Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002583.1 Hibiscus syriacus cultivar Beakdansim tig00005229_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: 130718
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:11943 original size:2 final size:2
Alignment explanation
Indices: 11936--11974 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11926 CAAAGCAAAT
11936 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA T
11975 GTTCTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13161 original size:36 final size:36
Alignment explanation
Indices: 13121--13344 Score: 175
Period size: 36 Copynumber: 6.2 Consensus size: 36
13111 GATTCATTTA
*
13121 TTATTTTATTATTTTATTTCATTTTTTCTCTTTGAT
1 TTATTTTATTATTTTATTTTATTTTTTCTCTTTGAT
* *
13157 TTATTTTCCTT-TATTTATTTTATTTTATCT-TTTGAT
1 TTATTTT-ATTAT-TTTATTTTATTTTTTCTCTTTGAT
* *
13193 TTA---TATTATTTT-TTTACATTTTTTC-CATTGAT
1 TTATTTTATTATTTTATTT-TATTTTTTCTCTTTGAT
13225 TTATTTGATACATT-TTTTATTTTA--TTTTC-CTTTGAT
1 TTATTT--T--ATTATTTTATTTTATTTTTTCTCTTTGAT
*
13261 TTATTTTTTTATTTTTATTTTATTTTTTCTCCTTTTGAT
1 TTATTTTATTA-TTTTATTTTATTTTTTCT-C-TTTGAT
*
13300 TTATTATTATTATTATTAGTTTTACGTTTTT-TCTTTGAT
1 TTATT-TTATTATT-TTA-TTTTA-TTTTTTCTCTTTGAT
13339 TTATTT
1 TTATTT
13345 AATATTTATG
Statistics
Matches: 152, Mismatches: 12, Indels: 46
0.72 0.06 0.22
Matches are distributed among these distances:
31 3 0.02
32 22 0.14
33 2 0.01
34 11 0.07
36 39 0.26
37 18 0.12
38 7 0.05
39 30 0.20
40 9 0.06
41 6 0.04
42 5 0.03
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.71
Consensus pattern (36 bp):
TTATTTTATTATTTTATTTTATTTTTTCTCTTTGAT
Found at i:13172 original size:14 final size:16
Alignment explanation
Indices: 13144--13177 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
13134 TTATTTCATT
13144 TTTTCTCTTTGATTTA
1 TTTTCTCTTTGATTTA
13160 TTTTC-CTTT-ATTTA
1 TTTTCTCTTTGATTTA
13174 TTTT
1 TTTT
13178 ATTTTATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 4 0.22
16 5 0.28
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTCTCTTTGATTTA
Found at i:13258 original size:27 final size:29
Alignment explanation
Indices: 13228--13281 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
13218 CATTGATTTA
13228 TTTGATACA-TTTTTTA-TTTTATTTTCC
1 TTTGATACATTTTTTTATTTTTATTTTCC
**
13255 TTTGATTTATTTTTTTATTTTTATTTT
1 TTTGATACATTTTTTTATTTTTATTTT
13282 ATTTTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 7 0.30
29 9 0.39
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (29 bp):
TTTGATACATTTTTTTATTTTTATTTTCC
Found at i:13259 original size:68 final size:69
Alignment explanation
Indices: 13123--13274 Score: 185
Period size: 68 Copynumber: 2.3 Consensus size: 69
13113 TTCATTTATT
* * *
13123 ATTT-TATTATTTTATTTCATTTTTTCTCTTTGATTTATTTTCCTTTATTTATTTTATTTTATCT
1 ATTTATATTATTTTATTTCATTTTTTCTCATTGATTTATTTTCATTTATTTATTTTATTTTATCC
13187 TTTG
66 TTTG
13191 ATTTATATTATTTT-TTTACATTTTTTC-CATTGATTTATTTGATACATTT-TTTATTTTA-TTT
1 ATTTATATTATTTTATTT-CATTTTTTCTCATTGATTTATTT--T-CATTTATTTATTTTATTTT
13252 -TCCTTTG
62 ATCCTTTG
13259 ATTTAT-TT-TTTTATTT
1 ATTTATATTATTTTATTT
13275 TTATTTTATT
Statistics
Matches: 75, Mismatches: 3, Indels: 13
0.82 0.03 0.14
Matches are distributed among these distances:
66 4 0.05
67 5 0.07
68 31 0.41
69 21 0.28
70 10 0.13
71 4 0.05
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.70
Consensus pattern (69 bp):
ATTTATATTATTTTATTTCATTTTTTCTCATTGATTTATTTTCATTTATTTATTTTATTTTATCC
TTTG
Found at i:13263 original size:20 final size:19
Alignment explanation
Indices: 13240--13304 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
13230 TGATACATTT
13240 TTTATTTTATTTTCCTTTGA
1 TTTATTTT-TTTTCCTTTGA
*
13260 TTTATTTTTTTAT--TTTTA
1 TTTATTTTTTT-TCCTTTGA
*
13278 TTTTATTTTTTCTCCTTTTGA
1 -TTTATTTTTTTTCC-TTTGA
13299 TTTATT
1 TTTATT
13305 ATTATTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 5 0.14
19 13 0.35
20 15 0.41
21 4 0.11
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTATTTTTTTTCCTTTGA
Found at i:13281 original size:11 final size:11
Alignment explanation
Indices: 13238--13287 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
13228 TTTGATACAT
13238 TTTTTATTTTA
1 TTTTTATTTTA
** *
13249 TTTTCCTTTGA
1 TTTTTATTTTA
*
13260 TTTATTTTTTTA
1 TTT-TTATTTTA
13272 TTTTTATTTTA
1 TTTTTATTTTA
13283 TTTTT
1 TTTTT
13288 TCTCCTTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:13285 original size:23 final size:23
Alignment explanation
Indices: 13236--13288 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
13226 TATTTGATAC
*
13236 ATTTTTTATTTTATTTTCCTTTG
1 ATTTTTTATTTTATTTTCATTTG
* *
13259 ATTTATTT-TTTTATTTTTATTTT
1 ATTT-TTTATTTTATTTTCATTTG
13282 ATTTTTT
1 ATTTTTT
13289 CTCCTTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 3 0.12
23 20 0.77
24 3 0.12
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (23 bp):
ATTTTTTATTTTATTTTCATTTG
Found at i:13916 original size:20 final size:20
Alignment explanation
Indices: 13891--13928 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13881 TTTATGAAGG
13891 GATGCACCGATGCACTCATT
1 GATGCACCGATGCACTCATT
*
13911 GATGCATCGATGCACTCA
1 GATGCACCGATGCACTCA
13929 CCATTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
GATGCACCGATGCACTCATT
Found at i:14061 original size:64 final size:65
Alignment explanation
Indices: 13947--14070 Score: 216
Period size: 64 Copynumber: 1.9 Consensus size: 65
13937 AATGCATTTT
*
13947 ATGCATCGATGCACTCAGGTTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAGACC
1 ATGCATCAATGCACTCAGGTTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAGACC
14012 ATGCATCAATGCACTCAGGCTTTTT-TG-AAACATCGAATGCATTTTATGCATCGATGCAC
1 ATGCATCAATGCACTCAGG-TTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCAC
14071 CCTTAGTGCA
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
64 32 0.56
65 20 0.35
66 5 0.09
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (65 bp):
ATGCATCAATGCACTCAGGTTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAGACC
Found at i:14319 original size:11 final size:11
Alignment explanation
Indices: 14303--14337 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
14293 AAGAAACAAG
14303 AATCAAGAGAA
1 AATCAAGAGAA
*
14314 AATCAAGAGAG
1 AATCAAGAGAA
14325 AATCAAAGAGAA
1 AATC-AAGAGAA
14337 A
1 A
14338 GCATCAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.63, C:0.09, G:0.20, T:0.09
Consensus pattern (11 bp):
AATCAAGAGAA
Found at i:17849 original size:12 final size:12
Alignment explanation
Indices: 17832--17856 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17822 TTATAAACAT
17832 AAATGACGTTGG
1 AAATGACGTTGG
17844 AAATGACGTTGG
1 AAATGACGTTGG
17856 A
1 A
17857 GAACCATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
AAATGACGTTGG
Found at i:21085 original size:27 final size:27
Alignment explanation
Indices: 21055--21114 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
21045 ACTAAGCAAA
*
21055 CTCCGGAAGCTAGTTCTTCACGAGCTC
1 CTCCGGAACCTAGTTCTTCACGAGCTC
* * * *
21082 CTCCTGCACCTAGTTCTTCTCGTGCTC
1 CTCCGGAACCTAGTTCTTCACGAGCTC
*
21109 CACCGG
1 CTCCGG
21115 CACCAGCTGC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.13, C:0.38, G:0.20, T:0.28
Consensus pattern (27 bp):
CTCCGGAACCTAGTTCTTCACGAGCTC
Found at i:21117 original size:27 final size:27
Alignment explanation
Indices: 21064--21118 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21054 ACTCCGGAAG
* *
21064 CTAGTTCTTCACGAGCTCCTCCTGCAC
1 CTAGTTCTTCACGAGCTCCACCGGCAC
* *
21091 CTAGTTCTTCTCGTGCTCCACCGGCAC
1 CTAGTTCTTCACGAGCTCCACCGGCAC
21118 C
1 C
21119 AGCTGCGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.42, G:0.16, T:0.29
Consensus pattern (27 bp):
CTAGTTCTTCACGAGCTCCACCGGCAC
Found at i:22114 original size:20 final size:20
Alignment explanation
Indices: 22089--22146 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
22079 TTTATGAAGG
22089 GATGCATCGATGCACTCATT
1 GATGCATCGATGCACTCATT
22109 GATGCATCGATGCACTCATT
1 GATGCATCGATGCACTCATT
22129 GATGCATCGATGCACTCA
1 GATGCATCGATGCACTCA
22147 CCATTTCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (20 bp):
GATGCATCGATGCACTCATT
Found at i:23949 original size:22 final size:20
Alignment explanation
Indices: 23882--23983 Score: 145
Period size: 20 Copynumber: 5.1 Consensus size: 20
23872 CCGCTAGACA
*
23882 GGGGAGAATCGGTA-CCCCT
1 GGGGGGAATCGGTACCCCCT
23901 -GGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
23920 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
23940 GCAGGGGGAATCGGTACCCCCT
1 G--GGGGGAATCGGTACCCCCT
**
23962 GGGGGGAATATGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
23982 GG
1 GG
23984 ACAATCTGAT
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
18 12 0.16
19 5 0.07
20 39 0.51
22 20 0.26
ACGTcount: A:0.18, C:0.28, G:0.38, T:0.16
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:23955 original size:42 final size:40
Alignment explanation
Indices: 23882--23983 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 40
23872 CCGCTAGACA
*
23882 GGGGAGAATCGGTA-CCCCT-GGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCTGGGGGGAATCGGTACCCCCT
23920 GGGGGGAATCGGTACCCCCTGCAGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCTG--GGGGGAATCGGTACCCCCT
**
23962 GGGGGGAATATGTACCCCCTGG
