Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004340.1 Kokia drynarioides strain JFW-HI SEQ_117674, 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: 214667
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 16 characters in sequence are not A, C, G, or T
Found at i:1400 original size:21 final size:21
Alignment explanation
Indices: 1374--1425 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1364 TGAGACAATA
1374 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* *
1395 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
*
1416 TTACCGATAC
1 CTACCGATAC
1426 TAAAAACTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:1475 original size:50 final size:50
Alignment explanation
Indices: 1417--1567 Score: 128
Period size: 50 Copynumber: 3.2 Consensus size: 50
1407 GTCATGCTTT
1417 TACCGATACTAAAAACTCTAGAGAGCTAAAAAGTTTTACCCTACAACTTC
1 TACCGATACTAAAAACTCTAGAGAGCTAAAAAGTTTTACCCTACAACTTC
* * * **
1467 TACCGATAC-AAGTATGACTTCT--AGAG--AAACA--TGT---C-A-TGCTTC
1 TACCGATACTAA--A-AAC-TCTAGAGAGCTAAAAAGTTTTACCCTACAACTTC
1509 TACCGATACTAAAAACTCTAGAGAGCTAAAAAGTTTTACCCTACAACTTC
1 TACCGATACTAAAAACTCTAGAGAGCTAAAAAGTTTTACCCTACAACTTC
*
1559 TATCGATAC
1 TACCGATAC
1568 AAGTATTTAG
Statistics
Matches: 74, Mismatches: 11, Indels: 32
0.63 0.09 0.27
Matches are distributed among these distances:
39 3 0.04
40 2 0.03
41 5 0.07
42 13 0.18
43 7 0.09
44 1 0.01
45 2 0.03
47 2 0.03
48 1 0.01
49 7 0.09
50 21 0.28
51 5 0.07
52 2 0.03
53 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (50 bp):
TACCGATACTAAAAACTCTAGAGAGCTAAAAAGTTTTACCCTACAACTTC
Found at i:1488 original size:21 final size:22
Alignment explanation
Indices: 1462--1517 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
1452 TTACCCTACA
1462 ACTTCTACCGATACAAGT-ATG
1 ACTTCTACCGATACAAGTCATG
** * *
1483 ACTTCTAGAGAAACATGTCATG
1 ACTTCTACCGATACAAGTCATG
1505 -CTTCTACCGATAC
1 ACTTCTACCGATAC
1518 TAAAAACTCT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (22 bp):
ACTTCTACCGATACAAGTCATG
Found at i:1531 original size:92 final size:92
Alignment explanation
Indices: 1374--1573 Score: 364
Period size: 92 Copynumber: 2.2 Consensus size: 92
1364 TGAGACAATA
* *
1374 CTACCGATACAAGTATGACTTCTACCGAAACATGTCATGCTTTTACCGATACTAAAAACTCTAGA
1 CTACCGATACAAGTATGACTTCTACAGAAACATGTCATGCTTCTACCGATACTAAAAACTCTAGA
1439 GAGCTAAAAAGTTTTACCCTACAACTT
66 GAGCTAAAAAGTTTTACCCTACAACTT
*
1466 CTACCGATACAAGTATGACTTCTAGAGAAACATGTCATGCTTCTACCGATACTAAAAACTCTAGA
1 CTACCGATACAAGTATGACTTCTACAGAAACATGTCATGCTTCTACCGATACTAAAAACTCTAGA
1531 GAGCTAAAAAGTTTTACCCTACAACTT
66 GAGCTAAAAAGTTTTACCCTACAACTT
*
1558 CTATCGATACAAGTAT
1 CTACCGATACAAGTAT
1574 TTAGACTATC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 104 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.28
Consensus pattern (92 bp):
CTACCGATACAAGTATGACTTCTACAGAAACATGTCATGCTTCTACCGATACTAAAAACTCTAGA
GAGCTAAAAAGTTTTACCCTACAACTT
Found at i:4996 original size:2 final size:2
Alignment explanation
Indices: 4989--5013 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4979 AGTAGTCAAT
4989 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
5014 TAATCATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11242 original size:23 final size:23
Alignment explanation
Indices: 11215--11450 Score: 283
Period size: 23 Copynumber: 10.3 Consensus size: 23
11205 ATCTTAATTC
** *
11215 TTTAAGCGCAAATCAAATTAATA
1 TTTAAGCATAAATCACATTAATA
* * *
11238 TTTAATCATAAATAATATTAATA
1 TTTAAGCATAAATCACATTAATA
*
11261 TTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
*
11284 TTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
*
11307 TTTAAGCATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
* * **
11330 TTTAAGTAGAAATCTTATTAATA
1 TTTAAGCATAAATCACATTAATA
* * *
11353 TTTAGGTACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* * *
11376 TTTTAGCATAAATCATATTAACA
1 TTTAAGCATAAATCACATTAATA
* *
11399 TTTATGCATAAATCACAATAATA
1 TTTAAGCATAAATCACATTAATA
11422 TTTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
11445 TTTAAG
1 TTTAAG
11451 GACAGATATA
Statistics
Matches: 182, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 182 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (23 bp):
TTTAAGCATAAATCACATTAATA
Found at i:11326 original size:69 final size:69
Alignment explanation
Indices: 11215--11450 Score: 328
Period size: 69 Copynumber: 3.4 Consensus size: 69
11205 ATCTTAATTC
* * * *
11215 TTTAAGCGCAAATCAAATTAATATTTAATCATAAATAATATTAATATTTAAGCACAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATT
11280 AATA
66 AATA
* * **
11284 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGTAGAAATCTTATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATT
11349 AATA
66 AATA
* * * * * * *
11353 TTTAGGTACAAATCACATTAATATTTTAGCATAAATCATATTAACATTTATGCATAAATCACAAT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATT
11418 AATA
66 AATA
*
11422 TTTAAGCATAAATCACATTAATATTTAAG
1 TTTAAGCACAAATCACATTAATATTTAAG
11451 GACAGATATA
Statistics
Matches: 145, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 145 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (69 bp):
TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAGCACAAATCACATT
AATA
Found at i:16999 original size:6 final size:6
Alignment explanation
Indices: 16984--17013 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
16974 GATGCTCGAG
16984 AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA A
17014 TAGAGCATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:17034 original size:30 final size:30
Alignment explanation
Indices: 17000--17061 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
16990 AAAGAAAAAG
* *
17000 AAAAAGAAAAAGAA-TAGAGCATGTGTACTC
1 AAAAAGAAAAA-AACAAGAGCATGAGTACTC
17030 AAAAAGAAAAAAACAAGAGCATGAGTACTC
1 AAAAAGAAAAAAACAAGAGCATGAGTACTC
17060 AA
1 AA
17062 GTTTGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.58, C:0.11, G:0.18, T:0.13
Consensus pattern (30 bp):
AAAAAGAAAAAAACAAGAGCATGAGTACTC
Found at i:28034 original size:17 final size:18
Alignment explanation
Indices: 27994--28034 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
27984 CTAAACTAAA
27994 AAGAATGCAGTGACAATT
1 AAGAATGCAGTGACAATT
28012 AA-AATGCAG-GCACAA-T
1 AAGAATGCAGTG-ACAATT
28028 AAGAATG
1 AAGAATG
28035 TATGAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 15 0.71
18 2 0.10
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (18 bp):
AAGAATGCAGTGACAATT
Found at i:39066 original size:12 final size:12
Alignment explanation
Indices: 39049--39090 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
39039 ATAACAACCT
39049 ATAAAATAAAAA
1 ATAAAATAAAAA
39061 ATAAAAATAAAAA
1 AT-AAAATAAAAA
39074 CA-AAAATAAGAAA
1 -ATAAAATAA-AAA
39087 ATAA
1 ATAA
39091 CAATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 10 0.38
13 15 0.58
14 1 0.04
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:39069 original size:13 final size:13
Alignment explanation
Indices: 39051--39090 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
39041 AACAACCTAT
39051 AAAATAAAAAATA
1 AAAATAAAAAATA
*
39064 AAAAT-AAAAACA
1 AAAATAAAAAATA
39076 AAAATAAGAAAATA
1 AAAATAA-AAAATA
39090 A
1 A
39091 CAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 11 0.48
13 6 0.26
14 6 0.26
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:68422 original size:27 final size:27
Alignment explanation
Indices: 68391--68444 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
68381 GAAATATTAT
68391 TTAAGGCTAAGTAAGAGGTTAATTAAG
1 TTAAGGCTAAGTAAGAGGTTAATTAAG
68418 TTAAGGCTAAGTAAGAGGTTAATTAAG
1 TTAAGGCTAAGTAAGAGGTTAATTAAG
68445 CTAATTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.30
Consensus pattern (27 bp):
TTAAGGCTAAGTAAGAGGTTAATTAAG
Found at i:68453 original size:21 final size:23
Alignment explanation
Indices: 68391--68454 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 23
