Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005049.1 Hibiscus syriacus cultivar Beakdansim tig00011338_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: 139103
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:968 original size:20 final size:19
Alignment explanation
Indices: 936--974 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
926 ACTCAGACTG
936 AACCGAGTAAACCCGAACC
1 AACCGAGTAAACCCGAACC
*
955 AACCTGAGTCAACCCGAACC
1 AACC-GAGTAAACCCGAACC
975 GGTCTGACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.38, G:0.15, T:0.08
Consensus pattern (19 bp):
AACCGAGTAAACCCGAACC
Found at i:1640 original size:26 final size:26
Alignment explanation
Indices: 1610--1663 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1600 ATGAGGTAAA
*
1610 AATGGTCTGAACTGACCCTGATAGTG
1 AATGGTCCGAACTGACCCTGATAGTG
1636 AATGGTCCGAACTGACCCTGATAGTG
1 AATGGTCCGAACTGACCCTGATAGTG
1662 AA
1 AA
1664 ATTACCTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (26 bp):
AATGGTCCGAACTGACCCTGATAGTG
Found at i:4189 original size:30 final size:30
Alignment explanation
Indices: 4153--4233 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
4143 CAAAATTTAT
* * *
4153 AACTTTTAAAAATTACATTTTTGGTCCTTA
1 AACTTTTAAAAATTAAATTTTTGGTCATAA
* * *
4183 AACTTTTTAAAATT-TATACTTTGGTCATAA
1 AACTTTTAAAAATTAAAT-TTTTGGTCATAA
*
4213 AACTTTTAAAACTTAAATTTT
1 AACTTTTAAAAATTAAATTTT
4234 AGTCACCAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 2 0.05
30 36 0.90
31 2 0.05
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (30 bp):
AACTTTTAAAAATTAAATTTTTGGTCATAA
Found at i:4238 original size:29 final size:29
Alignment explanation
Indices: 4153--4238 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
4143 CAAAATTTAT
* * *
4153 AACTTTTAAAAATTACATTTTTGGTCCTTA
1 AACTTTTAAAAATTA-AATTTTGGTCATAA
* * *
4183 AACTTTTTAAAATTTATACTTTGGTCATAA
1 AAC-TTTTAAAAATTAAATTTTGGTCATAA
* *
4213 AACTTTTAAAACTTAAATTTTAGTCA
1 AACTTTTAAAAATTAAATTTTGGTCA
4239 CCAACCAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 19 0.42
30 15 0.33
31 11 0.24
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (29 bp):
AACTTTTAAAAATTAAATTTTGGTCATAA
Found at i:10527 original size:20 final size:21
Alignment explanation
Indices: 10504--10551 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
10494 CCCTTAGGGT
10504 TTATAATAATAATA-ATAATA
1 TTATAATAATAATATATAATA
* *
10524 TTATATTAATATTATATAATA
1 TTATAATAATAATATATAATA
10545 -TATAATA
1 TTATAATA
10552 TAAACGTCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTATAATAATAATATATAATA
Found at i:10535 original size:11 final size:10
Alignment explanation
Indices: 10504--10545 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
10494 CCCTTAGGGT
10504 TTATAATAATA
1 TTAT-ATAATA
*
10515 ATA-ATAATA
1 TTATATAATA
10524 TTATATTAATA
1 TTATA-TAATA
10535 TTATATAATA
1 TTATATAATA
10545 T
1 T
10546 ATAATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 8 0.30
10 7 0.26
11 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TTATATAATA
Found at i:10550 original size:17 final size:17
Alignment explanation
Indices: 10505--10552 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
10495 CCTTAGGGTT
*
10505 TATAATA-ATAATAATA
1 TATAATATATAATATTA
*
10521 -ATATTATATTAATATTA
1 TATAATATA-TAATATTA
10538 TATAATATATAATAT
1 TATAATATATAATAT
10553 AAACGTCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.19
16 1 0.04
17 13 0.50
18 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATATATAATATTA
Found at i:10553 original size:14 final size:13
Alignment explanation
Indices: 10506--10553 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
10496 CTTAGGGTTT
10506 ATAATA-ATAATA
1 ATAATATATAATA
*
10518 ATAATATTATATTA
1 ATAATA-TATAATA
*
10532 ATATTATATAATA
1 ATAATATATAATA
10545 TATAATATA
1 -ATAATATA
10554 AACGTCACTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 6 0.21
14 17 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATATATAATA
Found at i:10835 original size:36 final size:36
Alignment explanation
Indices: 10715--10840 Score: 87
Period size: 36 Copynumber: 3.3 Consensus size: 36
10705 CTTGCTCCTG
*
10715 CTTCACTACTCTTCCGTGAAGGTCTGAATTGAATTAATTTTG-
1 CTTCACTACTCTTCCGTGAAGGT-TGAA---AA-TGA--TTGA
* ** **
10757 CTTCCACTACTCTTCCATGAATATTGACAAA-GATCAA
1 CTT-CACTACTCTTCCGTGAAGGTTGA-AAATGATTGA
*
10794 TTTCACTACTCTTCCGTGAAGGTTGAAAATGATTGA
1 CTTCACTACTCTTCCGTGAAGGTTGAAAATGATTGA
10830 CTTCAC-ACTCT
1 CTTCACTACTCT
10841 GATAAGAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
35 8 0.12
36 30 0.45
37 2 0.03
38 1 0.01
40 2 0.03
42 6 0.09
43 18 0.27
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (36 bp):
CTTCACTACTCTTCCGTGAAGGTTGAAAATGATTGA
Found at i:11006 original size:36 final size:35
Alignment explanation
Indices: 10959--11087 Score: 168
Period size: 36 Copynumber: 3.6 Consensus size: 35
10949 CTTTTGCTTC
* * * *
10959 CACTATTCTTCCGTGGATGTTAACAATGATCAACTT
1 CACTACTCTTCCGTGAAGGTTAA-AATGATCGACTT
10995 CACTACTCTTCCGTGAAGGTTGAAAATGATCGACTT
1 CACTACTCTTCCGTGAAGGTT-AAAATGATCGACTT
* *
11031 TACTACTCTTCCGTGAAGGTCGAAAATGATCGACTT
1 CACTACTCTTCCGTGAAGGT-TAAAATGATCGACTT
*
11067 CACTACTCTTTCGTGAAGGTT
