Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000181.1 Hibiscus syriacus cultivar Beakdansim tig00000316_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 117223
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:4734 original size:10 final size:10
Alignment explanation
Indices: 4721--4748 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4711 AATAAAATGA
4721 AAAAAAAAAG
1 AAAAAAAAAG
4731 AAAAAAAAAG
1 AAAAAAAAAG
4741 AAAAAAAA
1 AAAAAAAA
4749 TTTGTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:11712 original size:16 final size:16
Alignment explanation
Indices: 11682--11712 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11672 TAATATTGAA
*
11682 ACTTGAACTCGAAAAG
1 ACTTGAACTCAAAAAG
11698 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
11713 AAATTTAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:19709 original size:18 final size:18
Alignment explanation
Indices: 19686--19720 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19676 AATATATATT
*
19686 TAATTTTTTTATAATTTA
1 TAATTTTATTATAATTTA
19704 TAATTTTATTATAATTT
1 TAATTTTATTATAATTT
19721 TATTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TAATTTTATTATAATTTA
Found at i:22922 original size:112 final size:111
Alignment explanation
Indices: 22619--22965 Score: 565
Period size: 109 Copynumber: 3.1 Consensus size: 111
22609 TTGTCGGTTT
*
22619 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
22684 GGTCTATAAATGACAAAACATGTAAAGCGCTACCAGATATATTGAAA
66 GGTCTATAAATGACAAAACATGTAAAGCGCTACC-GATATATTGAAA
*
22731 GTGTCGATACTTTAT---AATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
22793 GGTCTATAAATGACAAAACATATAAAACGCTACCGGATGTATTGAAA
66 GGTCTATAAATGACAAAACATGTAAAGCGCTACC-GATATATTGAAA
*
22840 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * *
22905 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAATATGTTGATA
66 GGTCTATAAATGACAAAACATGTAAAGCGCTACCGATATATTGAAA
22951 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
22966 TATAAGTATC
Statistics
Matches: 217, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
109 103 0.47
111 23 0.11
112 91 0.42
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (111 bp):
GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACATGTAAAGCGCTACCGATATATTGAAA
Found at i:23215 original size:182 final size:181
Alignment explanation
Indices: 22837--23291 Score: 707
Period size: 182 Copynumber: 2.5 Consensus size: 181
22827 GGATGTATTG
*
22837 AAAGTGTCGATACTTTATAAAAATGTAT-TGATCCATAACAATATAACAGGTAAAAAAATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCT-ATCCATAACAATATAACAGGTAAAAATATGACAA
** * * *
22901 AATCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAATATGTTGATAGTGTCGATACTTTAT
65 AATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAATATGTTGAAAGTGTCGATACTTTAT
* * *
22966 TATAAGTATCAACACTTTTTGAATTTAAAAGAGAAGAAGTTATAGTGCTAAT
130 TATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
* *
23018 AAAGTGTCAATACTTTATAAAAATGTATCTATCTATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAATATGACAAA
*
23083 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAATTGTCGATACTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCA-ATATGTTGAAAGTGTCGATACTTTAT
*
23148 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCG-TCAAT
130 TATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCT-AAT
* *
23200 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAGCAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAATATGACAAA
* * *
23265 ATCAGTCTCGAAATGAAAAAATCGGTA
66 ATCGGTCTCGAAATGACAAAACCGGTA
23292 GTAGAAAATT
Statistics
Matches: 251, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
181 95 0.38
182 156 0.62
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (181 bp):
AAAGTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAATATGACAAA
ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAATATGTTGAAAGTGTCGATACTTTATT
ATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
Found at i:24655 original size:21 final size:23
Alignment explanation
Indices: 24624--24666 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
24614 TTAAATAAAA
*
24624 AAAACATGTTAT-ATTTAATTTT
1 AAAACATGTTATAATCTAATTTT
24646 AAAA-ATGTTATAATCTAATTT
1 AAAACATGTTATAATCTAATTT
24667 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (23 bp):
AAAACATGTTATAATCTAATTTT
Found at i:24909 original size:29 final size:28
Alignment explanation
Indices: 24876--24951 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
24866 CAGCTTGATT
24876 TTTAT-ATATATTAATCTAAAATTATATCG
1 TTTATCATATA-TAAT-TAAAATTATATCG
* *
24905 TTTATCGATGTATAATTTAAATTATATCG
1 TTTATC-ATATATAATTAAAATTATATCG
*
24934 TTTATCGATGTATAATTA
1 TTTATC-ATATATAATTA
24952 TGGTGTGTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 34 0.81
30 4 0.10
31 4 0.10
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.49
Consensus pattern (28 bp):
TTTATCATATATAATTAAAATTATATCG
Found at i:27133 original size:31 final size:31
Alignment explanation
Indices: 27095--27172 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
27085 TAAAAAAACA
* *
27095 TAAGTTTTGGTCACTTATGTTATTATTTTAT
1 TAAGTTTTGGTCACTTACGTTATCATTTTAT
* *
27126 TAAGTTTTGATCACTTACGTTATCGTTTTAT
1 TAAGTTTTGGTCACTTACGTTATCATTTTAT
*
27157 TAAGTTTTGGCCACTT
1 TAAGTTTTGGTCACTT
27173 GGATGTTGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.53
Consensus pattern (31 bp):
TAAGTTTTGGTCACTTACGTTATCATTTTAT
Found at i:27481 original size:27 final size:30
Alignment explanation
Indices: 27443--27516 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
27433 TTGGGTCGGG
*
27443 TTCGGGTCGGGT-GGATG-ATATAT-ATTT
1 TTCGGGTCGGGTCGGATGAATATATAAATT
27470 TTCGGGTCGGGTCGGATGAAATATATACAATT
