Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 59 of 276
Found at i:18278539 original size:59 final size:59
Alignment explanation
Indices: 18278447--18278559 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
18278437 CTTTTCCAAT
18278447 GTCTGTGAAGTTGTTCTGATTATCTTGAAAGAAAGACTAGCAAACAAGTGGGCATCAAC
1 GTCTGTGAAGTTGTTCTGATTATCTTGAAAGAAAGACTAGCAAACAAGTGGGCATCAAC
* * *
18278506 GTCTGTGAAGTTGTTTTGATTATCTTGAAAGAAAGATTGGCAAACAAGTGGGCA
1 GTCTGTGAAGTTGTTCTGATTATCTTGAAAGAAAGACTAGCAAACAAGTGGGCA
18278560 CTCCTGCTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (59 bp):
GTCTGTGAAGTTGTTCTGATTATCTTGAAAGAAAGACTAGCAAACAAGTGGGCATCAAC
Found at i:18287218 original size:26 final size:26
Alignment explanation
Indices: 18287188--18287243 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
18287178 TGAAATTCCC
*
18287188 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
18287214 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
18287240 ATCA
1 ATCA
18287244 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:18287654 original size:3 final size:3
Alignment explanation
Indices: 18287646--18287794 Score: 298
Period size: 3 Copynumber: 49.7 Consensus size: 3
18287636 CCCCAAAACT
18287646 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18287694 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18287742 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18287790 TAA TA
1 TAA TA
18287795 TAAATTTTCA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 146 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18291312 original size:36 final size:36
Alignment explanation
Indices: 18291265--18291344 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
18291255 AGGGTTTGTA
* *
18291265 TTGTTGCTCAAGATTCAAATAAAAAACCTGCTCCAG
1 TTGTTGTTCAAGATTCAAACAAAAAACCTGCTCCAG
* * *
18291301 TTGTTGTTCAAGATTCGAACAAAAGACCTGCTCGAG
1 TTGTTGTTCAAGATTCAAACAAAAAACCTGCTCCAG
*
18291337 TTGCTGTT
1 TTGTTGTT
18291345 AAAACTGGCG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (36 bp):
TTGTTGTTCAAGATTCAAACAAAAAACCTGCTCCAG
Found at i:18293463 original size:25 final size:25
Alignment explanation
Indices: 18293435--18293488 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
18293425 AATAGCTATT
18293435 AAAACGAGAATAACCGTTACAAATC
1 AAAACGAGAATAACCGTTACAAATC
**** *
18293460 AAAATTTTAATAACCGTTACAAATT
1 AAAACGAGAATAACCGTTACAAATC
18293485 AAAA
1 AAAA
18293489 TTTTTCTCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.24
Consensus pattern (25 bp):
AAAACGAGAATAACCGTTACAAATC
Found at i:18293489 original size:25 final size:25
Alignment explanation
Indices: 18293443--18293492 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
18293433 TTAAAACGAG
18293443 AATAACCGTTACAAATCAAAATTTT
1 AATAACCGTTACAAATCAAAATTTT
*
18293468 AATAACCGTTACAAATTAAAATTTT
1 AATAACCGTTACAAATCAAAATTTT
18293493 TCTCCTGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (25 bp):
AATAACCGTTACAAATCAAAATTTT
Found at i:18293790 original size:15 final size:15
Alignment explanation
Indices: 18293770--18293800 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18293760 GAATATGTCA
18293770 TTTTCAATATTTAAG
1 TTTTCAATATTTAAG
18293785 TTTTCAATATTTAAG
1 TTTTCAATATTTAAG
18293800 T
1 T
18293801 ACCAATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (15 bp):
TTTTCAATATTTAAG
Found at i:18294744 original size:112 final size:117
Alignment explanation
Indices: 18294615--18294826 Score: 290
Period size: 117 Copynumber: 1.9 Consensus size: 117
18294605 AAAATACATG
* * * ** **
18294615 ATACATACTTTAACATTTCATGC-AAATATAATATAGAAAATGAT-AA-ATAATGACATAAATTA
1 ATACATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAACATAAATTA
* *
18294677 CAT-A-ATATACATTAACATTTCATGCAGATATAATCATAAATAACATAAAT
66 CATAATATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
*
18294727 ATACATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTA
1 ATACATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAACATAAATTA
*
18294792 CATAATATATACAATAATATTTCATGCAAATATAA
66 CATAATATATACAATAACATTTCATGCAAATATAA
18294827 CTTAAAATAT
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
112 22 0.26
113 17 0.20
114 2 0.02
115 16 0.19
116 1 0.01
117 26 0.31
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (117 bp):
ATACATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAACATAAATTA
CATAATATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
Found at i:18294891 original size:18 final size:18
Alignment explanation
