAAATTACCAGTTTACCCTCAAAC-TTTCGAAAATC
1 AAAATTACCATTTTACCCCGATTTCACCAAAAAGTACCAGTTTACCCCCAAACTTTTC-AAAATC
* * * *
14583644 CCATTTTGACCTTAATTTCTCCA
65 CCATTTTAACCTCAATATCACCA
14583667 AAAATTACCATTTTACCCC
1 AAAATTACCATTTTACCCC
14583686 CAAAAGTAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
87 38 0.41
88 41 0.45
89 10 0.11
90 3 0.03
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (87 bp):
AAAATTACCATTTTACCCCGATTTCACCAAAAAGTACCAGTTTACCCCCAAACTTTTCAAAATCC
CATTTTAACCTCAATATCACCA
Found at i:14600813 original size:30 final size:30
Alignment explanation
Indices: 14600779--14600873 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
14600769 GGTTCAGGGG
*
14600779 TAAAATGGTAATTTTTGGTGAAATCGAGGT
1 TAAAATGGTAATTTTTGGTGAAATCGAGGA
* *
14600809 TAAAAT-G-AGA-TTTT-G-GAAAGTTTGGGGA
1 TAAAATGGTA-ATTTTTGGTGAAA--TCGAGGA
*
14600837 TAAAATGGTAATTTTTGGTAAAATCGAGGGA
1 TAAAATGGTAATTTTTGGTGAAATCGA-GGA
14600868 -AAAATG
1 TAAAATG
14600874 AGATTTTGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
26 4 0.08
27 1 0.02
28 15 0.30
29 4 0.08
30 19 0.38
31 4 0.08
32 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (30 bp):
TAAAATGGTAATTTTTGGTGAAATCGAGGA
Found at i:14600822 original size:58 final size:57
Alignment explanation
Indices: 14600747--14600908 Score: 220
Period size: 58 Copynumber: 2.8 Consensus size: 57
14600737 GAAAATTTAG
*
14600747 GGTTAAAAATGAGATTTTGAAAGGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCGA
1 GGTT-AAAATGAGATTTTGAAAGGTT-AGGGGTAAAATGGTAATTTTTGGTAAAATCGA
*
14600806 GGTTAAAATGAGATTTTGGAAA-GTTTGGGGATAAAATGGTAATTTTTGGTAAAATCGA
1 GGTTAAAATGAGATTTT-GAAAGGTTAGGGG-TAAAATGGTAATTTTTGGTAAAATCGA
** *
14600864 GGGAAAAATGAGATTTTGGAAGGTTTA-GGGTAAAATGGTAATTTT
1 GGTTAAAATGAGATTTTGAAAGG-TTAGGGGTAAAATGGTAATTTT
14600909 GGAAGTTTTG
Statistics
Matches: 93, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
57 22 0.24
58 61 0.66
59 10 0.11
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (57 bp):
GGTTAAAATGAGATTTTGAAAGGTTAGGGGTAAAATGGTAATTTTTGGTAAAATCGA
Found at i:14600840 original size:28 final size:28
Alignment explanation
Indices: 14600809--14600936 Score: 88
Period size: 28 Copynumber: 4.5 Consensus size: 28
14600799 AAATCGAGGT
14600809 TAAAAT-GAGATTTTGGAAAGTTTGGGGA
1 TAAAATGGA-ATTTTGGAAAGTTTGGGGA
* *
14600837 TAAAATGGTAATTTTTGGTAAA-ATCGAGGGA
1 TAAAATGG-AA-TTTTGG-AAAGTTTG-GGGA
* *
14600868 -AAAAT-GAGATTTTGGAAGGTTTAGGG-
1 TAAAATGGA-ATTTTGGAAAGTTTGGGGA
*
14600894 TAAAATGGTAATTTTGG-AAGTTTTGGGGT
1 TAAAATGG-AATTTTGGAAAG-TTTGGGGA
*
14600923 TAAAATGTAATTTT
1 TAAAATGGAATTTT
14600937 CTAAAATTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
27 12 0.15
28 34 0.43
29 12 0.15
30 14 0.18
31 7 0.09
ACGTcount: A:0.35, C:0.01, G:0.28, T:0.36
Consensus pattern (28 bp):
TAAAATGGAATTTTGGAAAGTTTGGGGA
Found at i:14602042 original size:19 final size:19
Alignment explanation
Indices: 14602003--14602067 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
14601993 CATCATTACT
*
14602003 TTATTATT-AAAA-TATTCA
1 TTATTATTAAAAACAATT-A
14602021 TTATTATTAAAAACAATTA
1 TTATTATTAAAAACAATTA
*
14602040 TTATTATTAAAAACATTTA
1 TTATTATTAAAAACAATTA
14602059 TTATTATTA
1 TTATTATTA
14602068 TTATTATTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
18 8 0.19
19 32 0.74
20 3 0.07
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTATTAAAAACAATTA
Found at i:14602798 original size:17 final size:16
Alignment explanation
Indices: 14602787--14602855 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 16
14602777 TATTTAAGCT
14602787 AAATTTAAATTTAGAAC
1 AAATTTAAATTTA-AAC
*
14602804 AAATTTAAATTTAAAA
1 AAATTTAAATTTAAAC
*
14602820 ATGAATTTTAAATTTAAATTT
1 A--AA-TTTAAATTTAAA--C
14602841 AAA-TTAAATTTAAAC
1 AAATTTAAATTTAAAC
14602856 TTAGAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 3 0.07
17 24 0.55
18 2 0.05
19 14 0.32
21 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
AAATTTAAATTTAAAC
Found at i:14602833 original size:42 final size:42
Alignment explanation
Indices: 14602786--14602869 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
14602776 ATATTTAAGC
* *
14602786 TAAATTTAAATTTAGAA-CAAATTTAAATTTAAAAATGAATTT
1 TAAATTTAAATTTA-AATCAAATTTAAACTTAAAAATAAATTT
* *
14602828 TAAATTTAAATTTAAATTAAATTTAAACTTAGAAATAAATTT
1 TAAATTTAAATTTAAATCAAATTTAAACTTAAAAATAAATTT
14602870 GAAACCAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (42 bp):
TAAATTTAAATTTAAATCAAATTTAAACTTAAAAATAAATTT
Found at i:14602847 original size:11 final size:12
Alignment explanation
Indices: 14602786--14602854 Score: 63
Period size: 11 Copynumber: 5.8 Consensus size: 12
14602776 ATATTTAAGC
14602786 TAAATTTAAATT
1 TAAATTTAAATT
*
14602798 TAGAA--CAAATT
1 TA-AATTTAAATT
*
14602809 TAAATTTAAAAAT
1 TAAATTT-AAATT
* *
14602822 GAATTTTAAATT
1 TAAATTTAAATT
14602834 TAAATTTAAA-T
1 TAAATTTAAATT
14602845 TAAATTTAAA
1 TAAATTTAAA
14602855 CTTAGAAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
10 2 0.04
11 18 0.40
12 14 0.31
13 11 0.24
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (12 bp):
TAAATTTAAATT
Found at i:14602849 original size:5 final size:6
Alignment explanation
Indices: 14602786--14602854 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
14602776 ATATTTAAGC
* * * *
14602786 TAAATT TAAATT TAGAA-- CAAATT TAAATT TAAAAAT GAATTT TAAATT
1 TAAATT TAAATT TA-AATT TAAATT TAAATT T-AAATT TAAATT TAAATT
14602834 TAAATT TAAA-T TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAA
14602855 CTTAGAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 36 0.72
7 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (6 bp):
TAAATT
Found at i:14603876 original size:79 final size:78
Alignment explanation
Indices: 14603713--14603921 Score: 312
Period size: 79 Copynumber: 2.7 Consensus size: 78
14603703 CAATTCCCCA
* * *
14603713 CATGGTATCAAATGTTTTTGGTTCTTTCCTAAGAAGTGATTTTTTT-CGGGTTGAATTCTTGCTT
1 CATGGTATCAAATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTTTTTCCTGGTTGAAATCTTGCTT
*
14603777 CTCATGTTTATTC
66 CTCATGTTCATTC
*
14603790 CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTGGTTGAAATCTTGCT
1 CATGGTATCAAATGTTTTTGGTTCTTTCCTAAGAAGTGTTTT-TTTTCCTGGTTGAAATCTTGCT
*
14603855 TCTCTTGTTCATTC
65 TCTCATGTTCATTC
* * *
14603869 CATGGTATCAAATGTTTTTGGTTCCTTCCTAAGAAGAGTTCTTTTTTCTTGGT
1 CATGGTATCAAATGTTTTTGGTTCTTTCCTAAGAAGTGTT-TTTTTTCCTGGT
14603922 CAAGTTCTTG
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
77 40 0.34
78 4 0.03
79 73 0.61
80 2 0.02
ACGTcount: A:0.17, C:0.16, G:0.18, T:0.49
Consensus pattern (78 bp):
CATGGTATCAAATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTTTTTCCTGGTTGAAATCTTGCTT
CTCATGTTCATTC
Found at i:14604568 original size:22 final size:24
Alignment explanation
Indices: 14604543--14604592 Score: 86
Period size: 22 Copynumber: 2.2 Consensus size: 24
14604533 CCTTAATGCG
14604543 AAATTTGGTGTTGTGATAA-T-CC
1 AAATTTGGTGTTGTGATAAGTCCC
14604565 AAATTTGGTGTTGTGATAAGTCCC
1 AAATTTGGTGTTGTGATAAGTCCC
14604589 AAAT
1 AAAT
14604593 ATCATTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 19 0.73
23 1 0.04
24 6 0.23
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (24 bp):
AAATTTGGTGTTGTGATAAGTCCC
Found at i:14619714 original size:17 final size:17
Alignment explanation
Indices: 14619692--14619731 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14619682 TAATGGGATA
*
14619692 TAAATTAATTTTTAAAT
1 TAAATTAATTTTGAAAT
* *
14619709 TAAATTTATTTTGAATT
1 TAAATTAATTTTGAAAT
14619726 TAAATT
1 TAAATT
14619732 TACATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TAAATTAATTTTGAAAT
Found at i:14619732 original size:17 final size:17
Alignment explanation