1 GGGGGGAATCGGTACCCCCTGG
23984 ACAATCTGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
38 13 0.23
39 5 0.09
40 1 0.02
42 38 0.67
ACGTcount: A:0.18, C:0.28, G:0.38, T:0.16
Consensus pattern (40 bp):
GGGGGGAATCGGTACCCCCTGGGGGGAATCGGTACCCCCT
Found at i:26348 original size:34 final size:33
Alignment explanation
Indices: 26294--26364 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
26284 CCTTACAAAC
* *
26294 TCCCTAGTTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGCTTTTACCGGGCTAAACTAGAACCTT
*
26327 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTAC-CGGGCTAAACTAGAACCTT
26361 TCCC
1 TCCC
26365 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 12 0.35
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.32
Consensus pattern (33 bp):
TCCCTAGCTTTTACCGGGCTAAACTAGAACCTT
Found at i:26741 original size:21 final size:20
Alignment explanation
Indices: 26713--26812 Score: 114
Period size: 20 Copynumber: 4.8 Consensus size: 20
26703 CGTTAGACAT
26713 GGGGAATCGGTACCCCTTGG
1 GGGGAATCGGTACCCCTTGG
* *
26733 GGGAGAATCTGTTCCCCTT-G
1 GGG-GAATCGGTACCCCTTGG
*
26753 GGGGAATCGGTACCCCCTGG
1 GGGGAATCGGTACCCCTTGG
26773 GGGGAATCGGTACTCCC-TGCAG
1 GGGGAATCGGTAC-CCCTTG--G
26795 GGGGAATCGGTACTCCCT
1 GGGGAATCGGTAC-CCCT
26813 GCAGGGGGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
19 12 0.17
20 23 0.33
21 16 0.23
22 18 0.26
ACGTcount: A:0.16, C:0.27, G:0.36, T:0.21
Consensus pattern (20 bp):
GGGGAATCGGTACCCCTTGG
Found at i:26829 original size:22 final size:22
Alignment explanation
Indices: 26752--26823 Score: 121
Period size: 22 Copynumber: 3.4 Consensus size: 22
26742 TGTTCCCCTT
*
26752 GGGGGAATCGGTACCCCCTG--
1 GGGGGAATCGGTACTCCCTGCA
26772 GGGGGAATCGGTACTCCCTGCA
1 GGGGGAATCGGTACTCCCTGCA
26794 GGGGGAATCGGTACTCCCTGCA
1 GGGGGAATCGGTACTCCCTGCA
26816 GGGGGAAT
1 GGGGGAAT
26824 ATGTACCCCC
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 19 0.39
22 30 0.61
ACGTcount: A:0.18, C:0.25, G:0.40, T:0.17
Consensus pattern (22 bp):
GGGGGAATCGGTACTCCCTGCA
Found at i:26834 original size:22 final size:22
Alignment explanation
Indices: 26752--26835 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
26742 TGTTCCCCTT
26752 GGGGGAATCGGTACCCCCTG--
1 GGGGGAATCGGTACCCCCTGCA
*
26772 GGGGGAATCGGTACTCCCTGCA
1 GGGGGAATCGGTACCCCCTGCA
*
26794 GGGGGAATCGGTACTCCCTGCA
1 GGGGGAATCGGTACCCCCTGCA
**
26816 GGGGGAATATGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
26836 GACAATCTGA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.33
22 39 0.67
ACGTcount: A:0.18, C:0.27, G:0.37, T:0.18
Consensus pattern (22 bp):
GGGGGAATCGGTACCCCCTGCA
Found at i:29270 original size:95 final size:94
Alignment explanation
Indices: 29137--29380 Score: 287
Period size: 95 Copynumber: 2.7 Consensus size: 94
29127 TATAATATTA
* *
29137 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTAG-CTTTATGG
1 TATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCC-AGACTTTATGG
* *
29201 ATAATATTCAGCTAGCCTGATAAATGTGAT
65 ATAAGATTCAGCTAACCTGATAAATGTGAT
*
29231 TATACTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGG
1 TATA-TATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCAGACTTTATGG
* *
29296 ATAAGATTTAGCTAACTTGATAAA-G-G--
65 ATAAGATTCAGCTAACCTGATAAATGTGAT
* * * *
29322 TGT-T-TAC-AT--A--TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGA
1 TATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCAGACTTTATGGA
29380 T
66 T
29381 TTAGCTAGCC
Statistics
Matches: 138, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
83 47 0.34
85 1 0.01
87 2 0.01
88 3 0.02
89 1 0.01
91 2 0.01
93 1 0.01
94 6 0.04
95 75 0.54
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCAGACTTTATGGA
TAAGATTCAGCTAACCTGATAAATGTGAT
Found at i:30668 original size:36 final size:36
Alignment explanation
Indices: 30626--30731 Score: 99
Period size: 36 Copynumber: 2.9 Consensus size: 36
30616 AAATAAGGGG
* *
30626 TTGTCTCGCTTTAGACTAATTT-ACTTGAAATAAATT
1 TTGTCTCGCTTGAGAC-AATTTCACTTGAAACAAATT
* * * *
30662 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAGTT
1 TTGTCTCGCTTGAGACAATTTCACTTGAAACAAATT
** *
30698 TTGTCTTTCTTGAGACAGTTTTC-CTTGAAACAAA
1 TTGTCTCGCTTGAGACA-ATTTCACTTGAAACAAA
30732 ATCTTTGAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
35 4 0.07
36 51 0.86
37 4 0.07
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (36 bp):
TTGTCTCGCTTGAGACAATTTCACTTGAAACAAATT
Found at i:30835 original size:73 final size:72
Alignment explanation
Indices: 30744--31041 Score: 288
Period size: 73 Copynumber: 4.2 Consensus size: 72
30734 CTTTGAATAT
* ** * * *
30744 GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTATC
30809 TTGAGACA
65 TTGAGACA
* *
30817 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCT
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCT
30882 TGAGACA
66 TGAGACA
* * * * **
30889 GTTTCCCTTGAAACAAA----ATCT---TTGA-ATATGTTTTCCTTGAAACAAATTTCGTCTCCC
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA-GTTTCCCTTGAAACAAATTTTGTCTATC
30946 TTGAGACA
65 TTGAGACA
** * * * * * *
30954 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTC
1 GTTTCCCTTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATC
**
31019 TTGAGGTA
65 TTGAGACA
*
31027 GTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
31042 CCAATCTTTG
Statistics
Matches: 187, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
64 2 0.01
65 47 0.25
66 2 0.01
68 3 0.02
70 3 0.02
72 38 0.20
73 90 0.48
74 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (72 bp):
GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCT
TGAGACA
Found at i:30845 original size:36 final size:36
Alignment explanation
Indices: 30744--30905 Score: 243
Period size: 36 Copynumber: 4.5 Consensus size: 36
30734 CTTTGAATAT
* * *
30744 GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
** * *
30780 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
30817 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
30853 GTTTCCCTTGAAACAAATTTTGTCTATCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
30889 GTTTCCCTTGAAACAAA
1 GTTTCCCTTGAAACAAA
30906 ATCTTTGAAT
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 83 0.73
37 30 0.27
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:30916 original size:174 final size:174
Alignment explanation
Indices: 30649--31041 Score: 714
Period size: 174 Copynumber: 2.3 Consensus size: 174
30639 GACTAATTTA
* * *
30649 CTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTCTTTCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGAC
*
30714 AGTTTTCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGAC
66 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGAC
30779 AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCC
131 AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCC
30823 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGAC
30888 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGAC
66 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGAC
*
30953 AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
131 AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCC
** *
30997 CTTGAAACAAATTTTGTCTCTCTTGAGGTAGTTTCTCTTGAAACA
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
31042 CCAATCTTTG
Statistics
Matches: 211, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 211 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (174 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGAC
AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGAC
AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCC
Found at i:30976 original size:138 final size:139
Alignment explanation
Indices: 30782--31108 Score: 428
Period size: 138 Copynumber: 2.4 Consensus size: 139
30772 TTGAGACAGT
* * * * * *
30782 TTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
1 TTCTTTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTT
30847 GAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACA-AAATCTT
66 GAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACACAAATCTT
30911 TGAATATG-
131 TGAATATGC
* * *
30919 TT-TTCCTTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
1 TTCTT--TTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCT
* * ** * *
30982 CTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGGTAGTTTCTCTTGAAACACCAAT
63 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACACAAAT
31047 CTTTGAATATGC
128 CTTTGAATATGC
* * * *
31059 TTCTTTTGAAACAAAATTTTGCCTCCCTGGAGATAGTTTCTCTTGAAACA
1 TTCTTTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACA
31109 CAAAAAACCT
Statistics
Matches: 163, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
136 2 0.01
137 32 0.20
138 73 0.45
139 22 0.13
140 32 0.20
141 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (139 bp):
TTCTTTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACACAAATCTT
TGAATATGC
Found at i:31002 original size:102 final size:101
Alignment explanation
Indices: 30817--31007 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 101
30807 TCTTGAGACA
* *
30817 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCT
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCT
30882 TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