Indices: 18294868--18294902 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18294858 ATGCAAATAT
18294868 ATAAAAACAATAAATAAC
1 ATAAAAACAATAAATAAC
*
18294886 ATAAAAATAATAAATAA
1 ATAAAAACAATAAATAA
18294903 TTTATGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAACAATAAATAAC
Found at i:18295297 original size:12 final size:11
Alignment explanation
Indices: 18295275--18295330 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 11
18295265 ATTTTAAAAT
*
18295275 TATACATAATA
1 TATAAATAATA
18295286 TAATAAATAATA
1 T-ATAAATAATA
* *
18295298 TA-CAATAAAA
1 TATAAATAATA
18295308 TATAAATAATA
1 TATAAATAATA
18295319 TAATAAATAATA
1 T-ATAAATAATA
18295331 CAAATAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.22
11 9 0.24
12 20 0.54
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
TATAAATAATA
Found at i:18295299 original size:21 final size:20
Alignment explanation
Indices: 18295275--18295330 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
18295265 ATTTTAAAAT
18295275 TATACATAATATAATAAATAA
1 TATACATAA-ATAATAAATAA
18295296 TATACAATAAA-ATATAAATAA
1 TATAC-ATAAATA-ATAAATAA
18295317 TATA-ATAAATAATA
1 TATACATAAATAATA
18295331 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
TATACATAAATAATAAATAA
Found at i:18295306 original size:14 final size:13
Alignment explanation
Indices: 18295280--18295345 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
18295270 AAAATTATAC
18295280 ATAATAT-AATAA
1 ATAATATAAATAA
18295292 ATAATATACAAT-A
1 ATAATATA-AATAA
18295305 A-AATATAAATAA
1 ATAATATAAATAA
* *
18295317 TATAATAAATAATAC
1 -ATAATATA-AATAA
18295332 A-AATA-AAATAA
1 ATAATATAAATAA
18295343 ATA
1 ATA
18295346 TTTTTTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
11 8 0.18
12 16 0.36
13 7 0.16
14 9 0.20
15 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATAAATAA
Found at i:18295322 original size:33 final size:32
Alignment explanation
Indices: 18295269--18295341 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 32
18295259 TTTAAAATTT
* *
18295269 TAAAATTATACATAATATAATAAATAATATACAA
1 TAAAA-TATAAATAATATAATAAATAATACA-AA
18295303 TAAAATATAAATAATATAATAAATAATACAAA
1 TAAAATATAAATAATATAATAAATAATACAAA
18295335 TAAAATA
1 TAAAATA
18295342 AATATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 9 0.24
33 23 0.62
34 5 0.14
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (32 bp):
TAAAATATAAATAATATAATAAATAATACAAA
Found at i:18295326 original size:18 final size:18
Alignment explanation
Indices: 18295288--18295346 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
18295278 ACATAATATA
18295288 ATAAATAATATACAATAAAAT
1 ATAAATAATAT--AAT-AAAT
18295309 ATAAATAATATAATAAAT
1 ATAAATAATATAATAAAT
* *
18295327 AATACA-AATAAAATAAAT
1 -ATAAATAATATAATAAAT
18295345 AT
1 AT
18295347 TTTTTTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 7 0.20
21 11 0.31
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAATATAATAAAT
Found at i:18295403 original size:9 final size:9
Alignment explanation
Indices: 18295384--18295430 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
18295374 TAAAATAAAT
*
18295384 AATATACAA
1 AATATATAA
*
18295393 AATATTTAA
1 AATATATAA
*
18295402 AATAAATAA
1 AATATATAA
*
18295411 ATTATATAA
1 AATATATAA
18295420 AATATATAA
1 AATATATAA
18295429 AA
1 AA
18295431 AGGATTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AATATATAA
Found at i:18295417 original size:29 final size:28
Alignment explanation
Indices: 18295367--18295430 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
18295357 ATAAATAAGG
*
18295367 TTTAAAGTAAAATAAATAATATACAAAATA
1 TTTAAAATAAAATAAATAATAT--AAAATA
*
18295397 TTTAAAAT-AAATAAATTATATAAAATA
1 TTTAAAATAAAATAAATAATATAAAATA
*
18295424 TATAAAA
1 TTTAAAA
18295431 AGGATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 12 0.39
29 12 0.39
30 7 0.23
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (28 bp):
TTTAAAATAAAATAAATAATATAAAATA
Found at i:18295949 original size:12 final size:12
Alignment explanation
Indices: 18295932--18295958 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18295922 AAAATTATAC
18295932 ATAATATAATAA
1 ATAATATAATAA
18295944 ATAATATAATAA
1 ATAATATAATAA
18295956 ATA
1 ATA
18295959 GTACAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATATAATAA
Found at i:18300394 original size:36 final size:36
Alignment explanation
Indices: 18300354--18300426 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
18300344 GTATTATTGC
* * *