68381 GAAATATTAT
68391 TTAAGGCTAAGTAAGAGGTTAATTAAG
1 TTAAGGCTAAGTAAGAGG----TTAAG
68418 TTAAGGCTAAGTAAGAGGTTAA-
1 TTAAGGCTAAGTAAGAGGTTAAG
*
68440 TTAA-GCTAATTAAGA
1 TTAAGGCTAAGTAAGA
68455 AAGTCTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 10 0.28
22 4 0.11
23 4 0.11
27 18 0.50
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (23 bp):
TTAAGGCTAAGTAAGAGGTTAAG
Found at i:78213 original size:3 final size:3
Alignment explanation
Indices: 78171--78196 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
78161 GCGCAAAAAT
78171 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
78197 AAAGCGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:78969 original size:10 final size:10
Alignment explanation
Indices: 78956--78998 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
78946 AAAAATTCAC
78956 AAAAAGAAAG
1 AAAAAGAAAG
78966 AAAAAGAAAG
1 AAAAAGAAAG
*
78976 AAGAAGAAAAG
1 AAAAAG-AAAG
*
78987 AAAAAAAAAG
1 AAAAAGAAAG
78997 AA
1 AA
78999 GAAATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:78986 original size:21 final size:21
Alignment explanation
Indices: 78962--79001 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
78952 TCACAAAAAG
*
78962 AAAGAAAAAGAAAGAAGAAGA
1 AAAGAAAAAAAAAGAAGAAGA
78983 AAAGAAAAAAAAAGAAGAA
1 AAAGAAAAAAAAAGAAGAA
79002 ATATATTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAAAGAAGAAGA
Found at i:93069 original size:21 final size:21
Alignment explanation
Indices: 93027--93072 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
93017 GACATGGCCG
* *
93027 TGTGGCTATTCCATACGTCCA
1 TGTGGCTACTCCACACGTCCA
93048 TGTGGCTACTCCACAC-TCCCA
1 TGTGGCTACTCCACACGT-CCA
93069 TGTG
1 TGTG
93073 CTCACCCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (21 bp):
TGTGGCTACTCCACACGTCCA
Found at i:94572 original size:122 final size:123
Alignment explanation
Indices: 94274--94640 Score: 567
Period size: 122 Copynumber: 3.0 Consensus size: 123
94264 GATTTCGTTA
*
94274 AATA-TAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTATTAATAAACCTTCCAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCAT
* * * *
94338 ATATTTCTTTAAAGAAATCTTTCCATTTATTTAATATGAGATATTATATAAAAGGAAATTG
66 ATATTTTTTTAAAGGAATATTTCCA--T-TTTAATATGAGATATTAAATAAAAGGAAATTG
* * *
94399 AATATTAAGAACATGAAAGTTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCCAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCAT
* *
94464 ATATTTTTTTAAAGGAATATTTCCATTTTAATATGAGAT-TTACATAAAAAGAAATTG
66 ATATTTTTTTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAGGAAATTG
* *
94521 AATATTAAAAACATGGAAGTTAATATCCATTTGGAAAGGATATAATGTTTTAATAAACCTTTCAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCAT
* *
94586 ATATTTTTCTAAAGGAATATTTTCATTTTAATATGAGATATTAAATAAAAGGAAA
66 ATATTTTTTTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAGGAAA
94641 GATAGCAAAA
Statistics
Matches: 222, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
122 113 0.51
123 26 0.12
124 1 0.00
125 4 0.02
126 78 0.35
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (123 bp):
AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCAT
ATATTTTTTTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAGGAAATTG
Found at i:101508 original size:117 final size:119
Alignment explanation
Indices: 101268--101613 Score: 468
Period size: 117 Copynumber: 2.9 Consensus size: 119
101258 GAACTCCTTA
* *
101268 AATATTAAAACATGGAAGTTAATATCCTTTTAGAAAGGATATAATGTTTTAATAAAACTTCCATA
1 AATATTAAAACATGGAAGTTAATAT-CTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCATA
* * **
101333 TATTTCTTTAAAGGAATATTTCCA-TTTAATATGAGATATTATGTAAAAGGAAATTG
65 TATATC--TAAAGGAATATTTCTATTTTAATATGAGATATTATACAAAAGGAAATTG
* * * *
101389 AATATTAAAAATATGGAAGTTAATATC-ATTGGAAATGATATAATATTTTAATAAACCTTCC-T-
1 AATATT-AAAACATGGAAGTTAATATCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCATA
*
101451 TATATCTAAAGGAATATTTCTATTTTAATATGAGATATTATACAAAATGAAATTG
65 TATATCTAAAGGAATATTTCTATTTTAATATGAGATATTATACAAAAGGAAATTG
101506 AATATTTAAAACATGGAAGTTAATATTCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCAT
1 AATA-TTAAAACATGGAAGTTAATA-TCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCAT
*
101571 ATATTTCTCTAAAGGAATATTT-TCATTTTAATATGAGATATTA
64 ATA--TATCTAAAGGAATATTTCT-ATTTTAATATGAGATATTA
101614 AATAAAAAGA
Statistics
Matches: 199, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
116 15 0.08
117 50 0.25
118 9 0.05
119 32 0.16
120 30 0.15
121 9 0.05
122 19 0.10
123 35 0.18
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (119 bp):
AATATTAAAACATGGAAGTTAATATCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCATAT
ATATCTAAAGGAATATTTCTATTTTAATATGAGATATTATACAAAAGGAAATTG
Found at i:103509 original size:29 final size:28
Alignment explanation
Indices: 103432--103519 Score: 70
Period size: 30 Copynumber: 3.0 Consensus size: 28
103422 GGCCAAAATT
* *
103432 TTTTAATAAAAGTTCAATTAGTCCCTAAA
1 TTTT-ATAAAAATTCAATTAGTCCTTAAA
* *
103461 CTTCACT-AAAATTACAAATTAGTCCTTAAA
1 TTTTA-TAAAAATT-C-AATTAGTCCTTAAA
*
103491 TTTTATAAAAATTCTAATTTAATCCTTAA
1 TTTTATAAAAATTC-AA-TTAGTCCTTAA
103520 TCTAAAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
28 6 0.13
29 8 0.17
30 32 0.70
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTTATAAAAATTCAATTAGTCCTTAAA
Found at i:104639 original size:34 final size:34
Alignment explanation
Indices: 104557--104674 Score: 128
Period size: 34 Copynumber: 3.5 Consensus size: 34
104547 AATTAACCAA
* * *
104557 CCAGCACACCAAATGCTCATATGAGCCTATCCAT
1 CCAGCACACCAAATGCTCGTATGAGTCAATCCAT
** *
104591 CCAGCATTCCAAATGCTCGTTTGAGTCAATCCAT
1 CCAGCACACCAAATGCTCGTATGAGTCAATCCAT
* * * * *
104625 CCAGCACACTAAATGCTTGTAAGAGTTAGTCCAT
1 CCAGCACACCAAATGCTCGTATGAGTCAATCCAT
*
104659 CCAACACACCAAATGC
1 CCAGCACACCAAATGC
104675 CACTATAATA
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (34 bp):
CCAGCACACCAAATGCTCGTATGAGTCAATCCAT
Found at i:107696 original size:55 final size:55
Alignment explanation
Indices: 107630--107740 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
107620 CTTTTACTTG
*
107630 TATTTGAGTAAACTTAAAGTAAGTTTTTTATGCATGCCATATTTGGAGGTGATTT
1 TATTTGAGTAAACTTAAAGTAAGTTTTTTATGCATGCCATATTTGGAGATGATTT
107685 TATTTGAGTAAACTTAAAGTAAGTTTTTTATGCATGCCATATTTGGAGATGATTT
1 TATTTGAGTAAACTTAAAGTAAGTTTTTTATGCATGCCATATTTGGAGATGATTT
107740 T
1 T
107741 GGGACAATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (55 bp):
TATTTGAGTAAACTTAAAGTAAGTTTTTTATGCATGCCATATTTGGAGATGATTT
Found at i:113108 original size:8 final size:9
Alignment explanation
Indices: 113057--113105 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
113047 AAAAAATGTA
*
113057 TAAAATGAT
1 TAAAATAAT
113066 T-AAAT-AT
1 TAAAATAAT
113073 TAAAATAAT
1 TAAAATAAT
113082 ATAAAATAATT
1 -TAAAATAA-T
113093 TAAAA-AAT
1 TAAAATAAT
113101 TAAAA
1 TAAAA
113106 AATAATATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 3 0.08
8 14 0.39
9 5 0.14
10 13 0.36
11 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAATAAT
Found at i:113109 original size:27 final size:26
Alignment explanation
Indices: 113027--113109 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
113017 TAAGATGATT
*
113027 ATATAAAA-AATTTCAATAA-TAAAAA
1 ATATAAAATAATTT-AAAAATTAAAAA
* *
113052 ATGTATAAAATGA-TTAAATATTAAAATA
1 A--TATAAAATAATTTAAAAATTAAAA-A
113080 ATATAAAATAATTTAAAAAATTAAAAA
1 ATATAAAATAATTT-AAAAATTAAAAA
113107 ATA
1 ATA
113110 ATATGGATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
25 1 0.02
26 12 0.26
27 20 0.43
28 13 0.28
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (26 bp):
ATATAAAATAATTTAAAAATTAAAAA
Found at i:113487 original size:27 final size:28
Alignment explanation
Indices: 113445--113501 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
113435 TCGAATAGAA
*
113445 TTTTATAATTTATAATTA-TT-TTTTAT
1 TTTTATAATTTATAATAATTTATTTTAT
*
113471 TTTTATAAATTTTTAATAATTTATTTTAT