1 TTCGGGTCGGGTCGGATG-AATATATA-AATT
27502 TTCGGGTCGGGTCGG
1 TTCGGGTCGGGTCGG
27517 CTGGAACCCG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 12 0.29
28 5 0.12
30 6 0.15
32 18 0.44
ACGTcount: A:0.19, C:0.12, G:0.35, T:0.34
Consensus pattern (30 bp):
TTCGGGTCGGGTCGGATGAATATATAAATT
Found at i:27481 original size:32 final size:31
Alignment explanation
Indices: 27438--27521 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 31
27428 AAAAGTTGGG
* * *
27438 TCGGGTTCGGGTCGGGTGGATGATATATATTTT
1 TCGGG-TCGGGTCGGATGGAT-ATATACAATTT
*
27471 TCGGGTCGGGTCGGATGAAATATATACAATTT
1 TCGGGTCGGGTCGGATG-GATATATACAATTT
*
27503 TCGGGTCGGGTCGGCTGGA
1 TCGGGTCGGGTCGGATGGA
27522 ACCCGGCCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
31 1 0.02
32 36 0.82
33 7 0.16
ACGTcount: A:0.18, C:0.13, G:0.37, T:0.32
Consensus pattern (31 bp):
TCGGGTCGGGTCGGATGGATATATACAATTT
Found at i:28053 original size:2 final size:2
Alignment explanation
Indices: 28046--28076 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
28036 TTTATTGTTC
28046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28077 AAAGATAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30099 original size:5 final size:5
Alignment explanation
Indices: 30089--30113 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30079 TATATTTCAC
30089 CTTTG CTTTG CTTTG CTTTG CTTTG
1 CTTTG CTTTG CTTTG CTTTG CTTTG
30114 AGTTGTTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.20, T:0.60
Consensus pattern (5 bp):
CTTTG
Found at i:32983 original size:65 final size:65
Alignment explanation
Indices: 32823--32983 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
32813 TTGTTTAAGG
* * * ** *
32823 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATATGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
32886 A
65 A
*
32887 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
32951 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
32984 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:33498 original size:18 final size:18
Alignment explanation
Indices: 33475--33509 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33465 CTAGGAGATT
33475 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
33493 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
33510 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:33844 original size:2 final size:2
Alignment explanation
Indices: 33837--33894 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
33827 TGAACATGTG
33837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33879 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
33895 GTCTAAGAGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34610 original size:23 final size:23
Alignment explanation
Indices: 34577--34621 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34567 ATTATTATAT
*
34577 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
34600 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
34622 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:37817 original size:64 final size:63
Alignment explanation
Indices: 37732--37892 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 63
37722 TTGTTTAAGG
* * * * *
37732 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATATGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * *
37796 TGCATCGATGCATAAGGAGTGCATTGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
*
37860 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
37893 ACCTTCATTA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
63 1 0.01
64 60 0.72
65 21 0.25
66 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:38891 original size:23 final size:23
Alignment explanation
Indices: 38855--38899 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
38845 ATTATTATAT
*
38855 GGCACTACGCTGCAATTCTACGC
1 GGCACTACGCTGCAATTATACGC
* *
38878 GGCACTTCGGTGCAATTATACG
1 GGCACTACGCTGCAATTATACG
38900 AGTTACAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.24
Consensus pattern (23 bp):
GGCACTACGCTGCAATTATACGC
Found at i:47482 original size:3 final size:3
Alignment explanation
Indices: 47476--47508 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
47466 TAAGATGACG
47476 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47509 CGATAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:47500 original size:35 final size:35
Alignment explanation
Indices: 47442--47514 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
47432 CAAAAATTTG
* *
47442 TAATAATAAATAAAAATAAAATAATAAGATGACGA
1 TAATAATAAATAAAAATAAAATAATAAAATAACGA
*
47477 TAATAAT-AATAATAATAATAATAATAAAATAACGA
1 TAATAATAAATAAAAATAA-AATAATAAAATAACGA
47512 TAA
1 TAA
47515 AAAACCCGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (35 bp):
TAATAATAAATAAAAATAAAATAATAAAATAACGA
Found at i:47766 original size:43 final size:43
Alignment explanation
Indices: 47719--48043 Score: 245
Period size: 43 Copynumber: 7.6 Consensus size: 43
47709 ATAACACGAT
* *
47719 TCCTACGTGACGAGGACG-GCTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGGTTATCTATGGTTGACACGGC
** *
47762 TCCTACGTGATGAGGAGATCTGG---TCTGGGGATGACACGGC
1 TCCTACGTGATGAGGAGATCTGGTTATCTATGGTTGACACGGC
* * * ** * * * *
47802 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGT
1 TCCTACGTGATGAGGAGATCTGGTTATCT-ATGGT--TGACACGGC
*
47848 TCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGGTTATCTATGGTTGACACGGC
** *
47891 TCCTACGTGATGAGGAGATCTGG---TCTGGGGATGACACGGC
1 TCCTACGTGATGAGGAGATCTGGTTATCTATGGTTGACACGGC
* * * ** * * * *
47931 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGT
1 TCCTACGTGATGAGGAGATCTGGTTATCT-ATGGT--TGACACGGC
*
47977 TCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGGTTATCTATGGTTGACACGGC
*
48020 TCCTACGTGATGAAGAGATCTGGT
1 TCCTACGTGATGAGGAGATCTGGT
48044 CGGGGAATGA
Statistics
Matches: 218, Mismatches: 47, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
40 68 0.31
42 3 0.01
43 77 0.35
44 4 0.02
45 8 0.04
46 56 0.26
47 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (43 bp):
TCCTACGTGATGAGGAGATCTGGTTATCTATGGTTGACACGGC
Found at i:47809 original size:40 final size:41
Alignment explanation
Indices: 47753--48082 Score: 231
Period size: 40 Copynumber: 7.8 Consensus size: 41
47743 TATCTATGGT
*
47753 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGGA
* * *
47793 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATCT---GGGGA
* * * * * ** *
47839 TAACATGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATCTGGGGA
*
47882 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGGA
* * *
47922 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATCT---GGGGA
* * * * * ** *
47968 TAACATGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATCTGGGGA
48011 TGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GGGGAA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGG-A
* *
48051 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG
48083 CCATCTAAAG
Statistics
Matches: 224, Mismatches: 49, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
39 2 0.01
40 95 0.42
42 2 0.01
43 59 0.26
46 64 0.29
47 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (41 bp):
TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGGA
Found at i:47871 original size:86 final size:85
Alignment explanation
Indices: 47755--48121 Score: 286
Period size: 86 Copynumber: 4.3 Consensus size: 85
47745 TCTATGGTTG
47755 ACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGAGT
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGAGT
47820 TCTGGCCATCTAAAGGTGATA
66 TCTGGCCATCT-AAGGTGATA
* * * ** * * *
47841 ACATGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAG
1 ACACGGCTCCTACGTGATGAGGA-GATCTGG---TCTGGGGATGACACGGCTCATACGTGATGAA
* * *
47905 GAGATCTGG---TCT--GGGGATG
62 GAGTTCTGGCCATCTAAGGTGATA
* * * * * * * *
47924 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCCTACGTGATG
1 ACACGGCTCCTACGTGATGAGGAGATCTGG---TCT---GGGGATGACACGGCTCATACGTGATG
* * ** * *
47989 AGGACG-GCTGGTTATCTATGGT--TG
60 AAGA-GTTCTGGCCATCTAAGGTGATA
*
48013 ACACGGCTCCTACGTGATGAAGAGATCTGGTC-GGGGAATGACACGGCTCATACGTGATGAAGAG
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGG-ATGACACGGCTCATACGTGATGAAGAG
48077 TTCTGGCCATCTAAAGGTGATA
65 TTCTGGCCATCT-AAGGTGATA
* *
48099 ACACGGTTCCTACGTGACGAGGA
1 ACACGGCTCCTACGTGATGAGGA
48122 CGGCTGGTTA
Statistics
Matches: 219, Mismatches: 43, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
82 5 0.02
83 61 0.28
84 4 0.02
86 78 0.36
87 2 0.01
89 67 0.31
91 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (85 bp):
ACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGAGT
TCTGGCCATCTAAGGTGATA
Found at i:47888 original size:129 final size:129
Alignment explanation
Indices: 47658--48134 Score: 832
Period size: 129 Copynumber: 3.7 Consensus size: 129
47648 TATTGGTTGT
* * * * *
47658 TGGGGACGACACTGCTCATACGTGATGAAGAGTT-TGGGTCGTCTAAAGGTGATAACACGATTCC
1 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCT-GGCCATCTAAAGGTGATAACACGGTTCC
47722 TACGTGACGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
65 TACGTGACGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
*
47787 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCCT
1 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCT
*
47852 ACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
66 ACGTGACGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
*
47916 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCCT
1 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCT
* *
47981 ACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTC
66 ACGTGACGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
48045 -GGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCC
1 TGGGG-ATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCC
48109 TACGTGACGAGGACGGCTGGTTATCT
65 TACGTGACGAGGACGGCTGGTTATCT
48135 CTAGGATAAT
Statistics
Matches: 336, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
128 4 0.01
129 331 0.99
130 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (129 bp):
TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCT
ACGTGACGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
Found at i:48519 original size:35 final size:36
Alignment explanation
Indices: 48472--48554 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 36
48462 ACAAAATTCA
**
48472 TTTCAAGAGAAAC-GATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGAGAAACAGAT-TCAAAGATGGTAAATTTTG
*
48507 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
48543 TTTCCAA-AGAAA
1 TTT-CAAGAGAAA
48555 TAAACTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 20 0.49
36 18 0.44
37 3 0.07
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (36 bp):
TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
Found at i:48956 original size:40 final size:40
Alignment explanation
Indices: 48912--48991 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
48902 GTTTTAATAG
*
48912 AAACGATATCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
*
48952 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
48992 CGAGAGACGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (40 bp):
AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
Found at i:49084 original size:67 final size:67
Alignment explanation
Indices: 48993--49318 Score: 559
Period size: 67 Copynumber: 4.9 Consensus size: 67
48983 AAGTTGTCTC
* * *