18300354 TCAAGATTCAAAGAAAAAACCTGCTCCAGTTGCTGT
1 TCAAGATTCAAACAAAAAACCTCCTCCAGTTCCTGT
* * *
18300390 TCAAGATTCGAACAAAAGACCTCCTCGAGTTCCTGT
1 TCAAGATTCAAACAAAAAACCTCCTCCAGTTCCTGT
18300426 T
1 T
18300427 AAAAATGGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (36 bp):
TCAAGATTCAAACAAAAAACCTCCTCCAGTTCCTGT
Found at i:18305189 original size:10 final size:10
Alignment explanation
Indices: 18305142--18305190 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
18305132 AATTTTAGCT
*
18305142 TTTATCTCTA
1 TTTATCTTTA
*
18305152 TTTATCTCTA
1 TTTATCTTTA
18305162 CTTT-TCTTTA
1 -TTTATCTTTA
18305172 TTTATCTTTA
1 TTTATCTTTA
18305182 TTTATCTTT
1 TTTATCTTT
18305191 TAGAATTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 3 0.08
10 30 0.83
11 3 0.08
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:18307790 original size:46 final size:45
Alignment explanation
Indices: 18307740--18307915 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
18307730 TGGTTGAGCA
18307740 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
18307786 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
18307833 TCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
18307879 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18307916 GCGGGCTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:18307896 original size:93 final size:93
Alignment explanation
Indices: 18307737--18307907 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
18307727 GGATGGTTGA
* *
18307737 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18307802 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
18307830 GCATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18307895 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18307908 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:18310362 original size:3 final size:3
Alignment explanation
Indices: 18310356--18310543 Score: 87
Period size: 3 Copynumber: 62.7 Consensus size: 3
18310346 GGTATTTCAA
* *
18310356 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT ATAT TAGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T
*
18310403 GTA- TAT T-T T-T TAT TAT ATAT GTA- TAT GTA- TAGA TAT T-T ATAT
1 -TAT TAT TAT TAT TAT TAT -TAT -TAT TAT -TAT TA-T TAT TAT -TAT
* * * *
18310445 ATAG TAT TAT TTT TAT TAC T-T TAT T-T TAA TACT T-T TAT TA- TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
**
18310488 TA- TAT TAT ATAT GCT T-T T-T GTAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
18310532 TAT TAT ATAT TA
1 TAT TAT -TAT TA
18310544 GTGTATATTT
Statistics
Matches: 146, Mismatches: 17, Indels: 44
0.71 0.08 0.21
Matches are distributed among these distances:
2 23 0.16
3 97 0.66
4 24 0.16
5 2 0.01
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:18310626 original size:143 final size:143
Alignment explanation
Indices: 18310365--18310631 Score: 448
Period size: 143 Copynumber: 1.9 Consensus size: 143
18310355 ATATTATTAC
*
18310365 TATTATTATTATTATTATTATTATTATCATATATTAGTGTATATTTTTTATTATATATGTATATG
1 TATTATTATTATTATTATTATTATTATCATATATTAGTGTATATTTTTTATTACATATGTATATG
*
18310430 TATAGATATTTATATATAGTATTATTTTTATTACTTTATTTTAATACTTTTATTATATTATATTA
66 TACAGATATTTATATATAGTATTATTTTTATTACTTTATTTTAATACTTTTATTATATTATATTA
18310495 TATATGCTTTTTG
131 TATATGCTTTTTG
* *
18310508 TATTATTATTATTATTATTATTATTATTATATATTAGTGTATA-TTTTTATTGCATATGTATATG
1 TATTATTATTATTATTATTATTATTATCATATATTAGTGTATATTTTTTATTACATATGTATATG
* *
18310572 TACATATTTTTATATATAGTATTATTTTTATTTACTTTATTTTAATA-TTATTATTATATT
66 TACAGATATTTATATATAGTATTATTTTTA-TTACTTTATTTTAATACTT-TTATTATATT
18310632 TGCTTTTTGT
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
142 48 0.41
143 68 0.59
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (143 bp):
TATTATTATTATTATTATTATTATTATCATATATTAGTGTATATTTTTTATTACATATGTATATG
TACAGATATTTATATATAGTATTATTTTTATTACTTTATTTTAATACTTTTATTATATTATATTA
TATATGCTTTTTG
Found at i:18310718 original size:3 final size:3
Alignment explanation
Indices: 18310710--18310741 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18310700 CCGCTAATAT
*
18310710 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18310742 GTATTATGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:18310812 original size:16 final size:15
Alignment explanation
Indices: 18310791--18310830 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
18310781 CTCATCGCTC
18310791 ATCTATTATATTTCTT
1 ATCTATTATATTT-TT
18310807 ATCTATTTATATTTTT
1 ATCTA-TTATATTTTT
18310823 AT-TATTAT