66 TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
* ** * * *
30918 GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTATC
*
30983 TTGAGACAGTTTCTCTTGAAACAAA
65 TTGAGACAGTTTCCCTTGAAACAAA
31008 TTTTGTCTCT
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 44 0.55
102 36 0.45
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (101 bp):
GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCT
TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
Found at i:31019 original size:36 final size:36
Alignment explanation
Indices: 30920--31041 Score: 165
Period size: 36 Copynumber: 3.4 Consensus size: 36
30910 TTGAATATGT
* *
30920 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
30955 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
**
30992 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGGTAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
31028 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
31042 CCAATCTTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
35 4 0.05
36 40 0.53
37 31 0.41
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.42
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:31185 original size:35 final size:35
Alignment explanation
Indices: 31094--31245 Score: 212
Period size: 35 Copynumber: 4.5 Consensus size: 35
31084 CCTGGAGATA
31094 GTTTCTCTTGAAACAC-AAAA-AACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAACAACCTTTGAAATC
*
31127 GTTTCTCTTG-AA-A-AAAAAC--CCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAACAACCTTTGAAATC
31157 GTTTCTCTTGAAACACAAAAACAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAACAACCTTTGAAATC
*
31192 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAAAT-
1 GTTTCTCTTGAAACACAAAAACAACCTTTG-AAATC
*
31227 GTTTCTCTTGAAACGCAAA
1 GTTTCTCTTGAAACACAAA
31246 GACCTTCGAG
Statistics
Matches: 107, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
30 20 0.19
31 7 0.07
32 3 0.03
33 16 0.15
35 57 0.53
36 4 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (35 bp):
GTTTCTCTTGAAACACAAAAACAACCTTTGAAATC
Found at i:32911 original size:5 final size:5
Alignment explanation
Indices: 32901--33064 Score: 53
Period size: 5 Copynumber: 33.4 Consensus size: 5
32891 GATTCATTTA
* * * ** *
32901 TTATT TTATT TCATT TT-TT TCTCTT TGA-T TTATT TTCCT TTATT TTTTT
1 TTATT TTATT TTATT TTATT T-TATT TTATT TTATT TTATT TTATT TTATT
* **
32950 TTATT TTATC TT-TT TTA-T TTATT ATTATT TT-TT ACATT TT-TCCAT
1 TTATT TTATT TTATT TTATT TTATT -TTATT TTATT TTATT TTAT---T
* * * * *
32995 TGA-T TTA-T TTAAT ATATTT TTATT TTATT TTATT TTCCTT TGA-T TTA-T
1 TTATT TTATT TTATT TTA-TT TTATT TTATT TTATT TT-ATT TTATT TTATT
33043 TT-TT TTATTT TTATT TTATT TT
1 TTATT TTA-TT TTATT TTATT TT
33065 TTTCTCCTTT
Statistics
Matches: 116, Mismatches: 26, Indels: 34
0.66 0.15 0.19
Matches are distributed among these distances:
4 32 0.28
5 63 0.54
6 19 0.16
7 2 0.02
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:32970 original size:18 final size:17
Alignment explanation
Indices: 32943--32982 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
32933 TTTTCCTTTA
32943 TTTTTTTTTATT-TTAT
1 TTTTTTTTTATTATTAT
32959 CTTTTTTATTTATTATTAT
1 -TTTTTT-TTTATTATTAT
32978 TTTTT
1 TTTTT
32983 ACATTTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 11 0.52
19 4 0.19
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTATTATTAT
Found at i:32979 original size:10 final size:9
Alignment explanation
Indices: 32897--33064 Score: 62
Period size: 10 Copynumber: 17.3 Consensus size: 9
32887 CTTTGATTCA
32897 TTTA-TTAT
1 TTTATTTAT
32905 TTTATTTCAT
1 TTTATTT-AT
*
32915 TTT-TTTCT
1 TTTATTTAT
32923 CTTTGATTTAT
1 -TTT-ATTTAT
*
32934 TTTCCTTTATT
1 TTT-ATTTA-T
*
32945 TTTTTTTAT
1 TTTATTTAT
32954 TTTATCTT-T
1 TTTAT-TTAT
32963 TTTATTTAT
1 TTTATTTAT
32972 TATTATTT-T
1 T-TTATTTAT
*
32981 TTACATTT-T
1 TT-TATTTAT
32990 TCCATTGATTTAT
1 T---TT-ATTTAT
* *
33003 TTAATATATT
1 TTTATTTA-T
33013 TTTATTTTAT
1 TTTA-TTTAT
33023 TTTATTT-T
1 TTTATTTAT
33031 CCTTTGATTTAT
1 --TTT-ATTTAT
33043 TTT-TTTATT
1 TTTATTTA-T
33052 TTTATTTTAT
1 TTTA-TTTAT
33062 TTT
1 TTT
33065 TTTCTCCTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 46
0.68 0.07 0.25
Matches are distributed among these distances:
8 13 0.10
9 40 0.32
10 44 0.35
11 19 0.15
12 6 0.05
13 2 0.02
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTTAT
Found at i:33018 original size:40 final size:41
Alignment explanation
Indices: 32969--33140 Score: 135
Period size: 40 Copynumber: 4.2 Consensus size: 41
32959 CTTTTTTATT
*
32969 TATTATTATTTT-TTACATTTTTCCATTGATTTATTTAATA
1 TATTATTATTTTATTACATTTTTCCTTTGATTTATTTAATA
* ** * *
33009 TATTTTTATTTTATTTTA-TTTTCCTTTGATTTATTT-TTT
1 TATTATTATTTTATTACATTTTTCCTTTGATTTATTTAATA
* * *
33048 TATTTTTATTTTATT--TTTTTCTCCTTTTGATTTA-TTATTA
1 TATTATTATTTTATTACATTTT-TCC-TTTGATTTATTTAATA
* *
33088 TTATTATTATTAGTT-TTACGTTTTTTCTTTGATTTATTTAATA
1 -TATTATTATT--TTATTACATTTTTCCTTTGATTTATTTAATA
33131 T-TTATGTATT
1 TATTAT-TATT
33141 GTTTTTAATC
Statistics
Matches: 108, Mismatches: 12, Indels: 22
0.76 0.08 0.15
Matches are distributed among these distances:
38 3 0.03
39 21 0.19
40 39 0.36
41 16 0.15
42 16 0.15
43 9 0.08
44 4 0.04
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (41 bp):
TATTATTATTTTATTACATTTTTCCTTTGATTTATTTAATA
Found at i:33026 original size:25 final size:24
Alignment explanation
Indices: 32939--33030 Score: 71
Period size: 25 Copynumber: 3.7 Consensus size: 24
32929 TTTATTTTCC
* *
32939 TTTATTTTTTTTTATTTTATCT-TT
1 TTTA-TTTATTTTATTTTATATATT
* *
32963 TTTATTTATTATTATTTTTTACATT
1 TTTATTTATT-TTATTTTATATATT
* *
32988 TTTCCATTGA-TTTATTTAATATATT
1 TTT--ATTTATTTTATTTTATATATT
33013 TTTATTTTATTTTATTTT
1 TTTA-TTTATTTTATTTT
33031 CCTTTGATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
23 6 0.12
24 15 0.29
25 26 0.50
26 1 0.02
27 4 0.08
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (24 bp):
TTTATTTATTTTATTTTATATATT
Found at i:33095 original size:44 final size:41
Alignment explanation
Indices: 32986--33132 Score: 146
Period size: 40 Copynumber: 3.6 Consensus size: 41
32976 ATTTTTTACA
* *
32986 TTTT-TCCATTGATTTATTTAATA-TATTTTTATTTTATTT
1 TTTTCTCCTTTGATTTATTTATTATTATTTTTATTTTATTT
33025 TATTT-TCCTTTGATTTATTT-TT-TTATTTTTATTTTATTT
1 T-TTTCTCCTTTGATTTATTTATTATTATTTTTATTTTATTT
* **
33064 TTTTCTCCTTTTGATTTATTATTATTATTATTATTAGTTTTACGT
1 TTTTCTCC-TTTGATTTA-T-TTATTATTATTTTTA-TTTTATTT
*
33109 TTTT-T-CTTTGATTTATTTAATATT
1 TTTTCTCCTTTGATTTATTTATTATT
33133 TATGTATTGT
Statistics
Matches: 93, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
38 3 0.03
39 22 0.24
40 33 0.35
41 2 0.02
42 11 0.12
43 3 0.03
44 9 0.10
45 10 0.11
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.70
Consensus pattern (41 bp):
TTTTCTCCTTTGATTTATTTATTATTATTTTTATTTTATTT
Found at i:34449 original size:49 final size:50
Alignment explanation
Indices: 34327--34449 Score: 178
Period size: 50 Copynumber: 2.5 Consensus size: 50
34317 AGCTGTAAAG
*
34327 CGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCGCCACGTGGGTATAG
1 CGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCGCCACGTGGGTATAA
* * *
34377 CGCGCCCCCTG-CCCTGCGATATACGGTGATTTGGCGCCA-GTGGGTATAA
1 CGCGCCCCCTGAACC-GCGCTATACGCTGATTTGGCGCCACGTGGGTATAA
*
34426 CGCGCCCCCTGATCCGCGCTATAC
1 CGCGCCCCCTGAACCGCGCTATAC
34450 CTGGGTATCT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
49 30 0.46
50 35 0.54
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.20
Consensus pattern (50 bp):
CGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCGCCACGTGGGTATAA
Found at i:34682 original size:17 final size:18
Alignment explanation
Indices: 34645--34685 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
34635 CTATTATGTA
*
34645 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
34663 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
34680 TTTACT
1 TTTACT
34686 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:34941 original size:111 final size:111
Alignment explanation
Indices: 34747--34968 Score: 383
Period size: 111 Copynumber: 2.0 Consensus size: 111
34737 TGGAAATCAT
* *
34747 ATATCTCTACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
* * *
34812 TATTTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATACATGATTATTAGATTAAGAATTAA
34858 ATATCTCGACACTTTGCTGATAC-GATAACATTTTAACATTTTAATTTAATTTAAATTATTAGTA
1 ATATCTCGACACTTTGCTGATACAG-TAACATTTTAACATTTTAATTTAATTTAAATTATTAGTA
34922 ATAATTAGTTGATTTATTTAATACATGATTATTAGATTAAGAATTAA
65 ATAATTAGTTGATTTATTTAATACATGATTATTAGATTAAGAATTAA
34969 TTTTTGTAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
110 1 0.01
111 104 0.99
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACAGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATACATGATTATTAGATTAAGAATTAA
Found at i:37166 original size:31 final size:30
Alignment explanation
Indices: 37120--37187 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 30
37110 TTAATATATT
37120 TCAGTTAATTTTGTTTATTACCATTTAATA
1 TCAGTTAATTTTGTTTATTACCATTTAATA
37150 TCAGTTAATTTTTGTTTATTACCATTTAATA
1 TCAGTTAA-TTTTGTTTATTACCATTTAATA
37181 TCAGTTA
1 TCAGTTA
37188 TTGTAATTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 8 0.22
31 29 0.78