48993 GAGAGACGAAATTTTTGTTT-CAAAGGAAACAAACTCAGAGA-TTTT-TTTCAAAAGAAATTGTC
1 GAGAGAC-AAAATTTTGTTTCCAAA-GAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATC
49055 TTTAA
64 -TTAA
49060 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
49125 AA
66 AA
49127 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
49192 AA
66 AA
*
49194 GAGAGACAAAATTTTGTTTTCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
49259 AA
66 AA
*
49261 AAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
49319 CAATCTCAAA
Statistics
Matches: 250, Mismatches: 6, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
66 26 0.10
67 208 0.83
68 16 0.06
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (67 bp):
GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
AA
Found at i:49112 original size:29 final size:29
Alignment explanation
Indices: 49071--49551 Score: 151
Period size: 30 Copynumber: 15.6 Consensus size: 29
49061 AGAGACAAAA
49071 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTT-CAAAGAAACAAACTCAAAGAT
** * * *
49101 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTC-AAAGAAACAAAC-TCA-A-AG----AT
49138 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTT-CAAAGAAACAAACTCAAAGAT
** * * *
49168 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTC-AAAGAAACAAAC-TCA-A-AG----AT
49205 TTTTGTTTTCAAAGAAACAAACTCAAAGAT
1 TTTTG-TTTCAAAGAAACAAACTCAAAGAT
** * * *
49235 TTTTGTTTCAAAAGAAATTATCTTAAAAGAGACAAAA
1 TTTTGTTTC-AAAGAAACAAAC-T-CAA-AG----AT
49272 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTT-CAAAGAAACAAACTCAAAGAT
*
49302 TTTTGTTTCAAAAGAAACAATCTCAAAGA-
1 TTTTGTTTC-AAAGAAACAAACTCAAAGAT
* **** *
49331 TTTT-TTTCACA-AAATTGTCTCAAGGGAGACAAAA
1 TTTTGTTTCAAAGAAACAAACTCAA---AG----AT
* * * *
49365 CTTTGTTTCAAAGTAAATAGACTCGAAGA-
1 TTTTGTTTCAAAG-AAACAAACTCAAAGAT
*
49394 TTTT-TTTCAAACGAAAC-AACTCACAGAT
1 TTTTGTTTCAAA-GAAACAAACTCAAAGAT
* * * *
49422 TTTTATTCCAAAGGAACAAACTCCAAGAT
1 TTTTGTTTCAAAGAAACAAACTCAAAGAT
* *
49451 TTTT-ATTCAAAAGGAACAAACTCAAAGA-
1 TTTTGTTTC-AAAGAAACAAACTCAAAGAT
*
49479 -TTT-TTTCAAGAGGAACAAACTCAAAGA-
1 TTTTGTTTCAA-AGAAACAAACTCAAAGAT
* *
49506 -CTT-TTTCAAGAGGAACAAACTCAAAGAT
1 TTTTGTTTCAA-AGAAACAAACTCAAAGAT
*
49534 TTTTTTTCTCAAAAGAAA
1 TTTTGTT-TC-AAAGAAA
49552 TTGTCTTTAA
Statistics
Matches: 345, Mismatches: 56, Indels: 99
0.69 0.11 0.20
Matches are distributed among these distances:
26 11 0.03
27 58 0.17
28 24 0.07
29 56 0.16
30 80 0.23
31 11 0.03
32 6 0.02
33 7 0.02
34 11 0.03
35 10 0.03
36 5 0.01
37 60 0.17
38 6 0.02
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (29 bp):
TTTTGTTTCAAAGAAACAAACTCAAAGAT
Found at i:49152 original size:37 final size:36
Alignment explanation
Indices: 49101--49288 Score: 141
Period size: 37 Copynumber: 5.5 Consensus size: 36
49091 ACTCAAAGAT
49101 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAATTATCTTAA-AGAGACAAAA
* ** * * *
49138 TTTTGTTTCCAAAGAAACAAAC-TCAA-AG----AT
1 TTTTGTTTCAAAAGAAATTATCTTAAAGAGACAAAA
49168 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAATTATCTTAA-AGAGACAAAA
** * * *
49205 TTTTGTTTTC-AAAGAAACAAAC-TCAA-AG----AT
1 TTTTG-TTTCAAAAGAAATTATCTTAAAGAGACAAAA
49235 TTTTGTTTCAAAAGAAATTATCTTAAAAGAGACAAAA
1 TTTTGTTTCAAAAGAAATTATCTT-AAAGAGACAAAA
*
49272 TTTTGTTTCCAAAGAAA
1 TTTTGTTTCAAAAGAAA
49289 CAAACTCAAA
Statistics
Matches: 112, Mismatches: 23, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
29 4 0.04
30 34 0.30
31 3 0.03
32 3 0.03
33 4 0.04
34 4 0.04
35 2 0.02
36 4 0.04
37 50 0.45
38 4 0.04
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (36 bp):
TTTTGTTTCAAAAGAAATTATCTTAAAGAGACAAAA
Found at i:49339 original size:28 final size:28
Alignment explanation
Indices: 49267--49539 Score: 180
Period size: 27 Copynumber: 9.5 Consensus size: 28
49257 TTAAAAGAGA
*
49267 CAAA-ATTTTGTTTCCAAAGAAACAAACT
1 CAAAGATTTT-TTTCAAAAGAAACAAACT
*
49295 CAAAGATTTTTGTTTCAAAAGAAACAATCT
1 CAAAGA-TTTT-TTTCAAAAGAAACAAACT
*** **
49325 CAAAGATTTTTTTCACAAAATTGTCTCAAGGGAGA
1 CAAAGATTTTTTT--CAAAA--GAAACAA---ACT
* * *
49360 CAAA-ACTTTGTTTC-AAAGTAAATAGACT
1 CAAAGA-TTTTTTTCAAAAG-AAACAAACT
* *
49388 CGAAGATTTTTTTCAAACGAAAC-AACT
1 CAAAGATTTTTTTCAAAAGAAACAAACT
* * *
49415 CACAGATTTTTATTCCAAAGGAACAAACT
1 CAAAGATTTTT-TTCAAAAGAAACAAACT
* *
49444 CCAAGATTTTTATTCAAAAGGAACAAACT
1 CAAAGATTTTT-TTCAAAAGAAACAAACT
* *
49473 CAAAGA-TTTTTTCAAGAGGAACAAACT
1 CAAAGATTTTTTTCAAAAGAAACAAACT
* * *
49500 CAAAGA-CTTTTTCAAGAGGAACAAACT
1 CAAAGATTTTTTTCAAAAGAAACAAACT
49527 CAAAGATTTTTTT
1 CAAAGATTTTTTT
49540 TCTCAAAAGA
Statistics
Matches: 196, Mismatches: 33, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
27 60 0.31
28 39 0.20
29 44 0.22
30 33 0.17
31 1 0.01
32 7 0.04
33 1 0.01
34 1 0.01
35 10 0.05
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (28 bp):
CAAAGATTTTTTTCAAAAGAAACAAACT
Found at i:49423 original size:27 final size:27
Alignment explanation
Indices: 49385--49539 Score: 181
Period size: 27 Copynumber: 5.6 Consensus size: 27
49375 AAGTAAATAG
* *
49385 ACTCGAAGATTTTTTTCAAACGAA-ACA
1 ACTCAAAGATTTTTTTCAAAGGAACA-A
*
49412 ACTCACAGATTTTTATTCCAAAGGAACAA
1 ACTCAAAGATTTTT-TT-CAAAGGAACAA
*
49441 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTC-AAAGGAACAA
49470 ACTCAAAGA-TTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAA-AGGAACAA
*
49497 ACTCAAAGA-CTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAA-AGGAACAA
49524 ACTCAAAGATTTTTTT
1 ACTCAAAGATTTTTTT
49540 TCTCAAAAGA
Statistics
Matches: 114, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.02
27 58 0.51
28 12 0.11
29 41 0.36
30 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (27 bp):
ACTCAAAGATTTTTTTCAAAGGAACAA
Found at i:49452 original size:56 final size:55
Alignment explanation