1 ATCTATTAT
18310831 TTTATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.17
15 2 0.09
16 9 0.39
17 8 0.35
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
ATCTATTATATTTTT
Found at i:18323425 original size:76 final size:76
Alignment explanation
Indices: 18322995--18324387 Score: 1381
Period size: 76 Copynumber: 18.0 Consensus size: 76
18322985 TCCTGATATT
* **** * *
18322995 TTTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACTCCGA
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
18323059 GGTATTTTCAA
66 GGTATTTTCAA
* *** *** **
18323070 TTTCTGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGA-CACATGCTG
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAAATCACACACTG
18323133 AGGTATTTTCAA
65 AGGTATTTTCAA
* **
18323145 TTTATGTTTTTTTC-AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAATC-TGCA
1 TTTATG----TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACA
*
18323208 CTAAGGTATTTTCAA
62 CTGAGGTATTTTCAA
* * * *** *
18323223 TTTATGTTTC-AACAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
* *
18323287 GGTATTTTTAGT
66 GGTATTTTCA-A
* * * *
18323299 TTCTATTTTTCAAAAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCAC-CTA
1 TT-TATGTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACAC-A
*
18323363 TTGAGGTATTTTCAA
62 CTGAGGTATTTTCAA
* *** *
18323378 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
* *
18323443 GGTATTTTTAGT
66 GGTATTTTCA-A
* * * *
18323455 TTCTATTTTTCAAAAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCAC-CTA
1 TT-TATGTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACAC-A
*
18323519 TTGAGGTATTTTCAA
62 CTGAGGTATTTTCAA
* *** *
18323534 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
* *
18323599 GGTATTTTTAGT
66 GGTATTTTCA-A
* * * *
18323611 TTCTATTTTTCAAAAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCAC-CTA
1 TT-TATGTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACAC-A
*
18323675 TTGAGGTATTTTCAA
62 CTGAGGTATTTTCAA
* *** *
18323690 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
* *
18323755 GGTATTTTTAGT
66 GGTATTTTCA-A
* * * *
18323767 TTCTATTTTTCAAAAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCAC-CTA
1 TT-TATGTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACAC-A
*
18323831 TTGAGGTATTTTCAA
62 CTGAGGTATTTTCAA
* *** *
18323846 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
* *
18323911 GGTATTTTTAGT
66 GGTATTTTCA-A
* * * *
18323923 TTCTATTTTTCAAAAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCAC-CTA
1 TT-TATGTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACAC-A
*
18323987 TTGAGGTATTTTCAA
62 CTGAGGTATTTTCAA
* *** *
18324002 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
***
18324067 GGTATTTTTTGT
66 GGTA-TTTTCAA
* * * * *
18324079 TTCTATTTTTCAATAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCAAATCACGCATT
1 TT-TATGTTTCAA-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACT
18324144 GAGGTATTTTCAA
64 GAGGTATTTTCAA
* * * *
18324157 TTTACGTTTCAAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACGCATTGA
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
18324222 GGTATTTTCAA
66 GGTATTTTCAA
* * *** *
18324233 TTTACGTTTCAAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
* *
18324298 GGTATTTTTAGT
66 GGTATTTTCA-A
* * *
18324310 TTCTATTTTTC--AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGTCACACACTG
1 TT-TATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTG
*
18324373 TGGTATTTTCAA
65 AGGTATTTTCAA
18324385 TTT
1 TTT
18324388 TTACTTTTTC
Statistics
Matches: 1084, Mismatches: 189, Indels: 91
0.79 0.14 0.07
Matches are distributed among these distances:
74 45 0.04
75 81 0.07
76 450 0.42
77 36 0.03
78 106 0.10
79 102 0.09
80 264 0.24
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (76 bp):
TTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACACTGA
GGTATTTTCAA
Found at i:18323433 original size:156 final size:156
Alignment explanation
Indices: 18323005--18324381 Score: 1992
Period size: 156 Copynumber: 8.9 Consensus size: 156
18322995 TTTATTTTTC
* * *** **
18323005 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGGTCACACT-CCGAGGTATTTTC
1 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAG-CTTCAAATCAC-CTATTGAGGTATTTTC
* *** * * * *
18323068 AATTTCTGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACATGCT
64 AATTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCT
* * * * ***
18323132 GAGGTATTTTCAATTTATGTTTTT-TTC
