Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008713.1 Hibiscus syriacus cultivar Beakdansim tig00111766_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: 128496
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2468 original size:11 final size:13
Alignment explanation
Indices: 2436--2465 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2426 TGGCCAAAGA
2436 TGAAAAGGTATGT
1 TGAAAAGGTATGT
2449 TGAAAAGGTATG-
1 TGAAAAGGTATGT
2461 TGAAA
1 TGAAA
2466 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:7776 original size:23 final size:23
Alignment explanation
Indices: 7746--7797 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
7736 GTATTCTTAT
*
7746 AAAAAAAATGATGCTCTAAATTA
1 AAAAAAAATGAAGCTCTAAATTA
7769 AAAAAAAATGAAGCTCTAAATTA
1 AAAAAAAATGAAGCTCTAAATTA
7792 AAAAAA
1 AAAAAA
7798 GAAAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.21
Consensus pattern (23 bp):
AAAAAAAATGAAGCTCTAAATTA
Found at i:14436 original size:21 final size:22
Alignment explanation
Indices: 14401--14443 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
14391 TGTCCAGGAC
14401 AATGAGTATCAGTACT-CCTTT
1 AATGAGTATCAGTACTACCTTT
**
14422 AATGAGTATTGGTACTACCTTT
1 AATGAGTATCAGTACTACCTTT
14444 GTAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (22 bp):
AATGAGTATCAGTACTACCTTT
Found at i:21403 original size:18 final size:20
Alignment explanation
Indices: 21367--21406 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
21357 GAATATAATG
*
21367 TTAATTTTTTAAATTATTAA
1 TTAATTTTTTAAATAATTAA
21387 TTAA-TTTTT-AATAATTAA
1 TTAATTTTTTAAATAATTAA
21405 TT
1 TT
21407 TGTTTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 5 0.26
20 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTAATTTTTTAAATAATTAA
Found at i:22007 original size:23 final size:23
Alignment explanation
Indices: 21977--22028 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
21967 TGTAATGCAA
* *
21977 TGTATTTAAAAGCAATATTAGAT
1 TGTATTTAAAAGAAATATTAAAT
22000 TGTATTTAAAAGAAATATTAAAT
1 TGTATTTAAAAGAAATATTAAAT
*
22023 TTTATT
1 TGTATT
22029 ATTTGAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (23 bp):
TGTATTTAAAAGAAATATTAAAT
Found at i:22643 original size:13 final size:14
Alignment explanation
Indices: 22616--22649 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
22606 TTTTTTAATA
22616 TATTTATTAAATTT
1 TATTTATTAAATTT
22630 TATTTATT-AATTT
1 TATTTATTAAATTT
*
22643 TTTTTAT
1 TATTTAT
22650 CATTTGACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTATTAAATTT
Found at i:23729 original size:17 final size:18
Alignment explanation
Indices: 23696--23729 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23686 CCGCTATTAG
23696 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
23714 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
23730 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:27513 original size:20 final size:20
Alignment explanation
Indices: 27488--27541 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
27478 TTTTAACAGA
27488 AAAAATGGTTGTTTCCCCAT
1 AAAAATGGTTGTTTCCCCAT
* ***
27508 AAAAATGGTTCTTTTTGTCAT
1 AAAAATGGTT-GTTTCCCCAT
27529 AAAAATGGTTGTT
1 AAAAATGGTTGTT
27542 CTACATCTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (20 bp):
AAAAATGGTTGTTTCCCCAT
Found at i:30827 original size:12 final size:12
Alignment explanation
Indices: 30810--30843 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
30800 TTGAGATTAG
30810 CATCCTTCTAAT
1 CATCCTTCTAAT
30822 CATCCTTCTAAT
1 CATCCTTCTAAT
30834 CATCCTTCTA
1 CATCCTTCTA
30844 CCCTCAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (12 bp):
CATCCTTCTAAT
Found at i:38840 original size:21 final size:21
Alignment explanation
Indices: 38814--38853 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38804 TAAAATGTGT
38814 ATCGATGCACTGCTACAGTGC
1 ATCGATGCACTGCTACAGTGC
*
38835 ATCGATGCATTGCTACAGT
1 ATCGATGCACTGCTACAGT
38854 AACTGCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTGC
Found at i:39355 original size:45 final size:46
Alignment explanation
Indices: 39264--39464 Score: 275
Period size: 45 Copynumber: 4.4 Consensus size: 46
39254 ATAACATTTC
* *
39264 TTACCAATATACTAACCATTTAATCCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTAATACCATAAGCTCGTAAGCTTATT
* *
39310 TTATCAATATACTTACCATTTAAT-CTATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTAATACCATAAGCTCGTAAGCTTATT
* *
39355 TTACCAATATACTTACCATTT-GTTCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTAATACCATAAGCTCGTAAGCTTATT
**
39400 TTACCAATATACTTACCATTTGTTA-CATAAGCTCGTAAG-TGTATT
1 TTACCAATATACTTACCATTTAATACCATAAGCTCGTAAGCT-TATT
* *
39445 TTACCAATACACTTGCCATT
1 TTACCAATATACTTACCATT
39465 ATTCCATAAC
Statistics
Matches: 142, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
44 2 0.01
45 117 0.82
46 23 0.16
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (46 bp):
TTACCAATATACTTACCATTTAATACCATAAGCTCGTAAGCTTATT
Found at i:42669 original size:116 final size:116
Alignment explanation
Indices: 42510--42742 Score: 335
Period size: 116 Copynumber: 2.0 Consensus size: 116
42500 CAATACAAGC
* * * *