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.53
Consensus pattern (30 bp):
TCAGTTAATTTTGTTTATTACCATTTAATA
Found at i:37208 original size:31 final size:31
Alignment explanation
Indices: 37120--37196 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
37110 TTAATATATT
**
37120 TCAGTTAATT-TTGTTTATTACCATTTAATA
1 TCAGTTAATTGTAATTTATTACCATTTAATA
* **
37150 TCAGTTAATTTTTGTTTATTACCATTTAATA
1 TCAGTTAATTGTAATTTATTACCATTTAATA
37181 TCAGTT-ATTGTAATTT
1 TCAGTTAATTGTAATTT
37197 GGTTATCATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 17 0.40
31 26 0.60
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.55
Consensus pattern (31 bp):
TCAGTTAATTGTAATTTATTACCATTTAATA
Found at i:44361 original size:25 final size:25
Alignment explanation
Indices: 44313--44361 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
44303 AAATTTATAA
**
44313 AATTTTATAGAAAATAAACTTAAAG
1 AATTTTATAGAAAATAAAAATAAAG
44338 AATTTTATAGAAAA-AGAAAATAAA
1 AATTTTATAGAAAATA-AAAATAAA
44362 TTATCTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (25 bp):
AATTTTATAGAAAATAAAAATAAAG
Found at i:45430 original size:2 final size:2
Alignment explanation
Indices: 45423--45449 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45413 ATTATATCGT
45423 TA 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 TA T
45450 TAATGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46952 original size:34 final size:34
Alignment explanation
Indices: 46887--46954 Score: 93
Period size: 36 Copynumber: 2.0 Consensus size: 34
46877 TATTATCAGT
* *
46887 TTTATTAATTTATATATATATATTTGCTATTTTTA
1 TTTATTAATATATATATATATATAT-CTATTTTTA
46922 TTTATTATATATATATATATATATAT-TATTTTT
1 TTTATTA-ATATATATATATATATATCTATTTTT
46955 TTATATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 7 0.23
35 7 0.23
36 16 0.53
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (34 bp):
TTTATTAATATATATATATATATATCTATTTTTA
Found at i:46961 original size:10 final size:10
Alignment explanation
Indices: 46948--47021 Score: 62
Period size: 10 Copynumber: 7.0 Consensus size: 10
46938 ATATATATAT
46948 TATTTTTTTA
1 TATTTTTTTA
46958 TATTTTTTTA
1 TATTTTTTTA
*
46968 TTTGTTTTATTTA
1 --TATTTT-TTTA
46981 TATTTTTTCT-
1 TATTTTTT-TA
*
46991 TCTTTTTCTT-
1 TATTTTT-TTA
47001 TATTTTTTTA
1 TATTTTTTTA
47011 TATTTATTTTA
1 TATTT-TTTTA
47022 CTTACTATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
9 2 0.04
10 30 0.57
11 12 0.23
12 5 0.09
13 4 0.08
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:46980 original size:23 final size:23
Alignment explanation
Indices: 46950--47063 Score: 76
Period size: 23 Copynumber: 5.0 Consensus size: 23
46940 ATATATATTA
46950 TTTT-TTTATATTTTTTTATTTG
1 TTTTATTTATATTTTTTTATTTG
*
46972 TTTTATTTATATTTTTTCT-TCT-
1 TTTTATTTATATTTTTT-TATTTG
* *
46994 TTTTCTTTAT-TTTTTTATATTTA
1 TTTTATTTATATTTTTT-TATTTG
* *
47017 TTTTACTTACTATTTTATT-TTTG
1 TTTTATTTA-TATTTTTTTATTTG
* * *
47040 CTTTCTTTATCTTATCTTTTATTT
1 TTTTATTTATATT-T-TTTTATTT
47064 AATTTGTTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
21 7 0.10
22 18 0.26
23 31 0.44
24 6 0.09
25 8 0.11
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTATTTATATTTTTTTATTTG
Found at i:46983 original size:36 final size:36
Alignment explanation
Indices: 46937--47017 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 36
46927 TATATATATA
* *
46937 TATATATATATTATTTTTTTATATTTT-TTTATTTGTT
1 TATATTTATATT-TTTTCTTAT-TTTTCTTTATTTGTT
* *
46974 T-TATTTATATTTTTTCTTCTTTTTCTTTATTTTTT
1 TATATTTATATTTTTTCTTATTTTTCTTTATTTGTT
47009 TATATTTAT
1 TATATTTAT
47018 TTTACTTACT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
34 4 0.11
35 17 0.45
36 16 0.42
37 1 0.03
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (36 bp):
TATATTTATATTTTTTCTTATTTTTCTTTATTTGTT
Found at i:47048 original size:46 final size:45
Alignment explanation
Indices: 46954--47064 Score: 111
Period size: 45 Copynumber: 2.4 Consensus size: 45
46944 ATATTATTTT
* * *
46954 TTTATATTTTTTTATTTGTTTTATTTATATTTTTTCTTCTTTTTC
1 TTTATATTTTTTTATTTATTTTACTTATATTTTTTCTTCTCTTTC
46999 TTTAT-TTTTTTATATTTATTTTACTTACTATTTTATT-TT-TGCTTTC
1 TTTATATTTTTT-TATTTATTTTACTTA-TATTTT-TTCTTCT-CTTTC
*
47045 TTTATCTTATCTTTTATTTA
1 TTTATATT-T-TTTTATTTA
47065 ATTTGTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
44 6 0.11
45 19 0.34
46 17 0.30
47 4 0.07
48 7 0.12
49 3 0.05
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (45 bp):
TTTATATTTTTTTATTTATTTTACTTATATTTTTTCTTCTCTTTC
Found at i:49536 original size:27 final size:27
Alignment explanation
Indices: 49499--49562 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
49489 TGTCTCAAAC
49499 CCCAAAATAAAATACCTTGATTCTTTA
1 CCCAAAATAAAATACCTTGATTCTTTA
49526 CCCAAAATAAAATACCTTGATTCTTTA
1 CCCAAAATAAAATACCTTGATTCTTTA
49553 CCCAAAATAA
1 CCCAAAATAA
49563 CTCATGGTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.03, T:0.30
Consensus pattern (27 bp):
CCCAAAATAAAATACCTTGATTCTTTA
Found at i:50221 original size:13 final size:14
Alignment explanation
Indices: 50184--50234 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
50174 ATCAGAACAA
50184 AAAGAGAAAAAAGT
1 AAAGAGAAAAAAGT
50198 AAAGAGAAAAAAGT
1 AAAGAGAAAAAAGT
50212 AAAGAGAAAATAA--
1 AAAGAGAAAA-AAGT
50225 AAAGAGAAAA
1 AAAGAGAAAA
50235 TAAAAAGACA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.28
14 24 0.67
15 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.06
Consensus pattern (14 bp):
AAAGAGAAAAAAGT
Found at i:50235 original size:13 final size:12
Alignment explanation
Indices: 50182--50258 Score: 75
Period size: 14 Copynumber: 6.0 Consensus size: 12
50172 CAATCAGAAC
50182 AAAAAGAGAAAA
1 AAAAAGAGAAAA
50194 AAGTAAAGAGAAAA
1 AA--AAAGAGAAAA
50208 AAGTAAAGAGAAAA
1 AA--AAAGAGAAAA
50222 TAAAAAGAGAAAA
1 -AAAAAGAGAAAA
*
50235 TAAAAAGACAAAA
1 -AAAAAGAGAAAA
*
50248 ACAAAG-GAAAA
1 AAAAAGAGAAAA
50259 TTGAAGAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
11 4 0.07
12 7 0.12
13 22 0.37
14 24 0.41
15 2 0.03
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:52089 original size:12 final size:12
Alignment explanation
Indices: 52064--52104 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
52054 TTGTTGTGCT
* *
52064 TGCTCTTCGAGC
1 TGCTCCTCGGGC
52076 TGCTCCTCGGGC
1 TGCTCCTCGGGC
52088 TGCTCCTCGGGC
1 TGCTCCTCGGGC
52100 TGCTC
1 TGCTC
52105 AGGCTCATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.02, C:0.39, G:0.29, T:0.29
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:53570 original size:20 final size:20
Alignment explanation
Indices: 53533--53571 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53523 AGATTGAGTG
* * *
53533 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
53553 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
53572 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:53789 original size:20 final size:21
Alignment explanation
Indices: 53743--53803 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
53733 TTCCACTGTG
53743 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
53766 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
53786 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
53804 TGTACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:59634 original size:70 final size:69
Alignment explanation
Indices: 59551--59686 Score: 218
Period size: 70 Copynumber: 2.0 Consensus size: 69
59541 TCAAACTATG
*
59551 AGATTGATCAAGCACAATCATTTCTAAATCACTAAAACCACTTCACTCGAAGATCATAGAGCATC
1 AGATTGATCAAGCACAATCATTTCTAAATCACT-AAACCACTCCACTCGAAGATCATAGAGCATC
59616 AAATA
65 AAATA
* * * *
59621 AGATTGATCAAGCACAATCATTTCTGAATTACTGAATCACTCCACTCGAAGATCATAGAGCATCA
1 AGATTGATCAAGCACAATCATTTCTAAATCACTAAACCACTCCACTCGAAGATCATAGAGCATCA
59686 A
66 A
59687 GTGATACACA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
69 30 0.49
70 31 0.51
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (69 bp):
AGATTGATCAAGCACAATCATTTCTAAATCACTAAACCACTCCACTCGAAGATCATAGAGCATCA
AATA
Found at i:61205 original size:37 final size:36
Alignment explanation
Indices: 61150--61320 Score: 108
Period size: 37 Copynumber: 4.9 Consensus size: 36
61140 TTTATCTCGC
*
61150 TTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCT
1 TTGAGACAGTTTCCCTTGAAACAAAATATTGTCT-CT
* *
61187 TTGAGACAGTTTCTCTTGAAACATAAACATTG-----
1 TTGAGACAGTTTCCCTTGAAACA-AAATATTGTCTCT
* * * *
61219 --AAAACA-TTTCCCTTGAAAC-GAATTTTGTCTCT
1 TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCT
* ** * * *
61251 CTTGAGATAGTTTCAATTGAAACAAAATTTTATCTCCC
1 -TTGAGACAGTTTCCCTTGAAACAAAATATTGTCT-CT
*
61289 TTGAGACAGTTTCTCTTGAAACATAAATATTG
1 TTGAGACAGTTTCCCTTGAAACA-AAATATTG
61321 AAAACATATC
Statistics
Matches: 99, Mismatches: 22, Indels: 25
0.68 0.15 0.17
Matches are distributed among these distances:
27 5 0.05
29 12 0.12
30 4 0.04
35 3 0.03
36 11 0.11
37 50 0.51
38 14 0.14
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (36 bp):
TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCT
Found at i:61373 original size:102 final size:102
Alignment explanation
Indices: 61144--61383 Score: 354
Period size: 102 Copynumber: 2.4 Consensus size: 102
61134 GAAGATTTTA
* * *
61144 TCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCTTTGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATATTATCTCCCTTGAGACAGTTTCTCTTGAAAC