1 TTTTAT-AATTTATAATAATTTATTTTAT
113500 TT
1 TT
113502 GAATCAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
27 10 0.38
28 2 0.08
29 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTATAATTTATAATAATTTATTTTAT
Found at i:114010 original size:22 final size:23
Alignment explanation
Indices: 113964--114010 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
113954 AGAGAAATGG
* **
113964 ATAAATTTTAAAAATAATTTTTT
1 ATAAAGTTTAAAAATAATTAATT
113987 ATAAAGTTT-AAAATAATTAATT
1 ATAAAGTTTAAAAATAATTAATT
114009 AT
1 AT
114011 TACTAGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
ATAAAGTTTAAAAATAATTAATT
Found at i:114352 original size:15 final size:15
Alignment explanation
Indices: 114332--114377 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
114322 TTAAATTACA
114332 TTTTAATCATTTATG
1 TTTTAATCATTTATG
*
114347 TTTTAA--ATGTTACG
1 TTTTAATCAT-TTATG
*
114361 TTTTAGTCATTTATG
1 TTTTAATCATTTATG
114376 TT
1 TT
114378 ATTGCGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 12 0.48
16 2 0.08
ACGTcount: A:0.24, C:0.07, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTTAATCATTTATG
Found at i:114370 original size:29 final size:27
Alignment explanation
Indices: 114318--114377 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
114308 AATAGTTGTT
114318 TGTTTTAAATTACATTTTAATCATTTA
1 TGTTTTAAATTACATTTTAATCATTTA
* *
114345 TGTTTTAAATGTTACGTTTTAGTCATTTA
1 TGTTTTAAA--TTACATTTTAATCATTTA
114374 TGTT
1 TGTT
114378 ATTGCGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 9 0.31
29 20 0.69
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (27 bp):
TGTTTTAAATTACATTTTAATCATTTA
Found at i:114577 original size:21 final size:22
Alignment explanation
Indices: 114553--114597 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
114543 ATTAAAAGAG
114553 AAGGAGAAGGA-AAGAAAATAA
1 AAGGAGAAGGAGAAGAAAATAA
* *
114574 AAGGAGAAGTAGAAGAGAATAA
1 AAGGAGAAGGAGAAGAAAATAA
114596 AA
1 AA
114598 AATAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (22 bp):
AAGGAGAAGGAGAAGAAAATAA
Found at i:114582 original size:27 final size:28
Alignment explanation
Indices: 114545--114603 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
114535 TTTTTTACAT
*
114545 TAAAAGAGAAGGAGAAG-GAA-AGAAAA
1 TAAAAGAGAAGGAGAAGAGAATAAAAAA
*
114571 TAAAAGGAGAAGTAGAAGAGAATAAAAAA
1 TAAAA-GAGAAGGAGAAGAGAATAAAAAA
114600 TAAA
1 TAAA
114604 GAAAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.18
27 11 0.39
28 3 0.11
29 9 0.32
ACGTcount: A:0.66, C:0.00, G:0.25, T:0.08
Consensus pattern (28 bp):
TAAAAGAGAAGGAGAAGAGAATAAAAAA
Found at i:118496 original size:12 final size:12
Alignment explanation
Indices: 118474--118581 Score: 91
Period size: 12 Copynumber: 9.3 Consensus size: 12
118464 GCTATTTTCA
118474 TGTTATTTTTGT
1 TGTTATTTTTGT
118486 TGTTATTTTTGT
1 TGTTATTTTTGT
* *
118498 TGTTGTTTTTAT
1 TGTTATTTTTGT
*
118510 TGCTATTTTTGT
1 TGTTATTTTTGT
*
118522 TGTT-TTTAATGT
1 TGTTATTT-TTGT
**
118534 TG----TTTTAC
1 TGTTATTTTTGT
*
118542 TGTTATTTTTGC
1 TGTTATTTTTGT
* *
118554 TGCTGTTTTTGT
1 TGTTATTTTTGT
118566 TGTTATTTTTGT
1 TGTTATTTTTGT
118578 TGTT
1 TGTT
118582 TGGATGTTAT
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
8 3 0.04
9 2 0.03
11 3 0.04
12 67 0.89
ACGTcount: A:0.08, C:0.04, G:0.18, T:0.70
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:118504 original size:68 final size:69
Alignment explanation
Indices: 118432--118576 Score: 163
Period size: 68 Copynumber: 2.1 Consensus size: 69
118422 TTTTGGTTAA
* * *
118432 TTGTTTTTGAGTTG-T-TTTTTATTGTTTTGATTGCTATTTT-CATGTTATTTTTGTTGTTATTT
1 TTGTTTTTGA-TTGCTATTTTTATTGTTTTGAATGCTATTTTAC-TGTTATTTTTGCTGCTATTT
118494 TTGTTG
64 TTGTTG
* * * * *
118500 TTGTTTTT-ATTGCTATTTTTGTTGTTTTTAATGTTGTTTTACTGTTATTTTTGCTGCTGTTTTT
1 TTGTTTTTGATTGCTATTTTTATTGTTTTGAATGCTATTTTACTGTTATTTTTGCTGCTATTTTT
118564 GTTG
66 GTTG
*
118568 TTATTTTTG
1 TTGTTTTTG
118577 TTGTTTGGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
66 3 0.05
67 2 0.03
68 58 0.91
69 1 0.02
ACGTcount: A:0.10, C:0.04, G:0.17, T:0.69
Consensus pattern (69 bp):
TTGTTTTTGATTGCTATTTTTATTGTTTTGAATGCTATTTTACTGTTATTTTTGCTGCTATTTTT
GTTG
Found at i:118519 original size:24 final size:24
Alignment explanation
Indices: 118453--118525 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 24
118443 TTGTTTTTTA
* **
118453 TTGTTTTGATTGCTA-TTTTCATG
1 TTGTTTTTATTGCTATTTTTGTTG
* * *
118476 TTATTTTTGTTGTTATTTTTGTTG
1 TTGTTTTTATTGCTATTTTTGTTG
118500 TTGTTTTTATTGCTATTTTTGTTG
1 TTGTTTTTATTGCTATTTTTGTTG
118524 TT
1 TT
118526 TTTAATGTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 11 0.28
24 29 0.73
ACGTcount: A:0.10, C:0.04, G:0.16, T:0.70
Consensus pattern (24 bp):
TTGTTTTTATTGCTATTTTTGTTG
Found at i:118564 original size:44 final size:44
Alignment explanation
Indices: 118510--118595 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
118500 TTGTTTTTAT
*
118510 TGCTATTTTTGTTGTT-TTTAATGTTGTTT-TACTGTTATTTTTGC
1 TGCTATTTTTGTTGTTATTT-ATGTTGTTTGGA-TGTTATTTTTGC
* *
118554 TGCTGTTTTTGTTGTTATTTTTGTTGTTTGGATGTTATTTTT
1 TGCTATTTTTGTTGTTATTTATGTTGTTTGGATGTTATTTTT
118596 ATGCTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 33 0.89
45 4 0.11
ACGTcount: A:0.09, C:0.05, G:0.19, T:0.67
Consensus pattern (44 bp):
TGCTATTTTTGTTGTTATTTATGTTGTTTGGATGTTATTTTTGC
Found at i:118567 original size:32 final size:30
Alignment explanation
Indices: 118492--118569 Score: 75
Period size: 32 Copynumber: 2.4 Consensus size: 30
118482 TTGTTGTTAT
* *
118492 TTTTGTTGTTGTTTTTATTGCTATTTTTGTTG
1 TTTT-TTGTTG-TTTTACTGCTATTTTTGCTG
*
118524 TTTTTAATGTTGTTTTACTGTTATTTTTGCTG
1 TTTTT--TGTTGTTTTACTGCTATTTTTGCTG
118556 CTGTTTTTGTTGTT
1 -T-TTTTTGTTGTT
118570 ATTTTTGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
31 1 0.03
32 28 0.72
33 6 0.15
34 4 0.10
ACGTcount: A:0.08, C:0.05, G:0.18, T:0.69
Consensus pattern (30 bp):
TTTTTTGTTGTTTTACTGCTATTTTTGCTG
Found at i:118596 original size:56 final size:57
Alignment explanation
Indices: 118473--118596 Score: 153
Period size: 56 Copynumber: 2.2 Consensus size: 57
118463 TGCTATTTTC
** * * *
118473 ATGTTATTTTTGTTGTTATTTTTGTTGTTGTTTTTATTGCTATTTTTGTTGTTTTTA
1 ATGTTATTTTTACTGTTATTTTTGCTGCTGTTTTTATTGCTATTTTTGTTGTTTTGA
* * * *
118530 ATGTT-GTTTTACTGTTATTTTTGCTGCTGTTTTTGTTGTTATTTTTGTTG-TTTGG
1 ATGTTATTTTTACTGTTATTTTTGCTGCTGTTTTTATTGCTATTTTTGTTGTTTTGA
118585 ATGTTATTTTTA
1 ATGTTATTTTTA
118597 TGCTTTTTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
55 8 0.14
56 43 0.77
57 5 0.09
ACGTcount: A:0.10, C:0.03, G:0.18, T:0.69
Consensus pattern (57 bp):
ATGTTATTTTTACTGTTATTTTTGCTGCTGTTTTTATTGCTATTTTTGTTGTTTTGA
Found at i:118797 original size:49 final size:47
Alignment explanation
Indices: 118704--118798 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 47
118694 TATCTTAATA
* * *
118704 TAATTTTTTAATGTATTTTAAATTTATTTATTTTTTAATGTTTGTTT
1 TAATTTTTTAATGTATTTGAAATTTATATATTTTTTAATATTTGTTT
*
118751 TAATGTTTTTAAGTGTATTTGATATATTATATATTTTTTAA-ATTTGTT
1 TAAT-TTTTTAA-TGTATTTGAAAT-TTATATATTTTTTAATATTTGTT
118799 GTATGTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 4 0.10
48 7 0.17
49 16 0.39
50 14 0.34
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.64
Consensus pattern (47 bp):
TAATTTTTTAATGTATTTGAAATTTATATATTTTTTAATATTTGTTT
Found at i:124495 original size:27 final size:27
Alignment explanation
Indices: 124443--124495 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
124433 TATTTTTGTA
***
124443 AGGAATATTATGATTTTGGTGAATTAG
1 AGGAATATTATGATTTTGAAAAATTAG
124470 AGGAATATTATGATTTT-AAAATATTA
1 AGGAATATTATGATTTTGAAAA-ATTA
124496 TAATTGTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (27 bp):
AGGAATATTATGATTTTGAAAAATTAG
Found at i:126302 original size:15 final size:16
Alignment explanation
Indices: 126282--126313 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
126272 TGACACGGAC
126282 GCGC-TTTATTAAAGA