Indices: 14619701--14619768 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 17
14619691 ATAAATTAAT
14619701 TTTTAAA-TTAAATTTA
1 TTTTAAATTTAAATTTA
*
14619717 TTTTGAATTTAAATTTA
1 TTTTAAATTTAAATTTA
** * *
14619734 CATAAAATTTAAGTTTA
1 TTTTAAATTTAAATTTA
*
14619751 TTATAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
14619768 T
1 T
14619769 AAATTAAATT
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
16 6 0.15
17 34 0.85
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:14620650 original size:22 final size:21
Alignment explanation
Indices: 14620620--14620670 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
14620610 TAATAAGTTT
*
14620620 TTAAAAATTAATA-AATGCAATA
1 TTAATAATTAATATAAT--AATA
14620642 TTAATAATTAATATTAATAATA
1 TTAATAATTAATA-TAATAATA
14620664 TTAATAA
1 TTAATAA
14620671 AAAGAAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 23 0.88
24 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAATAATTAATATAATAATA
Found at i:14620656 original size:13 final size:13
Alignment explanation
Indices: 14620638--14620662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14620628 TAATAAATGC
14620638 AATATTAATAATT
1 AATATTAATAATT
14620651 AATATTAATAAT
1 AATATTAATAAT
14620663 ATTAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATTAATAATT
Found at i:14621820 original size:29 final size:30
Alignment explanation
Indices: 14621774--14621912 Score: 135
Period size: 29 Copynumber: 4.7 Consensus size: 30
14621764 CTTTATAGAT
* *
14621774 CCCT-AAACTATCCAAAAATTATATTTTGA
1 CCCTAAAACTTTCTAAAAATTATATTTTGA
*
14621803 -CCTAAAACTTTCTAAAAATTATGTTTTGA
1 CCCTAAAACTTTCTAAAAATTATATTTTGA
14621832 CCCT-AAACTTCTCT-AAAATTATATTTT-A
1 CCCTAAAACTT-TCTAAAAATTATATTTTGA
* * * *
14621860 ACCTCAAAACTTTTTGAAAATTACATTTTGA
1 CCCT-AAAACTTTCTAAAAATTATATTTTGA
** *
14621891 CCCCCAAACTTCCTAAAAATTA
1 CCCTAAAACTTTCTAAAAATTA
14621913 CCATTTTACC
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
28 7 0.08
29 42 0.47
30 38 0.42
31 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.37
Consensus pattern (30 bp):
CCCTAAAACTTTCTAAAAATTATATTTTGA
Found at i:14621891 original size:59 final size:58
Alignment explanation
Indices: 14621774--14621908 Score: 173
Period size: 59 Copynumber: 2.3 Consensus size: 58
14621764 CTTTATAGAT
* * **
14621774 CCCTAAACTATCCAAAAATTATATTTTGACCTAAAACTTTCTAAAAATTATGTTTTGA-
1 CCCTAAACT-TCCTAAAATTATATTTTAACCTAAAACTTTCTAAAAATTACATTTTGAC
* *
14621832 CCCTAAACTTCTCTAAAATTATATTTTAACCTCAAAACTTTTTGAAAATTACATTTTGAC
1 CCCTAAACTTC-CTAAAATTATATTTTAACCT-AAAACTTTCTAAAAATTACATTTTGAC
*
14621892 CCCCAAACTTCCTAAAA
1 CCCTAAACTTCCTAAAA
14621909 ATTACCATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 2 0.03
58 27 0.40
59 28 0.42
60 10 0.15
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (58 bp):
CCCTAAACTTCCTAAAATTATATTTTAACCTAAAACTTTCTAAAAATTACATTTTGAC
Found at i:14621913 original size:30 final size:30
Alignment explanation
Indices: 14621778--14621953 Score: 123
Period size: 30 Copynumber: 5.9 Consensus size: 30
14621768 ATAGATCCCT
* *
14621778 AAACTATCC-AAAAATTATATTTTGA-CCTA
1 AAACT-TCCTAAAAATTACATTTTGACCCCA
* ** *
14621807 AAACTTTCTAAAAATTATGTTTTGA-CCCT
1 AAACTTCCTAAAAATTACATTTTGACCCCA
* * *
14621836 AAACTTCTCT-AAAATTATATTTTAACCTCA
1 AAACTTC-CTAAAAATTACATTTTGACCCCA
** * *
14621866 AAACTTTTTGAAAATTACATTTTGACCCCC
1 AAACTTCCTAAAAATTACATTTTGACCCCA
*
14621896 AAACTTCCTAAAAATTACCATTTT-ACCCCC
1 AAACTTCCTAAAAATTA-CATTTTGACCCCA
*
14621926 AAACTCTCC--AAAATTCCATTTTTGACCC
1 AAACT-TCCTAAAAATTACA-TTTTGACCC
14621954 GATTTCACCA
Statistics
Matches: 120, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
28 4 0.03
29 52 0.43
30 55 0.46
31 9 0.08
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
AAACTTCCTAAAAATTACATTTTGACCCCA
Found at i:14621939 original size:59 final size:58
Alignment explanation
Indices: 14621876--14622159 Score: 266
Period size: 59 Copynumber: 4.8 Consensus size: 58
14621866 AAACTTTTTG
* * *
14621876 AAAATTACATTTTGACCCCCAAACTTC-CTAAAAATTACCATTTTACCCCCAAACTCTCC
1 AAAATTCCATTTTGA-CCCC-AATTTCACCAAAAATTACCATTTTACCCCCAAACTCTCC
* *
14621935 AAAATTCCATTTTTGA-CCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATTCCA-TTTTGACCCCAATTTCACCAAAAATTACCATTTTACCCCCAAACTCTCC
* * * ** * *
14621993 AAAATCCCATTTTTAACCTCAATTTCACCAAAAATTACCATTTTACCCCTGAACTTTCT
1 AAAATTCCA-TTTTGACCCCAATTTCACCAAAAATTACCATTTTACCCCCAAACTCTCC
* * ** * * * *
14622052 AAAATCCCATTTTTAACGTCGATTTCACCAAAAATTACCATTTTACCCTCAAATTTTCC
1 AAAATTCCA-TTTTGACCCCAATTTCACCAAAAATTACCATTTTACCCCCAAACTCTCC
* * ** * * *
14622111 AAAATCCCATTTTAACCCTGATTTTACCAAAAATTACTATTTTGCCCCC
1 AAAATTCCATTTTGACCCCAATTTCACCAAAAATTACCATTTTACCCCC
14622160 GAGTATCCAA
Statistics
Matches: 196, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
57 4 0.02
58 80 0.41
59 106 0.54
60 6 0.03
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (58 bp):
AAAATTCCATTTTGACCCCAATTTCACCAAAAATTACCATTTTACCCCCAAACTCTCC
Found at i:14621976 original size:58 final size:58
Alignment explanation
Indices: 14621905--14622159 Score: 359
Period size: 59 Copynumber: 4.4 Consensus size: 58
14621895 CAAACTTCCT
* * *
14621905 AAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTGACCCGATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCGATTTCACC
*
14621963 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTCAATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACC-CGATTTCACC
** * *
14622022 AAAAATTACCATTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACGTCGATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAAC-CCGATTTCACC
* * *
14622081 AAAAATTACCATTTTACCCTCAAATTTTCCAAAATCCCA-TTTTAACCCTGATTTTACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCC-GATTTCACC
* *
14622139 AAAAATTACTATTTTGCCCCC
1 AAAAATTACCATTTTACCCCC
14622160 GAGTATCCAA
Statistics
Matches: 175, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
57 1 0.01
58 78 0.45
59 96 0.55
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.34
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCGATTTCACC
Found at i:14621977 original size:30 final size:30
Alignment explanation
Indices: 14621905--14622153 Score: 93
Period size: 29 Copynumber: 8.5 Consensus size: 30
14621895 CAAACTTCCT
* ** *
14621905 AAAAATTACCA-TTTTACCCCCAAACTCTCC
1 AAAAATTACCATTTTTA-ACCCAATTTCACC
* *
14621935 -AAAATT-CCATTTTTGACCCGATTTCACC
1 AAAAATTACCATTTTTAACCCAATTTCACC
*
14621963 AAAAATTACCA-TTTTACCCCCAAACTTT--CC
1 AAAAATTACCATTTTTA-ACCC-AA-TTTCACC
*
14621993 -AAAA-TCCCATTTTTAACCTCAATTTCACC
1 AAAAATTACCATTTTTAACC-CAATTTCACC
*
14622022 AAAAATTACCA-TTTTACCCCTGAACTTT---C
1 AAAAATTACCATTTTTAACCC--AA-TTTCACC
* * * *
14622051 TAAAA-TCCCATTTTTAACGTCGATTTCACC
1 AAAAATTACCATTTTTAAC-CCAATTTCACC
* *
14622081 AAAAATTACCA-TTTTACCCTCAAATTT-TCC
1 AAAAATTACCATTTTTAACC-C-AATTTCACC
* * *
14622111 -AAAA-TCCCA-TTTTAACCCTGATTTTACC
1 AAAAATTACCATTTTTAACCC-AATTTCACC
*
14622139 AAAAATTACTATTTT
1 AAAAATTACCATTTT
14622154 GCCCCCGAGT
Statistics
Matches: 161, Mismatches: 31, Indels: 53
0.66 0.13 0.22
Matches are distributed among these distances:
27 11 0.07
28 37 0.23
29 52 0.32
30 37 0.23
31 18 0.11
32 6 0.04
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAAATTACCATTTTTAACCCAATTTCACC
Found at i:14622035 original size:117 final size:117
Alignment explanation
Indices: 14621905--14622159 Score: 361
Period size: 117 Copynumber: 2.2 Consensus size: 117
14621895 CAAACTTCCT
* *
14621905 AAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTGAC-CCGATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTCTCCAAAATCCCATTTTTAACGCCGATTTCACCAAAAAT
14621969 TACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAA-CCTCAATTTCACC