* * *
61209 ATAAACATTGAAAACATTTCCCTTGAAACGAATTTTG
66 ATAAACATTGAAAACATATCCCTTGAAACAAATTTCG
** *
61246 TCTCTCTTGAGATAGTTTCAATTGAAACAAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATATTATCTCCCTTGAGACAGTTTCTCTTGAAAC
* *
61311 ATAAATATTGAAAACATATCCCTTGAAATAAATTTCG
66 ATAAACATTGAAAACATATCCCTTGAAACAAATTTCG
* * *
61348 TCTCTCTTGAGACAGTTTCCCTTGAAATAAATTATT
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATATT
61384 TGAATATGTT
Statistics
Matches: 121, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 121 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (102 bp):
TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATATTATCTCCCTTGAGACAGTTTCTCTTGAAAC
ATAAACATTGAAAACATATCCCTTGAAACAAATTTCG
Found at i:61374 original size:167 final size:159
Alignment explanation
Indices: 61161--61600 Score: 433
Period size: 167 Copynumber: 2.7 Consensus size: 159
61151 TGAGATAGTT
* *
61161 TCCCTTGAAACAAAATATT-GTCTC-CTTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAA
1 TCCCTTGAAA-AAAAT-TTCGTCTCTC-TTGAGACAGTTTCCCTTGAAACATAAATCATTGAATA
* * * *
61223 CATTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAGTTTCAATTGAAACAAAATTTTATCTCC
63 TATTTCCCTTGAAACAAATTTTGTCTC-CTTGAGACAGTTTCTATTGAAACAAAATTTTATCTCC
*
61288 CTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATA
127 CTTGAGACAGTTTCTCTT-AAA-ACAAATATTG------TA
* * *
61329 TCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ATAAATTATTTGAATATG
1 TCCCTTGAAAAAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACATAAATCA-TTGAATATA
*** ** * * * * *
61392 TTTTATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTATCTCTCT
65 TTTCCCTTGAAACAAATTTTGTCT-CCTTGAGACAGTTTCTATTGAAACAAAATTTTATCTCCCT
* *
61457 TGAGACAGTTTCTCTTAAAACAAATTTTGTC
129 TGAGACAGTTTCTCTTAAAACAAATATTGTA
* * * * *
61488 TCTCTTGAGACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATCTTTGAATTTAT
1 TCCCTTGAAAAAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACATAAATCATTGAATATAT
* * *
61552 TTCCCCTAAAACAAATTTTGTCTACCTTGAGACAGTTTCTCTTGAAACA
66 TTCCCTTGAAACAAATTTTGTCT-CCTTGAGACAGTTTCTATTGAAACA
61601 CAAAATCTTC
Statistics
Matches: 225, Mismatches: 40, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
159 87 0.39
160 6 0.03
161 1 0.00
165 13 0.06
166 8 0.04
167 98 0.44
168 12 0.05
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (159 bp):
TCCCTTGAAAAAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACATAAATCATTGAATATAT
TTCCCTTGAAACAAATTTTGTCTCCTTGAGACAGTTTCTATTGAAACAAAATTTTATCTCCCTTG
AGACAGTTTCTCTTAAAACAAATATTGTA
Found at i:61376 original size:36 final size:36
Alignment explanation
Indices: 61329--61499 Score: 115
Period size: 36 Copynumber: 4.9 Consensus size: 36
61319 TGAAAACATA
*
61329 TCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTT
1 TCCCTTGAAATAAATTTCATCTCTCTTGAGACAGTT
*
61365 TCCCTTGAAATAAA-TT-A----T-TTGA-ATATGTT
1 TCCCTTGAAATAAATTTCATCTCTCTTGAGACA-GTT
*** * *
61394 TTATTTGAAACAAATTTCATCTCCCTTGAGACAGTT
1 TCCCTTGAAATAAATTTCATCTCTCTTGAGACAGTT
** * * *
61430 TCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAGTT
1 TCCCTT-GAAATAAATTTCATCTCTCTTGAGACAGTT
* * * **
61467 TCTCTTAAAACAAATTTTGTCTCTCTTGAGACA
1 TCCCTTGAAATAAATTTCATCTCTCTTGAGACA
61500 AATTTCGTCT
Statistics
Matches: 104, Mismatches: 21, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
28 2 0.02
29 17 0.16
30 3 0.03
31 1 0.01
35 2 0.02
36 47 0.45
37 32 0.31
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (36 bp):
TCCCTTGAAATAAATTTCATCTCTCTTGAGACAGTT
Found at i:61462 original size:37 final size:36
Alignment explanation
Indices: 61401--61499 Score: 126
Period size: 37 Copynumber: 2.7 Consensus size: 36
61391 GTTTTATTTG
* * * *
61401 AAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAATTTTATCTCTCTTGAGACAGTTTCTCTTA
* *
61437 GAACTAAGTTTTATCTCTCTTGAGACAGTTTCTCTTA
1 AAAC-AAATTTTATCTCTCTTGAGACAGTTTCTCTTA
*
61474 AAACAAATTTTGTCTCTCTTGAGACA
1 AAACAAATTTTATCTCTCTTGAGACA
61500 AATTTCGTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 23 0.43
37 30 0.57
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTATCTCTCTTGAGACAGTTTCTCTTA
Found at i:61515 original size:21 final size:21
Alignment explanation
Indices: 61467--61520 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
61457 TGAGACAGTT
* * *
61467 TCTCTTAAAACAAATTTTGTC
1 TCTCTTGAGACAAATTTCGTC
61488 TCTCTTGAGACAAATTTCGTC
1 TCTCTTGAGACAAATTTCGTC
61509 TCTCTTGAGACA
1 TCTCTTGAGACA
61521 GTTTCCCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (21 bp):
TCTCTTGAGACAAATTTCGTC
Found at i:61585 original size:65 final size:66
Alignment explanation
Indices: 61497--61657 Score: 209
Period size: 65 Copynumber: 2.4 Consensus size: 66
61487 CTCTCTTGAG
* **
61497 ACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCCTA
1 ACAAATTTTGTCTC-CTTGAGACAGTTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCCTA
61560 AA
65 AA
* *
61562 ACAAATTTTGTCTACCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTA
1 ACAAATTTTGTCT-CCTTGAGACAGTTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCCTA
61627 AA
65 AA
* *
61629 ACAAAATTTTGTTTCCCTTGAGACCGTTT
1 AC-AAATTTTGTCT-CCTTGAGACAGTTT
61658 TCATGAAACA
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 30 0.36
66 3 0.04
67 28 0.33
68 23 0.27
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (66 bp):
ACAAATTTTGTCTCCTTGAGACAGTTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAA
A
Found at i:61633 original size:67 final size:66
Alignment explanation
Indices: 61497--61667 Score: 213
Period size: 67 Copynumber: 2.6 Consensus size: 66
61487 CTCTCTTGAG
* * **
61497 ACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCCTA
1 ACAAATTTTGTCTC-CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTA
61560 AA
65 AA
*
61562 ACAAATTTTGTCTACCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTA
1 ACAAATTTTGTCT-CCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTA
61627 AA
65 AA
* * *
61629 ACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACA
1 AC-AAATTTTGTCT-CCTTGAGACAGTTTCTCTTGAAACA
61668 ACATATATCT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
65 30 0.32
66 3 0.03
67 37 0.40
68 23 0.25
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (66 bp):
ACAAATTTTGTCTCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAA
A
Found at i:62587 original size:110 final size:106
Alignment explanation
Indices: 62377--62643 Score: 331
Period size: 110 Copynumber: 2.5 Consensus size: 106
62367 ACGAAGGGGC
* * * *
62377 TTCCCAGTTTTAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTCTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCT
*
62442 CAACTTCACAACAAAGGGGCGACTGATTGTAAACAAACAACT
66 CAACTTCACAACAAAGGGGCGACTGACTGTAAACAAACAA-T
** *
62484 TT-TTAGTCTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACA
1 TTCCCAGT-TC--T-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACA
* * * * * *
62548 AGCTCAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAATAAT
62 AGCTCAACTTCACAACAAAGGGGCGACTGACTGTAAACAAACAAT
*
62593 TTCCCAGTTCTAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGAACTCG
1 TTCCCAGTTCTAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGAACTCG
62644 GAACAATACT
Statistics
Matches: 136, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
105 1 0.01
106 39 0.29
107 4 0.03
109 6 0.04
110 86 0.63
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (106 bp):
TTCCCAGTTCTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCT
CAACTTCACAACAAAGGGGCGACTGACTGTAAACAAACAAT
Found at i:63918 original size:20 final size:21
Alignment explanation
Indices: 63881--63920 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
63871 ATGCATTTTC
*
63881 TTTTTTTACTTTAGTATATAT
1 TTTTTTTACATTAGTATATAT
*
63902 TTTTTTTAGATTA-TATATA
1 TTTTTTTACATTAGTATATA
63921 AATATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTTTTTACATTAGTATATAT
Found at i:63961 original size:2 final size:2
Alignment explanation
Indices: 63954--64039 Score: 63
Period size: 2 Copynumber: 44.5 Consensus size: 2
63944 TTTATTAATT
* * * *
63954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TGC TA T- TT TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
* * * *
63996 TA T- TT TT TA T- TT TT TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64035 TA TA T
1 TA TA T
64040 TACTTATTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
1 4 0.05
2 68 0.93
3 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (2 bp):
TA
Found at i:63999 original size:7 final size:7
Alignment explanation
Indices: 63989--64013 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
63979 ATATATTTGC
63989 TATTTTT
1 TATTTTT
63996 TATTTTT
1 TATTTTT
64003 TATTTTT
1 TATTTTT
64010 TATT
1 TATT
64014 ATATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:64092 original size:10 final size:10
Alignment explanation
Indices: 64050--64099 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
64040 TACTTATTTG
64050 TTTTATTTATA
1 TTTT-TTTATA
64061 TTTTTTCT-TA
1 TTTTTT-TATA
64071 TTTTTCTT-TA
1 TTTTT-TTATA
64081 TTTTTTTATA
1 TTTTTTTATA
64091 TTTATTTTA
1 TTT-TTTTA
64100 CTTACTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 2 0.06
10 22 0.63
11 11 0.31