1 GCGCTTTTATTAAAGA
126297 GCGCTTTTATTAAAGA
1 GCGCTTTTATTAAAGA
126313 G
1 G
126314 TGTTTACCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (16 bp):
GCGCTTTTATTAAAGA
Found at i:128388 original size:33 final size:27
Alignment explanation
Indices: 128322--128399 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
128312 CTCATTTCTT
128322 GATGACTCCGACTCAACCAACGATATC
1 GATGACTCCGACTCAACCAACGATATC
128349 GATGACTCCGACTCAACCAACGATATC
1 GATGACTCCGACTCAACCAACGATATC
* *
128376 GATGAATCTGACTCAACCACACGA
1 GATGACTCCGACTCAACCA-ACGA
128400 GGCACGATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 44 0.92
28 4 0.08
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (27 bp):
GATGACTCCGACTCAACCAACGATATC
Found at i:128602 original size:33 final size:33
Alignment explanation
Indices: 128565--128670 Score: 158
Period size: 33 Copynumber: 3.2 Consensus size: 33
128555 AACCACAATG
* *
128565 ACAACCCTGCCCAAAAGCTGATCCCAGACAACC
1 ACAACCCTGCCTAGAAGCTGATCCCAGACAACC
* *
128598 ACAACCCTGCCTAGAAGCTAATCCTAGACAACC
1 ACAACCCTGCCTAGAAGCTGATCCCAGACAACC
* *
128631 ACAACCCTGCTTAGAAGCTGATCCCAAACAACC
1 ACAACCCTGCCTAGAAGCTGATCCCAGACAACC
128664 ACAACCC
1 ACAACCC
128671 CGACCTAAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.37, C:0.40, G:0.11, T:0.12
Consensus pattern (33 bp):
ACAACCCTGCCTAGAAGCTGATCCCAGACAACC
Found at i:128881 original size:62 final size:59
Alignment explanation
Indices: 128762--129049 Score: 346
Period size: 62 Copynumber: 4.8 Consensus size: 59
128752 CATTGGTTTA
* *
128762 TTTTGAATATTTTTGTATACATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACACATTATTTTTATATTGTATCATTTAATAAAATAGAAGTTC
*
128821 TTTTGAATATTTTTGTGA-ACATTATTTTTGGCATATTGTATCATTTAATGAAATAGAAGTTC
1 TTTTGAATATTTTTGT-ACACATTATTTTT---ATATTGTATCATTTAATAAAATAGAAGTTC
* ** *
128883 ATTTGAATATTTTTCAACATATTATTTTTATATTGCT-TCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACACATTATTTTTATATTG-TATCATTTAATAAAATAGAAGTTC
* * *** *
128942 TTTTAAATATTTTTGTACACTTTATCAATGACATATTGTATCATTTAATGAAATAGAAGTTC
1 TTTTGAATATTTTTGTACACATTAT---TTTTATATTGTATCATTTAATAAAATAGAAGTTC
** *
129004 TTTTGAATATTTTTCAACACATTATTTTTATATTGTTTCATTTAAT
1 TTTTGAATATTTTTGTACACATTATTTTTATATTGTATCATTTAAT
129050 TGAGAAGCCA
Statistics
Matches: 194, Mismatches: 25, Indels: 20
0.81 0.10 0.08
Matches are distributed among these distances:
59 90 0.46
60 2 0.01
61 2 0.01
62 100 0.52
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.51
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACACATTATTTTTATATTGTATCATTTAATAAAATAGAAGTTC
Found at i:128977 original size:121 final size:121
Alignment explanation
Indices: 128763--129049 Score: 450
Period size: 121 Copynumber: 2.4 Consensus size: 121
128753 ATTGGTTTAT
** * *
128763 TTTGAATATTTTTGTATACATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTGAA
1 TTTGAATATTTTTCAACACATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTAAA
*** *
128828 TATTTTTGTGAACATTATTTTTGGCATATTGTATCATTTAATGAAATAGAAGTTCA
66 TATTTTTGTGAACATTATCAATGACATATTGTATCATTTAATGAAATAGAAGTTCA
* *
128884 TTTGAATATTTTTCAACATATTATTTTTATATTGCTTCATTTAATAAAATAGAAGTTCTTTTAAA
1 TTTGAATATTTTTCAACACATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTAAA
* *
128949 TATTTTTGT-ACACTTTATCAATGACATATTGTATCATTTAATGAAATAGAAGTTCT
66 TATTTTTGTGA-ACATTATCAATGACATATTGTATCATTTAATGAAATAGAAGTTCA
129005 TTTGAATATTTTTCAACACATTATTTTTATATTGTTTCATTTAAT
1 TTTGAATATTTTTCAACACATTATTTTTATATTGTTTCATTTAAT
129050 TGAGAAGCCA
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
120 1 0.01
121 150 0.99
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.51
Consensus pattern (121 bp):
TTTGAATATTTTTCAACACATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTAAA
TATTTTTGTGAACATTATCAATGACATATTGTATCATTTAATGAAATAGAAGTTCA
Found at i:134273 original size:59 final size:58
Alignment explanation
Indices: 134179--134372 Score: 221
Period size: 59 Copynumber: 3.3 Consensus size: 58
134169 CCAAATAATA
* * * *
134179 GAAAAGGTTATGTCTGAAAGGATATTCTTGAAAAGGATATATATGAAATGGATATCAAT
1 GAAAAGGTTATATCCGAATGGATATTCTTGAAAAGGTTATAT-TGAAATGGATATCAAT
* *
134238 GCAAAGGTTATATCCGAATGGATATTCTTGAAAAGGTTATATCCGAAAT-GATTATCAAT
1 GAAAAGGTTATATCCGAATGGATATTCTTGAAAAGGTTATAT-TGAAATGGA-TATCAAT
* * *
134297 GAAAAGGTTATATCCGTATGGATA-TCATTGAAAATGTTATATTCGAAATGGATATTAATT
1 GAAAAGGTTATATCCGAATGGATATTC-TTGAAAAGGTTATATT-GAAATGGATATCAA-T
*
134357 AAAAAGGTTATTATCC
1 GAAAAGGTTA-TATCC
134373 TAAAGGGATT
Statistics
Matches: 116, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
58 4 0.03
59 95 0.82
60 12 0.10
61 5 0.04
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (58 bp):
GAAAAGGTTATATCCGAATGGATATTCTTGAAAAGGTTATATTGAAATGGATATCAAT
Found at i:134302 original size:30 final size:30
Alignment explanation
Indices: 134179--134381 Score: 175
Period size: 29 Copynumber: 6.8 Consensus size: 30
134169 CCAAATAATA
* * *
134179 GAAAAGGTTATGTCTGAAA-GGATATTC-TT
1 GAAAAGGTTATATCCGAAATGGATA-TCAAT
* **
134208 GAAAAGGATATATATGAAATGGATATCAAT
1 GAAAAGGTTATATCCGAAATGGATATCAAT
* *
134238 GCAAAGGTTATATCCG-AATGGATATTC-TT
1 GAAAAGGTTATATCCGAAATGGATA-TCAAT
134267 GAAAAGGTTATATCCGAAAT-GATTATCAAT
1 GAAAAGGTTATATCCGAAATGGA-TATCAAT
* *
134297 GAAAAGGTTATATCCG-TATGGATATCATT
1 GAAAAGGTTATATCCGAAATGGATATCAAT
* * *
134326 GAAAATGTTATATTCGAAATGGATATTAATT
1 GAAAAGGTTATATCCGAAATGGATATCAA-T
* * *
134357 AAAAAGGTTATTATCCTAAAGGGAT
1 GAAAAGGTTA-TATCCGAAATGGAT
134382 TAACATAAAC
Statistics
Matches: 141, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
29 68 0.48
30 53 0.38
31 9 0.06
32 11 0.08
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.33
Consensus pattern (30 bp):
GAAAAGGTTATATCCGAAATGGATATCAAT
Found at i:141020 original size:164 final size:164
Alignment explanation
Indices: 140749--141076 Score: 620
Period size: 164 Copynumber: 2.0 Consensus size: 164
140739 CTCACACGAG
* *
140749 CTGTCAAGAATCTGCATTTAAGCATAAATCCCAACCATCGTAGGGCTTATAATCCATTTAGGATT
1 CTGTCAAGAATATGCATTTAAGCATAAATCCCAACCATCGTAGGGCCTATAATCCATTTAGGATT
140814 CATATCTCTTTTTCGACTCACGATGCTGCTCACACAAGTTGTCGAGGACTCACAACATATACGGT
66 CATATCTCTTTTTCGACTCACGATGCTGCTCACACAAGTTGTCGAGGACTCACAACATATACGGT
140879 ACCTCAGCCATCAATACAGTATCTATGCATATAA
131 ACCTCAGCCATCAATACAGTATCTATGCATATAA
140913 CTGTCAAGAATATGCATTTAAGCATAAATCCCAACCATCGTAGGGCCTATAATCCATTTAGGATT
1 CTGTCAAGAATATGCATTTAAGCATAAATCCCAACCATCGTAGGGCCTATAATCCATTTAGGATT
*
140978 CATATCTCTTTTTCGACTCACGATGTTGCTCACACAAGTTGTCGAGGACTCACAACATATACGGT
66 CATATCTCTTTTTCGACTCACGATGCTGCTCACACAAGTTGTCGAGGACTCACAACATATACGGT
*
141043 ACCTCAGCCATCAATACGGTATCTATGCATATAA
131 ACCTCAGCCATCAATACAGTATCTATGCATATAA
141077 TTGTTTCCCT
Statistics
Matches: 160, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 160 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (164 bp):
CTGTCAAGAATATGCATTTAAGCATAAATCCCAACCATCGTAGGGCCTATAATCCATTTAGGATT
CATATCTCTTTTTCGACTCACGATGCTGCTCACACAAGTTGTCGAGGACTCACAACATATACGGT
ACCTCAGCCATCAATACAGTATCTATGCATATAA
Found at i:150957 original size:55 final size:55
Alignment explanation
Indices: 150897--151006 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
150887 AAATGTCAGA
*
150897 ATGATGATGTAGTCAGAGTAGAATAAGATCGATGTGATAGTTCAGCTAATATTAT
1 ATGATGATGTAGTCAGAGTAGAATAAGACCGATGTGATAGTTCAGCTAATATTAT
150952 ATGATGATGTAGTCAGAGTAGAATAAGACCGATGTGATAGTTCAGCTAATATTAT
1 ATGATGATGTAGTCAGAGTAGAATAAGACCGATGTGATAGTTCAGCTAATATTAT
151007 TTTAGCTTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (55 bp):
ATGATGATGTAGTCAGAGTAGAATAAGACCGATGTGATAGTTCAGCTAATATTAT
Found at i:150992 original size:28 final size:27
Alignment explanation
Indices: 150906--150992 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 27
150896 AATGATGATG
150906 TAGTCAGAGTAGAATAAGATCGATGTGA
1 TAGTCAGAGTAGAATAAGA-CGATGTGA
* * * *
150934 TAGTTCAG-CTA-ATATTATATGATGATG-
1 TAG-TCAGAGTAGA-ATAAGACGATG-TGA
150961 TAGTCAGAGTAGAATAAGACCGATGTGA