Indices: 49385--49539 Score: 183
Period size: 56 Copynumber: 2.8 Consensus size: 55
49375 AAGTAAATAG
* * *
49385 ACTCGAAGATTTTTTTCAAACGAA-ACAACTCACAGATTTTTATTCCAAAGGAACAA
1 ACTCAAAGATTTTTTTCAAAGGAACA-AACTCAAAGATTTTT-TTCCAAAGGAACAA
*
49441 ACTCCAAGATTTTTATTCAAAAGGAACAAACTCAAAGA-TTTTTT-CAAGAGGAACAA
1 ACTCAAAGATTTTT-TTC-AAAGGAACAAACTCAAAGATTTTTTTCCAA-AGGAACAA
*
49497 ACTCAAAGA-CTTTTTCAAGAGGAACAAACTCAAAGATTTTTTT
1 ACTCAAAGATTTTTTTCAA-AGGAACAAACTCAAAGATTTTTTT
49540 TCTCAAAAGA
Statistics
Matches: 88, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
53 2 0.02
54 20 0.23
55 12 0.14
56 31 0.35
57 7 0.08
58 15 0.17
59 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (55 bp):
ACTCAAAGATTTTTTTCAAAGGAACAAACTCAAAGATTTTTTTCCAAAGGAACAA
Found at i:49911 original size:36 final size:34
Alignment explanation
Indices: 49819--49913 Score: 93
Period size: 36 Copynumber: 2.7 Consensus size: 34
49809 TTAAGATATA
* * **
49819 GTCTCAAATGAGACAATTTGTTTTTAGTGAAATT
1 GTCTCAAGTGAGACAATTTGTTTTTAGAGAAAAC
*
49853 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGAC-AA-TTTGTTTTTAGAGAAAAC
49888 GATCTCAAGTGAGATCAACTTTGTTT
1 G-TCTCAAGTGAGA-CAA-TTTGTTT
49914 AATGTGAAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
34 12 0.24
35 8 0.16
36 29 0.58
37 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.36
Consensus pattern (34 bp):
GTCTCAAGTGAGACAATTTGTTTTTAGAGAAAAC
Found at i:50053 original size:105 final size:101
Alignment explanation
Indices: 49847--50085 Score: 268
Period size: 105 Copynumber: 2.3 Consensus size: 101
49837 TGTTTTTAGT
* *
49847 GAAATTGTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTG
1 GAAAATGTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTG
*
49911 TTTAATGTGAAACAAATTCGAAATTTGGATCTAAAAGG
64 TTTAATGTGAAACAAATTCAAAATTTGGATCTAAAAGG
* * *
49949 GAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGTGATTAATT
1 GAAAATGTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACT
* * * * *
50013 TTGTTT-TTAGTGAATCAGATTCAAAATTTGTATCTCAAAGG
61 TTGTTTAAT-GTGAAACAAATTCAAAATTTGGATCTAAAAGG
* *
50054 AAAAATGTCTCAAGCGAGACGCAATTTGTTTT
1 GAAAATGTCTCAAGCGAGACGAAATTTGTTTT
50086 AAAATTCTCA
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
101 5 0.04
102 23 0.20
103 5 0.04
104 5 0.04
105 79 0.68
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (101 bp):
GAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTT
TAATGTGAAACAAATTCAAAATTTGGATCTAAAAGG
Found at i:52361 original size:26 final size:24
Alignment explanation
Indices: 52331--52401 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 24
52321 CAAGGTGGAA
52331 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
* *
52355 AGGGAATGTTTCAAGGTC-GAAA-A-
1 A--GAATATTTCAAGGTCTCAAAGAG
52378 A-AATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
52401 A
1 A
52402 TAGAATGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
20 13 0.34
21 3 0.08
22 1 0.03
23 2 0.05
24 2 0.05
25 3 0.08
26 14 0.37
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (24 bp):
AGAATATTTCAAGGTCTCAAAGAG
Found at i:52408 original size:46 final size:45
Alignment explanation
Indices: 52316--52408 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 45
52306 ATAAATACAG
* * *
52316 TGTTTCAAGGTGGAAAGAATATTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAAAATATTTCAAGGTCTCAAAGAGAGAGAA
*
52361 TGTTTCAAGGTCGAAAAAAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAAAATATTTCAAGGTCTCAAAGAGAGAGAA
52407 TG
1 TG
52409 CCAAAAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 11 0.26
46 32 0.74
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.26
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAAAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:53872 original size:31 final size:32
Alignment explanation
Indices: 53816--53877 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
53806 TGACAAAATG
53816 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
53848 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
53878 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:57921 original size:3 final size:3
Alignment explanation
Indices: 57915--57947 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
57905 TAAGATGACG
57915 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
57948 CGATAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:60818 original size:19 final size:20
Alignment explanation
Indices: 60787--60833 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
60777 AATAAAGATT
60787 AAGATAATAAAGA-TAA-ATA
1 AAGATAA-AAAGATTAACATA
60806 AAGATAAAGAAGATTAACATA
1 AAGATAAA-AAGATTAACATA
60827 AA-ATAAA
1 AAGATAAA
60834 TTATTGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 11 0.44
20 8 0.32
21 5 0.20
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.19
Consensus pattern (20 bp):
AAGATAAAAAGATTAACATA
Found at i:60827 original size:25 final size:26
Alignment explanation
Indices: 60777--60833 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
60767 GCTAACCAAG
* *
60777 AATAAAGATTAAGATAATAAAGAT-A
1 AATAAAGATAAAGATAATAAACATAA
*
60802 AATAAAGATAAAGA-AGATTAACATAA
1 AATAAAGATAAAGATA-ATAAACATAA
60828 AATAAA
1 AATAAA
60834 TTATTGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 19 0.70
26 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.11, T:0.21
Consensus pattern (26 bp):
AATAAAGATAAAGATAATAAACATAA
Found at i:65132 original size:279 final size:280
Alignment explanation
Indices: 64571--65142 Score: 1022
Period size: 279 Copynumber: 2.0 Consensus size: 280
64561 AACCTTCAGC
64571 CCTTCAGGTGAAGTTTATTTTCTTTTTTCAACGCCATTTCTTTCATTTTTCATTTCAAGATCCTT
1 CCTTCAGGTGAAGTTTATTTTCTTTTTTCAACGCCATTTCTTTCATTTTTCATTTCAAGATCCTT
* *
