Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001599.1 Hibiscus syriacus cultivar Beakdansim tig00003182_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: 207994
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:2772 original size:337 final size:330
Alignment explanation
Indices: 2098--2896 Score: 1176
Period size: 337 Copynumber: 2.4 Consensus size: 330
2088 TTTTATAATA
**
2098 ATAAAT-TTTTATAATTTTAAAAATTATAAAATTT-ATATA-TTTTGAAAAAATTATTTTCTTTT
1 ATAAATATTTTATAATTTTAAAAATTAT-AAATTTCATATATTTTTGAAAAAATTATTACCTTTT
** * *
2160 AAAATTAATTGTTT-AAAA-AT-----ATATTAAAATAAACTTTTAAGCACAATTAAGGAATTAA
65 AAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGAATCAA
* *
2218 ATGAATTATTATTCATTAATTTTTATTTTTAACAACAGTTAATTATATTTATTCATTTTAATAAA
130 ATGAATTATTATTCATTAATTTTAATTTTTAACAACAGTTAATAATATTTATTCATTTTAATAAA
** * * *
2283 ATTATTTTGATTTTTGCATTAAAATTACACAAGTATAATCTAATAGTAAAACTTTAAGGGTAAGT
195 ATTATTTAAATTTTTGCATTAAAATTACACAAATATAATATAATAGTAAAACTTTAAGGGTAAAT
* *
2348 ATTTTAAAATATGAATAATTTTATAAAATTTTTATTACTAGAATTTCTTTTACAAAATGATGACG
260 ATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGAATTTCTTTTACAAAATGATGACG
2413 ATGATG
325 ATGATG
*
2419 ACAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTACCTTTTA
1 ATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTACCTTTTA
2484 AAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGAATCAAA
66 AAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGAATCAAA
2549 TGAATTATTATTCATTAATTTTAAATTTTTAACAACAGTTAATAATATTTATTCATTTTTAATAA
131 TGAATTATTATTCATTAATTTT-AATTTTTAACAACAGTTAATAATATTTATTCA-TTTTAATAA
*
2614 AATTATTTAAATTTTTGCATTAAAATTACACAATACATATAATATAGTATA-TAAAAACTTTGAG
194 AATTATTTAAATTTTTGCATTAAAATTACAC-A-A-ATATAATATA--ATAGT-AAAACTTTAAG
*
2678 TGTAAATATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTA-ATATTTCTTTTACAAAA
253 GGTAAATATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGA-ATTTCTTTTACAAAA
*
2742 TGATGATGATGATG
317 TGATGACGATGATG
*
2756 ATAAATATTTTATAA-TTTAAAAATTATAAATTTCATATATTTTT-AAAAAATTATTGCCTTTTA
1 ATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTACCTTTTA
* * * *
2819 AAATTAATTATTTAAAAATATAAAAAATATTAAAAATAAATTTTTAATTAAAATTGAGGGATCAA
66 AAATTAATTGTTTAAAAATATAAAAAATATT-AAAATAAACTTTTAATTACAATTGAGGAATCAA
*
2884 ATTAATTATTATT
130 ATGAATTATTATT
2897 TAATATTTTT
Statistics
Matches: 432, Mismatches: 26, Indels: 25
0.89 0.05 0.05
Matches are distributed among these distances:
321 11 0.03
322 26 0.06
323 35 0.08
324 4 0.01
325 2 0.00
330 57 0.13
331 30 0.07
332 38 0.09
333 1 0.00
334 1 0.00
335 56 0.13
336 73 0.17
337 98 0.23
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (330 bp):
ATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTACCTTTTA
AAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGAATCAAA
TGAATTATTATTCATTAATTTTAATTTTTAACAACAGTTAATAATATTTATTCATTTTAATAAAA
TTATTTAAATTTTTGCATTAAAATTACACAAATATAATATAATAGTAAAACTTTAAGGGTAAATA
TTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGAATTTCTTTTACAAAATGATGACGA
TGATG
Found at i:2942 original size:26 final size:26
Alignment explanation
Indices: 2894--2952 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
2884 ATTAATTATT
* **
2894 ATTTAATATTTTTTCAAAATATATGAA
1 ATTT-ATAATTTTTCAAAATATAAAAA
2921 ATTTATAATTTTT-AAAATTATAAAAA
1 ATTTATAATTTTTCAAAA-TATAAAAA
2947 ATTTAT
1 ATTTAT
2953 TATTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 20 0.71
27 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTTATAATTTTTCAAAATATAAAAA
Found at i:3720 original size:42 final size:42
Alignment explanation
Indices: 3661--3777 Score: 200
Period size: 42 Copynumber: 2.8 Consensus size: 42
3651 CCCCGAATCT
3661 CCGTGTTTGTTTCACGTAATTCGTTTTCTGGAAAATGTTTTC
1 CCGTGTTTGTTTCACGTAATTCGTTTTCTGGAAAATGTTTTC
3703 CCGTGTTTGTTTCACGTAATTCGTTTTCCT-GAAAATGTTTTC
1 CCGTGTTTGTTTCACGTAATTCGTTTT-CTGGAAAATGTTTTC
* *
3745 CCGTGTTTGTTTCACGTAATTGGTTTTCCGGAA
1 CCGTGTTTGTTTCACGTAATTCGTTTTCTGGAA
3778 TGTAATTCAT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.96
43 2 0.03
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (42 bp):
CCGTGTTTGTTTCACGTAATTCGTTTTCTGGAAAATGTTTTC
Found at i:4034 original size:30 final size:27
Alignment explanation
Indices: 3963--4034 Score: 65
Period size: 30 Copynumber: 2.5 Consensus size: 27
3953 TATTATTTAT
*
3963 TTAT-TTATTAATATTTATAATATATAA
1 TTATATTA-TAATATTTATAAAATATAA
*
3990 TATATATTTTTAATATTATATAAAATAATCAA
1 T-TATA-TTATAATATT-TATAAAAT-AT-AA
4022 TTATATTATAATA
1 TTATATTATAATA
4035 ATAAGATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
27 1 0.03
28 3 0.08
29 7 0.19
30 16 0.44
31 6 0.17
32 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TTATATTATAATATTTATAAAATATAA
Found at i:4053 original size:25 final size:25
Alignment explanation
Indices: 3977--4079 Score: 72
Period size: 25 Copynumber: 4.2 Consensus size: 25
3967 TTATTAATAT
*
3977 TTATAAT-ATATAATATATATTTT-
1 TTATAATAATAAAATATATATTTTA
* * *
4000 TAATATTATATAAAATA-ATCAATTATA
1 TTATAATA-ATAAAATATAT--ATTTTA
*
4027 TTATAATAATAAGATATATATTTTA
1 TTATAATAATAAAATATATATTTTA
* * *
4052 TTTTAATAATATAATA-AT-TTTTT
1 TTATAATAATAAAATATATATTTTA
4075 TTATA
1 TTATA
4080 TTTAACAATG
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
23 13 0.21
24 4 0.07
25 25 0.41
26 11 0.18
27 8 0.13
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (25 bp):
TTATAATAATAAAATATATATTTTA
Found at i:4058 original size:22 final size:21
Alignment explanation
Indices: 4033--4077 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4023 TATATTATAA
4033 TAATAAGAT-ATATATTTTATTT
1 TAATAAGATAATA-ATTTT-TTT
*
4055 TAATAATATAATAATTTTTTT
1 TAATAAGATAATAATTTTTTT
4076 TA
1 TA
4078 TATTTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 13 0.62
23 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TAATAAGATAATAATTTTTTT
Found at i:4093 original size:26 final size:29
Alignment explanation
Indices: 4047--4112 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 29
4037 AAGATATATA
* *
4047 TTTTAT-TTTAATAATATAATAAT-TT-T
1 TTTTATATTTAACAATAGAATAATATTAT
4073 TTTTATATTTAACAAT-GAATAATATTAT
1 TTTTATATTTAACAATAGAATAATATTAT
*
4101 TTATATATTTAA
1 TTTTATATTTAA
4113 ATAATATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 12 0.35
27 10 0.29
28 12 0.35
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (29 bp):
TTTTATATTTAACAATAGAATAATATTAT
Found at i:4290 original size:26 final size:25
Alignment explanation
Indices: 4261--4346 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 25
4251 AATTATAAAA
4261 TAATATTTAATAATAAATAAATTATT
1 TAATATTTAATAATAAAT-AATTATT
4287 TAATATTTTAA-AAT-AATAA-TA-T
1 TAATA-TTTAATAATAAATAATTATT
*
4309 TAAGT-TTT-ATGATAAATAATTATT
1 TAA-TATTTAATAATAAATAATTATT
4333 TATTATATTTAATA
1 TA--ATATTTAATA
4347 TTTGTAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 19
0.70 0.03 0.28
Matches are distributed among these distances:
20 1 0.02
21 5 0.10
22 9 0.19
23 5 0.10
24 5 0.10
25 4 0.08
26 12 0.25
27 7 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TAATATTTAATAATAAATAATTATT
Found at i:7533 original size:31 final size:31
Alignment explanation
Indices: 7495--7558 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
7485 CTCTATTACC
7495 TTAGATCATGTGACTGTATGAGCATGAAACA
1 TTAGATCATGTGACTGTATGAGCATGAAACA
7526 TTAGATCATGTGACTGTATGAGCATGAAACA
1 TTAGATCATGTGACTGTATGAGCATGAAACA
7557 TT
1 TT
7559 GAACAACCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (31 bp):
TTAGATCATGTGACTGTATGAGCATGAAACA
Found at i:7981 original size:42 final size:41
Alignment explanation
Indices: 7880--8036 Score: 260
Period size: 42 Copynumber: 3.8 Consensus size: 41
7870 CACGAAATCT
* *
7880 CGTGTTTATTTCATGTAATTCGTTTTTCGGAAAATGTTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTC
*
7921 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTC
7962 CTGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTCC
1 C-GTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTT-C
*
8005 CGTGTTTGTTTCATGTAATTCGTTTTTCGGAA
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAA
8037 TGTAATTCAT
Statistics
Matches: 109, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
41 39 0.36
42 68 0.62
43 2 0.02
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (41 bp):
CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTC
Found at i:7981 original size:83 final size:84
Alignment explanation
Indices: 7881--8036 Score: 269
Period size: 83 Copynumber: 1.9 Consensus size: 84
7871 ACGAAATCTC
*
7881 GTGTTTATTTCATGTAATTCGTTTTTCGGAAAATGTTTT-CCGTGTTTGTTTCACGTAATTCGTT
1 GTGTTTATTTCACGTAATTCGTTTTTCGGAAAATGTTTTCCCGTGTTTGTTTCACGTAATTCGTT
7945 TTCCGGAAAATGTTTTCCT
66 TTCCGGAAAATGTTTTCCT
* *
7964 GTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTCCCGTGTTTGTTTCATGTAATTCGTT
1 GTGTTTATTTCACGTAATTCGTTTTTCGGAAAATGTTTTCCCGTGTTTGTTTCACGTAATTCGTT
*
8029 TTTCGGAA
66 TTCCGGAA
8037 TGTAATTCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
83 37 0.54
84 31 0.46
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.49
Consensus pattern (84 bp):
GTGTTTATTTCACGTAATTCGTTTTTCGGAAAATGTTTTCCCGTGTTTGTTTCACGTAATTCGTT
TTCCGGAAAATGTTTTCCT
Found at i:8206 original size:23 final size:23
Alignment explanation
Indices: 8167--8221 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
8157 CATTTTCATC
8167 AAAATATTATTTATTAAAATATT-T
1 AAAATA-TATTTATTAAAAT-TTAT
* *
8191 AAAATATATTTTTTAATATTTAT
1 AAAATATATTTATTAAAATTTAT
8214 AAAATATA
1 AAAATATA
8222 ATATTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 20 0.71
24 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAATATATTTATTAAAATTTAT
Found at i:8268 original size:30 final size:31
Alignment explanation
Indices: 8195--8305 Score: 90
Period size: 31 Copynumber: 3.7 Consensus size: 31
8185 ATATTTAAAA
*
8195 TATATTTTTTAATATT-TATAAAATATAATAT
1 TATA-TTTATAATATTATATAAAATATAATAT
* *
8226 TATATTTTTAATATTATATAAAATAATCA-AT
1 TATATTTATAATATTATATAAAAT-ATAATAT
* *
8257 TATA-TTATAATA--ATATAAGATATTATATT
1 TATATTTATAATATTATATAAAATATAATA-T
* *
8286 TTTATTT-TAATAATATATAA
1 TATATTTATAATATTATATAA
8306 TAATTTTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
27 3 0.04
28 9 0.13
29 9 0.13
30 20 0.29
31 24 0.35
32 3 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
TATATTTATAATATTATATAAAATATAATAT
Found at i:8306 original size:54 final size:50
Alignment explanation
Indices: 8210--8310 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 50
8200 TTTTTAATAT
8210 TTATAAAATATAATATTATATTTTTAATATTATATAAAATAATCAATTATA
1 TTATAAAATATAATATTATATTTTTAATATTATATAAAATAAT-AATTATA
*
8261 TTATAATAATATAAGATATTATATTTTT-ATTTTA-ATAATATATAATAATT
1 TTATAA-AATAT-A-ATATTATATTTTTAATATTATATAA-A-ATAATAATT
8311 TTTTTATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
51 6 0.14
52 9 0.20
53 11 0.25
54 18 0.41
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (50 bp):
TTATAAAATATAATATTATATTTTTAATATTATATAAAATAATAATTATA
Found at i:8560 original size:22 final size:23
Alignment explanation
Indices: 8523--8582 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
8513 ATTTAATAAT
* *
8523 AAATAAATTATTTTAA-TATTTTA
1 AAATAAATAATATTAAGT-TTTTA
8546 AAAT-AATAATATTAAGTTTTTA
1 AAATAAATAATATTAAGTTTTTA
**
8568 CGATAAATAATATTA
1 AAATAAATAATATTA
8583 TTTATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (23 bp):
AAATAAATAATATTAAGTTTTTA
Found at i:8721 original size:20 final size:20
Alignment explanation
