Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000040.1 Hibiscus syriacus cultivar Beakdansim tig00000061_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 89006
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:5416 original size:21 final size:21
Alignment explanation
Indices: 5390--5429 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5380 CCCCCTTTGA
*
5390 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
5411 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
5430 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:8128 original size:76 final size:77
Alignment explanation
Indices: 7977--8184 Score: 289
Period size: 76 Copynumber: 2.8 Consensus size: 77
7967 CAAAGCCAAA
* * * * **
7977 AATTACAGATTGCTCAGAGGGAACTGATTCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
8041 TTTGGCCCCGAG
66 TTTGGCCCCGAG
*
8053 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
*
8118 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* * *
8129 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGG-GGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
8185 TGTACAACGG
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
74 16 0.13
75 3 0.03
76 86 0.72
77 14 0.12
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.21
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:9683 original size:3 final size:3
Alignment explanation
Indices: 9675--9699 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9665 AATTATTTAT
9675 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
9700 AATGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10516 original size:23 final size:23
Alignment explanation
Indices: 10471--10517 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10461 ATTTTATGAA
*
10471 AATATATTAATTTAAATATAAAT
1 AATATATTAATTTAAATAGAAAT
* **
10494 AATATATTTATTTATTTAGAAAT
1 AATATATTAATTTAAATAGAAAT
10517 A
1 A
10518 TCATAAAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AATATATTAATTTAAATAGAAAT
Found at i:12224 original size:3 final size:3
Alignment explanation
Indices: 12114--12208 Score: 92
Period size: 3 Copynumber: 31.7 Consensus size: 3
12104 TTTGGGTATG
12114 TAA TAA TAA CTTAA TTAA TAA TAA TAA TAA -AA TAA TAAA TAA TAA TAA
1 TAA TAA TAA --TAA -TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* *
12162 TATA TAA TAG TAA -AA TAA -AA TAA -AA TAT TAA TAA TAA T-A TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12204 TAA TA
1 TAA TA
12209 TTATTATTTA
Statistics
Matches: 79, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
2 10 0.13
3 56 0.71
4 10 0.13
5 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:12702 original size:122 final size:122
Alignment explanation
Indices: 12553--13129 Score: 1039
Period size: 122 Copynumber: 4.7 Consensus size: 122
12543 GAATCAATCA
*
12553 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTTTCATTA
1 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
* *
12618 TGAACTTTCTCTAGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAGTCATGC
66 TGAATTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAGTCATGC
*
12675 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTTCTCTTCAGATAAGTTCTTCTCATTA
1 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
12740 TGAATTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAGTCATGC
66 TGAATTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAGTCATGC
*
12797 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATAAGTTCTTCTCATTA
1 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
12862 TGAATTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAGTCATGC
66 TGAATTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAGTCATGC
* *
12919 AAAAGTTGAACAAGCTCTTCTCATTATTAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
1 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
*
12984 TGAATTTTCGCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAGTCATGC
66 TGAATTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAGTCATGC
*
13041 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATT
* *
13106 ATGAACTTT-TCTGGAAAAGTTGAT
65 ATGAATTTTCTCTGGAAAAATTGAT
13130 CCATCGAATG
Statistics
Matches: 438, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
122 408 0.93
123 30 0.07
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (122 bp):
AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
TGAATTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAGTCATGC
Found at i:13173 original size:113 final size:112
Alignment explanation
Indices: 12546--13357 Score: 523
Period size: 122 Copynumber: 6.9 Consensus size: 112
12536 TGTGGTAGAA
* * *
12546 TCAATCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCT
1 TCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* * * *** * *
12610 TTTCATTATGAACTTTCTCTAGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAG
66 TCTCATTATGAAC-TTCTCT-G-GAAA---A-GTTGATCCA--TCAAGTGATG--A-AT
** * * *
12669 TCATGC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTTC-TCTTCAGATAAGTTCT
1 TCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* * *** * *