64636 CCCTTGCCTCTTTCATTTCTTTTTTATTTTTATTTTCCCCTTCGCCGTTTCCTTCGATTCGTCTT
66 CCCTTGCCTCTTTCATTTCTTTTTTATTCTTATTTTCCCCTTCGCCGTTTCCTTCAATTCGTCTT
* * * * *
64701 TCAAGTTCCTTGCTTTTGCTTTTTCATTTCCTTTTCATTTTTTTTGGTTTTTTTAATCGCCATTT
131 TCAAGTTCCTTCCTTTTGCTCTTTCATTTCCATTTCACTTTTTTTGGTTTTTTTAATAGCCATTT
*
64766 CTTTTATTTCCTTTTCAAGTTCATTTGTTTTGCAGGTATGGCAGTTCCTCCACCACCAGGGTTTA
196 CTTTCATTTCCTTTTCAAGTTCATTTGTTTTGCAGGTATGGCAGTTCCTCCACCACCAGGGTTTA
*
64831 CTATCAAAACCGAAATGCAA
261 CTATCAAAACCGAAAGGCAA
64851 CCTTCAGGTGAAGTTTATTTTCTTTTTTCAACGCCATTTCTTTCATTTTTCATTTCAAGATCCTT
1 CCTTCAGGTGAAGTTTATTTTCTTTTTTCAACGCCATTTCTTTCATTTTTCATTTCAAGATCCTT
*
64916 CCTTTGCCTCTTTCATTTCTTTTTTATTCTTATTTTCCCCCTTCGCCGTTTCCTTCAATTCGTCT
66 CCCTTGCCTCTTTCATTTCTTTTTTATTCTTATTTT-CCCCTTCGCCGTTTCCTTCAATTCGTCT
*
64981 TTCAAGTTCCTTCCTTTTGCTCTTTCATTT-CATTTC-CTTTTTTTGGTTTTTTTATTAGCCATT
130 TTCAAGTTCCTTCCTTTTGCTCTTTCATTTCCATTTCACTTTTTTTGGTTTTTTTAATAGCCATT
65044 TCTTTCATTTCCTTTTCAAGTTCATTTGTTTTGCAGGTATGGCAGTTCCTCCACCACCAGGGTTT
195 TCTTTCATTTCCTTTTCAAGTTCATTTGTTTTGCAGGTATGGCAGTTCCTCCACCACCAGGGTTT
65109 ACTATCAAAACCGAAAGGCAA
260 ACTATCAAAACCGAAAGGCAA
65130 CCTTCAGGTGAAG
1 CCTTCAGGTGAAG
65143 ATGCATTTGC
Statistics
Matches: 280, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
279 121 0.43
280 104 0.37
281 55 0.20
ACGTcount: A:0.16, C:0.24, G:0.11, T:0.49
Consensus pattern (280 bp):
CCTTCAGGTGAAGTTTATTTTCTTTTTTCAACGCCATTTCTTTCATTTTTCATTTCAAGATCCTT
CCCTTGCCTCTTTCATTTCTTTTTTATTCTTATTTTCCCCTTCGCCGTTTCCTTCAATTCGTCTT
TCAAGTTCCTTCCTTTTGCTCTTTCATTTCCATTTCACTTTTTTTGGTTTTTTTAATAGCCATTT
CTTTCATTTCCTTTTCAAGTTCATTTGTTTTGCAGGTATGGCAGTTCCTCCACCACCAGGGTTTA
CTATCAAAACCGAAAGGCAA
Found at i:68110 original size:14 final size:16
Alignment explanation
Indices: 68084--68146 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 16
68074 TTATATCTCA
68084 TCTT-ATTTCTCTTC-
1 TCTTCATTTCTCTTCT
68098 TCTTCATTTTCTTCTTCT
1 TCTTCA-TTTC-TCTTCT
*
68116 TCTTCGTTTCTTCTT-T
1 TCTTCATTTC-TCTTCT
68132 TCTTTCATCTTCTCT
1 TC-TTCAT-TTCTCT
68147 AAGTAGCCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 4 0.10
15 1 0.02
16 7 0.17
17 21 0.51
18 8 0.20
ACGTcount: A:0.05, C:0.29, G:0.02, T:0.65
Consensus pattern (16 bp):
TCTTCATTTCTCTTCT
Found at i:68128 original size:8 final size:8
Alignment explanation
Indices: 68089--68135 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
68079 TCTCATCTTA
68089 TTTC-TCT
1 TTTCTTCT
*
68096 TCTCTTCAT
1 TTTCTTC-T
68105 TTTCTTCT
1 TTTCTTCT
*
68113 TCTTCTTCG
1 T-TTCTTCT
68122 TTTCTTCT
1 TTTCTTCT
68130 TTTCTT
1 TTTCTT
68136 TCATCTTCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
7 3 0.09
8 16 0.48
9 14 0.42
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (8 bp):
TTTCTTCT
Found at i:75320 original size:55 final size:56
Alignment explanation
Indices: 75243--75347 Score: 203
Period size: 55 Copynumber: 1.9 Consensus size: 56
75233 AGGAAGAAAC
75243 ATGACAGTAAAAATTTATTATAGCGTCGGGATGATTAGGAGCAG-AAAAAGGAACG
1 ATGACAGTAAAAATTTATTATAGCGTCGGGATGATTAGGAGCAGTAAAAAGGAACG
75298 ATGACAGTAAAAATTTATTATAGCGTCGGGATGATTAGGAGCAGTAAAAA
1 ATGACAGTAAAAATTTATTATAGCGTCGGGATGATTAGGAGCAGTAAAAA
75348 TCTAGAAGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 44 0.90
56 5 0.10
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.24
Consensus pattern (56 bp):
ATGACAGTAAAAATTTATTATAGCGTCGGGATGATTAGGAGCAGTAAAAAGGAACG
Found at i:76644 original size:21 final size:21
Alignment explanation
Indices: 76618--76662 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
76608 GATTTCTGGG
* *
76618 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
76639 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
76660 CAA
1 CAA
76663 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:77267 original size:18 final size:18
Alignment explanation
Indices: 77244--77278 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
77234 CTAGGAGATT
77244 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
77262 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
77279 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:77364 original size:21 final size:22
Alignment explanation
Indices: 77335--77378 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
77325 GTTGTATGAT
77335 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
77356 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
77378 A
1 A
77379 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:77613 original size:2 final size:2
Alignment explanation
Indices: 77606--77637 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
77596 GAACATGTGA
77606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77638 GTCTAAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78344 original size:149 final size:149
Alignment explanation
Indices: 78174--78477 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
78164 GAGTCGAGGG
*
78174 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTAGAACATGTGTGAAGTCTGGAAAGACACAT
*
78239 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCATTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCATTATGGACATCATTA
78304 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
78323 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTAGAACATGTGTGAAGTCTGGGAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTAGAACATGTGTGAAGTCTGGAAAGACACAT
* *
78388 ACTTGGTCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCATTATGGACATCATTA
78453 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
78472 TCTACG
1 TCTACG
78478 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTAGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCATTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:78500 original size:23 final size:23