Indices: 8698--8756 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
8688 TGTTTTCTAG
*
8698 AAATGTAATTTATTTTCCAA
1 AAATGTAATTCATTTTCCAA
*
8718 AAATGTAATTCATTTTTCAA
1 AAATGTAATTCATTTTCCAA
8738 AAATGTAATTCATTTTCCA
1 AAATGTAATTCATTTTCCA
8757 GAACTCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (20 bp):
AAATGTAATTCATTTTCCAA
Found at i:8781 original size:15 final size:15
Alignment explanation
Indices: 8742--8793 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
8732 TTTCAAAAAT
**
8742 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
*
8757 G-AACTCAAATTCCA
1 GTAATTCAAATTCCA
*
8771 GTAATTCAAATTTCA
1 GTAATTCAAATTCCA
8786 GTAATTCA
1 GTAATTCA
8794 TTTTCTGGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.37
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:12638 original size:20 final size:20
Alignment explanation
Indices: 12613--12667 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
12603 GGCCATCCGA
12613 CCGAGGTCATCCGAAAGCAT
1 CCGAGGTCATCCGAAAGCAT
* *
12633 CCGAGGTCATCTGAGAGCAT
1 CCGAGGTCATCCGAAAGCAT
* *
12653 CCGATGCCATCCGAA
1 CCGAGGTCATCCGAA
12668 CGAGTAGGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.31, G:0.25, T:0.16
Consensus pattern (20 bp):
CCGAGGTCATCCGAAAGCAT
Found at i:12740 original size:31 final size:33
Alignment explanation
Indices: 12702--12793 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
12692 GCGACCTACC
* *
12702 CTCGCTCGGTTG-CC-CGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCAGATGCCCTCGCATAG
*
12733 CTCGCTCGATTGCCCTCAGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCAGATGCCCTCGCATAG
* * * * *
12766 CTCGTTCGGATGGCCTCGGATGCTCTCG
1 CTCGCTCGGTTGCCCTCAGATGCCCTCG
12794 GATGCTTTCG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 11 0.22
32 2 0.04
33 37 0.74
ACGTcount: A:0.11, C:0.37, G:0.26, T:0.26
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCAGATGCCCTCGCATAG
Found at i:12788 original size:33 final size:33
Alignment explanation
Indices: 12716--12814 Score: 107
Period size: 33 Copynumber: 3.1 Consensus size: 33
12706 CTCGGTTGCC
* * *
12716 CGGATTCCCTCGCATAGCTCGCTC-GATTGCCCT
1 CGGATGCCCTCGCATAGCTCGTTCGGA-TGGCCT
*
12749 CAGATGCCCTCGCATAGCTCGTTCGGATGGCCT
1 CGGATGCCCTCGCATAGCTCGTTCGGATGGCCT
* *
12782 CGGATGCTCTCGGAT-GCT--TTCGGATGGCCT
1 CGGATGCCCTCGCATAGCTCGTTCGGATGGCCT
12812 CGG
1 CGG
12815 TCGGATAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.26
32 3 0.05
33 38 0.66
34 2 0.03
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.26
Consensus pattern (33 bp):
CGGATGCCCTCGCATAGCTCGTTCGGATGGCCT
Found at i:16629 original size:27 final size:26
Alignment explanation
Indices: 16573--16635 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
16563 TATTGGTTGC
16573 AATTTTTTAATAAAAATTAATAATTT
1 AATTTTTTAATAAAAATTAATAATTT
* *
16599 -ATTTTTTAGAATAATAATTAAT-TTTT
1 AATTTTTT--AATAAAAATTAATAATTT
*
16625 AATTTATTAAT
1 AATTTTTTAAT
16636 CAATTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 10 0.32
26 3 0.10
27 18 0.58
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
AATTTTTTAATAAAAATTAATAATTT
Found at i:17015 original size:15 final size:14
Alignment explanation
Indices: 16974--17016 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
16964 AAAAATTAAG
*
16974 TTTAATTTGATAAA
1 TTTAATTTTATAAA
*
16988 TATAATTTT-TAAA
1 TTTAATTTTATAAA
17001 TTTATATTTTATAAA
1 TTTA-ATTTTATAAA
17016 T
1 T
17017 CGTTTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 7 0.29
14 12 0.50
15 5 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TTTAATTTTATAAA
Found at i:17376 original size:7 final size:7
Alignment explanation
Indices: 17359--17390 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
17349 CAGTGTACCC
17359 AAAGAAAG
1 AAAG-AAG
17367 AAAGAAG
1 AAAGAAG
17374 AAAGAAG
1 AAAGAAG
17381 AAAGAAG
1 AAAGAAG
17388 AAA
1 AAA
17391 TTGATGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:18726 original size:25 final size:26
Alignment explanation
Indices: 18678--18745 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
18668 TTATAAAATA
18678 TATTAT-TTAT-TTATTAAAGTAGTAT
1 TATTATATTATATT-TTAAAGTAGTAT
18703 TATTATATTATATTTTAAAG-AGTAT
1 TATTATATTATATTTTAAAGTAGTAT
18728 TAATTA-A-TATATTTTAAA
1 T-ATTATATTATATTTTAAA
18746 TATATTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.28
25 13 0.32
26 14 0.35
27 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (26 bp):
TATTATATTATATTTTAAAGTAGTAT
Found at i:18738 original size:24 final size:23
Alignment explanation
Indices: 18691--18762 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 23
18681 TATTTATTTA
18691 TTAAAGTAGTATTATTATATTATATT
1 TTAAAG-AGTATTATTA-A-TATATT
18717 TTAAAGAGTATTAATTAATATATT
1 TTAAAGAGTATT-ATTAATATATT
*
18741 TTAAATA-TATTTATTAA-ATATT
1 TTAAAGAGTA-TTATTAATATATT
18763 ATTATATTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
22 5 0.12
23 7 0.16
24 14 0.33
25 7 0.16
26 10 0.23
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
TTAAAGAGTATTATTAATATATT
Found at i:18946 original size:32 final size:32
Alignment explanation
Indices: 18899--18978 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
18889 TAAAAATCTT
* * *
18899 ATATTATTATAATATAATTGAGTATATTATTCT-A
1 ATATTAATA-AATATAA-T-AGTACATTATTATAA
*
18933 ATATTAA-AAATATAATATTACATTATTATAA
1 ATATTAATAAATATAATAGTACATTATTATAA
18964 ATATTAATAAATATA
1 ATATTAATAAATATA
18979 TTTTAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 10 0.25
31 9 0.22
32 14 0.35
33 1 0.03
34 6 0.15
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (32 bp):
ATATTAATAAATATAATAGTACATTATTATAA
Found at i:18986 original size:14 final size:15
Alignment explanation
Indices: 18967--19000 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18957 ATTATAAATA
18967 TTAATAAAT-ATATT
1 TTAATAAATAATATT
*
18981 TTAATAATTAATATT
1 TTAATAAATAATATT
18996 TTAAT
1 TTAAT
19001 TAAAGTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATAAATAATATT
Found at i:23513 original size:76 final size:76
Alignment explanation
Indices: 23368--23513 Score: 166
Period size: 76 Copynumber: 1.9 Consensus size: 76
23358 TTCATAACTT
* * * * ** * * *
23368 TTCACCATCTGACATTAAAGGTTTACACCCCTTGATGTTATTAGTGCTCGAATTTAAGATCTCAG
1 TTCACCATCTGACATTAAAAGCTCACACCCCTTGATGGTATTAACGCTCGAACTTAAAATCTCAA
23433 AGAAATAATTA
66 AGAAATAATTA
* * * * *
23444 TTCACCATCTGATATTAAAAGCTCACATCCTTTGATGGTATTAACGTTCGAACTTAAAATTTCAA
1 TTCACCATCTGACATTAAAAGCTCACACCCCTTGATGGTATTAACGCTCGAACTTAAAATCTCAA
23509 AGAAA
66 AGAAA
23514 CATAATAATT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
76 56 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (76 bp):
TTCACCATCTGACATTAAAAGCTCACACCCCTTGATGGTATTAACGCTCGAACTTAAAATCTCAA
AGAAATAATTA
Found at i:67485 original size:132 final size:132
Alignment explanation
Indices: 67279--67539 Score: 513
Period size: 132 Copynumber: 2.0 Consensus size: 132
67269 ATCGAAGCCA
67279 TTCATAAAAATAATACATGGGACCTTGTGCCACTACCACAAGGAAGGAAGCCAATTGGTAACAAA
1 TTCATAAAAATAATACATGGGACCTTGTGCCACTACCACAAGGAAGGAAGCCAATTGGTAACAAA
67344 TGGGTTTTCAAAATCAAGCGAAATGGTGACGATCAAGTGGAGAGGTATCGTGCAAGACTGGTGGC
66 TGGGTTTTCAAAATCAAGCGAAATGGTGACGATCAAGTGGAGAGGTATCGTGCAAGACTGGTGGC
67409 CC
131 CC
67411 TTCATAAAAATAATACATGGGACCTTGTGCCACTACCACAAGGAAGGAAGCCAATTGGTAACAAA
1 TTCATAAAAATAATACATGGGACCTTGTGCCACTACCACAAGGAAGGAAGCCAATTGGTAACAAA
*
67476 TGGGTTTTCAAAATCAAGCGAAATGGTGACGATCAAGTGGAGAGGTATCGTGCAATACTGGTGG
66 TGGGTTTTCAAAATCAAGCGAAATGGTGACGATCAAGTGGAGAGGTATCGTGCAAGACTGGTGG
67540 TCAAAGGATA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 128 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (132 bp):
TTCATAAAAATAATACATGGGACCTTGTGCCACTACCACAAGGAAGGAAGCCAATTGGTAACAAA
TGGGTTTTCAAAATCAAGCGAAATGGTGACGATCAAGTGGAGAGGTATCGTGCAAGACTGGTGGC
CC
Found at i:72130 original size:20 final size:19
Alignment explanation
Indices: 72101--72138 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
72091 TTTTTACTCG
72101 ATCCAATTCGACCCGATAA
1 ATCCAATTCGACCCGATAA
72120 ATCCGAATTCGACCCGATA
1 ATCC-AATTCGACCCGATA
72139 TATTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (19 bp):
ATCCAATTCGACCCGATAA
Found at i:74167 original size:37 final size:37
Alignment explanation
Indices: 74095--74167 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
74085 TATATTTTTT
*
74095 ATTTTGTAAAAAAAATTATATAAATATTATGAATTTA
1 ATTTTGTAAAAAAAATTATATAAATATTATCAATTTA
* * *
74132 ATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 ATTTTGTAAAAAAAATTATATAAATATTAT-CAATTT
74168 GTAATATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 13 0.42
37 18 0.58
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
ATTTTGTAAAAAAAATTATATAAATATTATCAATTTA
Found at i:74349 original size:20 final size:20
Alignment explanation
Indices: 74313--74350 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
74303 ATCCTATTCC
**
74313 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
74333 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
74351 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:74811 original size:665 final size:666
Alignment explanation
Indices: 73762--75014 Score: 2199
Period size: 665 Copynumber: 1.9 Consensus size: 666
73752 AGGATTGTGG
* *
73762 ATGTTTGGTTGGCCGAGAATCTCATTCCCGATAATGTTTTATTATCAATAGTAGAATTTTTGGGA
1 ATGTTTGGTTGGCCGAGAATCTCATTCCCGATAATATTTTATTACCAATAGTAGAATTTTTGGGA
*
73827 TATATTACCGGGAATGTCATTACCTCCCTTCCTTTAGGTATTGTAACATTACCGGCGTTTTGGAC
66 TATATTACCGGGAATGTCATTACCTCCCTTCCCTTAGGTATTGTAACATTACCGGCGTTTTGGAC
*
73892 TAAAATGCCCTTAAATTTTTAATTTTTTTCAAAAATACCATTCTTCTGTCATTGAATAATAAAAA
131 TAAAATGCCCTTAAATTTTTAATTTTTTTCAAAAATACCATTCTTCTGTCATTAAATAATAAAAA
* *
73957 TTATACGAAGGTTAAATTATAAATTTATCCTTAAATTATTTTAGATTTATAAAAAAAGTCTATAA
196 TTATACGAAGGTTAAATTATAAATTTATCCTTAAATTATTTTAGATTTAAAAAAAAAATCTATAA
74022 TTAAAATTTTATATGAAGTTCAGGGGTTAAAATTGTTTTTTACCCTTTCATTAAACCTTTTTTTA
261 TTAAAATTTTATATGAAGTTCAGGGGTTAAAATTGTTTTTTACCCTTTCATTAAACCTTTTTTTA
* *
74087 TATTTTTTATTTTGTAAAAAAAATTATATAAATATTATGAATTTAATTTTTTAAAGAAAATATAT
326 TATTTTTAATTTTGTAAAAAAAATTATATAAATATTATGAATTTAAATTTTTAAAGAAAATATAT
74152 AAATATTTTACAATTTGTAATATTATACAAATATATAATAAGGACAATTTGGTCAAATATACATT
391 AAATATTTTACAATTTGTAATATTATACAAATATATAATAAGGACAATTTGGTCAAATATACATT
** * *
74217 CCAATAATCTTTTATTTTTTTAACCAAACACGGTAATCTTACATTCCTGCTAAACCAACCAAACA
456 CCAATAATCTTTTATTCCTTTAACCAAACACGATAATCTTACATTCCTACTAAACCAACCAAACA
*
74282 CAAAATACAACATTCCCAGTAATCCTATTCCCTGGTAATCTTTTATTCCCACTGGTAATCTTACA
521 CAAAATACAACATTCCCAGTAATCCTATTCCCTGGTAATCTTTTACTCCCACTGGTAATCTTACA
74347 TTCCGTGAACCAAACGCACCCTTAGGGGGTGTTTGGTTCAAGGATCGTGGGATTCCCATGGGATG
586 TTCCGTGAACCAAACGCACCCTTAGGGGGTGTTTGGTTCAAGGATCGTGGGATTCCCATGGGATG
74412 AGAATCCCACATTCCC
651 AGAATCCCACATTCCC
* * * * * *
74428 ATGTTTGGTTGGCCGGGAATTTCATTCCCGGTAATATTTTATTACCAATAGTATATTTTTTTGTG
1 ATGTTTGGTTGGCCGAGAATCTCATTCCCGATAATATTTTATTACCAATAGTAGA-ATTTTTGGG
74493 -TATATTACC-GGAATGTCATTACCTCCCTTCCCTTAGGTATTGTAACATTACCGGCGTTTTGGA
65 ATATATTACCGGGAATGTCATTACCTCCCTTCCCTTAGGTATTGTAACATTACCGGCGTTTTGGA
* *
74556 CTAAAATGCCCTTAAATTTTTATTTTTTTTCCAAAAATATCATTCTTCTGTCATTAAATAATAAA
130 CTAAAATGCCCTTAAATTTTTAATTTTTTT-CAAAAATACCATTCTTCTGTCATTAAATAATAAA
* * *
74621 AATTCTATGAAGGTTAAATTATAAATTTATCCTTAAATTGTTTTAGATTTACAAAAAAAAATCTA
194 AATTATACGAAGGTTAAATTATAAATTTATCCTTAAATTATTTTAGATTTA-AAAAAAAAATCTA
**
74686 TAATTAAAATTTTATATGAAGTTCAGGGGTTAAAA-T-TTTTTTACCCTTTCATTAAATTTTTTT
