Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014560.1 Kokia drynarioides strain JFW-HI SEQ_129599, 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: 106957
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Warning! 141 characters in sequence are not A, C, G, or T
Found at i:66 original size:20 final size:20
Alignment explanation
Indices: 41--91 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
31 AAATATAAAA
*
41 TTTGAAATTTTATTAAA-TAT
1 TTTGAAATTTTA-AAAAGTAT
*
61 TTTG-AATTTTAAAAAGTTT
1 TTTGAAATTTTAAAAAGTAT
80 TTTGAAATTTTA
1 TTTGAAATTTTA
92 GTAATGAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 13 0.48
20 11 0.41
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (20 bp):
TTTGAAATTTTAAAAAGTAT
Found at i:3253 original size:23 final size:24
Alignment explanation
Indices: 3191--3253 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 24
3181 CCCATTGTTT
* *
3191 TTATTTTATTCATTTTGACCTTAA
1 TTATTTTATTCATTATGACCATAA
* ** **
3215 TTTTTTTATTTTTTATGTTCAT-A
1 TTATTTTATTCATTATGACCATAA
3238 TTATTTTATTCATTAT
1 TTATTTTATTCATTAT
3254 TTTTATTTAT
Statistics
Matches: 29, Mismatches: 10, Indels: 1
0.73 0.25 0.03
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (24 bp):
TTATTTTATTCATTATGACCATAA
Found at i:3274 original size:13 final size:12
Alignment explanation
Indices: 3236--3274 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
3226 TTTATGTTCA
3236 TATTATTTTATT
1 TATTATTTTATT
*
3248 CATTATTTTTATT
1 TATTA-TTTTATT
3261 TATTATTTTGATT
1 TATTATTTT-ATT
3274 T
1 T
3275 CATTCATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (12 bp):
TATTATTTTATT
Found at i:3391 original size:21 final size:22
Alignment explanation
Indices: 3367--3411 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
3357 AATCTTTTAA
*
3367 TATTTAATTGTAT-TAATATTT
1 TATTTAATTGCATGTAATATTT
* *
3388 TATTTATTTGCATGTCATATTT
1 TATTTAATTGCATGTAATATTT
3410 TA
1 TA
3412 CCTTGAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTTAATTGCATGTAATATTT
Found at i:14337 original size:28 final size:27
Alignment explanation
Indices: 14301--14355 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
14291 ATTAAATTAA
*
14301 ATTAATT-AAATAATAATTAAAAAAATT
1 ATTAATTAAAATAACAA-TAAAAAAATT
*
14328 ATTACATTAAAATAACAATAAAGAAATT
1 ATTA-ATTAAAATAACAATAAAAAAATT
14356 TAAGGGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.17
28 12 0.50
29 8 0.33
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (27 bp):
ATTAATTAAAATAACAATAAAAAAATT
Found at i:18047 original size:56 final size:56
Alignment explanation
Indices: 17983--18094 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
17973 CTTTTATTTG
17983 CAATTTCGTTCCTGTATTGATTGTACTAACTTGTTTTGTTTTATCTTTGTTTTTTC
1 CAATTTCGTTCCTGTATTGATTGTACTAACTTGTTTTGTTTTATCTTTGTTTTTTC
*
18039 CAATTTCGTTCCTGTATTGATTGTACTGACTTGTTTTGTTTTATCTTTGTTTTTTC
1 CAATTTCGTTCCTGTATTGATTGTACTAACTTGTTTTGTTTTATCTTTGTTTTTTC
18095 TTCTCGCATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.13, C:0.14, G:0.13, T:0.59
Consensus pattern (56 bp):
CAATTTCGTTCCTGTATTGATTGTACTAACTTGTTTTGTTTTATCTTTGTTTTTTC
Found at i:21087 original size:12 final size:10
Alignment explanation
Indices: 21053--21081 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
21043 TTGAAACCCA
21053 AAGAAAAAAG
1 AAGAAAAAAG
21063 -AGAAAAAAG
1 AAGAAAAAAG
21072 AAGAAAAAAG
1 AAGAAAAAAG
21082 TCAAGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:22241 original size:43 final size:45
Alignment explanation
Indices: 22021--22504 Score: 400
Period size: 45 Copynumber: 10.9 Consensus size: 45
22011 CATCACTGTT
** * *
22021 CAATCTTTTACCTATAATCAAAAGGGGTAGATTGAAG-TCATCATC
1 CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCT-ATCATC
* * * * * * * * *
22066 CAGTCTTTTATCCTTAGTCAAGAAGGGTAGATTGAAACCACCATC
1 CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCTATCATC
* * * *
22111 CAATCTTTTACCCCTAAGTTAAGAGGGGAAAATTGAAGCTATCATT
1 CAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCTATCATC
*
22157 CAATCTTTTACCCCTAATCAAGAGGGGTAGATTGAAGCTATCATC
1 CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCTATCATC
22202 CAAT-TTGTTA-CCCTAATC-AGA-GGGCAGATTGAAG--A-CTATC
1 CAATCTT-TTACCCCTAATCAAGAGGGGCAGATTGAAGCTATC-ATC
** * * * * *
22242 CAATCTTTTACCTTTAGTCAAGAGGGGCAGATTAAAGCCACCGTC
1 CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCTATCATC
* * * *
22287 CAATCTTTTACTCCTAGTCAAGAGGGGCAAATTGAAGCCA-CAATC
1 CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCTATC-ATC
* * ** * * *
22332 CAATCTTTTACCCTTAGTCAAGAAAGGCAAATTAAAG--ACCATC
1 CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCTATCATC
*
22375 CAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAAG-TCATCATC
1 CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCT-ATCATC
* * * * * *
22420 TAGT-TGTTTACCCCTAATCAAGAAGGACAGATTGAAGCCACCATC
1 CAATCT-TTTACCCCTAATCAAGAGGGGCAGATTGAAGCTATCATC
* * *
22465 CAATCTTTTACCTCTAATCAAGAGAGGCAGATTAAAGCTA
1 CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCTA
22505 CCATTACACA
Statistics
Matches: 359, Mismatches: 62, Indels: 36
0.79 0.14 0.08
Matches are distributed among these distances:
39 1 0.00
40 11 0.03
41 7 0.02
42 15 0.04
43 51 0.14
44 13 0.04
45 222 0.62
46 39 0.11
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (45 bp):
CAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCTATCATC
Found at i:22353 original size:90 final size:89
Alignment explanation
Indices: 22021--22502 Score: 471
Period size: 90 Copynumber: 5.4 Consensus size: 89
22011 CATCACTGTT
* * * * * *
22021 CAATCTTTTACCTATAATCAAAAGGGGTAGATTGAAGTCATCATCCAGTCTTTTATCCTTAGTCA
1 CAATCTTTTACC-CTAATCAAGAGGGGCAGATTGAAGCCATCATCCAATCTTTTACCCTTAGTCA
*
22086 AGAAGGGTAGATTGAAA-CCACCATC
65 AGAAGGGCAGATT-AAAGCCACCATC
* * * * * * *
22111 CAATCTTTTACCCCTAAGTTAAGAGGGGAAAATTGAAGCTATCATTCAATCTTTTACCCCTAATC
1 CAATCTTTTA-CCCTAA-TCAAGAGGGGCAGATTGAAGCCATCATCCAATCTTTTACCCTTAGTC
* * * * *
22176 AAGAGGGGTAGATTGAAGCTATCATC
64 AAGAAGGGCAGATTAAAGCCACCATC
* *
22202 CAAT-TTGTTACCCTAATC-AGA-GGGCAGATTGAAGAC-T-ATCCAATCTTTTACCTTTAGTCA
1 CAATCTT-TTACCCTAATCAAGAGGGGCAGATTGAAGCCATCATCCAATCTTTTACCCTTAGTCA
* *
22262 AGAGGGGCAGATTAAAGCCACCGTC
65 AGAAGGGCAGATTAAAGCCACCATC
* *
22287 CAATCTTTTACTCCTAGTCAAGAGGGGCAAATTGAAGCCA-CAATCCAATCTTTTACCCTTAGTC
1 CAATCTTTTAC-CCTAATCAAGAGGGGCAGATTGAAGCCATC-ATCCAATCTTTTACCCTTAGTC
* *
22351 AAGAAAGGCAAATTAAAG--ACCATC
64 AAGAAGGGCAGATTAAAGCCACCATC
* * * * * *
22375 CAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAAGTCATCATCTAGT-TGTTTACCCCTAATC
1 CAATCTTTTA-CCCTAATCAAGAGGGGCAGATTGAAGCCATCATCCAATCT-TTTACCCTTAGTC
* *
22439 AAGAAGGACAGATTGAAGCCACCATC
64 AAGAAGGGCAGATTAAAGCCACCATC
* *
22465 CAATCTTTTACCTCTAATCAAGAGAGGCAGATTAAAGC
1 CAATCTTTTACC-CTAATCAAGAGGGGCAGATTGAAGC
22503 TACCATTACA
Statistics
Matches: 321, Mismatches: 54, Indels: 34
0.78 0.13 0.08
Matches are distributed among these distances:
85 47 0.15
86 9 0.03
87 15 0.05
88 85 0.26
89 5 0.02
90 96 0.30
91 64 0.20
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (89 bp):
CAATCTTTTACCCTAATCAAGAGGGGCAGATTGAAGCCATCATCCAATCTTTTACCCTTAGTCAA
GAAGGGCAGATTAAAGCCACCATC
Found at i:22430 original size:133 final size:131
Alignment explanation
Indices: 22022--22501 Score: 461
Period size: 133 Copynumber: 3.6 Consensus size: 131
22012 ATCACTGTTC
** * * * * * *
22022 AATCTTTTACCTATAATCAAAAGGGGTAGATTGAAGTCATCATCCAGTCTTTTATCCTTAGTCAA
1 AATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA-CATCCAATCTTTTACCCTTAATCAA
* * * * * *
22087 GAAGGGTAGATTGAAACCACCATCCAATCTTTTACCCCTAAGTTAAGAGGGGAAAATTGAAGCTA
65 GAAAGGCAGATT-AAA-GACCATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGC-A
22152 TCAT-T
126 TCATCT
* *
22157 CAATCTTTTACCCCTAATCAAGAGGGGTAGATTGAAGCTATCATCCAAT-TTGTTACCC-TAATC
1 -AATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA-CATCCAATCTT-TTACCCTTAATC
* * * ** * * *
22220 -AG-AGGGCAGATTGAAGACTATCCAATCTTTTACCTTTAGTCAAGAGGGGCAGATTAAAGCCAC
63 AAGAAAGGCAGATTAAAGACCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CAT
* *
22283 CGTCC
127 CATCT
* * * *
22288 AATCTTTTACTCCTAGTCAAGAGGGGCAAATTGAAGCCACAATCCAATCTTTTACCCTTAGTCAA
1 AATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCAC-ATCCAATCTTTTACCCTTAATCAA
* *
22353 GAAAGGCAAATTAAAGACCATCCAATCTTTTACCCCTAATCAAGAAGGGCAGATTGAAGTCATCA
65 GAAAGGCAGATTAAAGACCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CATCA
22418 TCT
129 TCT
* * *
22421 AGT-TGTTTACCCCTAATCAAGAAGGACAGATTGAAGCCACCATCCAATCTTTTA-CCTCTAATC
1 AATCT-TTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA-CATCCAATCTTTTACCCT-TAATC
*
22484 AAGAGAGGCAGATTAAAG
63 AAGAAAGGCAGATTAAAG
22502 CTACCATTAC
Statistics
Matches: 283, Mismatches: 50, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
129 1 0.00
130 66 0.23
131 26 0.09
132 8 0.03
133 126 0.45
134 3 0.01
135 6 0.02
136 47 0.17
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (131 bp):
AATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACATCCAATCTTTTACCCTTAATCAAG
AAAGGCAGATTAAAGACCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCATCATC
T
Found at i:24503 original size:29 final size:31
Alignment explanation
Indices: 24438--24503 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 31
24428 ATTGTTTTCC
24438 CTTTTTAAAATGTACCCCTTTTATTTGCATTT
1 CTTTTTAAAATGTACCCCTTTTATTTG-ATTT
*
24470 C-TTTTAAAAT-T-GCCCTTTTATTATG-TTT
1 CTTTTTAAAATGTACCCCTTTTATT-TGATTT
24498 CTTTTT
1 CTTTTT
24504 TTTTTATCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
28 4 0.13
29 14 0.45
30 3 0.10
31 9 0.29
32 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.58
Consensus pattern (31 bp):
CTTTTTAAAATGTACCCCTTTTATTTGATTT
Found at i:24545 original size:19 final size:19
Alignment explanation
Indices: 24523--24559 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24513 TGTTTGTATC
24523 TTTTAATTAAACCCTTTTT
1 TTTTAATTAAACCCTTTTT
* *
24542 TTTTAATTTAATCCTTTT
1 TTTTAATTAAACCCTTTT
24560 ATCACTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATTAAACCCTTTTT
Found at i:26987 original size:11 final size:11
Alignment explanation
Indices: 26967--26997 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
26957 CATTGCCAAT
26967 AGCGTTTCCTC
1 AGCGTTTCCTC
*
26978 AGCTTTTCCTC
1 AGCGTTTCCTC
26989 AGCGTTTCC
1 AGCGTTTCC
26998 ACGTAATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.35, G:0.16, T:0.39
Consensus pattern (11 bp):
AGCGTTTCCTC
Found at i:27095 original size:38 final size:38
Alignment explanation
Indices: 27048--27122 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
