Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_25 ID=scaffold_25-JGI_221_v2.0
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: 59078
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.34
Warning! 1095 characters in sequence are not A, C, G, or T
Found at i:68 original size:46 final size:46
Alignment explanation
Indices: 1--1168 Score: 1730
Period size: 46 Copynumber: 25.5 Consensus size: 46
* * * *
1 AAGACAAGATCTGATATCTTCGATCCCCTCTGCTGCCGAATAAAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* *
47 AAGACAAGATCTGCTATCTTCGATCCCTTCCCCT-CCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * * *
92 AACACAAGATCTCCTATCTTCGATCCCCTCTGCTGCCAAATACAAG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * * *
138 CAGGCAAGATTTGCTATCTTCGTTCCCCTCCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * *
184 AAGACAAGATCCGCTATCTTCGATCTCCTCCCCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * *
230 AAGAGAAGATTTGCTATCTTCGATCCCCTCTGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * *
276 AAGACAAGATCTGATATCTTCGATCCCCTCTGCTGCCACATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
*
322 AAGACAAGATCTGCTATCTTTGATCCCCTCCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
368 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
*
414 AAGACAAGATCTGCTATCTTCGATCCCTTCCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * * * *
460 AAAACATGATCTGCTATCTTCGATCTCCTTCGCTGCCAAATACAGA
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* *
506 AAGACAAGATCTGATATCTTCGATCCCCTCTGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* *
552 AAGACAAGATCTGCTATCTTCGATCCCCTTCGCTGCCAAATAGAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
*
598 AAGACAAGATTTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
*
644 AAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * *
690 AAGACAAGATATGTTATCTTCGAT-CCCTCCACTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * *
735 AAGACAAGATCTGATATCTTTGATACCCTCCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
*
781 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * *
827 AAGACAATATCTGATATCTTCGATCCCCTCTGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
*
873 AAGACAAGATCTGCTATCTTCGATCCCTTCCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* *
919 AAGACAAGATCTGTTATCTTCGATCTCCTCCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * * *
965 AAGGCAAGATCTGTTATCTTTGATCCCCTTCGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * * *
1011 AAGACAAGATCTGCTATCCTCGATCTCCTCCGCTGCCAAATAAATG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * *
1057 AAGATAAGATCTACTATCTTCGATCCCCTCTGCTGCCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
* * * *
1103 AAGACAAGATATGCTATCTTCAATCCCC-CCACTACCAAATACAGG
1 AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
*
1148 AAGATAAGATCTGCTATCTTC
1 AAGACAAGATCTGCTATCTTC
1169 ATTGGTCTGT
Statistics
Matches: 1004, Mismatches: 116, Indels: 5
0.89 0.10 0.00
Matches are distributed among these distances:
45 111 0.11
46 893 0.89
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (46 bp):
AAGACAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGG
Found at i:3287 original size:25 final size:24
Alignment explanation
Indices: 3253--3299 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
3243 CTCCTTTTTC
*
3253 TTTTTTTTTTTAATTTTTTTGATT
1 TTTTTTTTTTTAATTTTGTTGATT
*
3277 TTTTTTATTTTTTATTTTGTTGA
1 TTTTTT-TTTTTAATTTTGTTGA
3300 GTCTGAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (24 bp):
TTTTTTTTTTTAATTTTGTTGATT
Found at i:5354 original size:19 final size:17
Alignment explanation
Indices: 5332--5374 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
5322 GTGAAATTTG
5332 ATGCATGCAATGAAATGCA
1 ATGCATGC-ATGAAATG-A
5351 ATGCAGATGCATGAAATGA
1 ATGC--ATGCATGAAATGA
5370 ATGCA
1 ATGCA
5375 AAAAGAGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 9 0.41
20 8 0.36
21 4 0.18
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (17 bp):
ATGCATGCATGAAATGA
Found at i:7705 original size:23 final size:24
Alignment explanation
Indices: 7656--7708 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
7646 TATATTAAAG
**
7656 TATATAAAAATATAAGTACGTACA
1 TATATAAAAATATAAAAACGTACA
* *
7680 TATATAAAAAT-TAAAAATGTAGA
1 TATATAAAAATATAAAAACGTACA
7703 TATATA
1 TATATA
7709 TATATATGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (24 bp):
TATATAAAAATATAAAAACGTACA
Found at i:7772 original size:3 final size:3
Alignment explanation
Indices: 7764--7852 Score: 99
Period size: 3 Copynumber: 28.7 Consensus size: 3
7754 TAAGTGGGTA
* * * *
7764 AAT AAT AAT AAT AAGG AA- AGT AAT AAT AAT AAAT GCAAT AAC AAG AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT
7812 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7853 AGGATTAGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
2 1 0.01
3 66 0.88
4 5 0.07
5 3 0.04
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:11208 original size:10 final size:10
Alignment explanation
Indices: 11193--11257 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
