Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005223.1 Hibiscus syriacus cultivar Beakdansim tig00011824_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: 548742
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 1 of 3
Found at i:3058 original size:26 final size:26
Alignment explanation
Indices: 3029--3080 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
3019 ATGCATAATA
*
3029 TGTTGGAACACAAAAATAAATAAAAG
1 TGTTGAAACACAAAAATAAATAAAAG
**
3055 TGTTGAAACTTAAAAATAAATAAAAG
1 TGTTGAAACACAAAAATAAATAAAAG
3081 GATCATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23
Consensus pattern (26 bp):
TGTTGAAACACAAAAATAAATAAAAG
Found at i:3093 original size:26 final size:26
Alignment explanation
Indices: 3040--3094 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
3030 GTTGGAACAC
* * *
3040 AAAAATAAATAAAAGTGTTGAAACTT
1 AAAAATAAATAAAAGTGATCAAAATT
3066 AAAAATAAATAAAAG-GATCATAAATT
1 AAAAATAAATAAAAGTGATCA-AAATT
3092 AAA
1 AAA
3095 TACAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.24
Consensus pattern (26 bp):
AAAAATAAATAAAAGTGATCAAAATT
Found at i:3965 original size:30 final size:30
Alignment explanation
Indices: 3938--4052 Score: 124
Period size: 30 Copynumber: 3.8 Consensus size: 30
3928 ACGAAATAGA
*
3938 AAAAACAGAAATTTACAGGACTAAAATAAC
1 AAAAACAGAAATTTAAAGGACTAAAATAAC
* * * *
3968 AAAAATAGAAACTTAAAGGATTAAAATAAT
1 AAAAACAGAAATTTAAAGGACTAAAATAAC
* * *
3998 AAAAACATAAAGTTAAAGGACTAAAATAGC
1 AAAAACAGAAATTTAAAGGACTAAAATAAC
* *
4028 AAAAATAGAAAGTTT-AGGGACTAAA
1 AAAAACAGAAA-TTTAAAGGACTAAA
4053 CTAGTATTAA
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
30 67 0.97
31 2 0.03
ACGTcount: A:0.60, C:0.08, G:0.13, T:0.19
Consensus pattern (30 bp):
AAAAACAGAAATTTAAAGGACTAAAATAAC
Found at i:4065 original size:60 final size:60
Alignment explanation
Indices: 3954--4078 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 60
3944 AGAAATTTAC
*
3954 AGGACTAAAATAACAAAAATAGAAACTTAAAGGATTAAAATAATAAAAACATAAAGTTA-A
1 AGGACTAAAATAACAAAAATAGAAACTTAAAGGACTAAAATAATAAAAACATAAA-TTAGA
* * * * * * **
4014 AGGACTAAAATAGCAAAAATAGAAAGTTTAGGGACTAAACTAGTATTAACATAAATTAGA
1 AGGACTAAAATAACAAAAATAGAAACTTAAAGGACTAAAATAATAAAAACATAAATTAGA
4074 AGGAC
1 AGGAC
4079 CTATTAAACA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 3 0.05
60 52 0.95
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.21
Consensus pattern (60 bp):
AGGACTAAAATAACAAAAATAGAAACTTAAAGGACTAAAATAATAAAAACATAAATTAGA
Found at i:5532 original size:3 final size:3
Alignment explanation
Indices: 5526--5595 Score: 62
Period size: 3 Copynumber: 25.3 Consensus size: 3
5516 ATTGTAAAAA
* * *
5526 AAT AAT AAC ATT AAT AAT AAT AAT AAT AA- AAT -AC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
5572 -AT GAT -AT AAT AAT -AT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5596 TTTTTTGAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
2 11 0.20
3 44 0.80
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5580 original size:13 final size:13
Alignment explanation
Indices: 5537--5595 Score: 66
Period size: 13 Copynumber: 4.4 Consensus size: 13
5527 ATAATAACAT
5537 TAATAATAATAATAA
1 TAATAAT-ATAAT-A
*
5552 TAA-AATACAATAA
1 TAATAATATAAT-A
*
5565 TAATAATATGATA
1 TAATAATATAATA
5578 TAATAATATAATA
1 TAATAATATAATA
5591 TAATA
1 TAATA
5596 TTTTTTGAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 27 0.69
14 9 0.23
15 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:5936 original size:22 final size:23
Alignment explanation
Indices: 5900--5942 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
5890 TGTTCTTCCT
*
5900 TATTTGTAATTTTTTTAATTTGA
1 TATTTGTAATTTTTTAAATTTGA
5923 TATTTGT-ATTTTTTAAATTT
1 TATTTGTAATTTTTTAAATTT
5943 ATGTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (23 bp):
TATTTGTAATTTTTTAAATTTGA
Found at i:12234 original size:15 final size:15
Alignment explanation
Indices: 12210--12257 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
12200 ACATTACCCG
*
12210 CCCCGTATCCGCCCA
1 CCCCGCATCCGCCCA
*
12225 CCCCGCATCCGCCCG
1 CCCCGCATCCGCCCA
* *
12240 CCCCACATCCTCCCA
1 CCCCGCATCCGCCCA
12255 CCC
1 CCC
12258 AGCTAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.12, C:0.67, G:0.10, T:0.10
Consensus pattern (15 bp):
CCCCGCATCCGCCCA
Found at i:16481 original size:6 final size:5
Alignment explanation
Indices: 16468--16535 Score: 57
Period size: 5 Copynumber: 12.8 Consensus size: 5
16458 ATGTTAAAAG
* *
16468 ATAAA ATAAAA ATAAA ACAAA ATAAA ATAAA ATAAA A-AAGA TGAGAAA
1 ATAAA AT-AAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA-A --ATAAA
*
16516 ATAAA GATAAA ACAAA ATAA
1 ATAAA -ATAAA ATAAA ATAA
16536 GGTAAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
4 2 0.04
5 36 0.69
6 10 0.19
7 2 0.04
8 2 0.04
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (5 bp):
ATAAA
Found at i:16527 original size:11 final size:11
Alignment explanation
Indices: 16464--16527 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
16454 AAAGATGTTA
16464 AAAGATAAAAT
1 AAAGATAAAAT
* *
16475 AAAAATAAAAC
1 AAAGATAAAAT
16486 AAA-ATAAAAT
1 AAAGATAAAAT
16496 AAA-ATAAAA-
1 AAAGATAAAAT
*
16505 AAGATGAGAAAAT
1 AA-A-GATAAAAT
16518 AAAGATAAAA
1 AAAGATAAAA
16528 CAAAATAAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 2 0.05
10 16 0.36
11 18 0.41
12 6 0.14
13 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.14
Consensus pattern (11 bp):
AAAGATAAAAT
Found at i:17031 original size:93 final size:94
Alignment explanation
Indices: 16887--17058 Score: 319
Period size: 93 Copynumber: 1.8 Consensus size: 94
16877 TTTACTTCTT
*
16887 TTTTATTTTATAAGAGGCAAGATTCAATTGCAATGTATAAAACTCTTTAGTTTTACACGAATTTA
1 TTTTATTTTATAAGAGGCAAGATTCAATTACAATGTATAAAACTCTTTAGTTTTACACGAATTTA
16952 AGATTATTGGATGATTTGATATAATTTAC
66 AGATTATTGGATGATTTGATATAATTTAC
*
16981 TTTT-TTTTATAAGAGGTAAGATTCAATTACAATGTATAAAACTCTTTAGTTTTACACGAATTTA
1 TTTTATTTTATAAGAGGCAAGATTCAATTACAATGTATAAAACTCTTTAGTTTTACACGAATTTA
17045 AGATTATTGGATGA
66 AGATTATTGGATGA
17059 ATGTAAATAG
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
93 72 0.95
94 4 0.05
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.42
Consensus pattern (94 bp):
TTTTATTTTATAAGAGGCAAGATTCAATTACAATGTATAAAACTCTTTAGTTTTACACGAATTTA
AGATTATTGGATGATTTGATATAATTTAC
Found at i:17049 original size:46 final size:46
Alignment explanation
Indices: 16905--17049 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 46
16895 TATAAGAGGC
*
16905 AAGATTCAATTGCAATGTATAAAACTCTTTAGTTTTACACGAATTT
1 AAGATTCAATTACAATGTATAAAACTCTTTAGTTTTACACGAATTT
** * ** * * * **
16951 AAGATT--ATTGGATGATTTGATATAATTTACTTT-TTTTTATAAG-AGGT
1 AAGATTCAATT--ACAATGT-ATA-AAACT-CTTTAGTTTTACACGAATTT
16998 AAGATTCAATTACAATGTATAAAACTCTTTAGTTTTACACGAATTT
1 AAGATTCAATTACAATGTATAAAACTCTTTAGTTTTACACGAATTT
17044 AAGATT
1 AAGATT
17050 ATTGGATGAA
Statistics
Matches: 69, Mismatches: 21, Indels: 18
0.64 0.19 0.17
Matches are distributed among these distances:
44 7 0.10
45 10 0.14
46 20 0.29
47 15 0.22
48 10 0.14
49 7 0.10
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (46 bp):
AAGATTCAATTACAATGTATAAAACTCTTTAGTTTTACACGAATTT
Found at i:17658 original size:19 final size:21
Alignment explanation
Indices: 17636--17674 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17626 TTTAAAGTAT
17636 TTTAA-TTAGGATTT-TCTTC
1 TTTAATTTAGGATTTATCTTC
17655 TTTAATTTAGGATTTATCTT
1 TTTAATTTAGGATTTATCTT
17675 TATCTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.23, C:0.08, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTAATTTAGGATTTATCTTC
Found at i:21541 original size:22 final size:20
Alignment explanation
Indices: 21513--21565 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
21503 ACCCATTATT
*
21513 ATTTTTATTTTTCGTTTGTCCA
1 ATTTTTATTTTTCATTT-T-CA
21535 ATTTTTATTTTT-ATTTTCA
1 ATTTTTATTTTTCATTTTCA
21554 A-TTTTATTTTTC
1 ATTTTTATTTTTC
21566 TGATTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.34
19 3 0.10
20 1 0.03
21 3 0.10
22 12 0.41
ACGTcount: A:0.17, C:0.09, G:0.04, T:0.70
Consensus pattern (20 bp):
ATTTTTATTTTTCATTTTCA
Found at i:22016 original size:115 final size:115
Alignment explanation
Indices: 21770--22016 Score: 293
Period size: 115 Copynumber: 2.2 Consensus size: 115
21760 CACTGTTCGG
* * *
21770 ACAATGC-ATA-AAAAAATAGACTTGGTTCGAACTGTGCAGAAAAGTTCGAACAGAACAACGCAA
1 ACAATGCAATATAAAAAAAAAATTTGGTTCGAACTGTGCAGAAAAGTTCGAACAGAACAACGCAA
* * * **
21833 AAAAAACTGATTTGGGTCAAACAGTGCAGAAACATACACATCAGATTCAA
66 AAAAAACTGATTCGGGTCAAACAGCGCAGAAAAATACACAGAAGATTCAA
* * * * **
21883 ACAATGCAGTATAGAAAAAAAATTTGGTTCGAATTGTGCAGAAAAGTTCGAACAGAACAATGCGG
1 ACAATGCAATATAAAAAAAAAATTTGGTTCGAACTGTGCAGAAAAGTTCGAACAGAACAACGCAA
* * *
21948 AAAAAATTGATTCGGTTCTAACAGCGCAGAAAAATACACAGAAGATTCGAA
66 AAAAAACTGATTCGGGTCAAACAGCGCAGAAAAATACACAGAAGATTC-AA
* *
21999 A-AGTGCAATGTAAAAAAA
1 ACAATGCAATATAAAAAAA
22017 GAACATCACA
Statistics
Matches: 110, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
113 7 0.06
114 2 0.02
115 98 0.89
116 3 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (115 bp):
ACAATGCAATATAAAAAAAAAATTTGGTTCGAACTGTGCAGAAAAGTTCGAACAGAACAACGCAA
AAAAAACTGATTCGGGTCAAACAGCGCAGAAAAATACACAGAAGATTCAA
Found at i:22048 original size:27 final size:27
Alignment explanation
Indices: 22010--22062 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
22000 AGTGCAATGT
*
22010 AAAAAAAGAACA-TCACAATTTTGGTTA
1 AAAAAAACAACAGT-ACAATTTTGGTTA
22037 AAAAAAACAACAGTACAATTTTGGTT
1 AAAAAAACAACAGTACAATTTTGGTT
22063 CGAACTGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (27 bp):
AAAAAAACAACAGTACAATTTTGGTTA
Found at i:28239 original size:49 final size:49
Alignment explanation
Indices: 28182--28437 Score: 413
Period size: 49 Copynumber: 5.2 Consensus size: 49
28172 GAATACCATG
* *
28182 AGTGACACCTTTTATGCCGAAATTCACCATTATGCATTTAACTTTCATT
1 AGTGACACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