258 TAATTAAAATTTTATATGAAGTTCAGGGGTTAAAATTGTTTTTTACCCTTTCATTAAACCTTTTT
74749 TTATATTTTTAATTTTGTAAAAAAAATTATATAAATATTATGAATTTAAATTTTTAAAGAAAATA
323 TTATATTTTTAATTTTGTAAAAAAAATTATATAAATATTATGAATTTAAATTTTTAAAGAAAATA
*
74814 TATAAATATTTTACAGTTTGTAATATTATACAAATATATAATAAGGACAATTTGGTCAAATATAC
388 TATAAATATTTTACAATTTGTAATATTATACAAATATATAATAAGGACAATTTGGTCAAATATAC
*
74879 ATTCCAATAATCTTTTATTCCTTTAACCAAACACGATAATCTTACATTCGTACTAAACCAACCAA
453 ATTCCAATAATCTTTTATTCCTTTAACCAAACACGATAATCTTACATTCCTACTAAACCAACCAA
74944 ACACAAAATACAACATTCCCAGTAATCCTATTCCCTGGTAATCTTTTACTCCCACTGGTAATCTT
518 ACACAAAATACAACATTCCCAGTAATCCTATTCCCTGGTAATCTTTTACTCCCACTGGTAATCTT
75009 ACATTC
583 ACATTC
75015 TCACTGGTAA
Statistics
Matches: 556, Mismatches: 28, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
665 364 0.65
666 139 0.25
667 53 0.10
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (666 bp):
ATGTTTGGTTGGCCGAGAATCTCATTCCCGATAATATTTTATTACCAATAGTAGAATTTTTGGGA
TATATTACCGGGAATGTCATTACCTCCCTTCCCTTAGGTATTGTAACATTACCGGCGTTTTGGAC
TAAAATGCCCTTAAATTTTTAATTTTTTTCAAAAATACCATTCTTCTGTCATTAAATAATAAAAA
TTATACGAAGGTTAAATTATAAATTTATCCTTAAATTATTTTAGATTTAAAAAAAAAATCTATAA
TTAAAATTTTATATGAAGTTCAGGGGTTAAAATTGTTTTTTACCCTTTCATTAAACCTTTTTTTA
TATTTTTAATTTTGTAAAAAAAATTATATAAATATTATGAATTTAAATTTTTAAAGAAAATATAT
AAATATTTTACAATTTGTAATATTATACAAATATATAATAAGGACAATTTGGTCAAATATACATT
CCAATAATCTTTTATTCCTTTAACCAAACACGATAATCTTACATTCCTACTAAACCAACCAAACA
CAAAATACAACATTCCCAGTAATCCTATTCCCTGGTAATCTTTTACTCCCACTGGTAATCTTACA
TTCCGTGAACCAAACGCACCCTTAGGGGGTGTTTGGTTCAAGGATCGTGGGATTCCCATGGGATG
AGAATCCCACATTCCC
Found at i:75003 original size:20 final size:20
Alignment explanation
Indices: 74978--75031 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
74968 ATCCTATTCC
**
74978 CTGGTAATCTTTTACTCCCA
1 CTGGTAATCTTACACTCCCA
* *
74998 CTGGTAATCTTACATTCTCA
1 CTGGTAATCTTACACTCCCA
75018 CTGGTAATCTTACA
1 CTGGTAATCTTACA
75032 TTCCGTGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (20 bp):
CTGGTAATCTTACACTCCCA
Found at i:75032 original size:20 final size:20
Alignment explanation
Indices: 74996--75034 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
74986 CTTTTACTCC
74996 CACTGGTAATCTTACATTCT
1 CACTGGTAATCTTACATTCT
75016 CACTGGTAATCTTACATTC
1 CACTGGTAATCTTACATTC
75035 CGTGAACCAA
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:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (20 bp):
CACTGGTAATCTTACATTCT
Found at i:76677 original size:16 final size:14
Alignment explanation
Indices: 76643--76681 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
76633 ACACACGCAC
*
76643 AATTTAATAGAATT
1 AATTTAATAGAAAT
76657 AATTTAAGTAGTAAAT
1 AATTTAA-TAG-AAAT
76673 AATTTAATA
1 AATTTAATA
76682 TTATTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (14 bp):
AATTTAATAGAAAT
Found at i:76941 original size:16 final size:16
Alignment explanation
Indices: 76916--76952 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
76906 CCATCGCCTT
76916 CTCCCTCTCTCGCTCTCC
1 CTCCCTCTC-C-CTCTCC
76934 CTCCCTCTCCCTCTCC
1 CTCCCTCTCCCTCTCC
76950 CTC
1 CTC
76953 TCTTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 1 0.05
18 9 0.47
ACGTcount: A:0.00, C:0.65, G:0.03, T:0.32
Consensus pattern (16 bp):
CTCCCTCTCCCTCTCC
Found at i:80086 original size:21 final size:21
Alignment explanation
Indices: 80038--80078 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
80028 TTCGTGATGG
80038 CCGCAATAGCGTCCACGACGA
1 CCGCAATAGCGTCCACGACGA
*
80059 CCGCAATAGCGTCCGCGACG
1 CCGCAATAGCGTCCACGACG
80079 GTCGCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.39, G:0.27, T:0.10
Consensus pattern (21 bp):
CCGCAATAGCGTCCACGACGA
Found at i:80784 original size:29 final size:29
Alignment explanation
Indices: 80751--80806 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
80741 TTAACGGCAG
80751 AAAATACCATGTATGAAATCG-AGAATTTT
1 AAAATACCATGTATGAAA-CGAAGAATTTT
**
80780 AAAATATTATGTATGAAACGAAGAATT
1 AAAATACCATGTATGAAACGAAGAATT
80807 CAATATACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.30
Consensus pattern (29 bp):
AAAATACCATGTATGAAACGAAGAATTTT
Found at i:85840 original size:60 final size:62
Alignment explanation
Indices: 85740--85855 Score: 182
Period size: 60 Copynumber: 1.9 Consensus size: 62
85730 CAGCTGGAGA
* *
85740 TTTATAAATATTTTTTTAAAATGTGTTATTCACACATTAATTATTAATTGTATGAGCGATGG
1 TTTATAAATATTTTTTTAAAATGTGATATGCACACATTAATTATTAATTGTATGAGCGATGG
* *
85802 TTTATAAATA-TTTTTTAGAGT-TGATATGCACACATTAATTATTAATTGTATGAG
1 TTTATAAATATTTTTTTAAAATGTGATATGCACACATTAATTATTAATTGTATGAG
85856 TTGAATATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 31 0.62
61 9 0.18
62 10 0.20
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (62 bp):
TTTATAAATATTTTTTTAAAATGTGATATGCACACATTAATTATTAATTGTATGAGCGATGG
Found at i:98520 original size:23 final size:23
Alignment explanation
Indices: 98494--98541 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
98484 ATAAAGTACA
*
98494 ATAACATACTAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
** *
98517 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
98540 AT
1 AT
98542 TGACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:99052 original size:23 final size:23
Alignment explanation
Indices: 99017--99081 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
99007 ATAATTTACA
*
99017 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
99040 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
99063 ATATAAGTGCTACCTATTA
1 ATATAAGCGCTACCTATTA
99082 AATCATACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:99511 original size:23 final size:23
Alignment explanation
Indices: 99476--99548 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
99466 ATACTTTACA
* *
99476 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
99499 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
99522 ATATAAACGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
99545 ATAT
1 ATAT
99549 TTTTACCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:99563 original size:458 final size:459
Alignment explanation
Indices: 98706--99889 Score: 1678
Period size: 458 Copynumber: 2.5 Consensus size: 459
98696 TATTTCATGT
* *
98706 TTTCCACCAACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTTGATAT
1 TTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATAT
98771 TTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAA
66 TTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAA
* *
98836 TATATATGTTTATTGTTTTTAATTTAATGATAATATATACTGTAACATAAAAAATAAATCATTAG
131 TATATATGTTTATTGTTTTTAATTTAATAATAATATATAC-GTAACGTAAAAAATAAATCATTAG
** * *
98901 ATACATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
195 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
*
98966 CCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGATAGATAATTTACAATATAAGCACTACC
260 CCACAGTGAAAAAAGTATAGACACTTTTATAAAAATGATAGATAATTTACAATATAAGCACTACC
**
99031 TATTACATTATATAAACGCTACCTATTACATTATATAAGTGCTACCTATTAAATCATACTTTTTA
325 TATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTAAATCATACTTTTTA
*
99096 CCTATTATATTAAAAGTGTACATACTTTTTATAAAAAAATATCGATACTTTTTTTAAAGTTATGT
390 CCTATTATATTAAAAGTGTACATACTTTTTAT-AAAAAAGATCGATACTTTTTTTAAAGTTATGT
99161 -A-A-G
454 AATATG
99164 TTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATAT
1 TTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATAT
99229 TTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAA
66 TTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAA
*
99294 TATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAATGTAAAAAATAAATCATTAG
131 TATATATGTTTATTGTTTTTAATTTAATAATAATATATA-CGTAACGTAAAAAATAAATCATTAG
99359 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
195 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
*
99424 CCACAGTGGAAAAAAGTATAGACACTTTTATAAAAATGATAGATACTTTACAATATAAGCACTAC
260 CCACAGT-GAAAAAAGTATAGACACTTTTATAAAAATGATAGATAATTTACAATATAAGCACTAC
*
99489 CTATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATA-TTTTT
324 CTATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTAAATCATACTTTTT
* * * *
99553 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATATTTTTTTTAAAGTTATGT
389 ACCTATTATATTAAAAGTGTACATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGT
99618 AATTTATG
454 AA--TATG
*
99626 TTTCAATTTTTTCAATAGTGTTTCATGTTTTCCACTTACAATATTAATTTAATAATTTCATTTAC
1 ---------TTTC----------CA-------C-C-TACAATATTAATTTAATAATTTCATTTGC
* * *
99691 AC-AAAAA--ATTAG-TTGATTGTT-TTGATATTT-TATAAA-ATATTATTTAGTATTTAAATTT
38 ACAAAAAATTATTTGATTG-TT-TTGAT-AT-TTTATA-AAATA-AT-ATTTAGAATTTAAATTT
99749 AACAATATTAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAA
96 AACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAA
*
99812 T-ATATA-CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
161 TAATATATACGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
99875 ACTCACTCAAAAGAT
226 ACTCACTCAAAAGAT
99890 GTACATACCT
Statistics
Matches: 659, Mismatches: 25, Indels: 57
0.89 0.03 0.08
Matches are distributed among these distances:
457 29 0.04
458 293 0.44
459 112 0.17
461 1 0.00
462 1 0.00
471 4 0.01
481 2 0.00
485 70 0.11
486 3 0.00
487 12 0.02
488 38 0.06
489 15 0.02
490 79 0.12
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (459 bp):
TTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATAT
TTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAA
TATATATGTTTATTGTTTTTAATTTAATAATAATATATACGTAACGTAAAAAATAAATCATTAGA
CGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTC
CACAGTGAAAAAAGTATAGACACTTTTATAAAAATGATAGATAATTTACAATATAAGCACTACCT
ATTACATTATATAAACGCTACCTATTACATTATATAAACGCTACCTATTAAATCATACTTTTTAC
CTATTATATTAAAAGTGTACATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAA
TATG
Found at i:99917 original size:25 final size:25
Alignment explanation
Indices: 99889--99978 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 25
99879 ACTCAAAAGA
99889 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
* *
99914 TGTACATACCTAAAT-T-TAATGAT
1 TGTACATACCTAAATATGTAGTTAT
** * * *
99937 AATATATA-CTATATTTGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
99961 TGTACATACCTAAATATG
1 TGTACATACCTAAATATG
99979 CACTGCGAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
22 5 0.10
23 11 0.22
24 11 0.22
25 22 0.45
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:102705 original size:183 final size:183
Alignment explanation
Indices: 102395--104243 Score: 3359
Period size: 183 Copynumber: 10.1 Consensus size: 183
102385 TACTTAAAAT
* *
102395 TACCGACACAATATTAAAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
102460 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
102525 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
102578 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
102643 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTTCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
102708 CGACACTTTTTAACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
102761 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
102826 -TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
102890 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
102943 TACCGACATAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCACTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
103008 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