12732 TCTCATTATGAATTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAG
66 TCTCATTATGAA-CTTCTCTGG--AAA---A-GTTGATCCA--TCAAGTGATG--A-AT
** * * *
12791 TCATGC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCC-TCTTCAGATAAGTTCT
1 TCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* * *** * *
12854 TCTCATTATGAATTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAG
66 TCTCATTATGAA-CTTCTCTGG--AAA---A-GTTGATCCA--TCAAGTGATG--A-AT
** * * *
12913 TCATGCAAAA-GTTGAACAAGCTCTTCTCATTATTAACTTCTTCTTCC-TCTTCAGATAAGTTCT
1 TCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* * * *** * *
12976 TCTCATTATGAATTTTCGCTGGAAAAATTGATGTTGATCTATCTCCTTTTATGATAGAG
66 TCTCATTATGAA-CTTCTCTGG--AAA---A-GTTGATCCA--TCAAGTGATG--A-AT
** *
13035 TCATGC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
*
13099 TCTCATTATGAACTTTTCTGGAAAAGTTGATCCATCGAA-TGATGAAT
66 TCTCATTATGAACTTCTCTGGAAAAGTTGATCCATC-AAGTGATGAAT
* * *
13146 TCAAACAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCATTCTTCAGATGAGTTC
1 TCAAACAAAAGG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC
*
13211 TTCTCATTATGAAC-TCTCTGGAAATGTTGATCCATCAAGTGATGAAT
65 TTCTCATTATGAACTTCTCTGGAAAAGTTGATCCATCAAGTGATGAAT
** * *
13258 TTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
*
13323 TCTCATTATGAAC-TCTACCTGGAATA-TTGATCCAT
66 TCTCATTATGAACTTCT--CTGGAAAAGTTGATCCAT
13358 TGAGTAATGT
Statistics
Matches: 639, Mismatches: 38, Indels: 35
0.90 0.05 0.05
Matches are distributed among these distances:
111 72 0.11
112 52 0.08
113 68 0.11
114 6 0.01
116 8 0.01
117 1 0.00
120 3 0.00
121 4 0.01
122 391 0.61
123 34 0.05
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (112 bp):
TCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
TCTCATTATGAACTTCTCTGGAAAAGTTGATCCATCAAGTGATGAAT
Found at i:14519 original size:18 final size:18
Alignment explanation
Indices: 14477--14554 Score: 77
Period size: 18 Copynumber: 4.1 Consensus size: 18
14467 ATTTACAAAA
*
14477 TAAAAGAATAAATTGATTT
1 TAAAA-AATAAATTGAATT
* *
14496 TCAAAAATAAATTGAATC
1 TAAAAAATAAATTGAATT
14514 TAAAAAA-AAATTGAATT
1 TAAAAAATAAATTGAATT
14531 TAGAGAAAATAAACTTAGAATT
1 TA-A-AAAATAAA-TT-GAATT
14553 TA
1 TA
14555 TTAATAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
17 11 0.22
18 18 0.37
19 8 0.16
20 3 0.06
21 2 0.04
22 7 0.14
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (18 bp):
TAAAAAATAAATTGAATT
Found at i:14900 original size:14 final size:14
Alignment explanation
Indices: 14881--14908 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14871 GACCCTCCTT
14881 TTTTATTTTTTTCA
1 TTTTATTTTTTTCA
14895 TTTTATTTTTTTCA
1 TTTTATTTTTTTCA
14909 ACATTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTTTTTCA
Found at i:14933 original size:16 final size:17
Alignment explanation
Indices: 14912--14950 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
14902 TTTTTCAACA
14912 TTTTTCTTCT-TCTTTT
1 TTTTTCTTCTCTCTTTT
*
14928 TTTTTCTTTTCTCTTTT
1 TTTTTCTTCTCTCTTTT
14945 TTTTTC
1 TTTTTC
14951 AAGCATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTTCTCTCTTTT
Found at i:14939 original size:15 final size:17
Alignment explanation
Indices: 14912--14948 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
14902 TTTTTCAACA
14912 TTTTTCTTCTTCT-TTT
1 TTTTTCTTCTTCTCTTT
14928 TTTTTCTT-TTCTCTTT
1 TTTTTCTTCTTCTCTTT
14944 TTTTT
1 TTTTT
14949 TCAAGCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTCTTCTTCTCTTT
Found at i:18466 original size:9 final size:9
Alignment explanation
Indices: 18441--18482 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
18431 GAAAAATAAT
18441 GAATGTAAAA
1 GAATGT-AAA
*
18451 AAATGTAAA
1 GAATGTAAA
18460 GAATGTAAA
1 GAATGTAAA
*
18469 TAATGTAAA
1 GAATGTAAA
18478 GAATG
1 GAATG
18483 ATTGTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.24
Consensus pattern (9 bp):
GAATGTAAA
Found at i:18475 original size:18 final size:19
Alignment explanation
Indices: 18441--18482 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
18431 GAAAAATAAT
18441 GAATGTAAAAAAATGTAAA
1 GAATGTAAAAAAATGTAAA
*
18460 GAATGT-AAATAATGTAAA
1 GAATGTAAAAAAATGTAAA
18478 GAATG
1 GAATG
18483 ATTGTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.24
Consensus pattern (19 bp):
GAATGTAAAAAAATGTAAA
Found at i:23889 original size:14 final size:15
Alignment explanation
Indices: 23870--23899 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23860 TCCGAGCAAC
23870 ATCACC-CATTTGTA
1 ATCACCACATTTGTA
23884 ATCACCACATTTGTA
1 ATCACCACATTTGTA
23899 A
1 A
23900 AAGAATTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (15 bp):
ATCACCACATTTGTA
Found at i:25108 original size:4 final size:4
Alignment explanation
Indices: 25099--25125 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
25089 TTCAATAAGA
25099 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
25126 AAGGAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:26200 original size:23 final size:23
Alignment explanation
Indices: 26155--26201 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
26145 ATTTTATGAA
*
26155 AATATATTAATTTAAATATAAAT
1 AATATATTAATTTAAATAGAAAT
* **