27038 CTAATAAATG
* * *
27048 TAAATTATAATTATTTTTAAATGTGTAATTATCACAAT
1 TAAAATATAAATATTTTTAAATGTATAATTATCACAAT
*
27086 TAAAATATAAATATTTTTGAATGTATAATTATCACAA
1 TAAAATATAAATATTTTTAAATGTATAATTATCACAA
27123 CTTTTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (38 bp):
TAAAATATAAATATTTTTAAATGTATAATTATCACAAT
Found at i:27761 original size:18 final size:17
Alignment explanation
Indices: 27735--27783 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
27725 ATAATTTTTT
27735 AATTAATAATTATAATTTA
1 AATT-ATAATTAT-ATTTA
*
27754 AATTATAATTATTTTTA
1 AATTATAATTATATTTA
*
27771 AATATGTAATTAT
1 AAT-TATAATTAT
27784 CACAACTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
AATTATAATTATATTTA
Found at i:27800 original size:44 final size:44
Alignment explanation
Indices: 27751--27835 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
27741 TAATTATAAT
* *
27751 TTAAATTATAATTATTTTTAAATATGTAATTATCACAACTTCTA
1 TTAAATTATAATGATTTTTAAATATATAATTATCACAACTTCTA
*
27795 TTAAATTATAATGATTTTTAAATGTATAATTATCACAACTT
1 TTAAATTATAATGATTTTTAAATATATAATTATCACAACTT
27836 TTACTTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (44 bp):
TTAAATTATAATGATTTTTAAATATATAATTATCACAACTTCTA
Found at i:30728 original size:18 final size:18
Alignment explanation
Indices: 30717--30803 Score: 72
Period size: 18 Copynumber: 4.7 Consensus size: 18
30707 TAAATTATAA
30717 AAATAATATAAAATAAT-T
1 AAATAATA-AAAATAATAT
30735 AAATATTATTAAAAATAAT-T
1 AAATA--A-TAAAAATAATAT
*
30755 AAATAATAAAAATAAAAT
1 AAATAATAAAAATAATAT
*
30773 -AATAAAAATAAATAATAT
1 AAATAATAA-AAATAATAT
* *
30791 AAAAAATTAAAAT
1 AAATAATAAAAAT
30804 TAACTCTTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
17 16 0.28
18 19 0.33
19 5 0.09
20 15 0.26
21 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAATAAAAATAATAT
Found at i:30731 original size:10 final size:10
Alignment explanation
Indices: 30716--30803 Score: 61
Period size: 8 Copynumber: 9.5 Consensus size: 10
30706 TTAAATTATA
30716 AAAATAATAT
1 AAAATAATAT
30726 AAAATAAT-T
1 AAAATAATAT
*
30735 -AAATATTATT
1 AAAATAATA-T
30745 AAAAATAAT-T
1 -AAAATAATAT
30755 -AAATAATA-
1 AAAATAATAT
*
30763 AAAATAAAAT
1 AAAATAATAT
30773 AATAA-AA-AT
1 AA-AATAATAT
30782 -AAATAATAT
1 AAAATAATAT
30791 AAAA-AAT-T
1 AAAATAATAT
30799 AAAAT
1 AAAAT
30804 TAACTCTTAC
Statistics
Matches: 63, Mismatches: 3, Indels: 25
0.69 0.03 0.27
Matches are distributed among these distances:
7 2 0.03
8 21 0.33
9 15 0.24
10 17 0.27
11 2 0.03
12 6 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATAATAT
Found at i:30733 original size:27 final size:26
Alignment explanation
Indices: 30698--30795 Score: 82
Period size: 28 Copynumber: 3.8 Consensus size: 26
30688 AAAATATTTA
30698 AAAATTAATTAAATTATAAAAATAATAT
1 AAAA-TAATTAAA-TATAAAAATAATAT
30726 AAAATAATTAAATATTATTAAAAATAAT-T
1 AAAATAATT-AA-A-TA-TAAAAATAATAT
*
30755 -AAATAA-TAAAAAT-AAAATAATA-
1 AAAATAATTAAATATAAAAATAATAT
*
30777 AAAATAAAT-AATATAAAAA
1 AAAATAATTAAATATAAAAA
30796 ATTAAAATTA
Statistics
Matches: 61, Mismatches: 2, Indels: 18
0.75 0.02 0.22
Matches are distributed among these distances:
22 8 0.13
23 11 0.18
24 6 0.10
25 1 0.02
26 2 0.03
27 6 0.10
28 12 0.20
29 5 0.08
30 10 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAATAATTAAATATAAAAATAATAT
Found at i:30737 original size:38 final size:36
Alignment explanation
Indices: 30687--30769 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 36
30677 TATTCACATA
* *
30687 AAAAATATTTAAAAATTAATTAAATTATAA-AAATAAT
1 AAAAATAATTAAAAATT-ATTAAA-AATAATAAATAAT
*
30724 ATAAAATAATTAAATATTATTAAAAATAATTAAATAAT
1 A-AAAATAATTAAAAATTATTAAAAATAA-TAAATAAT
30762 AAAAATAA
1 AAAAATAA
30770 AATAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 4 0.10
37 14 0.35
38 22 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (36 bp):
AAAAATAATTAAAAATTATTAAAAATAATAAATAAT
Found at i:30764 original size:47 final size:47
Alignment explanation
Indices: 30684--30797 Score: 140
Period size: 47 Copynumber: 2.4 Consensus size: 47
30674 GACTATTCAC
* * *
30684 ATAAAAAATATTTAAAAATTAATTAAATTATAAAAATAATATAA-AATAA
1 ATAAATAATA-TTAAAAA-TAATTAAATAATAAAAATAAAATAATAA-AA
* *
30733 TTAAATATTATTAAAAATAATTAAATAATAAAAATAAAATAATAAAA
1 ATAAATAATATTAAAAATAATTAAATAATAAAAATAAAATAATAAAA
*
30780 ATAAATAATATAAAAAAT
1 ATAAATAATATTAAAAAT
30798 TAAAATTAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 40 0.71
48 9 0.16
49 7 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (47 bp):
ATAAATAATATTAAAAATAATTAAATAATAAAAATAAAATAATAAAA
Found at i:30769 original size:9 final size:9
Alignment explanation
Indices: 30708--30803 Score: 63
Period size: 9 Copynumber: 10.4 Consensus size: 9
30698 AAAATTAATT
*
30708 AAATTATAA
1 AAATAATAA
30717 AAATAATATA
1 AAATAATA-A
30727 AAATAATTAA
1 AAATAA-TAA
* *
30737 ATATTATTAA
1 A-AATAATAA
*
30747 AAATAAT-T
1 AAATAATAA
30755 AAATAATAA
1 AAATAATAA
30764 AAATAA-AA
1 AAATAATAA
* *
30772 TAATAAAAA
1 AAATAATAA
30781 TAAATAATATA
1 -AAATAATA-A
*
30792 AAA-AATTA
1 AAATAATAA
30800 AAAT
1 AAAT
30804 TAACTCTTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
8 18 0.26
9 22 0.32
10 22 0.32
11 6 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAATAATAA
Found at i:30774 original size:14 final size:13
Alignment explanation