103073 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
103126 TACCGACACAATATTAAAAAGTGTCAGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
103191 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
103256 CGACAC-TTTTGACAAGGTATCGACACA-TTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
103307 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
103372 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
103437 CGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
103490 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
103555 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
* *
103620 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCTAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
103673 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGATATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
** *
103738 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATAATGGGTTCCAATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
103803 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
103856 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
103921 TTTATACCGTTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
103986 CGACACTTTTTGACAAGGTATCGACACATTTTTTTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
104039 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * * *
104104 TTTATATCGATTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAA
* *
104169 --TCGAAACTTTTTGA-AATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAG
128 TGTCGACACTTTTTGACAA-GGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
104223 TACAGACACAATATTAAAAAG
1 TACCGACACAATATTAAAAAG
104244 CGTGAAAACT
Statistics
Matches: 1615, Mismatches: 44, Indels: 13
0.97 0.03 0.01
Matches are distributed among these distances:
181 158 0.10
182 218 0.13
183 1167 0.72
184 68 0.04
186 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TACCGACACAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:103610 original size:547 final size:549
Alignment explanation
Indices: 102395--104243 Score: 3404
Period size: 547 Copynumber: 3.4 Consensus size: 549
102385 TACTTAAAAT
*
102395 TACCGACACAATATTAAAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
102460 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
102525 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
102590 ATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
196 ATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
* *
102655 ATATTACAAAATTATCTATTACATTATAATTATGGGTTTCGATGTGTAAATGTCGACACTTTTTA
261 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTG
102720 ACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
326 ACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
102785 CGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA-TTATACCGGTTATATTACAAAAT
391 CGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
102849 TATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGA
456 TATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGA
102914 CACATTTTTCTTCCAATCTGGACATAAAG
521 CACATTTTTCTTCCAATCTGGACATAAAG
* * *
102943 TACCGACATAATATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCACTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
103008 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
103073 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
103138 ATTAAAAAGTGTCAGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
196 ATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
103203 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACAC-TTTTG
261 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTG
103267 ACAAGGTATCGACACA-TTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
326 ACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
103331 CGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
391 CGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
103396 TATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGA
456 TATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGA
*
103461 CATATTTTTCTTCCAATCTGGACATAAAG
521 CACATTTTTCTTCCAATCTGGACATAAAG
103490 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
103555 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
* *
103620 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCTAATCTGGACATAAAGTACCGACACAAT
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
103685 ATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTTATACCGGTT
196 ATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
* *
103750 ATATTACAAAATTATCTATTACATTATAATAATGGGTTCCAATGTGTAAATGTCGACACTTTTTG
261 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTG
103815 ACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
326 ACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
*
103880 CGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGTTTATATTACAAAAT
391 CGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
103945 TATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGA
456 TATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGA
*
104010 CACATTTTTTTTCCAATCTGGACATAAAG
521 CACATTTTTCTTCCAATCTGGACATAAAG
104039 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * * *
104104 TTTATATCGATTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAA
* * *
104169 --TCGAAACTTTTTGA-AATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACA
128 TGTCGACACTTTTTGACAA-GGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACA
104231 CAATATTAAAAAG
192 CAATATTAAAAAG
104244 CGTGAAAACT
Statistics
Matches: 1262, Mismatches: 32, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
546 89 0.07
547 445 0.35
548 333 0.26
549 324 0.26
550 67 0.05
552 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (549 bp):
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTG
ACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
CGGTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
TATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGA
CACATTTTTCTTCCAATCTGGACATAAAG
Found at i:105473 original size:12 final size:12
Alignment explanation
Indices: 105457--105568 Score: 143
Period size: 12 Copynumber: 9.3 Consensus size: 12
105447 CTTGTTTGGA
* *
105457 TCATCATCATCA
1 TCATCTTCATCG
*
105469 TCATCGTCATCG
1 TCATCTTCATCG
*
105481 TCATCTTCATCA
1 TCATCTTCATCG
105493 TCATCTTCATCG
1 TCATCTTCATCG
*
105505 TCAGCTTCATCG
1 TCATCTTCATCG
* *
105517 TCGTCATCATCG
1 TCATCTTCATCG
105529 TCATCTTCATCG
1 TCATCTTCATCG
105541 TCATCTTCATCG
1 TCATCTTCATCG
* *
105553 TCAGCTTCATCT
1 TCATCTTCATCG
105565 TCAT
1 TCAT
105569 TGACCGCTTG
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 86 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:105568 original size:6 final size:6
Alignment explanation
Indices: 105457--105555 Score: 99
Period size: 6 Copynumber: 16.5 Consensus size: 6
105447 CTTGTTTGGA
* * * * *
105457 TCATCA TCATCA TCATCG TCATCG TCATCT TCATCA TCATCT TCATCG
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
* * * * * *
105505 TCAGCT TCATCG TCGTCA TCATCG TCATCT TCATCG TCATCT TCATCG
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
105553 TCA
1 TCA
105556 GCTTCATCTT
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 76 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.37
Consensus pattern (6 bp):
TCATCG
Found at i:107347 original size:179 final size:185
Alignment explanation
Indices: 107066--108144 Score: 1247
Period size: 200 Copynumber: 5.7 Consensus size: 185
107056 AACATTAAAC
* * *
107066 AGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
1 AGTGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* * * *
107130 AAAAAATACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTATGG-T-T
65 AAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTATGGATCG
* * *
107193 ACAGC-CTGTTTGCC-ATTT-ATTC-TGGACC-AAAAATATCGACACAAACTACAAA
130 ACA-CTATGGTTGCCTATTTCATTCATGGACCAAAAAAAATCGACACAAACTACAAA
107245 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
107310 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACAC----T-T-TATG
* *
107375 GATCGACACTTTATGGTTGCAGCTTGTTTGCCATTCATTCTGGACC-AAAAATATCGACACAAAC
125 GATCGACAC--TATGGTTGC--C-TATTT--CATTCA---TGGACCAAAAAAAATCGACACAAAC
*
107439 AACAAA
180 TACAAA
107445 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
107510 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGATACTTTATGG-TTG-
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTATGGATCGA
** * ** *
107573 CACCCTGTTTTTC-A-TTCATTC-TGGACC-AAAAATATCGACACAAACTACAAA
131 CACTATGGTTGCCTATTTCATTCATGGACCAAAAAAAATCGACACAAACTACAAA
*
107624 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCAGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
107689 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACAC----T-T-TATG
* *
107754 GATCGACACTTTATGGTTGCAACCTGTTTGCCATTCATTATGGACC-AAAAATATCGACACAAAC
125 GATCGACAC--TATGGTTG---CCTATTT--CATTC---ATGGACCAAAAAAAATCGACACAAAC
107818 TACAAA
180 TACAAA
* * *
107824 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACTGGTGTACATGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
107889 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGTGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACAC----T-T-TATG
* * * * *
107954 GATCGACACTGTATGGTTGCACCCTGTTTGACATTCATTCTGGACC-AGAAATATTGACACAAGC
125 GATCGACAC--TATGGTTG---CCTATTT--CATTCA---TGGACCAAAAAAAATCGACACAAAC
108018 TACAAA
180 TACAAA
* * *
108024 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
108089 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
66 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
108145 TTATATATGG
Statistics
Matches: 805, Mismatches: 48, Indels: 79
0.86 0.05 0.08
Matches are distributed among these distances:
179 252 0.31
180 4 0.00
183 7 0.01
184 2 0.00
185 12 0.01
186 4 0.00
187 6 0.01
188 1 0.00
189 10 0.01
190 4 0.00
191 1 0.00
192 4 0.00
193 5 0.01
194 8 0.01
195 2 0.00
196 11 0.01
197 1 0.00
200 471 0.59
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (185 bp):
AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTATGGATCGA
CACTATGGTTGCCTATTTCATTCATGGACCAAAAAAAATCGACACAAACTACAAA
Found at i:107517 original size:200 final size:200
Alignment explanation
Indices: 107174--108187 Score: 1513
Period size: 200 Copynumber: 5.2 Consensus size: 200
107164 GATGTTTATG
* * *
107174 GGATCGACACTTTATGGTTACAGCCTGTTTGCCATTTATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
107239 TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
107304 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
107369 TATAT
196 TATAT
* *
107374 GGATCGACACTTTATGGTTGCAGCTTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
107439 AACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
*
107504 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGATAC----T-
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
107564 T-TAT
196 TATAT
* * * ** *
107568 GG-TTGCACCCTGTT-T--TT-CA------TT--CATTC--T-GGACCAAAAATATCGA-C-ACA
1 GGATCG-ACACT-TTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAA-AT--ATCGACA
*
107615 -AAC-TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACC
61 CAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACC
*
107678 AGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACT
126 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACT
107743 TTTTATATAT