1 CACTACTCTTCCGTGAAGGTT
11088 TGAACATGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
36 80 0.98
37 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (35 bp):
CACTACTCTTCCGTGAAGGTTAAAATGATCGACTT
Found at i:11387 original size:20 final size:20
Alignment explanation
Indices: 11362--11487 Score: 80
Period size: 20 Copynumber: 6.3 Consensus size: 20
11352 TCGAAGACTG
*
11362 ACAAATGACCTTA-AGGATTT
1 ACAAATGACC-CAGAGGATTT
* *
11382 ACAAATTACCCAGAGGTTTT
1 ACAAATGACCCAGAGGATTT
11402 ACAAATGACCCA-ACGG-TCTT
1 ACAAATGACCCAGA-GGAT-TT
* *
11422 ACAAAT-AACCAGAAGGTTTT
1 ACAAATGACCCAG-AGGATTT
* * *
11442 ACAAATAACCCGGAGGTTTT
1 ACAAATGACCCAGAGGATTT
* * **
11462 ACAAATTACCTAGAGCTTTT
1 ACAAATGACCCAGAGGATTT
11482 ACAAAT
1 ACAAAT
11488 CATCCGGAGA
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
19 7 0.08
20 75 0.85
21 6 0.07
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
ACAAATGACCCAGAGGATTT
Found at i:11406 original size:40 final size:38
Alignment explanation
Indices: 11362--11487 Score: 128
Period size: 40 Copynumber: 3.2 Consensus size: 38
11352 TCGAAGACTG
*
11362 ACAAATGACCTTAAGGATTTACAAATTACCCAGAGGTTTT
1 ACAAATGACC-CAAGG-TTTACAAATTACCCAGAGGTTTT
*
11402 ACAAATGACCCAACGGTCTTACAAA-TAACCAGAAGGTTTT
1 ACAAATGACCCAA-GGT-TTACAAATTACCCAG-AGGTTTT
* * * *
11442 ACAAATAACCCGGAGGTTTTACAAATTACCTAGAGCTTTT
1 ACAAATGACCC-AAGG-TTTACAAATTACCCAGAGGTTTT
11482 ACAAAT
1 ACAAAT
11488 CATCCGGAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
39 9 0.12
40 57 0.78
41 7 0.10
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (38 bp):
ACAAATGACCCAAGGTTTACAAATTACCCAGAGGTTTT
Found at i:11495 original size:40 final size:38
Alignment explanation
Indices: 11379--11508 Score: 134
Period size: 40 Copynumber: 3.3 Consensus size: 38
11369 ACCTTAAGGA
* **
11379 TTTACAAATTACCCAGAGGTTTTACAAATGACCCAACGGT
1 TTTACAAATTA-CCAGAGGTTTTACAAATAACCGGA-GGT
* *
11419 CTTACAAATAACCAGAAGGTTTTACAAATAACCCGGAGGT
1 TTTACAAATTACCAG-AGGTTTTACAAATAA-CCGGAGGT
* * *
11459 TTTACAAATTACCTAGAGCTTTTACAAATCATCCGGAGAT
1 TTTACAAATTACC-AGAGGTTTTACAAAT-AACCGGAGGT
11499 TTTACAAATT
1 TTTACAAATT
11509 CATGGGAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
39 4 0.05
40 66 0.87
41 6 0.08
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (38 bp):
TTTACAAATTACCAGAGGTTTTACAAATAACCGGAGGT
Found at i:11501 original size:20 final size:19
Alignment explanation
Indices: 11420--11507 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 19
11410 CCCAACGGTC
* *
11420 TTACAAATAACCAGAAGGTT
1 TTACAAATAACC-GGAGATT
*
11440 TTACAAATAACCCGGAGGTT
1 TTACAAATAA-CCGGAGATT
* * *
11460 TTACAAATTACCTAGAGCTT
1 TTACAAATAACC-GGAGATT
*
11480 TTACAAATCATCCGGAGATT
1 TTACAAAT-AACCGGAGATT
11500 TTACAAAT
1 TTACAAAT
11508 TCATGGGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
19 2 0.04
20 51 0.89
21 4 0.07
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
TTACAAATAACCGGAGATT
Found at i:11502 original size:60 final size:60
Alignment explanation
Indices: 11379--11507 Score: 145
Period size: 60 Copynumber: 2.1 Consensus size: 60
11369 ACCTTAAGGA
* * *
11379 TTTACAAATTACCCAGAGGTTTTACAAATGACCCAACGGTCTTACAAATAACCAGAAGGT
1 TTTACAAATAACCCAGAGGTTTTACAAATGACCCAACGCTCTTACAAATAACCAGAAGAT
* * * * * *
11439 TTTACAAATAACCCGGAGGTTTTACAAATTACCTAGA-GCTTTTACAAATCATCC-GGAGAT
1 TTTACAAATAACCCAGAGGTTTTACAAATGACCCA-ACGCTCTTACAAAT-AACCAGAAGAT
11499 TTTACAAAT
1 TTTACAAAT
11508 TCATGGGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
60 54 0.93
61 4 0.07
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (60 bp):
TTTACAAATAACCCAGAGGTTTTACAAATGACCCAACGCTCTTACAAATAACCAGAAGAT
Found at i:13025 original size:41 final size:41
Alignment explanation
Indices: 12950--13077 Score: 177
Period size: 41 Copynumber: 3.1 Consensus size: 41
12940 TTTTTGCCTG
* ** * * *
12950 AAATGAGCTTTCAAAATG-CCCCACATTTTATTTCTGGTTA
1 AAATGGGCTTTCAGCATGTCCCAACATTCTATTTCTGATTA
*
12990 AAATGGGCTTTCAGCATGTCCCAACATTCTATTTCTGATAA
1 AAATGGGCTTTCAGCATGTCCCAACATTCTATTTCTGATTA
*
13031 AAATGGGCTTTCAGCATGTCCCATCATTCTATTTCTGATTA
1 AAATGGGCTTTCAGCATGTCCCAACATTCTATTTCTGATTA
13072 AAATGG
1 AAATGG
13078 ACCTTCAACA
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 15 0.19
41 63 0.81
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (41 bp):
AAATGGGCTTTCAGCATGTCCCAACATTCTATTTCTGATTA
Found at i:24941 original size:44 final size:43
Alignment explanation
Indices: 24869--24959 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 43
24859 GTGCATAATG
* * *
24869 CATCGATACACTAGATAGTGCATCGATGCA-TCCCTTGAATGTA
1 CATCGATACACCAGAAAGTGCACCGATGCACT-CCTTGAATGTA
* *
24912 CATCGATACACCATAAAGGTGCACCGATGCACTCCTTGAATGTG
1 CATCGATACACCAGAAA-GTGCACCGATGCACTCCTTGAATGTA
24956 CATC
1 CATC
24960 AATGCACTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 14 0.34
44 26 0.63
45 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
CATCGATACACCAGAAAGTGCACCGATGCACTCCTTGAATGTA
Found at i:26969 original size:2 final size:2
Alignment explanation
Indices: 26962--27026 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
26952 CTTACATGCT
26962 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27004 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