11183 AAATATGTTT
11193 TAAAATTTTA
1 TAAAATTTTA
11203 TAAAA-TTT-
1 TAAAATTTTA
*
11211 TAAAATATTA
1 TAAAATTTTA
11221 TTAAAA-TTTA
1 -TAAAATTTTA
*
11231 TAAAATATTA
1 TAAAATTTTA
* *
11241 AAAAAATTTA
1 TAAAATTTTA
*
11251 AAAAATT
1 TAAAATT
11258 AAAAATTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
8 5 0.11
9 10 0.23
10 24 0.55
11 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TAAAATTTTA
Found at i:11213 original size:18 final size:18
Alignment explanation
Indices: 11190--11264 Score: 89
Period size: 18 Copynumber: 4.1 Consensus size: 18
11180 AAAAAATATG
*
11190 TTTTAAAATTTTATAAAA
1 TTTTAAAATATTATAAAA
11208 TTTTAAAATATTATTAAAA
1 TTTTAAAATATTA-TAAAA
*
11227 TTTATAAAATATTAAAAAA
1 TTT-TAAAATATTATAAAA
* *
11246 ATTTAAAAAATTA-AAAA
1 TTTTAAAATATTATAAAA
11263 TT
1 TT
11265 AATAAAAACC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.10
18 21 0.42
19 14 0.28
20 10 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTTAAAATATTATAAAA
Found at i:11235 original size:28 final size:30
Alignment explanation
Indices: 11182--11243 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 30
11172 AATATTTAAA
* *
11182 AAAATATGTTTTAAAATTTTATAAAATTTT
1 AAAATATGTATTAAAATTTTATAAAATATT
11212 AAAATAT-TATTAAAA-TTTATAAAATATT
1 AAAATATGTATTAAAATTTTATAAAATATT
11240 AAAA
1 AAAA
11244 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 16 0.53
29 7 0.23
30 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
AAAATATGTATTAAAATTTTATAAAATATT
Found at i:11236 original size:20 final size:19
Alignment explanation
Indices: 11193--11271 Score: 85
Period size: 20 Copynumber: 4.3 Consensus size: 19
11183 AAATATGTTT
*
11193 TAAAATTTTATAAAATTT-
1 TAAAATATTATAAAATTTA
11211 TAAAATATTATTAAAATTTA
1 TAAAATATTA-TAAAATTTA
*
11231 TAAAATATTAAAAAAATTTA
1 TAAAATATT-ATAAAATTTA
*
11251 -AAAA-ATTA-AAAATTAA
1 TAAAATATTATAAAATTTA
11267 TAAAA
1 TAAAA
11272 ACCATTTACA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
16 7 0.13
17 5 0.09
18 12 0.22
19 12 0.22
20 17 0.31
21 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATATTATAAAATTTA
Found at i:11270 original size:18 final size:18
Alignment explanation
Indices: 11223--11272 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
11213 AAATATTATT
* *
11223 AAAATTTATAAAATATTA
1 AAAATTAATAAAAAATTA
11241 AAAA--AATTTAAAAAATTA
1 AAAATTAA--TAAAAAATTA
11259 AAAATTAATAAAAA
1 AAAATTAATAAAAA
11273 CCATTTACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
16 1 0.04
18 23 0.88
20 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAATTAATAAAAAATTA
Found at i:13238 original size:14 final size:14
Alignment explanation
Indices: 13219--13246 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13209 TTATTTGCCA
13219 GTAAAATATTTTTC
1 GTAAAATATTTTTC
13233 GTAAAATATTTTTC
1 GTAAAATATTTTTC
13247 TTATTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GTAAAATATTTTTC
Found at i:17539 original size:144 final size:144
Alignment explanation
Indices: 16988--17512 Score: 908
Period size: 144 Copynumber: 3.6 Consensus size: 144
16978 AAAGCTTGCC
* * *
16988 AATTTCTTTTGGG-ATAGAACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCAACTTTGAT
1 AATTTC-TTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGAT
* *
17052 AAACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAACGAAGCTAA
65 AAACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTTAA
*
17117 ATTTGCTAGATCACA
130 ATTTGCTAGATTACA
*
17132 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTGAGTACTGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGATA
17197 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTTAAA
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTTAAA
17262 TTTGCTAGATTACA
131 TTTGCTAGATTACA
* *
17276 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAATCAAGTCTTAAGTACTGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGATA
*
17341 AGCTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTTAAA
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTTAAA
17406 TTTGCTAGATTACA
131 TTTGCTAGATTACA
* * *
17420 AATTTCTTGGGGAATAAGACCTTCTAATAGATTAGAATCAAGGCTTAAGTACTGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGATA
*
17485 AACTACCAACACAAGAAGGGATTGAACC
66 AACTACCAATACAAGAAGGGATTGAACC
17513 TTGAAGTTGG
Statistics
Matches: 364, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
143 5 0.01
144 359 0.99
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (144 bp):
AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGATA
AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAATGAAGTTAAA
TTTGCTAGATTACA
Found at i:17772 original size:144 final size:144
Alignment explanation
Indices: 17586--17880 Score: 502
Period size: 144 Copynumber: 2.0 Consensus size: 144
17576 TATTGAATCG
* *
17586 ACAAGTCTACTGTTGTAGAGATCCAAACAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGAT
1 ACAATTCTACTGTTGGAGAGATCCAAACAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGAT
* *
17651 AGATCCATTGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGGTTAATTGACCTAAAGCAG
66 AGATCCATTGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGATTAATTGACCCAAAGCAG
17716 AAGGGATTGGACCA
131 AAGGGATTGGACCA
* *
17730 ACAATTCTATTGTTGGAGAGA-CTCAAATAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGA
1 ACAATTCTACTGTTGGAGAGATC-CAAACAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGA
* *
17794 TAGATCCATTGATTTGGTTCCCCGAAAGGATCAGAGATTGGAGATTGATTAATTGACCCAAAGCA
65 TAGATCCATTGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGATTAATTGACCCAAAGCA
17859 GAAGGGATTGGACCA
130 GAAGGGATTGGACCA
17874 ACAATTC
1 ACAATTC
17881 CACATTGCCT
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
143 1 0.01
144 141 0.99
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (144 bp):
ACAATTCTACTGTTGGAGAGATCCAAACAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGAT
AGATCCATTGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGATTAATTGACCCAAAGCAG
AAGGGATTGGACCA
Found at i:18651 original size:16 final size:16
Alignment explanation
Indices: 18630--18679 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
18620 AGTATCAATA
18630 ATGCAAATATTATATT
1 ATGCAAATATTATATT
*
18646 ATGCAAATACTATATT
1 ATGCAAATATTATATT
18662 ATGCAAATACTTAT-TT
1 ATGCAAATA-TTATATT
18678 AT
1 AT
18680 AAAAAAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 28 0.90
17 3 0.10
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (16 bp):
ATGCAAATATTATATT
Found at i:21903 original size:2 final size:2
Alignment explanation
Indices: 21896--21934 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
21886 ATTCACTTGA
21896 AT 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 AT A
21935 CTTTGAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22043 original size:2 final size:2
Alignment explanation
Indices: 21976--22028 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
21966 TGTTTTAAAA
*
21976 AT AT -T AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22017 AT AT AT AT AT AT
1 AT AT AT AT AT AT
22029 GGAAGTAAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23795 original size:44 final size:44
Alignment explanation
Indices: 23728--23836 Score: 155
Period size: 44 Copynumber: 2.5 Consensus size: 44
23718 TGTTGATCTG
* * * * **
23728 CTCCACTAATGCCTAGGGGGACAGAATCTACAATCTTTGACCTA
1 CTCCACTACTGCTTAGGGTGACAGAACCTACAATCTTCAACCTA
*
23772 CTCCACTACTGCTTAGGGTGACAGAACCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGTGACAGAACCTACAATCTTCAACCTA
23816 CTCCACTACTGCTTAGGGTGA
1 CTCCACTACTGCTTAGGGTGA
23837 TAGGACTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGTGACAGAACCTACAATCTTCAACCTA
Found at i:23949 original size:46 final size:46
Alignment explanation
Indices: 23892--24252 Score: 505
Period size: 46 Copynumber: 8.1 Consensus size: 46
23882 AAGATTCACC
* * * *
23892 ATCTTCGATCTCTTCCGCTGCCAAATACAGAAAGATAAGATCTGAT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
**
23938 ATCTTTAATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
23984 ATCTTCGATCTCCTCCGCTGCCAAATACAGTAAGACAAGATCTG--
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24028 --C-T--A-----TCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24064 ATCCTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24110 ATCCTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24156 ATCCTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
24202 ATCTTCGATCTCTTCCACTGCCAAATACAGGAAGATAAG-TCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
24247 ATCTTC
1 ATCTTC
24253 ATTGATCTGT
Statistics
Matches: 287, Mismatches: 16, Indels: 25
0.88 0.05 0.08
Matches are distributed among these distances:
34 29 0.10
38 1 0.00
39 2 0.01
41 2 0.01
42 1 0.00
45 12 0.04
46 240 0.84
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:24035 original size:34 final size:34
Alignment explanation
Indices: 23997--24067 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
23987 TTCGATCTCC
*
23997 TCCGCTGCCAAATACAGTAAGACAAGATCTGCTA
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
*
24031 TCCGCTGCCAAATATAGGAAGACAAGATCTGCTA
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
24065 TCC
1 TCC
24068 TCGATCTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (34 bp):
TCCGCTGCCAAATACAGGAAGACAAGATCTGCTA
Found at i:25236 original size:21 final size:21
Alignment explanation
Indices: 25210--25256 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
25200 GGTATAGTAA
25210 GATCACTACATGCCCCAATCT
1 GATCACTACATGCCCCAATCT
* *
25231 GATCACTTCATGCCCCATTCT
1 GATCACTACATGCCCCAATCT
25252 GATCA
1 GATCA
25257 ATATTTGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACTACATGCCCCAATCT
Found at i:25359 original size:8 final size:8
Alignment explanation
Indices: 25348--25384 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
25338 CCATTTTTAC
25348 TTTTTCATT
1 TTTTTCA-T
25357 TTTTTCA-
1 TTTTTCAT
25364 TTTTTCAT
1 TTTTTCAT
25372 TTTTTCAT
1 TTTTTCAT
25380 TTTTT
1 TTTTT
25385 TCATCTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCAT
Found at i:25362 original size:9 final size:9