26178 AATATATTTATTTATTTAGAAAT
1 AATATATTAATTTAAATAGAAAT
26201 A
1 A
26202 TTAGAAAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AATATATTAATTTAAATAGAAAT
Found at i:27767 original size:3 final size:3
Alignment explanation
Indices: 27652--27748 Score: 121
Period size: 3 Copynumber: 32.7 Consensus size: 3
27642 TTTGGGTCTG
*
27652 TAA TAA TAA CTTAA TTAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA --TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
27700 T-A TAA TAG TAA -AA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27744 TAA TA
1 TAA TA
27749 TTATTATTAT
Statistics
Matches: 84, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
2 8 0.10
3 69 0.82
4 4 0.05
5 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:30407 original size:36 final size:36
Alignment explanation
Indices: 30367--30446 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
30357 TCATTTATTA
*
30367 ATTTATTTTTATTTTTATTTTAT-TTTTTTCCTTTTG
1 ATTTATTTTTATTATTATTTTATGTTTTTTCC-TTTG
* *
30403 ATTTATTGTTATTATTATTTTATGTTTTTTTCTTTG
1 ATTTATTTTTATTATTATTTTATGTTTTTTCCTTTG
30439 ATTTATTT
1 ATTTATTT
30447 AATATTTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 32 0.82
37 7 0.18
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (36 bp):
ATTTATTTTTATTATTATTTTATGTTTTTTCCTTTG
Found at i:34155 original size:106 final size:106
Alignment explanation
Indices: 33965--34850 Score: 1513
Period size: 106 Copynumber: 8.4 Consensus size: 106
33955 TATAGCCTTT
*
33965 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
34030 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
34071 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
34136 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTT
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
34177 AGAGCTAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
34242 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* *
34283 GGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
34348 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
34389 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
34454 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
34495 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
34560 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
34601 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
34666 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
* *
34707 ATAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * * *
34772 CGAAGGGA-CGACTGGTTGTCATCAAACAATTTCCCAGTTCC
66 CGAAGGGACCG-CTGGTTGTCAACAAACAACTTCTCAATTTC
* * * *
34813 AAAGCCAATTTCAACTTCACGACGGAGGATGTTGGACT
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
34851 TGGAACAATA
Statistics
Matches: 743, Mismatches: 36, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
105 2 0.00
106 741 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
Found at i:35178 original size:84 final size:84
Alignment explanation
Indices: 35042--35292 Score: 276
Period size: 84 Copynumber: 3.0 Consensus size: 84
35032 AGGCTATCTG
** * * * * *
35042 CCAAAGACCCCCGAGTACGATTATACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
1 CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCGAAGGCACATCATTTGCAGCATAACTTAAGT
35107 CGAGAAGGGTTATCTGCCAA
66 CGAGAAGGGTTATCTG-CAA
* * *
35127 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCC-AAGGCACATCATTTGCAGCATAGCTTAAGT
1 CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCGAAGGCACATCATTTGCAGCATAACTTAAGT
*
35191 CGAGAAGGGCTATCT---A
66 CGAGAAGGGTTATCTGCAA
* * * * * * *
35207 CTAAATACCTTCGAGTTCGATTACACTCAGCTCCGAGGGCACATCATTTACAGCATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCGAAGGCACATCATTTGCAGCATAACTTAAGT
* *
35272 CTAGAAGAGTTATCTGTCAA
66 CGAGAAGGGTTATCTG-CAA
35292 C
1 C
35293 AAAAACTTTT
Statistics
Matches: 137, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
80 30 0.22
81 37 0.27
84 42 0.31
85 28 0.20
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (84 bp):
CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCGAAGGCACATCATTTGCAGCATAACTTAAGT
CGAGAAGGGTTATCTGCAA
Found at i:35286 original size:81 final size:82
Alignment explanation
Indices: 35026--35286 Score: 287
Period size: 81 Copynumber: 3.2 Consensus size: 82
35016 GATATCCAAC
* * ** * * *
35026 TCGAGAA-GGCTATCT-GCCAAAGACCCCCGAGTACGATTATACTCAGCTTCGAGGGCACATCAT
1 TCGAGAAGGGTTATCTCACCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGCACATCAT
35089 TTGCAGCATAACTTAAG
66 TTGCAGCATAACTTAAG
* * * *
35106 TCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCC-AAGGCACAT
1 TCGAGAAGGGTTATCT--C-ACCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGCACAT
*
35170 CATTTGCAGCATAGCTTAAG
63 CATTTGCAGCATAACTTAAG
* * *
35190 TCGAGAAGGGCTATCT-ACTAAATACCTTCGAGTTCGATTACACTCAGCTCCGAGGGCACATCAT
1 TCGAGAAGGGTTATCTCACCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGCACATCAT
* *
35254 TTACAGCATAACTCAAG
66 TTGCAGCATAACTTAAG
* * *
35271 GCTAGAAGAGTTATCT
1 TCGAGAAGGGTTATCT
35287 GTCAACAAAA
Statistics
Matches: 149, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
80 37 0.25