Indices: 30754--30794 Score: 64
Period size: 14 Copynumber: 3.0 Consensus size: 13
30744 TAAAAATAAT
30754 TAAATAATAAAAA
1 TAAATAATAAAAA
30767 TAAAATAATAAAAA
1 T-AAATAATAAAAA
30781 TAAATAATATAAAA
1 TAAATAATA-AAAA
30795 AATTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:33049 original size:18 final size:17
Alignment explanation
Indices: 33026--33066 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
33016 GCATTACTTT
*
33026 TAAAAAGCATTTTTGAGA
1 TAAAAAACATTTTT-AGA
*
33044 TAAAAAATATTTTTAGA
1 TAAAAAACATTTTTAGA
33061 TAAAAA
1 TAAAAA
33067 TATTTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (17 bp):
TAAAAAACATTTTTAGA
Found at i:33067 original size:16 final size:18
Alignment explanation
Indices: 33034--33071 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
33024 TTTAAAAAGC
33034 ATTTTTGAGATAAAAAAT
1 ATTTTTGAGATAAAAAAT
33052 ATTTTT-AGAT-AAAAAT
1 ATTTTTGAGATAAAAAAT
33068 ATTT
1 ATTT
33072 CTAAACAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 4 0.20
18 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (18 bp):
ATTTTTGAGATAAAAAAT
Found at i:33581 original size:15 final size:15
Alignment explanation
Indices: 33563--33595 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
33553 ATATATATAT
33563 ATTA-TTTCAAATAAA
1 ATTAGTTTC-AATAAA
33578 ATTAGTTTCAATAAA
1 ATTAGTTTCAATAAA
33593 ATT
1 ATT
33596 TAATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
ATTAGTTTCAATAAA
Found at i:35034 original size:17 final size:17
Alignment explanation
Indices: 35014--35061 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
35004 TCATCAAAAC
*
35014 TGCGAACACATCAAGTG
1 TGCGAACACACCAAGTG
*
35031 TGCGAACTCACCAAGTG
1 TGCGAACACACCAAGTG
* *
35048 TGTGAACTCACCAA
1 TGCGAACACACCAA
35062 CACTACGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (17 bp):
TGCGAACACACCAAGTG
Found at i:37507 original size:21 final size:22
Alignment explanation
Indices: 37477--37541 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 22
37467 GATACCAAAT
37477 AAAAGGTATCGATA-TTTTTGAC
1 AAAA-GTATCGATACTTTTTGAC
37499 AAAAGTATCGATACTTTTTG--
1 AAAAGTATCGATACTTTTTGAC
*
37519 AAAGGTATCGATACTTTTTGAC
1 AAAAGTATCGATACTTTTTGAC
37541 A
1 A
37542 GATTTCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 19 0.49
21 9 0.23
22 11 0.28
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (22 bp):
AAAAGTATCGATACTTTTTGAC
Found at i:40568 original size:21 final size:22
Alignment explanation
Indices: 40537--40601 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 22
40527 GATACCAAAT
40537 AAAAGGTATCGATA-TTTTTGAC
1 AAAA-GTATCGATACTTTTTGAC
40559 AAAAGTATCGATACTTTTTG--
1 AAAAGTATCGATACTTTTTGAC
*
40579 AAAGGTATCGATACTTTTTGAC
1 AAAAGTATCGATACTTTTTGAC
40601 A
1 A
40602 GATTTCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 19 0.49
21 9 0.23
22 11 0.28
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (22 bp):
AAAAGTATCGATACTTTTTGAC
Found at i:41480 original size:44 final size:44
Alignment explanation
Indices: 41399--41583 Score: 243
Period size: 44 Copynumber: 4.3 Consensus size: 44
41389 GACTCAGGAC
* *
41399 GAGCATGAGATTACGTAT-AAAAGGAAGACTCATGTCTCGGGAT
1 GAGCATGAGATTTCATATAAAAAGGAAGACTCATGTCTCGGGAT
* * *
41442 GAGCAGGAGATTTCATATAAAAAGAAAAACTCATGTCTCGGGAT
1 GAGCATGAGATTTCATATAAAAAGGAAGACTCATGTCTCGGGAT
*
41486 GAGCATGAGATTTCATATAAAAAGGAAGACTCATGTCTCGGGGT
1 GAGCATGAGATTTCATATAAAAAGGAAGACTCATGTCTCGGGAT
* * *
41530 GAGCATGAGA-TT-ATGATTAAAAGGAAGACTTATGTCTCGGTA-
1 GAGCATGAGATTTCAT-ATAAAAAGGAAGACTCATGTCTCGGGAT
*
41572 GAGCATAAGATT
1 GAGCATGAGATT
41584 GTTTAAAAAG
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
42 11 0.09
43 41 0.33
44 73 0.58
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (44 bp):
GAGCATGAGATTTCATATAAAAAGGAAGACTCATGTCTCGGGAT
Found at i:41523 original size:88 final size:85
Alignment explanation
Indices: 41399--41583 Score: 237
Period size: 87 Copynumber: 2.1 Consensus size: 85
41389 GACTCAGGAC
*
41399 GAGCATGAGATTACGTATAAAAGGAAGACTCATGTCTCGGGATGAGCAGGAGATTTCAT-ATAAA
1 GAGCATGAGATTACATATAAAAGGAAGACTCATGTCTCGGGATGAGCAGGAGA-TT-ATGATAAA
41463 AAGAAAAACTCATGTCTCGGGA
64 AAGAAAAACTCATGTCTCGGGA
* * * *
41485 TGAGCATGAGATTTCATATAAAAAGGAAGACTCATGTCTCGGGGTGAGCATGAGATTATGATTAA
1 -GAGCATGAGATTACATAT-AAAAGGAAGACTCATGTCTCGGGATGAGCAGGAGATTATGATAAA
* * * *
41550 AAGGAAGACTTATGTCTCGGTA
64 AAGAAAAACTCATGTCTCGGGA
*
41572 GAGCATAAGATT
1 GAGCATGAGATT
41584 GTTTAAAAAG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
86 13 0.15
87 40 0.47
88 33 0.38
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (85 bp):
GAGCATGAGATTACATATAAAAGGAAGACTCATGTCTCGGGATGAGCAGGAGATTATGATAAAAA
GAAAAACTCATGTCTCGGGA
Found at i:42335 original size:24 final size:24
Alignment explanation
Indices: 42303--42352 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
42293 GAAGCATGAA
**
42303 TAGTTTCGGTAGAAGTCACCCTTG
1 TAGTTTCGGTAGAAGAAACCCTTG
42327 TAGTTTCGGTAGAAGAAACCCTTG
1 TAGTTTCGGTAGAAGAAACCCTTG
42351 TA
1 TA
42353 TCGGTAGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (24 bp):
TAGTTTCGGTAGAAGAAACCCTTG
Found at i:42358 original size:21 final size:22
Alignment explanation
Indices: 42307--42361 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
42297 CATGAATAGT
**
42307 TTCGGTAGAAGTCACCCTTGTA