191 TTTTATATAT
* *
107753 GGATCGACACTTTATGGTTGCAACCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * *
107818 TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACTGGTGTACATGTACCGGTTA
66 TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
* *
107883 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGTGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
107948 TATAT
196 TATAT
* * * * *
107953 GGATCGACACTGTATGGTTGCACCCTGTTTGACATTCATTCTGGACCAGAAATATTGACACAAGC
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * *
108018 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGATTA
66 TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
*
108083 GATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
108148 TATAT
196 TATAT
*
108153 GGATCGACACTTTATTGTTGCACCCTGTTTGCCAT
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
108188 ATTGTAAATT
Statistics
Matches: 738, Mismatches: 45, Indels: 62
0.87 0.05 0.07
Matches are distributed among these distances:
179 121 0.16
180 8 0.01
181 6 0.01
182 1 0.00
183 7 0.01
184 3 0.00
185 12 0.02
186 2 0.00
187 2 0.00
188 2 0.00
191 2 0.00
192 2 0.00
193 2 0.00
194 12 0.02
195 3 0.00
196 7 0.01
197 1 0.00
198 6 0.01
199 8 0.01
200 531 0.72
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (200 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
TATAT
Found at i:107746 original size:379 final size:378
Alignment explanation
Indices: 107047--108187 Score: 1746
Period size: 379 Copynumber: 3.0 Consensus size: 378
107037 TTTAAATTAG
** * * *
107047 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCGGTA
1 TATCGACACAAACAACAAA-AGTGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTA
* * *
107110 TACTTGTACCGGTTAGATTGAAAAAATACCTATTACATTATACTTATGGGTTTCGATGTTTATGG
64 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGG
* * * *
107175 GATCGACACTTTATGGTTACAGCCTGTTTGCCATTTATTCTGGACCAAAAATATCGACACAAACT
129 GATCGACACTTTATGGTTGCACCCTGTTTGACATTCATTCTGGACCAAAAATATCGACACAAACT
107240 ACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
194 ACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACC-GTTAG
107305 ATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTAT
258 ATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTAT
* * *
107370 ATATGGATCGACACTTTATGGTTGCAGCTTGTTTGCCATTCATTCTGGACCAAAAA
323 ATATGGATCGACACTTTATGGTTGCAACCTGTTTGCCATTCATTATGGACCAAAAA
107426 TATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
107491 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
* **
107556 TCGATACTTTATGGTTGCACCCTGTTTTTCATTCATTCTGGACCAAAAATATCGACACAAACTAC
131 TCGACACTTTATGGTTGCACCCTGTTTGACATTCATTCTGGACCAAAAATATCGACACAAACTAC
107621 AAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCAGTTAGAT
196 AAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACC-GTTAGAT
107686 TGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATAT
260 TGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATAT
107751 ATGGATCGACACTTTATGGTTGCAACCTGTTTGCCATTCATTATGGACCAAAAA
325 ATGGATCGACACTTTATGGTTGCAACCTGTTTGCCATTCATTATGGACCAAAAA
* * *
107805 TATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACTGGTGTA
1 TATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
* *
107870 CATGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGTGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATG--T-T-T-A
*
107935 TCGACACTTTTTATATATGGATCGACACTGTATGGTTGCACCCTGTTTGACATTCATTCTGGACC
126 T-G---------------GGATCGACACTTTATGGTTGCACCCTGTTTGACATTCATTCTGGACC
* * * * *
108000 AGAAATATTGACACAAGCTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTG
175 AAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCG
*
108065 GTATACTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTA
240 GTATACTTGTACCG-TTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTA
* *
108130 TGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCAT
304 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAACCTGTTTGCCAT
108188 ATTGTAAATT
Statistics
Matches: 703, Mismatches: 35, Indels: 27
0.92 0.05 0.04
Matches are distributed among these distances:
379 463 0.66
380 12 0.02
381 1 0.00
382 1 0.00
383 1 0.00
384 2 0.00
385 1 0.00
399 1 0.00
400 221 0.31
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (378 bp):
TATCGACACAAACAACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
TCGACACTTTATGGTTGCACCCTGTTTGACATTCATTCTGGACCAAAAATATCGACACAAACTAC
AAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGTTAGATT
GAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATA
TGGATCGACACTTTATGGTTGCAACCTGTTTGCCATTCATTATGGACCAAAAA
Found at i:108328 original size:19 final size:19
Alignment explanation
Indices: 108300--108348 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
108290 TTATATTCAC
108300 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
108319 ATATAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
108338 ATACAAAATTA
1 ATACAAAATTA
108349 ACCCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:110151 original size:32 final size:33
Alignment explanation
Indices: 110119--110179 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
110109 TTAATATCAC
110119 CCCTT-AACACC-CAACTTCTTTCACCACTTCA
1 CCCTTCAACACCTCAACTTCTTTCACCACTTCA
*
110150 CCCTTCAACACCTCTACTTCTTTCACCACT
1 CCCTTCAACACCTCAACTTCTTTCACCACT
110180 CCATCTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 5 0.19
32 6 0.22
33 16 0.59
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (33 bp):
CCCTTCAACACCTCAACTTCTTTCACCACTTCA
Found at i:110264 original size:21 final size:21
Alignment explanation
Indices: 110215--110275 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
110205 CTTATGCCTC
* * *
110215 TCAAGTGTATCTTCGACTCTC
1 TCAAGTTTCTCTTCGACTCTA
110236 TCAAGTTTCTCTTCGACTCTA
1 TCAAGTTTCTCTTCGACTCTA
*
110257 TCATGTTTCTCTT-GACTCT
1 TCAAGTTTCTCTTCGACTCT
110276 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.17
21 30 0.83
ACGTcount: A:0.16, C:0.28, G:0.11, T:0.44
Consensus pattern (21 bp):
TCAAGTTTCTCTTCGACTCTA
Found at i:112605 original size:17 final size:19
Alignment explanation
Indices: 112583--112622 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
112573 ATATATCCGG
112583 TATCA-TTT-TACCGGTTT
1 TATCATTTTATACCGGTTT
112600 TATCATTTTGATACCGGTTT
1 TATCATTTT-ATACCGGTTT
112620 TAT
1 TAT
112623 AATATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 3 0.15
20 12 0.60
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (19 bp):
TATCATTTTATACCGGTTT
Found at i:112810 original size:19 final size:18
Alignment explanation
Indices: 112767--112811 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
112757 TCCGATAACG
112767 TTTTACCGCTTTTATCAT
1 TTTTACCGCTTTTATCAT
*
112785 TTGTTACCGGTTTTATCAT
1 TT-TTACCGCTTTTATCAT
112804 ATTTTACC
1 -TTTTACC
112812 TGGTATATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 20 0.83
20 2 0.08
ACGTcount: A:0.18, C:0.20, G:0.09, T:0.53
Consensus pattern (18 bp):
TTTTACCGCTTTTATCAT
Found at i:112873 original size:177 final size:178
Alignment explanation
Indices: 112556--113020 Score: 634
Period size: 177 Copynumber: 2.6 Consensus size: 178
112546 CGTACTTACG
* *
112556 AAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTTT
1 AAGTATCGACACTTTCAATATATCCGGTAACGTTTTACC-GTTTTATCA-TTTGATACCGGTTTT
* * * * * *
112621 ATAATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTT-AAAGTATCGACACATTATAG
64 ATCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAAAAGTATCGACACATTATAG
*
112685 GCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTAT-TT
129 GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
112734 AAAGTATCGACACTTTCAATATATCCGATAACGTTTTACCGCTTTTATCATTTGTTACCGGTTTT
1 -AAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCG-TTTTATCATTTGATACCGGTTTT
* *
112799 ATCATA-TTTTACCTGGTATATCGTTTTGGATCGA-ACATTTTTAAAAGTATCGACACTTTATAG
64 ATCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAAAAGTATCGACACATTATAG
** *
112862 GATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
129 GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * * *
112912 AAGTACCGACCCTTT-AATGTATCCGGTAGCGCTTTACCGGTTTATCATTTCAATACCGGTTTTG
1 AAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGTTTTATCATTT-GATACCGGTTTTA
112976 TCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAA
65 TCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAA
113021 TTTGGATCGA
Statistics
Matches: 255, Mismatches: 25, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
175 10 0.04
176 42 0.16
177 127 0.50
178 32 0.13
179 44 0.17
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (178 bp):
AAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGTTTTATCATTTGATACCGGTTTTAT
CATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAAAAGTATCGACACATTATAGGA
GCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:116578 original size:42 final size:42
Alignment explanation
Indices: 116515--116678 Score: 176
Period size: 42 Copynumber: 4.0 Consensus size: 42
116505 CCCCACTTTT
* * *
116515 TCATCGAGTTGATTCTTCACTTCAACACCGAGATCCATCACC
1 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
*
116557 TCATCGAGTCGATTCTCCACTTCGACACCGAGATTCATCACC
1 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
* * * *
116599 TGATCGAGCCGATTC-CACACCTCGACACCGAGAGCCATCACC
1 TCATCGAGTCGATTCTC-CACTTCGACACCGAGATCCATCACC
* * *
116641 TC-T--AGCCGACTCTACACATT-GACACCGAGATCCATCAC
1 TCATCGAGTCGATTCTCCAC-TTCGACACCGAGATCCATCAC
116679 ATATTCCATC
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
39 28 0.27
40 1 0.01
41 2 0.02
42 74 0.70
ACGTcount: A:0.26, C:0.37, G:0.15, T:0.23
Consensus pattern (42 bp):
TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
Found at i:116806 original size:21 final size:21
Alignment explanation
Indices: 116780--116970 Score: 126
Period size: 21 Copynumber: 9.1 Consensus size: 21
116770 ACCTCCACGG
*
116780 GATGAGTTAGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
116801 GATGAGGTCA-GTGCTTTACGT
1 GATGAGGT-AGGTGCTTTACGT
* *
116822 GATGAGATCGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
*** * **
116843 GAT-AAAAATGGTGCATGGCGT
1 GATGAGGTA-GGTGCTTTACGT
116864 GATGAGGTAGG-GTCTTTACGT
1 GATGAGGTAGGTG-CTTTACGT
** *
116885 -AGTGAGGTAACTGTTTTACGT
1 GA-TGAGGTAGGTGCTTTACGT
**
116906 GATGA-CAATGGTGCTTTACGT
1 GATGAGGTA-GGTGCTTTACGT
*
116927 -AGTGAGGTAGCTGCTTTACGT
1 GA-TGAGGTAGGTGCTTTACGT
*
116948 GATGAGGTGGGTG-TTCTACGT
1 GATGAGGTAGGTGCTT-TACGT
116969 GA
1 GA
116971 GATTGTTTCA
Statistics
Matches: 129, Mismatches: 28, Indels: 26
0.70 0.15 0.14
Matches are distributed among these distances:
20 8 0.06
21 114 0.88
22 7 0.05
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.33
Consensus pattern (21 bp):
GATGAGGTAGGTGCTTTACGT
Found at i:116968 original size:63 final size:61
Alignment explanation
Indices: 116789--116970 Score: 179
Period size: 63 Copynumber: 2.9 Consensus size: 61
116779 GGATGAGTTA
* *
116789 GGTGCTTTACGTGATGAGGTCAGTGCTTTACGTGATGAGATCGGTGCTTTACGTGATAAAAAT
1 GGTGCTTTACGTGATGAGGT-AGTGCTTTACGTGATGAGGTAGGTG-TTTACGTGATAAAAAT
* ** * ** * *
116852 GGTGCATGGCGTGATGAGGTAGGGTCTTTACGT-AGTGAGGTAACTGTTTTACGTGATGACAAT
1 GGTGCTTTACGTGATGAGGTAGTG-CTTTACGTGA-TGAGGTAGGTG-TTTACGTGATAAAAAT
*
116915 GGTGCTTTACGT-AGTGAGGTAGCTGCTTTACGTGATGAGGTGGGTGTTCTACGTGA
1 GGTGCTTTACGTGA-TGAGGTAG-TGCTTTACGTGATGAGGTAGGTGTT-TACGTGA
116971 GATTGTTTCA