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:64155 original size:32 final size:31
Alignment explanation
Indices: 64119--64187 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
64109 TTATCTTTGC
* * * *
64119 TTTCTTTATCTTATCTTTTATTAATTTGTTTT
1 TTTCTTCATCTTA-ATTTTATTAATTTATTTA
* *
64151 TTTCTTCATTTTAATTTTATTTATTTATTTA
1 TTTCTTCATCTTAATTTTATTAATTTATTTA
64182 TTTCTT
1 TTTCTT
64188 ACCATTTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
31 20 0.65
32 11 0.35
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.72
Consensus pattern (31 bp):
TTTCTTCATCTTAATTTTATTAATTTATTTA
Found at i:64170 original size:31 final size:32
Alignment explanation
Indices: 64134--64196 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
64124 TTATCTTATC
* *
64134 TTTTATTAATTTGTTTTTTTCTT-CATTTTAA
1 TTTTATTAATTTATTTATTTCTTACATTTTAA
*
64165 TTTTATTTATTTATTTATTTCTTACCATTTTA
1 TTTTATTAATTTATTTATTTCTTA-CATTTTA
64197 TCTAATATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 20 0.74
33 7 0.26
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.70
Consensus pattern (32 bp):
TTTTATTAATTTATTTATTTCTTACATTTTAA
Found at i:65630 original size:20 final size:22
Alignment explanation
Indices: 65604--65651 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
65594 ATAGAATATA
65604 AATTTTTT-AAAATATTTATTT
1 AATTTTTTAAAAATATTTATTT
65625 -ATTTTTTAAAAATATTTATTT
1 AATTTTTTAAAAATATTTATTT
65646 AATTTT
1 AATTTT
65652 AAATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.28
21 13 0.52
22 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATTTTTTAAAAATATTTATTT
Found at i:65652 original size:20 final size:21
Alignment explanation
Indices: 65607--65662 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
65597 GAATATAAAT
* *
65607 TTTTTAAAATATTTATTTATT
1 TTTTAAAAATATTTATTTATA
65628 TTTTAAAAATATTTATTTA-A
1 TTTTAAAAATATTTATTTATA
65648 TTTTAAATAAT-TTTA
1 TTTTAAA-AATATTTA
65663 ATCTTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAAAATATTTATTTATA
Found at i:68605 original size:13 final size:12
Alignment explanation
Indices: 68587--68622 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
68577 ATATAATCAG
68587 TGACATGTGTCA
1 TGACATGTGTCA
68599 TTGACATGTGTCA
1 -TGACATGTGTCA
68612 TGAACATGTGT
1 TG-ACATGTGT
68623 AATTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 2 0.09
13 20 0.91
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (12 bp):
TGACATGTGTCA
Found at i:72300 original size:21 final size:24
Alignment explanation
Indices: 72261--72303 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
72251 TACTGACATG
72261 TCATTATAAGATAATATCATGTTA
1 TCATTATAAGATAATATCATGTTA
72285 TCATTA-AAGA-AA-ATCATGT
1 TCATTATAAGATAATATCATGT
72304 CAGTAGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 4 0.21
24 6 0.32
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (24 bp):
TCATTATAAGATAATATCATGTTA
Found at i:77521 original size:4 final size:4
Alignment explanation
Indices: 77512--77538 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
77502 AATACAATGG
77512 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
77539 CATAGTTGAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:77567 original size:13 final size:13
Alignment explanation
Indices: 77549--77575 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77539 CATAGTTGAA
77549 CAGTCTTCATATG
1 CAGTCTTCATATG
77562 CAGTCTTCATATG
1 CAGTCTTCATATG
77575 C
1 C
77576 GCGTTTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:84020 original size:21 final size:22
Alignment explanation
Indices: 83972--84021 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
83962 GAACTGAGTT
**
83972 GAGCTCGAAAATTGCTGAGCTC
1 GAGCTCGAAAATTGCTGAAATC
*
83994 GA-CTCGAAAATT-CTGAAATG
1 GAGCTCGAAAATTGCTGAAATC
84014 GAGCTCGA
1 GAGCTCGA
84022 CTTGACTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (22 bp):
GAGCTCGAAAATTGCTGAAATC
Found at i:84184 original size:31 final size:32
Alignment explanation
Indices: 84122--84184 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
84112 AGTTAAATGT
* * *
84122 TTATGTAAAATTTTAATATATTTTTACATAAA
1 TTATGTAAAATTTTAATATATATTAAAATAAA
84154 TTATGTAAAA-TTTAATAT-TAATTAAAATAAA
1 TTATGTAAAATTTTAATATAT-ATTAAAATAAA
84185 AATAATACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 1 0.04
31 16 0.59
32 10 0.37
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (32 bp):
TTATGTAAAATTTTAATATATATTAAAATAAA
Found at i:84256 original size:15 final size:15
Alignment explanation
Indices: 84236--84266 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
84226 CAACAAATAG
84236 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
84251 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
84266 A
1 A
84267 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:88900 original size:105 final size:105
Alignment explanation
Indices: 88718--89032 Score: 549
Period size: 105 Copynumber: 3.0 Consensus size: 105
88708 GGAACATGCT
*
88718 CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTGGAGCAAGGCTGCTCCTTGGTG
1 CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTAGAGCAAGGCTGCTCCTTGGTG
*
88783 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCATCC
66 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
* * * *
88823 CATGCATCTCTTGGACAAAGGCCTCATCAATCTTTCCTGAGGTAGAACAAGGCTGCTCCTTGGTG
1 CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTAGAGCAAGGCTGCTCCTTGGTG
88888 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
66 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
* * *
88928 CATGCGTCCCTTGAACAAAGGCCACGTCAATCTTTCCTGAGGTAGAGTAAGGCTGCTCCTTGGTG
1 CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTAGAGCAAGGCTGCTCCTTGGTG
88993 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
66 GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
89033 GAATCCGGAT
Statistics
Matches: 197, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 197 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (105 bp):
CATGCGTCCCTTGAACAAAGGCCTCATCAATCTTTCCTGAGGTAGAGCAAGGCTGCTCCTTGGTG
GGTAGCACTTCAGGATCTTTATGCCTTTGAGAAGGCAACC
Found at i:89459 original size:9 final size:9
Alignment explanation
Indices: 89423--89505 Score: 57
Period size: 9 Copynumber: 9.1 Consensus size: 9
89413 GGGCATTGTC
89423 TCTT-TCTT
1 TCTTCTCTT
89431 TCTTCTCCCGTT
1 TCTTCT--C-TT
*
89443 TTTTCTCTT
1 TCTTCTCTT
89452 TCTTCTCTT
1 TCTTCTCTT
*
89461 TCTTTTCTT
1 TCTTCTCTT
89470 TCTTC-CTT
1 TCTTCTCTT
*
89478 TCCTTCT-TGG
1 T-CTTCTCT-T
*
89488 CCTTCTC-T
1 TCTTCTCTT
89496 TCTTCTCTT
1 TCTTCTCTT
89505 T
1 T
89506 TAATCTACAA
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
8 14 0.24
9 35 0.60
10 1 0.02
11 1 0.02
12 7 0.12
ACGTcount: A:0.00, C:0.33, G:0.04, T:0.64
Consensus pattern (9 bp):
TCTTCTCTT
Found at i:91877 original size:9 final size:9
Alignment explanation
Indices: 91863--91896 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
91853 TAAAAGGGAA
91863 AAATAAAAT
1 AAATAAAAT
91872 AAATAAAAT
1 AAATAAAAT
91881 AAAT-AAAT
1 AAATAAAAT
91889 AAGATAAA
1 AA-ATAAA
91897 GGAAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 15 0.65
10 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:91884 original size:13 final size:13
Alignment explanation
Indices: 91862--91896 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
91852 GTAAAAGGGA
91862 AAAATAAAATAAAT
1 AAAAT-AAATAAAT
91876 AAAATAAATAAAT
1 AAAATAAATAAAT
*
91889 AAGATAAA
1 AAAATAAA
91897 GGAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:92283 original size:2 final size:2
Alignment explanation
Indices: 92235--92269 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
92225 ATAATTAAGA
92235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92270 ATAATAGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92476 original size:15 final size:15
Alignment explanation
Indices: 92456--92494 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
92446 ATATACATAT
*
92456 AATAATAATAACATG
1 AATAATAATAAAATG
*
92471 AATAATAAAAAAATG
1 AATAATAATAAAATG
92486 AATAA-AATA
1 AATAATAATA
92495 TCCATATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (15 bp):
AATAATAATAAAATG
Found at i:92493 original size:64 final size:63
Alignment explanation
Indices: 92358--92494 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 63
92348 ATAGACTTAT
*
92358 AAATAAAAT-ATTAAAGAAATATATATATAATAATAATAATAATAAAATATAGTAAAAAAATC
1 AAATAAAATAATTAAAGAAATATATATATAATAATAATAATAATAAAATATAATAAAAAAATC
* * * *
92420 AAATGAAAATAATTTAATATATATATATATACAT-ATAATAATAATAACATGAATAATAAAAAAA
1 AAAT-AAAATAATTAAAGAAATATATATATA-ATAATAATAATAATAAAAT--ATAATAAAAAAA
92484 T-
62 TC
*
92485 GAATAAAATA
1 AAATAAAATA
92495 TCCATATAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
62 4 0.06
63 5 0.08
64 38 0.59
65 5 0.08
66 12 0.19
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (63 bp):
AAATAAAATAATTAAAGAAATATATATATAATAATAATAATAATAAAATATAATAAAAAAATC
Found at i:93800 original size:105 final size:105
Alignment explanation
Indices: 93493--94360 Score: 1267
Period size: 105 Copynumber: 8.3 Consensus size: 105
93483 CATTGTTCCA
* * **
93493 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCT-AGAACCGGGAAA-TTGTTTGTTGACA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-A-TTGGAAAGTTG-TTGTTGACA