1 TTCGGTAGAAGAAACCCTTGTA
42329 GTTTCGGTAGAAGAAACCCTTGTA
1 --TTCGGTAGAAGAAACCCTTGTA
42353 -TCGGTAGAA
1 TTCGGTAGAA
42362 CCATCTCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.31
24 20 0.69
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (22 bp):
TTCGGTAGAAGAAACCCTTGTA
Found at i:44988 original size:22 final size:22
Alignment explanation
Indices: 44939--45006 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
44929 CACTAATAAG
* *
44939 AGAGAGCACAGAGGTGCTAAA-
1 AGAGAGCACAAACGTGCTAAAT
*
44960 CGAAGAGCACAAACGTGCTAAAT
1 AG-AGAGCACAAACGTGCTAAAT
* *
44983 AGAGAGCATTATACGTGCTAAAT
1 AGAGAGCA-CAAACGTGCTAAAT
45006 A
1 A
45007 ACGGAGAGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 23 0.61
23 14 0.37
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (22 bp):
AGAGAGCACAAACGTGCTAAAT
Found at i:47795 original size:14 final size:15
Alignment explanation
Indices: 47776--47809 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
47766 GAGGAGTGTA
47776 AAAAAAATAA-AAAT
1 AAAAAAATAATAAAT
*
47790 AAAAAAATAATAATT
1 AAAAAAATAATAAAT
47805 AAAAA
1 AAAAA
47810 GTAGGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAAAATAATAAAT
Found at i:48480 original size:20 final size:20
Alignment explanation
Indices: 48443--48480 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48433 AAGTGGTGAA
*
48443 GAAGAGAAATGCATGAAAAT
1 GAAGAGAAATGCAAGAAAAT
48463 GAAGAAGAAATG-AAGAAA
1 GAAG-AGAAATGCAAGAAA
48481 TTCTTGACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.61, C:0.03, G:0.26, T:0.11
Consensus pattern (20 bp):
GAAGAGAAATGCAAGAAAAT
Found at i:53511 original size:2 final size:2
Alignment explanation
Indices: 53504--53531 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
53494 TACCTTTCAC
53504 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
53532 CATTTAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53892 original size:23 final size:23
Alignment explanation
Indices: 53866--53984 Score: 92
Period size: 23 Copynumber: 5.4 Consensus size: 23
53856 AGTGCTGGAC
*
53866 AATAGAGAGCGCACAAAGTGCTA
1 AATAGAGAGCACACAAAGTGCTA
* *
53889 AATAGAGAGTACATAAA--G-T-
1 AATAGAGAGCACACAAAGTGCTA
*
53908 ACT---GAGCACACAAAGTGCT-
1 AATAGAGAGCACACAAAGTGCTA
*
53927 AATCAGAGAGCACACGAAGTGCTAA
1 AAT-AGAGAGCACACAAAGTGCT-A
* *
53952 TAACAGAGAGCACACACAGTGCTA
1 -AATAGAGAGCACACAAAGTGCTA
53976 AATAGAGAG
1 AATAGAGAG
53985 TGCGCTGGTG
Statistics
Matches: 74, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
16 9 0.12
18 1 0.01
19 5 0.07
20 1 0.01
21 1 0.01
23 37 0.50
24 1 0.01
25 17 0.23
26 2 0.03
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (23 bp):
AATAGAGAGCACACAAAGTGCTA
Found at i:67072 original size:106 final size:105
Alignment explanation
Indices: 66887--67097 Score: 404
Period size: 106 Copynumber: 2.0 Consensus size: 105
66877 ACCCACTTGC
66887 CTTCTCAACACGAAGGTCAAGTCTCTTGGCAGCCCGCTCGTACATGAATAATTCTGAGGCACCGG
1 CTTCTCAACACGAAGGTCAAGTCTCTTGGCAGCCCGCTCGTACATGAATAATTCTGAGGCACCGG
*
66952 TGTCTACTAGTGCACTCATCTTTTGGCCTGCCACGGTGAT
66 TGTCCACTAGTGCACTCATCTTTTGGCCTGCCACGGTGAT
66992 NCTTCTCAACACGAAGGTCAAGTCTCTTGGCAGCCCGCTCGTACATGAATAATTCTGAGGCACCG
1 -CTTCTCAACACGAAGGTCAAGTCTCTTGGCAGCCCGCTCGTACATGAATAATTCTGAGGCACCG
67057 GTGTCCACTAGTGCACTCATCTTTTGGCCTGCCACGGTGAT
65 GTGTCCACTAGTGCACTCATCTTTTGGCCTGCCACGGTGAT
67098 GTTGATGAAC
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (105 bp):
CTTCTCAACACGAAGGTCAAGTCTCTTGGCAGCCCGCTCGTACATGAATAATTCTGAGGCACCGG
TGTCCACTAGTGCACTCATCTTTTGGCCTGCCACGGTGAT
Found at i:74241 original size:30 final size:29
Alignment explanation
Indices: 74153--74620 Score: 348
Period size: 29 Copynumber: 15.8 Consensus size: 29
74143 ACATCCAGGA
*
74153 GTAAAATGGTAATTTTTTGGAAGTATCG-GG
1 GTAAAATGG-AA-TTTTTGGAAGTTTCGAGG
*
74183 GTTAAAAAATGGGATTTTTGGAAG-TTCGAGG
1 G-T--AAAATGGAATTTTTGGAAGTTTCGAGG
74214 GTAAAATGGAAATTTTTGGAAGTTTCGAGG
1 GTAAAATGG-AATTTTTGGAAGTTTCGAGG
* *
74244 TTAAAAATGGGATTTTTGGAAG-TTCGAGG
1 GT-AAAATGGAATTTTTGGAAGTTTCGAGG
74273 GTAAAATGGTAA-TTTTGGAA-TGTTCG-GG
1 GTAAAATGG-AATTTTTGGAAGT-TTCGAGG
* *
74301 GTTAAAAAATGGGATTTTTGGAAGTTT-GGGG
1 G-T--AAAATGGAATTTTTGGAAGTTTCGAGG
74332 GTAAAATGGTAATTTTTGGAAGGTTT-GAGG
1 GTAAAATGG-AATTTTTGGAA-GTTTCGAGG
** *
74362 GTAAAATGGTAATTTTAAGAAGTTT-TAGG
1 GTAAAATGG-AATTTTTGGAAGTTTCGAGG
* *
74391 GTCAAAAATGGGATTTTTGGAAGTTTAG-GG
1 GT--AAAATGGAATTTTTGGAAGTTTCGAGG
* *
74421 GTAAAATGGTAATTTTTGGATGGTTCG-GG
1 GTAAAATGG-AATTTTTGGAAGTTTCGAGG
*
74450 GTTAAAAATGGGATTTTTGGAAGTTT-GAGG
1 G-T-AAAATGGAATTTTTGGAAGTTTCGAGG
*
74480 GTAAAATTGTAATTTTT-GAAGGTTT--AGG
1 GTAAAA-TGGAATTTTTGGAA-GTTTCGAGG
*
74508 GTTAAAAATGGGATTTTT-GAAGTTT-GAGG
1 G-T-AAAATGGAATTTTTGGAAGTTTCGAGG
*
74537 GTAAAATGGTAA-TTTTAGAAGTTTTCGA-G
1 GTAAAATGG-AATTTTTGGAAG-TTTCGAGG
*
74566 GTCAAAAATGGGATTTTTGGAAG-TTCGAGG
1 GT--AAAATGGAATTTTTGGAAGTTTCGAGG
*
74596 GTAAATTGGTAA-TTTTGGACAGTTT
1 GTAAAATGG-AATTTTTGGA-AGTTT
74621 AGGGACCTTC
Statistics
Matches: 364, Mismatches: 33, Indels: 82
0.76 0.07 0.17
Matches are distributed among these distances:
27 11 0.03
28 73 0.20
29 104 0.29
30 97 0.27
31 70 0.19
32 2 0.01
33 7 0.02
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (29 bp):
GTAAAATGGAATTTTTGGAAGTTTCGAGG
Found at i:74265 original size:59 final size:59
Alignment explanation