Alignment explanation
Indices: 25348--25388 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
25338 CCATTTTTAC
25348 TTTTTCATT
1 TTTTTCATT
25357 TTTTTCA--
1 TTTTTCATT
25364 TTTTTCA-T
1 TTTTTCATT
25372 TTTTTCATT
1 TTTTTCATT
25381 TTTTTCAT
1 TTTTTCAT
25389 CTCTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.23
8 7 0.23
9 16 0.53
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCATT
Found at i:25367 original size:16 final size:15
Alignment explanation
Indices: 25339--25383 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
25329 TTAGCCTCTC
*
25339 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
25353 CATTTTTTTCATTTTT
1 CA-TTTTTTCATTTTT
25369 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
25384 TTCATCTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:25400 original size:24 final size:23
Alignment explanation
Indices: 25339--25388 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
25329 TTAGCCTCTC
*
25339 CATTTTTACTTTTTCATTTTTTT
1 CATTTTTATTTTTTCATTTTTTT
25362 CATTTTTCATTTTTTCATTTTTTT
1 CATTTTT-ATTTTTTCATTTTTTT
25386 CAT
1 CAT
25389 CTCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (23 bp):
CATTTTTATTTTTTCATTTTTTT
Found at i:26223 original size:1 final size:1
Alignment explanation
Indices: 26219--26266 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
26209 CTATGATTGA
* * * * *
26219 TTTTTTTATTTTTTTTGTTTTTGTTTTTGTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
26267 AGTCTGACCT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:26266 original size:6 final size:6
Alignment explanation
Indices: 26230--26263 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
26220 TTTTTTATTT
26230 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT- TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
26264 TTTAGTCTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (6 bp):
TTTTTG
Found at i:29000 original size:19 final size:20
Alignment explanation
Indices: 28971--29022 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
28961 CACTTCGTGA
* *
28971 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
28990 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
29010 AAATG-AATGCAAA
1 AAATGTAATGCAAA
29023 AAAGAGACGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:31220 original size:2 final size:2
Alignment explanation
Indices: 31149--31205 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
31139 TGTTTTAAAA
* *
31149 AT AT -T AT AT AA AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31190 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
31206 GGAAGTAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:31426 original size:3 final size:3
Alignment explanation
Indices: 31408--31492 Score: 125
Period size: 3 Copynumber: 28.3 Consensus size: 3
31398 AATGATAGTC
* * * **
31408 ATA ATA GTA TTA ATA ATA ATA CTA AGG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31456 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31493 CAAAATAACC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:33573 original size:21 final size:20
Alignment explanation
Indices: 33548--33617 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
33538 TTACAAAAAT
33548 TATTTTAATACAATAATAATA
1 TATTTTAATACAA-AATAATA
*
33569 TATTTTAATTTGC-AAA-AAT-
1 TATTTTAA--TACAAAATAATA
*
33588 TATTTTAAAACAAAAATAATA
1 TATTTTAATAC-AAAATAATA
33609 TATTTTAAT
1 TATTTTAAT
33618 TTTAGGACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
17 1 0.03
19 11 0.28
20 6 0.15
21 18 0.46
22 1 0.03
23 2 0.05
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (20 bp):
TATTTTAATACAAAATAATA
Found at i:33585 original size:40 final size:40
Alignment explanation
Indices: 33541--33619 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
33531 TACAAGTTTA
* *
33541 CAAAAATTATTTTAATACAATAATAATATATTTTAATTTG
1 CAAAAATTATTTTAAAACAAAAATAATATATTTTAATTTG
33581 CAAAAATTATTTTAAAACAAAAATAATATATTTTAATTT
1 CAAAAATTATTTTAAAACAAAAATAATATATTTTAATTT
33620 TAGGACATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (40 bp):
CAAAAATTATTTTAAAACAAAAATAATATATTTTAATTTG
Found at i:36096 original size:165 final size:165
Alignment explanation
Indices: 35821--36134 Score: 409
Period size: 165 Copynumber: 1.9 Consensus size: 165
35811 TAAAACAAAC
* * * ****
35821 ATATCAATAGTTAAAGTAGGGATTAAAGGTATTTTTGATCGTCGAACTTTTTCAAAAAAATCAAT
1 ATATCAATAGTTAAAGAAGGGATTAAAGGTATTTTTGATCCTCAAACTTAAAAAAAAAAATCAAT
*
35886 TAAGCCCCTGCGAGCTTTTTGCACCCAAGTGAGCCATTAAACTAACAAAATTGACAAAATAAGCC
66 TAAGCCCCTGCGAACTTTTTGCACCCAAGTGAGCCATTAAACTAACAAAATTGACAAAATAAGCC
*
35951 CTTTAACTAATGTTGACCGATACTTAGAAAAAGAA
131 CTTTAACTAATATTGACCGATACTTAGAAAAAGAA
* * *
35986 ATATCAATTAGTTAAAGAAGGGTTTAATGGTATTTTTGGTCCTCAAACTTAAAAAAAAAAATCAA
1 ATATCAA-TAGTTAAAGAAGGGATTAAAGGTATTTTTGATCCTCAAACTTAAAAAAAAAAATCAA
* * * ** *
36051 TTAAG-CCCTGCGAACTTTTTGCA-CCTAGTTGAGCCCA-TGAACTAACAAAATTGGCCGAATAG
65 TTAAGCCCCTGCGAACTTTTTGCACCCAAG-TGAG-CCATTAAACTAACAAAATTGACAAAATAA
*
36113 GCCCTTTGACTAATATTGACCG
128 GCCCTTTAACTAATATTGACCG