27027 TTGGTGTGGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27332 original size:13 final size:13
Alignment explanation
Indices: 27310--27361 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
27300 AAGGGGAGTA
27310 ATTTTACAAAATT
1 ATTTTACAAAATT
* * *
27323 GTTTTTCAAAGAGTA
1 ATTTTACAAA-A-TT
27338 ATTTTACAAAATT
1 ATTTTACAAAATT
*
27351 ATTTTTCAAAA
1 ATTTTACAAAA
27362 ATGATTTTCC
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
13 19 0.63
14 2 0.07
15 9 0.30
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (13 bp):
ATTTTACAAAATT
Found at i:27345 original size:28 final size:28
Alignment explanation
Indices: 27305--27360 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
27295 GTAGTAAGGG
*
27305 GAGTAATTTTACAAAATTGTTTTTCAAA
1 GAGTAATTTTACAAAATTATTTTTCAAA
27333 GAGTAATTTTACAAAATTATTTTTCAAA
1 GAGTAATTTTACAAAATTATTTTTCAAA
27361 AATGATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (28 bp):
GAGTAATTTTACAAAATTATTTTTCAAA
Found at i:27819 original size:19 final size:19
Alignment explanation
Indices: 27795--27845 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
27785 ATGCATTTTG
* *
27795 TGTACCGATTCACATATCA
1 TGTACCGATGCACAGATCA
27814 TGTACCGATGCACAGATCA
1 TGTACCGATGCACAGATCA
* *
27833 TGCATCGATGCAC
1 TGTACCGATGCAC
27846 TCTAGGCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (19 bp):
TGTACCGATGCACAGATCA
Found at i:27882 original size:84 final size:84
Alignment explanation
Indices: 27730--27887 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 84
27720 ATGCATTTTG
* * * * *
27730 TGTAGCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCTAATGCATTTTG
1 TGTACCGATGCACAAGCCATGCATCGATGCACTCTAGAATATTTTGAAACATCGAATGCAATTAG
27795 TGTACCGATTCACATATCA
66 TGTACCGATTCACATATCA
* ** *
27814 TGTACCGATGCAC-AGATCATGCATCGATGCACTCTAGGCTCA-TTTGAAACATCGAATGTAATT
1 TGTACCGATGCACAAG-CCATGCATCGATGCACTCTAGAAT-ATTTTGAAACATCGAATGCAATT
27877 AGTGTACCGAT
64 AGTGTACCGAT
27888 GCACCCCTAG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 2 0.03
84 60 0.95
85 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (84 bp):
TGTACCGATGCACAAGCCATGCATCGATGCACTCTAGAATATTTTGAAACATCGAATGCAATTAG
TGTACCGATTCACATATCA
Found at i:27902 original size:84 final size:85
Alignment explanation
Indices: 27729--27910 Score: 201
Period size: 84 Copynumber: 2.2 Consensus size: 85
27719 AATGCATTTT
* * * * *
27729 GTGTAGCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCTAATGCATTTT
1 GTGTACCGATGCACAAGCCATGCATCGATGCACTCTAGAATATTTTGAAACATCGAATGCAATTA
* *
27794 GTGTACCGATTCACATATCA
66 GTGTACCGATGCACACATCA
* ** *
27814 -TGTACCGATGCAC-AGATCATGCATCGATGCACTCTAGGCTCA-TTTGAAACATCGAATGTAAT
1 GTGTACCGATGCACAAG-CCATGCATCGATGCACTCTAGAAT-ATTTTGAAACATCGAATGCAAT
* *
27876 TAGTGTACCGATGCACCCCT-A
64 TAGTGTACCGATGCACACATCA
27897 GTGTACCGATGCAC
1 GTGTACCGATGCAC
27911 TAAGTTTTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
83 3 0.04
84 77 0.95
85 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (85 bp):
GTGTACCGATGCACAAGCCATGCATCGATGCACTCTAGAATATTTTGAAACATCGAATGCAATTA
GTGTACCGATGCACACATCA
Found at i:28992 original size:16 final size:16
Alignment explanation
Indices: 28940--29000 Score: 70
Period size: 16 Copynumber: 3.7 Consensus size: 16
28930 ACATTTTAGG
28940 TATTAAAA-TATAAATA
1 TATTAAAATTATAAA-A
* *
28956 TATTATAATAATATTAAA
1 TATTA-AA-ATTATAAAA
28974 TATTAAAATTATAAAA
1 TATTAAAATTATAAAA
28990 TATTAAAATTA
1 TATTAAAATTA
29001 ATGAACATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
16 23 0.59
17 4 0.10
18 7 0.18
19 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTAAAATTATAAAA
Found at i:31474 original size:2 final size:2
Alignment explanation
Indices: 31461--31501 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
31451 AAAATATGGA
*
31461 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31502 ATTAACAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:32352 original size:83 final size:83
Alignment explanation
Indices: 32240--32394 Score: 224
Period size: 83 Copynumber: 1.9 Consensus size: 83
32230 AATAAATGCT
* *
32240 GCGATAGAGTAGTACTTTAGATGTGTTTTTGTAAAAATGCCATAATATG-GTTCGTT-TATAGTG
1 GCGATAGAGTAGTACTTTAGATGTGTTTTTGTAAAAATACCACAATA-GAGTTCGTTCT-TAGTG
*
32303 GTGTTTTTCCCATAAACGTC
64 GCGTTTTTCCCATAAACGTC
* * *
32323 GCGATAGAGTAGTACTTTAGCTGTGTTTTTGTAGAAATACCGCAATAGAGTTCGTTCTTAGTGGC
1 GCGATAGAGTAGTACTTTAGATGTGTTTTTGTAAAAATACCACAATAGAGTTCGTTCTTAGTGGC
32388 GTTTTTC
66 GTTTTTC
32395 TAACAGACGC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
82 1 0.02
83 62 0.97
84 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (83 bp):
GCGATAGAGTAGTACTTTAGATGTGTTTTTGTAAAAATACCACAATAGAGTTCGTTCTTAGTGGC
GTTTTTCCCATAAACGTC
Found at i:32409 original size:83 final size:83
Alignment explanation
Indices: 32214--32411 Score: 213
Period size: 83 Copynumber: 2.4 Consensus size: 83
32204 GCTGTGTTTA
* * * * *
32214 TATAGTGACATTTTT-CAATAAATGCTGCGATAGAGTAGTACTTTAGATGTGTTTTTGTAAAAAT
1 TATAGTGGCGTTTTTCCAACAAACGCCGCGATAGAGTAGTACTTTAGATGTGTTTTTGTAAAAAT
* *
32278 GCCATAATATGGTTCGTT
66 ACCACAATATGGTTCGTT
* * * * * *
32296 TATAGTGGTGTTTTTCCCATAAACGTCGCGATAGAGTAGTACTTTAGCTGTGTTTTTGTAGAAAT