66 TACCATTTTACCCCCAAACTTTCCAAAATCCCA-TTTTAACCCT-AATTTCACC
** * * *
14622022 AAAAATTACCATTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACGTCGATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTCTCCAAAATCCCATTTTTAACGCCGATTTCACCAAAAAT
* * * *
14622087 TACCATTTTACCCTCAAATTTTCCAAAATCCCATTTTAACCCTGATTTTACC
66 TACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCTAATTTCACC
* *
14622139 AAAAATTACTATTTTGCCCCC
1 AAAAATTACCATTTTACCCCC
14622160 GAGTATCCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
117 72 0.59
118 50 0.41
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.34
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCCCAAACTCTCCAAAATCCCATTTTTAACGCCGATTTCACCAAAAAT
TACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCTAATTTCACC
Found at i:14622128 original size:29 final size:28
Alignment explanation
Indices: 14621971--14622142 Score: 93
Period size: 28 Copynumber: 5.9 Consensus size: 28
14621961 CCAAAAATTA
* *
14621971 CCATTTT-ACCCCCAAACTTTCCAAAATC
1 CCATTTTAACCCTC-AATTTTCCAAAATC
* *
14621999 CCATTTTTAA-CCTCAATTTCACCAAAAATTA
1 CCA-TTTTAACCCTCAATTT-TCC-AAAA-TC
* * * *
14622030 CCATTTTACCCCTGAACTTTCTAAAATC
1 CCATTTTAACCCTCAATTTTCCAAAATC
* * * *
14622058 CCATTTTTAA-CGTCGATTTCACCAAAAATTA
1 CCA-TTTTAACCCTCAATTT-TCC-AAAA-TC
14622089 CCATTTT-ACCCTCAAATTTTCCAAAATC
1 CCATTTTAACCCTC-AATTTTCCAAAATC
*
14622117 CCATTTTAACCCT-GATTTTACCAAAA
1 CCATTTTAACCCTCAATTTT-CCAAAA
14622143 ATTACTATTT
Statistics
Matches: 107, Mismatches: 23, Indels: 28
0.68 0.15 0.18
Matches are distributed among these distances:
27 5 0.05
28 30 0.28
29 29 0.27
30 24 0.22
31 19 0.18
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (28 bp):
CCATTTTAACCCTCAATTTTCCAAAATC
Found at i:14627297 original size:29 final size:30
Alignment explanation
Indices: 14627243--14627303 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 30
14627233 TTTTTTAAAA
14627243 TTTTAAAAATTTTAAAAATATATAAAACTAT
1 TTTTAAAAA-TTTAAAAATATATAAAACTAT
*
14627274 TTTTAAAAA-TTAAAAATCAT-TAAAATTAT
1 TTTTAAAAATTTAAAAAT-ATATAAAACTAT
14627303 T
1 T
14627304 AAAAACTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 17 0.61
30 2 0.07
31 9 0.32
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTTAAAAATTTAAAAATATATAAAACTAT
Found at i:14627297 original size:39 final size:38
Alignment explanation
Indices: 14627234--14627323 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 38
14627224 ATTAATTAAT
* *
14627234 TTTTTAAAATTTTAAAAATTTTAAAAATA-TATAAAACTA
1 TTTTTAAAA-ATTAAAAATATTAAAAATATTA-AAAACTA
*
14627273 TTTTTAAAAATTAAAAATCATTAAAATTATTAAAAACTA
1 TTTTTAAAAATTAAAAAT-ATTAAAAATATTAAAAACTA
*
14627312 TTTTTTAAAATT
1 TTTTTAAAAATT
14627324 TAACAAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
38 8 0.18
39 35 0.78
40 2 0.04
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (38 bp):
TTTTTAAAAATTAAAAATATTAAAAATATTAAAAACTA
Found at i:14627313 original size:10 final size:9
Alignment explanation
Indices: 14627239--14627313 Score: 53
Period size: 9 Copynumber: 7.9 Consensus size: 9
14627229 TTAATTTTTT
*
14627239 AAAATTTTA
1 AAAATATTA
*
14627248 AAAATTTTA
1 AAAATATTA
14627257 AAAATATATA
1 AAAATAT-TA
* *
14627267 AAACTATTTTT
1 AAA--ATATTA
14627278 AAAA-ATTA
1 AAAATATTA
14627286 AAAATCATTA
1 AAAAT-ATTA
*
14627296 AAATTATTA
1 AAAATATTA
14627305 AAAACTATT
1 AAAA-TATT
14627314 TTTTAAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
8 6 0.11
9 23 0.43
10 17 0.32
11 4 0.08
12 3 0.06
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAATATTA
Found at i:14638688 original size:58 final size:59
Alignment explanation
Indices: 14638575--14638946 Score: 504
Period size: 59 Copynumber: 6.4 Consensus size: 59
14638565 CTTGAACTGT
* *
14638575 CCAAAAATTA-TATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAATCC-CGATTTC-
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTCA
* * *
14638632 CCAAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCA-TTTTAACCTTGATTTCA
1 CC-AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * * * *
14638691 CC-AAAATTACCATTTTACCCCTAAACTTTCCCAAATTTCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * *
14638749 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* *
14638807 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTTA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * * * *
14638866 CCAAAAAGTACCATTTTACCCCCGAACTTTTCAAAATCCCATTTTTAACCTCGATATCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
14638925 CCAAAAATTACCATTTTACCCC
1 CCAAAAATTACCATTTTACCCC
14638947 GGTTTCACCA
Statistics
Matches: 280, Mismatches: 28, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
57 37 0.13
58 93 0.33
59 150 0.54
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
Found at i:14638721 original size:116 final size:114
Alignment explanation
Indices: 14638575--14638946 Score: 496
Period size: 116 Copynumber: 3.2 Consensus size: 114
14638565 CTTGAACTGT
* *
14638575 CCAAAAATTA-TATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAATCCCGATTTCCCAAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAA-CCCGATTTCCC-AAAA
*
14638639 ATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTAACCTTGATTTCA
64 ATTACCATTTTACCC-CAAACTTTCCAAAATCCCATTTTAACCTCGATTTCA
* * * *
14638691 CC-AAAATTACCATTTTACCCCTAAACTTTCCCAAATTTCATTTTTAACCCCAATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAA-CCCGATTTC-CCAAAA
* * *
14638755 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCAATTTCA
64 ATTACCATTTTACCCC-AAACTTTCCAAAATCCCATTTTAACCTCGATTTCA
* *
14638807 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTTACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACC-CGA-TTTCCCAAAA
* * * *
14638872 AGTACCATTTTACCCCCGAACTTTTCAAAATCCCATTTTTAACCTCGATATCA
64 ATTACCATTTTA-CCCCAAACTTTCCAAAATCCCA-TTTTAACCTCGATTTCA
14638925 CCAAAAATTACCATTTTACCCC
1 CCAAAAATTACCATTTTACCCC
14638947 GGTTTCACCA
Statistics
Matches: 224, Mismatches: 24, Indels: 14
0.85 0.09 0.05
Matches are distributed among these distances:
115 8 0.04
116 96 0.43
117 77 0.34
118 43 0.19
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (114 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCGATTTCCCAAAAAT
TACCATTTTACCCCAAACTTTCCAAAATCCCATTTTAACCTCGATTTCA
Found at i:14638954 original size:29 final size:29
Alignment explanation
Indices: 14638606--14638974 Score: 163
Period size: 29 Copynumber: 12.6 Consensus size: 29
14638596 CGAACTTTCC
*
14638606 AAAATT-CCATTTTTAATCCCGATTTC-CCAA
1 AAAATTACCA-TTTT-ACCCCGATTTCACC-A
*
14638636 AAAATTACCATTTTACCCTCAAACTTT--CC-
1 AAAATTACCATTTTACCC-C-GA-TTTCACCA
* **
14638665 AAAA-TCCCATTTTAACCTTGATTTCACC-
1 AAAATTACCATTTT-ACCCCGATTTCACCA
*
14638693 AAAATTACCATTTTACCCCTAAACTTTC-CC-
1 AAAATTACCATTTTACCCC--GA-TTTCACCA
* *
14638723 -AAATT-TCATTTTTAACCCCAATTTCACCA
1 AAAATTACCA-TTTT-ACCCCGATTTCACCA
*
14638752 AAAATTACCATTTTACCCCTAAACTTT--CC-
1 AAAATTACCATTTTACCCC--GA-TTTCACCA
*
14638781 AAAATT-CCATTTTAACCCCAATTTCACCA
1 AAAATTACCATTTT-ACCCCGATTTCACCA
*
14638810 AAAATTACCATTTTACCCCCAAACTTT--CC-
1 AAAATTACCATTTTA-CCCC-GA-TTTCACCA
* *
14638839 AAAATT-CCATTTTTGACCTCGATTTTACCA
1 AAAATTACCA-TTTT-ACCCCGATTTCACCA
* *
14638869 AAAAGTACCATTTTACCCCCGAACTTT--TC-
1 AAAATTACCATTTTA-CCCCG-A-TTTCACCA
* * *
14638898 AAAA-TCCCATTTTTAACCTCGATATCACCA
1 AAAATTACCA-TTTT-ACCCCGATTTCACCA
*
14638928 AAAATTACCATTTTACCCCGGTTTCACCA
1 AAAATTACCATTTTACCCCGATTTCACCA
*
14638957 AAAATTACCAGTTTACCC
1 AAAATTACCATTTTACCC
14638975 TCAAACTTTC
Statistics
Matches: 270, Mismatches: 26, Indels: 87
0.70 0.07 0.23
Matches are distributed among these distances:
26 6 0.02
27 12 0.04
28 41 0.15
29 108 0.40