1 TAGTCAGAGTAGAATAAGA-CGATGTGA
150989 TAGT
1 TAGT
150993 TCAGCTAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
26 4 0.09
27 16 0.36
28 20 0.45
29 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (27 bp):
TAGTCAGAGTAGAATAAGACGATGTGA
Found at i:157543 original size:40 final size:40
Alignment explanation
Indices: 157499--157580 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
157489 AAAATTAGTG
*
157499 TCTGTAGGTGCTATTCTGGGCCAAAAAAGAGATTCCCTGT
1 TCTGTAGGTGCTATTCTAGGCCAAAAAAGAGATTCCCTGT
* *
157539 TCTGTAGGTGCTATTTTAGGTCAAAAAAGAGATTCCCTGT
1 TCTGTAGGTGCTATTCTAGGCCAAAAAAGAGATTCCCTGT
157579 TC
1 TC
157581 AGAGCTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (40 bp):
TCTGTAGGTGCTATTCTAGGCCAAAAAAGAGATTCCCTGT
Found at i:159696 original size:23 final size:24
Alignment explanation
Indices: 159669--159716 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
159659 AATATTTTTG
*
159669 AAAAATTAATTT-T-AAAGTAATTA
1 AAAAATT-ATTTATGAAAATAATTA
159692 AAAAATTATTTATGAAAATAATTA
1 AAAAATTATTTATGAAAATAATTA
159716 A
1 A
159717 TTTGGGTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 8 0.36
24 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
AAAAATTATTTATGAAAATAATTA
Found at i:167600 original size:15 final size:15
Alignment explanation
Indices: 167566--167610 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
167556 AAACCTTGTT
*
167566 GAAGATG-TGAAAGA
1 GAAGATGCTGAAAAA
167580 G-A-ATGCTGAAAAA
1 GAAGATGCTGAAAAA
*
167593 GAAGATGCTGAGAAA
1 GAAGATGCTGAAAAA
167608 GAA
1 GAA
167611 TCGATCGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 3 0.12
13 8 0.31
14 2 0.08
15 13 0.50
ACGTcount: A:0.51, C:0.04, G:0.31, T:0.13
Consensus pattern (15 bp):
GAAGATGCTGAAAAA
Found at i:169211 original size:24 final size:24
Alignment explanation
Indices: 169179--169253 Score: 116
Period size: 24 Copynumber: 3.1 Consensus size: 24
169169 CTATACTGGT
*
169179 TAACTATTCTAGGCTCGTAAGAGC
1 TAACCATTCTAGGCTCGTAAGAGC
169203 TAACCATTCTAGGCTCGTAAGAGC
1 TAACCATTCTAGGCTCGTAAGAGC
*
169227 TAACCATTTTAGGCTCGTGAA-AGC
1 TAACCATTCTAGGCTCGT-AAGAGC
169251 TAA
1 TAA
169254 TGTTGTCTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 46 0.96
25 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (24 bp):
TAACCATTCTAGGCTCGTAAGAGC
Found at i:178629 original size:21 final size:21
Alignment explanation
Indices: 178600--178643 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
178590 TATTTTATAA
178600 TATTAATTAATAA-AATATTAT
1 TATTAATT-ATAATAATATTAT
* *
178621 TATTTATTATAATACTATTAT
1 TATTAATTATAATAATATTAT
178642 TA
1 TA
178644 ATGAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTAATTATAATAATATTAT
Found at i:181272 original size:29 final size:29
Alignment explanation
Indices: 181240--181300 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
181230 TTACCAACTC
* *
181240 TTTGAATGCTTATACTCT-TTTCTTTTTCT
1 TTTGAATACATATACTCTATTT-TTTTTCT
* *
181269 TTTGAGTACATATGCTCTATTTTTTTTCT
1 TTTGAATACATATACTCTATTTTTTTTCT
181298 TTT
1 TTT
181301 CCTTTTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (29 bp):
TTTGAATACATATACTCTATTTTTTTTCT
Found at i:181955 original size:18 final size:18
Alignment explanation
Indices: 181922--181956 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
181912 CCATTGTTAA
*
181922 AAAAATAATAGAGAATAT
1 AAAAATAAAAGAGAATAT
*
181940 AAAAATAAAAGTGAATA
1 AAAAATAAAAGAGAATA
181957 AATATTGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (18 bp):
AAAAATAAAAGAGAATAT
Found at i:183709 original size:28 final size:29
Alignment explanation
Indices: 183677--183738 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 29
183667 GACTAAATTG
183677 GTAAAATGAGTAAAGTTGGGGCCTCAAA-
1 GTAAAATGAGTAAAGTTGGGGCCTCAAAC
183705 GTAAAATGAGTAAAGTTGGGGCCTCAAAC
1 GTAAAATGAGTAAAGTTGGGGCCTCAAAC
183734 GTAAA
1 GTAAA
183739 CCCTAATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 28 0.85
29 5 0.15
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.21
Consensus pattern (29 bp):
GTAAAATGAGTAAAGTTGGGGCCTCAAAC
Found at i:184463 original size:17 final size:18
Alignment explanation
Indices: 184435--184468 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
184425 CCTTTATAAA
184435 TATTTCAAAACTAATTCT
1 TATTTCAAAACTAATTCT
*
184453 TATTT-AAAACTTATTC
1 TATTTCAAAACTAATTC
184469 CTTTATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTCAAAACTAATTCT
Found at i:188176 original size:48 final size:48
Alignment explanation
Indices: 188114--188248 Score: 182
Period size: 48 Copynumber: 2.8 Consensus size: 48
188104 CTGCAAATTA
*
188114 GTGGTAGCTTATCCACAAAGTATTATCAATGGCTA-TTTAACTGCATAT
1 GTGGTGGCTTATCCACAAAGTATTATCAATGGC-AGTTTAACTGCATAT
*
188162 GTGGTGGCTTATCCACAAAGTGTTATCAATGGCAGTTTAACTGCATAT
1 GTGGTGGCTTATCCACAAAGTATTATCAATGGCAGTTTAACTGCATAT
* * * * * *
188210 GTGGTGGCTCATCCATAAAATGTAATCAATGACAGTTTA
1 GTGGTGGCTTATCCACAAAGTATTATCAATGGCAGTTTA
188249 TCTGTAAATC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 1 0.01
48 78 0.99
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (48 bp):
GTGGTGGCTTATCCACAAAGTATTATCAATGGCAGTTTAACTGCATAT
Found at i:188280 original size:22 final size:22
Alignment explanation
Indices: 188233--188284 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
188223 CATAAAATGT
* **
188233 AATCAATGACAGTTTATCTGTA
1 AATCAGTGACAGTTTATCTACA
*
188255 AATCAGTGACAGTTTATCTACC
1 AATCAGTGACAGTTTATCTACA
188277 AATCAGTG
1 AATCAGTG
188285 GTGCCTTGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (22 bp):
AATCAGTGACAGTTTATCTACA
Found at i:189220 original size:20 final size:20
Alignment explanation
Indices: 189192--189231 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
189182 AAATAAATAA
*
189192 TAAAATTAAATAAAAAGAAT
1 TAAAATTAAAGAAAAAGAAT
* *
189212 TAAATTTAAAGAAACAGAAT
1 TAAAATTAAAGAAAAAGAAT
189232 ACAAAGGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
TAAAATTAAAGAAAAAGAAT
Found at i:189275 original size:29 final size:30
Alignment explanation
Indices: 189243--189312 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
189233 CAAAGGTAAA
189243 AATTTAAAAGAAT-AAAAATAAAA-GGATTT
1 AATTTAAAA-AATGAAAAATAAAACGGATTT
* * *
189272 AATTTGACAAATGAAAAATAAAACGGGTTT
1 AATTTAAAAAATGAAAAATAAAACGGATTT
189302 AATTTAAAAAA
1 AATTTAAAAAA
189313 AGTTGAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 3 0.09
29 17 0.50
30 14 0.41
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (30 bp):
AATTTAAAAAATGAAAAATAAAACGGATTT
Found at i:191217 original size:49 final size:48
Alignment explanation
Indices: 191145--191606 Score: 252
Period size: 49 Copynumber: 9.4 Consensus size: 48
191135 TCCACTATAA
* * * *
191145 CTTTAGGGTATAAGATTCACCTTTACGGCTTCAATCTACCCTTCTTCAT
1 CTTTAGGGTATAAGATTCGCCTTTGCAGCTTCAATCTACCC-TCCTCAT
* * * *
191194 CTTTAGGCTATAAGATTCGCCTTTGCAGCTTCAATCTGCCTCTCTTCAC
1 CTTTAGGGTATAAGATTCGCCTTTGCAGCTTCAATCTACC-CTCCTCAT
* * * * * *
191243 CTCTAGGGTATAAGACTCGCCTTTGCGGCTTCAACCTTTCCCTCCT-AA
1 CTTTAGGGTATAAGATTCGCCTTTGCAGCTTCAATC-TACCCTCCTCAT
* * * *
191291 CTCTAGGGTATAAGATTTGCCCTTGCAGCTTCAATC-AGTCCCTCCACAT
1 CTTTAGGGTATAAGATTCGCCTTTGCAGCTTCAATCTA--CCCTCCTCAT
* * * * *
191340 CTCTTA-GGTATAAGATTTGCCCTTACAGCTTCAATCTTTCCCTCCACAT
1 CT-TTAGGGTATAAGATTCGCCTTTGCAGCTTCAATC-TACCCTCCTCAT
* * * * * *
191389 CTTTAGGGTAGAAGATTTGCCTTTGC-GACTTCAATATTTCCCTCCACAC
1 CTTTAGGGTATAAGATTCGCCTTTGCAG-CTTCAAT-CTACCCTCCTCAT
* * * ** * * * * *
191438 CTCTAGGGTATAAGATTTGTCTTTGTGGCTTCAACCTTTCCTTCCACAG
1 CTTTAGGGTATAAGATTCGCCTTTGCAGCTTCAATC-TACCCTCCTCAT
* * ** * **
191487 CTTTAAGGGTATAAGATTTGCCCTTATAGCTTCAATCTTCCCTTTTACAGT
1 CTTT-AGGGTATAAGATTCGCCTTTGCAGCTTCAATCTACCCTCCT-CA-T
* * * * * * *
191538 -TTTAGGTGTATGAGATTCACCCTTACGGCTTCAATATACTCCT-CTACAG
1 CTTTAGG-GTATAAGATTCGCCTTTGCAGCTTCAATCTAC-CCTCCT-CAT
191587 CTTTAGGGGTATAAGATTCG
1 CTTTA-GGGTATAAGATTCG
191607 TACTTGTGGC
Statistics