* * *
28231 AGTGACACCTTTTATGCCGAAATACACTGTTATGCATTCAACTTTCATT
1 AGTGACACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
*
28280 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
1 AGTGACACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
* * *
28329 AGTGGCACCTTTTATGTCGAAATGCACCGTTATGTATTTAACTTTCATT
1 AGTGACACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
* *
28378 AGTGGCACATTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
1 AGTGACACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
28427 AGTGACACCTT
1 AGTGACACCTT
28438 CGATAACCAT
Statistics
Matches: 192, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 192 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (49 bp):
AGTGACACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
Found at i:30858 original size:28 final size:28
Alignment explanation
Indices: 30825--30878 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
30815 ACAATACCCA
*
30825 GATCCTCGTCTCTAGAAAAGCTACCACT
1 GATCCTCGTCTCAAGAAAAGCTACCACT
*
30853 GATCCTCGTCTCAAGAAGAGCTACCA
1 GATCCTCGTCTCAAGAAAAGCTACCA
30879 TCAGGGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
GATCCTCGTCTCAAGAAAAGCTACCACT
Found at i:37067 original size:2 final size:2
Alignment explanation
Indices: 37060--37329 Score: 90
Period size: 2 Copynumber: 138.5 Consensus size: 2
37050 TCGAGTATTT
37060 TA TA TA TA TA TA TA TA TA TA TA GTA TA TA CTA TA TA TA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA
* * * *
37103 TA TGA TA GTA TA TA TA TT TA TA TA GTA TA TA GTA CTG TC TA CA T-
1 TA T-A TA -TA TA TA TA TA TA TA TA -TA TA TA -TA -TA TA TA TA TA
* * * * * *
37147 TA T- TT TA AA AA TA TA T- TA TA CA AA TA TA TT TA TA -A TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
37185 TA TA TA TA TG T- TT TGA AA AA TA TA TG TA TA CT- TA TA -A TA -A
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
37225 TA TA TA TA TA T- TA T- TT TGA TA TA TA TA TA TA TA TG T- TT TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
37265 -A AA AA TA TA TG TA T- TA TT TT TA TA TA T- TA TT 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
*
37304 TA TA T- TA TA TA TG T- TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37330 TTTTGTAAAT
Statistics
Matches: 207, Mismatches: 33, Indels: 56
0.70 0.11 0.19
Matches are distributed among these distances:
1 18 0.09
2 172 0.83
3 17 0.08
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37242 original size:43 final size:44
Alignment explanation
Indices: 37170--37284 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 44
37160 TATTATACAA
*
37170 ATATAT-TTATAAT-AT-TATATATA-TGTTTTGAAAAATATAT
1 ATATATCTTATAATAATATATATATATTATTTTGAAAAATATAT
* * *
37210 GTATA-CTTATAATAATATATATATATTATTTTGATATATATAT
1 ATATATCTTATAATAATATATATATATTATTTTGAAAAATATAT
* * * *
37253 ATATATGTTTTAA-AAAATATATGTATTATTTT
1 ATATATCTTATAATAATATATATATATTATTTT
37285 TATATATTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
40 11 0.18
41 2 0.03
42 8 0.13
43 35 0.57
44 5 0.08
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (44 bp):
ATATATCTTATAATAATATATATATATTATTTTGAAAAATATAT
Found at i:37294 original size:13 final size:13
Alignment explanation
Indices: 37270--37330 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
37260 TTTTAAAAAA
*
37270 TATATGTATTATT
1 TATATATATTATT
*
37283 TTTATATATTATT
1 TATATATATTATT
37296 TATATATA-TATAT
1 TATATATATTAT-T
* *
37309 TATATATGTTATA
1 TATATATATTATT
37322 TA-ATATATT
1 TATATATATT
37331 TTTGTAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 9 0.22
13 28 0.70
14 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TATATATATTATT
Found at i:37298 original size:17 final size:17
Alignment explanation
Indices: 37224--37311 Score: 70
Period size: 17 Copynumber: 4.9 Consensus size: 17
37214 ACTTATAATA
37224 ATATATATATATTATTTT
1 ATATATATATATTA-TTT
37242 GATATATATATATATATGTT
1 -ATATATATATAT-TAT-TT
* * *
37262 TTAAAAAATATATGTA-TT
1 AT-ATATATATAT-TATTT
* *
37280 ATTTTTATATATTATTT
1 ATATATATATATTATTT
37297 ATATATATATATTAT
1 ATATATATATATTAT
37312 ATATGTTATA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 2 0.04
17 21 0.39
18 3 0.06
19 14 0.26
20 14 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATATATATATATTATTT
Found at i:37312 original size:9 final size:9
Alignment explanation
Indices: 37285--37323 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
37275 GTATTATTTT
37285 TATATATTA
1 TATATATTA
*
37294 TTTATA-TA
1 TATATATTA
37302 TATATATTA
1 TATATATTA
*
37311 TATATGTTA
1 TATATATTA
37320 TATA
1 TATA
37324 ATATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (9 bp):
TATATATTA
Found at i:37313 original size:65 final size:63
Alignment explanation
Indices: 37170--37315 Score: 161
Period size: 65 Copynumber: 2.3 Consensus size: 63
37160 TATTATACAA
* * *
37170 ATATATTTATAATAT-TATATATATGTTTTGAAAAATATATGTATACTTATAATAATATATAT
1 ATATATATATTATATATATATATATGTTTTAAAAAATATATGTATACTTATAATAATATATAT
* * * * *
37232 ATAT-TATTTTGATATATATATATATATGTTTTAAAAAATATATGTATTATTTTTATATATTATT
1 ATATATA-TAT--TATATATATATATATGTTTTAAAAAATATATGTA-TACTTATA-ATAATATA
37296 TAT
61 TAT
37299 ATATATATATTATATAT
1 ATATATATATTATATAT
37316 GTTATATAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
61 1 0.01
62 6 0.09
64 4 0.06
65 34 0.50
66 6 0.09
67 15 0.22
68 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (63 bp):
ATATATATATTATATATATATATATGTTTTAAAAAATATATGTATACTTATAATAATATATAT
Found at i:38273 original size:2 final size:2
Alignment explanation
Indices: 38266--38306 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
38256 TTAATATTAG
38266 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38307 TTAAGTATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38528 original size:20 final size:21
Alignment explanation
Indices: 38478--38528 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
38468 TTATATTTTG
*
38478 TTCTATATATTTCTATATATAT
1 TTCT-TATTTTTCTATATATAT
38500 TTCTTATTTTTCTAT-TATTAT
1 TTCTTATTTTTCTATATA-TAT
38521 TT-TTATTT
1 TTCTTATTT
38529 AATACTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 8 0.30
21 15 0.56
22 4 0.15
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCTTATTTTTCTATATATAT
Found at i:42789 original size:183 final size:183
Alignment explanation
Indices: 42476--42825 Score: 646
Period size: 183 Copynumber: 1.9 Consensus size: 183
42466 ATTAAATCCG
*
42476 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAACCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** *
42541 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
42606 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
42659 TAAACCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAACCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
42724 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
42789 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTT
131 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTT
42826 TAGTTAAACC
Statistics
Matches: 161, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 161 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (183 bp):
TAAACCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
Found at i:44180 original size:37 final size:37
Alignment explanation
Indices: 44113--44199 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
44103 ATTGAAAACA
** * *
44113 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
44149 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
44186 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
44200 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:44202 original size:102 final size:105
Alignment explanation
Indices: 44018--44265 Score: 360
Period size: 102 Copynumber: 2.4 Consensus size: 105
44008 TTTTTCTTAA
* * * * *
44018 AACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAAGTTTTGTCTCACTTGAGATA
1 AACAAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAGAAAGTTTTGTCTCACTTGAGACA
*
44083 GTTTCTCTTTAAACATAAACATTGAAAACATTTCCCTT-G
66 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGG
* * *
44122 AA-ATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA-AAA-TTTTGTCTCCCTTGAGAC
1 AACA-AAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAGAAAGTTTTGTCTCACTTGAGAC
44184 AGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGG
65 AGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGG
* *
44225 AACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AACAAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACA
44266 TAAACATTGA
Statistics
Matches: 129, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
102 54 0.42
103 40 0.31
104 35 0.27
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (105 bp):
AACAAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAGAAAGTTTTGTCTCACTTGAGACA
GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGG
Found at i:44255 original size:66 final size:66
Alignment explanation
Indices: 44149--44328 Score: 278
Period size: 66 Copynumber: 2.8 Consensus size: 66
44139 CTTGAGATAG
*
44149 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
44214 A
66 A
*
44215 TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAGC
1 TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
44280 A
66 A
* * *
44281 TTTCCCTT-GAA-ATAAA--TTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1 TTTCCCTTGGAACA-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
44329 AAATTTTGTC
Statistics
Matches: 108, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
63 29 0.27
64 1 0.01
65 6 0.06
66 72 0.67
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (66 bp):
TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
A
Found at i:44324 original size:34 final size:36
Alignment explanation
Indices: 44280--44365 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 36