Alignment explanation
Indices: 78456--78500 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
78446 ATCATTATAT
*
78456 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
78479 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
78501 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:81793 original size:21 final size:21
Alignment explanation
Indices: 81767--81811 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
81757 GATTTCTGGG
* *
81767 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
81788 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
81809 CAA
1 CAA
81812 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:82416 original size:18 final size:18
Alignment explanation
Indices: 82393--82427 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
82383 CTAGGAGATT
82393 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
82411 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
82428 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:82513 original size:21 final size:22
Alignment explanation
Indices: 82484--82527 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
82474 GTTGTATGAT
82484 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
82505 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
82527 A
1 A
82528 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:82670 original size:2 final size:2
Alignment explanation
Indices: 82663--82694 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
82653 AATCTTGAGG
82663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82695 GAAATGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83497 original size:149 final size:149
Alignment explanation
Indices: 83317--83620 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
83307 GAGTCGAGGG
83317 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
83382 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATAGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATAGACATCATTA
83447 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
83466 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGGAAGACATAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
83531 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATAGACATCATTA
83596 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
83615 TCTACG
1 TCTACG
83621 GGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATAGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:83643 original size:23 final size:23
Alignment explanation
Indices: 83599--83643 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
83589 ATCATTATAT
*
83599 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
83622 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
83644 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:87417 original size:31 final size:31
Alignment explanation
Indices: 87354--87417 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
87344 ACTTTTTTTT
* *
87354 AAAAAATTAAATAGGTTCTCAAACTTTCTAA
1 AAAAAATTAAATAGGTCCTCAAACTTACTAA
* *
87385 AAAAAATTAATTA-GTCCTTCAAACTTAGTAA
1 AAAAAATTAAATAGGTCC-TCAAACTTACTAA
87416 AA
1 AA
87418 TAAACAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (31 bp):
AAAAAATTAAATAGGTCCTCAAACTTACTAA
Found at i:91468 original size:23 final size:23
Alignment explanation
Indices: 91442--91486 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
91432 CACCACAGCT
*
91442 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
91465 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
91487 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:91704 original size:149 final size:149
Alignment explanation
Indices: 91454--91768 Score: 551
Period size: 149 Copynumber: 2.1 Consensus size: 149
91444 TATAATTGCA
91454 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTA
*
91518 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATAATAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* *
91583 CCACAGAATATATATATATC
130 CCAAAGAATATACATATATC
**
91603 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTAT
91668 TCCTTAAGAATCATATACATATAATAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATAATAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
91733 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
*
91752 CCGAAAGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
91769 CCCTCGACTC
Statistics
Matches: 158, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 157 0.99
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATAATAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:91888 original size:14 final size:14
Alignment explanation
Indices: 91869--91896 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
91859 AACTTGTAAT
91869 TCACGTATCACATA
1 TCACGTATCACATA
91883 TCACGTATCACATA
1 TCACGTATCACATA
91897 GCTTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
TCACGTATCACATA
Found at i:96769 original size:31 final size:31
Alignment explanation
Indices: 96727--96917 Score: 337
Period size: 31 Copynumber: 6.2 Consensus size: 31
96717 GGTCACAATA
*
96727 TAAACTATTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
96758 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
96789 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
96820 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
96851 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
96882 TAAACTGTTCATATGTGCCTTCAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
96913 TAAAC
1 TAAAC
96918 CCTCGACTCT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 154 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:97534 original size:64 final size:64
Alignment explanation