Matches: 333, Mismatches: 60, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
48 42 0.13
49 204 0.61
50 82 0.25
51 5 0.02
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.36
Consensus pattern (48 bp):
CTTTAGGGTATAAGATTCGCCTTTGCAGCTTCAATCTACCCTCCTCAT
Found at i:191528 original size:98 final size:96
Alignment explanation
Indices: 191148--191529 Score: 367
Period size: 98 Copynumber: 3.9 Consensus size: 96
191138 ACTATAACTT
** * * * ** * *
191148 TAGGGTATAAGATTCACCTTTACGGCTTCAATC-TACCCTTCTTCATCTTTAGGCTATAAGATTC
1 TAGGGTATAAGATTTGCCTTTGCGGCTTCAACCTTTCCC-TCCACA-CTTTAGGGTATAAGATTT
* * **
191212 GCCTTTGCAGCTTCAATCTGCCTCTCTTCACCTC
64 GCCCTTGCAGCTTCAATCTTCC-CTCCACACCTC
* * *
191246 TAGGGTATAAGACTCGCCTTTGCGGCTTCAACCTTTCCCTCCTA-ACTCTAGGGTATAAGATTTG
1 TAGGGTATAAGATTTGCCTTTGCGGCTTCAACCTTTCCCTCC-ACACTTTAGGGTATAAGATTTG
* *
191310 CCCTTGCAGCTTCAATCAGTCCCTCCACATCTC
65 CCCTTGCAGCTTCAATC-TTCCCTCCACACCTC
* * * * *
191343 TTA-GGTATAAGATTTGCCCTTACAGCTTCAATCTTTCCCTCCACATCTTTAGGGTAGAAGATTT
1 -TAGGGTATAAGATTTGCCTTTGCGGCTTCAACCTTTCCCTCCACA-CTTTAGGGTATAAGATTT
* *
191407 GCCTTTGC-GACTTCAATATTTCCCTCCACACCTC
64 GCCCTTGCAG-CTTCAAT-CTTCCCTCCACACCTC
* * *
191441 TAGGGTATAAGATTTGTCTTTGTGGCTTCAACCTTTCCTTCCACAGCTTTAAGGGTATAAGATTT
1 TAGGGTATAAGATTTGCCTTTGCGGCTTCAACCTTTCCCTCCACA-CTTT-AGGGTATAAGATTT
**
191506 GCCCTTATAGCTTCAATCTTCCCT
64 GCCCTTGCAGCTTCAATCTTCCCT
191530 TTTACAGTTT
Statistics
Matches: 232, Mismatches: 41, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
96 1 0.00
97 77 0.33
98 124 0.53
99 29 0.12
100 1 0.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (96 bp):
TAGGGTATAAGATTTGCCTTTGCGGCTTCAACCTTTCCCTCCACACTTTAGGGTATAAGATTTGC
CCTTGCAGCTTCAATCTTCCCTCCACACCTC
Found at i:191528 original size:147 final size:146
Alignment explanation
Indices: 191196--191529 Score: 370
Period size: 146 Copynumber: 2.3 Consensus size: 146
191186 TTCTTCATCT
* * * * ** * * *
191196 TTAGGCTATAAGATTCGCCTTTGCAGCTTCAATC-TGCCTCTCTTCACCTCTAGGGTATAAGACT
1 TTAGG-TATAAGATTTGCCCTTACAGCTTCAATCTTTCC-CTCCACATCTTTAGGGTAGAAGACT
* *
191260 CGCCTTTGCGGCTTCAACCTTTCCCTCCTAACTCTAGGGTATAAGATTTGCCCTTGCAGCTTCAA
64 CGCCTTTGCGACTTCAACATTTCCCTCCTAACTCTAGGGTATAAGATTTGCCCTTGCAGCTTCAA
* *
191325 TCAGTCCCTCCACATCTC
129 CCAGTCCCTCCACAGCTC
* *
191343 TTAGGTATAAGATTTGCCCTTACAGCTTCAATCTTTCCCTCCACATCTTTAGGGTAGAAGATTTG
1 TTAGGTATAAGATTTGCCCTTACAGCTTCAATCTTTCCCTCCACATCTTTAGGGTAGAAGACTCG
* * * **
191408 CCTTTGCGACTTCAATATTTCCCTCC-ACACCTCTAGGGTATAAGATTTGTCTTTGTGGCTTCAA
66 CCTTTGCGACTTCAACATTTCCCTCCTA-A-CTCTAGGGTATAAGATTTGCCCTTGCAGCTTCAA
** *
191472 CCTTTCCTTCCACAGCT-
129 CCAGTCCCTCCACAGCTC
*
191489 TTAAGGGTATAAGATTTGCCCTTATAGCTTCAATC-TTCCCT
1 TT-A-GGTATAAGATTTGCCCTTACAGCTTCAATCTTTCCCT
191530 TTTACAGTTT
Statistics
Matches: 158, Mismatches: 24, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
145 1 0.01
146 71 0.45
147 57 0.36
148 29 0.18
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.35
Consensus pattern (146 bp):
TTAGGTATAAGATTTGCCCTTACAGCTTCAATCTTTCCCTCCACATCTTTAGGGTAGAAGACTCG
CCTTTGCGACTTCAACATTTCCCTCCTAACTCTAGGGTATAAGATTTGCCCTTGCAGCTTCAACC
AGTCCCTCCACAGCTC
Found at i:191877 original size:93 final size:91
Alignment explanation
Indices: 191780--192362 Score: 277
Period size: 93 Copynumber: 6.2 Consensus size: 91
191770 GGATTTGATG
* *
191780 CTTCACTCCATTCCACTATAACCTCAGGCAGATCGAGATCTGTTTTTTAATCCGACCCATTGCAA
1 CTTCACTCCATTCCACTATAACCTCAGGAAGAT-GAGATCTGTTTTTTAATCCGACCCACTGCAA
*
191845 GTTCAAGGGTATAGGATTTGGTGTTGTA
65 CTT-AAGGGTATAGGATTTGGTGTTGTA
* * * * * *
191873 CTTCACTCCATTCCATTGTAACCTTAGGAAG-TAAGATCTGTTACTCATTTTAATCTG-CTTCAC
1 CTTCACTCCATTCCACTATAACCTCAGGAAGATGAGATCTG-T--T--TTTTAATCCGAC-CCAC
* ** * *
191936 TGCAACTTTA-GG-A-A-GATGAGAT-TTGATG
60 TGCAACTTAAGGGTATAGGATTTGGTGTTG-TA
* * * * * * *
191964 CTTCAATCCATTCTACTGTAACCTCAGGGAGATTGAGATTTGCTTTTTAATCCAACCCACTGCAA
1 CTTCACTCCATTCCACTATAACCTCAGGAAGA-TGAGATCTGTTTTTTAATCCGACCCACTGCAA
192029 CTTTAAGGGTATAGGATTTGGTGTTGTA
65 C-TTAAGGGTATAGGATTTGGTGTTGTA
** * * *
192057 CTTCACTCCATTCCACTATAATAGT-AGGGAGATTGAGATCCAT-TACTCATTTTAATTCGATCC
1 CTTCACTCCATTCCACTATAA-CCTCAGGAAGA-TGAGAT-C-TGT--T--TTTTAATCCGACCC
* *
192120 ACTACAACTTCAAGGATATAGGATTT-G-G-TG--
58 ACTGCAACTT-AAGGGTATAGGATTTGGTGTTGTA
* * * *
192150 CTTCACTCTATTCCACTGTAACCTCAAGG-AGATTGAGATCTGCTTTGTTTTAATCCTACTTCAC
1 CTTCACTCCATTCCACTATAACCTC-AGGAAGA-TGAGATCTG--TT-TTTTAATCCGAC-CCAC
* **
192214 TGTAACTTCAGAAAG-ATAGGATATT-GTGTTGTAA
60 TGCAACTT-A-AGGGTATAGGAT-TTGGTGTTGT-A
* * * * *
192248 CTTTACTCCATTCCACTGTAACCTTACGG-AGATTGAGATCCAT-TACTTGTTTCAATCTGATCC
1 CTTCACTCCATTCCACTATAACCTCA-GGAAGA-TGAGAT-C-TGT--TT-TTT-AATCCGACCC
* * * *
192311 ACTGTAACTTTAAGGTTATAGGATTTGATGTTGTGG
58 ACTGCAAC-TTAAGGGTATAGGATTTGGTGTTGT-A
192347 CTTCACTCCATTCCAC
1 CTTCACTCCATTCCAC
192363 CGTATCTTCA
Statistics
Matches: 373, Mismatches: 70, Indels: 88
0.70 0.13 0.17
Matches are distributed among these distances:
88 17 0.05
89 4 0.01
90 6 0.02
91 50 0.13
92 25 0.07
93 106 0.28
94 12 0.03
95 7 0.02
96 20 0.05
97 5 0.01
98 70 0.19
99 43 0.12
100 8 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (91 bp):
CTTCACTCCATTCCACTATAACCTCAGGAAGATGAGATCTGTTTTTTAATCCGACCCACTGCAAC
TTAAGGGTATAGGATTTGGTGTTGTA
Found at i:191988 original size:184 final size:186
Alignment explanation
Indices: 191673--192279 Score: 679
Period size: 184 Copynumber: 3.2 Consensus size: 186
191663 AGAGGTGTAT
* * *
191673 GATTTGGTGTTGTACTTCACTCAATTCCACTGTAACCTTAAGGAGATTGAGATCTGTTACTCATT
1 GATTTGGTGTTGTACTTCACTCCATTCCACTGTAACCTTAAGGAGAGTAAGATCTGTTACTCATT
* *
191738 TTAATCCGCTTCACTACAACTTCAGGAAGATGGGATTTGATGCTTCACTCCATTCCACTATAACC
66 TTAATCCGCTTCACTACAACTTCAGGAAGATGAGATTTGATGCTTCAATCCATTCCACTATAACC
* * * *
191803 TCAGGCAGATCGAGATCTGTTTTTTAATCCGACCCATTGCAAGTTCAAGGGTATAG
131 TCAGGCAGATCGAGATCTGCTTTTTAATCCAACCCACTGCAACTTCAAGGGTATAG
*
191859 GATTTGGTGTTGTACTTCACTCCATTCCATTGTAACCTT-AGGA-AGTAAGATCTGTTACTCATT
1 GATTTGGTGTTGTACTTCACTCCATTCCACTGTAACCTTAAGGAGAGTAAGATCTGTTACTCATT
* * * * *
191922 TTAATCTGCTTCACTGCAACTTTAGGAAGATGAGATTTGATGCTTCAATCCATTCTACTGTAACC
66 TTAATCCGCTTCACTACAACTTCAGGAAGATGAGATTTGATGCTTCAATCCATTCCACTATAACC
* * * *
191987 TCAGGGAGATTGAGATTTGCTTTTTAATCCAACCCACTGCAACTTTAAGGGTATAG
131 TCAGGCAGATCGAGATCTGCTTTTTAATCCAACCCACTGCAACTTCAAGGGTATAG
* *** * * * **
192043 GATTTGGTGTTGTACTTCACTCCATTCCACTATAATAGTAGGGAGATTGAGATCCATTACTCATT
1 GATTTGGTGTTGTACTTCACTCCATTCCACTGTAACCTTAAGGAGAGTAAGATCTGTTACTCATT
* * * * * * * *
192108 TTAATTCGATCCACTACAACTTCAAGG-ATAT-AGGATTTGGTGCTTCACTCTATTCCACTGTAA
66 TTAATCCGCTTCACTACAACTTC-AGGAAGATGA-GATTTGATGCTTCAATCCATTCCACTATAA
* * * * **
192171 CCTCAAGG-AGATTGAGATCTGCTTTGTTTTAATCCTACTTCACTGTAACTTCAGAAAG-ATAG
129 CCTC-AGGCAGATCGAGATCTGC--T-TTTTAATCCAAC-CCACTGCAACTTCA-AGGGTATAG
* *
192233 GATATT-GTGTTGTAACTTTACTCCATTCCACTGTAACCTTACGGAGA
1 GAT-TTGGTGTTGT-ACTTCACTCCATTCCACTGTAACCTTAAGGAGA
192280 TTGAGATCCA
Statistics
Matches: 356, Mismatches: 53, Indels: 19
0.83 0.12 0.04
Matches are distributed among these distances:
184 158 0.44
185 8 0.02
186 116 0.33
187 6 0.02
188 1 0.00
189 11 0.03
190 25 0.07
191 31 0.09
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (186 bp):
GATTTGGTGTTGTACTTCACTCCATTCCACTGTAACCTTAAGGAGAGTAAGATCTGTTACTCATT
TTAATCCGCTTCACTACAACTTCAGGAAGATGAGATTTGATGCTTCAATCCATTCCACTATAACC
TCAGGCAGATCGAGATCTGCTTTTTAATCCAACCCACTGCAACTTCAAGGGTATAG
Found at i:198072 original size:302 final size:303
Alignment explanation
Indices: 197505--198084 Score: 1047
Period size: 302 Copynumber: 1.9 Consensus size: 303
197495 CTATTGAATC
*
197505 GGGTCCGGAGGGATTCCTTATGGCCACCACGATGGCGGCAACGATGGGCTCAGGTAAGTCTCCAC
1 GGGTCCGGAGGGATTCCTTATGGCCACCACGACGGCGGCAACGATGGGCTCAGGTAAGTCTCCAC
197570 CCTTCTTTTTTATTTGTTTTTATTTTTTGTATTTTCGACATAAAAAGTAAAGAAAGAAAACAATG
66 CCTTCTTTTTTATTTGTTTTTATTTTTTGTATTTTCGACATAAAAAGTAAAGAAAGAAAACAATG
* *