44270 CATTGAAAGC
* * *
44280 ATTTCCCTTGAAA-TAAA-TTGTCTCTCTTGAGATA
1 ATTTCCCTTGAAACAAAATTTGTCTCCCTTGAGACA
*
44314 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
1 ATTTCCCTTGAAACAAAA-TTTGTCTCCCTTGAGACA
*
44351 ATTTCTCTTGAAACA
1 ATTTCCCTTGAAACA
44366 TAAACATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
34 12 0.28
35 3 0.07
37 28 0.65
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAAATTTGTCTCCCTTGAGACA
Found at i:44343 original size:100 final size:102
Alignment explanation
Indices: 44215--44494 Score: 467
Period size: 100 Copynumber: 2.8 Consensus size: 102
44205 ATTGAAAACA
* *
44215 TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAGC
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
44280 ATTTCCCTTGAAAT-AA-ATTGTCTCTCTTGAGATAG
66 ATTTCCCTTGAAATGAATATTGTCTCTCTTGAGATAG
*
44315 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
*
44380 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
66 ATTTCCCTTGAAATGAATATTGTCTCTCTTGAGATAG
* * *
44417 TTTCCCTTGAAAC-AAATTTTGTCTCCTTTGAGACAGTTTCTATTGAAACATAAACTTTGAAAAC
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
44481 AGTTTCCCTTGAAA
66 A-TTTCCCTTGAAA
44495 CAAAATCTTT
Statistics
Matches: 169, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
100 76 0.45
101 50 0.30
102 43 0.25
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
ATTTCCCTTGAAATGAATATTGTCTCTCTTGAGATAG
Found at i:44358 original size:166 final size:169
Alignment explanation
Indices: 44045--44430 Score: 622
Period size: 166 Copynumber: 2.3 Consensus size: 169
44035 CTTGAGATAG
* * *
44045 TTTCCCTCGAAACAGAAAGTTTTGTCTCACTTGAGATAGTTTCTCTTTAAACATAAACATTGAAA
1 TTTCCCTTGGAACAGAAA-TTTTGTCTCACTTGAGATAGTTTCTCTTGAAACATAAACATTGAAA
*
44110 ACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTC
65 ACATTTCCCTTGAAATGAATATTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTC
*
44175 CCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
130 CCTTGAGACAATTTCTCTTGAAACATAAACATTGAAAACA
* * *
44215 TTTCCCTTGGAACA-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAG
1 TTTCCCTTGGAACAGAAATTTTGTCTCACTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAA
44279 CATTTCCCTTGAAAT-AA-ATTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCC
66 CATTTCCCTTGAAATGAATATTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCC
44342 CTTGAGACAATTTCTCTTGAAACATAAACATTGAAAACA
131 CTTGAGACAATTTCTCTTGAAACATAAACATTGAAAACA
* *
44381 TTTCCCTT-GAA-ATG-AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1 TTTCCCTTGGAACA-GAAATTTTGTCTCACTTGAGATAGTTTCTCTTGAAACA
44431 AATTTTGTCT
Statistics
Matches: 203, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
164 1 0.00
165 36 0.18
166 91 0.45
167 2 0.01
168 58 0.29
169 3 0.01
170 12 0.06
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (169 bp):
TTTCCCTTGGAACAGAAATTTTGTCTCACTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAA
CATTTCCCTTGAAATGAATATTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCC
CTTGAGACAATTTCTCTTGAAACATAAACATTGAAAACA
Found at i:44428 original size:36 final size:36
Alignment explanation
Indices: 44381--44466 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
44371 ATTGAAAACA
** *
44381 TTTCCCTTGAAATGAATTTTGTCT-CTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCCT-TTGAGACAG
44417 TTTCCCTTGAAACAAATTTTGTCTCCTTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCCTTTGAGACAG
**
44453 TTTCTATTGAAACA
1 TTTCCCTTGAAACA
44467 TAAACTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 42 0.95
37 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCTTTGAGACAG
Found at i:44484 original size:30 final size:30
Alignment explanation
Indices: 44449--44507 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44439 CTCCTTTGAG
*
44449 ACAGTTTCTATTGAAACATAAA-CTTTGAAA
1 ACAGTTTCCATTGAAACA-AAATCTTTGAAA
*
44479 ACAGTTTCCCTTGAAACAAAATCTTTGAA
1 ACAGTTTCCATTGAAACAAAATCTTTGAA
44508 TATGTTTTAC
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:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (30 bp):
ACAGTTTCCATTGAAACAAAATCTTTGAAA
Found at i:44603 original size:38 final size:36
Alignment explanation
Indices: 44521--44635 Score: 158
Period size: 36 Copynumber: 3.1 Consensus size: 36
44511 GTTTTACATT
* *
44521 AAACAAATTTCGTCTCTCTTGAGACGGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
44557 AAACAAATTTTGTCTCTCTTAAGACATGTTTTTCTTA
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCTCTTG
*
44594 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
44631 AAACA
1 AAACA
44636 TCAATCCTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
36 24 0.35
37 24 0.35
38 20 0.29
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:44723 original size:35 final size:35
Alignment explanation
Indices: 44677--44764 Score: 137
Period size: 33 Copynumber: 2.6 Consensus size: 35
44667 CCTTGATACA
*
44677 GTTTCTCTTGAAACACAAAAAGAAACCTTT-AAATT
1 GTTTCTCTTGAAACACAAAAA-AAACCTTTGAAAAT
44712 GTTTCTCTTGAAACAC--AAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAAAT
44745 GTTTCTCTTGAAACACAAAA
1 GTTTCTCTTGAAACACAAAA
44765 CCTTTGAGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
32 8 0.16
33 23 0.47
35 18 0.37
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (35 bp):
GTTTCTCTTGAAACACAAAAAAAACCTTTGAAAAT
Found at i:44753 original size:33 final size:33
Alignment explanation
Indices: 44677--44790 Score: 153
Period size: 31 Copynumber: 3.5 Consensus size: 33
44667 CCTTGATACA
44677 GTTTCTCTTGAAACACAAAAAGAAACCTTT-AAATT
1 GTTTCTCTTGAAACAC--AAA-AAACCTTTGAAATT
*
44712 GTTTCTCTTGAAACACAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
*
44745 GTTTCTCTTGAAACAC--AAAACCTTTGAGATT
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
*
44776 GTTTCCCTTGAAACA
1 GTTTCTCTTGAAACA
44791 AATTTCGTCT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
31 27 0.36
32 8 0.11
33 23 0.31
35 16 0.22
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
Found at i:44837 original size:67 final size:67
Alignment explanation
Indices: 44746--44931 Score: 212
Period size: 67 Copynumber: 2.7 Consensus size: 67
44736 TTTGAAAATG
*
44746 TTTCTCTTGAAACACAAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGA-GA
1 TTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGGA
44810 CAA
66 C-A
* * * *
44813 TTTCTCTTGAAACACAAAATCTTTGAGTTTATTTCCCTTAAAACAAAATTTTGTCTCCCTTGAGG
1 TTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAAC-AAATTTCGTCTCCCTTGAGG
* *
44878 TCG
65 ACA
* ** * * *
44881 TTTCTCATGAAACAACATTTATCTTTAAGATCGTTTCCCTTGAAACGAATT
1 TTTCTCTTGAAAC-ACA-AAATCTTTGAGATTGTTTCCCTTGAAACAAATT
44932 CTGTCTTTTT
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
67 40 0.40
68 29 0.29
69 9 0.09
70 21 0.21
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (67 bp):
TTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGGA
CA
Found at i:45441 original size:106 final size:107
Alignment explanation
Indices: 45250--45482 Score: 342
Period size: 106 Copynumber: 2.2 Consensus size: 107
45240 GGTTTTAGCT
*
45250 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACAA
** *
45315 CGAAGGGACGGCTGGTTGTCAAC-AAACAATTTCCCAATTTC
66 CGAAGGGACGGCTGACTGTCAACAAAACAATTTCCCAATTCC
* ** * * *
45356 GGAGCCAATTTCAACTTCACATTGAAGGGCATTGGACTCGAGACAGCACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACAA
*
45421 CGAAGGGACGGCTGACTGTCAACAAAACAATTTCCCAGTTCC
66 CGAAGGGACGGCTGACTGTCAACAAAACAATTTCCCAATTCC
* *
45463 AGAACCAACTTCAACTTCAC
1 AGAGCCAATTTCAACTTCAC
45483 GACAGAAGAT
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
106 79 0.71
107 33 0.29
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (107 bp):
AGAGCCAATTTCAACTTCACAGCGAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACAA
CGAAGGGACGGCTGACTGTCAACAAAACAATTTCCCAATTCC
Found at i:47070 original size:20 final size:21
Alignment explanation
Indices: 47020--47070 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
47010 TTATATTTTG
*
47020 TTCTATATATTTCTATATATAT
1 TTCT-TATTTTTCTATATATAT
47042 TTCTTATTTTTCTAT-TATTAT
1 TTCTTATTTTTCTATATA-TAT
47063 TT-TTATTT
1 TTCTTATTT
47071 AATACTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 8 0.30
21 15 0.56
22 4 0.15
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCTTATTTTTCTATATATAT
Found at i:47475 original size:3 final size:3
Alignment explanation
Indices: 47469--47502 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
47459 ATGTAAATAT
47469 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
47503 CTTCTCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48200 original size:17 final size:18
Alignment explanation
Indices: 48178--48211 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
48168 CCCCAAGACC
48178 CCTATAAAACC-ATAAAA
1 CCTATAAAACCTATAAAA
48195 CCTATAAAACCTATAAA
1 CCTATAAAACCTATAAA
48212 GAAAACAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.21
Consensus pattern (18 bp):
CCTATAAAACCTATAAAA
Found at i:48203 original size:9 final size:9
Alignment explanation
Indices: 48178--48211 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
48168 CCCCAAGACC
48178 CCTATAAAA
1 CCTATAAAA
48187 CC-ATAAAA
1 CCTATAAAA
48195 CCTATAAAA
1 CCTATAAAA
48204 CCTATAAA
1 CCTATAAA
48212 GAAAACAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.21
Consensus pattern (9 bp):
CCTATAAAA
Found at i:48969 original size:22 final size:22
Alignment explanation
Indices: 48944--48991 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
48934 ATATATTAAC
48944 TTTTT-TTGCAACATTT-TATTTA
1 TTTTTATTG-AACATTTAT-TTTA
*
48966 TTTTTATTGAAGATTTATTTTA
1 TTTTTATTGAACATTTATTTTA
48988 TTTT
1 TTTT
48992 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTTATTGAACATTTATTTTA
Found at i:48989 original size:5 final size:5
Alignment explanation
Indices: 48979--49003 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48969 TTATTGAAGA