Indices: 97426--97602 Score: 196
Period size: 64 Copynumber: 2.8 Consensus size: 64
97416 TAATGAAGGT
* * * ** ** * * **
97426 ATGCATCGATGCACTACTGATGCAGCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-GTCACTATTAATGGG
* *
97490 ATGCATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTGTCACTATTAATGGG
*
97554 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
97603 CTTTATTTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
63 2 0.02
64 93 0.98
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTGTCACTATTAATGGG
Found at i:97623 original size:64 final size:64
Alignment explanation
Indices: 97489--97634 Score: 190
Period size: 64 Copynumber: 2.3 Consensus size: 64
97479 TTATTGCTGG
* * *
97489 GATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAAAGA
* * *
97553 GATGCATCGATGCACTACTTATGCATCGATGCA-TGAATTGCATTCGATGTCTTTA-TTTTAAA-
1 GATGCATCGATGCACTACTTATGCATCGATGCACCG-ATTGCATTCGATGT-TTCACTATTAAAG
97615 A
64 A
97616 GAGTGCATCGATGCACTAC
1 GA-TGCATCGATGCACTAC
97635 CAAAGCATCG
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
63 3 0.04
64 67 0.92
65 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (64 bp):
GATGCATCGATGCACTACTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAAAGA
Found at i:100266 original size:31 final size:31
Alignment explanation
Indices: 100221--100473 Score: 461
Period size: 31 Copynumber: 8.2 Consensus size: 31
100211 GGTCACAATA
* *
100221 TAAACTATTCATATGTGCCTTTAAACATGTG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
100252 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
100283 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
100314 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
100345 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
100376 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
100407 TAAACTGTTCATATATGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
100438 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
100469 TAAAC
1 TAAAC
100474 CCTCGACTCT
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 214 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:100328 original size:15 final size:15
Alignment explanation
Indices: 100308--100391 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
100298 TGCCTTTAAA
100308 CATATGTAAACTGTT
1 CATATGTAAACTGTT
**
100323 CATATGT-GCCT-TT
1 CATATGTAAACTGTT
100336 AAACATATGTAAACTGTT
1 ---CATATGTAAACTGTT
**
100354 CATATGT-GCCT-TT
1 CATATGTAAACTGTT
100367 AAACATATGTAAACTGTT
1 ---CATATGTAAACTGTT
100385 CATATGT
1 CATATGT
100392 GCCTTTAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 21 0.41
16 14 0.27
17 4 0.08
18 4 0.08
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (15 bp):
CATATGTAAACTGTT
Found at i:101089 original size:64 final size:64
Alignment explanation
Indices: 100983--101159 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 64
100973 TAATGAAGGT
* * ** ** * *
100983 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGTATTCGATGT-GTCACTATTGATGGG
* * *
101047 ATGCATTGATGCACTCCTTATGCATCGATGCACCG-ATTGTATTCGATGTTTCACTATTGATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGAATTGTATTCGATGTGTCACTATTGATGGG
* *
101111 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGTATTCGATGT
101160 CTTTATTTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
63 2 0.02
64 93 0.98
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGTATTCGATGTGTCACTATTGATGGG
Found at i:102081 original size:34 final size:33
Alignment explanation
Indices: 102039--102126 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
102029 AATGGTAATA
*
102039 AACAAAATTAACCAAAATACATTAACAA-AAAGTCC
1 AACAAAATTAA-CAAAATAAATTAA-AATAAA-TCC
*
102074 AACAAATTTAACAAAATAAATTAAAATAAATCC
1 AACAAAATTAACAAAATAAATTAAAATAAATCC
**
102107 AACAAAATTAATGAAATAAA
1 AACAAAATTAACAAAATAAA
102127 GTAAGTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.47
34 15 0.32
35 10 0.21
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (33 bp):
AACAAAATTAACAAAATAAATTAAAATAAATCC
Found at i:103012 original size:23 final size:23
Alignment explanation
Indices: 102986--103030 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
102976 CACCACAGCT
*
102986 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
103009 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
103031 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:103749 original size:21 final size:21
Alignment explanation
Indices: 103725--103767 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
103715 TTCATATTCG
* *
103725 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
103746 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
103767 T
1 T
103768 AGCCCAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:106322 original size:17 final size:19
Alignment explanation
Indices: 106302--106343 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
106292 ATTAATTAAA
106302 TAAAATA-TTAAA-AAATT
1 TAAAATACTTAAATAAATT
106319 T-AAATACTTAAATAAATT
1 TAAAATACTTAAATAAATT
*
106337 AAAAATA
1 TAAAATA
106344 AATATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 5 0.24
19 5 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATACTTAAATAAATT
Found at i:106346 original size:29 final size:30
Alignment explanation
Indices: 106297--106354 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
106287 AAAAAATTAA
*
106297 TTAAATAAAATATTAAAAAAT-TTAAATAC
1 TTAAATAAAATATAAAAAAATATTAAATAC
*
106326 TTAAATAAATTA-AAAATAAATATTAAATA
1 TTAAATAAAATATAAAA-AAATATTAAATA
106355 TAATAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 15 0.60
30 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (30 bp):
TTAAATAAAATATAAAAAAATATTAAATAC
Done.