81 44 0.30
84 42 0.28
85 26 0.17
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (82 bp):
TCGAGAAGGGTTATCTCACCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGCACATCAT
TTGCAGCATAACTTAAG
Found at i:35356 original size:36 final size:36
Alignment explanation
Indices: 35309--35577 Score: 457
Period size: 36 Copynumber: 7.5 Consensus size: 36
35299 TTTTGAAATT
* *
35309 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
35345 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
35381 GTTTCCCTTGAAACACATTTCGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
35417 GTTTCGCTTGAAAAAAATTTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
35453 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
35489 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
35525 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
35561 GTTTCCCTTGAAACAAA
1 GTTTCCCTTGAAACAAA
35578 AAAACCTTTG
Statistics
Matches: 220, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 220 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:35603 original size:32 final size:32
Alignment explanation
Indices: 35561--35652 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 32
35551 TCTTGAGACA
* *
35561 GTTTCCCTTGAAACAAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACAAAAAAACCTTTGAAAAT
35593 GTTTCTCTTGAAACCAAAAAAAAACCCTTTGAAAAT
1 GTTTCTCTTGAAA-C--AAAAAAA-CCTTTGAAAAT
* *
35629 GTTTCTTTTGAAAC-ACAAAACCTT
1 GTTTCTCTTGAAACAAAAAAACCTT
35653 CGAGTTCGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
31 4 0.08
32 17 0.33
33 1 0.02
35 8 0.15
36 22 0.42
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (32 bp):
GTTTCTCTTGAAACAAAAAAACCTTTGAAAAT
Found at i:35622 original size:36 final size:36
Alignment explanation
Indices: 35575--35648 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
35565 CCCTTGAAAC
*
35575 AAAAAAACCTTTGAAATTGTTTCTCTTGAAAC-CAA
1 AAAAAAACCTTTGAAAATGTTTCTCTTGAAACACAA
*
35610 AAAAAAACCCTTTGAAAATGTTTCTTTTGAAACACAA
1 AAAAAAA-CCTTTGAAAATGTTTCTCTTGAAACACAA
35647 AA
1 AA
35649 CCTTCGAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 7 0.20
36 23 0.66
37 5 0.14
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (36 bp):
AAAAAAACCTTTGAAAATGTTTCTCTTGAAACACAA
Found at i:37422 original size:36 final size:36
Alignment explanation
Indices: 37380--37459 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
37370 TCATTTATTA
*
37380 ATTTATTTTTATTTTTATTTTAT-TTTTTTCCTTTTG
1 ATTTATTTTTATTATTATTTTATGTTTTTTCC-TTTG
* *
37416 ATTTATTGTTATTATTATTTTATGTTTTTTTCTTTG
1 ATTTATTTTTATTATTATTTTATGTTTTTTCCTTTG
37452 ATTTATTT
1 ATTTATTT
37460 AATATTTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 32 0.82
37 7 0.18
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (36 bp):
ATTTATTTTTATTATTATTTTATGTTTTTTCCTTTG
Found at i:37552 original size:6 final size:6
Alignment explanation
Indices: 37543--37569 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37533 ATTGAGTTTT
37543 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
37570 TCGCAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:54274 original size:16 final size:16
Alignment explanation
Indices: 54231--54280 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
54221 TAAATTGTTA
54231 ATAAATTAAGAAAATT
1 ATAAATTAAGAAAATT
*
54247 GTAAA-T---AAAATT
1 ATAAATTAAGAAAATT
54259 ATAAATTAAGAAAATT
1 ATAAATTAAGAAAATT
54275 ATAAAT
1 ATAAAT
54281 AAATTGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
15 1 0.04
16 16 0.57
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
ATAAATTAAGAAAATT
Found at i:55039 original size:12 final size:12
Alignment explanation
Indices: 55021--55054 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
55011 ATTAAGGTGT
55021 AATATTATTTAA
1 AATATTATTTAA
* *
55033 TATATTATTAAA
1 AATATTATTTAA
55045 AATATTATTT
1 AATATTATTT
55055 TATTTTAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATATTATTTAA
Found at i:55341 original size:18 final size:18
Alignment explanation
Indices: 55318--55374 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
55308 AACATAGTTA
55318 TCAATTACATTCTAAACC
1 TCAATTACATTCTAAACC
* ** *
55336 TCAATTTC--TAAAATACT
1 TCAATTACATTCTAA-ACC
55353 TCAATTACATTCTAAACC
1 TCAATTACATTCTAAACC
55371 TCAA
1 TCAA
55375 ATTCCAAAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
16 3 0.11
17 9 0.32
18 13 0.46
19 3 0.11
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (18 bp):
TCAATTACATTCTAAACC
Found at i:55364 original size:35 final size:37
Alignment explanation
Indices: 55318--55399 Score: 123
Period size: 35 Copynumber: 2.3 Consensus size: 37
55308 AACATAGTTA
* *
55318 TCAATTACATTCTAAACCTC-AATTTC-TAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAAAATACT
55353 TCAATTACATTCTAAACCTCAAATTCCAAAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAAAATACT
*
55390 TTAATTACAT
1 TCAATTACAT
55400 GCCCAACCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
35 20 0.48
36 5 0.12
37 17 0.40
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (37 bp):
TCAATTACATTCTAAACCTCAAATTCCAAAAAATACT
Found at i:55413 original size:37 final size:37