48979 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
49004 CCATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:50031 original size:46 final size:46
Alignment explanation
Indices: 49964--50057 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 46
49954 ACAGCTATGT
* *
49964 ATTTTCATTTGTGGCATCCTTTCATG-TCAATTATGCATTGTTATAC
1 ATTTTCATTTATGGCATCCTTTCATGCT-AATTATGCAATGTTATAC
* *
50010 ATTTTCATTTATGTCATCCTTTCATGCTAATTATGCAATGTTCTAC
1 ATTTTCATTTATGGCATCCTTTCATGCTAATTATGCAATGTTATAC
50056 AT
1 AT
50058 CTAACTTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATGCTAATTATGCAATGTTATAC
Found at i:50910 original size:27 final size:27
Alignment explanation
Indices: 50828--50911 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
50818 AGTTGCACAA
* *
50828 ATAGTGTCGAAACGGTTGTTCATCAAC
1 ATAGTGTTGAAACGGTTATTCATCAAC
* * * *
50855 ATA-TGATGAATTCCGTGAGTTGCA-C-AC
1 ATAGTGTTGAA-ACGGTTA-TT-CATCAAC
50882 ATAGTGTTGAAACGGTTATTCATCAAC
1 ATAGTGTTGAAACGGTTATTCATCAAC
50909 ATA
1 ATA
50912 TGATGAATTC
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
25 2 0.05
26 8 0.20
27 20 0.49
28 9 0.22
29 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (27 bp):
ATAGTGTTGAAACGGTTATTCATCAAC
Found at i:50937 original size:27 final size:27
Alignment explanation
Indices: 50853--50938 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
50843 TTGTTCATCA
50853 ACATATGATGAATTCCGTGAGTTGCAC
1 ACATATGATGAATTCCGTGAGTTGCAC
* * * *
50880 ACATAGTGTTGAA-ACGGTTA-TT-CATC
1 ACATA-TGATGAATTCCGTGAGTTGCA-C
*
50906 AACATATGATGAATTCCATGAGTTGCAC
1 -ACATATGATGAATTCCGTGAGTTGCAC
50934 ACATA
1 ACATA
50939 GTGCCGAAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
25 2 0.05
26 9 0.20
27 22 0.50
28 9 0.20
29 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (27 bp):
ACATATGATGAATTCCGTGAGTTGCAC
Found at i:50964 original size:27 final size:27
Alignment explanation
Indices: 50934--51019 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
50924 TGAGTTGCAC
50934 ACATAGTGCCGAAACAGTTGATCATCA
1 ACATAGTGCCGAAACAGTTGATCATCA
** * * *
50961 ACATA-TGTTGAATTCCG-TGAGTTA-CA
1 ACATAGTGCCGAA-ACAGTTGA-TCATCA
*
50987 CACATAGTGCCGAAACAGTTGTTCATCA
1 -ACATAGTGCCGAAACAGTTGATCATCA
51015 ACATA
1 ACATA
51020 TGAAGAATTC
Statistics
Matches: 42, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
26 10 0.24
27 23 0.55
28 9 0.21
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (27 bp):
ACATAGTGCCGAAACAGTTGATCATCA
Found at i:51213 original size:54 final size:54
Alignment explanation
Indices: 50359--51213 Score: 939
Period size: 54 Copynumber: 15.8 Consensus size: 54
50349 CTATATTGTC
* * * * * * * *
50359 GTTCATCAACACATGATGAATTCCGTGGGTTGAACACATAGTTCTTG-TACAGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGC-CGAAACGGTT
* * * * * *
50413 GTTCATCATC-TCATGATGAATTTCGTGGGTTCCACACATAGTGCCTG-TACGGTT
1 GTTCATCAACAT-ATGATGAATTCCATGAGTTGCACACATAGTGCC-GAAACGGTT
* * * * * * * *
50467 CTTCATCATC-TCATTATGAATTTCGT-ACGTTGCACATATAGTGCATG-TACGGTT
1 GTTCATCAACAT-ATGATGAATTCCATGA-GTTGCACACATAGTGC-CGAAACGGTT
* * * * *
50521 ATTCATCAACACATGATGCATTCCATGAGTTGCACACATAGTGTCAAAACGGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* * * *
50575 GTTCATCAACATATGATGAATTTCGTGAGTCGCACACATAGTGCCGAAATGGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* *
50629 GTTCATCAACATGTGATGAATTCCATGAGTTGCACACATAGTGTCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* * * * *
50683 GTTCATCAACATATAATGAATTCCGTGAGTTGCATACATAGTACCGAAACTGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* * * ** **
50737 TTTCATTAACATATGATGAATTCCTTGAGTTGCACACATAGTATCGAAATAGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* * * *
50791 TTTCTTCAACATATGATGAATTCCATGAGTTGCACAAATAGTGTCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* **
50845 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGTTGAAACGGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* *
50899 ATTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACAGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* * * * *
50953 GATCATCAACATATGTTGAATTCCGTGAGTTACACACATAGTGCCGAAACAGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* * *
51007 GTTCATCAACATATGAAGAATTCCGTGAGTTGCACACATAATGCCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* * * * * * **
51061 GTTCATCAATATATGATGAATTTCGTGAGTTGCACGCATATTGCCAAAATAGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
*
51115 GTTCATCAACATATGATGAATTTCATGAGTTGCACACATAGTGCCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
* * * *
51169 GTTCATCAATATATGATGAATTTCATGAATTGCACACTTAGTGCC
1 GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCC
51214 TATTTGGTAA
Statistics
Matches: 692, Mismatches: 102, Indels: 14
0.86 0.13 0.02
Matches are distributed among these distances:
54 691 1.00
55 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (54 bp):
GTTCATCAACATATGATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTT
Found at i:54448 original size:6 final size:6
Alignment explanation
Indices: 54437--54771 Score: 508
Period size: 6 Copynumber: 55.8 Consensus size: 6
54427 CCACAAAGGC
54437 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
54485 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
54533 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
54581 TATATG TATATG TATATG TATATG TATATG TATATG TATATG CATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * * * *
54629 TATATG TATATG TATATG CATATG CATATG CATATG CATATG CATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * * *
54677 TATATG TATATG TATATG CATATG TATATG CATATG CATATG CATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * * * * * * *
54725 CATATG CATATG CATATG CATATG CATATG CATATG CATATG CATAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATAT
54772 CTTTATGACA
Statistics
Matches: 322, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 322 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (6 bp):
TATATG
Found at i:55187 original size:55 final size:55
Alignment explanation
Indices: 55121--55228 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
55111 CAAGTCCCCT
*
55121 CCCACACATATTATCTTTTAAAAGATTCTTTAAACCAACACCAATTGGAGAGTCA
1 CCCACACATATTATCTTTTAAAAGATCCTTTAAACCAACACCAATTGGAGAGTCA
*
55176 CCCACACATATTATCTTTTAATAGATCCTTTAAACCAACACCAATTGGAGAGT
1 CCCACACATATTATCTTTTAAAAGATCCTTTAAACCAACACCAATTGGAGAGT
55229 GACATGTGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (55 bp):
CCCACACATATTATCTTTTAAAAGATCCTTTAAACCAACACCAATTGGAGAGTCA
Found at i:59312 original size:41 final size:41
Alignment explanation
Indices: 59143--59602 Score: 465
Period size: 41 Copynumber: 11.2 Consensus size: 41
59133 TAAATACTTG
* * *
59143 TACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGACT-G
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
** *
59183 TACTTTAGTGGCGTTTTTATACAAACGCCATTGTAGACT-A
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
** * * * * *
59223 TACTTTAGCAGCGTTTTTAGAACAAGCACCGCTAAATACTCA
1 TACTTTAGTGGCGTTTTTA-TACAAACGCCGCTATAGACTCA
* * * *
59265 TACTTTAGTGACGGTTTTATACAAACGCCGCTAAAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
* * * **
59306 TTCTTTAGTGGCGTTTTAATACAAACGTCGCTATAGACTGG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
*
59347 TACTTTAGTGGTGTTTTTATACAAACGCCGCTATAGACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
** * * * * *
59388 TACTTTAGTGGTTTTTTTATAGAAACGTCGTTAAAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
* * *
59429 TACTTTAGTGGCGTTTTAATAAAAACGCCGCTATATACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
** *
59470 TACTTTAGCAGCGTTTTTATAAAAACGCCGCTATAGACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
* * * ** *
59511 TACTTTAGTGGCATTGTTTTTACAAACACCATTGTAGACTCA
1 TACTTTAGTGGCGTT-TTTATACAAACGCCGCTATAGACTCA
* * * *
59553 TGCTTTAGTGGCGTTTTTATACAAATGTCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
*
59594 TGCTTTAGT
1 TACTTTAGT
59603 TGGAGCCCCT
Statistics
Matches: 341, Mismatches: 76, Indels: 5
0.81 0.18 0.01
Matches are distributed among these distances:
40 51 0.15
41 241 0.71
42 49 0.14
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
Found at i:62962 original size:16 final size:15
Alignment explanation
Indices: 62941--62972 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
62931 TTCTTATTTT
62941 TTCTCCTTCATTCTTC
1 TTCTCCTTCA-TCTTC
62957 TTCTCCTTCATCTTC
1 TTCTCCTTCATCTTC
62972 T
1 T
62973 CTAAACTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.06, C:0.38, G:0.00, T:0.56
Consensus pattern (15 bp):
TTCTCCTTCATCTTC
Found at i:63632 original size:21 final size:21
Alignment explanation
Indices: 63606--63659 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
63596 ATACTCATGG
*
63606 GGGTATCGATACTTG-ATGTAA
1 GGGTATCAATACTTGCATGT-A
*
63627 GGGTATCAATA-ATGCATGTA
1 GGGTATCAATACTTGCATGTA
63647 GGGTATCAATACT
1 GGGTATCAATACT
63660 ACTCATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (21 bp):
GGGTATCAATACTTGCATGTA
Found at i:65119 original size:3 final size:3
Alignment explanation
Indices: 65111--65140 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
65101 TCAGGCACGC
*
65111 GAA GAA GAA TAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
65141 AGGTCGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:71730 original size:79 final size:80
Alignment explanation
Indices: 71642--71871 Score: 272
Period size: 79 Copynumber: 2.9 Consensus size: 80
71632 AAAAAATAAA
* * *
71642 ATTTTAGGTATCATCTAATATTAATATTTATGATAG-AAAAAATAATGTTTTAAGTA-ACGCTTT
1 ATTTTAGGTAGCGTCTAATATTAATATTTATGATAGAAAAAAATAATGTTTTAAATAGA-GCTTT
*
71705 ACCGGAAATATCAAAC
65 ACCGAAAATATCAAAC
* * *
71721 ATTTTAGGTAGCGCCTAATATTAACATTTA-CAGTAGAAAAAAATAATG-TTTAAATAGAGCTTT
1 ATTTTAGGTAGCGTCTAATATTAATATTTATGA-TAGAAAAAAATAATGTTTTAAATAGAGCTTT
* * *
71784 ACCGAAAATGTTAAAT
65 ACCGAAAATATCAAAC
* * *
71800 ATTTTAGGTAGCGT-TCAATATTAATATTTATGATAGAAAAAAATAATATTTTAGATAGTGCTTT