1 TATAGTGGCGTTTTTCCAACAAACGCCGCGATAGAGTAGTACTTTAGATGTGTTTTTGTAAAAAT
*
32361 ACCGCAATA-GAGTTCGTT
66 ACCACAATATG-GTTCGTT
* *
32379 CT-TAGTGGCGTTTTTCTAACAGACGCCGCGATA
1 -TATAGTGGCGTTTTTCCAACAAACGCCGCGATA
32412 AAAAGTACTA
Statistics
Matches: 95, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
82 13 0.14
83 81 0.85
84 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
TATAGTGGCGTTTTTCCAACAAACGCCGCGATAGAGTAGTACTTTAGATGTGTTTTTGTAAAAAT
ACCACAATATGGTTCGTT
Found at i:35257 original size:12 final size:12
Alignment explanation
Indices: 35240--35271 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
35230 AATCCCATGT
35240 ACAAATTTATCC
1 ACAAATTTATCC
35252 ACAAATTTATCC
1 ACAAATTTATCC
*
35264 AGAAATTT
1 ACAAATTT
35272 TTCTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (12 bp):
ACAAATTTATCC
Found at i:36657 original size:29 final size:30
Alignment explanation
Indices: 36587--36646 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
36577 CAATTTAAGG
36587 CAAAATGGTTTTTAGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTAGACTTGAATTGAATTTA
*
36618 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTAGACTTGAATTGAATTTA
36647 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTAGACTTGAATTGAATTTA
Found at i:36777 original size:22 final size:23
Alignment explanation
Indices: 36747--36789 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
36737 GCACCCCTGC
36747 AGTGAATCCATGCAC-ATGCACT
1 AGTGAATCCATGCACAATGCACT
*
36769 AGTGCATCCATGCACAATGCA
1 AGTGAATCCATGCACAATGCA
36790 GTGCATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (23 bp):
AGTGAATCCATGCACAATGCACT
Found at i:40170 original size:29 final size:29
Alignment explanation
Indices: 40138--40204 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
40128 AATTGAATTT
40138 ATTCAAAGTTTTAAAAGGTTTCAAAAATA
1 ATTCAAAGTTTTAAAAGGTTTCAAAAATA
40167 ATTCAAAGTTTTAAAAGGTTTCAAAAATA
1 ATTCAAAGTTTTAAAAGGTTTCAAAAATA
40196 ATTCAAAGT
1 ATTCAAAGT
40205 CCATTAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (29 bp):
ATTCAAAGTTTTAAAAGGTTTCAAAAATA
Found at i:40273 original size:21 final size:21
Alignment explanation
Indices: 40247--40345 Score: 105
Period size: 21 Copynumber: 4.7 Consensus size: 21
40237 AGGGTGTCAA
40247 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* * *
40268 AGTGCATCTATGCATCCCTAC
1 AGTGCATCCATGCACCCCTGC
40289 AGTGCATCCATGCACCTACACT--
1 AGTGCATCCATGCACC--C-CTGC
* *
40311 AGTGCATCGATGCA-CCATGC
1 AGTGCATCCATGCACCCCTGC
40331 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
40346 TCAAACACCG
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 13 0.20
21 33 0.52
22 13 0.20
23 1 0.02
24 2 0.03
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:40334 original size:42 final size:41
Alignment explanation
Indices: 40247--40345 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
40237 AGGGTGTCAA
* *
40247 AGTGCATCCATGCACCCCTGCAGTGCATCTATGCATCCCTAC
1 AGTGCATCCATGCACCCCT-CAGTGCATCGATGCATCCATAC
*
40289 AGTGCATCCATGCACCTACACT-AGTGCATCGATGCA-CCATGC
1 AGTGCATCCATGCACC--C-CTCAGTGCATCGATGCATCCATAC
40331 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
40346 TCAAACACCG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
42 35 0.69
43 13 0.25
44 1 0.02
45 2 0.04
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.22
Consensus pattern (41 bp):
AGTGCATCCATGCACCCCTCAGTGCATCGATGCATCCATAC
Found at i:40411 original size:21 final size:21
Alignment explanation
Indices: 40366--40483 Score: 127
Period size: 21 Copynumber: 5.7 Consensus size: 21
40356 AATGCAATTA
*
40366 GTGCATCGATGCATCCT--TCT
1 GTGCATCGATGCATCATGGT-T
40386 GTGCATCGATGCATCATGGTT
1 GTGCATCGATGCATCATGGTT
* *
40407 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCATGGTT
*
40428 GTGCATCGATGCATCCT--TCT
1 GTGCATCGATGCATCATGGT-T
* *
40448 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCATGGTT
*
40469 GTCCATCGATGCATC
1 GTGCATCGATGCATC
40484 CTGCTGTGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
20 32 0.39
21 50 0.60
22 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (21 bp):
GTGCATCGATGCATCATGGTT
Found at i:40432 original size:62 final size:62
Alignment explanation
Indices: 40366--40483 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 62
40356 AATGCAATTA
* * *
40366 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCATGGTTGTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAAGGCTGTCCATCGATGCATCAAGGCT
40428 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAAGGCTGTCCATCGATGCATC
1 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAAGGCTGTCCATCGATGCATC
40484 CTGCTGTGCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (62 bp):
GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAAGGCTGTCCATCGATGCATCAAGGCT
Found at i:40510 original size:41 final size:41
Alignment explanation
Indices: 40366--40495 Score: 181
Period size: 41 Copynumber: 3.2 Consensus size: 41
40356 AATGCAATTA
*** * *
40366 GTGCATCGATGCATC-CTTCTGTGCATCGATGCATCATGGTT
1 GTGCATCGATGCATCAAGGCTGTGCATCGATGCATCCT-GCT
*
40407 GTGCATCGATGCATCAAGGCTGTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCAAGGCTGTGCATCGATGCATCCTGCT
*