129 GAGGTATTTTTAGTTTCTATTTTTCAAA
* * ** * *
18323159 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAATCTGC-ACTAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
* * *
18323223 TTTATGTTTC-AACAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCGGGTCACACGCTGA
66 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
18323287 GGTATTTTTAGTTTCTATTTTTCAAA
131 GGTATTTTTAGTTTCTATTTTTCAAA
18323313 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
18323378 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
66 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
18323443 GGTATTTTTAGTTTCTATTTTTCAAA
131 GGTATTTTTAGTTTCTATTTTTCAAA
18323469 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
18323534 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
66 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
18323599 GGTATTTTTAGTTTCTATTTTTCAAA
131 GGTATTTTTAGTTTCTATTTTTCAAA
18323625 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
18323690 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
66 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
18323755 GGTATTTTTAGTTTCTATTTTTCAAA
131 GGTATTTTTAGTTTCTATTTTTCAAA
18323781 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
18323846 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
66 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
18323911 GGTATTTTTAGTTTCTATTTTTCAAA
131 GGTATTTTTAGTTTCTATTTTTCAAA
18323937 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
18324002 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
66 TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
*
18324067 GGTATTTTTTGTTTCTATTTTTC-AA
131 GGTATTTTTAGTTTCTATTTTTCAAA
* * * *
18324092 TAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCAAATCACGC-ATTGAGGTATTTTCA
1 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCAC-CTATTGAGGTATTTTCA
* * * *** * **
18324156 ATTTACGTTTCAAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACGCATTG
65 ATTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
* * **
18324221 AGGTATTTTCA-ATT-TACGTTTC--A
130 AGGTATTTTTAGTTTCTATTTTTCAAA
* * * * *** ** *
18324244 AAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC-GCTGAGGTATTTTTA
1 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCAC-CTATTGAGGTATTTTCA
* * ** ** *
18324308 GTTTCTATTTTTC--AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGTCACACAC
65 -ATT-TATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGC
*
18324371 TGTGGTATTTT
128 TGAGGTATTTT
18324382 CAATTTTTAC
Statistics
Matches: 1141, Mismatches: 73, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
152 109 0.10
153 96 0.08
154 89 0.08
155 149 0.13
156 698 0.61
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (156 bp):
AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCTTCAAATCACCTATTGAGGTATTTTCAA
TTTATGTTTCAAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
GGTATTTTTAGTTTCTATTTTTCAAA
Found at i:18325836 original size:3 final size:3
Alignment explanation
Indices: 18325828--18325863 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
18325818 ATGCTTTTTG
18325828 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
18325864 GTGTATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:18326053 original size:3 final size:3
Alignment explanation
Indices: 18326047--18326072 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18326037 TATTATTATT
18326047 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
18326073 TTTGTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:18326190 original size:17 final size:17
Alignment explanation
Indices: 18326148--18326190 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
18326138 CGCTCATCTA
18326148 TTATATTTCTTATTTATT
1 TTAT-TTTCTTATTTATT
18326166 TATATTTTCATTA-TTATT
1 T-TATTTTC-TTATTTATT
18326184 TTATTTT
1 TTATTTT
18326191 AGATATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 6 0.26
18 11 0.48
19 6 0.26
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTCTTATTTATT
Found at i:18331520 original size:4 final size:4
Alignment explanation
Indices: 18331504--18331544 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
18331494 TATGTTTATT
*
18331504 TTTA TTCA TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
18331545 ATCACTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:18334541 original size:42 final size:42
Alignment explanation
Indices: 18334482--18334565 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