42510 TTGGATTTTAACTTCACGATGAAGGATATTCAAGTTAATGCTCAACTTCACAACGAAGGAGTCAT
1 TTGGATTTCAACTTCACGACGAAGGATATTCAAGTTAAGGCTCAACTTCACAACGAAGGAGCCAT
* * *
42575 CCACGATTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTCA
66 CCACGATTTCAACTTCACGACGAAGGGAATCGTACCCACCAACAACATTCA
* *
42626 TTGGATTTCAACTTCACGACGCAGGATA-TCTAA-TTCAAGGCTCAACTTCACAACGAAGGGGCC
1 TTGGATTTCAACTTCACGACGAAGGATATTC-AAGTT-AAGGCTCAACTTCACAACGAAGGAGCC
* *
42689 ATCCACGGTTTCAACTTCACGACGAAGGGAATCGTACCCATCAACAACATTCA
64 ATCCACGATTTCAACTTCACGACGAAGGGAATCGTACCCACCAACAACATTCA
42742 T
1 T
42743 ATTCAGGACC
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
115 4 0.04
116 100 0.96
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (116 bp):
TTGGATTTCAACTTCACGACGAAGGATATTCAAGTTAAGGCTCAACTTCACAACGAAGGAGCCAT
CCACGATTTCAACTTCACGACGAAGGGAATCGTACCCACCAACAACATTCA
Found at i:42862 original size:21 final size:22
Alignment explanation
Indices: 42828--42871 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
42818 AATTTACTCA
42828 AAACAAAGTTTTGTCTCTCTTG
1 AAACAAAGTTTTGTCTCTCTTG
42850 AAACAAA-TTTTGTCTCTCTTG
1 AAACAAAGTTTTGTCTCTCTTG
42871 A
1 A
42872 GACAGTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (22 bp):
AAACAAAGTTTTGTCTCTCTTG
Found at i:42887 original size:36 final size:36
Alignment explanation
Indices: 42846--43107 Score: 211
Period size: 36 Copynumber: 7.3 Consensus size: 36
42836 TTTTGTCTCT
42846 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * *
42882 CTTGAAACAAA------ATCT-TTGA-ATATGTTTTAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACA-G-TTTCC
* * * * *
42912 ATT-AAACAAATTTCGTCTCCCTTGAGACAATTT-A
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * * * *
42946 TTTGGAACTAAGTTTTGTCTCTTTTGAGACAGTTTCT
1 CTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCC
* *
42983 CTTGAAACAAATTTTGTCTTTGTCTCTCTTGAGATAGTTTCT
1 CTTGAAACAAA-----T-TTTGTCTCTCTTGAGACAGTTTCC
* *
43025 CTTGAAAAAAAATTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
*
43061 CTTGAAACAAATTTTGTCTCTCTTAAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
43097 CTTGAAACAAA
1 CTTGAAACAAA
43108 ATCTTTGAAT
Statistics
Matches: 178, Mismatches: 29, Indels: 38
0.73 0.12 0.16
Matches are distributed among these distances:
28 2 0.01
29 12 0.07
30 9 0.05
34 2 0.01
35 8 0.04
36 104 0.58
37 8 0.04
41 1 0.01
42 32 0.18
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
Found at i:43022 original size:42 final size:42
Alignment explanation
Indices: 42959--43079 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
42949 GGAACTAAGT
*
42959 TTTGTCTCTTTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
* **
43001 TTTGTCTCTCTTGAGATAGTTTCTCTTGAAA-AAA-----AA
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
*
43037 TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
43079 T
1 T
43080 CTCTTAAGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
36 29 0.45
37 3 0.05
41 3 0.05
42 30 0.46
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (42 bp):
TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
Found at i:43191 original size:37 final size:36
Alignment explanation
Indices: 43120--43261 Score: 194
Period size: 37 Copynumber: 3.9 Consensus size: 36
43110 CTTTGAATAT
* * * *
43120 GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
** *
43156 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACA
*
43193 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
43229 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGA
1 GTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGA
43262 AAAAAAACTT
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
36 45 0.49
37 47 0.51
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
Found at i:43200 original size:102 final size:102
Alignment explanation
Indices: 43020--43209 Score: 285
Period size: 102 Copynumber: 1.9 Consensus size: 102
43010 CTTGAGATAG
*
43020 TTTCTCTTGAAAAAAAATTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
1 TTTCTCTTGAAAAAAAATTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
43085 AAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
66 AAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
* ** * *
43122 TTTC-CTTG-AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTCTCTTGAAAAAAAATTT-GTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTC
*
43185 TTGAGACAGTTTCCCTTGAAACAAA
64 TTAAGACAGTTTCCCTTGAAACAAA
43210 TTTTGTCTCT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
100 9 0.11
101 29 0.37
102 41 0.52
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (102 bp):
TTTCTCTTGAAAAAAAATTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
AAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
Found at i:43248 original size:73 final size:73
Alignment explanation
Indices: 43120--43261 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
43110 CTTTGAATAT
* ** * *
43120 GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTC
43185 TTGAGACA
66 TTGAGACA
* *
43193 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTC
43258 TTGA
66 TTGA
43262 AAAAAAACTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (73 bp):
GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTC
TTGAGACA
Found at i:44941 original size:22 final size:21
Alignment explanation
Indices: 44915--44956 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
44905 TTTTTTAATA
*
44915 TTTTTTCTATCTCTTAATTTAC
1 TTTTTTCCATCT-TTAATTTAC
*
44937 TTTTTTCCCTCTTTAATTTA
1 TTTTTTCCATCTTTAATTTA
44957 TTTAGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTCCATCTTTAATTTAC
Found at i:45759 original size:42 final size:42
Alignment explanation
Indices: 45712--45830 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
45702 TTCTCTGAAA
* * *
45712 TCCCGTGTTTGTTTTATGTAATTCGTTTTTCGGAAAATGTTT
1 TCCCGTGTTTGTTTTACGTAATTCGTTTTCCGGAAAATATTT
* *
45754 TCCCGTATTTGTTTTACGTAATTCGTTTTCCGAAAAATATTT
1 TCCCGTGTTTGTTTTACGTAATTCGTTTTCCGGAAAATATTT
* *
45796 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAA
1 TCCCGTGTTTGTTTTACGTAATTCGTTTTCCGGAA
45831 TGTAATTCAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (42 bp):
TCCCGTGTTTGTTTTACGTAATTCGTTTTCCGGAAAATATTT
Found at i:46075 original size:18 final size:20
Alignment explanation
Indices: 46019--46076 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 20
46009 TATTTATTAA
* *
46019 AATATTTAAAATATATGTATT
1 AATATTTATAATA-ATATATT
46040 AATATTTATAATAATATATT
1 AATATTTATAATAATATATT
*
46060 -ATATTT-TAATATTATAT
1 AATATTTATAATAATATAT
46077 AAAATAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.29
19 6 0.18
20 6 0.18
21 12 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
AATATTTATAATAATATATT
Found at i:46091 original size:30 final size:28
Alignment explanation
Indices: 46038--46196 Score: 97
Period size: 28 Copynumber: 5.7 Consensus size: 28
46028 AATATATGTA
46038 TTAATATT-TATAATAATATATTATATT
1 TTAATATTATATAATAATATATTATATT
46065 TTAATATTATATAA-AATAATCAATTATATT
1 TTAATATTATATAATAAT-AT--ATTATATT
* * *
46095 ATAATAATATA-ATATAAGATATTATATTT
1 TTAATATTATATA-ATAATATATTATA-TT
* *
46124 TTAAT-TTA-ATAAT-ATATAATAGTTTT
1 TTAATATTATATAATAATATATTA-TATT
46150 TTATATATT-TAATAATGAATAATATTAT-TT
1 TTA-ATATTAT-ATAAT-AAT-ATATTATATT
*
46180 AT-ATATT-TA-AATAATAT
1 TTAATATTATATAATAATAT
46197 TTTAGTAAAG
Statistics
Matches: 106, Mismatches: 10, Indels: 35
0.70 0.07 0.23
Matches are distributed among these distances:
24 2 0.02
25 3 0.03
26 14 0.13
27 18 0.17
28 24 0.23
29 12 0.11
30 23 0.22
31 5 0.05
32 5 0.05
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (28 bp):
TTAATATTATATAATAATATATTATATT
Found at i:46159 original size:29 final size:28
Alignment explanation
Indices: 46119--46196 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
46109 TAAGATATTA
*
46119 TATTTTTA-ATTTAATAATATATAATAGT
1 TATTTATATATTTAATAATATATAATA-T
*
46147 TTTTTATATATTTAATAATGA-ATAATAT
1 TATTTATATATTTAATAAT-ATATAATAT
46175 TATTTATATATTTAAATAATAT
1 TATTTATATATTT-AATAATAT
46197 TTTAGTAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 20 0.47
29 22 0.51
30 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (28 bp):
TATTTATATATTTAATAATATATAATAT
Found at i:46324 original size:90 final size:86
Alignment explanation
Indices: 46212--46381 Score: 200
Period size: 90 Copynumber: 1.9 Consensus size: 86
46202 TAAAGATATT
* * * * * *
46212 TAAAATATACTAATTAATATTTTTA-AAATATAA-TATAACACTATTACATTAATAAATAATTAA
1 TAAAATATACAAATTAATATTTTTATAAATAAAATTATAAAAATAATA-ATTAAT-AATAAATAA
46275 TATAATTTATAATATTTTATTTCAC
64 -ATAATTT-TAATATTTTATTTCAC
* *
46300 TAAAATATACCAATATTAATATTTTTATTAATAAAATTATAAAAATAATATTTAATAATAAATAA
1 TAAAATATA-CAA-ATTAATATTTTTATAAATAAAATTATAAAAATAATAATTAATAATAAATAA
46365 ATAATTTTAATATTTTA
64 ATAATTTTAATATTTTA
46382 AAATAATAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
88 19 0.27
89 9 0.13
90 21 0.30
91 11 0.16
92 10 0.14
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (86 bp):
TAAAATATACAAATTAATATTTTTATAAATAAAATTATAAAAATAATAATTAATAATAAATAAAT
AATTTTAATATTTTATTTCAC
Found at i:46563 original size:20 final size:20
Alignment explanation
Indices: 46525--46576 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
46515 TTTCTTGATG
46525 TTTTCCAGAAATGTGTAATTCA
1 TTTTCCAGAAA--TGTAATTCA
* *
46547 TTTTTCAGAAATGTAATTTA
1 TTTTCCAGAAATGTAATTCA
46567 TTTTCCAGAA
1 TTTTCCAGAA
46577 TTCAAATTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 17 0.63
22 10 0.37
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:46595 original size:15 final size:15
Alignment explanation
Indices: 46569--46640 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
46559 GTAATTTATT
46569 TTCCAG-AATTCAAA
1 TTCCAGTAATTCAAA
**
46583 TTCCAGTAATTCATT
1 TTCCAGTAATTCAAA
*
46598 TTTCAGTAATTCAAA
1 TTCCAGTAATTCAAA
46613 TTCCAGTAATTCAAA
1 TTCCAGTAATTCAAA
*
46628 TTGCAGTAATTCA
1 TTCCAGTAATTCA
46641 TTTTTCGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 6 0.12
15 44 0.88
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (15 bp):
TTCCAGTAATTCAAA
Found at i:46609 original size:30 final size:30
Alignment explanation
Indices: 46559--46640 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 30
46549 TTTCAGAAAT
*
46559 GTAATTTATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