Indices: 74155--74600 Score: 358
Period size: 59 Copynumber: 7.5 Consensus size: 59
74145 ATCCAGGAGT
* *
74155 AAAATGGTAATTTTTTGGAAGTATCG-GGGTTAAAAAATGGGATTTTTGGAAGTTCGAGGGT-
1 AAAATGG-AA-TTTTTGGAAGTTTCGAGGG-T-AAAAATGGAATTTTTGGAAGTTCGAGGGTA
* *
74216 AAAATGGAAATTTTTGGAAGTTTCGAGGTTAAAAATGGGATTTTTGGAAGTTCGAGGGT-
1 AAAATGG-AATTTTTGGAAGTTTCGAGGGTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
* * *
74275 AAAATGGTAA-TTTTGGAA-TGTTCG-GGGTTAAAAAATGGGATTTTTGGAAGTTTGGGGGT-
1 AAAATGG-AATTTTTGGAAGT-TTCGAGGG-T-AAAAATGGAATTTTTGGAAGTTCGAGGGTA
** **
74334 AAAATGGTAATTTTTGGAAGGTTT-GAGGGT-AAAATGGTAATTTTAAGAAGTTTTAGGGTCA
1 AAAATGG-AATTTTTGGAA-GTTTCGAGGGTAAAAATGG-AATTTTTGGAAGTTCGAGGGT-A
* * *
74395 AAAATGGGATTTTTGGAAGTTTAG-GGGT-AAAATGGTAATTTTTGGATGGTTCG-GGGTTA
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTAAAAATGG-AATTTTTGGA-AGTTCGAGGG-TA
* * * *
74454 AAAATGGGATTTTTGGAAGTTT-GAGGGTAAAATTGTAATTTTT-GAAGGTT-TAGGGTTA
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTAAAAATGGAATTTTTGGAA-GTTCGAGGG-TA
* *
74512 AAAATGGGATTTTT-GAAGTTT-GAGGGT-AAAATGGTAA-TTTTAGAAGTTTTCGA-GGTCA
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTAAAAATGG-AATTTTTGGAAG--TTCGAGGGT-A
*
74570 AAAATGGGATTTTTGGAAG-TTCGAGGGTAAA
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTAAA
74601 TTGGTAATTT
Statistics
Matches: 333, Mismatches: 25, Indels: 55
0.81 0.06 0.13
Matches are distributed among these distances:
56 10 0.03
57 22 0.07
58 67 0.20
59 163 0.49
60 47 0.14
61 23 0.07
62 1 0.00
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (59 bp):
AAAATGGAATTTTTGGAAGTTTCGAGGGTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
Found at i:74398 original size:148 final size:148
Alignment explanation
Indices: 74188--74514 Score: 463
Period size: 148 Copynumber: 2.2 Consensus size: 148
74178 TCGGGGTTAA
* * ** * *
74188 AAAATGG-GATTTTTGGAA-GTTCGAGGGTAAAATGGAAATTTTTGGAAGTTTCGAGGTTAAAAA
1 AAAATGGTAATTTTTGGAAGGTTTGAGGGTAAAATGGAAATTTTAAGAAGTTTAGAGGTCAAAAA
74251 TGGGATTTTTGGAAGTTCGA-GGGTAAAATGGTAA-TTTTGGAAT-GTTCGGGGTTAAAAAATGG
66 TGGGATTTTTGGAAGTT-GAGGGGTAAAATGGTAATTTTTGG-ATGGTTCGGGGTT-AAAAATGG
*
74313 GATTTTTGGAAGTTTGGGGGT
128 GATTTTTGGAAGTTTGAGGGT
*
74334 AAAATGGTAATTTTTGGAAGGTTTGAGGGTAAAATGGTAATTTTAAGAAGTTTTAG-GGTCAAAA
1 AAAATGGTAATTTTTGGAAGGTTTGAGGGTAAAATGGAAATTTTAAGAAG-TTTAGAGGTCAAAA
*
74398 ATGGGATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGGATGGTTCGGGGTTAAAAATGGGA
65 ATGGGATTTTTGGAAGTTGAGGGGTAAAATGGTAATTTTTGGATGGTTCGGGGTTAAAAATGGGA
74463 TTTTTGGAAGTTTGAGGGT
130 TTTTTGGAAGTTTGAGGGT
*
74482 AAAATTGTAATTTTT-GAAGGTTT-AGGGTTAAAA
1 AAAATGGTAATTTTTGGAAGGTTTGAGGG-TAAAA
74515 ATGGGATTTT
Statistics
Matches: 164, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
146 11 0.07
147 24 0.15
148 109 0.66
149 20 0.12
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (148 bp):
AAAATGGTAATTTTTGGAAGGTTTGAGGGTAAAATGGAAATTTTAAGAAGTTTAGAGGTCAAAAA
TGGGATTTTTGGAAGTTGAGGGGTAAAATGGTAATTTTTGGATGGTTCGGGGTTAAAAATGGGAT
TTTTGGAAGTTTGAGGGT
Found at i:74606 original size:59 final size:58
Alignment explanation
Indices: 74216--74624 Score: 366
Period size: 59 Copynumber: 6.9 Consensus size: 58
74206 GTTCGAGGGT
* * * * * **
74216 AAAATGGAAATTTTTGGAAGTTTCGAGGTTAAAAATGGGATTTTTGGAAGTTCGAGGGT--
1 AAAATGG-GATTTTTGGAAGTTT-GAGGGT-AAAATGGTAATTTTAGAAGTTTTAGGGTCA
* * * * * * **
74275 AAAATGGTAATTTTGGAATGTTCG-GGGTTAAAAAATGGGATTTTTGGAAGTTTGGGGGT--
1 AAAATGGGATTTTTGGAA-GTTTGAGGG-T--AAAATGGTAATTTTAGAAGTTTTAGGGTCA
*
74334 AAAATGGTAATTTTTGGAAGGTTTGAGGGTAAAATGGTAATTTTAAGAAGTTTTAGGGTCA
1 AAAATGG-GATTTTTGGAA-GTTTGAGGGTAAAATGGTAATTTT-AGAAGTTTTAGGGTCA
* * * ** *
74395 AAAATGGGATTTTTGGAAGTTT-AGGGGTAAAATGGTAATTTTTGGATGGTTCGGGGTTA
1 AAAATGGGATTTTTGGAAGTTTGA-GGGTAAAATGGTAA-TTTTAGAAGTTTTAGGGTCA
* * * *
74454 AAAATGGGATTTTTGGAAGTTTGAGGGTAAAATTGTAATTTTTGAAGGTTTAGGGTTA
1 AAAATGGGATTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTAGAAGTTTTAGGGTCA
*
74512 AAAATGGGATTTTT-GAAGTTTGAGGGTAAAATGGTAATTTTAGAAGTTTTCGAGGTCA
1 AAAATGGGATTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTAGAAGTTTTAG-GGTCA
* * *
74570 AAAATGGGATTTTTGGAAGTTCGAGGGTAAATTGGTAATTTTGGACAG-TTTAGGG
1 AAAATGGGATTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTAGA-AGTTTTAGGG
74625 ACCTTCGAGG
Statistics
Matches: 300, Mismatches: 36, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
57 36 0.12
58 74 0.25
59 149 0.50
60 31 0.10
61 10 0.03
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (58 bp):
AAAATGGGATTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTAGAAGTTTTAGGGTCA
Found at i:75685 original size:3 final size:3
Alignment explanation
Indices: 75670--75751 Score: 58
Period size: 3 Copynumber: 26.3 Consensus size: 3
75660 TAATTAATGC
* * *
75670 TAT TAT TAA TAT TAT TAT TGAT GTCAT TAT TAT TAT TAT CAT TAA TAT
1 TAT TAT TAT TAT TAT TAT T-AT -T-AT TAT TAT TAT TAT TAT TAT TAT
* * * *
75718 TGT TAAT GA- TAT TAG TAA TAT TAT TAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
75752 GTCAATATAA
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
2 1 0.02
3 53 0.87
4 4 0.07
5 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:75775 original size:33 final size:33
Alignment explanation
Indices: 75703--75776 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