18334472 CTCCGGTCCA
18334482 ATGGTGCTGAGTTATTTAGAGGTGTCACTAGAGTCACCCTTT
1 ATGGTGCTGAGTTATTTAGAGGTGTCACTAGAGTCACCCTTT
*
18334524 ATGGTGCTGAGTTATTTAGAGGTGTCACTAGAGTCGCCCTTT
1 ATGGTGCTGAGTTATTTAGAGGTGTCACTAGAGTCACCCTTT
18334566 GTGTGGCCGA
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:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (42 bp):
ATGGTGCTGAGTTATTTAGAGGTGTCACTAGAGTCACCCTTT
Found at i:18336156 original size:14 final size:14
Alignment explanation
Indices: 18336137--18336166 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18336127 CGTGGTTTCA
18336137 TCCGTCCTAGTGTG
1 TCCGTCCTAGTGTG
18336151 TCCGTCCTAGTGTG
1 TCCGTCCTAGTGTG
18336165 TC
1 TC
18336167 TCTATGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.30, G:0.27, T:0.37
Consensus pattern (14 bp):
TCCGTCCTAGTGTG
Found at i:18346269 original size:108 final size:108
Alignment explanation
Indices: 18346077--18346276 Score: 328
Period size: 108 Copynumber: 1.9 Consensus size: 108
18346067 ATAATTTTTT
* * * *
18346077 TTAGGAATGTGTTGGGTTGAGTAACCGGGGTGGGGTGCTTAGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATGTTGGGCTGAGTAACAGGGGTGGGGTGCTTAGCTGTCATCTCTCTTCGCATCAAA
18346142 AGGTTCAATATATTCTTAAGAAAAAACGTATATATATAATAAA
66 AGGTTCAATATATTCTTAAGAAAAAACGTATATATATAATAAA
* *
18346185 TTAGGAGTATGTTGGGCTGAGTAACAGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAA
1 TTAGGAATATGTTGGGCTGAGTAACAGGGGTGGGGTGCTTAGCTGTCATCTCTCTTCGCATCAAA
* *
18346250 AGGTTCAATATATTTTTAAGCAAAAAC
66 AGGTTCAATATATTCTTAAGAAAAAAC
18346277 AAGAGAGAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 84 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (108 bp):
TTAGGAATATGTTGGGCTGAGTAACAGGGGTGGGGTGCTTAGCTGTCATCTCTCTTCGCATCAAA
AGGTTCAATATATTCTTAAGAAAAAACGTATATATATAATAAA
Found at i:18362760 original size:96 final size:96
Alignment explanation
Indices: 18362656--18362858 Score: 311
Period size: 96 Copynumber: 2.1 Consensus size: 96
18362646 TCACTTTAAT
*
18362656 TAAACTTAA-TAATGGATT-GGATCTATGTAAAATTTTAGGTATGTTTTTTTTTGTTTGGTTTCG
1 TAAACTTAAGTAATGGATTAGG--CTAGGTAAAATTTTAGGTATGTTTTTTTTTGTTTGGTTTCG
18362719 AATCAACCCTAAAAAAGAACTTAAAATTCTACC
64 AATCAACCCTAAAAAAGAACTTAAAATTCTACC
** *** *
18362752 TAAACTTAAGTTCTTTTTTAGGGTAGGTAAAATTTTAGGTATGTTTTTTTTTGTTTGGTTTCGAA
1 TAAACTTAAGTAATGGATTAGGCTAGGTAAAATTTTAGGTATGTTTTTTTTTGTTTGGTTTCGAA
18362817 TCAACCCTAAAAAAGAACTTAAAATTCTACC
66 TCAACCCTAAAAAAGAACTTAAAATTCTACC
18362848 TAAACTTAAGT
1 TAAACTTAAGT
18362859 CAAATTAAAA
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
96 92 0.94
97 4 0.04
98 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (96 bp):
TAAACTTAAGTAATGGATTAGGCTAGGTAAAATTTTAGGTATGTTTTTTTTTGTTTGGTTTCGAA
TCAACCCTAAAAAAGAACTTAAAATTCTACC
Found at i:18362955 original size:25 final size:26
Alignment explanation
Indices: 18362927--18362984 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
18362917 ATTATTTTTT
18362927 ATATAAAAAATGTATTAAAAATA-TA
1 ATATAAAAAATGTATTAAAAATATTA
**
18362952 ATATATCAAATGTATTAAAAATATTA
1 ATATAAAAAATGTATTAAAAATATTA
*
18362978 AAATAAA
1 ATATAAA
18362985 TATTTTTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (26 bp):
ATATAAAAAATGTATTAAAAATATTA
Found at i:18364984 original size:16 final size:17
Alignment explanation
Indices: 18364958--18365002 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
18364948 GATGAATATA
18364958 TAAAA-AATATT-AAAT
1 TAAAATAATATTAAAAT
18364973 TAAAATAATATTAAAAAT
1 TAAAATAATATT-AAAAT
18364991 TAAAAATAATAT
1 T-AAAATAATAT
18365003 GAGTGTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.19
16 6 0.23
18 5 0.19
19 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATAATATTAAAAT
Found at i:18365568 original size:77 final size:77
Alignment explanation
Indices: 18365478--18365631 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
18365468 AAAAGGTTCT
18365478 TAAAAAATACTATTTATTTGAGTTAAGTACCTAAATTATTTTTTGGCCGAGTCATATATCTAAAC
1 TAAAAAATACTATTTATTTGAGTTAAGTACCTAAATTATTTTTTGGCCGAGTCATATATCTAAAC
18365543 TTTATTTCTATG
66 TTTATTTCTATG
*
18365555 TAAAAAATACTATTTATTTGAGTTAAGTCCCTAAATTATTTTTTGGCCGAGTCATATATCTAAAC
1 TAAAAAATACTATTTATTTGAGTTAAGTACCTAAATTATTTTTTGGCCGAGTCATATATCTAAAC
18365620 TTTATTTCTATG
66 TTTATTTCTATG
18365632 ACGAATATTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (77 bp):
TAAAAAATACTATTTATTTGAGTTAAGTACCTAAATTATTTTTTGGCCGAGTCATATATCTAAAC
TTTATTTCTATG
Found at i:18367343 original size:21 final size:22
Alignment explanation