1 ATTTTAGGTAGCGTCT-AATATTAATATTTATGATAGAAAAAAATAATGTTTTAAATAGAGCTTT
*
71864 ACCAAAAA
65 ACCGAAAA
71872 ATATTAAAAA
Statistics
Matches: 128, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 93 0.73
80 33 0.26
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (80 bp):
ATTTTAGGTAGCGTCTAATATTAATATTTATGATAGAAAAAAATAATGTTTTAAATAGAGCTTTA
CCGAAAATATCAAAC
Found at i:87756 original size:3 final size:3
Alignment explanation
Indices: 87750--87790 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
87740 AGGGTTGTTG
87750 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
87791 CATATTAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:89157 original size:64 final size:65
Alignment explanation
Indices: 89005--89165 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
88995 GAATAAATTG
* * * *
89005 AACATCGAATGCAGTTT-ATGCATCGATGCAC-TCTCCATACATCGATGCACTTGGGTTTTAATG
1 AACATCGAATGCA-TTTGATGCATCGATGCACATCACCATACATCGATGCACTAGGCTTTT-ATC
89068 AA
64 AA
*
89070 AACATCGAATGCATTTGATGCATCGATGCACAT-ACCATGCATCGATGCACTCAGGCTTTT-TCA
1 AACATCGAATGCATTTGATGCATCGATGCACATCACCATACATCGATGCACT-AGGCTTTTATCA
89133 A
65 A
89134 AACATCGAATGCATTTGATGCATCGATGCACA
1 AACATCGAATGCATTTGATGCATCGATGCACA
89166 CTTAGTGCAC
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
64 38 0.43
65 43 0.49
66 7 0.08
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACATCACCATACATCGATGCACTAGGCTTTTATCAA
Found at i:97888 original size:64 final size:65
Alignment explanation
Indices: 97732--97892 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
97722 GAATAAATTG
* * *
97732 AACATCGAATGCAGTTT-ATGCATCGATGCAC-TCTCCATGCATCGAAGCACTCGGGTTTTAATG
1 AACATCGAATGCA-TTTGATGCATCGATGCACATCACCATGCATCGAAGCACTCGGCTTTT-ATC
97795 AA
64 AA
* * *
97797 AACATCGAATGCATTTGATGCATCGATGCACAT-ACCATGTATCGATGCACTCATGCTTTT-TCA
1 AACATCGAATGCATTTGATGCATCGATGCACATCACCATGCATCGAAGCACTC-GGCTTTTATCA
97860 A
65 A
97861 AACATCGAATGCATTTGATGCATCGATGCACA
1 AACATCGAATGCATTTGATGCATCGATGCACA
97893 CTTAGTGCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
64 38 0.44
65 43 0.49
66 6 0.07
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACATCACCATGCATCGAAGCACTCGGCTTTTATCAA
Found at i:97905 original size:64 final size:63
Alignment explanation
Indices: 97732--97911 Score: 204
Period size: 64 Copynumber: 2.8 Consensus size: 63
97722 GAATAAATTG
* * * * *
97732 AACATCGAATGCAGTTT-ATGCATCGATGCACTCTCCATGCATCGAAGCACTCGGGTTTTAATGA
1 AACATCGAATGCA-TTTGATGCATCGATGCACACT-TATGCATCGATGCACTCGGCTTTT-ATCA
97796 A
63 A
* * *
97797 AACATCGAATGCATTTGATGCATCGATGCACA-TACCATGTATCGATGCACTCATGCTTTT-TCA
1 AACATCGAATGCATTTGATGCATCGATGCACACT--TATGCATCGATGCACTC-GGCTTTTATCA
97860 A
63 A
97861 AACATCGAATGCATTTGATGCATCGATGCACACTTAGTGCATCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACACTTA-TGCATCGATGCACT
97912 AAGTGTTCCA
Statistics
Matches: 102, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
63 1 0.01
64 52 0.51
65 44 0.43
66 5 0.05
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACACTTATGCATCGATGCACTCGGCTTTTATCAA
Found at i:97916 original size:17 final size:18
Alignment explanation
Indices: 97879--97916 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
97869 ATGCATTTGA
*
97879 TGCATCGATGCACACTTAG
1 TGCATCGATG-ACACTAAG
97898 TGCATCGATG-CACTAAG
1 TGCATCGATGACACTAAG
97915 TG
1 TG
97917 TTCCAACGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (18 bp):
TGCATCGATGACACTAAG
Found at i:100459 original size:3 final size:3
Alignment explanation
Indices: 100445--100501 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
100435 ATCTTAATCT
* * * *
100445 ATA ATA ACA ATA ATA ACA ATA ATA ACA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
100493 ATA ATA ATA
1 ATA ATA ATA
100502 TGAATGGTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:100744 original size:16 final size:16
Alignment explanation
Indices: 100723--100755 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
100713 TAATAAATAG
100723 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
100739 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
100755 A
1 A
100756 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:100836 original size:10 final size:10
Alignment explanation
Indices: 100821--100895 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
100811 CATTTAATAA
100821 ATAAACGAAC
1 ATAAACGAAC
100831 ATAAACGAAC
1 ATAAACGAAC
100841 ----ACGAAC
1 ATAAACGAAC
100847 ATAAACGAAC
1 ATAAACGAAC
* *
100857 ATGAAC-ATAA
1 ATAAACGA-AC
100867 ATGAACACGAAC
1 AT-AA-ACGAAC
100879 ATAAACGAAC
1 ATAAACGAAC
*
100889 ATCAACG
1 ATAAACG
100896 TTGGAGACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 36 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.56, C:0.21, G:0.12, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:100846 original size:16 final size:16
Alignment explanation
Indices: 100825--100889 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
100815 TAATAAATAA
100825 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
100841 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
100857 ATGAACATAAATGAAC
1 ACGAACATAAACGAAC
100873 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
100889 A
1 A
100890 TCAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:101905 original size:24 final size:24
Alignment explanation
Indices: 101877--101951 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
101867 GATTGGGTTA
*
101877 AACATAAATGAAAGAACATAAACG
1 AACATAAATGAACGAACATAAACG
101901 AACAT-AATCGAACGAACATAAACG
1 AACATAAAT-GAACGAACATAAACG
** *
101925 AACATAACCGAACGAACATAACCG
1 AACATAAATGAACGAACATAAACG
101949 AAC
1 AAC
101952 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.07
24 41 0.91
25 1 0.02
ACGTcount: A:0.56, C:0.21, G:0.12, T:0.11
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAACG
Found at i:101914 original size:14 final size:14
Alignment explanation
Indices: 101897--101952 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
101887 AAAGAACATA
*
101897 AACGAACATAATCG
1 AACGAACATAACCG
101911 AACGAACAT-A---
1 AACGAACATAACCG
101921 AACGAACATAACCG
1 AACGAACATAACCG
101935 AACGAACATAACCG
1 AACGAACATAACCG
101949 AACG
1 AACG
101953 TTCACGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.52, C:0.25, G:0.14, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:101951 original size:10 final size:10
Alignment explanation
Indices: 101890--101937 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
101880 ATAAATGAAA
101890 GAACATAAAC
1 GAACATAAAC
101900 GAACATAATCGAAC
1 GAACAT-A---AAC
101914 GAACATAAAC
1 GAACATAAAC
*
101924 GAACATAACC
1 GAACATAAAC
101934 GAAC
1 GAAC
101938 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:101962 original size:24 final size:24
Alignment explanation
Indices: 101890--101951 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
101880 ATAAATGAAA
*
101890 GAACATAAACGAACATAATCGAAC
1 GAACATAAACGAACATAACCGAAC
101914 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
101938 GAACATAACCGAAC
1 GAACATAAACGAAC
101952 GTTCACGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.53, C:0.24, G:0.13, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:104525 original size:2 final size:2
Alignment explanation
Indices: 104514--104544 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
104504 ATACATAAAA
104514 AT AT -T 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
104545 TAAGTGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:106909 original size:23 final size:23
Alignment explanation
Indices: 106883--106928 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
106873 TGGTCTTTTA
106883 GGACAAAATTTCATAGCCCCTAG
1 GGACAAAATTTCATAGCCCCTAG
106906 GGACAAAATTTCATAGCCCCTAG
1 GGACAAAATTTCATAGCCCCTAG
106929 TGGGACCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (23 bp):
GGACAAAATTTCATAGCCCCTAG
Found at i:110010 original size:65 final size:65
Alignment explanation
Indices: 109878--110030 Score: 168
Period size: 65 Copynumber: 2.4 Consensus size: 65
109868 TGTGTATCGT
* * * * * *
109878 TGCACAGGAAGTGCATCGATGCA-CCCATTAAAAATGGAAACATCGAATGTAATTAGTGCATCGA
1 TGCATAGGTAGTGCATCGATGCACCCCATTAAAAATGAAAACATCAAAGGTAATTAGTGCATCAA
* * * *
109942 TGCATAAGG-AGTGCATCGATGCACCCCCCTT-AAAATGAAAACATCAAAGGTGATTTGTGTATC
1 TGCAT-AGGTAGTGCATCGATGCA-CCCCATTAAAAATGAAAACATCAAAGGTAATTAGTGCATC
110005 AA
64 AA
*
110007 TGCATGGGTAGTGCATCGATGCAC
1 TGCATAGGTAGTGCATCGATGCAC
110031 TTCAAAGGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
64 21 0.28
65 49 0.65
66 5 0.07
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (65 bp):
TGCATAGGTAGTGCATCGATGCACCCCATTAAAAATGAAAACATCAAAGGTAATTAGTGCATCAA
Found at i:115281 original size:11 final size:11
Alignment explanation
Indices: 115263--115291 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
115253 TTCTTTGCAA
115263 TTTC-TTTTAT
1 TTTCTTTTTAT
115273 TTTCTTTTTAT
1 TTTCTTTTTAT
115284 TTTCTTTT
1 TTTCTTTT
115292 GGAATGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTCTTTTTAT
Found at i:117604 original size:28 final size:28
Alignment explanation
Indices: 117573--117632 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
117563 ATATAATTTA
*
117573 TTTTAAAAAATGGTATAATTGTAGTATT
1 TTTTAAAAAATGATATAATTGTAGTATT
** **
117601 TTTTATTATTTGATATAATTGTAGTATT
1 TTTTAAAAAATGATATAATTGTAGTATT
117629 TTTT
1 TTTT
117633 TAATTTTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.57
Consensus pattern (28 bp):
TTTTAAAAAATGATATAATTGTAGTATT
Found at i:117640 original size:28 final size:28
Alignment explanation
Indices: 117586--117640 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
117576 TAAAAAATGG
*
117586 TATAATTGTAGTATTTTTTATTATTTGA
1 TATAATTGTAGTATTTTTTAATATTTGA
117614 TATAATTGTAGTATTTTTTTAAT-TTTG
1 TATAATTGTAGTA-TTTTTTAATATTTG
117641 CAAATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (28 bp):