75693 TCATTATTAT
* * *
75703 TATTATCATTAATATTGTTAATGATATTAGTAA
1 TATTATTATTAATATTGTCAATGATATTAATAA
*
75736 TATTATTATTATTATTGTCAAT-ATAATTAATAA
1 TATTATTATTAATATTGTCAATGAT-ATTAATAA
75769 TATTATTA
1 TATTATTA
75777 ATGACATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 34 0.94
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (33 bp):
TATTATTATTAATATTGTCAATGATATTAATAA
Found at i:76476 original size:6 final size:6
Alignment explanation
Indices: 76457--76547 Score: 66
Period size: 6 Copynumber: 15.5 Consensus size: 6
76447 AAATCCATTC
** **
76457 AAATTT -AA-TT AAATTT AAATTT AAA-GC AAATTT AAATTT AAAAAGAT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT --AAATTT
**
76504 AAATTT AAATTT AACA--T AAATTT AAATTT AAAAAT AAATTT AAA
1 AAATTT AAATTT AA-ATTT AAATTT AAATTT AAATTT AAATTT AAA
76548 CTAATTAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
4 3 0.05
5 10 0.15
6 47 0.72
7 1 0.02
8 4 0.06
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (6 bp):
AAATTT
Found at i:76489 original size:17 final size:17
Alignment explanation
Indices: 76457--76547 Score: 96
Period size: 17 Copynumber: 5.2 Consensus size: 17
76447 AAATCCATTC
*
76457 AAATTT-AATTAAATTT
1 AAATTTAAAGTAAATTT
*
76473 AAATTTAAAGCAAATTT
1 AAATTTAAAGTAAATTT
76490 AAATTTAAAAAGATAAATTT
1 AAATTT--AAAG-TAAATTT
76510 AAATTTAACA-TAAATTT
1 AAATTTAA-AGTAAATTT
*
76527 AAATTTAAAAATAAATTT
1 AAATTT-AAAGTAAATTT
76545 AAA
1 AAA
76548 CTAATTAAAC
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.09
17 28 0.43
18 14 0.22
19 5 0.08
20 12 0.18
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATTTAAAGTAAATTT
Found at i:76511 original size:37 final size:35
Alignment explanation
Indices: 76466--76547 Score: 121
Period size: 37 Copynumber: 2.3 Consensus size: 35
76456 CAAATTTAAT
76466 TAAATTTAAATTTAA-AGCAAATTTAAATTTAAAAAGA
1 TAAATTTAAATTTAACA-CAAATTTAAATTT-AAAA-A
*
76503 TAAATTTAAATTTAACATAAATTTAAATTTAAAAA
1 TAAATTTAAATTTAACACAAATTTAAATTTAAAAA
76538 TAAATTTAAA
1 TAAATTTAAA
76548 CTAATTAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
35 11 0.26
36 4 0.09
37 27 0.63
38 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (35 bp):
TAAATTTAAATTTAACACAAATTTAAATTTAAAAA
Found at i:77570 original size:20 final size:21
Alignment explanation
Indices: 77530--77583 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
77520 GTGGATTGAC
*
77530 ATGATTTATATTAAGTGTAAAT
1 ATGATTTA-ATTAAGTGTAAAA
77552 AT-ATTTAATTAAGAT-TAAAA
1 ATGATTTAATTAAG-TGTAAAA
77572 ATGA-TTAATTAA
1 ATGATTTAATTAA
77584 AGCTTAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 20 0.69
21 7 0.24
22 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
ATGATTTAATTAAGTGTAAAA
Found at i:80552 original size:29 final size:28
Alignment explanation
Indices: 80492--80614 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 28
80482 TGTTTGGAGC
* * *
80492 AAAATGCAATTTTGGAAAGTTTGGGGTG
1 AAAATGTAATTTTTGAAAGTTCGGGGTG
*
80520 AAAATGTAATTTTTGATAAGTTCGAGGGTA
1 AAAATGTAATTTTTGA-AAGTTCG-GGGTG
* * * **
80550 AAAATGTGATCTTTGGAAGTTCGAGGGCA
1 AAAATGTAATTTTTGAAAGTTCG-GGGTG
* *
80579 AAAATGTAATTTTAGAAAAGTTTGGGGTG
1 AAAATGTAATTTTTG-AAAGTTCGGGGTG
80608 AAAATGT
1 AAAATGT
80615 GGTTCGAGGG
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
28 14 0.18
29 40 0.52
30 23 0.30
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.33
Consensus pattern (28 bp):
AAAATGTAATTTTTGAAAGTTCGGGGTG
Found at i:80652 original size:30 final size:29
Alignment explanation
Indices: 80616--80762 Score: 113
Period size: 30 Copynumber: 5.0 Consensus size: 29
80606 TGAAAATGTG
80616 GTTCGAGGGTAAAAATGCAATTTTTGGGAA
1 GTTCGAGGGTAAAAATG-AATTTTTGGGAA
* ** *
80646 GTTCGAGGGAAAAAATGTGTTTTTTGGAA
1 GTTCGAGGGTAAAAATGAATTTTTGGGAA
*
80675 GTTCG-GGG-CAAAATGTAATTTTTGGAGAA
1 GTTCGAGGGTAAAAATG-AATTTTTGG-GAA
* * *
80704 ATTTGAGGGTTAAAATGTAA-TTTTGGGAA
1 GTTCGAGGGTAAAAATG-AATTTTTGGGAA
* * *
80733 TGTT-TAGGGGTTAAAATGAAATTTTGGGAA
1 -GTTCGA-GGGTAAAAATGAATTTTTGGGAA
80763 TGTTTAGTGG
Statistics
Matches: 97, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
27 6 0.06
28 9 0.09
29 26 0.27
30 47 0.48
31 9 0.09
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (29 bp):
GTTCGAGGGTAAAAATGAATTTTTGGGAA
Found at i:80677 original size:77 final size:76
Alignment explanation
Indices: 80539--80690 Score: 189
Period size: 77 Copynumber: 2.0 Consensus size: 76
80529 TTTTTGATAA
** * *
80539 GTTCGAGGGTAAAAATGTGATCTTTGGAAGTTCGAGGGCAAAAATGTAATTTTAGAAAAGTTTGG
1 GTTCGAGGGTAAAAATGCAATCTTTGGAAGTTCGAGGGAAAAAATGTAATTTTAGAAAAGTTCGG
*
80604 GGTGAAAATGTG
66 GG-CAAAATGTG
* ** * *
80616 GTTCGAGGGTAAAAATGCAATTTTTGGGAAGTTCGAGGGAAAAAATGTGTTTTTTG-GAAGTTCG
1 GTTCGAGGGTAAAAATGCAATCTTT-GGAAGTTCGAGGGAAAAAATGTAATTTTAGAAAAGTTCG
80680 GGGCAAAATGT
65 GGGCAAAATGT
80691 AATTTTTGGA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
76 7 0.11
77 31 0.48
78 26 0.41
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.30
Consensus pattern (76 bp):
GTTCGAGGGTAAAAATGCAATCTTTGGAAGTTCGAGGGAAAAAATGTAATTTTAGAAAAGTTCGG
GGCAAAATGTG
Found at i:80763 original size:30 final size:30
Alignment explanation
Indices: 80710--80869 Score: 203
Period size: 30 Copynumber: 5.3 Consensus size: 30
80700 AGAAATTTGA
* *