Indices: 18367304--18367344 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18367294 TCCATGTAAC
18367304 TTTTTATGTTTATTATTCTCTA
1 TTTTTATGTTTATTATTCTCTA
*
18367326 TTTTTATTTTTATT-TTCTC
1 TTTTTATGTTTATTATTCTC
18367345 ATTGTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTATGTTTATTATTCTCTA
Found at i:18370166 original size:23 final size:23
Alignment explanation
Indices: 18370140--18370207 Score: 127
Period size: 23 Copynumber: 3.0 Consensus size: 23
18370130 ACAGATTTCT
18370140 TGAAAATATTTGATAAAAGTTGG
1 TGAAAATATTTGATAAAAGTTGG
18370163 TGAAAATATTTGATAAAAGTTGG
1 TGAAAATATTTGATAAAAGTTGG
*
18370186 TGAAAATATTTAATAAAAGTTG
1 TGAAAATATTTGATAAAAGTTG
18370208 TTTTCAATGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (23 bp):
TGAAAATATTTGATAAAAGTTGG
Found at i:18371094 original size:15 final size:15
Alignment explanation
Indices: 18371074--18371102 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18371064 TCTAAAATTT
18371074 ATTATTAAAATAATA
1 ATTATTAAAATAATA
18371089 ATTATTAAAATAAT
1 ATTATTAAAATAAT
18371103 TTATTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTATTAAAATAATA
Found at i:18374745 original size:16 final size:17
Alignment explanation
Indices: 18374723--18374762 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
18374713 AAAAAAGGGG
18374723 TAATAAAT-A-AATAGA
1 TAATAAATAATAATAGA
18374738 TGAATAAATAATAATAGA
1 T-AATAAATAATAATAGA
18374756 TAATAAA
1 TAATAAA
18374763 ATGGTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.05
16 7 0.32
17 7 0.32
18 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
TAATAAATAATAATAGA
Found at i:18377248 original size:29 final size:29
Alignment explanation
Indices: 18377167--18377253 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 29
18377157 CAATACAAAG
* * *
18377167 TGGCACTGAAATGCAAT-ATCAAAACAGAA
1 TGGCACTGAAGTGCATTAAT-AGAACAGAA
* * **
18377196 TGACA-TCGAAGTGCTTTAGCAGAACAGAA
1 TGGCACT-GAAGTGCATTAATAGAACAGAA
*
18377225 TGGCACTGAAGTGCATTAATAGAATAGAA
1 TGGCACTGAAGTGCATTAATAGAACAGAA
18377254 AGCATGCTAA
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
28 1 0.02
29 41 0.95
30 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.21
Consensus pattern (29 bp):
TGGCACTGAAGTGCATTAATAGAACAGAA
Found at i:18382220 original size:16 final size:16
Alignment explanation
Indices: 18382199--18382229 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18382189 GATATTTTAA
18382199 TATATTATATTAATAT
1 TATATTATATTAATAT
*
18382215 TATATTATGTTAATA
1 TATATTATATTAATA
18382230 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:18382256 original size:8 final size:8
Alignment explanation
Indices: 18382245--18382275 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
18382235 ATAAAGTATA
*
18382245 AAAGAATT
1 AAAGAAAT
18382253 AAAGAAAT
1 AAAGAAAT
18382261 AAAGAAAT
1 AAAGAAAT
18382269 AAAGAAA
1 AAAGAAA
18382276 CAAAAGGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (8 bp):
AAAGAAAT
Found at i:18387422 original size:48 final size:51
Alignment explanation
Indices: 18387336--18387437 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 51
18387326 TCCTTTTTTA
* *
18387336 TTTGAAATTCGCTCAGTATTTTTATTTTTACTTCGATTTAGTCCCTTTCAT
1 TTTGAAATTCGCCCAGTATTCTTATTTTTACTTCGATTTAGTCCCTTTCAT
* * *
18387387 TTTG-AATTCGCCCAGT-TTCTT-TTTTTATTTTGATTTAGTCCCTTTTAT
1 TTTGAAATTCGCCCAGTATTCTTATTTTTACTTCGATTTAGTCCCTTTCAT
18387435 TTT
1 TTT
18387438 ATTTTTCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 27 0.59
49 4 0.09
50 11 0.24
51 4 0.09
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.57
Consensus pattern (51 bp):
TTTGAAATTCGCCCAGTATTCTTATTTTTACTTCGATTTAGTCCCTTTCAT
Found at i:18387465 original size:29 final size:29
Alignment explanation
Indices: 18387432--18387495 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
18387422 TAGTCCCTTT
* * *
18387432 TATTTTAT-TTTTCTTTCAATTTCGCCCTA
1 TATTTTATGTTTTATTTCAATATAGCCC-A
18387461 TATTTT-TGTTTTATTTCAATATAGCCCA
1 TATTTTATGTTTTATTTCAATATAGCCCA
18387489 TATTTTA
1 TATTTTA
18387496 GCAATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.58
Consensus pattern (29 bp):
TATTTTATGTTTTATTTCAATATAGCCCA
Found at i:18387515 original size:3 final size:3
Alignment explanation
Indices: 18387507--18387581 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
18387497 CAATTTTATG
* * *
18387507 TTA TTA TTA TTA TTA TTA TT- TTAA ATA TTA TTA TTA GT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