40448 GTGCATCGATGCATCAAGGCTGTCCATCGATGCATCCTGCT
1 GTGCATCGATGCATCAAGGCTGTGCATCGATGCATCCTGCT
40489 GTGCATC
1 GTGCATC
40496 CATACACGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 62 0.77
42 18 0.22
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (41 bp):
GTGCATCGATGCATCAAGGCTGTGCATCGATGCATCCTGCT
Found at i:40653 original size:20 final size:22
Alignment explanation
Indices: 40614--40653 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
40604 TTTTAGTATA
40614 AAAATCATCCCCAGACGGCTTC
1 AAAATCATCCCCAGACGGCTTC
40636 AAAA-CATCCCCA-ACGGCT
1 AAAATCATCCCCAGACGGCT
40654 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.35, C:0.38, G:0.12, T:0.15
Consensus pattern (22 bp):
AAAATCATCCCCAGACGGCTTC
Found at i:45778 original size:86 final size:86
Alignment explanation
Indices: 45679--45836 Score: 262
Period size: 86 Copynumber: 1.8 Consensus size: 86
45669 AAAAAAAGCT
* * *
45679 ACTAAAGTTTTAGATATTTTACGACGTTTATGACTAAAAATACCACTATAAAATTGTCAATAACG
1 ACTAAAGTGTTAGATAATTTACGACGTTTATGACTAAAAACACCACTATAAAATTGTCAATAACG
45744 GCGTTTTACTATAAAAATACC
66 GCGTTTTACTATAAAAATACC
* **
45765 ACTAAAGTGTTAGATAATTTACGACGTTTATGACTAAAAACGCCACTATAAAATTGTCAATAGTG
1 ACTAAAGTGTTAGATAATTTACGACGTTTATGACTAAAAACACCACTATAAAATTGTCAATAACG
45830 GCGTTTT
66 GCGTTTT
45837 TATAGTAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (86 bp):
ACTAAAGTGTTAGATAATTTACGACGTTTATGACTAAAAACACCACTATAAAATTGTCAATAACG
GCGTTTTACTATAAAAATACC
Found at i:45812 original size:44 final size:44
Alignment explanation
Indices: 45679--45804 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 44
45669 AAAAAAAGCT
* *
45679 ACTAAAGTTTTAGATATTTTACGACGTTTATGACTAAAAATACC
1 ACTAAAGTATTAGATAATTTACGACGTTTATGACTAAAAATACC
* * *
45723 ACTATAA-AATT-G-TCAA-TAACGGCGTTT-T-ACTATAAAAATACC
1 ACTA-AAGTATTAGAT-AATTTACGACGTTTATGAC--TAAAAATACC
*
45765 ACTAAAGTGTTAGATAATTTACGACGTTTATGACTAAAAA
1 ACTAAAGTATTAGATAATTTACGACGTTTATGACTAAAAA
45805 CGCCACTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
40 2 0.03
41 3 0.05
42 26 0.41
43 5 0.08
44 22 0.35
45 3 0.05
46 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (44 bp):
ACTAAAGTATTAGATAATTTACGACGTTTATGACTAAAAATACC
Found at i:51158 original size:16 final size:16
Alignment explanation
Indices: 51137--51172 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
51127 AACAAAAGGA
51137 CCCATAAAATCTAGTC
1 CCCATAAAATCTAGTC
51153 CCCATAAAATCTAGTC
1 CCCATAAAATCTAGTC
51169 CCCA
1 CCCA
51173 AACATGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.36, G:0.06, T:0.22
Consensus pattern (16 bp):
CCCATAAAATCTAGTC
Found at i:55819 original size:54 final size:54
Alignment explanation
Indices: 55759--56190 Score: 455
Period size: 54 Copynumber: 8.0 Consensus size: 54
55749 ACGTAGTATT
* * *
55759 GATACGGTCGTTCATAAACTTATTATGAA-TTCTATGGGATGCACACTTAGCGTC
1 GATACGGTCGTTCATAAACTTATTATGAATTTC-GTGGGTTGCACACTTAGTGTC
* * *
55813 AATACGGTCGTTCATAAACTTGTTATGAA-TTCTGTGGGGATTGCACACTTAATGTC
1 GATACGGTCGTTCATAAACTTATTATGAATTTC-GT-GGG-TTGCACACTTAGTGTC
* * * * * *
55869 GATATGGTCGTTCATGAACTTACTATGAATTCCGTGGGCTGCACACTTAGTGCC
1 GATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTC
* * *
55923 AATGCGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTG-C
1 GATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTC
* *
55976 TGATACAGTCGTTCATAAA-TATATTATGAATTTCGTGTGTTGCACACTT--TGTAC
1 -GATACGGTCGTTCATAAACT-TATTATGAATTTCGTGGGTTGCACACTTAGTGT-C
* * * * **
56030 TGATACGGTCGTTCATAAACATATTATGAATTCCGTAGGTTGCACACTTGGTACC
1 -GATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTC
* * *
56085 GATACGCTCGTTCA-AAAATATATTATGAATTTCGCGGGTTGCACACTTAGTGTC
1 GATACGGTCGTTCATAAACT-TATTATGAATTTCGTGGGTTGCACACTTAGTGTC
* * * * *
56139 GACACGGTCGATCATAAACTTATTATAAATTTCATGGGTTGTACACTTAGTG
1 GATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTG
56191 ATGTAAGGTC
Statistics
Matches: 314, Mismatches: 52, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.01
53 4 0.01
54 255 0.81
55 11 0.04
56 40 0.13
57 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (54 bp):
GATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTC
Found at i:76305 original size:25 final size:25
Alignment explanation
Indices: 76264--76311 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
76254 TAATCCTAAA
*
76264 ATATACATTATAATAATAATTAATT
1 ATATACATAATAATAATAATTAATT
*
76289 ATATAC-TAATAATTAATGATTAA
1 ATATACATAATAA-TAATAATTAA
76312 ACATAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATACATAATAATAATAATTAATT
Found at i:77563 original size:3 final size:3
Alignment explanation
Indices: 77557--77609 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
77547 TAATATTATT
* * * *
77557 TAA TAA TAA TAT TAT TAA TAA TAA TAA TAA CATG TAA TTAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA TAA TAA
77604 TAA TAA
1 TAA TAA
77610 CATATATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
3 38 0.90
4 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:77576 original size:15 final size:16
Alignment explanation
Indices: 77547--77582 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
77537 TTAGGCTTTG
77547 TAATATTATTTAATAA
1 TAATATTATTTAATAA
77563 TAATATTA-TTAATAA