80710 GGGTTAAAATGTAATTTTGGGAATGTTTAG
1 GGGTTAAAATGAAATTTTGGAAATGTTTAG
*
80740 GGGTTAAAATGAAATTTTGGGAATGTTTAG
1 GGGTTAAAATGAAATTTTGGAAATGTTTAG
* *
80770 TGGTTAAAATGAAATTTTAGAAATGTTTAG
1 GGGTTAAAATGAAATTTTGGAAATGTTTAG
* * ** *
80800 GGGTTAAAATGTAATTTTAGAAAAATTTAA
1 GGGTTAAAATGAAATTTTGGAAATGTTTAG
** *
80830 GGGTTAAAATGAAATTTTGGAAAAATTTAA
1 GGGTTAAAATGAAATTTTGGAAATGTTTAG
80860 GGGTTAAAAT
1 GGGTTAAAAT
80870 ATGATTTTTG
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 119 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (30 bp):
GGGTTAAAATGAAATTTTGGAAATGTTTAG
Found at i:80877 original size:30 final size:30
Alignment explanation
Indices: 80684--80888 Score: 200
Period size: 30 Copynumber: 6.8 Consensus size: 30
80674 AGTTCGGGGC
* *
80684 AAAATGTAATTTTTGGAGAAA-TTTGAGGGTT
1 AAAATG-AAATTTTGGA-AAAGTTTAAGGGTT
* * * *
80715 AAAATGTAATTTTGGGAATGTTTAGGGGTT
1 AAAATGAAATTTTGGAAAAGTTTAAGGGTT
* *
80745 AAAATGAAATTTTGGGAATGTTT-AGTGGTT
1 AAAATGAAATTTTGGAAAAGTTTAAG-GGTT
* * *
80775 AAAATGAAATTTTAGAAATGTTTAGGGGTT
1 AAAATGAAATTTTGGAAAAGTTTAAGGGTT
* * *
80805 AAAATGTAATTTTAGAAAAATTTAAGGGTT
1 AAAATGAAATTTTGGAAAAGTTTAAGGGTT
*
80835 AAAATGAAATTTTGGAAAAATTTAAGGGTT
1 AAAATGAAATTTTGGAAAAGTTTAAGGGTT
* *
80865 AAAAT-ATGATTTTTGAAAAGTTTA
1 AAAATGA-AATTTTGGAAAAGTTTA
80889 GAAACCTTTT
Statistics
Matches: 150, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.03
30 139 0.93
31 7 0.05
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (30 bp):
AAAATGAAATTTTGGAAAAGTTTAAGGGTT
Found at i:80877 original size:90 final size:90
Alignment explanation
Indices: 80710--80889 Score: 229
Period size: 90 Copynumber: 2.0 Consensus size: 90
80700 AGAAATTTGA
* * ** * * **
80710 GGGTTAAAATGTAATTTTGGGAATGTTTAGGGGTTAAAATGAAATTTTGGGAATGTTTAGTGGTT
1 GGGTTAAAATGTAATTTTAGAAAAATTTAAGGGTTAAAATGAAATTTTGGAAAAATTTAGTGGTT
*
80775 AAAATGAAATTTTAGAAATGTTTAG
66 AAAATGAAATTTTAGAAAAGTTTAG
80800 GGGTTAAAATGTAATTTTAGAAAAATTTAAGGGTTAAAATGAAATTTTGGAAAAATTTAAG-GGT
1 GGGTTAAAATGTAATTTTAGAAAAATTTAAGGGTTAAAATGAAATTTTGGAAAAATTT-AGTGGT
* *
80864 TAAAAT-ATGATTTTTGAAAAGTTTAG
65 TAAAATGA-AATTTTAGAAAAGTTTAG
80890 AAACCTTTTG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 1 0.01
90 74 0.96
91 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.38
Consensus pattern (90 bp):
GGGTTAAAATGTAATTTTAGAAAAATTTAAGGGTTAAAATGAAATTTTGGAAAAATTTAGTGGTT
AAAATGAAATTTTAGAAAAGTTTAG
Found at i:82010 original size:11 final size:11
Alignment explanation
Indices: 81994--82030 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
81984 TCCCTTTTTA
81994 TTATTAAATAT
1 TTATTAAATAT
*
82005 TTATTATATA-
1 TTATTAAATAT
82015 TTA-TAAATAT
1 TTATTAAATAT
82025 TTATTA
1 TTATTA
82031 TAAAACGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 5 0.23
10 6 0.27
11 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTATTAAATAT
Found at i:82023 original size:20 final size:21
Alignment explanation
Indices: 81992--82032 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
81982 TCTCCCTTTT
81992 TATTATTAAATATTTATTATA
1 TATTATTAAATATTTATTATA
82013 TATTA-TAAATATTTATTATA
1 TATTATTAAATATTTATTATA
82033 AAACGTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATTAAATATTTATTATA
Found at i:82870 original size:21 final size:20
Alignment explanation
Indices: 82844--82898 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
82834 GGAGTTTCTG
* *
82844 GTATCGATAGATGCATGACTT
1 GTATCGGTAGATCCAT-ACTT
*
82865 GTATCGGTAGAAACCATACTT
1 GTATCGGTAG-ATCCATACTT
82886 GTATCGGTAGATC
1 GTATCGGTAGATC
82899 TAGCACAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 23 0.79
22 4 0.14
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (20 bp):
GTATCGGTAGATCCATACTT
Found at i:83976 original size:29 final size:29
Alignment explanation
Indices: 83934--83993 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
83924 ACAGTGGCAG
83934 AATATGAACGAGAATTCATACAACTTAGT
1 AATATGAACGAGAATTCATACAACTTAGT
83963 AATATGAACGAGAATTCATACAACTTAGT
1 AATATGAACGAGAATTCATACAACTTAGT
83992 AA
1 AA
83994 GTAAGCCCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (29 bp):
AATATGAACGAGAATTCATACAACTTAGT
Found at i:88144 original size:20 final size:21
Alignment explanation
Indices: 88121--88164 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
88111 ATATTAGGTG
* *
88121 TAAATAGATTTAATT-AAGAT
1 TAAAAAGAATTAATTAAAGAT
*
88141 TAAAAATAATTAATTAAAGAT
1 TAAAAAGAATTAATTAAAGAT
88162 TAA
1 TAA
88165 TGATGAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (21 bp):
TAAAAAGAATTAATTAAAGAT
Found at i:90875 original size:3 final size:3
Alignment explanation
Indices: 90867--90893 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
90857 GGTCACCCCT
90867 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
90894 AATGTCATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:91395 original size:17 final size:18
Alignment explanation
Indices: 91352--91396 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
91342 GTAAATTAGT
*
91352 TAAAATTTGTCACTGCAAG
1 TAAAA-TTGTCAATGCAAG
*
91371 TAAAATTGTCAATGTAAG
1 TAAAATTGTCAATGCAAG
91389 T-AAATTGT
1 TAAAATTGT
91397 TAGAGCAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.29
18 12 0.50
19 5 0.21
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (18 bp):
TAAAATTGTCAATGCAAG
Done.