197635 TATATAAATAGATGTATAAAAAACAATAATTTACCCTTGAAATTTCTTGTTTTATTTCAATGTGT
131 TATATAAATAGATGTATAAAAAACAATAACTTACCCTTGAAATTTCTTATTTTATTTCAATGTGT
* *
197700 GCATAAAAGAGGAAAATACATCTGATGTTTCTATGGCTTTTATAGCCTAGTACAAATCATTTGCC
196 GCATAAAAGAGGAAAATACATCTGATGTTTCTATGGCTTTTATAACCAAGTACAAATCATTTGCC
*
197765 -TTTTTTTCTATTTGTTTTCGACACCCTCACGTGACCATTAAT
261 TTTTTTTTCGATTTGTTTTCGACACCCTCACGTGACCATTAAT
*
197807 GGGTCTGGAGGGATTCCTTATGGCCACCACGACGGCGGCAACGATGGGCTCAGGTAAGTCTCCAC
1 GGGTCCGGAGGGATTCCTTATGGCCACCACGACGGCGGCAACGATGGGCTCAGGTAAGTCTCCAC
*
197872 CCTTCTTTTTTATTTGTTTTTATTTTTTGTATTTTCGACATAAAAAGTAAAGAGAGAAAACAATG
66 CCTTCTTTTTTATTTGTTTTTATTTTTTGTATTTTCGACATAAAAAGTAAAGAAAGAAAACAATG
*
197937 TATATAAATATATGTATAAAAAAACAATAACTTACCCTTGAAATTTCTTATTTTATTTCAATGTG
131 TATATAAATAGATGTAT-AAAAAACAATAACTTACCCTTGAAATTTCTTATTTTATTTCAATGTG
*
198002 TGCATAAAAGAGGAAAATATATCTGATGTTTCTATGGCTTTTATAACCAAGTACAAATCATTTG-
195 TGCATAAAAGAGGAAAATACATCTGATGTTTCTATGGCTTTTATAACCAAGTACAAATCATTTGC
198066 CTTTTTTTTCGATTTGTTT
260 CTTTTTTTTCGATTTGTTT
198085 CTTGCTTTTT
Statistics
Matches: 266, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
302 144 0.54
303 122 0.46
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (303 bp):
GGGTCCGGAGGGATTCCTTATGGCCACCACGACGGCGGCAACGATGGGCTCAGGTAAGTCTCCAC
CCTTCTTTTTTATTTGTTTTTATTTTTTGTATTTTCGACATAAAAAGTAAAGAAAGAAAACAATG
TATATAAATAGATGTATAAAAAACAATAACTTACCCTTGAAATTTCTTATTTTATTTCAATGTGT
GCATAAAAGAGGAAAATACATCTGATGTTTCTATGGCTTTTATAACCAAGTACAAATCATTTGCC
TTTTTTTTCGATTTGTTTTCGACACCCTCACGTGACCATTAAT
Found at i:200070 original size:59 final size:58
Alignment explanation
Indices: 199906--200314 Score: 244
Period size: 59 Copynumber: 7.0 Consensus size: 58
199896 AGATCGAGGT
* * * ** * * *
199906 AAAACGTAATTTTGG-AAGTTTGAGGGCAAAAATGTAATTTTTTTAAAGTTTGGGAGTA
1 AAAATGTAATTTTGGAAAGTTCGAGGGTAAAAATGTAA-TTTTTGGAAGTTCGGGGGCA
* * * *
199964 AAAATGTAA-TTTCGATAAGATT--AGGGTAAAAATGTGATTTTTAGAAGTTTGGGGGCA
1 AAAATGTAATTTTGGA-AAG-TTCGAGGGTAAAAATGTAATTTTTGGAAGTTCGGGGGCA
* * * ** *
200021 AAAATATAATTTTGGAGAAGTTCGAGGGTCAAAATGTGATTTTTGGAAGTTCATGGGTA
1 AAAATGTAATTTTGGA-AAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTCGGGGGCA
* * *
200080 AAAATGTAATATTTGGAAA-TTCGAGGGCAAAAAAT-TAATTTTTGAGAAGTTCGAGAGCA
1 AAAATGTAAT-TTTGGAAAGTTCGAGGG-TAAAAATGTAATTTTTG-GAAGTTCGGGGGCA
* * * ** **
200139 AAAATTTAATTTTTGG-AAGTTCGAGGGAAAAAATGTAATTTTTTAGAAGTTCAAGGGTT
1 AAAATGTAA-TTTTGGAAAGTTCGAGGGTAAAAATGTAA-TTTTTGGAAGTTCGGGGGCA
* * * * * * * **
200198 AAAATGTGATTTTAGAAAAGTT-TAGGGGTTAAAAT-TAAATTTTGGAAATTTAGGGTTC-
1 AAAATGTAATTTT-GGAAAGTTCGA-GGGTAAAAATGTAATTTTTGG-AAGTTCGGGGGCA
** * * *
200256 AAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAATGTGATTTTTGGAAAGTTTGGGGGC
1 AAAATGTAA-TTTTGGAAAGTTCGAGGGTAAAAATGTAATTTTTGG-AAGTTCGGGGGC
200315 CTTCTGAGCA
Statistics
Matches: 276, Mismatches: 55, Indels: 39
0.75 0.15 0.11
Matches are distributed among these distances:
57 30 0.11
58 88 0.32
59 131 0.47
60 27 0.10
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (58 bp):
AAAATGTAATTTTGGAAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTCGGGGGCA
Found at i:200188 original size:30 final size:29
Alignment explanation
Indices: 199820--200214 Score: 238
Period size: 29 Copynumber: 13.7 Consensus size: 29
199810 AAATGGAATC
* *
199820 AAAAATG-AAGTTTTAGAGAATTCGA-GGT
1 AAAAATGTAATTTTTAGA-AGTTCGAGGGT
* * * * ** *
199848 AAAAACGTAATTTTGAAAATTTTTAGGGG
1 AAAAATGTAATTTTTAGAAGTTCGAGGGT
* * *
199877 AAAAATGTCATTTTGAGAAAGATCGA-GGT
1 AAAAATGTAATTTTTAG-AAGTTCGAGGGT
* * * *
199906 -AAAACGTAA-TTTTGGAAGTTTGAGGGC
1 AAAAATGTAATTTTTAGAAGTTCGAGGGT
*
199933 AAAAATGTAATTTTTTTA-AAGTTTG-GGAGT
1 AAAAATGTAA--TTTTTAGAAGTTCGAGG-GT
** *
199963 AAAAATGTAATTTCGATAAGATT--AGGGT
1 AAAAATGTAATTTTTAGAAG-TTCGAGGGT
* * * *
199991 AAAAATGTGATTTTTAGAAGTTTGGGGGC
1 AAAAATGTAATTTTTAGAAGTTCGAGGGT
* *
200020 AAAAATATAATTTTGGAGAAGTTCGAGGGT
1 AAAAATGTAATTTT-TAGAAGTTCGAGGGT
* * *
200050 CAAAATGTGATTTTTGGAAGTTC-ATGGGT
1 AAAAATGTAATTTTTAGAAGTTCGA-GGGT
* * * *
200079 AAAAATGTAATATTTGGAAATTCGAGGGCA
1 AAAAATGTAATTTTTAGAAGTTCGAGGG-T
* *
200109 AAAAAT-TAATTTTTGAGAAGTTCGAGAGC
1 AAAAATGTAATTTTT-AGAAGTTCGAGGGT
* * *
200138 AAAAATTTAATTTTTGGAAGTTCGAGGGA
1 AAAAATGTAATTTTTAGAAGTTCGAGGGT
*
200167 AAAAATGTAATTTTTTAGAAGTTCAAGGGT
1 AAAAATGTAA-TTTTTAGAAGTTCGAGGGT
* *
200197 TAAAATGTGA-TTTTAGAA
1 AAAAATGTAATTTTTAGAA
200215 AAGTTTAGGG
Statistics
Matches: 282, Mismatches: 64, Indels: 42
0.73 0.16 0.11
Matches are distributed among these distances:
26 6 0.02
27 8 0.03
28 56 0.20
29 113 0.40
30 95 0.34
31 4 0.01
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (29 bp):
AAAAATGTAATTTTTAGAAGTTCGAGGGT
Found at i:200202 original size:88 final size:87
Alignment explanation
Indices: 199986--200195 Score: 244
Period size: 88 Copynumber: 2.4 Consensus size: 87
199976 CGATAAGATT
* * * * *
199986 AGGGTAAAAATGTGATTTTTAGAAGTTTGGGGGCAAAAATATAATTTTGGAGAAGTTCGAGGGTC
1 AGGGTAAAAATGTAATTTTTAGAAGTTCGAGGGAAAAAATATAATTTTGGAGAAGTTCGAGAGTC
*
200051 AAAATGTGATTTTTGGAAGTTC
66 AAAATGTAATTTTTGGAAGTTC
* * * *
200073 ATGGGTAAAAATGTAATATTTGGAAATTCGAGGGCAAAAAAT-TAATTTTTGAGAAGTTCGAGAG
1 A-GGGTAAAAATGTAATTTTTAGAAGTTCGAGGG-AAAAAATATAATTTTGGAGAAGTTCGAGAG
*
200137 -CAAAAATTTAATTTTTGGAAGTTC
64 TC-AAAATGTAATTTTTGGAAGTTC
* *
200161 GAGGGAAAAAATGTAATTTTTTAGAAGTTCAAGGG
1 -AGGGTAAAAATGTAA-TTTTTAGAAGTTCGAGGG
200196 TTAAAATGTG
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
87 2 0.02
88 79 0.77
89 21 0.21
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (87 bp):
AGGGTAAAAATGTAATTTTTAGAAGTTCGAGGGAAAAAATATAATTTTGGAGAAGTTCGAGAGTC
AAAATGTAATTTTTGGAAGTTC
Found at i:200219 original size:30 final size:30
Alignment explanation
Indices: 199905--200308 Score: 194
Period size: 30 Copynumber: 13.8 Consensus size: 30
199895 AAGATCGAGG
* * *
199905 TAAAACGTAA-TTTTGG-AAGTTTGAGGGC
1 TAAAATGTAATTTTTGGAAAGTTTAAGGGT
* ** *
199933 AAAAATGTAATTTTTTTAAAGTTT-GGGAGT
1 TAAAATGTAATTTTTGGAAAGTTTAAGG-GT
* * *
199963 AAAAATGTAA--TTTCGATAAGATT-AGGGT
1 TAAAATGTAATTTTTGGA-AAGTTTAAGGGT
* * * ** *
199991 AAAAATGTGATTTTTAG-AAGTTTGGGGGC
1 TAAAATGTAATTTTTGGAAAGTTTAAGGGT
* * **
200020 AAAAATATAA-TTTTGGAGAAGTTCGAGGGT
1 TAAAATGTAATTTTTGGA-AAGTTTAAGGGT
* * * *
200050 CAAAATGTGATTTTTGG-AAGTTCATGGGT
1 TAAAATGTAATTTTTGGAAAGTTTAAGGGT
* * ** *
200079 AAAAATGTAATATTTGGAAA-TTCGAGGGCA
1 TAAAATGTAATTTTTGGAAAGTTTAAGGG-T
* ** * *
200109 AAAAAT-TAATTTTT-GAGAAGTTCGAGAGC
1 TAAAATGTAATTTTTGGA-AAGTTTAAGGGT
* * ** *
200138 AAAAATTTAATTTTTGG-AAGTTCGAGGGA
1 TAAAATGTAATTTTTGGAAAGTTTAAGGGT
* * *
200167 AAAAATGTAATTTTT-TAGAAGTTCAAGGGT
1 TAAAATGTAATTTTTGGA-AAGTTTAAGGGT
* * * *
200197 TAAAATGTGATTTTAGAAAAGTTTAGGGGT
1 TAAAATGTAATTTTTGGAAAGTTTAAGGGT
*
200227 TAAAAT-TAAATTTTGGAAA-TTT-AGGGT
1 TAAAATGTAATTTTTGGAAAGTTTAAGGGT
200254 TCAAAATGTAATTTTTGGAAAGTTTAAGGGT
1 T-AAAATGTAATTTTTGGAAAGTTTAAGGGT
*
200285 TAAAATGTGATTTTTGGAAAGTTT
1 TAAAATGTAATTTTTGGAAAGTTT
200309 GGGGGCCTTC
Statistics
Matches: 299, Mismatches: 54, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
27 5 0.02
28 43 0.14
29 114 0.38
30 123 0.41
31 14 0.05
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (30 bp):
TAAAATGTAATTTTTGGAAAGTTTAAGGGT
Found at i:200241 original size:88 final size:89
Alignment explanation
Indices: 200139--200313 Score: 221
Period size: 88 Copynumber: 2.0 Consensus size: 89
200129 TTCGAGAGCA
* *
200139 AAAATTTAATTTTTGGAAGTTCGAGGG-AAAAAATGTAATTTTTTAG-AAGTTCAAGGGTTAAAA
1 AAAATTTAAATTTTGGAAATT-GAGGGTAAAAAATGTAA-TTTTTAGAAAGTTCAAGGGTTAAAA
200202 TGTGATTTTAGAAAAGTTTAGGGGTT
64 TGTGATTTTAGAAAAGTTTAGGGGTT
* ** * *
200228 AAAA-TTAAATTTTGGAAATTTAGGGTTCAAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAATG
1 AAAATTTAAATTTTGGAAATTGAGGGTAAAAAATGTAATTTTTAGAAAGTTCAAGGGTTAAAATG
* * *
200292 TGATTTTTGGAAAGTTTGGGGG
66 TGATTTTAGAAAAGTTTAGGGG
200314 CCTTCTGAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