30 67 0.25
31 24 0.09
32 12 0.04
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCGATTTCACCA
Found at i:14644546 original size:71 final size:71
Alignment explanation
Indices: 14644452--14644594 Score: 205
Period size: 71 Copynumber: 2.0 Consensus size: 71
14644442 TATCAAATGT
* * * ** *
14644452 TTTTGGTTCTTTCCTAAGAAGTGTTTTTTTTTTCTGGTCGACTTCTTGCTTCTCATGTTTATTCC
1 TTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTAGTCGAAATCTTGCTTCTCATGTTCATTCC
14644517 ATGGTA
66 ATGGTA
* * *
14644523 TTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTAGTTGAAATCTTGCTTCTCCTGTTCATTCT
1 TTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTAGTCGAAATCTTGCTTCTCATGTTCATTCC
14644588 ATGGTA
66 ATGGTA
14644594 T
1 T
14644595 CAGATGTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.14, C:0.17, G:0.16, T:0.52
Consensus pattern (71 bp):
TTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTAGTCGAAATCTTGCTTCTCATGTTCATTCC
ATGGTA
Found at i:14650765 original size:21 final size:21
Alignment explanation
Indices: 14650740--14650784 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
14650730 AAATAACATT
14650740 AATGTTTTAATAATAATAATA
1 AATGTTTTAATAATAATAATA
*
14650761 AATGTTTTAATATTAATAATA
1 AATGTTTTAATAATAATAATA
14650782 AAT
1 AAT
14650785 AAATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
AATGTTTTAATAATAATAATA
Found at i:14651792 original size:30 final size:30
Alignment explanation
Indices: 14651758--14651903 Score: 138
Period size: 30 Copynumber: 4.9 Consensus size: 30
14651748 CACTATCCAG
*
14651758 AAATTACATTTTAACCTTAAAACTTTTTGA
1 AAATTACATTTTAACCCTAAAACTTTTTGA
* *
14651788 AAATTACATTTTGACCCTAAAACTTCTCT-A
1 AAATTACATTTTAACCCTAAAACTT-TTTGA
* * *
14651818 AAATTATATTTTTAACCAT-AAATTTTTTGA
1 AAATTACA-TTTTAACCCTAAAACTTTTTGA
* * *
14651848 AAATTATATTTTGACCCTAAAA-TTTTCTAA
1 AAATTACATTTTAACCCTAAAACTTTT-TGA
*
14651878 AAATTACTATTTT-ACCCTCAAACTTT
1 AAATTAC-ATTTTAACCCTAAAACTTT
14651904 CCAAAATTCC
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
29 14 0.15
30 64 0.67
31 18 0.19
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (30 bp):
AAATTACATTTTAACCCTAAAACTTTTTGA
Found at i:14651829 original size:60 final size:59
Alignment explanation
Indices: 14651758--14651891 Score: 180
Period size: 60 Copynumber: 2.2 Consensus size: 59
14651748 CACTATCCAG
* *
14651758 AAATTACATTTTAACCTTAAAACTTTTTGAAAATTACATTTTGACCCTAAAACTTCTCT-A
1 AAATTATATTTTAACCAT-AAACTTTTTGAAAATTACATTTTGACCCTAAAA-TTCTCTAA
* * *
14651818 AAATTATATTTTTAACCATAAATTTTTTGAAAATTATATTTTGACCCTAAAATTTTCTAA
1 AAATTATA-TTTTAACCATAAACTTTTTGAAAATTACATTTTGACCCTAAAATTCTCTAA
14651878 AAATTACTATTTTA
1 AAATTA-TATTTTA
14651892 CCCTCAAACT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
59 5 0.08
60 50 0.76
61 11 0.17
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (59 bp):
AAATTATATTTTAACCATAAACTTTTTGAAAATTACATTTTGACCCTAAAATTCTCTAA
Found at i:14654535 original size:59 final size:58
Alignment explanation
Indices: 14654465--14655173 Score: 629
Period size: 59 Copynumber: 12.1 Consensus size: 58
14654455 GGGTACAAAA
* * * * *
14654465 GTAATTTTTGGTGAAATTGAGG-TAAAACATGGAATTTTGGAAAGTTTAAGGGTAAAACG
1 GTAA-TTTTGGTGAAATTGGGGTTAAAA-ATGGGATTTTGGAAAGTTCAGGGGTAAAATG
** * * *
14654524 GTAATTGTTGGTGAAACCGAGGTTAAAAATGGGATTTTGGAAAGGTCAAGGGTAAAATG
1 GTAATT-TTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
* * * * *
14654583 GTAATTTTGGTGAAATCGGGGTTAAAAATGGGTTTTTAGAAAGTTCAAGGGTAAAACG
1 GTAATTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
* * *
14654641 GTAATTTTTGGTGACATCGGGGTTAAAAATGGGATTTTGGAATA-TTCAAGGGTAAAATG
1 GTAA-TTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAA-AGTTCAGGGGTAAAATG
* * * * * *
14654700 ATAATTTT--TAGAAGTTTCGGTGTCAAAAATGGGATTTTGGAAGGTTC-GAGGGTAAAACG
1 GTAATTTTGGT-GAA-ATT-GGGGTTAAAAATGGGATTTTGGAAAGTTCAG-GGGTAAAATG
* * * * *
14654759 GTAATTTTTGGTAAAACT-GGGTTAAAAATGGCATTTTGG-AAGATTCGGGGGTAAAATT
1 GTAA-TTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAG-TTCAGGGGTAAAATG
* * *
14654817 GTAATTTTTG-GAAGTTTTGGGGTT-AAAATGGGATTTTGGAAGGTTCAGGGGTAAAATG
1 GTAATTTTGGTGAA--ATTGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
* * * *
14654875 GTAATTTT--TAGAAGTTTTAGGGTT-AAAATGGGATTTTAGAAAGTTTAGGGGTAAAATG
1 GTAATTTTGGT-GAA--ATTGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
* * * *
14654933 GTAATTTTTGGTAAAACTGAGGTTAAAAATGGGATTTTGG-AAGATTCGGGGGTAAAATG
1 GTAA-TTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAG-TTCAGGGGTAAAATG
* * * * * *
14654992 GTAATTTT-TTGAAGTTTCGGGATCAAAAATGGGATTTTGGAAGGTTCGGGGGTAAAATG
1 GTAATTTTGGTGAA-ATT-GGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
* * * *
14655051 GTAATTTTTGGTAAAATCGGGGTT-AAAATGGGATTTTGGAACGTTCGGGGGTAAAATG
1 GTAA-TTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
* * * *
14655109 GTAATTTTGGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAATG
1 GTAATTTTGG-TGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
14655168 GTAATT
1 GTAATT
14655174 CTTAAAAGTT
Statistics
Matches: 542, Mismatches: 76, Indels: 64
0.79 0.11 0.09
Matches are distributed among these distances:
56 3 0.01
57 18 0.03
58 236 0.44
59 258 0.48
60 20 0.04
61 6 0.01
62 1 0.00
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (58 bp):
GTAATTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
Found at i:14654579 original size:29 final size:28
Alignment explanation
Indices: 14654547--14654638 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 28
14654537 AAACCGAGGT
14654547 TAAAAATGGGATTTTGGAAAGGTCAAGGG
1 TAAAAATGGGATTTTGGAAA-GTCAAGGG
* *
14654576 T-AAAATGGTAATTTTGGTGAAA-TC-GGGG
1 TAAAAATGG-GATTTT-G-GAAAGTCAAGGG
* *
14654604 TTAAAAATGGGTTTTTAGAAAGTTCAAGGG
1 -TAAAAATGGGATTTTGGAAAG-TCAAGGG
14654634 TAAAA
1 TAAAA
14654639 CGGTAATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
27 4 0.08
28 10 0.20
29 20 0.41
30 11 0.22
31 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.29, T:0.29
Consensus pattern (28 bp):
TAAAAATGGGATTTTGGAAAGTCAAGGG
Found at i:14654639 original size:117 final size:115
Alignment explanation
Indices: 14654465--14655173 Score: 620
Period size: 117 Copynumber: 6.1 Consensus size: 115
14654455 GGGTACAAAA
* * * *
14654465 GTAATTTTTGGTGAAATTGAGG-TAAAACATGGAATTTTGGAAAGTTTAAGGGTAAAACGGTAAT
1 GTAA-TTTTGGTGAAATCGGGGTTAAAA-ATGGGATTTTGGAAAGTTCAAGGGTAAAACGGTAAT
* * *
14654529 TGTTGGTGAAACCGAGGTTAAAAATGGGATTTTGGAAAGGTCAAGGGTAAAATG
64 T-TTGGTGAAATCG-GGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
* *
14654583 GTAATTTTGGTGAAATCGGGGTTAAAAATGGGTTTTTAGAAAGTTCAAGGGTAAAACGGTAATTT
1 GTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAAGGGTAAAACGGTAA-TT
* *
14654648 TTGGTGACATCGGGGTTAAAAATGGGATTTTGGAATA-TTCAAGGGTAAAATG
65 TTGGTGAAATC-GGGTTAAAAATGGGATTTTGGAA-AGTTCAGGGGTAAAATG
* * * * * *
14654700 ATAATTTT--TAGAAGTTTCGGTGTCAAAAATGGGATTTTGGAAGGTTCGAGGGTAAAACGGTAA
1 GTAATTTTGGT-GAA--ATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAAGGGTAAAACGGTAA
* * * *
14654763 TTTTTGGT-AAAACTGGGTTAAAAATGGCATTTTGG-AAGATTCGGGGGTAAAATT
63 -TTTTGGTGAAATC-GGGTTAAAAATGGGATTTTGGAAAG-TTCAGGGGTAAAATG
* * * * * *
14654817 GTAATTTTTG-GAAGTTTTGGGGTT-AAAATGGGATTTTGGAAGGTTCAGGGGTAAAATGGTAAT
1 GTAATTTTGGTGAA--ATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAAGGGTAAAACGGTAAT
* * * *
14654880 TTT--TAGAAGTTTTAGGGTT-AAAATGGGATTTTAGAAAGTTTAGGGGTAAAATG
64 TTTGGT-GAA---ATCGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
* * ** *
14654933 GTAATTTTTGGT-AAAACTGAGGTTAAAAATGGGATTTTGG-AAGATTCGGGGGTAAAATGGTAA
1 GTAA-TTTTGGTGAAATC-GGGGTTAAAAATGGGATTTTGGAAAG-TTCAAGGGTAAAACGGTAA
* * * * *
14654996 TTTT-TTGAAGTTTCGGGATCAAAAATGGGATTTTGGAAGGTTCGGGGGTAAAATG