TATAATTGTAGTATTTTTTAATATTTGA
Found at i:117873 original size:16 final size:16
Alignment explanation
Indices: 117849--117880 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
117839 ATTTATATTA
117849 AAACAGATGAAACTAT
1 AAACAGATGAAACTAT
*
117865 AAACGGATGAAACTAT
1 AAACAGATGAAACTAT
117881 GAAGGTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (16 bp):
AAACAGATGAAACTAT
Found at i:118213 original size:11 final size:11
Alignment explanation
Indices: 118197--118227 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
118187 GGGCGACGTA
118197 ATTATAATTTT
1 ATTATAATTTT
118208 ATTATAATTTT
1 ATTATAATTTT
*
118219 ATTAAAATT
1 ATTATAATT
118228 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTATAATTTT
Found at i:121753 original size:20 final size:20
Alignment explanation
Indices: 121710--121754 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
121700 CTTACAGTAT
*
121710 CGATACCTCATAAACAAAAG
1 CGATACCTCATAAACAAAAC
*
121730 CGATACCTCATAAACAATAC
1 CGATACCTCATAAACAAAAC
121750 CGATA
1 CGATA
121755 TTGTTCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.27, G:0.09, T:0.18
Consensus pattern (20 bp):
CGATACCTCATAAACAAAAC
Found at i:128029 original size:2 final size:2
Alignment explanation
Indices: 128024--128098 Score: 136
Period size: 2 Copynumber: 38.5 Consensus size: 2
128014 TTTTTAAAAT
128024 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
128066 TA TA TA TA TA TA TA TA T- TA T- TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128099 TCTTTTAACA
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 69 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:140576 original size:14 final size:15
Alignment explanation
Indices: 140548--140576 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
140538 CATTTTATTT
140548 AATATTTTATTTAAA
1 AATATTTTATTTAAA
140563 AATATTTT-TTTAAA
1 AATATTTTATTTAAA
140577 TAAAAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATATTTTATTTAAA
Found at i:141228 original size:43 final size:42
Alignment explanation
Indices: 141180--141595 Score: 180
Period size: 42 Copynumber: 9.8 Consensus size: 42
141170 GGGTTTAAAC
*
141180 TATAAAAGTAAAAAGTATGATTGAAAAAATCAGGGACCTCAAT
1 TATAAAAGTAAAAAGTA-GATTGAAAAAATTAGGGACCTCAAT
* * ** *
141223 TATAAAGGTAAAAAGTGAAATTGAAAAAAAACAGAGG-CCTAAAT
1 TATAAAAGTAAAAAGT-AGATTG-AAAAAATTAG-GGACCTCAAT
* * * *
141267 TATATAAGTAAACAAATAGGATT-AGAAATATTAGGGGCCTCAAT
1 TATAAAAGTAAA-AAGTA-GATTGA-AAAAATTAGGGACCTCAAT
* *
141311 TATAAAGGTAAAAAAGTGAGA-TCAAAAAATTAGGG-CCTCAAT
1 TATAAAAGT-AAAAAGT-AGATTGAAAAAATTAGGGACCTCAAT
* * * * * *
141353 TATACAGGTAGAAAGTGAGATTAAAAAAATTA-TGAGCTCAAT
1 TATAAAAGTAAAAAGT-AGATTGAAAAAATTAGGGACCTCAAT
* * * * **
141395 TATAAAGGTACAAAGTGGGATTG-AAAAGTTA-GGATAGTCAAT
1 TATAAAAGTAAAAAGT-AGATTGAAAAAATTAGGGA-CCTCAAT
* * * *
141437 TATAAATGTAAAAATTTGAAATTGAAAAAATTA-AGACCCTCAAT
1 TATAAAAGTAAAAA-GT-AGATTGAAAAAATTAGGGA-CCTCAAT
* **
141481 TAT-AAAGATAAAAA-AATGAATT-ATAAAAATTAGAAACCTCAAT
1 TATAAAAG-TAAAAAGTA-G-ATTGA-AAAAATTAGGGACCTCAAT
* * * *
141524 TATAAAAATAAAAA-TAAAATTAAAAAAATTAAAAGG--CTCAAT
1 TATAAAAGTAAAAAGT-AGATTGAAAAAATT--AGGGACCTCAAT
* * *
141566 TATAAAAATAAAAA-TAAAAT-AAAAAATTAG
1 TATAAAAGTAAAAAGTAGATTGAAAAAATTAG
141596 AGAACCTATA
Statistics
Matches: 297, Mismatches: 51, Indels: 55
0.74 0.13 0.14
Matches are distributed among these distances:
38 1 0.00
40 8 0.03
41 25 0.08
42 99 0.33
43 70 0.24
44 82 0.28
45 12 0.04
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (42 bp):
TATAAAAGTAAAAAGTAGATTGAAAAAATTAGGGACCTCAAT
Found at i:141348 original size:42 final size:42
Alignment explanation
Indices: 141180--141529 Score: 216
Period size: 44 Copynumber: 8.1 Consensus size: 42
141170 GGGTTTAAAC
* *
141180 TATAAAAGT-AAAAAGT-ATGATTGAAAAAATCAGGGACCTCAAT
1 TATAAAGGTAAAAAAGTGA-GATT-AAAAAATTAGGG-CCTCAAT
* ** *
141223 TATAAAGGT-AAAAAGTGAAATTGAAAAAAAACAGAGGCCTAAAT
1 TATAAAGGTAAAAAAGTGAGATT--AAAAAATTAG-GGCCTCAAT
*
141267 TATATAA-GTAAACAAA-T-AGGATTAGAAATATTAGGGGCCTCAAT
1 TATA-AAGGTAAA-AAAGTGA-GATTA-AAAAATTA-GGGCCTCAAT
*
141311 TATAAAGGTAAAAAAGTGAGATCAAAAAATTAGGGCCTCAAT
1 TATAAAGGTAAAAAAGTGAGATTAAAAAATTAGGGCCTCAAT
* * *
141353 TATACAGGT-AGAAAGTGAGATTAAAAAAATTATGAG-CTCAAT
1 TATAAAGGTAAAAAAGTGAGATT-AAAAAATTA-GGGCCTCAAT
* * * * ***
141395 TATAAAGGT-ACAAAGTGGGATTGAAAAGTTAGGATAGTCAAT
1 TATAAAGGTAAAAAAGTGAGATTAAAAAATTAGG-GCCTCAAT
* ** * **
141437 TATAAATGTAAAAATTTGAAATTGAAAAAATTAAGACCCTCAAT
1 TATAAAGGTAAAAAAGTGAGATT-AAAAAATT-AGGGCCTCAAT
* * **
141481 TATAAAGATAAAAAAATGA-ATTATAAAAATTAGAAACCTCAAT
1 TATAAAGGTAAAAAAGTGAGATTA-AAAAATTAG-GGCCTCAAT
141524 TATAAA
1 TATAAA
141530 AATAAAAATA
Statistics
Matches: 245, Mismatches: 41, Indels: 42
0.75 0.12 0.13
Matches are distributed among these distances:
40 1 0.00
41 18 0.07
42 68 0.28
43 65 0.27
44 76 0.31
45 14 0.06
46 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (42 bp):
TATAAAGGTAAAAAAGTGAGATTAAAAAATTAGGGCCTCAAT
Found at i:141527 original size:22 final size:20
Alignment explanation
Indices: 141475--141578 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 20
141465 AATTAAGACC
* *
141475 CTCAATTATAAAGATAAAAAA
1 CTCAATTATAAAAAT-TAAAA
* *
141496 ATGAATTATAAAAATTAGAAA
1 CTCAATTATAAAAATTA-AAA
141517 CCTCAATTATAAAAA-TAAAA
1 -CTCAATTATAAAAATTAAAA
* * *
141537 ATAAAATTAAAAAAATTAAAA
1 CT-CAATTATAAAAATTAAAA
141558 GGCTCAATTATAAAAA-TAAAA
1 --CTCAATTATAAAAATTAAAA
141579 ATAAAATAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
19 1 0.02
20 14 0.22
21 27 0.42
22 22 0.34
23 1 0.02
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
CTCAATTATAAAAATTAAAA
Found at i:141579 original size:22 final size:20
Alignment explanation
Indices: 141475--141579 Score: 86
Period size: 22 Copynumber: 5.0 Consensus size: 20
141465 AATTAAGACC
*
141475 CTCAATTATAAAGATAAAAAA
1 CTCAATTATAAAAAT-AAAAA
* * *
141496 ATGAATTATAAAAATTAGAAAC
1 CTCAATTATAAAAA-TA-AAAA
141518 CTCAATTATAAAAATAAAAA
1 CTCAATTATAAAAATAAAAA
* * *
141538 -TAAAATTAAAAAAATTAAAAGG
1 CT-CAATTATAAAAA-TAAAA-A
141560 CTCAATTATAAAAATAAAAA
1 CTCAATTATAAAAATAAAAA
141580 TAAAATAAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
19 1 0.02
20 13 0.20
21 24 0.37
22 26 0.40
23 1 0.02
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
CTCAATTATAAAAATAAAAA
Found at i:142863 original size:20 final size:20
Alignment explanation
Indices: 142838--142875 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
142828 ATTATTATTA
142838 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
142858 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
142876 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:148716 original size:183 final size:183
Alignment explanation
Indices: 148408--148944 Score: 970
Period size: 183 Copynumber: 2.9 Consensus size: 183
148398 ATTAAATCCG
148408 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
148473 ATAGATTATGTTCAAACTATGACACTGCT-GGAACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACTATGACACTGCTCGG-ACACTTGGCAATTCGGTGTTTGCTCCACTGCT
148537 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
148591 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
148656 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
148721 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
148774 TAAAGCTAAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * * *
148839 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTTGGTGTTTGCTCTACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
148903 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
148945 TAAACCTGAT
Statistics
Matches: 343, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
182 1 0.00
183 340 0.99
184 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:150308 original size:39 final size:39
Alignment explanation
Indices: 150265--150417 Score: 110
Period size: 39 Copynumber: 3.6 Consensus size: 39
150255 TTTTATCTTG
*
150265 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* * *
150304 CTTGAGACAGTTTCTCTTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTC
1 CTTGAGACAGTTTCCCTCG-AAACA--------G-AA--AATTTTGTCTC-C
*
150356 C-TGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* * *
150394 TTTGAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCCCTCGAAACA
150418 TAAACATTGA
Statistics
Matches: 88, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
38 1 0.01
39 45 0.51
40 5 0.06
41 2 0.02
42 1 0.01
48 1 0.01
49 2 0.02
50 5 0.06
51 24 0.27
52 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (39 bp):
CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
Found at i:150505 original size:106 final size:105
Alignment explanation
Indices: 150320--150639 Score: 488
Period size: 106 Copynumber: 3.1 Consensus size: 105
150310 ACAGTTTCTC
* *
150320 TTGAAAACATTTCCCTTGAAATTA-ATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
*
150384 TTTTGTCTCCTTTGAGACAGTTTCTCTTGAAACATAAACA
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
*
150424 TTGAAAACATTTCCCTTGAAATGATTTTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA
1 TTGAAAACATTTCCCTTGAAATGA-TATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA
150489 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
65 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * * *
150530 TTGAAAACATTTCCCTTGATATGA-ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
* ** *
150591 TTTTATCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
150631 TTGAAAACA
1 TTGAAAACA
150640 ATTTAACGAA
Statistics
Matches: 201, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
101 47 0.23
103 1 0.00
104 53 0.26
106 100 0.50
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (105 bp):
TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:150592 original size:36 final size:36
Alignment explanation
Indices: 150539--150614 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