87 10 0.14
88 60 0.81
89 4 0.05
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.38
Consensus pattern (89 bp):
AAAATTTAAATTTTGGAAATTGAGGGTAAAAAATGTAATTTTTAGAAAGTTCAAGGGTTAAAATG
TGATTTTAGAAAAGTTTAGGGGTT
Found at i:200276 original size:58 final size:58
Alignment explanation
Indices: 200192--200304 Score: 156
Period size: 58 Copynumber: 1.9 Consensus size: 58
200182 TAGAAGTTCA
* *
200192 AGGGTTAAAATGTGATTTTAGAAAAGTTTAGGGGTTAAAAT-TAAATTTTGGAAATTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTAAGGGTTAAAATGTAAATTTTGGAAATTT
* * * *
200249 AGGGTTCAAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAATGTGATTTTTGGAAA
1 AGGGTT-AAAATGTAATTTTAGAAAAGTTTAAGGGTTAAAATGTAAATTTTGGAAA
200305 GTTTGGGGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
57 6 0.12
58 31 0.65
59 11 0.23
ACGTcount: A:0.37, C:0.01, G:0.24, T:0.38
Consensus pattern (58 bp):
AGGGTTAAAATGTAATTTTAGAAAAGTTTAAGGGTTAAAATGTAAATTTTGGAAATTT
Found at i:200993 original size:3 final size:3
Alignment explanation
Indices: 200985--201031 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
200975 TTTAAAACTG
*
200985 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
201032 TCATTACTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:201950 original size:6 final size:6
Alignment explanation
Indices: 201939--202020 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
201929 ATTTTGTATT
*
201939 AATTTA AATTTA GAA--TA AATTTA AACTTA AA-TTA AATTTA AATTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
201985 AA--AA AATTTTA AACTTA AA-ATA AATTTA AATTTA AA
1 AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTTA AA
202021 AACAAATTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
4 5 0.08
5 11 0.18
6 41 0.66
7 5 0.08
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:201959 original size:17 final size:17
Alignment explanation
Indices: 201939--202049 Score: 134
Period size: 17 Copynumber: 6.5 Consensus size: 17
201929 ATTTTGTATT
* *
201939 AATTTAAATTTAGAATA
1 AATTTAAACTTAAAATA
*
201956 AATTTAAACTTAAATTA
1 AATTTAAACTTAAAATA
*
201973 AATTTAAATTTAAAA-A
1 AATTTAAACTTAAAATA
201989 AATTTTAAACTTAAAATA
1 AA-TTTAAACTTAAAATA
* *
202007 AATTTAAATTTAAAAACA
1 AATTTAAACTT-AAAATA
202025 AATTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
*
202042 AATCTAAA
1 AATTTAAA
202050 AAATGGGTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
16 3 0.04
17 59 0.74
18 18 0.22
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.37
Consensus pattern (17 bp):
AATTTAAACTTAAAATA
Found at i:201978 original size:34 final size:33
Alignment explanation
Indices: 201939--202049 Score: 159
Period size: 34 Copynumber: 3.2 Consensus size: 33
201929 ATTTTGTATT
* *
201939 AATTTAAATTTAGAATAAATTTAAACTTAAATTA
1 AATTTAAATTTA-AAAAAATTTAAACTTAAAATA
201973 AATTTAAATTTAAAAAAATTTTAAACTTAAAATA
1 AATTTAAATTTAAAAAAA-TTTAAACTTAAAATA
202007 AATTTAAATTTAAAAACAAATTTAAACTTAAAATA
1 AATTTAAATTT-AAAA-AAATTTAAACTTAAAATA
*
202042 AATCTAAA
1 AATTTAAA
202050 AAATGGGTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
33 5 0.07
34 37 0.52
35 26 0.37
36 3 0.04
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.37
Consensus pattern (33 bp):
AATTTAAATTTAAAAAAATTTAAACTTAAAATA
Found at i:202531 original size:39 final size:39
Alignment explanation
Indices: 202488--203128 Score: 349
Period size: 39 Copynumber: 16.4 Consensus size: 39
202478 GATGGTTGCA
* *
202488 ATCTGCCCCAGGCTCGGGCTAAAAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* ** * * **
202527 ATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * * **
202566 ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTAACAGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
*
202605 ATCTGCCCCAAGCTCGAGGTAAAAGA-T--C-GAGTGGCTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGA-TGG-TG
* * * *
202642 CAATTTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * * * * * * * **
202683 ATCTACCTCAAGCTTGGGATAAAAGATCGGATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * * * * * **
202722 ATTTACCCCAGGCTTGGGATAAGAGATTGGCTGACAGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* *
202761 ATTTGCCCCAAGCTCAGGGTAAAAGA-T--C-GAATGGCTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTG-ATGG-TG
* * * *
202798 CAATCTGCCCCAGGCTCGAGGTAAAAGATCGGATGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * ** *
202839 ATCTGCCCCAGGCTCGGGGTAAAAGATCGAAT-A-GCTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * * *
202876 CAATCTGCACCAGGCTCGAGGTAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * * ** *
202917 ATCTGCCCTAGGCTCGGGGTAAAAGATCGAAT--TGCTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
** * * *
202954 CAATCTATCCCAGGCTCGGGGTAAGAGATTGGTTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * * *
202995 ATCTGCCCCATGATTGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * *
203034 ATCTACCCTAAGCTCGGGGTAAAAGA-T--CAGATGGCTG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGG-TG
* * * *
203071 CAATCTACCCTAAGCTCGGGGTAAGAGATTGGTTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
* * *
203112 ATTTTCCTCAAGCTCGG
1 ATCTGCCCCAAGCTCGG
203129 TTTGAAAGAT
Statistics
Matches: 457, Mismatches: 115, Indels: 60
0.72 0.18 0.09
Matches are distributed among these distances:
35 2 0.00
36 11 0.02
37 13 0.03
38 4 0.01
39 397 0.87
40 3 0.01
41 13 0.03
42 11 0.02
43 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG
Found at i:202608 original size:78 final size:78
Alignment explanation
Indices: 202479--203004 Score: 665
Period size: 78 Copynumber: 6.7 Consensus size: 78
202469 AAGATATTGG
* * *
202479 ATGGTTGCAATCTGCCCCAGGCTCGGGCTAAAAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
202544 GGTAAAAGATCGA
66 GGTAAAAGATCGA
* * * * ** *
202557 ATGGTTGCAATCTACCCCAAGCTCGGGGTAAGAGATTGGCTAACAGTGATCTGCCCCAAGCTCGA
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
202622 GGTAAAAGATCGA
66 GGTAAAAGATCGA
* * * * * * * *
202635 GTGGCTGCAATTTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACGGTGATCTACCTCAAGCTTGG
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
* *
202700 GATAAAAGATCGG
66 GGTAAAAGATCGA
* * * * * ** * *
202713 ATGGTTGCAATTTACCCCAGGCTTGGGATAAGAGATTGGCTGACAGTGATTTGCCCCAAGCTCAG
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
202778 GGTAAAAGATCGA
66 GGTAAAAGATCGA
* * * * *
202791 ATGGCTGCAATCTGCCCCAGGCTCGAGGTAAAAGATCGGATGATGGTGATCTGCCCCAGGCTCGG
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
202856 GGTAAAAGATCGA
66 GGTAAAAGATCGA
* * * * *
202869 ATAGCTGCAATCTGCACCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGG
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
202934 GGTAAAAGATCGA
66 GGTAAAAGATCGA
* ** *
202947 ATTGCTGCAATCTATCCCAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCA
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCA
203005 TGATTGGGGT
Statistics
Matches: 385, Mismatches: 63, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 385 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (78 bp):
ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
GGTAAAAGATCGA
Found at i:203092 original size:78 final size:78
Alignment explanation
Indices: 203010--203155 Score: 213
Period size: 78 Copynumber: 1.9 Consensus size: 78
203000 CCCCATGATT
203010 GGGGTAAGAGATTGGCTGATGGTGATCTACCCT-AAGCTCGGGGTAAAAGATCAGATGGCTGCAA
1 GGGGTAAGAGATTGGCTGATGGTGAT-TACCCTCAAGCTCGGGGTAAAAGATCAGATGGCTGCAA
203074 TCTACCCTAAGCTC
65 TCTACCCTAAGCTC
* ** ** * *
203088 GGGGTAAGAGATTGGTTGATGGTGATTTTCCTCAAGCTCGGTTTGAAAGATCAGATGGCTTCAAT
1 GGGGTAAGAGATTGGCTGATGGTGATTACCCTCAAGCTCGGGGTAAAAGATCAGATGGCTGCAAT
203153 CTA
66 CTA
203156 TCCTTCTTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 4 0.07
78 56 0.93
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (78 bp):
GGGGTAAGAGATTGGCTGATGGTGATTACCCTCAAGCTCGGGGTAAAAGATCAGATGGCTGCAAT
CTACCCTAAGCTC
Done.