36135 TTACAACGTT
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
164 4 0.03
165 68 0.54
166 55 0.43
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (165 bp):
ATATCAATAGTTAAAGAAGGGATTAAAGGTATTTTTGATCCTCAAACTTAAAAAAAAAAATCAAT
TAAGCCCCTGCGAACTTTTTGCACCCAAGTGAGCCATTAAACTAACAAAATTGACAAAATAAGCC
CTTTAACTAATATTGACCGATACTTAGAAAAAGAA
Found at i:36357 original size:15 final size:15
Alignment explanation
Indices: 36321--36357 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
36311 CTTTTTTAAA
36321 TTTAAAATAATATTT
1 TTTAAAATAATATTT
**
36336 TAAAAAATAATATTT
1 TTTAAAATAATATTT
36351 TTTAAAA
1 TTTAAAA
36358 ATTTTATAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTAAAATAATATTT
Found at i:36368 original size:10 final size:9
Alignment explanation
Indices: 36350--36425 Score: 50
Period size: 10 Copynumber: 8.2 Consensus size: 9
36340 AAATAATATT
36350 TTTTAAAAA
1 TTTTAAAAA
36359 TTTTATAAAA
1 TTTTA-AAAA
36369 TTTTAAAATA
1 TTTTAAAA-A
*
36379 TTATT-ATAA
1 TT-TTAAAAA
36388 -TTTATAAAA
1 TTTTA-AAAA
*
36397 TATTAAATAA
1 TTTTAAA-AA
*
36407 ATTTAAAAA
1 TTTTAAAAA
*
36416 -ATTAAAAA
1 TTTTAAAAA
36424 TT
1 TT
36426 AATAAAAACC
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
7 2 0.04
8 8 0.15
9 16 0.31
10 24 0.46
11 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:36389 original size:19 final size:19
Alignment explanation
Indices: 36350--36419 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
36340 AAATAATATT
36350 TTTTAAAA-ATT-TTATAAAA
1 TTTTAAAATATTATTAT--AA
36369 TTTTAAAATATTATTATAA
1 TTTTAAAATATTATTATAA
*
36388 TTTATAAAATATTA-AATAA
1 TTT-TAAAATATTATTATAA
* *
36407 ATTTAAAAAATTA
1 TTTTAAAATATTA
36420 AAAATTAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.20
19 19 0.42
20 13 0.29
21 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTAAAATATTATTATAA
Found at i:36409 original size:20 final size:20
Alignment explanation
Indices: 36366--36421 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
36356 AAATTTTATA
*
36366 AAATTT-TAAAATATT-ATT
1 AAATTTATAAAATATTAAAT
36384 ATAATTTATAAAATATTAAAT
1 A-AATTTATAAAATATTAAAT
36405 AAATTTA-AAAA-ATTAAA
1 AAATTTATAAAATATTAAA
36422 AATTAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
18 7 0.21
19 9 0.26
20 15 0.44
21 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTTATAAAATATTAAAT
Found at i:37814 original size:27 final size:27
Alignment explanation
Indices: 37773--37827 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
37763 TGAAATCTTG
*
37773 TATGGAAACTCGTAATCTATCACTCTA
1 TATGGAAACTAGTAATCTATCACTCTA
37800 TATGGAAACTAGTAATCTATCACTCTA
1 TATGGAAACTAGTAATCTATCACTCTA
37827 T
1 T
37828 TGTAATACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (27 bp):
TATGGAAACTAGTAATCTATCACTCTA
Found at i:38943 original size:42 final size:42
Alignment explanation
Indices: 38884--38967 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
38874 GATTCGATTC
38884 GAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATA
1 GAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATA
*
38926 GAATTCTATCTCACTCGACTCGATTCGAGAAAACTTCAAATA
1 GAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATA
38968 AAGTTAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (42 bp):
GAATTCCATCTCACTCGACTCGATTCGAGAAAACTTCAAATA
Found at i:40543 original size:19 final size:18
Alignment explanation
Indices: 40514--40563 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
40504 GAATATTTTT
* *
40514 AAAAATGTAAAAGTTATA
1 AAAAATATAAAAATTATA
*
40532 AAAAATTATAAAAATTATT
1 AAAAA-TATAAAAATTATA
*
40551 ACAAATATAAAAA
1 AAAAATATAAAAA
40564 ATAAAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAAATATAAAAATTATA
Found at i:42311 original size:22 final size:19
Alignment explanation
Indices: 42283--42331 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 19
42273 TAAAATATTT
*
42283 TATTTTTAGAACATATATTTTA
1 TATTTTTA-AA-ATATA-ATTA
42305 TATTTTTTAAAATATAATTA
1 TA-TTTTTAAAATATAATTA
42325 TATTTTT
1 TATTTTT
42332 TAGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 5 0.20
21 5 0.20
22 4 0.16
23 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTTTTAAAATATAATTA
Found at i:42332 original size:22 final size:23
Alignment explanation
Indices: 42285--42334 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 23
42275 AAATATTTTA
*
42285 TTTTTAGAACATATATTTTATAT
1 TTTTTAGAACATATATTATATAT
*
42308 TTTTTA-AA-ATATAAT-TATAT
1 TTTTTAGAACATATATTATATAT
42328 TTTTTAG
1 TTTTTAG
42335 GTCAAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 11 0.44
21 6 0.24
22 2 0.08
23 6 0.24
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTAGAACATATATTATATAT
Found at i:42685 original size:22 final size:19
Alignment explanation
Indices: 42657--42705 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 19
42647 TAAAATATTT
*
42657 TATTTTTAGAACATATATTTTA
1 TATTTTTA-AA-ATATA-ATTA
42679 TATTTTTTAAAATATAATTA
1 TA-TTTTTAAAATATAATTA
42699 TATTTTT
1 TATTTTT
42706 TAGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 5 0.20
21 5 0.20