63 TTTTGGTGAA--ATCGGG-TTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
* * ** *
14655051 GTAATTTTTGGTAAAATCGGGGTT-AAAATGGGATTTTGGAACGTTCGGGGGTAAAATGGTAATT
1 GTAA-TTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAAGGGTAAAACGGTAATT
* * *
14655115 TTGGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAATG
65 TTGG-TGAAATC-GGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
14655168 GTAATT
1 GTAATT
14655174 CTTAAAAGTT
Statistics
Matches: 497, Mismatches: 64, Indels: 62
0.80 0.10 0.10
Matches are distributed among these distances:
113 1 0.00
115 8 0.02
116 83 0.17
117 282 0.57
118 115 0.23
119 8 0.02
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (115 bp):
GTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAAGGGTAAAACGGTAATTT
TGGTGAAATCGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTAAAATG
Found at i:14655130 original size:29 final size:28
Alignment explanation
Indices: 14655037--14655146 Score: 98
Period size: 30 Copynumber: 3.8 Consensus size: 28
14655027 TTTGGAAGGT
*
14655037 TCGGGGGTAAAATGGTAATTTTTGG-TAAAA
1 TCGGGGTTAAAATGG-AA-TTTTGGAT-AAA
* **
14655067 TCGGGGTTAAAATGGGATTTTGGA-ACGT
1 TCGGGGTTAAAATGGAATTTTGGATA-AA
*
14655095 TCGGGGGTAAAATGGTAATTTTGGATGAAA
1 TCGGGGTTAAAATGG-AATTTTGGAT-AAA
14655125 TCGGGGTTAAAAATGGAATTTT
1 TCGGGGTT-AAAATGGAATTTT
14655147 AGAAAGTTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.02
28 20 0.31
29 9 0.14
30 27 0.42
31 8 0.12
ACGTcount: A:0.31, C:0.05, G:0.32, T:0.33
Consensus pattern (28 bp):
TCGGGGTTAAAATGGAATTTTGGATAAA
Found at i:14655216 original size:29 final size:27
Alignment explanation
Indices: 14655127--14655218 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 27
14655117 GGATGAAATC
14655127 GGGGTTAAAAATGGAATTTTAGAAAGTTT
1 GGGG-TAAAAATGGAATTTTA-AAAGTTT
14655156 AGGGGT-AAAATGGTAATTCTTAAAAGTTTT
1 -GGGGTAAAAATGG-AATT-TTAAAAG-TTT
*
14655186 GGGGTCAAAAATGGAATTTTGAAAAGCTT
1 GGGGT-AAAAATGGAATTTT-AAAAGTTT
14655215 GGGG
1 GGGG
14655219 ACTAGAGAGT
Statistics
Matches: 55, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
28 7 0.13
29 22 0.40
30 19 0.35
31 7 0.13
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (27 bp):
GGGGTAAAAATGGAATTTTAAAAGTTT
Found at i:14656094 original size:17 final size:16
Alignment explanation
Indices: 14656051--14656120 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
14656041 TTTATTAAAA
14656051 TATTACTATTAATTAT
1 TATTACTATTAATTAT
*
14656067 TAATAGCTATTAATTACT
1 TATTA-CTATTAATTA-T
* *
14656085 TATTATTATT-ATCAT
1 TATTACTATTAATTAT
* * *
14656100 CATTATTATTAATAAT
1 TATTACTATTAATTAT
14656116 TATTA
1 TATTA
14656121 ATGTATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 10 0.23
16 15 0.34
17 14 0.32
18 5 0.11
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (16 bp):
TATTACTATTAATTAT
Found at i:14656951 original size:17 final size:17
Alignment explanation
Indices: 14656916--14656992 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
14656906 TTTAATATTG
* **
14656916 ATTTAAATTTTAATTAA
1 ATTTAAATTTAAAACAA
* *
14656933 ATTTAGATTTAAAGCAA
1 ATTTAAATTTAAAACAA
* *
14656950 ATATAAATTTAAAATAA
1 ATTTAAATTTAAAACAA
*
14656967 ATTTAAATTTAACAATAA
1 ATTTAAATTTAA-AACAA
14656985 ATTTAAAT
1 ATTTAAAT
14656993 CTATTTAAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 37 0.74
18 13 0.26
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:14656957 original size:6 final size:6
Alignment explanation
Indices: 14656916--14656992 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
14656906 TTTAATATTG
* * ** *
14656916 ATTTAA ATTTTA A-TTAA ATTTAG ATTTAA A-GCAA ATATAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* *
14656962 A-ATAA ATTTAA ATTTAA CA-ATAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA -ATTTAA ATTTAA AT
14656993 CTATTTAAAC
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
5 12 0.23
6 40 0.75
7 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:14657717 original size:205 final size:200
Alignment explanation
Indices: 14657382--14658148 Score: 1027
Period size: 205 Copynumber: 3.8 Consensus size: 200
14657372 GTTTCCACGA
* * * *
14657382 GAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAACCT
1 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCT
* * * * *
14657447 GCTTCTTAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGAT
66 GCTTCTCAGTGTCTCATCAGGAAGCT-GGGTACGAAGATTTGCTCGCATTGAG-C---G-TTGAG
* * *
14657512 TTGGTCTTCTTCTCAGTGTCTCATCAGGAAGACAACAGCATCACTTGTTTTGATTCGCTTCTCTG
125 TTGGTATTCTTCTCAGTATCTCATCAGGAAGACAACAGCATCACTTGTTTTAATTCGCTTCTCTG
14657577 GATCTCCTCAG
190 GATCTCCTCAG
* *
14657588 GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGTAGCTAACCA-TTTATTGCTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCT
* *
14657652 GCTTCTCAGTGTCTCATCAGGAAGCTCGGGTTCGAAGATTTGCTCGCATTGAGCCTGGGTTTGAT
66 GCTTCTCAGTGTCTCATCAGGAAGCT-GGGTACGAAGATTTGCTCGCATTGAG-C---G-TTGAG
* * * ** *
14657717 TTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTG
125 TTGGTATTCTTCTCAGTATCTCATCAGGAAGACAACAGCATCACTTGTTTTAATTCGCTTCTCTG
*
14657782 GATCTCCTCAA
190 GATCTCCTCAG
*
14657793 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCT
* *
14657858 GCTTCTCAGTGTCTCATCAGGAAGCTGAGTACGAAGATTTGCTCGCTTTGAGCGTTGAGTTGGTA
66 GCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTA
* * * * * *
14657923 TACTTCTCTA-TATCTCATCAGGAAGATGACCA-CCTCATTTGTTTCAATTCGCTTCTCTGGATC
131 TTCTTCTC-AGTATCTCATCAGGAAGA-CAACAGCATCACTTGTTTTAATTCGCTTCTCTGGATC
14657986 TCCTCAG
194 TCCTCAG
* * * * *
14657993 AAAGATGAATTTGGTCCACTTCTCTGTATCCCATCAGGAAGCTAACCATTTTATTGTTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCT
* *
14658058 GCTTCTCAGTGTCTCATCAGAAAGCTGGGTACGAAGATTTGCTCGCTTTGAGCGTTGAGTTGGTA
66 GCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTA
*
14658123 TTCTTCTCTGTATCTCATCAGGAAGA
131 TTCTTCTCAGTATCTCATCAGGAAGA
14658149 TGACCGCCTC
Statistics
Matches: 513, Mismatches: 44, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
200 210 0.41
201 3 0.01
204 1 0.00
205 214 0.42
206 85 0.17
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (200 bp):
GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCT
GCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTA
TTCTTCTCAGTATCTCATCAGGAAGACAACAGCATCACTTGTTTTAATTCGCTTCTCTGGATCTC
CTCAG
Found at i:14658036 original size:200 final size:204
Alignment explanation
Indices: 14657312--14658153 Score: 1055
Period size: 200 Copynumber: 4.2 Consensus size: 204
14657302 TAACTTGGCC
* * * * ** * * * * *
14657312 TTCTTCTC-AGTATTTCATCAAGAAGATGACCGCGTCGTTTGTTTTGATCCACTTCTCTGGGTTT
1 TTCTTCTCTA-TATCTCATCAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTCTGGATCT
* * * *
14657376 CCAC-GAGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCT
65 CCTCAGA-AAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCT
* * * * * *
14657440 TCAACCTGCTTCTTAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGCCTGG
129 TCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTCGGGTACGAAGATTTGCTCGCATTGAGCC--G
* *
14657505 GTTTGATTTGGTC
192 GTTTGAGTTGGTA
* * * *
14657518 TTCTTCTC-AGTGTCTCATCAGGAAGA-CAACAGCATCACTTGTTTTGATTCGCTTCTCTGGATC
1 TTCTTCTCTA-TATCTCATCAGGAAGATGACCA-CATCACTTGTTTTAATTCGCTTCTCTGGATC
* * *
14657581 TCCTCAGGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGTAGCTAACCA-TTTATTGCT
64 TCCTCAGAAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCT
*
14657645 TCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTCGGGTTCGAAGATTTGCTCGCATTGAGCCTGG
129 TCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTCGGGTACGAAGATTTGCTCGCATTGAGCC--G
* *
14657710 GTTTGATTTGGTC