*
46588 GTAATTCATTTTTCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
** *
46618 GTAATTCAAATTGCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
46641 TTTTTCGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 14 0.30
30 33 0.70
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:48372 original size:50 final size:51
Alignment explanation
Indices: 48250--48374 Score: 180
Period size: 51 Copynumber: 2.5 Consensus size: 51
48240 TGCAGTAAAA
** *
48250 CGCGCCCCCTGCACCGCGCTATACGATGATTTGGCGCCACGTGGGGTATAG
1 CGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGATATAG
* *
48301 CGCGCCCCCTGCACCGTGCTATACGGTGAGCTGGCGCCACGT-GGATATAG
1 CGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGATATAG
* *
48351 CGCGGCCCCTGCAACGCGCTATAC
1 CGCGCCCCCTGCACCGCGCTATAC
48375 CTGTATATCT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 28 0.42
51 38 0.58
ACGTcount: A:0.16, C:0.36, G:0.30, T:0.18
Consensus pattern (51 bp):
CGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGATATAG
Found at i:48526 original size:12 final size:10
Alignment explanation
Indices: 48485--48525 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
48475 TTTATCACAC
48485 CAAATTCTCT
1 CAAATTCTCT
48495 CAAATTCTCT
1 CAAATTCTCT
48505 -AAATTTCTCT
1 CAAA-TTCTCT
*
48515 CAAATACTCT
1 CAAATTCTCT
48525 C
1 C
48526 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:48574 original size:13 final size:14
Alignment explanation
Indices: 48546--48574 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48536 ATATTTTATA
48546 ATATTTTTACTATT
1 ATATTTTTACTATT
48560 ATATTTTTACT-TT
1 ATATTTTTACTATT
48573 AT
1 AT
48575 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:50398 original size:18 final size:18
Alignment explanation
Indices: 50375--50414 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
50365 CCAGCAGCCA
*
50375 CCGCAGCTATATATGATG
1 CCGCAGCCATATATGATG
50393 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
50411 CCGC
1 CCGC
50415 CATCGCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:50764 original size:3 final size:3
Alignment explanation
Indices: 50756--50796 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
50746 ACTTGCGCAA
*
50756 GAC GAC GAC GAC GAC GAT GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
50797 TGGTGATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.29, G:0.34, T:0.02
Consensus pattern (3 bp):
GAC
Found at i:53789 original size:50 final size:51
Alignment explanation
Indices: 53709--53836 Score: 195
Period size: 51 Copynumber: 2.5 Consensus size: 51
53699 CCCTACGTGG
* * **
53709 CGTATAGCGCGCTGCAGGGGCCGCGCTATA-CCCACGTGGCGCCAGCTCAT
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAT
*
53759 CGTATAGCGCGGTGCAGGGGGCGCGTTATACCCCACGTGGCGCCAAATCAT
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAT
*
53810 CGTATAGCGCGGTGTAGGGGGCGCGCT
1 CGTATAGCGCGGTGCAGGGGGCGCGCT
53837 TTACTACTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 27 0.39
51 43 0.61
ACGTcount: A:0.16, C:0.30, G:0.36, T:0.17
Consensus pattern (51 bp):
CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAT
Found at i:57159 original size:13 final size:14
Alignment explanation
Indices: 57125--57159 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
57115 TACTAGCAGG
57125 GGCAAATCTTCAGA
1 GGCAAATCTTCAGA
57139 GTGCAAATCTTCA-A
1 G-GCAAATCTTCAGA
57153 GGCAAAT
1 GGCAAAT
57160 ACTTACAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 3 0.15
15 11 0.55
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (14 bp):
GGCAAATCTTCAGA
Found at i:58813 original size:31 final size:31
Alignment explanation
Indices: 58775--58838 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
58765 TTATGATCAC
* * *
58775 ATCTTAATTAAATAAAAACGATAGTGACCAT
1 ATCTTAATTAAATAAAAACAAAAGTGACAAT
*
58806 ATCTTAATTAAATAGAAACAAAAGTGACAAT
1 ATCTTAATTAAATAAAAACAAAAGTGACAAT
58837 AT
1 AT
58839 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACAAAAGTGACAAT
Found at i:60762 original size:64 final size:65
Alignment explanation
Indices: 60676--60830 Score: 172
Period size: 64 Copynumber: 2.4 Consensus size: 65
60666 CAATGAAGGT
* * * *
60676 ATGCATCGATGCACTACTTATGCATCGGTGTA-TAAAAGGCATTCGATGTTT-TAATATTAAGAG
1 ATGCATCGACGCACTACTTATGCATCGATGCACT-AAAGGCATTCGATGTTTCTAATATTAAGAA
60739 G
65 G
* * ** *
60740 ATGCATCGACGCATTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCTATTATTAAGAAG
1 ATGCATCGACGCACTACTTATGCATCGATGCACTAAAGGCATTCGATGTTTCTAATATTAAGAAG
* * *
60805 -TGCATCGATGCACTAATTGTGCATCG
1 ATGCATCGACGCACTACTTATGCATCG
60831 GTACACCTTC
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
64 63 0.84
65 12 0.16
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (65 bp):
ATGCATCGACGCACTACTTATGCATCGATGCACTAAAGGCATTCGATGTTTCTAATATTAAGAAG
Found at i:67002 original size:22 final size:22
Alignment explanation
Indices: 66976--67032 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
66966 GTTCAGTATT
66976 TGTCCCGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTGGATA
66998 TGTCCCGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTGGATA
* *
67020 CGTCTCGAAGGAC
1 TGTCCCGAAGGAC
67033 TAATATACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGGATA
Found at i:67619 original size:64 final size:64
Alignment explanation
Indices: 67537--67685 Score: 194
Period size: 64 Copynumber: 2.3 Consensus size: 64
67527 TTCACTACTT
*
67537 ATGCACTACTTATGCATCGGTGCA-TAAAAGACATTCGATGTTT-TAATATTAAGATGATGCATC
1 ATGCACTACTTATGCATCGGTGCACTAAAAG-CATTCGATGTTTCTAATATTAAGAAG-TGCATC
67600 G
64 G
* * * ** *
67601 ATGCATTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCTATTATTAAGAAGTGCATCG
1 ATGCACTACTTATGCATCGGTGCACTAAAAGCATTCGATGTTTCTAATATTAAGAAGTGCATCG
*
67665 ATGCACTACTTGTGCATCGGT
1 ATGCACTACTTATGCATCGGT
67686 ACACCTTTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
64 57 0.79
65 15 0.21
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (64 bp):
ATGCACTACTTATGCATCGGTGCACTAAAAGCATTCGATGTTTCTAATATTAAGAAGTGCATCG
Found at i:71808 original size:27 final size:28
Alignment explanation
Indices: 71756--71809 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
71746 CTAAAATTAT
*
71756 TAATAATTACAAAAATTAATATATAAAC
1 TAATAATTACAAAAATTAATAAATAAAC
71784 TAATAA-TA-AAAAATTAAATAAATAAA
1 TAATAATTACAAAAATT-AATAAATAAA
71810 TTATTACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 11 0.46
28 6 0.25
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (28 bp):
TAATAATTACAAAAATTAATAAATAAAC
Found at i:71941 original size:21 final size:21
Alignment explanation
Indices: 71917--71961 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
71907 CTTCTATTTT
71917 ATAACTGTAAAAAAATA-TAAA
1 ATAA-TGTAAAAAAATACTAAA
* *
71938 ATAATTTAATAAAATACTAAA
1 ATAATGTAAAAAAATACTAAA
71959 ATA
1 ATA
71962 TTAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAATGTAAAAAAATACTAAA
Found at i:75129 original size:144 final size:144
Alignment explanation
Indices: 74869--75158 Score: 535
Period size: 144 Copynumber: 2.0 Consensus size: 144
74859 CGGCGGCGAG
*
74869 CACAAGGGGGAAGGACATTATGACACGGGCATGAACGGAACAGAATACAAAGGAGAGACCGGTCT
1 CACAAGGGGGAAGGAAATTATGACACGGGCATGAACGGAACAGAATACAAAGGAGAGACCGGTCT
74934 TGGCCATGGTTATGACACGGGCATGACCGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
66 TGGCCATGGTTATGACACGGGCATGACCGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
*
74999 AGGCCGGTCATGGC
131 AGACCGGTCATGGC
* *
75013 CACAAGGGGGAAGGAAATTATGACACGGGCATGACCGGAACAGAATACAAAGGAGAGACTGGTCT
1 CACAAGGGGGAAGGAAATTATGACACGGGCATGAACGGAACAGAATACAAAGGAGAGACCGGTCT
*
75078 TGGCCATGGTTATGGCACGGGCATGACCGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
66 TGGCCATGGTTATGACACGGGCATGACCGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
75143 AGACCGGTCATGGC
131 AGACCGGTCATGGC
75157 CA
1 CA
75159 TGGCTATGGC
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 141 1.00
ACGTcount: A:0.31, C:0.21, G:0.34, T:0.13
Consensus pattern (144 bp):
CACAAGGGGGAAGGAAATTATGACACGGGCATGAACGGAACAGAATACAAAGGAGAGACCGGTCT
TGGCCATGGTTATGACACGGGCATGACCGGTGGTACAGCCATGACCGGAACAGAATACAGGGGAG
AGACCGGTCATGGC
Found at i:78156 original size:47 final size:49
Alignment explanation
Indices: 78049--78169 Score: 151
Period size: 51 Copynumber: 2.5 Consensus size: 49
78039 TTATACAAAA
*
78049 CGCGGTACCTACCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACATACCCCGCGCTATATAAAATTATGTC--GAGTAAAGGTATGT
78100 CGCGGTACATACCCCGCGCTATATAAAATTATG-C-AGTAAAGGTATAGT
1 CGCGGTACATACCCCGCGCTATATAAAATTATGTCGAGTAAAGGTAT-GT
* *
78148 -GTGGTACATGA-TCCGCGCTATA
1 CGCGGTACAT-ACCCCGCGCTATA
78170 CCCCTACGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
47 29 0.45
48 3 0.05
50 1 0.02
51 32 0.49
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (49 bp):
CGCGGTACATACCCCGCGCTATATAAAATTATGTCGAGTAAAGGTATGT
Found at i:78256 original size:50 final size:50
Alignment explanation
Indices: 78193--78313 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 50
78183 TATAGCGCGC
* **
78193 TGCAGGGGCCGCGCTATACTCACGTGACGCCAGCTCACCGTATAAAGCGG
1 TGCAGGGGGCGCGCTATACTCACGTGACGCCAAATCACCGTATAAAGCGG
* * * * **
78243 TGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCATCTTATAGCGCGG
1 TGCAGGGGGCGCGCTATA-CTCACGTGACGCCAAATCACCGTATAAAGCGG
* *
78294 TGCAGGGGGCACGCTTTACT
1 TGCAGGGGGCGCGCTATACT
78314 GCTAAGGGTG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
50 18 0.31
51 40 0.69
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (50 bp):
TGCAGGGGGCGCGCTATACTCACGTGACGCCAAATCACCGTATAAAGCGG
Found at i:78708 original size:19 final size:18
Alignment explanation
Indices: 78676--78739 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
78666 TTCATTGAAA
78676 AACCGAAAAACCGAACCG
1 AACCGAAAAACCGAACCG
78694 AACCGAAAAATCCGAACCG
1 AACCGAAAAA-CCGAACCG
*
78713 TTAA---AAAACCCGAACCG
1 --AACCGAAAAACCGAACCG
78730 AACCGAAAAA
1 AACCGAAAAA
78740 ACCAGTTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.05
17 8 0.21
18 18 0.47
19 8 0.21
21 2 0.05
ACGTcount: A:0.52, C:0.30, G:0.14, T:0.05
Consensus pattern (18 bp):
AACCGAAAAACCGAACCG
Found at i:82768 original size:21 final size:20
Alignment explanation
Indices: 82721--82770 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