1 TAATATTATTTAATAA
77578 TAATA
1 TAATA
77583 ATAACATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATATTATTTAATAA
Found at i:77600 original size:23 final size:21
Alignment explanation
Indices: 77557--77625 Score: 86
Period size: 23 Copynumber: 3.1 Consensus size: 21
77547 TAATATTATT
*
77557 TAATAATAATATTATTAATAA
1 TAATAATAACATTATTAATAA
77578 TAATAATAACATGTAATTAATAA
1 TAATAATAACAT-T-ATTAATAA
77601 TAATAATAACA-TATATAATTAA
1 TAATAATAACATTAT-TAA-TAA
77623 TAA
1 TAA
77626 AAAAAACAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
20 2 0.05
21 15 0.35
22 7 0.16
23 19 0.44
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (21 bp):
TAATAATAACATTATTAATAA
Found at i:78229 original size:250 final size:249
Alignment explanation
Indices: 77790--78477 Score: 1051
Period size: 250 Copynumber: 2.8 Consensus size: 249
77780 AATTAGAGAG
* * * * *
77790 TGTAAACATCCTGCCCAAAGGTCTGACGGATGGCCCTAAGGACTTATCATTTTGCTCGAAAGAA-
1 TGTAAACATCCTACCCAAAGGTTTGACGGATGGCCCTAAGGACTTATCATCTGGCTTGAAA-AAC
* ** *
77854 TG-CAGATGACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACTTGAAGGATATA
65 TGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTA
* *
77918 CAAATTCGTGATAAATAATTTACAGAGTAAGAGACTTCTTACTTTTTAAAAATTTGATTTTCAAG
130 CAAATTCGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTCAAG
* * *
77983 AGCATTAAATGAGAAACTTTAAAAATCACTATCTCATTTTCATGCGAAAATCATA
195 AACATTAAATAAGAAACTTTAAAAATCACTATCTCATTTTCATGCAAAAATCATA
78038 TGTAAACATCCTACCCAAAGGTTTGACGGATGGCCCTAAGGACTTATCATCTGGCTTGAAAAACT
1 TGTAAACATCCTACCCAAAGGTTTGACGGATGGCCCTAAGGACTTATCATCTGGCTTGAAAAACT
* * *
78103 GACAGATGACCCGAAGGATTTAAACATCATGATCGAAAGGCTTACAGATGACCCGATGGATTTAC
66 GACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAC
*
78168 AAAATTCGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTCTAG
131 -AAATTCGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTCAAG
* **
78233 AACATTAAATAAGAAACTTTGAAAATTTCTATCTCATTTTCATGCAAAAATCATA
195 AACATTAAATAAGAAACTTTAAAAATCACTATCTCATTTTCATGCAAAAATCATA
** * *
78288 TGTAAACATCCTACCCAAAGGTTTGACGGATGATCCTAATGACTTATCATCTGG-TTCGAAAGAC
1 TGTAAACATCCTACCCAAAGGTTTGACGGATGGCCCTAAGGACTTATCATCTGGCTT-GAAAAAC
* *
78352 TGACAGATGACCCGAAGGATTTAAATATCATGCTCGAAAGACATACAGATGACCCGAAGGATTTA
65 TGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTA
* *
78417 CAAATTCTTGATAAATAATTTACTGAGTAAGAGACTTCTTATTTTTCCAAAAATTT-ATTTT
130 CAAATTCGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTT-CAAAAATTTGATTTT
78478 TGGAAAAGAT
Statistics
Matches: 403, Mismatches: 32, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
247 2 0.00
248 58 0.14
249 106 0.26
250 237 0.59
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (249 bp):
TGTAAACATCCTACCCAAAGGTTTGACGGATGGCCCTAAGGACTTATCATCTGGCTTGAAAAACT
GACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAC
AAATTCGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTCAAGA
ACATTAAATAAGAAACTTTAAAAATCACTATCTCATTTTCATGCAAAAATCATA
Found at i:84849 original size:11 final size:11
Alignment explanation
Indices: 84833--84857 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
84823 ATAAAAATAA
84833 TTAAAACAAAT
1 TTAAAACAAAT
84844 TTAAAACAAAT
1 TTAAAACAAAT
84855 TTA
1 TTA
84858 TTATTTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAAAACAAAT
Found at i:86615 original size:3 final size:3
Alignment explanation
Indices: 86609--86687 Score: 86
Period size: 3 Copynumber: 25.0 Consensus size: 3
86599 TAATATTATT
* * * *
86609 TAA TAA TAA TAA TAT TAA TAA TATA TATA TAA TGA TAA TAA CATG TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TA-A TAA
86657 TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
86688 CATATATAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
3 54 0.83
4 11 0.17
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:86711 original size:22 final size:21
Alignment explanation
Indices: 86672--86718 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
86662 AATAATAATA
* * *
86672 ATAATAATAATAATAACATAT
1 ATAATAATAACAAAAACATAC
86693 ATAATTAATAACAAAAACATAC
1 ATAA-TAATAACAAAAACATAC
86715 ATAA
1 ATAA
86719 ACTAGTGTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAATAATAACAAAAACATAC
Found at i:87827 original size:24 final size:24
Alignment explanation
Indices: 87783--87829 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
87773 ATAAAGAACC
*
87783 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
87807 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
87830 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:91139 original size:19 final size:20
Alignment explanation
Indices: 91117--91160 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
91107 GAGAAAAGGT
91117 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
91136 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
91156 AAAAG
1 AAAAG
91161 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:98050 original size:24 final size:24
Alignment explanation
Indices: 98006--98052 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
97996 ATAAAGAACC
*
98006 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
98030 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