192 GTTTGAGTTGGTA
* * *
14657723 TTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTC
1 TTCTTCTCTATATCTCATCAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTCTGGATCTC
*
14657788 CTCA-AGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTT
66 CTCAGA-AAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
* *
14657852 CGACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GAGTACGAAGATTTGCTCGCTTTGAG-C-G-T
130 CGACCTGCTTCTCAGTGTCTCATCAGGAAGCTCGGGTACGAAGATTTGCTCGCATTGAGCCGGTT
14657913 TGAGTTGGTA
195 TGAGTTGGTA
* * * *
14657923 TACTTCTCTATATCTCATCAGGAAGATGACCACCTCATTTGTTTCAATTCGCTTCTCTGGATCTC
1 TTCTTCTCTATATCTCATCAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTCTGGATCTC
* * * *
14657988 CTCAGAAAGATGAATTTGGTCCACTTCTCTGTATCCCATCAGGAAGCTAACCATTTTATTGTTTC
66 CTCAGAAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
* *
14658053 GACCTGCTTCTCAGTGTCTCATCAGAAAGCT-GGGTACGAAGATTTGCTCGCTTTGAG-C-G-TT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTCGGGTACGAAGATTTGCTCGCATTGAGCCGGTTT
14658114 GAGTTGGTA
196 GAGTTGGTA
*
14658123 TTCTTCTCTGTATCTCATCAGGAAGATGACC
1 TTCTTCTCTATATCTCATCAGGAAGATGACC
14658154 GCCTCGTTGT
Statistics
Matches: 575, Mismatches: 54, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
200 222 0.39
201 2 0.00
204 1 0.00
205 211 0.37
206 138 0.24
207 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (204 bp):
TTCTTCTCTATATCTCATCAGGAAGATGACCACATCACTTGTTTTAATTCGCTTCTCTGGATCTC
CTCAGAAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
GACCTGCTTCTCAGTGTCTCATCAGGAAGCTCGGGTACGAAGATTTGCTCGCATTGAGCCGGTTT
GAGTTGGTA
Found at i:14670318 original size:59 final size:59
Alignment explanation
Indices: 14670253--14670977 Score: 720
Period size: 59 Copynumber: 12.3 Consensus size: 59
14670243 TTTTGACTTC
** * ** *
14670253 TGAGGGTAAAAAAGTAATTTTTGGTGAAATTAAGGTAAAAAATGGAATTTTGGAAAGTT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * * *
14670312 TGAGGGTAAAATGATAATTTTTTGTAAAATCGAGGTTAAAAATGGGATTTTGGGAAGTT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * *
14670371 TG-GGGTAAAAAGGTAA-TTTTGGTAAAATTGAGGTTAAAAATGGGATTTTGGAAAGTT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * * *
14670428 CG-GGGTAAAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGGATTTTGG-AAGATT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TT
* * * ** ** * *
14670486 CGAGGGTAAAATGGTATTTTTTAG-AAGTTTTATGGTTAAAAAT-GAGATTTTAGAAGGTT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGA-GGTTAAAAATGGA-ATTTTGGAAAGTT
* * *
14670545 TAAGGGTAAAATGATAATTTTTGGTAAAATCAAGGTTAAAAATGGAATTTT-GAAAGGTT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAA-GTT
* * *
14670604 CGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGGATTTTTGGAATGTT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAAT-GGAATTTTGGAAAGTT
* * * * *
14670664 TGAGGGTAAAAGGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAGTT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* *
14670723 T-AGGGGTAAAATGGTAATTTTTGGTAAAAACTGAGGTTAAAAATGGGATTTTGG-AAGATT
1 TGA-GGGTAAAATGGTAATTTTTGGTAAAATC-GAGGTTAAAAATGGAATTTTGGAAAG-TT
* * ** ** *
14670783 CGGGGGTAAAATGGTAATTTTTGG-AAGTTTTAGAGTTAAAAAT-GAGATTTTGGAAGGTT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAG-GTTAAAAATGGA-ATTTTGGAAAGTT
* * * * * * * *
14670842 CGGGGGTAAAACGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGGATTTTAGAGCA-TT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGA-AAGTT
* * * *
14670900 CGAGGGTAAAATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
1 TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* *
14670959 TGGGGGTAAAATGGCAATT
1 TGAGGGTAAAATGGTAATT
14670978 CTTAAAAGTT
Statistics
Matches: 558, Mismatches: 85, Indels: 46
0.81 0.12 0.07
Matches are distributed among these distances:
57 55 0.10
58 110 0.20
59 284 0.51
60 106 0.19
61 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (59 bp):
TGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:14670322 original size:29 final size:29
Alignment explanation
Indices: 14670290--14671015 Score: 239
Period size: 30 Copynumber: 24.7 Consensus size: 29
14670280 AATTAAGGTA
*
14670290 AAAAATGGAATTTTGGAAAGTTTGAGGGT
1 AAAAATGGAATTTTGGAAAGTTCGAGGGT
* * * *
14670319 -AAAATGATAATTTTTTGTAAA-ATCGAGGTT
1 AAAAATG-GAA--TTTTGGAAAGTTCGAGGGT
* * *
14670349 AAAAATGGGATTTTGGGAAGTTTG-GGGT
1 AAAAATGGAATTTTGGAAAGTTCGAGGGT
* *
14670377 AAAAA-GGTAATTTTGGTAAAATT-GAGGTT
1 AAAAATGG-AATTTTGG-AAAGTTCGAGGGT
*
14670406 AAAAATGGGATTTTGGAAAGTTCG-GGGT
1 AAAAATGGAATTTTGGAAAGTTCGAGGGT
*
14670434 -AAAATGGTAATTTTTGGTAAAATT-G-GGGTT
1 AAAAATGG-AA-TTTTGG-AAAGTTCGAGGG-T
*
14670464 AAAAATGGGATTTTGG-AAGATTCGAGGGT
1 AAAAATGGAATTTTGGAAAG-TTCGAGGGT
* ** ** *
14670493 -AAAATGGTATTTTTTAGAAGTTTTATGGTT
1 AAAAATGGAATTTTGGA-AAGTTCGA-GGGT
* * **
14670523 AAAAAT-GAGATTTTAGAAGGTTTAAGGGT
1 AAAAATGGA-ATTTTGGAAAGTTCGAGGGT
* * * *
14670552 -AAAATGATAATTTTTGGTAAA-ATCAAGGTT
1 AAAAATG-GAA-TTTTGG-AAAGTTCGAGGGT
14670582 AAAAATGGAATTTT-GAAAGGTTCGAGGGT
1 AAAAATGGAATTTTGGAAA-GTTCGAGGGT
* *
14670611 -AAAATGGTAATTTTTGGTAAA-ATCGAGGTT
1 AAAAATGG-AA-TTTTGG-AAAGTTCGAGGGT
* * *
14670641 AAAAATGGGATTTTTGGAATGTTTGAGGGT
1 AAAAAT-GGAATTTTGGAAAGTTCGAGGGT
* *
14670671 -AAAAGGGTAATTTTAGGTGAAA--TCGAGGTT
1 AAAAATGG-AATTTT--G-GAAAGTTCGAGGGT
* * *
14670701 AAAAATGGGATTTTAGAAAGTT-TAGGGGT
1 AAAAATGGAATTTTGGAAAGTTCGA-GGGT
** *
14670730 -AAAATGGTAATTTTTGGTAAA-AACTGAGGTT
1 AAAAATGG-AA-TTTTGG-AAAGTTC-GAGGGT
* *
14670761 AAAAATGGGATTTTGG-AAGATTCGGGGGT
1 AAAAATGGAATTTTGGAAAG-TTCGAGGGT
** *
14670790 -AAAATGGTAATTTTTGG-AAGTTTTAGAGTT
1 AAAAATGG-AA-TTTTGGAAAGTTCGAG-GGT
* *
14670820 AAAAAT-GAGATTTTGGAAGGTTCGGGGGT
1 AAAAATGGA-ATTTTGGAAAGTTCGAGGGT
*
14670849 -AAAACGGTAATTTTTGGTGAAA--TCG-GGGT
1 AAAAATGG-AA-TTTT-G-GAAAGTTCGAGGGT
* * * *
14670878 TAAAATGGGATTTTAGAGCA-TTCGAGGGT
1 AAAAATGGAATTTTGGA-AAGTTCGAGGGT
*
14670907 -AAAATGGTAATTTTAGGTGAAA--TCGAGGTT
1 AAAAATGG-AATTTT--G-GAAAGTTCGAGGGT
* * *
14670937 AAAAATGGAATTTTAGAAAGTTTGGGGGT
1 AAAAATGGAATTTTGGAAAGTTCGAGGGT
* **
14670966 -AAAATGGCAATTCTT-AAAAGTTTTAGGGT
1 AAAAATGG-AATT-TTGGAAAGTTCGAGGGT
14670995 CAAAAATGGAATTTTGGAAAG
1 -AAAAATGGAATTTTGGAAAG
14671016 CTTGGGGACT
Statistics
Matches: 516, Mismatches: 101, Indels: 159
0.66 0.13 0.20
Matches are distributed among these distances:
26 2 0.00
27 23 0.04
28 109 0.21
29 132 0.26
30 147 0.28
31 82 0.16
32 21 0.04
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAAATGGAATTTTGGAAAGTTCGAGGGT
Found at i:14670379 original size:28 final size:28
Alignment explanation
Indices: 14670348--14670505 Score: 108
Period size: 29 Copynumber: 5.5 Consensus size: 28
14670338 AAATCGAGGT
14670348 TAAAAATGGGATTTTGGGAAGTTTGGGG
1 TAAAAATGGGATTTTGGGAAGTTTGGGG
* * ** *
14670376 TAAAAA-GGTAATTTTGGTAAAATTGAGGT
1 TAAAAATGG-GATTTTGGGAAGTTTG-GGG
* *
14670405 TAAAAATGGGATTTTGGAAAGTTCGGGG
1 TAAAAATGGGATTTTGGGAAGTTTGGGG
* * **
14670433 T-AAAATGGTAATTTTTGGTAAAATTGGGG
1 TAAAAATGG-GA-TTTTGGGAAGTTTGGGG
*
14670462 TTAAAAATGGGATTTT-GGAAGATTCGAGGG
1 -TAAAAATGGGATTTTGGGAAG-TTTG-GGG
*
14670492 T-AAAATGGTATTTT
1 TAAAAATGGGATTTT
14670506 TTAGAAGTTT
Statistics
Matches: 99, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
27 9 0.09
28 37 0.37
29 39 0.39
30 7 0.07
31 7 0.07
ACGTcount: A:0.34, C:0.01, G:0.30, T:0.34
Consensus pattern (28 bp):
TAAAAATGGGATTTTGGGAAGTTTGGGG
Found at i:14672792 original size:17 final size:17
Alignment explanation
Indices: 14672740--14672798 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
14672730 TTTAATATTG
* *
14672740 ATTTAAATTTTAATTAA
1 ATTTAAATTTAAAATAA
* **
14672757 ATTTAGATTTAAAGCAA
1 ATTTAAATTTAAAATAA
*