82711 ATAATGTTTT
*
82721 TAATA-TATCAAATATAATA
1 TAATATTATAAAATATAATA
* *
82740 TAAAATTATAAAATATATTCA
1 TAATATTATAAAATATAAT-A
82761 TAATATTATA
1 TAATATTATA
82771 TTTTAAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATATTATAAAATATAATA
Found at i:82974 original size:31 final size:31
Alignment explanation
Indices: 82939--83000 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
82929 AATAACTTAA
*
82939 TATAAAAGATGAATTGAA-TAAATAAAAAAAT
1 TATAAAAAATGAA-TGAACTAAATAAAAAAAT
* *
82970 TATAAAAAATTAATGAACTAAATTAAAAAAT
1 TATAAAAAATGAATGAACTAAATAAAAAAAT
83001 AAAAAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (31 bp):
TATAAAAAATGAATGAACTAAATAAAAAAAT
Found at i:83554 original size:77 final size:76
Alignment explanation
Indices: 83383--83554 Score: 175
Period size: 77 Copynumber: 2.2 Consensus size: 76
83373 CAGAGTTTCA
* * * *
83383 AAAATCTTATATTTTATGGGTAAAGCGCTACCTAAAACATTATTTTTTACAGGAAATATAAATAT
1 AAAATGTT-TATTTTTTCGGTAAAGCGCTACCTAAAACATTATTTTTTACAGAAAATATAAATAT
* *
83448 TGGGCGCTACCT
65 TAGACGCTACCT
** * * * * *
83460 AAAATGTTTAACATTTTCGGTAAAGCGCTATCTAAAGCATTATTTTTTCTACCGAAAATGTTAAT
1 AAAATGTTT-ATTTTTTCGGTAAAGCGCTACCTAAAACATTA-TTTTT-TACAGAAAATATAAAT
*
83525 ATTAGATGCTACCT
63 ATTAGACGCTACCT
83539 AAAATG-TTATTTTTTC
1 AAAATGTTTATTTTTTC
83555 TACCGAAAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
76 1 0.01
77 39 0.51
78 7 0.09
79 29 0.38
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (76 bp):
AAAATGTTTATTTTTTCGGTAAAGCGCTACCTAAAACATTATTTTTTACAGAAAATATAAATATT
AGACGCTACCT
Found at i:86784 original size:3 final size:3
Alignment explanation
Indices: 86776--86835 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
86766 ATATATAAAT
* * *
86776 TAA TAA TAA TAA TAC TAA -AA TTAA TAA TAA GTAA TTA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA TAA TAA
* *
86822 TAG TAA TAA CAA TA
1 TAA TAA TAA TAA TA
86836 TAAAAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:86785 original size:21 final size:21
Alignment explanation
Indices: 86759--86810 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
86749 GGGCCTACAA
*
86759 AATAATTATA-TATAAATTAAT
1 AATAATAATACTA-AAATTAAT
86780 AATAATAATACTAAAATTAAT
1 AATAATAATACTAAAATTAAT
86801 AATAAGTAAT
1 AATAA-TAAT
86811 TATTATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AATAATAATACTAAAATTAAT
Found at i:92392 original size:21 final size:22
Alignment explanation
Indices: 92367--92409 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
92357 ACATAGTATT
92367 AAATAA-AAATA-ATAATAGAAA
1 AAATAAGAAATATAT-ATAGAAA
92388 AAATAAGAAATATATATAGAAA
1 AAATAAGAAATATATATAGAAA
92410 CATATAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 12 0.60
23 2 0.10
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (22 bp):
AAATAAGAAATATATATAGAAA
Found at i:94140 original size:106 final size:107
Alignment explanation
Indices: 93956--94187 Score: 331
Period size: 106 Copynumber: 2.2 Consensus size: 107
93946 ATCTTCTGTC
* * * * ***
93956 GTGAAGTTGAAGTTGGTTCTGGAACTGGGAAATTGTTTTGTTGACAGTTAGCCGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
*
94021 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATGCCCTTCAAT
66 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
*
94063 GTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTG-TTTGTTGACAACCAGCCGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
* * * **
94127 TGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCT
66 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
94169 GTGAAGTTGAAATTGGCTC
1 GTGAAGTTGAAATTGGCTC
94188 TAGCTAAAAC
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
106 81 0.73
107 30 0.27
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (107 bp):
GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
Found at i:94633 original size:31 final size:31
Alignment explanation
Indices: 94598--94726 Score: 75
Period size: 31 Copynumber: 3.9 Consensus size: 31
94588 GGGAAATAAA
94598 CTCAAA-GATTTTGTGTTTCAAGAGAAACTGT
1 CTCAAACGATTTTGTGTTTCAAGAGAAACT-T
** * *
94629 CTCAAGGGAGACGAAATT-TGTTTCAAGGGAAACAAT
1 CTC-A---A-ACGATTTTGTGTTTCAAGAGAAAC-TT
*
94665 CTCAAA-GGTTTTGTGTTTCAAGAGAAACATT
1 CTCAAACGATTTTGTGTTTCAAGAGAAAC-TT
* * *
94696 TTCAAAGGTTTTTTTGTGTTTCAAGAGAAAC
1 CTCAAACG--ATTTTGTGTTTCAAGAGAAAC
94727 AATTTCAAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
30 3 0.04
31 25 0.33
32 3 0.04
34 20 0.26
35 2 0.03
36 19 0.25
37 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (31 bp):
CTCAAACGATTTTGTGTTTCAAGAGAAACTT
Found at i:94682 original size:67 final size:67
Alignment explanation
Indices: 94500--94692 Score: 235
Period size: 67 Copynumber: 2.8 Consensus size: 67
94490 TGTCTTAAAA
* * * * * *
94500 AGACAGAATTCGTTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTCATGAGAAACGACCTCA
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGACCTCA
94565 AGGG
64 AGGG
* * * *
94569 AGACAAAATTTTGTTTTAAGGGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTG-TCTCA
1 AGACAAAA-TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC-GACCTCA
94633 AGGG
64 AGGG
* *