Alignment explanation
Indices: 55345--55415 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
55335 CTCAATTTCT
* * *
55345 AAAATACTTCAATTACATTCTAAACCTCAAATTCCAA
1 AAAATACTTCAATTACATGCCAAACCCCAAATTCCAA
* *
55382 AAAATACTTTAATTACATGCCCAACCCCAAATTC
1 AAAATACTTCAATTACATGCCAAACCCCAAATTC
55416 ATAATCCATC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.28
Consensus pattern (37 bp):
AAAATACTTCAATTACATGCCAAACCCCAAATTCCAA
Found at i:56060 original size:143 final size:144
Alignment explanation
Indices: 55900--56180 Score: 413
Period size: 143 Copynumber: 1.9 Consensus size: 144
55890 TATTTAAAAT
* * *
55900 AATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAGTTCA
1 AATCAAATAATATTATAGTATGATAAATATTTATAATTAAATTAAAACAGAAACTCGAAAATTCA
*
55965 ATTC-A-ACTTGATTTAAATCTTATAAACTCAAATCGAAAAAATTTTGAGTCAACTATTTTATAA
66 ATTCAATACTTGATTTAAATCTTATAAACTC-AATCGAAAAAATTTTGAATCAACTATTTTATAA
56028 ACTGAACTGAATTAG
130 ACTGAACTGAATTAG
*
56043 AATCAAATAATATTATAGTATGATAAATATTTATAATTAAATTAAAACAGAAACTTGAAAATTCA
1 AATCAAATAATATTATAGTATGATAAATATTTATAATTAAATTAAAACAGAAACTCGAAAATTCA
* * ***
56108 ATTCAATTCGACTTGATTTAAATTTTATAAATTCAATCGAAATTTTTTTGAATCAACTATTTTAT
66 ATTCAA-T--ACTTGATTTAAATCTTATAAACTCAATCGAAAAAATTTTGAATCAACTATTTTAT
*
56173 AAATTGAA
128 AAACTGAA
56181 TTGAGTATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
143 65 0.53
144 1 0.01
147 34 0.28
148 22 0.18
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (144 bp):
AATCAAATAATATTATAGTATGATAAATATTTATAATTAAATTAAAACAGAAACTCGAAAATTCA
ATTCAATACTTGATTTAAATCTTATAAACTCAATCGAAAAAATTTTGAATCAACTATTTTATAAA
CTGAACTGAATTAG
Found at i:56381 original size:35 final size:35
Alignment explanation
Indices: 56335--56430 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 35
56325 AATGGATTAT
* * *
56335 GAATTTGAGGTTGGGCATGTAATTGAAGTACTTTG
1 GAATTTGAGGTTGAGAATATAATTGAAGTACTTTG
* *
56370 GAATTTGAGGTTTAGAATATAATTGAAGTATTTTG
1 GAATTTGAGGTTGAGAATATAATTGAAGTACTTTG
* * *
56405 GATTTTGGGGTTTAGAATATAATTGA
1 GAATTTGAGGTTGAGAATATAATTGA
56431 TGACTGTGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.41
Consensus pattern (35 bp):
GAATTTGAGGTTGAGAATATAATTGAAGTACTTTG
Found at i:58491 original size:13 final size:13
Alignment explanation
Indices: 58473--58503 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
58463 TTAATAAAAT
58473 CTGTTTACAATTA
1 CTGTTTACAATTA
58486 CTGTTTACAATTA
1 CTGTTTACAATTA
58499 CTGTT
1 CTGTT
58504 CCTTACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.10, T:0.48
Consensus pattern (13 bp):
CTGTTTACAATTA
Found at i:59338 original size:22 final size:23
Alignment explanation
Indices: 59295--59338 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
59285 ATCAAGTTCA
* *
59295 TTTCAGGTTCGGGTCGGGGTTAC
1 TTTCAGGTTCGGATCGAGGTTAC
*
59318 TTTCA-GTTCGGATCGATGTTA
1 TTTCAGGTTCGGATCGAGGTTA
59339 ATTCATGTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.14, C:0.16, G:0.32, T:0.39
Consensus pattern (23 bp):
TTTCAGGTTCGGATCGAGGTTAC
Found at i:60962 original size:16 final size:16
Alignment explanation
Indices: 60943--60992 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
60933 ACAATATAGT
60943 ATATACTAACTATATA
1 ATATACTAACTATATA
*
60959 ATATA--AACTATGTA
1 ATATACTAACTATATA
* *
60973 ATATACTAAGTATTTA
1 ATATACTAACTATATA
60989 ATAT
1 ATAT
60993 CAAATATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 13 0.45
16 16 0.55
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (16 bp):
ATATACTAACTATATA
Found at i:64040 original size:90 final size:90
Alignment explanation
Indices: 63881--64374 Score: 812
Period size: 90 Copynumber: 5.5 Consensus size: 90
63871 CATTTTGCCC
* * * * *
63881 GAAGGTCTTATGG-TTGCCTGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAA
1 GAAGGTCTTACGGATGGCCCGAAGGACTT-AAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
*
63945 AATCTCATTTGAAAACATCCTGCACT
65 GATCTCATTTGAAAACATCCTGCACT
* *
63971 GAAGGTCTTACAGATGGCCCGAAGGAATTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAG
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAG
*
64036 ATCTCATTTGAAAATATCCTGCACT
66 ATCTCATTTGAAAACATCCTGCACT
**
64061 GAAGGTCTTACAAATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAA-CCCCCGAAGGCTCAGTTTCTTA
*
64126 GATCTCATTTGAAAACATCCTACACT
65 GATCTCATTTGAAAACATCCTGCACT
64152 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAG
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAG
64217 ATCAT-ATTTGAAAACATCCTGCACT
66 ATC-TCATTTGAAAACATCCTGCACT
* *
64242 AAAGGTCTTACGGATGGCCCGAAAGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAG
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAG
64307 ATCTCATTTGAAAACATCCTGCACT
66 ATCTCATTTGAAAACATCCTGCACT
*
64332 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAAC
1 GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAAC
64375 TCTTAAAAAT
Statistics
Matches: 379, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
89 1 0.00
90 279 0.74
91 99 0.26
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (90 bp):
GAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAG
ATCTCATTTGAAAACATCCTGCACT