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
62 7 0.07
63 86 0.91
64 2 0.02
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.33
Consensus pattern (61 bp):
GGTGCTTTACGTGATGAGGTAGTGCTTTACGTGATGAGGTAGGTGTTTACGTGATAAAAAT
Found at i:117315 original size:21 final size:21
Alignment explanation
Indices: 117270--117316 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
117260 ACCTACCGTT
*
117270 GTTCAGGATCCATCTCCTATT
1 GTTCAGGATCCATCTCCTATC
*
117291 GTTCAGGATTCATCT-CTCATC
1 GTTCAGGATCCATCTCCT-ATC
117312 GTTCA
1 GTTCA
117317 ATAGGCCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (21 bp):
GTTCAGGATCCATCTCCTATC
Found at i:117332 original size:21 final size:21
Alignment explanation
Indices: 117308--117358 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
117298 ATTCATCTCT
*
117308 CATCGTTCAATAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
117329 CATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
117350 CATCGTTCA
1 CATCGTTCA
117359 GGATTCACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.41, G:0.16, T:0.24
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:119251 original size:20 final size:20
Alignment explanation
Indices: 119200--119325 Score: 137
Period size: 20 Copynumber: 6.3 Consensus size: 20
119190 CTACCTTTAA
119200 GAAAATCAAATTCGCAACTC
1 GAAAATCAAATTCGCAACTC
* * *
119220 GATATTCCAATTCGCAACTC
1 GAAAATCAAATTCGCAACTC
* *
119240 GAAAATCGAATTCACAACTC
1 GAAAATCAAATTCGCAACTC
* * *
119260 AAAAATCGAATTCGCAACAC
1 GAAAATCAAATTCGCAACTC
* *
119280 GAAAATCAATTTCGCAATTC
1 GAAAATCAAATTCGCAACTC
*
119300 AAAAATCAAATTCGCAA-TGC
1 GAAAATCAAATTCGCAACT-C
119320 GAAAAT
1 GAAAAT
119326 GAAAATCGAA
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
19 1 0.01
20 86 0.99
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.22
Consensus pattern (20 bp):
GAAAATCAAATTCGCAACTC
Found at i:119366 original size:20 final size:20
Alignment explanation
Indices: 119341--119418 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
119331 TCGAAATCGA
119341 TTTCGAGTTGCGAATTTCAT
1 TTTCGAGTTGCGAATTTCAT
*
119361 TTTCGAGTTGCCAATTAT-AT
1 TTTCGAGTTGCGAATT-TCAT
* * * *
119381 TTTCAAGTTGCGGATTTTAA
1 TTTCGAGTTGCGAATTTCAT
* *
119401 TATCGAGTTGCGATTTTC
1 TTTCGAGTTGCGAATTTC
119419 GTGTTGCAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (20 bp):
TTTCGAGTTGCGAATTTCAT
Found at i:120364 original size:40 final size:41
Alignment explanation
Indices: 120309--120416 Score: 107
Period size: 40 Copynumber: 2.7 Consensus size: 41
120299 TAAAATTCGC
**
120309 GTTGCGAAATTGAAACGCGCT-TTGCGAA-TTAGAAAATC-TT
1 GTTGCGAAAAAGAAACGCG-TGTTGCGAATTTA-AAAATCGTT
* **
120349 GTTGCGAAAAGGAAACTTGTGTTGCGAATTTAAAAATCGTT
1 GTTGCGAAAAAGAAACGCGTGTTGCGAATTTAAAAATCGTT
**
120390 -TTGCGAAAAAGAAATTCGTGTTGCGAA
1 GTTGCGAAAAAGAAACGCGTGTTGCGAA
120417 ATTGTTAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 52 0.90
41 5 0.09
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (41 bp):
GTTGCGAAAAAGAAACGCGTGTTGCGAATTTAAAAATCGTT
Found at i:120453 original size:21 final size:21
Alignment explanation
Indices: 120365--120463 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
120355 AAAAGGAAAC
*
120365 TTGTGTTGCGAATTTAAAA-A
1 TTGTGTTGCGAATTTAAAATT
* * * *
120385 TCGTTTTGCGAA--AAAGAAAT
1 TTGTGTTGCGAATTTAA-AATT
* *
120405 TCGTGTTGCGAAATTGTTAAATT
1 TTGTGTTGCG-AATT-TAAAATT
*
120428 CTGTGTTGCGAATTTAAAATT
1 TTGTGTTGCGAATTTAAAATT
120449 TTGTGTTGCGAATTT
1 TTGTGTTGCGAATTT
120464 GGAAACTGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 19 0.31
21 22 0.36
22 4 0.07
23 11 0.18
24 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (21 bp):
TTGTGTTGCGAATTTAAAATT
Found at i:120475 original size:20 final size:21
Alignment explanation
Indices: 120330--120502 Score: 85
Period size: 20 Copynumber: 8.4 Consensus size: 21
120320 GAAACGCGCT
* *
120330 TTGCGAATTAGAAAATCT-TG
1 TTGCGAATTTGGAAATCTGTG
**
120350 TTGCGAA-AAGGAAA-CTTGTG
1 TTGCGAATTTGGAAATC-TGTG
** *
120370 TTGCGAATTTAAAAATC-GTT
1 TTGCGAATTTGGAAATCTGTG
***
120390 TTGCGAA-AAAGAAAT-TCGTG
1 TTGCGAATTTGGAAATCT-GTG
* *
120410 TTGCGAAATTGTTAAATTCTGTG
1 TTGCGAATTTG-GAAA-TCTGTG
* *
120433 TTGCGAATTT-AAAATTTTGTG
1 TTGCGAATTTGGAAA-TCTGTG
120454 TTGCGAATTTGGAAA-CTGTG
1 TTGCGAATTTGGAAATCTGTG
* **
120474 TTGCGAAATTGGAGTTC-GTG
1 TTGCGAATTTGGAAATCTGTG
120494 TTGCGAATT
1 TTGCGAATT
120503 CGTCGGTTAT
Statistics
Matches: 117, Mismatches: 24, Indels: 24
0.71 0.15 0.15
Matches are distributed among these distances:
18 1 0.01
19 11 0.09
20 61 0.52
21 23 0.20
22 7 0.06
23 13 0.11
24 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (21 bp):
TTGCGAATTTGGAAATCTGTG
Found at i:131287 original size:36 final size:36
Alignment explanation
Indices: 131246--131319 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
131236 TCATTAAACC
* *
131246 ATTTTAT-ATTTTCAATTTTCTAAA-AAAATTATATAA
1 ATTTTATGAATTTAAATTTT-TAAAGAAAA-TATATAA
131282 ATTTTATGAATTTAAATTTTTAAAGAAAATATATAA
1 ATTTTATGAATTTAAATTTTTAAAGAAAATATATAA
131318 AT
1 AT
131320 ATTTTCCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 20 0.59
37 14 0.41
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (36 bp):
ATTTTATGAATTTAAATTTTTAAAGAAAATATATAA
Found at i:132532 original size:20 final size:20
Alignment explanation
Indices: 132509--132546 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
132499 CAACGCGAAC
*
132509 TCCAATTTCGCAACACAGTT
1 TCCAAATTCGCAACACAGTT
132529 TCCAAATTCGCAACACAG
1 TCCAAATTCGCAACACAG
132547 AAGTCAAATT
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:0.34, C:0.32, G:0.11, T:0.24
Consensus pattern (20 bp):
TCCAAATTCGCAACACAGTT
Found at i:132579 original size:19 final size:20
Alignment explanation
Indices: 132555--132597 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
132545 AGAAGTCAAA
*
132555 TTCGCAAAGCGTA-TTTATT
1 TTCGCAAAGCGAATTTTATT
*
132574 TTCGCAACGCGAATTTTATT
1 TTCGCAAAGCGAATTTTATT
132594 TTCG
1 TTCG
132598 TATTTGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (20 bp):
TTCGCAAAGCGAATTTTATT
Found at i:132745 original size:22 final size:22
Alignment explanation
Indices: 132720--132766 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
132710 GGCGACATAT
132720 GTCCCCATCTCCGACGAAATCC
1 GTCCCCATCTCCGACGAAATCC
* *
132742 GTCCCCATCTTCGGCGAAATCC
1 GTCCCCATCTCCGACGAAATCC
132764 GTC
1 GTC
132767 TATCTCCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.43, G:0.17, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCC
Found at i:133176 original size:19 final size:20
Alignment explanation
Indices: 133152--133190 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
133142 ATGAAAATCG
133152 CATTGCGATTTT-AGTTTCA
1 CATTGCGATTTTAAGTTTCA
133171 CATTGCGATTTTAAGTTTCA
1 CATTGCGATTTTAAGTTTCA
133191 GAAACTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
CATTGCGATTTTAAGTTTCA
Found at i:134538 original size:18 final size:18
Alignment explanation
Indices: 134512--134557 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
134502 CCCCACTTCG
* * *
134512 AGAGTCATCACGTCACCT
1 AGAGCCATCACCTCACCC
134530 AGAGCCATCACCTCACCC
1 AGAGCCATCACCTCACCC
*
134548 AAAGCCATCA
1 AGAGCCATCA
134558 TCTGATCGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.39, G:0.13, T:0.15
Consensus pattern (18 bp):
AGAGCCATCACCTCACCC
Found at i:134760 original size:21 final size:21
Alignment explanation
Indices: 134720--134760 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
134710 AGAGGAGTTA
*
134720 CGTGATGAGGTCAGTGCTTTG
1 CGTGATGAGGTCAGTACTTTG
*
134741 CGTGATGAGGTCGGTACTTT
1 CGTGATGAGGTCAGTACTTT
134761 ACGTCACGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.37, T:0.34
Consensus pattern (21 bp):
CGTGATGAGGTCAGTACTTTG
Found at i:134824 original size:21 final size:22
Alignment explanation
Indices: 134800--134858 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
134790 AGGTACGGTC
134800 TTTACGTGGTGAGGTA-GATGT
1 TTTACGTGGTGAGGTATGATGT
* * ** *
134821 TTTACGCGATGA-CAATGGTGT
1 TTTACGTGGTGAGGTATGATGT
134842 TTTACGTGGTGAGGTAT
1 TTTACGTGGTGAGGTAT
134859 CTACTTTACG
Statistics
Matches: 27, Mismatches: 9, Indels: 3
0.69 0.23 0.08
Matches are distributed among these distances:
20 1 0.04
21 24 0.89
22 2 0.07
ACGTcount: A:0.20, C:0.08, G:0.34, T:0.37
Consensus pattern (22 bp):
TTTACGTGGTGAGGTATGATGT
Found at i:135199 original size:21 final size:20
Alignment explanation
Indices: 135175--135271 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
135165 TTCACCTGTC
135175 ATCGTTCAAGAGGCCACTCAT
1 ATCGTTCAAGAGGCCACTC-T
* *
135196 ATCGTTCAAGATGCCTCTCT
1 ATCGTTCAAGAGGCCACTCT
* * *
135216 CATTGTTCAAGAGGCCCCTCCC
1 -ATCGTTCAAGAGGCCACT-CT
* *
135238 ACCGTTCAAGAGGCC-CATGT
1 ATCGTTCAAGAGGCCAC-TCT
135258 CATCGTTCAAGAGG
1 -ATCGTTCAAGAGG
135272 TCCCACTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.03
21 58 0.95
22 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (20 bp):
ATCGTTCAAGAGGCCACTCT
Found at i:135225 original size:42 final size:42
Alignment explanation
Indices: 135173--135282 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
135163 GATTCACCTG
* * *
135173 TCATCGTTCAAGAGGCCACTCATATCGTTCAAGATGCCTC-TC
1 TCATCGTTCAAGAGGCCACTCACACCGTTCAAGAGGCC-CATC
* * * *
135215 TCATTGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCATG
1 TCATCGTTCAAGAGGCCACTCACACCGTTCAAGAGGCCCATC
135257 TCATCGTTCAAGAGGTCCCACTCACA
1 TCATCGTTCAAGAGG--CCACTCACA
135283 TGGCATACTA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 47 0.85
44 7 0.13
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.25
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCACTCACACCGTTCAAGAGGCCCATC
Found at i:140212 original size:16 final size:15
Alignment explanation
Indices: 140190--140228 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
140180 TAAATCATTG
140190 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
140206 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
140221 AAAAATTA
1 AAAAATTA
140229 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:140467 original size:20 final size:20
Alignment explanation
Indices: 140417--140520 Score: 59
Period size: 20 Copynumber: 5.2 Consensus size: 20
140407 GCGAATTCGA
**
140417 AAATCGAGTTGCGAAAATA-
1 AAATCGAGTTGCGAATTTAG
* *
140436 AAATTTGCGTTGCGAATTTAG
1 AAA-TCGAGTTGCGAATTTAG
*
140457 AAATCGAGTTGCGGATTT-G
1 AAATCGAGTTGCGAATTTAG
* * *
140476 AAATTCAGTGTTGTGAATTTGG
1 AAA-TC-GAGTTGCGAATTTAG
* * * *
140498 AAATTGCGTTACGAATTTGG
1 AAATCGAGTTGCGAATTTAG
140518 AAA
1 AAA
140521 CTATGTTGCG
Statistics
Matches: 66, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
19 7 0.11
20 41 0.62
21 14 0.21
22 4 0.06
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (20 bp):
AAATCGAGTTGCGAATTTAG
Found at i:140532 original size:20 final size:20
Alignment explanation
Indices: 140444--140538 Score: 59
Period size: 20 Copynumber: 4.7 Consensus size: 20
140434 TAAAATTTGC
* *
140444 GTTGCGAATTTAGAAATCGA-
1 GTTGCGAATTTGGAAA-CTAT
* *
140464 GTTGCGGATTT-GAAATTCAGT
1 GTTGCGAATTTGGAAACT-A-T
* * **
140485 GTTGTGAATTTGGAAATTGC
1 GTTGCGAATTTGGAAACTAT
*
140505 GTTACGAATTTGGAAACTAT
1 GTTGCGAATTTGGAAACTAT
*
140525 GTTGCGAAATTGGA
1 GTTGCGAATTTGGA
140539 GTTCGCGTTG
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
19 5 0.09
20 37 0.65
21 9 0.16
22 6 0.11
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (20 bp):
GTTGCGAATTTGGAAACTAT
Found at i:142221 original size:97 final size:96