94637 AGACGAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC
94693 ATTTTCAAAG
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
67 44 0.41
68 29 0.27
69 11 0.10
70 23 0.21
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (67 bp):
AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGACCTCAAG
GG
Found at i:94753 original size:36 final size:34
Alignment explanation
Indices: 94647--94762 Score: 166
Period size: 34 Copynumber: 3.4 Consensus size: 34
94637 AGACGAAATT
* *
94647 TGTTTCAAGGGAAACAATCTCAAAGG---TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
*
94678 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
94712 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG-TT-TTTTTG
94748 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
94763 TGTATCAAGG
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 23 0.30
34 30 0.39
35 2 0.03
36 21 0.28
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (34 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
Found at i:94859 original size:38 final size:36
Alignment explanation
Indices: 94802--95324 Score: 197
Period size: 37 Copynumber: 15.4 Consensus size: 36
94792 CAAGGATTGA
*
94802 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
94839 TGTTTTAAGAAAAACATGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
94876 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
94912 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
94941 TGTTTCAAGGGAAACTGTTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
94970 ATGTTTCAATAGAAACTGTCTCAA-ATGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
95007 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
95043 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
95071 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
95109 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
95143 TATTTCAAGGGAAA-TGCTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
95171 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
95209 TGTTCCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
95237 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
95275 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
95311 CATTTCAAGGGAAA
1 TGTTTCAAGAGAAA
95325 TGTTTTCAAT
Statistics
Matches: 368, Mismatches: 64, Indels: 109
0.68 0.12 0.20
Matches are distributed among these distances:
28 7 0.02
29 64 0.17
30 34 0.09
31 1 0.00
32 6 0.02
33 5 0.01
34 21 0.06
35 7 0.02
36 94 0.26
37 106 0.29
38 23 0.06
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:94966 original size:30 final size:30
Alignment explanation
Indices: 94930--94988 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
94920 GTAAAACATA
*
94930 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTGTT
*
94960 TTCAAAGTTTATGTTTCAATAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
94989 CTCAAATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:95177 original size:100 final size:101
Alignment explanation
Indices: 94943--95222 Score: 456
Period size: 100 Copynumber: 2.8 Consensus size: 101
94933 AAAGATTTTG
* * **
94943 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAATAGAAACTGTCTCAAATGAGACAAAA-TT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
95007 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAATTCA
*
95045 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
95110 GTTTCAAGGGAAACTATCTCAAGAGAGAC-AATTTA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAATTCA
*
95145 TTTCAAGGGAAATGCTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
95210 GTTCCAAGGGAAA
66 GTTTCAAGGGAAA
95223 TGTTTTCAAT
Statistics
Matches: 168, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
100 80 0.48
101 44 0.26
102 44 0.26
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (101 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAATTCA
Found at i:95240 original size:166 final size:166
Alignment explanation
Indices: 95007--95392 Score: 614
Period size: 166 Copynumber: 2.3 Consensus size: 166
94997 AGACAAAATT
* * *
95007 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-TTGTTCAAGGGAAATGTTTTCAATGTTT
*
95071 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
95136 GAC-AATTTATTTCAAGGGAAATGCTTTCAATGTTTA
130 GACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
*
95172 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTT-CAAGGGAAATGTTTTCAATGTTT
95237 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
95302 GACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
130 GAC-AAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
* * *
95340 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTCTGTTTCGAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTT-TG-TTCAAGGGAAA
95393 CTATCTCAAG
Statistics
Matches: 204, Mismatches: 10, Indels: 9
0.91 0.04 0.04
Matches are distributed among these distances:
164 1 0.00
165 35 0.17
166 90 0.44
168 63 0.31
169 3 0.01
170 10 0.05
171 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (166 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:95243 original size:66 final size:65
Alignment explanation