* * * * *
93556 ACCGGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
63 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
93599 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-A-T-GAAA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
93659 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
93699 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
*
93764 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
93804 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T-GAAA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
93864 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
93904 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
** *
93969 AGTAGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
94009 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
94074 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
94114 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTCATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATT-GGAAAGTTGTT-GTTGACAA
94179 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
94221 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAAGTTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGA-AAGTTG-TTGTTGACAA
** * * *
94285 CCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
94327 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
94361 CGCGGATGGC
Statistics
Matches: 709, Mismatches: 35, Indels: 33
0.91 0.05 0.04
Matches are distributed among these distances:
100 176 0.25
101 4 0.01
102 12 0.02
103 9 0.01
104 5 0.01
105 284 0.40
106 97 0.14
107 100 0.14
109 22 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:93846 original size:205 final size:206
Alignment explanation
Indices: 93493--94360 Score: 1276
Period size: 205 Copynumber: 4.2 Consensus size: 206
93483 CATTGTTCCA
* * **
93493 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCT-AGAACCGGGAAA-TTGTTTGTTGACA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-A-TTGGAAAGTTG-TTGTTGACA
* * * ** *
93556 ACCGGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGA
63 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGA
*
93621 AGTTGAAATTGGCTCTGAA-TGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
128 AGTTGAAATTGGCTCTGAATTGAAATTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
93685 CTTGCGTTGTCTGG
193 CTTGCGTTGTCTGG
*
93699 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
*
93764 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
*
93829 TGAAATTGGCTCTGAA-TGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
131 TGAAATTGGCTCTGAATTGAAATTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
93893 GCGTTGTCTGG
196 GCGTTGTCTGG
*
93904 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
**
93969 AGTAGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
94034 TGAAATTGGCTCTGAGATTGGGAAGTTGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGA-ATT--GAAATT-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
94099 ACTTGCGTTGTCTGG
192 ACTTGCGTTGTCTGG
* * *
94114 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTCATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATT-GGAAAGTTGTT-GTTGACAA
*
94179 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
** *
94244 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCATCCCTTCGTTGTGAAGT
129 GTTGAAATTGGCTCTG-AATTGA-AA--T-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
94309 TGAACTTGTGTTGTCTCG
189 TGAACTTGCGTTGTCTGG
* * *
94327 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
94361 CGCGGATGGC
Statistics
Matches: 610, Mismatches: 35, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
205 291 0.48
206 41 0.07
207 3 0.00
209 5 0.01
210 95 0.16
211 11 0.02
212 87 0.14
213 51 0.08
214 4 0.01
216 22 0.04
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (206 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAATTGAAATTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTGG
Found at i:94045 original size:310 final size:308
Alignment explanation
Indices: 93493--94360 Score: 1278
Period size: 310 Copynumber: 2.8 Consensus size: 308
93483 CATTGTTCCA
* *
93493 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTAGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGT-GTGAAGTTGAAATTGGCTCT-GAA-C-TGAAA-T-TTTGTTGACAAC
* * * * *
93558 CGGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
60 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
93623 TTGAAATTGGCTCTGAA-TGAAA-TT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
125 TTGAAATTGGCTCTGAATTGAAAGTTGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAA
93685 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGT
190 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGT
* *
93750 TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
255 TGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
*
93804 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-TGAAATTTTGTTGACAAGCAGCG
1 AGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAACTGAAATTTTGTTGACAACCAGCG
93868 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
65 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
*
93933 ATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGTAGTCCCTTCGTCGTGAAGTTGAACTT
130 ATTGGCTCTGA-ATT-GAAAGTTGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAACTT
* *
93998 GCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGT
193 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGT
*
94063 TATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
258 TATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
* *
94114 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTCATTGACAA
1 AGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTG-AACT--G-AAATT-TT-GTTGACAA
94179 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
59 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* *
94244 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCA-TCCCTTCGTTGTGAAG
124 GTTGAAATTGGCTCTG-AATTGA-AAGTTG-TTGTTGACAAGCAG-CAGTCCCTTCGTCGTGAAG
* * * * *
94308 TTGAACTTGTGTTGTCTCGAGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
185 TTGAACTTGCGTTGTCTGGAGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
94361 CGCGGATGGC
Statistics
Matches: 510, Mismatches: 27, Indels: 30
0.90 0.05 0.05
Matches are distributed among these distances:
305 87 0.17
306 2 0.00
307 5 0.01
308 4 0.01
309 2 0.00
310 191 0.37
311 37 0.07
312 2 0.00
314 1 0.00
315 5 0.01
316 4 0.01
317 96 0.19
318 48 0.09
319 4 0.01
321 22 0.04
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (308 bp):
AGTCCAATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAACTGAAATTTTGTTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
TTGGCTCTGAATTGAAAGTTGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCG
TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTAT
TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
Found at i:95054 original size:68 final size:65
Alignment explanation
Indices: 94964--95121 Score: 199
Period size: 68 Copynumber: 2.4 Consensus size: 65
94954 AAGATATCTG
* * * **
94964 TTGTTTCATGAGAAACGGTCTCAAGGGAAACATAATTATGCTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGCTTTAAGGGAAATAAATTCAAAGA-
95029 TT
64 TT
* * * *
95031 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGCTTTAAGGGAAATAAATTCAAAGAT
95096 T
65 T
*
95097 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
95122 ATAGACGAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 23 0.29
68 31 0.39
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGCTTTAAGGGAAATAAATTCAAAGATT
Found at i:95096 original size:67 final size:67
Alignment explanation
Indices: 94951--95147 Score: 202
Period size: 65 Copynumber: 2.9 Consensus size: 67
94941 GGAAACGATC
* * * * * *
94951 TCAAAGATATCTGTTGTTTCATGAGAAACGGTCTCAAGGGAAACATAATTATGCTTTAAGGGAAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAA
95016 TAAAT
63 TAAAT
** * *
95021 TTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAA
95086 AT
66 AT
* ** * *
95088 TCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA
95148 CTGTCTCAAG
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
65 38 0.36
66 7 0.07
67 22 0.21
68 31 0.29
69 3 0.03
70 6 0.06
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAA
AT
Found at i:95148 original size:36 final size:35
Alignment explanation
Indices: 95097--95377 Score: 254
Period size: 36 Copynumber: 8.0 Consensus size: 35
95087 TTCAAAGATT
* *
95097 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
95133 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * ** *
95168 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAAACGGTAT
1 -TT-GTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
* * **
95206 TTGTTTCAA-AGAAAACATAT-TC---A-A-A-TATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
95235 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
95270 TTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAAT
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
95307 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
95342 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
95378 CTCTTCTAGT
Statistics