Found at i:64185 original size:181 final size:180
Alignment explanation
Indices: 63900--64374 Score: 808
Period size: 181 Copynumber: 2.6 Consensus size: 180
63890 ATGGTTGCCT
* * *
63900 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCC
1 GAAGGACTT-AAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCC
* *
63965 TGCACTGAAGGTCTTACAGATGGCCCGAAGGAATTAAAAATCAAGAAACCCCCGAAGGCTCAGTT
65 TGCACTGAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTT
* *
64030 TCTTAGATC-TCATTTGAAAATATCCTGCACTGAAGGTCTTACAAATGGCCC
130 TCTTAGATCAT-ATTTGAAAACATCCTGCACTAAAGGTCTTACAAATGGCCC
64081 GAAGGACTTAAAAATCAAGAAACCCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCC
1 GAAGGACTTAAAAATCAAGAAA-CCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCC
*
64146 TACACTGAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTT
65 TGCACTGAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTT
**
64211 TCTTAGATCATATTTGAAAACATCCTGCACTAAAGGTCTTACGGATGGCCC
130 TCTTAGATCATATTTGAAAACATCCTGCACTAAAGGTCTTACAAATGGCCC
*
64262 GAAAGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCT
1 GAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCT
*
64327 GCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAAC
66 GCACTGAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAAC
64375 TCTTAAAAAT
Statistics
Matches: 279, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
180 102 0.37
181 176 0.63
182 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (180 bp):
GAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCT
GCACTGAAGGTCTTACGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTT
CTTAGATCATATTTGAAAACATCCTGCACTAAAGGTCTTACAAATGGCCC
Found at i:64364 original size:271 final size:271
Alignment explanation
Indices: 63881--64374 Score: 830
Period size: 271 Copynumber: 1.8 Consensus size: 271
63871 CATTTTGCCC
* * * *
63881 GAAGGTCTTATGGTTGCCTGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAA
1 GAAGGTCTTACGGTGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTAAA
* *
63946 ATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACAGATGGCCCGAAGGAATTAAAAATCAAGA
66 ATCTCATTTGAAAACATCCTGCACTAAAGGTCTTACAGATGGCCCGAAAGAATTAAAAATCAAGA
*
64011 AACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAATATCCTGCACTGAAGGTCTTACAAAT
131 AACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACAAAT
64076 GGCCCGAAGGACTTAAAAATCAAGAAACCCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAA
196 GGCCCGAAGGACTTAAAAATCAAGAAACCCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAA
64141 CATCCTACACT
261 CATCCTACACT
*
64152 GAAGGTCTTACGGATGGCCCGAAGGACTT-AAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTACGG-TGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTAA
* * *
64216 GATCAT-ATTTGAAAACATCCTGCACTAAAGGTCTTACGGATGGCCCGAAAGACTTAAAAATCAA
65 AATC-TCATTTGAAAACATCCTGCACTAAAGGTCTTACAGATGGCCCGAAAGAATTAAAAATCAA
***
64280 GAAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGG
129 GAAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACAA
64345 ATGGCCCGAAGGACTTAAAAATCAAGAAAC
194 ATGGCCCGAAGGACTTAAAAATCAAGAAAC
64375 TCTTAAAAAT
Statistics
Matches: 207, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
271 193 0.93
272 14 0.07
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (271 bp):
GAAGGTCTTACGGTGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTAAA
ATCTCATTTGAAAACATCCTGCACTAAAGGTCTTACAGATGGCCCGAAAGAATTAAAAATCAAGA
AACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTGCACTGAAGGTCTTACAAAT
GGCCCGAAGGACTTAAAAATCAAGAAACCCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAA
CATCCTACACT
Found at i:64475 original size:43 final size:43
Alignment explanation
Indices: 64409--64506 Score: 160
Period size: 43 Copynumber: 2.3 Consensus size: 43
64399 AAATTGTCAC
*
64409 CAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCAT
1 CAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCAT
** *
64452 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTTCTT
1 CAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCAT
64495 CAAGAAACCCCT
1 CAAGAAACCCCT
64507 GAAAATCAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.27
Consensus pattern (43 bp):
CAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCAT
Found at i:64608 original size:36 final size:35
Alignment explanation
Indices: 64568--64670 Score: 131
Period size: 36 Copynumber: 3.0 Consensus size: 35
64558 AAGCTAGACT
64568 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACC
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA-C
* * * *
64604 GTCTCAAGAGAGTCAAAATTTGTTTCGAGAGAAA-
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
*
64638 --CTCAAGGGAGACAAAATTTATTTCAAGGGAAAC
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
64671 TATCTTGAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
32 27 0.47
36 30 0.53
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (35 bp):
GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
Found at i:64653 original size:32 final size:32
Alignment explanation
Indices: 64570--64671 Score: 123
Period size: 32 Copynumber: 3.1 Consensus size: 32