22 4 0.16
23 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTTTTAAAATATAATTA
Found at i:42700 original size:374 final size:375
Alignment explanation
Indices: 42010--42782 Score: 1343
Period size: 374 Copynumber: 2.1 Consensus size: 375
42000 ATGAATTAAT
* * * * * ** * *
42010 TATTAGATTTGAGTGTAATTACTTGCTATTACAAAAGTATAGTATGTTTGGCTAACTATTGTTAT
1 TATTAGATTTGAGTGCAATTACTTGCGATTACAAAAGTATAGCATGATTAGAAAACCATTGTGAT
* * *
42075 TGATGGGTCCATTAAATTAAATGTAATTATAGCACCTCAATTATACTATTCAATTTTTAGGGAGT
66 TGATGGGTCCACTAAATTAAATGTAATTATAGCACCTCAATTATAATATTCAATTCTTAGGGAGT
42140 TGAGAGTTGGGGTAATTACGCGAGTAATTACAATAAATTACTAATTACCCTATAGTTTTTCAAAC
131 TGAGAGTTGGGGTAATTACGCGAGTAATTACAATAAATTACTAATTACCCTATAGTTTTTCAAAC
*
42205 ACATGTACATGATTTAAGAATTTATTTTTTTATACAAGTTTATAAAATTTATTTTAATACAATAA
196 ACATGTACATGATTTAAGAATTTATTTTTTTATACAAGTTTATAAAAGTTATTTTAATACAATAA
42270 TAATAAAATATTTTATTTTTAGAACATATATTTTATATTTTTTAAAATATAATTATATTTTTTAG
261 TAATAAAATATTTTATTTTTAGAACATATATTTTATATTTTTTAAAATATAATTATATTTTTTAG
42335 GTCAAAATTGCTTTGCTATTAGACATATAAATTCAAATATTTCGTGCAAA
326 GTCAAAATTGCTTTGCTATTAGACATATAAATTCAAATATTTCGTGCAAA
* * * *
42385 TATTAGATTTGAGTGCAATTACTTGCGATTGCAAAGGTGTGGCATGATTAGAAAACCATTGTGAT
1 TATTAGATTTGAGTGCAATTACTTGCGATTACAAAAGTATAGCATGATTAGAAAACCATTGTGA-
* *
42450 TTG-TGGGTTCACTAAATTGAATGTAATTATAGCACCTCAATTATAATATTCAATTCTTAGGG-G
65 TTGATGGGTCCACTAAATTAAATGTAATTATAGCACCTCAATTATAATATTCAATTCTTAGGGAG
*
42513 TTGAGAGTTGGGGTAATTACTCGAGTAATTACAATAAATTACTAATTACCCTATAGTTTTTCAAA
130 TTGAGAGTTGGGGTAATTACGCGAGTAATTACAATAAATTACTAATTACCCTATAGTTTTTCAAA
42578 CACATGTACATGATTTAAGAATTTATTTTTTTATACAAGTTTATAAAAGTTATTTTAATACAATA
195 CACATGTACATGATTTAAGAATTTATTTTTTTATACAAGTTTATAAAAGTTATTTTAATACAATA
42643 ATAATAAAATATTTTATTTTTAGAACATATATTTTATATTTTTTAAAATATAATTATATTTTTTA
260 ATAATAAAATATTTTATTTTTAGAACATATATTTTATATTTTTTAAAATATAATTATATTTTTTA
42708 GGTCAAAATTGCTTTGCTATTAGACATATAAATTCAAATATTTCGTGCAAA
325 GGTCAAAATTGCTTTGCTATTAGACATATAAATTCAAATATTTCGTGCAAA
42759 TATTAGATTTGAGTGCAATTACTT
1 TATTAGATTTGAGTGCAATTACTT
42783 TTAAGAAATT
Statistics
Matches: 377, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
374 269 0.71
375 105 0.28
376 3 0.01
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (375 bp):
TATTAGATTTGAGTGCAATTACTTGCGATTACAAAAGTATAGCATGATTAGAAAACCATTGTGAT
TGATGGGTCCACTAAATTAAATGTAATTATAGCACCTCAATTATAATATTCAATTCTTAGGGAGT
TGAGAGTTGGGGTAATTACGCGAGTAATTACAATAAATTACTAATTACCCTATAGTTTTTCAAAC
ACATGTACATGATTTAAGAATTTATTTTTTTATACAAGTTTATAAAAGTTATTTTAATACAATAA
TAATAAAATATTTTATTTTTAGAACATATATTTTATATTTTTTAAAATATAATTATATTTTTTAG
GTCAAAATTGCTTTGCTATTAGACATATAAATTCAAATATTTCGTGCAAA
Found at i:42706 original size:22 final size:23
Alignment explanation
Indices: 42659--42708 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 23
42649 AAATATTTTA
*
42659 TTTTTAGAACATATATTTTATAT
1 TTTTTAGAACATATATTATATAT
*
42682 TTTTTA-AA-ATATAAT-TATAT
1 TTTTTAGAACATATATTATATAT
42702 TTTTTAG
1 TTTTTAG
42709 GTCAAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 11 0.44
21 6 0.24
22 2 0.08
23 6 0.24
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTAGAACATATATTATATAT
Found at i:43722 original size:34 final size:36
Alignment explanation
Indices: 43669--43738 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 36
43659 AGTAAATGAA
*
43669 AAAAACATAGATCTTGATAATCTTAATGATACATAT
1 AAAAACATAGATCTCGATAATCTTAATGATACATAT
*
43705 AAAAA-AT-GATCTCGATAATCTTAATGATGCATAT
1 AAAAACATAGATCTCGATAATCTTAATGATACATAT
43739 TCAGATTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 25 0.78
35 2 0.06
36 5 0.16
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (36 bp):
AAAAACATAGATCTCGATAATCTTAATGATACATAT
Found at i:45091 original size:165 final size:165
Alignment explanation
Indices: 44818--45139 Score: 473
Period size: 165 Copynumber: 2.0 Consensus size: 165
44808 AAATTAATTA
* * * *
44818 AAAAAGACATATCAATAGTTAAAGCAGGGCTTAAAGGTATTTTTGATAGTCGAACTTTTTCGAAA
1 AAAAAGAAATATCAATAGTTAAAGAAGGGCTTAAAGGTATTTTTGATAGTCAAACTTTTTCAAAA
* * *
44883 AAATCAATTAGGCCCCTGTGAACTTTTTGCACCCAACTGAGCCCTTAAACTAACAAAATTGACAA
66 AAATCAATTAAGCCCCTGCGAACTTTTTGCACCCAACTGAGCCCATAAACTAACAAAATTGACAA
*
44948 AATAAGCCCATTAACTAATGTTGACCGATACTTAG
131 AATAAGCCCATTAACTAATATTGACCGATACTTAG
* * * *
44983 AAAAAGAAATATCAATAGTTAAAGAAGGGTTTAATGGTATTTTTGGTCGTCAAACTTTTTCAAAA
1 AAAAAGAAATATCAATAGTTAAAGAAGGGCTTAAAGGTATTTTTGATAGTCAAACTTTTTCAAAA
* * * *
45048 AAATCAATTAAGCCCCTGCGAACTTTTTGCACCCAATTGAGCCCATGAACTAACAAAATTGGCCA
66 AAATCAATTAAGCCCCTGCGAACTTTTTGCACCCAACTGAGCCCATAAACTAACAAAATTGACAA
* * *
45113 AATAGGCCCTTTGACTAATATTGACCG
131 AATAAGCCCATTAACTAATATTGACCG
45140 TTACAACGTT
Statistics
Matches: 138, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
165 138 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (165 bp):
AAAAAGAAATATCAATAGTTAAAGAAGGGCTTAAAGGTATTTTTGATAGTCAAACTTTTTCAAAA
AAATCAATTAAGCCCCTGCGAACTTTTTGCACCCAACTGAGCCCATAAACTAACAAAATTGACAA
AATAAGCCCATTAACTAATATTGACCGATACTTAG
Found at i:45385 original size:10 final size:10
Alignment explanation