Matches: 201, Mismatches: 28, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.01
29 16 0.08
30 1 0.00
31 1 0.00
32 2 0.01
33 1 0.00
34 1 0.00
35 10 0.05
36 134 0.67
37 32 0.16
38 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:95211 original size:138 final size:137
Alignment explanation
Indices: 95045--95351 Score: 400
Period size: 138 Copynumber: 2.2 Consensus size: 137
95035 TTTCAAGAGT
* * ** * *
95045 AACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAAACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTGTTTCAAGGGA
* *
95110 AACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGT
66 AACTGTCTCAAGAGAGAC-AAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTAGT
95174 TCCAAAAGA
129 TCCAAAAGA
*** * *
95183 AACTGTCTCAAGGGAAACGGTATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAAACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTGTTTCAAGGGA
* * * * *
95248 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTT
66 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTC
*
95313 CAAGAGA
131 CAAAAGA
* *
95320 AACTGTCTCAAGAGAGACAAAATTTGTTTCAA
1 AACTGTCTCAAGGGAAACAAAATTTGTTTCAA
95352 GGGAAACTGT
Statistics
Matches: 144, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
137 42 0.29
138 102 0.71
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (137 bp):
AACTGTCTCAAGGGAAACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTGTTTCAAGGGA
AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTC
CAAAAGA
Found at i:95400 original size:35 final size:36
Alignment explanation
Indices: 95239--95411 Score: 170
Period size: 36 Copynumber: 4.8 Consensus size: 36
95229 AATATTTTGT
* * **
95239 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTAT
1 TTCAAGGGAAAATGTCTCAAGAGAGACAAAATCTGC
* * * * *
95275 TTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGT
1 TTCAAGGGAAAATGTCTCAAGAGAGACAAAATCTGC
* * * *
95311 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGGGAAAATGTCTCAAGAGAGACAAAATCTGC
*
95347 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-CT-C
1 TTCAAGGGAAAATGTCTCAAGAGAGACAAAATCTGC
* * *
95381 TTCTAGTGAAAATGATCTCAAGCGAGACAAA
1 TTCAAGGGAAAATG-TCTCAAGAGAGACAAA
95412 TCTTGTTTTA
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
34 11 0.09
35 16 0.13
36 96 0.78
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (36 bp):
TTCAAGGGAAAATGTCTCAAGAGAGACAAAATCTGC
Found at i:95885 original size:18 final size:18
Alignment explanation
Indices: 95858--95893 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
95848 TGTTGAATCC
* *
95858 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
95876 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
95894 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:96333 original size:22 final size:22
Alignment explanation
Indices: 96308--96355 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
96298 TTGTGTTTGG
96308 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
96330 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
96352 TCAA
1 TCAA
96356 CGGATTGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:96991 original size:20 final size:21
Alignment explanation
Indices: 96968--97027 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
96958 TTTGTCCCCT
*
96968 TTTTTTATTTTTGTTCTTT-C
1 TTTTTTATTCTTGTTCTTTCC
* *
96988 TTTTTTGTTCTTGTTTTTTCC
1 TTTTTTATTCTTGTTCTTTCC
*
97009 TTTTTTGCTTCTT-TTCTTT
1 TTTTTT-ATTCTTGTTCTTT
97028 TTTCTTTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 16 0.48
21 12 0.36
22 5 0.15
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTTTATTCTTGTTCTTTCC
Found at i:97038 original size:22 final size:22
Alignment explanation
Indices: 96984--97036 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
96974 ATTTTTGTTC
96984 TTTCTTTTTTG-TTCTTGTTTT
1 TTTCTTTTTTGCTTCTTGTTTT
* *
97005 TTCCTTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTTGCTTCTTGT-TTT
97028 TTTCTTTTT
1 TTTCTTTTT
97037 GCCCTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTGCTTCTTGTTTT
Found at i:100569 original size:28 final size:28
Alignment explanation
Indices: 100557--100689 Score: 76
Period size: 29 Copynumber: 4.6 Consensus size: 28
100547 AATATTAAAG
100557 AAATATATATATAATAATAATAATAATA
1 AAATATATATATAATAATAATAATAATA
* * *
100585 AAATATAGTAAAAAATCAAATGAA-AATAATT
1 AAATATA-TATATAAT--AAT-AATAATAATA
*
100616 TAATATATATATATATACAT-ATAATAATA
1 AAATATATATATA-ATA-ATAATAATAATA
* * * *
100645 ATAACAT-GA-ATAATAAAAAAAATGAATA
1 A-AATATATATATAATAATAATAAT-AATA
**
100673 AAATATCCATATAATAA
1 AAATATATATATAATAA
100690 ATAAAGAGAC
Statistics
Matches: 79, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
26 1 0.01
27 11 0.14
28 17 0.22
29 21 0.27
30 10 0.13
31 17 0.22
32 2 0.03
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (28 bp):
AAATATATATATAATAATAATAATAATA
Found at i:100659 original size:18 final size:17
Alignment explanation
Indices: 100636--100677 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
100626 ATATATACAT
*
100636 ATAATAATAATAACATGA
1 ATAATAATAA-AAAATGA
100654 ATAATAA-AAAAAATGA
1 ATAATAATAAAAAATGA
100670 ATAA-AATA
1 ATAATAATA
100678 TCCATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.09
16 11 0.50
17 2 0.09
18 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (17 bp):
ATAATAATAAAAAATGA
Found at i:102009 original size:16 final size:16
Alignment explanation
Indices: 101984--102026 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
101974 CATTTAATAA
101984 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
102000 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
102016 ATAAACGAACA
1 ATAAACGAACA
102027 TAAACGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:102786 original size:24 final size:24
Alignment explanation
Indices: 102754--102822 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
102744 GATTGCGTTA
*
102754 AACATAAAT-GAATGAACATAAACG
1 AACATAAATCGAACGAACATAAA-G
102778 AACATAAATCGAACGAACATAAAG
1 AACATAAATCGAACGAACATAAAG
* *
102802 AACAT-AACCAAACGAACATAA
1 AACATAAATCGAACGAACATAA
102823 CCGAACGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
23 14 0.34
24 15 0.37
25 12 0.29
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.13
Consensus pattern (24 bp):
AACATAAATCGAACGAACATAAAG
Found at i:104199 original size:24 final size:24
Alignment explanation
Indices: 104168--104214 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
104158 GAAACTGCCG
*
104168 CGTAGAATTTACACCGAAGTGTCA
1 CGTAGAATATACACCGAAGTGTCA
* *
104192 CGTAGAATATGCATCGAAGTGTC
1 CGTAGAATATACACCGAAGTGTC
104215 GCATATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (24 bp):
CGTAGAATATACACCGAAGTGTCA
Found at i:104407 original size:15 final size:15
Alignment explanation
Indices: 104389--104455 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 15
104379 TAAAACACAA
104389 TCACATAGAACATAT
1 TCACATAGAACATAT
*
104404 TCACATAGAACATTT
1 TCACATAGAACATAT
* * *
104419 TCACGTAGATCACAT
1 TCACATAGAACATAT
* * *
104434 TCATATATAACATGT
1 TCACATAGAACATAT
104449 TCACATA
1 TCACATA
104456 CTAATAAAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (15 bp):
TCACATAGAACATAT
Found at i:105470 original size:18 final size:19
Alignment explanation
Indices: 105447--105493 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
105437 AAGTTTCTAT
*
105447 ACCAACCAAAGATTCAA-A
1 ACCAACCAAAAATTCAAGA
105465 ACCAACCAAAAAATTCAAGA
1 ACCAACC-AAAAATTCAAGA
*
105485 AACAACCAA
1 ACCAACCAA
105494 TTTTAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.28
19 11 0.44
20 7 0.28
ACGTcount: A:0.60, C:0.28, G:0.04, T:0.09
Consensus pattern (19 bp):
ACCAACCAAAAATTCAAGA
Found at i:123866 original size:19 final size:19
Alignment explanation
Indices: 123842--123892 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
123832 AACGATGATG
*
123842 TGGCTGACGACTGTTGACA
1 TGGCTGACGACTGTCGACA
* *
123861 TGGCTGATGACTGTCGACG
1 TGGCTGACGACTGTCGACA
123880 TGGCTGACGACTG
1 TGGCTGACGACTG
123893 CCGATGTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.18, C:0.22, G:0.35, T:0.25
Consensus pattern (19 bp):
TGGCTGACGACTGTCGACA
Found at i:124548 original size:16 final size:17
Alignment explanation
Indices: 124529--124565 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
124519 TATGATATTT
*
124529 ACACTTTAATTTC-ATG
1 ACACTTTAATATCTATG
124545 ACACTTTAATATCTATG
1 ACACTTTAATATCTATG
124562 ACAC
1 ACAC
124566 ATGTAACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (17 bp):
ACACTTTAATATCTATG
Found at i:125067 original size:20 final size:20
Alignment explanation
Indices: 125042--125080 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
125032 AATTTGTATT
125042 GAAAGGTTAAGACCTTTAAG
1 GAAAGGTTAAGACCTTTAAG
125062 GAAAGGTTAAGACCTTTAA
1 GAAAGGTTAAGACCTTTAA
125081 ATGAAATGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (20 bp):
GAAAGGTTAAGACCTTTAAG
Found at i:125121 original size:20 final size:20
Alignment explanation
Indices: 125092--125129 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
125082 TGAAATGACT
*
125092 TAACCATTTGATTAAAATCA
1 TAACCATTTGATCAAAATCA
*
125112 TAACCTTTTGATCAAAAT
1 TAACCATTTGATCAAAAT
125130 GTTAATATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (20 bp):
TAACCATTTGATCAAAATCA
Done.