150529 ATTGAAAACA
* * * *
150539 TTTCCCTTGATATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
150575 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
150611 TTTC
1 TTTC
150615 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:151017 original size:105 final size:105
Alignment explanation
Indices: 150814--151444 Score: 903
Period size: 105 Copynumber: 6.0 Consensus size: 105
150804 ATATCGTGAC
* * * * * * *
150814 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
*
150879 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
150920 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
150985 ATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
151025 ACTTCAGACAACGCAAGTTCAACTTCACTACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
151090 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
151130 ACTCCAGACAACGCAAGTTCAACTTCACGAGGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
151195 ATCTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
151235 ACTCCAGACAATGCAAGTTCAACTCCACGACGAAGGGACCACTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
151296 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
151335 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
** * * *
151400 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
151441 ACTC
1 ACTC
151445 GGAACAATAC
Statistics
Matches: 477, Mismatches: 42, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
100 79 0.17
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 301 0.63
106 84 0.18
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:152041 original size:37 final size:37
Alignment explanation
Indices: 151988--152092 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
151978 CATTTTCGTC
151988 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
152025 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
152062 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
152093 CAACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:152507 original size:2 final size:2
Alignment explanation
Indices: 152502--152544 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
152492 TTAGTGTTAT
* *
152502 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT 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
152544 T
1 T
152545 TTCCTATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:158807 original size:2 final size:2
Alignment explanation
Indices: 158800--158836 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
158790 AATGTACCAA
158800 AT 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 A
158837 ATGAAAGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:160160 original size:43 final size:43
Alignment explanation
Indices: 160100--160189 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
160090 TTTATAATAT
* * *
160100 TAAAATATAATTATTTAAATGTTTAAAATGTAATAAATTATTA
1 TAAAATATAATTATTTAAATATTTAAAATATAATAAATGATTA
* * *
160143 TAAAATAT-GTTATTTTAATTATTTAATATATAATAAATGATTA
1 TAAAATATAATTA-TTTAAATATTTAAAATATAATAAATGATTA
160186 TAAA
1 TAAA
160190 TGTTTTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
42 3 0.08
43 37 0.93
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (43 bp):
TAAAATATAATTATTTAAATATTTAAAATATAATAAATGATTA
Found at i:161058 original size:12 final size:12
Alignment explanation
Indices: 161041--161065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
161031 ATTGTTCATG
161041 TGGTACCGATAC
1 TGGTACCGATAC
161053 TGGTACCGATAC
1 TGGTACCGATAC
161065 T
1 T
161066 CCCTTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TGGTACCGATAC
Found at i:168755 original size:45 final size:45
Alignment explanation
Indices: 168699--168790 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
168689 CATCCACTAT
168699 TATATAAGACGATAAATAATTTGATGACATATAATTTAATTGTTA
1 TATATAAGACGATAAATAATTTGATGACATATAATTTAATTGTTA
168744 TATATAAGACGATAAATAATTTGATGACATATAATTTAATTGTTA
1 TATATAAGACGATAAATAATTTGATGACATATAATTTAATTGTTA
168789 TA
1 TA
168791 ATCAATTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (45 bp):
TATATAAGACGATAAATAATTTGATGACATATAATTTAATTGTTA
Found at i:169035 original size:42 final size:41
Alignment explanation
Indices: 168969--169050 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
168959 CTTTTAAAAT
* * *
168969 TGGAGGACCCATTTATAATTTCACTAAACTTTGTGGTGTAAC
1 TGGAGGAACCATTTATAATATCACTAAAC-TTGTAGTGTAAC
*
169011 TGGAGGAACCATTTGTAATATCACTAAACTTGTAGTGTAA
1 TGGAGGAACCATTTATAATATCACTAAACTTGTAGTGTAA
169051 TTTGTCCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 10 0.28
42 26 0.72
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (41 bp):
TGGAGGAACCATTTATAATATCACTAAACTTGTAGTGTAAC
Found at i:177978 original size:37 final size:37
Alignment explanation
Indices: 177885--177980 Score: 120
Period size: 37 Copynumber: 2.6 Consensus size: 37
177875 ATTTTCGTCT
* *
177885 TACTATGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TACTAAGATTCAAACTCCTAAAAATAGGATAAAATTC
* * * *
177922 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAAGATTCAAACTCCTAAAAATAGGATAAAATTC
* *
177959 TACTAAGATTTAAATTCCTAAA
1 TACTAAGATTCAAACTCCTAAA
177981 GATAAGATCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (37 bp):
TACTAAGATTCAAACTCCTAAAAATAGGATAAAATTC
Found at i:182095 original size:25 final size:25
Alignment explanation
Indices: 182065--182117 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
182055 CTAGTTGAAA
182065 AAATCTTGTGACTCTAGTTCAATCC
1 AAATCTTGTGACTCTAGTTCAATCC
182090 AAATCTTGTGACTCTAGTTCAATCC
1 AAATCTTGTGACTCTAGTTCAATCC
182115 AAA
1 AAA
182118 CCTAGAGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (25 bp):
AAATCTTGTGACTCTAGTTCAATCC
Found at i:183261 original size:183 final size:183
Alignment explanation
Indices: 182897--183435 Score: 927
Period size: 183 Copynumber: 2.9 Consensus size: 183
182887 ATTAAATCCG
*
182897 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGTTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* * *
182962 ATAGATTATGTTCAAACTATGACACACTGCTCGAACACTTGGCAATTCGATGTTTGCTCCACTGT
66 ATAGATTATGTTCAAACTATG--ACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGC
*
183027 TTTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTTATTTGTCCCTC
129 TTTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
183082 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
183147 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
183212 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
183265 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGACTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * * *
183330 ATAGATTACATTCAAA-TCATGACATTGCTTGGACACTTGGCAATTCAGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
183394 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
183436 TAAACCTGAT
Statistics
Matches: 339, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
182 1 0.00
183 253 0.75
185 85 0.25
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:184648 original size:72 final size:74
Alignment explanation
Indices: 184552--184726 Score: 198
Period size: 72 Copynumber: 2.4 Consensus size: 74
184542 TTTAATGCAG
* * *
184552 ATGA-TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTATTTT
1 ATGATTTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCATTTT
*
184614 -TCTCGAAA-A
64 CACTCGAAAGA
* *
184623 ATGATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCA
1 ATGATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCATTTTCA
184688 CTCGAAAGA
66 CTCGAAAGA
* **
184697 AGGCATTTCATTTCACTCAAGGCTGTTTTT
1 ATG-ATTT-ATTTCACTCAAGATTGTTTTT
184727 TTATAAGATT
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
71 5 0.06
72 49 0.56
73 8 0.09
74 3 0.03
75 4 0.05
76 19 0.22
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (74 bp):
ATGATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCATTTTCA
CTCGAAAGA
Found at i:184665 original size:36 final size:36
Alignment explanation
Indices: 184556--184670 Score: 92
Period size: 36 Copynumber: 3.2 Consensus size: 36
184546 ATGCAGATGA
*
184556 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-CT
1 TTATCTCACTCAAGA-TTGTTTTTCTTAAAACA-AGAT
* ** * * * *
184592 TTGTCTCACTTGAGACTATTTTTCTCGAAAA-ATGAT
1 TTATCTCACTCAAGATTGTTTTTCT-TAAAACAAGAT
*
184628 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGAT
1 TTATCTCACTCAAGATTGTTTTTCTTAAAACAAGAT
*
184664 TTGTCTC
1 TTATCTC
184671 GCTTGAGACC
Statistics
Matches: 57, Mismatches: 18, Indels: 8
0.69 0.22 0.10
Matches are distributed among these distances:
35 4 0.07
36 48 0.84
37 5 0.09
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.45
Consensus pattern (36 bp):
TTATCTCACTCAAGATTGTTTTTCTTAAAACAAGAT
Found at i:184735 original size:72 final size:71
Alignment explanation
Indices: 184572--184751 Score: 161
Period size: 72 Copynumber: 2.5 Consensus size: 71
184562 CACTCAAATT
* * * * *
184572 TGTTTTTCTTAA-AACATACTTTGTCTCACTTGAGACTATTTTTCTCGAAAAATGATTTATTTCA
1 TGTTTTTCTTAACAAGAT--TTTGTCTCGCTTGAGACCATTTTACTCGAAAAAGGATTTATTTCA
*
184636 CTCAAGAT
64 CTCAAGAC
*
184644 TGTTTTTCTTAAAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTTCAT
1 TGTTTTTCTT--AACAAGATTTTGTCTCGCTTGAGACCATTTT-ACTCGAAA-AAGG-ATTT-AT
*
184708 TTCACTCAAGGC
60 TTCACTCAAGAC
* * *
184720 TGTTTTT-TT-ATAAGATTTTATCTTGCTTGAGA
1 TGTTTTTCTTAACAAGATTTTGTCTCGCTTGAGA
184752 TAGTTTCCCT
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
72 35 0.39
73 21 0.24
74 5 0.06
75 9 0.10
76 19 0.21
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (71 bp):
TGTTTTTCTTAACAAGATTTTGTCTCGCTTGAGACCATTTTACTCGAAAAAGGATTTATTTCACT
CAAGAC
Found at i:184788 original size:39 final size:39
Alignment explanation
Indices: 184745--184900 Score: 118
Period size: 39 Copynumber: 3.7 Consensus size: 39
184735 TTTTATCTTG
184745 CTTGAGATAGTTTCCCTCGAAACATAAAATTTTGTCTCC