14672774 ATATAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
14672791 ATTTAAAT
1 ATTTAAAT
14672799 CTATTTAAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:14683220 original size:26 final size:25
Alignment explanation
Indices: 14683191--14683253 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
14683181 GAATTTGGAA
14683191 AGTTT-GGGGCAAAATGTAATTTTTAG
1 AGTTTAGGGGCAAAAT-T-ATTTTTAG
* *
14683217 AGTTTAGGGTCAATATTATTTTTAG
1 AGTTTAGGGGCAAAATTATTTTTAG
14683242 AAAGTTTAGGGG
1 --AGTTTAGGGG
14683254 TTAAAATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 8 0.26
26 6 0.19
27 17 0.55
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.40
Consensus pattern (25 bp):
AGTTTAGGGGCAAAATTATTTTTAG
Found at i:14683298 original size:60 final size:60
Alignment explanation
Indices: 14683228--14683440 Score: 195
Period size: 60 Copynumber: 3.6 Consensus size: 60
14683218 GTTTAGGGTC
*
14683228 AATATTATTTTTAGAAAGTTTAGG-GGTTAAAAT-TGAATTCTTGAAAAATTTGGGAGTCAA
1 AATATAATTTTTAGAAAGTTT-GGAGGTTAAAATAT-AATTCTTGAAAAATTTGGGAGTCAA
* * * * *
14683288 AATATAATTTTTAGAAAGTTTGGAGGTTGAAATATAATTTTTGGAAAGTTTGGGGGTCAA
1 AATATAATTTTTAGAAAGTTTGGAGGTTAAAATATAATTCTTGAAAAATTTGGGAGTCAA
* * ** * * *
14683348 AATATAATTTTTAGAGATTTTATAGGTCAAAATATAATT-TTGGAAACA-TTGGG-GGCAAA
1 AATATAATTTTTAGAAAGTTTGGAGGTTAAAATATAATTCTT-GAAAAATTTGGGAGTC-AA
* * * *
14683407 AACAAAATTTTGA-AAAGTTTAGAGGTTAAAATAT
1 AATATAATTTTTAGAAAGTTTGGAGGTTAAAATAT
14683441 CAGTTTTAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
58 19 0.15
59 21 0.17
60 85 0.67
61 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (60 bp):
AATATAATTTTTAGAAAGTTTGGAGGTTAAAATATAATTCTTGAAAAATTTGGGAGTCAA
Found at i:14683310 original size:30 final size:29
Alignment explanation
Indices: 14683188--14683388 Score: 173
Period size: 30 Copynumber: 6.9 Consensus size: 29
14683178 CGTGAATTTG
*
14683188 GAAAGTTTGGGG-CAAAATGTAATTTTTA
1 GAAAGTTTGGGGTCAAAATATAATTTTTA
* *
14683216 G--AGTTTAGGGTC--AATATTATTTTTA
1 GAAAGTTTGGGGTCAAAATATAATTTTTA
* *
14683241 GAAAGTTTAGGGGTTAAAAT-TGAATTCTT-
1 GAAAGTTT-GGGGTCAAAATAT-AATTTTTA
*
14683270 GAAAAATTTGGGAGTCAAAATATAATTTTTA
1 G-AAAGTTTGGG-GTCAAAATATAATTTTTA
** *
14683301 GAAAGTTTGGAGGTTGAAATATAATTTTTG
1 GAAAGTTTGG-GGTCAAAATATAATTTTTA
14683331 GAAAGTTTGGGGGTCAAAATATAATTTTTA
1 GAAAGTTT-GGGGTCAAAATATAATTTTTA
* * **
14683361 GAGATTTTATAGGTCAAAATATAATTTT
1 GAAAGTTT-GGGGTCAAAATATAATTTT
14683389 GGAAACATTG
Statistics
Matches: 138, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
25 12 0.09
26 8 0.06
27 6 0.04
28 5 0.04
29 5 0.04
30 97 0.70
31 5 0.04
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (29 bp):
GAAAGTTTGGGGTCAAAATATAATTTTTA
Found at i:14690597 original size:73 final size:74
Alignment explanation
Indices: 14690509--14690694 Score: 275
Period size: 73 Copynumber: 2.5 Consensus size: 74
14690499 TATGCTAAAC
* **
14690509 AAAAAAAAATTCTGGAATTAAGGCTCTTAAGCTGCTTGGTTTAAACACAGCTCGTTTGAGCTTAC
1 AAAAAAAAAATCTGGAAGCAAGGCTCTTAAGCTGCTTGGTTTAAACACAGCTCGTTTGAGCTTAC
14690574 AAAAGAGAA
66 AAAAGAGAA
* *
14690583 TAAAAAAAAA-CTGGAAGCAAGGCTGTTAAGCTGCTTGGTTTAAACACAGCTCGTTTGAGCTTAC
1 AAAAAAAAAATCTGGAAGCAAGGCTCTTAAGCTGCTTGGTTTAAACACAGCTCGTTTGAGCTTAC
14690647 AAAAGAGAA
66 AAAAGAGAA
** * *
14690656 AACAAAAAAAATCCAGAAGCAAGGCTGTTAAGCTACTTG
1 AA-AAAAAAAATCTGGAAGCAAGGCTCTTAAGCTGCTTG
14690695 CTTTCCCTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
73 61 0.60
74 16 0.16
75 24 0.24
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (74 bp):
AAAAAAAAAATCTGGAAGCAAGGCTCTTAAGCTGCTTGGTTTAAACACAGCTCGTTTGAGCTTAC
AAAAGAGAA
Found at i:14692048 original size:17 final size:18
Alignment explanation
Indices: 14692030--14692096 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 18
14692020 GGTTTAAATT
14692030 AATTTAAATTTATTTTTA
1 AATTTAAATTTATTTTTA
*
14692048 AACTTAAATTTATCTTTTTA
1 AATTTAAATTTA--TTTTTA
**
14692068 AATTTAAATTT-GCTTTA
1 AATTTAAATTTATTTTTA
14692085 AATTTAAATTTA
1 AATTTAAATTTA
14692097 GTTAAATTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 15 0.36
18 11 0.26
20 16 0.38
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (18 bp):
AATTTAAATTTATTTTTA
Found at i:14692264 original size:15 final size:15
Alignment explanation
Indices: 14692244--14692278 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
14692234 CCACGTCAGC
14692244 TGCCACATCATCACG
1 TGCCACATCATCACG
14692259 TGCCACATCATCACG
1 TGCCACATCATCACG
14692274 T-CCAC
1 TGCCAC
14692279 GTCAGCAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.26, C:0.43, G:0.11, T:0.20
Consensus pattern (15 bp):
TGCCACATCATCACG
Found at i:14694302 original size:29 final size:30
Alignment explanation
Indices: 14694207--14694468 Score: 247
Period size: 29 Copynumber: 8.9 Consensus size: 30
14694197 TAGGGGTCCT
* *
14694207 TAAACTATCCAATAATTACA-TTTTGACCTC
1 TAAACT-TCCAAAAATTACATTTTTGACCCC
* * * *
14694237 GAAACTTCTCCAAAATCACATTTTTGACCTC
1 TAAACTTC-CAAAAATTACATTTTTGACCCC
* *
14694268 AAAACTTCCTAAAATTACATTTTTG-CCCC
1 TAAACTTCCAAAAATTACATTTTTGACCCC
* *
14694297 TAAACTT--ATAAAATTAGATTTTTGACCTC
1 TAAACTTCCA-AAAATTACATTTTTGACCCC
* *
14694326 AAAACTTCCCAAAATTACATTTTT-ACCCC
1 TAAACTTCCAAAAATTACATTTTTGACCCC
* *
14694355 TAAACTTTCAAAAATTCCA-TTTTGACCCC
1 TAAACTTCCAAAAATTACATTTTTGACCCC
*
14694384 -AAACTTCCAAAAATTACATTCTTG-CCCC
1 TAAACTTCCAAAAATTACATTTTTGACCCC
* *
14694412 TAAACTTCCAAAAATT-CTATTTTTTACCTC
1 TAAACTTCCAAAAATTAC-ATTTTTGACCCC
* *
14694442 T-AACTTCCACAAATTCCATTTTTGACC
1 TAAACTTCCAAAAATTACATTTTTGACC
14694469 TTGGAACTCT
Statistics
Matches: 192, Mismatches: 28, Indels: 25
0.78 0.11 0.10
Matches are distributed among these distances:
28 39 0.20
29 90 0.47
30 46 0.24
31 17 0.09
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (30 bp):
TAAACTTCCAAAAATTACATTTTTGACCCC
Found at i:14699700 original size:118 final size:117
Alignment explanation
Indices: 14699513--14699873 Score: 521
Period size: 118 Copynumber: 3.1 Consensus size: 117
14699503 ATTTTTGACT
* * * * * * *
14699513 TTTGAGGGTAAAAAT-GTAATTTTTGGTGAAATCGGGGTCAAAATTAGG-ATTTTGGAAGGTTCG
1 TTTGGGGGT-AAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAAT-GGAATTTTGAAAGTTTAG
14699576 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
64 -GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
*
14699631 TTTGGGGGTAAAATGGTAATTTTGGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAAGTTTAGG
1 TTTGGGGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTT-GAAAGTTTAGG
* *
14699696 GGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGGATTTTGGAAAG
65 GGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
*
14699749 TTTGGGGGTAAAATGATAATTTTGGGTGAAATCGGGGTTAAAAAT-GAGATTTTGAAAAGTTTAG
1 TTTGGGGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGA-ATTTTG-AAAGTTTAG
* * *
14699813 GGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAG
64 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
14699867 TTTGGGG
1 TTTGGGG
14699874 ACTAGAGAGC
Statistics
Matches: 221, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
117 10 0.05
118 204 0.92
119 7 0.03
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (117 bp):
TTTGGGGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAGTTTAGGG
GTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
Found at i:14699790 original size:177 final size:176
Alignment explanation
Indices: 14699513--14699873 Score: 573
Period size: 177 Copynumber: 2.0 Consensus size: 176
14699503 ATTTTTGACT
* *
14699513 TTTGAGGGTAAAAATGTAATTTTTGGTGAAATCGGGGTCAAAATTAGGATTTTGGAAGGTTCGAG
1 TTTG-GGGTAAAAATGTAATTTTTGGTGAAATCGGGGTCAAAAATAGGATTTTGGAAAGTTCGAG
* * * * *
14699578 GGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAAA
65 GGTAAAATGATAATTTTGGGTGAAATCGAGGTTAAAAATGAGATTTTGAAAAGTTTAGGGGTAAA
14699643 ATGGTAATTTTGGGTGAAATC-AGGGTTAAAAATGGAATTTTAGAAAG
130 ATGGTAATTTTGGGTGAAATCGA-GGTTAAAAATGGAATTTTAGAAAG
* * *
14699690 TTTAGGGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGGATTTTGGAAAGTTTGG
1 TTT-GGGGTAAAAAT-GTAATTTTTGGTGAAATCGGGGTCAAAAATAGGATTTTGGAAAGTTCGA
*
14699754 GGGTAAAATGATAATTTTGGGTGAAATCGGGGTTAAAAATGAGATTTTGAAAAGTTTAGGGGTAA
64 GGGTAAAATGATAATTTTGGGTGAAATCGAGGTTAAAAATGAGATTTTGAAAAGTTTAGGGGTAA
14699819 AATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAG
129 AATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAG
14699867 TTTGGGG
1 TTTGGGG
14699874 ACTAGAGAGC
Statistics
Matches: 170, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
176 9 0.05
177 159 0.94
178 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (176 bp):
TTTGGGGTAAAAATGTAATTTTTGGTGAAATCGGGGTCAAAAATAGGATTTTGGAAAGTTCGAGG
GTAAAATGATAATTTTGGGTGAAATCGAGGTTAAAAATGAGATTTTGAAAAGTTTAGGGGTAAAA
TGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAG
Found at i:14699829 original size:29 final size:28
Alignment explanation
Indices: 14699612--14699832 Score: 109
Period size: 29 Copynumber: 7.5 Consensus size: 28
14699602 ATCGAGGTTA
* *
14699612 AAAATGGGATTTTGGAAAGTTTGGGGGT
1 AAAATGGAATTTTGGAAAGTTTAGGGGT
* *
14699640 AAAATGGTAATTTTGGGTGAAA--TCAGGGTT
1 AAAATGG-AATTTT--G-GAAAGTTTAGGGGT
*
14699670 AAAAATGGAATTTTAGAAAGTTTAGGGGT
1 -AAAATGGAATTTTGGAAAGTTTAGGGGT
*
14699699 AAAATGGTAATTTTTGGTGAAA---TCGGGGT
1 AAAATGG-AA-TTTT-G-GAAAGTTTAGGGGT
* *
14699728 CAAAAATGGGATTTTGGAAAGTTTGGGGGT
1 --AAAATGGAATTTTGGAAAGTTTAGGGGT
* *
14699758 AAAATGATAATTTTGGGTGAAA---TCGGGGTT
1 AAAATG-GAATTTT--G-GAAAGTTTAGGGG-T
*
14699788 AAAAAT-GAGATTTTGAAAAGTTTAGGGGT
1 -AAAATGGA-ATTTTGGAAAGTTTAGGGGT
14699817 AAAATGGTAATTTTGG
1 AAAATGG-AATTTTGG
14699833 GTGAAATCGA
Statistics
Matches: 147, Mismatches: 18, Indels: 55
0.67 0.08 0.25
Matches are distributed among these distances:
27 11 0.07
28 27 0.18
29 42 0.29
30 34 0.23
31 21 0.14
32 12 0.08
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:14699869 original size:59 final size:58
Alignment explanation
Indices: 14699518--14699873 Score: 434
Period size: 59 Copynumber: 6.1 Consensus size: 58
14699508 TGACTTTTGA
* * * * * * *
14699518 GGGTAAAAAT-GTAATTTTTGGTGAAATCGGGGTCAAAATTAGG-ATTTTGGAAGGTTCG
1 GGGT-AAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAAT-GGAATTTTGAAAGTTTAG
* * *
14699576 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTGG
1 -GGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTT-GAAAGTTTAG
14699636 GGGTAAAATGGTAATTTTGGGTGAAATC-AGGGTTAAAAATGGAATTTTAGAAAGTTTAG
1 GGGTAAAATGGTAATTTTGGGTGAAATCGA-GGTTAAAAATGGAATTTT-GAAAGTTTAG
* * * * *
14699695 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGGATTTTGGAAAGTTTGG
1 GGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTT-GAAAGTTTAG
* *
14699754 GGGTAAAATGATAATTTTGGGTGAAATCGGGGTTAAAAAT-GAGATTTTGAAAAGTTTAG
1 GGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGA-ATTTTG-AAAGTTTAG
14699813 GGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTT-G
1 GGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTT-GAAAGTTTAG
14699871 GGG
1 GGG
14699874 ACTAGAGAGC
Statistics
Matches: 265, Mismatches: 23, Indels: 19
0.86 0.07 0.06
Matches are distributed among these distances:
58 14 0.05
59 241 0.91
60 10 0.04
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAGTTTAG
Found at i:14700254 original size:5 final size:5
Alignment explanation
Indices: 14700244--14700271 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14700234 GATCCAAAGG
14700244 CGGGT CGGGT CGGGT CGGGT CGGGT CGG
1 CGGGT CGGGT CGGGT CGGGT CGGGT CGG
14700272 TCCATGGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.61, T:0.18
Consensus pattern (5 bp):
CGGGT
Found at i:14701628 original size:6 final size:6
Alignment explanation
Indices: 14701619--14701694 Score: 52
Period size: 6 Copynumber: 13.2 Consensus size: 6
14701609 TTTATTTTTA
* *
14701619 AAATTT AAATTT ATAA--T AAATTT AAATTT -TATGT AAATTT AAATTT
1 AAATTT AAATTT A-AATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * **
14701665 AAA-AT AAATCT AATTTT AAAACT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT AAATTT A
14701695 TCTCATTGGG
Statistics
Matches: 52, Mismatches: 13, Indels: 10
0.69 0.17 0.13
Matches are distributed among these distances:
4 2 0.04
5 9 0.17
6 39 0.75
7 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:14701641 original size:17 final size:17
Alignment explanation
Indices: 14701619--14701694 Score: 89
Period size: 17 Copynumber: 4.4 Consensus size: 17
14701609 TTTATTTTTA
*
14701619 AAATTTAAATTTATAAT
1 AAATTTAAATTTAAAAT
* **
14701636 AAATTTAAATTTTATGT
1 AAATTTAAATTTAAAAT
14701653 AAATTTAAATTTAAAAT
1 AAATTTAAATTTAAAAT
* *
14701670 AAATCTAATTTTAAAACT
1 AAATTTAAATTTAAAA-T
14701688 AAATTTA
1 AAATTTA
14701695 TCTCATTGGG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
17 41 0.85
18 7 0.15
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (17 bp):
AAATTTAAATTTAAAAT
Found at i:14701658 original size:34 final size:33
Alignment explanation
Indices: 14701619--14701682 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
14701609 TTTATTTTTA
* *
14701619 AAATTTAAATTTATAATAAATTTAAATTTTATGT
1 AAATTTAAATTTAAAATAAATCT-AATTTTATGT
14701653 AAATTTAAATTTAAAATAAATCTAATTTTA
1 AAATTTAAATTTAAAATAAATCTAATTTTA
14701683 AAACTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (33 bp):
AAATTTAAATTTAAAATAAATCTAATTTTATGT
Found at i:14719631 original size:1 final size:1
Alignment explanation
Indices: 14719627--14719661 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
14719617 TCATATTACA
* *
14719627 CCCCCACCCCCCCTCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
14719662 GAGAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.03, C:0.94, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:14722112 original size:31 final size:33
Alignment explanation
Indices: 14722069--14722132 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 33
14722059 TATTAAAAAA
*
14722069 ATTAATGGATAATTAAAA-ATT-AAAAATAAAT
1 ATTAATGAATAATTAAAATATTAAAAAATAAAT
*
14722100 ATTAATGAATAATTAAAATTTTAAAAAATAAAT
1 ATTAATGAATAATTAAAATATTAAAAAATAAAT
14722133 TGAAAAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 17 0.59
32 2 0.07
33 10 0.34
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (33 bp):
ATTAATGAATAATTAAAATATTAAAAAATAAAT
Found at i:14722939 original size:3 final size:3
Alignment explanation
Indices: 14722931--14722963 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
14722921 GTGATAAAAT
*
14722931 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14722964 GTTGAAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14727419 original size:13 final size:14
Alignment explanation
Indices: 14727401--14727429 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14727391 TAAAGACTTG
14727401 ATATG-ATTAACCA
1 ATATGAATTAACCA
14727414 ATATGAATTAACCA
1 ATATGAATTAACCA
14727428 AT
1 AT
14727430 GTCACCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (14 bp):
ATATGAATTAACCA
Found at i:14737323 original size:29 final size:29
Alignment explanation
Indices: 14737281--14737338 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
14737271 TAGGAAACAT
14737281 CATAATCCACCATAAGACATCAATTACTG
1 CATAATCCACCATAAGACATCAATTACTG
*
14737310 CATAATCCACCATAAGACGTCAATTACTG
1 CATAATCCACCATAAGACATCAATTACTG
14737339 AAAGCATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.24
Consensus pattern (29 bp):
CATAATCCACCATAAGACATCAATTACTG
Done.