64560 GCTAGACTGT
64570 CTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
1 CTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
* * * *
64602 CCGTCTCAAGAGAGTCAAAATTTGTTTCGAGAGAAA
1 ----CTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
*
64638 CTCAAGGGAGACAAAATTTATTTCAAGGGAAA
1 CTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
64670 CT
1 CT
64672 ATCTTGAGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
32 29 0.51
36 28 0.49
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (32 bp):
CTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
Found at i:65015 original size:34 final size:34
Alignment explanation
Indices: 64975--65119 Score: 220
Period size: 34 Copynumber: 4.3 Consensus size: 34
64965 TCTTAGAGAA
*
64975 AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACCAAATTTGTTTTGAG
65009 AAATTGTCTCAAGCGAGACCAAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACCAAATTTGTTTTGAG
*
65043 AAATGGTCTCAAGCGAGACCAAATTTGTTTTGAG
1 AAATTGTCTCAAGCGAGACCAAATTTGTTTTGAG
* * * *
65077 AAATTTTCTCAA-CTAAGACAAAATTTATTTTGAG
1 AAATTGTCTCAAGC-GAGACCAAATTTGTTTTGAG
65111 AAATTGTCT
1 AAATTGTCT
65120 TGAGTGAGAC
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
33 1 0.01
34 101 0.99
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (34 bp):
AAATTGTCTCAAGCGAGACCAAATTTGTTTTGAG
Found at i:65327 original size:32 final size:32
Alignment explanation
Indices: 65238--65469 Score: 320
Period size: 32 Copynumber: 7.2 Consensus size: 32
65228 AGGATATTGA
* * * *
65238 ATGCCACAATATTCGATATTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
65270 ATGCCCCAACATTTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
*
65303 ATGCCCCAACATTTAATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* * *
65335 ATGCCCCAATATTCGATATTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* *
65367 ATGGCCCAATATTTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
* *
65400 ATGCCTCAACATTTGATGTTGAATCTCCAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* *
65432 ATGCCCCAACATTTAATGTTGAATCTTCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
65464 ATGCCC
1 ATGCCC
65470 TCTATTGCTT
Statistics
Matches: 178, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
32 121 0.68
33 57 0.32
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCCAAAG
Found at i:65342 original size:65 final size:64
Alignment explanation
Indices: 65256--65469 Score: 329
Period size: 65 Copynumber: 3.3 Consensus size: 64
65246 ATATTCGATA
65256 TTGAATCTCCAAAGATGCCCCAACATTTTGATGTTGAATCTCCAAAGATGCCCCAACATTTAATG
1 TTGAATCTCCAAAGATGCCCCAACA-TTTGATGTTGAATCTCCAAAGATGCCCCAACATTTAATG
* * * * * *
65321 TTGAATCTCCAAAGATGCCCCAATATTCGATATTGAATCTCCAAAGATGGCCCAATATTTTGATG
1 TTGAATCTCCAAAGATGCCCCAACATTTGATGTTGAATCTCCAAAGATGCCCCAACA-TTTAATG
* *
65386 TTGAATCTCCAAAGATGCCTCAACATTTGATGTTGAATCTCCAAAAATGCCCCAACATTTAATG
1 TTGAATCTCCAAAGATGCCCCAACATTTGATGTTGAATCTCCAAAGATGCCCCAACATTTAATG
*
65450 TTGAATCTTCAAAGATGCCC
1 TTGAATCTCCAAAGATGCCC
65470 TCTATTGCTT
Statistics
Matches: 132, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
64 52 0.39
65 80 0.61
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (64 bp):
TTGAATCTCCAAAGATGCCCCAACATTTGATGTTGAATCTCCAAAGATGCCCCAACATTTAATG
Found at i:65404 original size:97 final size:97
Alignment explanation
Indices: 65237--65469 Score: 367
Period size: 97 Copynumber: 2.4 Consensus size: 97
65227 CAGGATATTG
*
65237 AATGCCACAATATTCGATATTGAATCTCCAAAGATGCCCCAACATTTTGATGTTGAATCTCCAAA
1 AATGCCCCAATATTCGATATTGAATCTCCAAAGATGCCCCAACATTTTGATGTTGAATCTCCAAA
65302 GATGCCCCAACATTTAATGTTGAATCTCCAAA
66 GATGCCCCAACATTTAATGTTGAATCTCCAAA
* * *
65334 GATGCCCCAATATTCGATATTGAATCTCCAAAGATGGCCCAATATTTTGATGTTGAATCTCCAAA
1 AATGCCCCAATATTCGATATTGAATCTCCAAAGATGCCCCAACATTTTGATGTTGAATCTCCAAA
* *
65399 GATGCCTCAACATTTGATGTTGAATCTCCAAA
66 GATGCCCCAACATTTAATGTTGAATCTCCAAA
* ** * *
65431 AATGCCCCAACATTTAATGTTGAATCTTCAAAGATGCCC
1 AATGCCCCAATATTCGATATTGAATCTCCAAAGATGCCC
65470 TCTATTGCTT
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 123 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (97 bp):
AATGCCCCAATATTCGATATTGAATCTCCAAAGATGCCCCAACATTTTGATGTTGAATCTCCAAA
GATGCCCCAACATTTAATGTTGAATCTCCAAA
Found at i:65876 original size:32 final size:32
Alignment explanation
Indices: 65832--65916 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
65822 ACTCAGGTTA
*
65832 TTGTGTTTGGTCAATGGTTTGAATGTCTCAGG
1 TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
65864 TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
1 TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
* *
65896 TTATTTTTGGTTAATGGTTTG
1 TTGTTTTTGGTCAATGGTTTG
65917 GCCTTCTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.15, C:0.07, G:0.28, T:0.49
Consensus pattern (32 bp):
TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
Found at i:66578 original size:15 final size:14
Alignment explanation
Indices: 66558--66596 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
66548 TTTCTTTACA
66558 TTTTTTCTTTGCTTC
1 TTTTTTCTTTGC-TC
*
66573 TTTTTTTTTTGCTC