1 CTTGAGATAGTTTCCCTCGAAACATAAAATTTTGTCTCC
* * *
184784 CTTGAGATAGTTTCTCTTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTC
1 CTTGAGATAGTTTCCCTCG-AAACA-------T--AA--AATTTTGTCTC-C
*
184836 C-TGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCT-C
1 CTTGAGATAGTTTCCCTCGAAACATAAAATTTTGTCTCC
* * *
184873 CTTGAGACAGTTTCTCTTGAAACATAAA
1 CTTGAGATAGTTTCCCTCGAAACATAAA
184901 CATTGAAAAC
Statistics
Matches: 92, Mismatches: 11, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
37 2 0.02
38 22 0.24
39 26 0.28
40 5 0.05
41 2 0.02
47 1 0.01
49 2 0.02
50 5 0.05
51 25 0.27
52 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (39 bp):
CTTGAGATAGTTTCCCTCGAAACATAAAATTTTGTCTCC
Found at i:184908 original size:103 final size:101
Alignment explanation
Indices: 184800--185010 Score: 316
Period size: 103 Copynumber: 2.1 Consensus size: 101
184790 ATAGTTTCTC
* * *
184800 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAAT
1 TTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCCTGAGATAGTTTCCCTCGAAAC-G--AAT
**
184865 TTTGTCT-CCTTGAGACAGTTTCTCTTGAAACATAAACA
63 TTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACA
* *
184903 TTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACGAATTTT
1 TTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCCTGAGATAGTTTCCCTCGAAACGAATTTT
*
184968 GTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 GTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACA
185004 TTGAAAA
1 TTGAAAA
185011 TAATTTAACG
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
100 10 0.10
101 35 0.35
102 1 0.01
103 53 0.54
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (101 bp):
TTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCCTGAGATAGTTTCCCTCGAAACGAATTTT
GTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACA
Found at i:184959 original size:36 final size:36
Alignment explanation
Indices: 184912--184987 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
184902 ATTGAAAACA
* * *
184912 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
184948 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
184984 TTTC
1 TTTC
184988 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:185387 original size:105 final size:105
Alignment explanation
Indices: 185187--185817 Score: 961
Period size: 105 Copynumber: 6.0 Consensus size: 105
185177 ATATCGTGAC
* * * * *
185187 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
185252 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
185293 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
185358 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
185398 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
185463 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
185503 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
185568 ATATCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
185608 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
* *
185669 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
185708 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAA-TTTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGCTTGTCAAC-AACAACTTCT
** * * *
185771 CCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
64 -CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
185814 ACTC
1 ACTC
185818 GGAACAATGC
Statistics
Matches: 490, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
99 2 0.00
100 80 0.16
101 3 0.01
102 5 0.01
103 3 0.01
104 3 0.01
105 310 0.63
106 84 0.17
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:186456 original size:37 final size:38
Alignment explanation
Indices: 186360--186464 Score: 110
Period size: 37 Copynumber: 2.8 Consensus size: 38
186350 CATTTTCGTC
186360 CTACT-AGAATTCAAAC-TCCTAAAAATAGGATAAAATT
1 CTACTAAG-ATTCAAACTTCCTAAAAATAGGATAAAATT
* * * * *
186397 TTGCTAGGATTCAAACTT-CTAAAAATAGGATAGAGTT
1 CTACTAAGATTCAAACTTCCTAAAAATAGGATAAAATT
* *
186434 CTACTAAGATTTAAA-TTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTTCCTAAAAATAGGAT
186465 CCACAAGCAC
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
36 2 0.04
37 51 0.93
38 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (38 bp):
CTACTAAGATTCAAACTTCCTAAAAATAGGATAAAATT
Found at i:187177 original size:24 final size:23
Alignment explanation
Indices: 187121--187178 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 23
187111 CTTTATAACT
* * *
187121 TTATATTATTTTTTATTATTTTC
1 TTATATTATTATTCATTATTTTA
*
187144 TT-T-TTTTTATTCATTATTATTA
1 TTATATTATTATTCATTATT-TTA
187166 TTATATTATTATT
1 TTATATTATTATT
187179 TAAAAAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
21 12 0.44
22 5 0.19
23 3 0.11
24 7 0.26
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATATTATTATTCATTATTTTA
Found at i:188616 original size:63 final size:64
Alignment explanation
Indices: 188544--188665 Score: 219
Period size: 63 Copynumber: 1.9 Consensus size: 64
188534 TAAAATGTAG
188544 GTACTAGAAGTGCAATAAAATGCTAAACATGTGGGACTAAAATAGAAATAAAGT-AAATTACAT
1 GTACTAGAAGTGCAATAAAATGCTAAACATGTGGGACTAAAATAGAAATAAAGTGAAATTACAT
* *
188607 GTACTAGAAGTGCAATAAACTGCTAAACATGTGGGACTAAAATAGAAATAGAGTGAAAT
1 GTACTAGAAGTGCAATAAAATGCTAAACATGTGGGACTAAAATAGAAATAAAGTGAAAT
188666 AAAGATCATA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
63 52 0.93
64 4 0.07
ACGTcount: A:0.48, C:0.10, G:0.20, T:0.23
Consensus pattern (64 bp):
GTACTAGAAGTGCAATAAAATGCTAAACATGTGGGACTAAAATAGAAATAAAGTGAAATTACAT
Found at i:188637 original size:30 final size:29
Alignment explanation
Indices: 188544--188638 Score: 70
Period size: 30 Copynumber: 3.1 Consensus size: 29
188534 TAAAATGTAG
188544 GTACTAGAAGTGCAATAAAATGCTAAACAT
1 GTACTAGAAGTGCAAT-AAATGCTAAACAT
* *
188574 GTGGGACTA-AAATAGAAATAAA-G-TAAATTACAT
1 GT---ACTAGAAGT-GCAATAAATGCT-AA--ACAT
188607 GTACTAGAAGTGCAATAAACTGCTAAACAT
1 GTACTAGAAGTGCAATAAA-TGCTAAACAT
188637 GT
1 GT
188639 GGGACTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 22
0.66 0.05 0.29
Matches are distributed among these distances:
30 20 0.40
31 6 0.12
32 9 0.18
33 15 0.30
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (29 bp):
GTACTAGAAGTGCAATAAATGCTAAACAT
Found at i:188789 original size:29 final size:29
Alignment explanation
Indices: 188734--188820 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
188724 TTAAAAATTA
* * **
188734 ACAGAAAAGTAAATGCTAGAATTTAAAAG
1 ACAGAAAAGTAAAAGCTAAAAAATAAAAG
*
188763 ACAGAAATGTAAAAGCTAAAAAATAAAAGG
1 ACAGAAAAGTAAAAGCTAAAAAATAAAA-G
* * *
188793 GCAGAATAAATAAAA-CTAAAAATTAAAA
1 ACAGAA-AAGTAAAAGCTAAAAAATAAAA
188821 TACTGAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 23 0.49
30 18 0.38
31 6 0.13
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.17
Consensus pattern (29 bp):
ACAGAAAAGTAAAAGCTAAAAAATAAAAG
Found at i:189082 original size:14 final size:14
Alignment explanation
Indices: 189063--189092 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
189053 GGTTAGTAAC
189063 AATAAAAATAAAAT
1 AATAAAAATAAAAT
*
189077 AATAAAGATAAAAT
1 AATAAAAATAAAAT
189091 AA
1 AA
189093 AATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (14 bp):
AATAAAAATAAAAT
Found at i:189179 original size:47 final size:47
Alignment explanation
Indices: 189077--189183 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 47
189067 AAAATAAAAT
* * * *
189077 AATAAAGAT-AAAATAAAATAAAAATTGATAATTAGTTGTCAGTAGT
1 AATAAAAATAAAAATAAAATAAAAATTAATAATCAGTTGTCAGTAGA
** * * * *
189123 GTTAGAAATAAAAATAAAATAAAAGTTAATAGTCAGTTGTTAGTAGA
1 AATAAAAATAAAAATAAAATAAAAATTAATAATCAGTTGTCAGTAGA
189170 AATAAAAATAAAAA
1 AATAAAAATAAAAA
189184 ACAAAATATA
Statistics
Matches: 47, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
46 5 0.11
47 42 0.89
ACGTcount: A:0.57, C:0.02, G:0.13, T:0.28
Consensus pattern (47 bp):
AATAAAAATAAAAATAAAATAAAAATTAATAATCAGTTGTCAGTAGA
Found at i:189198 original size:41 final size:41
Alignment explanation
Indices: 189125--189209 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
189115 TCAGTAGTGT
* * *
189125 TAGAAATAAAAATAAAATAAAAGTTAATAGTCAGTTGTTAG
1 TAGAAATAAAAATAAAAAAAAAATTAATAGTCAGTAGTTAG
189166 TAGAAATAAAAATAAAAAACAAAA-T-ATAAGTCAGTAGTTAG
1 TAGAAATAAAAATAAAAAA-AAAATTAAT-AGTCAGTAGTTAG
189207 TAG
1 TAG
189210 TATTAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
40 2 0.05
41 34 0.87
42 3 0.08
ACGTcount: A:0.56, C:0.04, G:0.14, T:0.26
Consensus pattern (41 bp):
TAGAAATAAAAATAAAAAAAAAATTAATAGTCAGTAGTTAG
Found at i:190224 original size:12 final size:13
Alignment explanation
Indices: 190205--190237 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
190195 CATCCATGTT
190205 ACAAAAACAAAAA
1 ACAAAAACAAAAA
190218 A-AAAAACAAAAA
1 ACAAAAACAAAAA
190230 ACAAAAAC
1 ACAAAAAC
190238 CCTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAACAAAAA
Found at i:197522 original size:21 final size:21
Alignment explanation
Indices: 197403--197520 Score: 125
Period size: 21 Copynumber: 5.7 Consensus size: 21
197393 CCCAGGTTCC
* *
197403 AAATTCGCAATGTGAAAGTC-
1 AAATTCGCAACGCGAAAGTCG
*
197423 AAATTCGCAACGCAAAAGTCG
1 AAATTCGCAACGCGAAAGTCG
*
197444 AAATTCGCAATGCGAAAGTCG
1 AAATTCGCAACGCGAAAGTCG
* * **
197465 AAATTCGCAACACG--ATTTT
1 AAATTCGCAACGCGAAAGTCG
*
197484 AAGATTCGCAACGCGATAGTCG
1 AA-ATTCGCAACGCGAAAGTCG
197506 AAATTCGCAACGCGA
1 AAATTCGCAACGCGA
197521 TACTCCAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.05
20 28 0.35
21 44 0.55
22 4 0.05
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (21 bp):
AAATTCGCAACGCGAAAGTCG
Found at i:197534 original size:21 final size:21
Alignment explanation
Indices: 197489--197536 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
197479 ATTTTAAGAT
* * *
197489 TCGCAACGCGATAGTCGAAAT
1 TCGCAACGCGATACTCCAAAA
197510 TCGCAACGCGATACTCCAAAA
1 TCGCAACGCGATACTCCAAAA
197531 TCGCAA
1 TCGCAA
197537 TGCATTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGATACTCCAAAA
Done.