98053 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:104586 original size:196 final size:195
Alignment explanation
Indices: 104207--104615 Score: 520
Period size: 196 Copynumber: 2.1 Consensus size: 195
104197 ATAAACAAAT
* * *
104207 TTGTGACTAAATAATTTTGTTACAATTTTTTATTGTGAAAAATATTACTTGTCACAATTTTAATA
1 TTGTGACTAAATAAATTTGTTACAATTTATTATTGTGAAAAATATCACTTGTCACAATTTTAATA
* * * * * ***
104272 TTGAGAAATTAATATTTTTTATAAATTTTTATTTTGATTAAATAAATTTGTCAAAGTTTTTATTT
66 TTAAGAAATTAATATTTGTTATAAATTGTTATTATGACTAAATAAATTTGTCAAAGTCAATATTT
* * *
104337 TGAGAAAATATTGTGATTGAAATAAATTTGACATAAATTTTATTTCGACTAAATTTAATGTGTTA
131 TGAGAAAACACTGTGATTGAAATAAATTTGACATAAATTTTATTTCAACTAAATTTAATGTGTTA
* * * *
104402 TTGTAACTAAATAAATTTGTTATAATTTATTATTGTGAAAGAATATCATTTGTC-CTAATTTTTT
1 TTGTGACTAAATAAATTTGTTACAATTTATTATTGTGAAA-AATATCACTTGTCAC-AA-TTTTA
104466 ATATTAAGAAATTAATATTTGTTATAAATTGTTATTATGACTAAATAAA-TTGCTCAAAAGTCAA
63 ATATTAAGAAATTAATATTTGTTATAAATTGTTATTATGACTAAATAAATTTG-TC-AAAGTCAA
* * * * *
104530 TATTTTGA-TAACCACTGTGA-TGAAATAAATTTGACATAATTTTTATTTTAACTAAATTTAATT
126 TATTTTGAGAAAACACTGTGATTGAAATAAATTTGACATAAATTTTATTTCAACTAAATTTAATG
104593 TGTTA
191 TGTTA
* *
104598 GTATGACTAAATAAATTT
1 TTGTGACTAAATAAATTT
104616 ATCATAGATT
Statistics
Matches: 183, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
195 37 0.20
196 75 0.41
197 58 0.32
198 13 0.07
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (195 bp):
TTGTGACTAAATAAATTTGTTACAATTTATTATTGTGAAAAATATCACTTGTCACAATTTTAATA
TTAAGAAATTAATATTTGTTATAAATTGTTATTATGACTAAATAAATTTGTCAAAGTCAATATTT
TGAGAAAACACTGTGATTGAAATAAATTTGACATAAATTTTATTTCAACTAAATTTAATGTGTTA
Found at i:104734 original size:29 final size:30
Alignment explanation
Indices: 104687--104749 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
104677 ATTGACTATG
*
104687 ATAATTAAAAATAATTTAAAAATC-TTATA
1 ATAATTAAAAATAATTTAAAAATCATTAAA
* *
104716 ATAA-TAAAACTAATATTAAATATCATTAAA
1 ATAATTAAAAATAAT-TTAAAAATCATTAAA
104746 ATAA
1 ATAA
104750 GCATAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 9 0.31
29 12 0.41
30 8 0.28
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (30 bp):
ATAATTAAAAATAATTTAAAAATCATTAAA
Found at i:114880 original size:3 final size:3
Alignment explanation
Indices: 114872--114935 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
114862 ATATTTTTAT
114872 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
114920 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
114936 AACATTCGTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:115645 original size:139 final size:138
Alignment explanation
Indices: 115439--115694 Score: 352
Period size: 139 Copynumber: 1.8 Consensus size: 138
115429 CCTAAGTGCT
* * * *
115439 GAAATGGAAATTCACAAACTCATTATGAATTCCATGAATGCACCCATAGTGTCGAAAGTACATAT
1 GAAATGGAAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGTCAAAAGTACACAT
* *
115504 AGTAATGATATGAAAATGCACCGTTATGTATTAAACAAAATCGATCGATAACTTTTATACATAAT
66 AGTAATAATATGAAAATGCACCGTTATATATTAAACAAAATCGATCGATAACTTTTATACATAAT
115569 TATATGTC
131 TATATGTC
* * ** **
115577 GAAATGGTAAGTTCATAAACTCATTATGAATACCATGGTTGCACATTTAGT-TCCAAAAGTACAC
1 GAAATGG-AAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGT-CAAAAGTACAC
* * *
115641 ATAGTACTAATATGAAAATGCACTGTTATATATTACACAAAATCGATCGATAAC
64 ATAGTAATAATATGAAAATGCACCGTTATATATTAAACAAAATCGATCGATAAC
115695 CATTACATAC
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
138 8 0.08
139 93 0.92
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (138 bp):
GAAATGGAAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTGTCAAAAGTACACAT
AGTAATAATATGAAAATGCACCGTTATATATTAAACAAAATCGATCGATAACTTTTATACATAAT
TATATGTC
Found at i:116975 original size:8 final size:8
Alignment explanation
Indices: 116962--116988 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
116952 CCATAATGTC
116962 CTTCCATT
1 CTTCCATT
116970 CTTCCATT
1 CTTCCATT
116978 CTTCCATT
1 CTTCCATT
116986 CTT
1 CTT
116989 ACTAATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.37, G:0.00, T:0.52
Consensus pattern (8 bp):
CTTCCATT
Found at i:125922 original size:2 final size:2
Alignment explanation
Indices: 125915--125972 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
125905 GTATGAATGA
125915 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125957 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
125973 GATAAATGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127369 original size:36 final size:35
Alignment explanation
Indices: 127323--127391 Score: 95
Period size: 34 Copynumber: 1.9 Consensus size: 35
127313 GAAACATTAC
* *
127323 CAACATAAACATGTGCAATTATATAATATTTTTTATG
1 CAACATAAACA--TGAAATTATATAATATTATTTATG
127360 CAACA-AAACATGAAATTATATAATATTATTTA
1 CAACATAAACATGAAATTATATAATATTATTTA
127392 GTTTAAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 20 0.67
36 5 0.17
37 5 0.17
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (35 bp):
CAACATAAACATGAAATTATATAATATTATTTATG
Found at i:127978 original size:24 final size:26
Alignment explanation
Indices: 127944--128003 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 26
127934 TTATAACTAC