1 TTTTTTCTTTGCTC
66587 TTTTTTCTTT
1 TTTTTTCTTT
66597 ATTATCCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.79
Consensus pattern (14 bp):
TTTTTTCTTTGCTC
Found at i:66822 original size:2 final size:2
Alignment explanation
Indices: 66815--66860 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
66805 ACAACTAGGG
*
66815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66857 AT AT
1 AT AT
66861 GGATAAATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78644 original size:11 final size:11
Alignment explanation
Indices: 78628--78662 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
78618 TTGTAATAAA
*
78628 TCAAATGTTAT
1 TCAAATTTTAT
78639 TCAAATTTTAT
1 TCAAATTTTAT
78650 ATCAAATTTTAT
1 -TCAAATTTTAT
78662 T
1 T
78663 TACATTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (11 bp):
TCAAATTTTAT
Found at i:78656 original size:12 final size:12
Alignment explanation
Indices: 78627--78661 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
78617 ATTGTAATAA
*
78627 ATCAAATGTTAT
1 ATCAAATTTTAT
78639 -TCAAATTTTAT
1 ATCAAATTTTAT
78650 ATCAAATTTTAT
1 ATCAAATTTTAT
78662 TTACATTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (12 bp):
ATCAAATTTTAT
Found at i:79025 original size:102 final size:102
Alignment explanation
Indices: 78919--79112 Score: 370
Period size: 102 Copynumber: 1.9 Consensus size: 102
78909 GAATCAGAAT
* *
78919 ATAAGAATCATAATTAATATAATAAATCTATTTATCAATTTAATTATCATAATTAATATTTTTTT
1 ATAAGAATCATAATTAATATAATAAATATATTTATCAATTTAATTATCATAATTAATATTTTATT
78984 ATAACATTTAAAATTTAATCATATTAAGATTTATAAC
66 ATAACATTTAAAATTTAATCATATTAAGATTTATAAC
79021 ATAAGAATCATAATTAATATAATAAATATATTTATCAATTTAATTATCATAATTAATATTTTATT
1 ATAAGAATCATAATTAATATAATAAATATATTTATCAATTTAATTATCATAATTAATATTTTATT
79086 ATAACATTTAAAATTTAATCATATTAA
66 ATAACATTTAAAATTTAATCATATTAA
79113 TTAGTATGGT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 90 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (102 bp):
ATAAGAATCATAATTAATATAATAAATATATTTATCAATTTAATTATCATAATTAATATTTTATT
ATAACATTTAAAATTTAATCATATTAAGATTTATAAC
Found at i:79259 original size:16 final size:16
Alignment explanation
Indices: 79238--79285 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
79228 TCAATCATTT
79238 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
* * *
79254 ACAGGTCGGGTTCATA
1 ACAGGTCAGGTTGAAA
*
79270 ATAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
79286 TAGGTCGAGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.23
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:79289 original size:15 final size:15
Alignment explanation
Indices: 79240--79291 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
79230 AATCATTTAC
*
79240 AGGTCAGGTTGAAAAC
1 AGGTCAGGTTG-AAAT
* *
79256 AGGTCGGGTTCATAAT
1 AGGTCAGGTTGA-AAT
79272 AGGTCAGGTTGAAAT
1 AGGTCAGGTTGAAAT
79287 AGGTC
1 AGGTC
79292 GAGTAATATC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 9 0.30
16 21 0.70
ACGTcount: A:0.31, C:0.12, G:0.33, T:0.25
Consensus pattern (15 bp):
AGGTCAGGTTGAAAT
Found at i:83397 original size:11 final size:11
Alignment explanation
Indices: 83381--83406 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
83371 AGATGGGTTT
83381 TCAAACAGATA
1 TCAAACAGATA
83392 TCAAACAGATA
1 TCAAACAGATA
83403 TCAA
1 TCAA
83407 GATGGCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (11 bp):
TCAAACAGATA
Found at i:86266 original size:78 final size:78
Alignment explanation
Indices: 86165--86322 Score: 201
Period size: 78 Copynumber: 2.0 Consensus size: 78
86155 TAGAAAAAAT
* *** ** * *
86165 AACATTTTAGGTAGCGTTTGATA-TAACATTTCCGGTAGAAAAAGTAATATTTTAGGTATCGCTT
1 AACATTTTAGGTAGAGCCCGATATTAACATTTCAAGTAGAAAAAATAATATTTTAGGTAGCGC-T
*
86229 TACCAGAAATGTTA
65 TACCAGAAATATTA
* *
86243 AACATTTTAGGTAGAGCCCGATATTAACATTTTAAGTAGAAAAAATAATGTTTTAGGTAGCGCTT
1 AACATTTTAGGTAGAGCCCGATATTAACATTTCAAGTAGAAAAAATAATATTTTAGGTAGCGCTT
86308 ACCAGAAATATTA
66 ACCAGAAATATTA
86321 AA
1 AA
86323 AAATATTAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 35 0.51
79 33 0.49
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (78 bp):
AACATTTTAGGTAGAGCCCGATATTAACATTTCAAGTAGAAAAAATAATATTTTAGGTAGCGCTT
ACCAGAAATATTA
Found at i:87540 original size:18 final size:18
Alignment explanation
Indices: 87514--87579 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
87504 TTCATTGAAA
*
87514 AACCAAAAAACCGAACCG
1 AACCGAAAAACCGAACCG
87532 AACCGAAAAACCTGAACCG
1 AACCGAAAAACC-GAACCG
87551 TTAA---AAAAACCGAACCG
1 --AACCGAAAAACCGAACCG
87568 AACCGATAAAAC
1 AACCGA-AAAAC
87580 TGGTTTCGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
15 2 0.05
17 6 0.15
18 19 0.47
19 11 0.28
21 2 0.05
ACGTcount: A:0.53, C:0.29, G:0.12, T:0.06
Consensus pattern (18 bp):
AACCGAAAAACCGAACCG
Found at i:87687 original size:5 final size:5
Alignment explanation
Indices: 87677--87703 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
87667 TTTGGTAAAA
87677 AACCG AACCG AACCG AACCG AACCG AA
1 AACCG AACCG AACCG AACCG AACCG AA
87704 TACACCCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.37, G:0.19, T:0.00
Consensus pattern (5 bp):
AACCG
Done.