Indices: 45367--45437 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
45357 AAACTAATAT
45367 TTTTA-AAAA
1 TTTTATAAAA
45376 TTTTATAAAA
1 TTTTATAAAA
45386 -TTT-TAAAA
1 TTTTATAAAA
*
45394 TATTATTAAAA
1 TTTTA-TAAAA
45405 -TTTATAAAA
1 TTTTATAAAA
* *
45414 TATTAAATAAA
1 TTTTATA-AAA
* *
45425 TTTAAAAAAA
1 TTTTATAAAA
45435 TTT
1 TTT
45438 AAAAATTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.10
9 15 0.30
10 17 0.34
11 13 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TTTTATAAAA
Found at i:45408 original size:28 final size:30
Alignment explanation
Indices: 45362--45420 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 30
45352 TTAAAAAACT
* *
45362 AATATTTTTAAAAATTTTATAAAATTTTAA
1 AATATTATTAAAAATTTTATAAAATATTAA
45392 AATATTATT-AAAA-TTTATAAAATATTAA
1 AATATTATTAAAAATTTTATAAAATATTAA
45420 A
1 A
45421 TAAATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 15 0.56
29 4 0.15
30 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
AATATTATTAAAAATTTTATAAAATATTAA
Found at i:45414 original size:9 final size:9
Alignment explanation
Indices: 45368--45451 Score: 66
Period size: 9 Copynumber: 9.0 Consensus size: 9
45358 AACTAATATT
45368 TTTA-AAAA
1 TTTATAAAA
45376 TTTTATAAAA
1 -TTTATAAAA
45386 TTT-TAAAA
1 TTTATAAAA
45394 TATTATTAAAA
1 T-TTA-TAAAA
45405 TTTATAAAA
1 TTTATAAAA
*
45414 TATTAAATAAA
1 T-TTATA-AAA
*
45425 TTTAAAAAAA
1 TTT-ATAAAA
45435 TTTA-AAAA
1 TTTATAAAA
*
45443 TTAATAAAA
1 TTTATAAAA
45452 ACCATTTACA
Statistics
Matches: 65, Mismatches: 2, Indels: 16
0.78 0.02 0.19
Matches are distributed among these distances:
8 13 0.20
9 20 0.31
10 19 0.29
11 13 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTTATAAAA
Found at i:45414 original size:20 final size:19
Alignment explanation
Indices: 45368--45451 Score: 77
Period size: 19 Copynumber: 4.5 Consensus size: 19
45358 AACTAATATT
*
45368 TTTA-AAAATTTTATAAAA
1 TTTATAAAATATTATAAAA
45386 TTT-TAAAATATTATTAAAA
1 TTTATAAAATATTA-TAAAA
*
45405 TTTATAAAATATTAAATAAA
1 TTTATAAAATATTATA-AAA
*
45425 TTTA-AAAAAATT-TAAAAA
1 TTTATAAAATATTAT-AAAA
*
45443 TTAATAAAA
1 TTTATAAAA
45452 ACCATTTACA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
18 17 0.31
19 21 0.38
20 17 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTATAAAATATTATAAAA
Found at i:45432 original size:28 final size:28
Alignment explanation
Indices: 45368--45432 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
45358 AACTAATATT
* *
45368 TTTAAAAATTTTATAAAATTTTAAAATA
1 TTTAAAAATTTTATAAAATATTAAAAAA
*
45396 TTATTAAAA-TTTATAAAATATTAAATAAA
1 TT-TAAAAATTTTATAAAATATTAAA-AAA
45425 TTTAAAAA
1 TTTAAAAA
45433 AATTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTAAAAATTTTATAAAATATTAAAAAA
Found at i:45438 original size:10 final size:10
Alignment explanation
Indices: 45401--45442 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
45391 AAATATTATT
*
45401 AAAATTT-AT
1 AAAATTTAAA
45410 AAAATATTAAA
1 AAAAT-TTAAA
*
45421 TAAATTTAAA
1 AAAATTTAAA
45431 AAAATTTAAA
1 AAAATTTAAA
45441 AA
1 AA
45443 TTAATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 5 0.18
10 18 0.64
11 5 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:50409 original size:26 final size:26
Alignment explanation
Indices: 50373--50424 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
50363 CTAACGGAGG
*
50373 TTTCGTTGCCCGAAGATTCAACTTGA
1 TTTCATTGCCCGAAGATTCAACTTGA
*
50399 TTTCATTGCCCGAAGATTCAAGTTGA
1 TTTCATTGCCCGAAGATTCAACTTGA
50425 CAAAGATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (26 bp):
TTTCATTGCCCGAAGATTCAACTTGA
Found at i:52260 original size:164 final size:164
Alignment explanation
Indices: 52032--52358 Score: 451
Period size: 164 Copynumber: 2.0 Consensus size: 164
52022 AATGCAAAAT
* ** *
52032 TAATTAAAAAAGACATATAAATAGTTAAAGTAGGGCTTAAAGGTATTTTTGATTGTCGAACTTTT
1 TAATTAAAAAAGAAATATAAATAGTTAAAGTAGGGCTTAAAGGTATTTTTGATCCTCAAACTTTT
** * * *
52097 TTGAAAAAATCAATTAAGCCCCTGCGAACTTTTTGCACCCAATTGAGCCCTTAAACTAACAAAAC
66 TCAAAAAAATCAATTAAGCCCCTGCAAACTTCTTGCACCCAATTGAGCCCATAAACTAACAAAAC
*
52162 TGACAAAATAAGCCCTTTAACTAATGTTGACCGA
131 TGACAAAATAAGCCCTTTAACTAATATTGACCGA
* * *
52196 TAATTAGAAAAAGAAATATCAATAGTTAAA-TAAGGG-TTAATGGTATTTTTGGTCCTCAAACTT
1 TAATTA-AAAAAGAAATATAAATAGTTAAAGT-AGGGCTTAAAGGTATTTTTGATCCTCAAACTT
*
52259 TTTCAAAAAAATCAATTAAGCCCCTGCAAACTTCTTGCACCCAATTGAGCCCATGAACTAACAAA
64 TTTCAAAAAAATCAATTAAGCCCCTGCAAACTTCTTGCACCCAATTGAGCCCATAAACTAACAAA
* * * * *
52324 ATTGGCCAAATAGGCCCTTTGACTAATATTGACCG
129 ACTGACAAAATAAGCCCTTTAACTAATATTGACCG
52359 TTACAACGTT
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
164 117 0.82
165 25 0.18
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (164 bp):
TAATTAAAAAAGAAATATAAATAGTTAAAGTAGGGCTTAAAGGTATTTTTGATCCTCAAACTTTT
TCAAAAAAATCAATTAAGCCCCTGCAAACTTCTTGCACCCAATTGAGCCCATAAACTAACAAAAC
TGACAAAATAAGCCCTTTAACTAATATTGACCGA
Found at i:52635 original size:20 final size:19
Alignment explanation
Indices: 52589--52639 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
52579 ATAATGTTTT