Alignment explanation
Indices: 142045--142231 Score: 227
Period size: 97 Copynumber: 1.9 Consensus size: 96
142035 ATATTTATTT
* * *
142045 ATTTAAAAATATCAGAAAAGAACTTCTAGGTGCCTTAAGACAGCTCTTTTCTTTGATATTGATAA
1 ATTTAAAAATATCAGAAAAGAACATCCAGGTGCATTAAGACAGCTCTTTTCTTTGATATTGATAA
* *
142110 ATATTAATTTAAATAATATTGTTTAATTTTTA
66 ATATAAATTTAAATAAT-TTATTTAATTTTTA
* * * * *
142142 ATTTTAAAATATCAGAATAGAACATCCAGTTGTATTAAGACTG-TCCTTTTCTTTGATATTGA-A
1 ATTTAAAAATATCAGAAAAGAACATCCAGGTGCATTAAGACAGCT-CTTTTCTTTGATATTGATA
142205 AA-ATAAATATTAAAATAATTTATTTAA
65 AATATAAAT-TT-AAATAATTTATTTAA
142232 AATAAATATT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
95 5 0.06
96 13 0.17
97 59 0.77
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (96 bp):
ATTTAAAAATATCAGAAAAGAACATCCAGGTGCATTAAGACAGCTCTTTTCTTTGATATTGATAA
ATATAAATTTAAATAATTTATTTAATTTTTA
Found at i:142241 original size:13 final size:13
Alignment explanation
Indices: 142204--142243 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
142194 TTGATATTGA
142204 AAAATAAATA-TT
1 AAAATAAATATTT
*
142216 AAAATAATTTATTT
1 AAAATAA-ATATTT
142230 AAAATAAATATTT
1 AAAATAAATATTT
142243 A
1 A
142244 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:143698 original size:3 final size:3
Alignment explanation
Indices: 143690--143779 Score: 135
Period size: 3 Copynumber: 30.0 Consensus size: 3
143680 TATATATTTG
* *
143690 ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
143738 ATA ATA ATA ATA ATA ATA ATT AGA ATA ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
143780 TTTATAATGG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:144443 original size:114 final size:114
Alignment explanation
Indices: 144103--144655 Score: 833
Period size: 114 Copynumber: 4.8 Consensus size: 114
144093 GATAGAATTA
* *
144103 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * * * * * *
144168 GAACTCTAC-CTGGCAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGG
63 GAAC-CTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
*
144219 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * * *
144284 GAACTCTAC-CTGGCAATGTTAATCCATCAATTTGATGAATTCAGGTAAAAGC
63 GAAC-CTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
*
144336 TTGAACAAATTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
144401 CCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
144450 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
144515 CCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
144564 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
144629 CCTTTTCTGGAAAAGCTAATCTATCAA
66 CCTTCTCTGGAAAAGATAATCCATCAA
144656 ATGATAGATT
Statistics
Matches: 418, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
113 3 0.01
114 261 0.62
116 93 0.22
117 61 0.15
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (114 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
Found at i:145666 original size:105 final size:105
Alignment explanation
Indices: 145393--145649 Score: 469
Period size: 105 Copynumber: 2.4 Consensus size: 105
145383 GTAGTTCCTA
145393 CCAAACCAGATCAGATAACTTAAAGAACACTTCAAAAAGATGCTATTGAGTCTCCTTATTTCTAC
1 CCAAACCAGATCAGATAACTTAAAGAACACTTCAAAAAGATGCTATTGAGTCTCCTTATTTCTAC
145458 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTG
66 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTG
145498 CCAAACCAGATCAGATAACTTAAAGAACACTTCAAAAAGATGCTATTGAGTCTCCTTATTTCTAC
1 CCAAACCAGATCAGATAACTTAAAGAACACTTCAAAAAGATGCTATTGAGTCTCCTTATTTCTAC
*
145563 TATGAGCAAATTCATCTTCCAAATTCAATGGTTGGTTCTG
66 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTG
* * * *
145603 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAATATGCTATT
1 CCAAACCAGATCAGATAACTTAAAGAACACTTCAAAAAGATGCTATT
145650 AGCAAATTCA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 147 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (105 bp):
CCAAACCAGATCAGATAACTTAAAGAACACTTCAAAAAGATGCTATTGAGTCTCCTTATTTCTAC
TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTG
Found at i:145989 original size:83 final size:83
Alignment explanation
Indices: 145562--145983 Score: 702
Period size: 83 Copynumber: 5.1 Consensus size: 83
145552 CTTATTTCTA
*
145562 CTATGAGCAAATTCATCTTCCAAATTCAATGGTTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
145627 GAACACTTCCAGAATATG
66 GAACACTTCCAGAAGATG
* * *
145645 CTATTAGCAAATTCATCTTCTAAATTCAATGATTGATTCTGTCC-AACCAGATCAGATAACTCAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAA
145709 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
* * *
145728 CTATTAGCAAATTCATCTTCCAACTTCAATGCTTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
145793 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * *
145811 CTATGAGCACATTCATCTTCAAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
145876 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
145894 CTATGAGCACATTCATCTTCCCAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
145959 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
145977 TTATGAG
1 CTATGAG
145984 TACATTGCAC
Statistics
Matches: 318, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
82 2 0.01
83 314 0.99
84 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:156135 original size:26 final size:26
Alignment explanation
Indices: 156106--156155 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
156096 GCTCGCCAAC
156106 ATGTCATTGCTTTGCAGATTTCGACA
1 ATGTCATTGCTTTGCAGATTTCGACA
156132 ATGTCATTGCTTTGCAGATTTCGA
1 ATGTCATTGCTTTGCAGATTTCGA
156156 AAGGCATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (26 bp):
ATGTCATTGCTTTGCAGATTTCGACA
Found at i:157494 original size:16 final size:16
Alignment explanation
Indices: 157475--157513 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
157465 AAATTAATAT
* *
157475 ATATATAAATAAAAAA
1 ATATAAAAAAAAAAAA
157491 ATATAAAAAAAAAAAA
1 ATATAAAAAAAAAAAA
157507 AT-TAAAA
1 ATATAAAA
157514 TTAAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
ATATAAAAAAAAAAAA
Found at i:159087 original size:15 final size:15
Alignment explanation
Indices: 159035--159078 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
159025 TTTTTTCGTA
*
159035 TTTTTTGTCTCTCTG
1 TTTTTTCTCTCTCTG
*
159050 TCTCTGTTCTCTCTCTG
1 T-T-TTTTCTCTCTCTG
159067 TTTTTTCTCTCT
1 TTTTTTCTCTCT
159079 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.00, C:0.27, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTTTCTCTCTCTG
Found at i:159495 original size:14 final size:14
Alignment explanation
Indices: 159476--159570 Score: 89
Period size: 14 Copynumber: 7.1 Consensus size: 14
159466 TATATGTATT
*
159476 TAATATATATTTAA
1 TAATATATATATAA
159490 TAATATA-ATAATAA
1 TAATATATAT-ATAA
159504 TAA-ATA-ATAATAA
1 TAATATATAT-ATAA
159517 TAATATATATATAA
1 TAATATATATATAA
159531 TAATATA-ATAATAA
1 TAATATATAT-ATAA
159545 TAA-A-ATA-ATAA
1 TAATATATATATAA
*
159556 TAATA-ATTTATAA
1 TAATATATATATAA
159569 TA
1 TA
159571 TGGGTAAAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
11 7 0.10
12 4 0.06
13 25 0.35
14 34 0.47
15 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATATATATATAA
Found at i:159500 original size:3 final size:3
Alignment explanation
Indices: 159487--159562 Score: 104
Period size: 3 Copynumber: 25.3 Consensus size: 3
159477 AATATATATT
159487 TAA TAA T-A TAA TAA TAA TAAA TAA TAA TAA TAA TATA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TA-A TAA TAA
159534 T-A TAA TAA TAA TAA -AA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
159563 TTATAATATG
Statistics
Matches: 68, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.09
3 52 0.76
4 10 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:159637 original size:25 final size:25
Alignment explanation
Indices: 159609--159690 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 25
159599 CATTGTGCAC
159609 CAAAATCTCATTATCTTGTCTCAAT
1 CAAAATCTCATTATCTTGTCTCAAT
** * *
159634 C-AAATCTTCAATTGGCATTGTGCACTAT
1 CAAAATC-TC-ATTATC-TTGT-CTCAAT
*
159662 ACAAAATATCATTAT-TTGTCTCAAT
1 -CAAAATCTCATTATCTTGTCTCAAT
159687 CAAA
1 CAAA
159691 GACAAACGTT
Statistics
Matches: 42, Mismatches: 9, Indels: 13
0.66 0.14 0.20
Matches are distributed among these distances:
24 9 0.21
25 7 0.17
26 8 0.19
27 4 0.10
28 7 0.17
29 3 0.07
30 4 0.10
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (25 bp):
CAAAATCTCATTATCTTGTCTCAAT
Found at i:159841 original size:3 final size:3
Alignment explanation
Indices: 159833--159913 Score: 107
Period size: 3 Copynumber: 28.0 Consensus size: 3
159823 ATATATATTT
*
159833 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA AT- ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
159879 ATA AT- ATA ATA ATTA A-A ATA ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
159914 TTTATAATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
2 8 0.12
3 58 0.84
4 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:161334 original size:69 final size:69
Alignment explanation
Indices: 161268--161455 Score: 245
Period size: 69 Copynumber: 2.7 Consensus size: 69
161258 GTTCGGTTAA
* * *
161268 GTTAATAATTTTAAACTAAATTTCGGTTTGATTAATGTTTAAAGAAAAAAAATCGGTTAATCCGG
1 GTTAATAATTTTAAACTAAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATAGGTTAATCCGG
161333 TTCG
66 TTCG
* * * **
161337 GTTAATAATTTTCAACTAAATTTTGGTTCGATTAATGGTTAAAGAAAAAAATTAGGTTAATTTGG
1 GTTAATAATTTTAAACTAAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATAGGTTAATCCGG
161402 TTCG
66 TTCG
* * *
161406 GTTAATAATTTTCAAA-TAAACTTT-GATTCGATTAACGGTTAAACAAAAAA
1 GTTAATAATTTT-AAACTAAA-TTTCGGTTCGATTAATGGTTAAAGAAAAAA
161456 TAATTTGTTT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
69 100 0.95
70 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (69 bp):
GTTAATAATTTTAAACTAAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATAGGTTAATCCGG
TTCG
Found at i:161336 original size:176 final size:178
Alignment explanation
Indices: 161018--161348 Score: 490
Period size: 176 Copynumber: 1.9 Consensus size: 178
161008 AAAAAAATGG
*** *
161018 TATAAATTAGAAAATTTTAAATTTTTTTGGTTAATTAAAAAATTGACCAAATTAATCAAAATTTG
1 TATAAATTAGAAAATTTTAAATAAATTTGGTTAATTAAAAAATTGACCAAATTAACCAAAATTTG
** * *
161083 TTCGATTTGGTTTATAATTTTCAAATAAATTTGAGTTTGATTAATGGTTAAAGAAAAAAATTCAG
66 TTCGATTAAGTTAATAATTTTCAAATAAATTTGAGTTTGATTAATGGTTAAAGAAAAAAAATCAG
*
161148 TTAATTCGGTTCGGTTAATAATTTTTGAATTAAAATATTGAATTGTTA
131 TTAATCCGGTTCGGTTAATAATTTTTGAATTAAAATATTGAATTGTTA
* *
161196 TATAAA-TAGAAAATTTTAAA-AAATTTGGTTAATTCAAAAATTGACCGAATTAACCAAAATTTG
1 TATAAATTAGAAAATTTTAAATAAATTTGGTTAATTAAAAAATTGACCAAATTAACCAAAATTTG
* *
161259 TTCGGTTAAGTTAATAATTTT-AAACTAAATTTCG-GTTTGATTAATGTTTAAAGAAAAAAAATC
66 TTCGATTAAGTTAATAATTTTCAAA-TAAATTT-GAGTTTGATTAATGGTTAAAGAAAAAAAATC
*
161322 GGTTAATCCGGTTCGGTTAATAATTTT
129 AGTTAATCCGGTTCGGTTAATAATTTT
161349 CAACTAAATT
Statistics
Matches: 137, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
175 3 0.02
176 113 0.82
177 15 0.11
178 6 0.04
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (178 bp):
TATAAATTAGAAAATTTTAAATAAATTTGGTTAATTAAAAAATTGACCAAATTAACCAAAATTTG
TTCGATTAAGTTAATAATTTTCAAATAAATTTGAGTTTGATTAATGGTTAAAGAAAAAAAATCAG
TTAATCCGGTTCGGTTAATAATTTTTGAATTAAAATATTGAATTGTTA
Found at i:166774 original size:112 final size:112
Alignment explanation
Indices: 166613--167079 Score: 625
Period size: 112 Copynumber: 4.1 Consensus size: 112
166603 AACTTTCAAC
* ** * ***