Indices: 95109--95288 Score: 276
Period size: 66 Copynumber: 2.8 Consensus size: 65
95099 GACAAAATTT
* * *
95109 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATTTAT-TTCAAGGGAAATGCTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT-TGTTCAAGGGAAATGCTTTCAATGTTT
95171 A
65 A
*
95172 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT-CAAGGGAAATGCTTTCAATGTTT
95237 A
65 A
95238 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG-TTCAAGGGAAA
95289 CTATCTCAAG
Statistics
Matches: 108, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
63 27 0.25
64 1 0.01
65 7 0.06
66 71 0.66
67 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:95350 original size:102 final size:105
Alignment explanation
Indices: 95172--95413 Score: 366
Period size: 102 Copynumber: 2.3 Consensus size: 105
95162 TCAATGTTTA
* * * *
95172 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTT
*
95237 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT-
66 ATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
95275 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TT-CAAGGGAAATGTTTTCAATGTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT-ATGTTCCAAGGGAAATGTTTTCAATGTT
*
95338 TATGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTC
65 TATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
* * *
95379 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
95414 CTTGTTTTAA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
102 56 0.44
103 38 0.30
104 33 0.26
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (105 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTT
ATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
Found at i:96922 original size:183 final size:183
Alignment explanation
Indices: 96614--96963 Score: 637
Period size: 183 Copynumber: 1.9 Consensus size: 183
96604 GGTTTAACTA
96614 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
* **
96679 AGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
96744 CTATAACCAATTGCCTTAGTGGAATAACTCAGCTTTAGAGGGACAAATCACTG
131 CTATAACCAATTGCCTTAGTGGAATAACTCAGCTTTAGAGGGACAAATCACTG
* *
96797 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACTGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
*
96862 AGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
*
96927 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 CTATAACCAATTGCCTTAGTGGAATAACTCAGCTTTA
96964 CGGATTTAAT
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 160 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
CTATAACCAATTGCCTTAGTGGAATAACTCAGCTTTAGAGGGACAAATCACTG
Found at i:100945 original size:21 final size:21
Alignment explanation
Indices: 100907--100957 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
100897 ACATAGTATT
100907 AAATAA-AAATAATAATAGAA
1 AAATAAGAAATAATAATAGAA
100927 AAATAAGAAAT-ATATATAGAA
1 AAATAAGAAATAATA-ATAGAA
*
100948 ACATATAGAA
1 AAATA-AGAA
100958 CAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 14 0.52
22 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
AAATAAGAAATAATAATAGAA
Found at i:110909 original size:2 final size:2
Alignment explanation
Indices: 110904--110928 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
110894 AATAGAAAAA
110904 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
110929 AGAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112170 original size:56 final size:56
Alignment explanation
Indices: 112084--112195 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
112074 CAGTATTATG
112084 TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
1 TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
112140 TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
1 TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
112196 AGAAACTCCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (56 bp):
TTAAGTCGTTTTGATTTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT
Found at i:112215 original size:56 final size:55
Alignment explanation
Indices: 112099--112216 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 55
112089 TCGTTTTGAT
** * *** *
112099 TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGATTTAAGTCGTTTTGAT
1 TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGATGAAACTCAAGTT-AC
112155 TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGATAGAAACTCCAAGTT-C
1 TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGAT-GAAACT-CAAGTTAC
112211 TTCACA
1 TTCACA
112217 CATTATAGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 47 0.89
57 3 0.06
58 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (55 bp):
TTCACAATTGAACTTCTTTCCAGGATTCAATAATTTTCGATGAAACTCAAGTTAC
Found at i:125214 original size:17 final size:18
Alignment explanation
Indices: 125190--125232 Score: 79
Period size: 17 Copynumber: 2.4 Consensus size: 18
125180 ATGATTTTTA
125190 TCTTTCTTCTTCTCTTCG
1 TCTTTCTTCTTCTCTTCG
125208 T-TTTCTTCTTCTCTTCG
1 TCTTTCTTCTTCTCTTCG
125225 TCTTTCTT
1 TCTTTCTT
125233 TATTTTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.05, T:0.65
Consensus pattern (18 bp):
TCTTTCTTCTTCTCTTCG
Done.