* *
52589 TTTTTAAATTTTA-TAAAA
1 TTTTAAAATATTATTAAAA
52607 TTTTAAAATATTATTAAAA
1 TTTTAAAATATTATTAAAA
52626 TTTATAAAATATTA
1 TTT-TAAAATATTA
52640 AAAAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.38
19 8 0.28
20 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAAAATATTATTAAAA
Found at i:52645 original size:20 final size:20
Alignment explanation
Indices: 52603--52654 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
52593 TAAATTTTAT
**
52603 AAAATTT-TAAAATATTATT
1 AAAATTTATAAAATATTAAA
52622 AAAATTTATAAAATATTAAA
1 AAAATTTATAAAATATTAAA
*
52642 AAAAATTA-AAAAT
1 AAAATTTATAAAAT
52655 TAATAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATTTATAAAATATTAAA
Found at i:54164 original size:10 final size:10
Alignment explanation
Indices: 54151--54219 Score: 56
Period size: 10 Copynumber: 7.2 Consensus size: 10
54141 ATTAATTTTT
54151 AATTTTTTAA
1 AATTTTTTAA
54161 AATTTTTTAA
1 AATTTTTTAA
* *
54171 TATTTTAT-A
1 AATTTTTTAA
54180 AA--TTTTAA
1 AATTTTTTAA
*
54188 TAATATTTTAA
1 -AATTTTTTAA
* *
54199 AATTTTATAC
1 AATTTTTTAA
54209 AA-TTTTTAA
1 AATTTTTTAA
54218 AA
1 AA
54220 AATATTATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
7 3 0.07
8 1 0.02
9 11 0.24
10 25 0.54
11 6 0.13
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:54181 original size:20 final size:19
Alignment explanation
Indices: 54137--54204 Score: 79
Period size: 18 Copynumber: 3.7 Consensus size: 19
54127 TGTAAATGGT
* *
54137 TTTTATTAA-TTTTTAATT
1 TTTTATAAATTTTTTAATA
54155 TTTTA-AAATTTTTTAATA
1 TTTTATAAATTTTTTAATA
*
54173 TTTTATAAATTTTAATAATA
1 TTTTATAAATTTT-TTAATA
54193 TTTTA-AAATTTT
1 TTTTATAAATTTT
54205 ATACAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
17 2 0.05
18 18 0.41
19 14 0.32
20 10 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAAATTTTTTAATA
Found at i:54185 original size:28 final size:28
Alignment explanation
Indices: 54151--54258 Score: 53
Period size: 29 Copynumber: 3.8 Consensus size: 28
54141 ATTAATTTTT
54151 AATTTTTTAAAATTTT-TTAATATTTTATA
1 AATTTTTTAAAATTTTATTAAT-TTTTA-A
* * * *
54180 AATTTTAATAATATTTTA-AAATTTTATAC
1 AATTTT-TTAAAATTTTATTAATTTT-TAA
* *
54209 AATTTTTAAAAAATATTATT--TTTTTAA
1 AATTTTT-TAAAATTTTATTAATTTTTAA
* *
54236 AATGTTATTTTAAATTTTTTTAA
1 AAT-TT-TTTAAAATTTTATTAA
54259 AAAAATTAAG
Statistics
Matches: 56, Mismatches: 14, Indels: 17
0.64 0.16 0.20
Matches are distributed among these distances:
27 5 0.09
28 14 0.25
29 24 0.43
30 13 0.23
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (28 bp):
AATTTTTTAAAATTTTATTAATTTTTAA
Found at i:54676 original size:109 final size:109
Alignment explanation
Indices: 54482--54679 Score: 290
Period size: 109 Copynumber: 1.8 Consensus size: 109
54472 CCTATTTGGC
* * *
54482 CAATTATGTTAGTTCATGGGCTCAATTGGGTGCAAAAAGTTCGCAGGGTCTTAATTAATTTTTTT
1 CAATTATGTTAGTTCAAGGGCTCAATTGGGTGCAAAAAGTTCGCAGGGGCTTAATTAATTTTTTC
*
54547 GAAAAAGTTTGAGGACCAAAAATACCATTAAACCCTTATTTTGT
66 GAAAAAGTTTGACGACCAAAAATACCATTAAACCCTTATTTTGT
* * * *
54591 CAATTTTGTTAGTTTAAGGGCTCAGTTGGGTGCAAAAAGTTCGCAGGGGCTTAATTGATTTTTTC
1 CAATTATGTTAGTTCAAGGGCTCAATTGGGTGCAAAAAGTTCGCAGGGGCTTAATTAATTTTTTC
* *
54656 GAAAAA-TTTCGACTATCAAAAATA
66 GAAAAAGTTT-GACGACCAAAAATA
54680 ACTTTAAGCC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 3 0.04
109 75 0.96
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (109 bp):
CAATTATGTTAGTTCAAGGGCTCAATTGGGTGCAAAAAGTTCGCAGGGGCTTAATTAATTTTTTC
GAAAAAGTTTGACGACCAAAAATACCATTAAACCCTTATTTTGT
Found at i:57268 original size:20 final size:19
Alignment explanation
Indices: 57253--57303 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
57243 TTAATTTTTT
57253 TAATATTTTATAAATTTTAA
1 TAATATTTTA-AAATTTTAA
57273 TAATATTTTAAAATTTT-A
1 TAATATTTTAAAATTTTAA
*
57291 TAAAATTTTAAAA
1 TAATATTTTAAAA
57304 AACATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 13 0.43
19 7 0.23
20 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTTTAAAATTTTAA
Found at i:57275 original size:10 final size:9
Alignment explanation
Indices: 57231--57300 Score: 63
Period size: 10 Copynumber: 7.6 Consensus size: 9
57221 TGTAAATGGT
*
57231 TTTTATTAA
1 TTTTATAAA
*
57240 TTTT-TAAT
1 TTTTATAAA
*
57248 TTTTTTAATA
1 TTTTATAA-A
57258 TTTTATAAA
1 TTTTATAAA
57267 TTTTAATAATA
1 TTTT-ATAA-A
57278 TTTTA-AAA
1 TTTTATAAA
57286 TTTTATAAAA
1 TTTTAT-AAA
57296 TTTTA
1 TTTTA
57301 AAAAACATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
8 12 0.24
9 14 0.27
10 20 0.39
11 5 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTATAAA
Found at i:57303 original size:18 final size:18
Alignment explanation
Indices: 57238--57303 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
57228 GGTTTTTATT
* * *
57238 AATTTTTAATTTTTTTAA
1 AATTTTAAAATTTTATAA
*
57256 TATTTTATAAATTTTAATAA
1 AATTTTA-AAATTTT-ATAA
*
57276 TATTTTAAAATTTTATAA
1 AATTTTAAAATTTTATAA
57294 AATTTTAAAA
1 AATTTTAAAA
57304 AACATTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 18 0.44
19 13 0.32
20 10 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTTAAAATTTTATAA
Done.