166613 AAAGTATCGTTACATTTTTATAAAAAAATATTTATACTTTCAACATATCAGGTAATTTTTATTAG
1 AAAGTATCGAT-CATTTTTAT-AAAAAATATCGATACTTTCAACATATCAGGTAAATTTTACCGG
* *
166678 TTTTGTCATAATAAAACTGTTTTTGTCATATTTTTACCTGTTATATTGT
64 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* *
166727 AAAGTATCGATCCTTTTTATAAAAAATATCAATACTTTCAACATATCAGGTAAATTTTACCGGTT
1 AAAGTATCGATCATTTTTATAAAAAATATCGATACTTTCAACATATCAGGTAAATTTTACCGGTT
* * *
166792 TTTTCATAATGAAACTGGTTTTGTTATATTTTTACCTGTTAAATTGT
66 TTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
166839 AAAGTATCGATCATTTTTTTATAAAAATGACCGATACTTTCAACATATTAGGTAAATTTTACCGG
1 AAAGTATCGATCATTTTTATA-AAAAAT-ATCGATACTTTCAACATATCAGGTAAATTTTACCGG
* * *
166904 TTTTGTCATAATGAAATTGATTTTGTCATACTTTTACCTGTTATATTGT
64 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
** * * *
166953 AAAGTATCGATACA-TTTTATAAAAAGGATCGATACTTTAAATATATCCGGTAAATTTTACCGGT
1 AAAGTATCGAT-CATTTTTATAAAAAATATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
*
167017 TTTGTCATAATGAAACTGGTTTTGTCATA-TTTTA-TTGTTATATTGT
65 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
167063 AAAGTATCGATACATTT
1 AAAGTATCGAT-CATTT
167080 ATAAAGTATC
Statistics
Matches: 314, Mismatches: 35, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
110 25 0.08
111 7 0.02
112 159 0.51
113 18 0.06
114 103 0.33
115 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (112 bp):
AAAGTATCGATCATTTTTATAAAAAATATCGATACTTTCAACATATCAGGTAAATTTTACCGGTT
TTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:167007 original size:226 final size:225
Alignment explanation
Indices: 166613--167079 Score: 659
Period size: 226 Copynumber: 2.1 Consensus size: 225
166603 AACTTTCAAC
* * * *** * **
166613 AAAGTATCGTTACATTTTTATAAAAAAAT-ATTTATACTTTCAACATATCAGGTAATTTTTATTA
1 AAAGTATCGATACATTTTTTTATAAAAATGACCGATACTTTCAACATATCAGGTAAATTTTACCA
* * * *
166677 GTTTTGTCATAATAAAACTGTTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCCTT
66 GTTTTGTCATAATAAAACTGATTTTGTCATACTTTTACCTGTTATATTGTAAAGTATCGATACAT
* * *
166742 TTTATAAAAAATATCAATACTTTCAACATATCAGGTAAATTTTACCGGTTTTTTCATAATGAAAC
131 TTTATAAAAAAGATCAATACTTTAAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAAC
*
166807 TGGTTTTGTTATATTTTTACCTGTTAAATTGT
196 TGGTTTTGTCATA-TTTTA-CTGTTAAATTGT
* *
166839 AAAGTATCGAT-CATTTTTTTATAAAAATGACCGATACTTTCAACATATTAGGTAAATTTTACCG
1 AAAGTATCGATACATTTTTTTATAAAAATGACCGATACTTTCAACATATCAGGTAAATTTTACCA
* *
166903 GTTTTGTCATAATGAAATTGATTTTGTCATACTTTTACCTGTTATATTGTAAAGTATCGATACAT
66 GTTTTGTCATAATAAAACTGATTTTGTCATACTTTTACCTGTTATATTGTAAAGTATCGATACAT
* * * *
166968 TTTATAAAAAGGATCGATACTTTAAATATATCCGGTAAATTTTACCGGTTTTGTCATAATGAAAC
131 TTTATAAAAAAGATCAATACTTTAAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAAC
* *
167033 TGGTTTTGTCATATTTTATTGTTATATTGT
196 TGGTTTTGTCATATTTTACTGTTAAATTGT
167063 AAAGTATCGATACATTT
1 AAAGTATCGATACATTT
167080 ATAAAGTATC
Statistics
Matches: 212, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
224 21 0.10
225 25 0.12
226 166 0.78
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (225 bp):
AAAGTATCGATACATTTTTTTATAAAAATGACCGATACTTTCAACATATCAGGTAAATTTTACCA
GTTTTGTCATAATAAAACTGATTTTGTCATACTTTTACCTGTTATATTGTAAAGTATCGATACAT
TTTATAAAAAAGATCAATACTTTAAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAAC
TGGTTTTGTCATATTTTACTGTTAAATTGT
Found at i:167470 original size:84 final size:84
Alignment explanation
Indices: 167329--167525 Score: 299
Period size: 84 Copynumber: 2.3 Consensus size: 84
167319 ATTAAATAAT
* * *
167329 TAATCTATTTTATTATATAAGCGCTATCTATTACGTTATATAAGCTACCTAATATGTTATTGTGC
1 TAATCTATTTTATTATATAAGCGCTACCTATTACGATATATAAGCTACATAATATGTTATTGTGC
*
167394 TTGATAATGTTTCTAGTAA
66 TTGATAATGTTTATAGTAA
167413 TAATCTATTTTATTATATAAGCGCTACCTATTAC-AT-TATAAGCGGTACATAATATGTTATTGT
1 TAATCTATTTTATTATATAAGCGCTACCTATTACGATATATAAGC--TACATAATATGTTATTGT
*
167476 GTTTGATAATGTTTATAGTAA
64 GCTTGATAATGTTTATAGTAA
* *
167497 TAACCTATTTTATTATATAAGTGCTACCT
1 TAATCTATTTTATTATATAAGCGCTACCT
167526 CTGTAGAAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
82 7 0.07
83 1 0.01
84 96 0.92
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (84 bp):
TAATCTATTTTATTATATAAGCGCTACCTATTACGATATATAAGCTACATAATATGTTATTGTGC
TTGATAATGTTTATAGTAA
Found at i:168119 original size:112 final size:111
Alignment explanation
Indices: 167842--168184 Score: 469
Period size: 111 Copynumber: 3.1 Consensus size: 111
167832 TTCAACAAAA
** *
167842 TATCGATACATTTTTATAAAAAGTATTTATACTTTCAACATATTAGGTAAATTTTA-TCGG-TTT
1 TATCGAT-CATTTTTATAAAAAG-ATCGATACTTTCAACATATCAGGTAAATTTTACT-GGTTTT
*
167905 ATCATAATGATAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAA
63 ATCATAATGA-AACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAG
* * * *
167955 TATCGATC-CTTTTATAAGAAGGATCGATAATTTCAACATATCAGGTAAATTTTACTGGTTTTGT
1 TATCGATCATTTTTATAA-AAAGATCGATACTTTCAACATATCAGGTAAATTTTACTGGTTTTAT
* * * **
168019 CACAATGAAATTGATTTTGTCATATTTTTATATGTTATATTGTAAAG
65 CATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAG
*
168066 TATCGATCATTTTTATAAAAATGATCGATACTTTCAACATATCGGGTAAATTTTACTGGTTTTAT
1 TATCGATCATTTTTATAAAAA-GATCGATACTTTCAACATATCAGGTAAATTTTACTGGTTTTAT
*
168131 CATAATGAAACTGGTTTTGTCATA-TTTTACCTGTTAAATTGTAAAG
65 CATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAG
168177 TATCGATC
1 TATCGATC
168185 CTTTCAACAT
Statistics
Matches: 201, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
111 109 0.54
112 85 0.42
113 7 0.03
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (111 bp):
TATCGATCATTTTTATAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACTGGTTTTATC
ATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAG
Found at i:168288 original size:93 final size:91
Alignment explanation
Indices: 168033--168316 Score: 278
Period size: 89 Copynumber: 3.1 Consensus size: 91
168023 ATGAAATTGA
*
168033 TTTTGTCATATTTTTATA-TGTTATATTGTAAAGTATCGAT-CATTTTTATAAAAA-TGATCGAT
1 TTTTGTCATATTTTTA-ACTGTTATATTGTAAAGTAT-TATACATTTTTATAAAAAGT-ATCGAT
*
168095 ACTTTCAACATATCGGGTAAATTTTACTGG
63 ACTTTCAACATATC-GGTAAATTTTACCGG
* * ** * * * * ** ** *
168125 TTTTATCATA-ATGAAACTGGT-T-TTGT-CA-TATTTTACCTGTTAAATTGTAAAGTATCGATC
1 TTTTGTCATATTTTTAACTGTTATATTGTAAAGTATTATACAT-TTTTA-TAAAAAGTATCGATA
168185 CTTTCAACATATCGAGTAAATTTTACCGG
64 CTTTCAACATATCG-GTAAATTTTACCGG
*
168214 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTATTAATACATTTTTATAAAAAGTATCGATAC
1 TTTTGTCATATTTTTAACTGTTATATTGTAAAGTATT-ATACATTTTTATAAAAAGTATCGATAC
*
168279 TTTCAACATATCCGGTAAATTTTACCGA
65 TTTCAACATAT-CGGTAAATTTTACCGG
168307 TTTTGTCATA
1 TTTTGTCATA
168317 ATGAAAATGG
Statistics
Matches: 149, Mismatches: 30, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
86 1 0.01
87 5 0.03
88 5 0.03
89 49 0.33
90 9 0.06
91 6 0.04
92 13 0.09
93 48 0.32
94 9 0.06
95 4 0.03
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (91 bp):
TTTTGTCATATTTTTAACTGTTATATTGTAAAGTATTATACATTTTTATAAAAAGTATCGATACT
TTCAACATATCGGTAAATTTTACCGG
Found at i:168355 original size:181 final size:181
Alignment explanation
Indices: 168033--168360 Score: 534
Period size: 182 Copynumber: 1.8 Consensus size: 181
168023 ATGAAATTGA
* *
168033 TTTTGTCATATTTTTATATGTTATATTGTAAAGTATCGATCATTTTTATAAAAATGATCGATACT
1 TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCAATCATTTTTATAAAAATGATCGATACT
* * * *
168098 TTCAACATATCGGGTAAATTTTACTGGTTTTATCATAATGAAACTGGTTTTGTCATATTTTACCT
66 TTCAACATATCCGGTAAATTTTACCGATTTTATCATAATGAAAATGGTTTTGTCATATTTTACCT
168163 GTTAAATTGTAAAGTATCGATCCTTTCAACATATCGAGTAAATTTTACCGG
131 GTTAAATTGTAAAGTATCGATCCTTTCAACATATCGAGTAAATTTTACCGG
* *
168214 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTATTAATACATTTTTATAAAAA-GTATCGATA
1 TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCAAT-CATTTTTATAAAAATG-ATCGATA
*
168278 CTTTCAACATATCCGGTAAATTTTACCGATTTTGTCATAATGAAAATGGTTTTGTCATA-TTTAC
64 CTTTCAACATATCCGGTAAATTTTACCGATTTTATCATAATGAAAATGGTTTTGTCATATTTTAC
*
168342 CTGTTATATTGTAAAGTAT
129 CTGTTAAATTGTAAAGTAT
168361 TAATACATTT
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
181 60 0.44
182 75 0.56
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (181 bp):
TTTTGTCATATTTTTACATGTTATATTGTAAAGTATCAATCATTTTTATAAAAATGATCGATACT
TTCAACATATCCGGTAAATTTTACCGATTTTATCATAATGAAAATGGTTTTGTCATATTTTACCT
GTTAAATTGTAAAGTATCGATCCTTTCAACATATCGAGTAAATTTTACCGG
Found at i:180201 original size:21 final size:19
Alignment explanation
Indices: 180174--180231 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
180164 ATTTCAGGCT
180174 AAGAGTATCGATACTTTACC
1 AAGAGTATCGATACTTTA-C
* *
180194 TCAGAGTATCGATATTTTAC
1 -AAGAGTATCGATACTTTAC
180214 AAGAGTATCGATACTTTA
1 AAGAGTATCGATACTTTA
180232 TGCAACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.48
20 1 0.03
21 16 0.48
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (19 bp):
AAGAGTATCGATACTTTAC
Found at i:180220 original size:19 final size:21
Alignment explanation
Indices: 180172--180231 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
180162 GGATTTCAGG
180172 CTAAGAGTATCGATACTTTAC
1 CTAAGAGTATCGATACTTTAC
* *
180193 CTCAGAGTATCGATATTTTA-
1 CTAAGAGTATCGATACTTTAC
180213 C-AAGAGTATCGATACTTTA
1 CTAAGAGTATCGATACTTTA
180232 TGCAACAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.46
20 1 0.03
21 18 0.51
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
CTAAGAGTATCGATACTTTAC
Found at i:181287 original size:32 final size:32
Alignment explanation
Indices: 181241--181313 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
181231 AAAACCAGTA
*
181241 TTGCATTTAGATAATGCATACC-GAAGTTAATC
1 TTGCATTCAGATAATGCATACCAG-AGTTAATC
*
181273 TTGCATTCATATAATGCATACCAGAGTTAATC
1 TTGCATTCAGATAATGCATACCAGAGTTAATC
* *
181305 CTACATTCA
1 TTGCATTCA
181314 AACAAATGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
TTGCATTCAGATAATGCATACCAGAGTTAATC
Found at i:185381 original size:23 final size:23
Alignment explanation
Indices: 185355--185399 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
185345 TATGTTCAAA
* *
185355 TTCGAGTTTGAGTTTGAATTGAG
1 TTCGAGTTTGAGCTTCAATTGAG
*
185378 TTCGTGTTTGAGCTTCAATTGA
1 TTCGAGTTTGAGCTTCAATTGA
185400 CTAATGTCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.09, G:0.27, T:0.44
Consensus pattern (23 bp):
TTCGAGTTTGAGCTTCAATTGAG
Found at i:191081 original size:7 final size:7
Alignment explanation
Indices: 191073--191102 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
191063 TTAAGTACTT
*
191073 CTAACTT
1 CTAACTC
191080 CTAACTC
1 CTAACTC
191087 CTAACTC
1 CTAACTC
191094 CTAACTC
1 CTAACTC
191101 CT
1 CT
191103 GTAGCTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.27, C:0.40, G:0.00, T:0.33
Consensus pattern (7 bp):
CTAACTC
Found at i:207243 original size:21 final size:21
Alignment explanation
Indices: 207219--207267 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
207209 TCCAGCTCCA
207219 CTTCCTCTTCTTCTTCAACCT
1 CTTCCTCTTCTTCTTCAACCT
*
207240 CTT-CTGCTTCTTCTTCAACTT
1 CTTCCT-CTTCTTCTTCAACCT
*
207261 CCTCCTC
1 CTTCCTC
207268 AACTTCCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.08, C:0.43, G:0.02, T:0.47
Consensus pattern (21 bp):
CTTCCTCTTCTTCTTCAACCT
Found at i:207343 original size:3 final size:3
Alignment explanation
Indices: 207337--207374 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
207327 GATGTTGTTG
207337 TTC TTC TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC T
207375 CTCGATTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Done.