127944 AAATA-TAATTTATCACAAAAATGTG
1 AAATATTAATTTATCACAAAAATGTG
127969 AATATTATTTAATTTATCACAAAAATGTG
1 AA-A-TA-TTAATTTATCACAAAAATGTG
127998 -AATATT
1 AAATATT
128004 TTTTTTAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
25 4 0.13
26 3 0.10
27 3 0.10
28 1 0.03
29 20 0.65
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (26 bp):
AAATATTAATTTATCACAAAAATGTG
Found at i:128407 original size:15 final size:16
Alignment explanation
Indices: 128381--128411 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
128371 TTTTTTCATG
128381 GTTACTAAAACTTGTA
1 GTTACTAAAACTTGTA
128397 GTTAC-AAAACTTGTA
1 GTTACTAAAACTTGTA
128412 ACTATATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (16 bp):
GTTACTAAAACTTGTA
Found at i:135325 original size:31 final size:30
Alignment explanation
Indices: 135290--135349 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
135280 TACTATGTAG
*
135290 CACCTAAAAGTGTAACGGAGAAAACGTTAGC
1 CACCTAAAAGTATAACGGA-AAAACGTTAGC
* *
135321 CACCTAAAAGTATAATGGAAAAATGTTAG
1 CACCTAAAAGTATAACGGAAAAACGTTAG
135350 GCACTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (30 bp):
CACCTAAAAGTATAACGGAAAAACGTTAGC
Found at i:135462 original size:186 final size:187
Alignment explanation
Indices: 135154--135584 Score: 566
Period size: 186 Copynumber: 2.3 Consensus size: 187
135144 TTAACGTTGG
* *
135154 AATGTTAGACACCTATTTTTAATGAAAAATTCTTTAGACACTTAATGTTAATTTAAGGAATAATT
1 AATGTTAGACACCTATTTTTAATGAAAAATTCTTTAGACACTTAAAG-TAAATTAAGGAATAATT
* * *
135219 TAGGTACTTATTTTTGCATTAAACCAAAATAGAAACACAACATGTGTCACATAACGACCATTACT
65 TAGGAACTTACTTTTGCATTAAACCAAAATAGAAACACAACACGTGTCACATAACGACCATTACT
* *
135284 ATGTAG-CACCTAAAAGTGTAACGGAGAAAACGTTAGCCA-CCTAAAAGTATAATGG-AAA
130 ATGCAGACACCTAAAAGTGTAAC-GA-AAAACGTTAGCCACCCAAAAAG-ATAATGGAAAA
* * * *
135342 AATGTTAGGCACTTATTTTTAATG-AAAATTCTTTAGACACTTAAAGTAAATTAGGGTATAATTT
1 AATGTTAGACACCTATTTTTAATGAAAAATTCTTTAGACACTTAAAGTAAATTAAGGAATAATTT
* * * *
135406 AGGAACTTACTTTTGCATTAAGCCAAAATATAAACATAACACGTGTCA-ATTAACGACCGTTACT
66 AGGAACTTACTTTTGCATTAAACCAAAATAGAAACACAACACGTGTCACA-TAACGACCATTACT
* * *
135470 ATGCAGACACCTAAAAGTGTAACGAAAAATGTTAGGCACCCAAAAAGGTAATGGAAAA
130 ATGCAGACACCTAAAAGTGTAACGAAAAACGTTAGCCACCCAAAAAGATAATGGAAAA
* * * * *
135528 AATGTTAGACACCTATTTTTAACGAAAAATTATTTAGGCACCTAAAGTTAACTTAAG
1 AATGTTAGACACCTATTTTTAATGAAAAATTCTTTAGACACTTAAAG-TAAATTAAG
135585 AGATAGTTTA
Statistics
Matches: 211, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
185 18 0.09
186 108 0.51
187 56 0.27
188 29 0.14
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (187 bp):
AATGTTAGACACCTATTTTTAATGAAAAATTCTTTAGACACTTAAAGTAAATTAAGGAATAATTT
AGGAACTTACTTTTGCATTAAACCAAAATAGAAACACAACACGTGTCACATAACGACCATTACTA
TGCAGACACCTAAAAGTGTAACGAAAAACGTTAGCCACCCAAAAAGATAATGGAAAA
Found at i:135520 original size:29 final size:32
Alignment explanation
Indices: 135474--135540 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
135464 GTTACTATGC
*
135474 AGACA-CCTAAAAGTGTAA-CG-AAAAATGTT
1 AGACACCCAAAAAGTGTAATCGAAAAAATGTT
* *
135503 AGGCACCCAAAAAG-GTAATGGAAAAAATGTT
1 AGACACCCAAAAAGTGTAATCGAAAAAATGTT
135534 AGACACC
1 AGACACC
135541 TATTTTTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 8 0.26
30 8 0.26
31 15 0.48
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (32 bp):
AGACACCCAAAAAGTGTAATCGAAAAAATGTT
Found at i:136439 original size:56 final size:55
Alignment explanation
Indices: 136373--136572 Score: 276
Period size: 56 Copynumber: 3.6 Consensus size: 55
136363 CCCTATTTTC
* * *
136373 TAGATATATTCGATTTCGATGG-CCCTATTTTTTTGTTTCTTAATGACAACAACTGA
1 TAGATATATTCGATTTCG--GGACCCTATTTTTATGCTTCTTAATGGCAACAACTGA
*
136429 TAGATATATTCAATTTCGGGACCCCTATTTTTATGCTTCTTAATGGCAACAACTGA
1 TAGATATATTCGATTTCGGGA-CCCTATTTTTATGCTTCTTAATGGCAACAACTGA
* * *
136485 TAGATATACTCGATTTCGGGACCCCTATTTTTATGCTTATTAATGGCAAAAACTGA
1 TAGATATATTCGATTTCGGGA-CCCTATTTTTATGCTTCTTAATGGCAACAACTGA
*
136541 TAGATATATTCGATTTCGAGTACCCTATTTTT
1 TAGATATATTCGATTTCG-GGACCCTATTTTT
136573 TTGAGGCCCT
Statistics
Matches: 131, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
54 2 0.02
56 127 0.97
57 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (55 bp):
TAGATATATTCGATTTCGGGACCCTATTTTTATGCTTCTTAATGGCAACAACTGA
Found at i:136785 original size:2 final size:2
Alignment explanation
Indices: 136778--136839 Score: 110
Period size: 2 Copynumber: 32.0 Consensus size: 2
136768 TGCATTAAAG
136778 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
136820 TA TA TA -A TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
136840 AAATAAGTGA
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 56 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:137033 original size:23 final size:25
Alignment explanation
Indices: 137007--137061 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
136997 AATTTTTTGT
137007 AAAAAATAAATATTAATT-AAC-AC
1 AAAAAATAAATATTAATTAAACTAC
* * *
137030 AAAATATAAGTATTTATTAAACTAC
1 AAAAAATAAATATTAATTAAACTAC
137055 AAAAAAT
1 AAAAAAT
137062 TGCCAGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 15 0.58
24 3 0.12
25 8 0.31
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAAATAAATATTAATTAAACTAC
Done.