** *
18387551 TTA TTA TTA TGG TTA TTA TTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18387582 CGTTAGTATT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 3 0.05
3 53 0.93
4 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:18399320 original size:19 final size:19
Alignment explanation
Indices: 18399296--18399337 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
18399286 GATTGTCACA
18399296 CAATCAAACATAATGTACG
1 CAATCAAACATAATGTACG
18399315 CAATCAAACATAATGTACG
1 CAATCAAACATAATGTACG
18399334 CAAT
1 CAAT
18399338 GGGATTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (19 bp):
CAATCAAACATAATGTACG
Found at i:18409514 original size:97 final size:97
Alignment explanation
Indices: 18409348--18409549 Score: 350
Period size: 97 Copynumber: 2.1 Consensus size: 97
18409338 GGATATGAAG
* *
18409348 TAGGTGGGTTGTTTTTTATTGTGTGTCTGAGTAGTTGGAGGGCTAGCATAGGTGGGAGTGTCTTA
1 TAGGTGGGTTGTTTTTTATTGTGTGTCTGAGTAGTTGGAGGGCTAGCATAGGTGAGAATGTCTTA
18409413 GATGAATGCCACGTGGACAATGTAAGGAATGA
66 GATGAATGCCACGTGGACAATGTAAGGAATGA
* *
18409445 TAGGTGGGTTGTTTTTTATTGTGTGTGTGAGTAGTTGGAGGGCTAGCATAGGTGAGAATGTGTTA
1 TAGGTGGGTTGTTTTTTATTGTGTGTCTGAGTAGTTGGAGGGCTAGCATAGGTGAGAATGTCTTA
* *
18409510 GATGAATGCCACGTGGAGAATGTAAGGAGTGA
66 GATGAATGCCACGTGGACAATGTAAGGAATGA
18409542 TAGGTGGG
1 TAGGTGGG
18409550 ATCCCACCCC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 99 1.00
ACGTcount: A:0.23, C:0.06, G:0.38, T:0.33
Consensus pattern (97 bp):
TAGGTGGGTTGTTTTTTATTGTGTGTCTGAGTAGTTGGAGGGCTAGCATAGGTGAGAATGTCTTA
GATGAATGCCACGTGGACAATGTAAGGAATGA
Found at i:18413815 original size:52 final size:53
Alignment explanation
Indices: 18413758--18413872 Score: 135
Period size: 53 Copynumber: 2.2 Consensus size: 53
18413748 ATATCCCGGA
** *
18413758 TATGGTCTTACACGGAAAAAC-T-TATCACTTTTCTCCGATGCCATAGCCCAGC
1 TATGGTCTTACACGG-AAAACTTGTATCACTTTAATCCGAAGCCATAGCCCAGC
* ** *
18413810 TATGGTCTTATACGGATCACTTGTATCACTTTAATCCGAAGCCATAGCCTAGC
1 TATGGTCTTACACGGAAAACTTGTATCACTTTAATCCGAAGCCATAGCCCAGC
*
18413863 TATAGTCTTA
1 TATGGTCTTA
18413873 TACTGGTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 3 0.06
52 15 0.28
53 35 0.66
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (53 bp):
TATGGTCTTACACGGAAAACTTGTATCACTTTAATCCGAAGCCATAGCCCAGC
Found at i:18413890 original size:53 final size:55
Alignment explanation
Indices: 18413778--18413893 Score: 143
Period size: 53 Copynumber: 2.2 Consensus size: 55
18413768 CACGGAAAAA
** * *
18413778 CTTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGGATCACTTG
1 CTTATCACTTTAATCCGAAGCCATAGCCCAGCTATAGTCTTATACGGATCACTTG
*
18413833 --TATCACTTTAATCCGAAGCCATAGCCTAGCTATAGTCTTATACTGG-T-A-TTG
1 CTTATCACTTTAATCCGAAGCCATAGCCCAGCTATAGTCTTATAC-GGATCACTTG
18413884 CTTATCACTT
1 CTTATCACTT
18413894 GTTGCCATTG
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
51 3 0.06
52 1 0.02
53 47 0.89
54 2 0.04
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (55 bp):
CTTATCACTTTAATCCGAAGCCATAGCCCAGCTATAGTCTTATACGGATCACTTG
Found at i:18424593 original size:24 final size:24
Alignment explanation
Indices: 18424565--18424621 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
18424555 GTCATATTTA
* *
18424565 ACAATTATCTGTTAGTATTTTTTT
1 ACAATTATCTATTAGTATTTTTCT
* *
18424589 ACAATATTGTCTATTTGTATTTTTCT
1 AC-A-ATTATCTATTAGTATTTTTCT
18424615 ACAATTA
1 ACAATTA
18424622 ATATTAGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
24 5 0.19
25 2 0.08
26 19 0.73
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (24 bp):
ACAATTATCTATTAGTATTTTTCT
Found at i:18427745 original size:23 final size:21
Alignment explanation
Indices: 18427709--18427754 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
18427699 TATTGAATTA
18427709 TTATATATAATTGAATTATGAAT
1 TTATATATAATTG-ATTAT-AAT
**
18427732 TTATATATGTTTGATTATAAT
1 TTATATATAATTGATTATAAT
18427753 TT
1 TT
18427755 GAATTGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
23 11 0.52
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (21 bp):
TTATATATAATTGATTATAAT
Found at i:18429691 original size:21 final size:21
Alignment explanation
Indices: 18429667--18429816 Score: 81
Period size: 21 Copynumber: 7.1 Consensus size: 21
18429657 CCGAAGGTTG
*
18429667 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * *
18429688 AACAGTAA-CTCATAAGGGTTG
1 AACAG-AAGCTCATAAGAGCTA
*
18429709 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
** * * * *
18429730 AATGGAATCCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
18429751 ACCAGAAGCTCA-ATAGAGCTG
1 AACAGAAGCTCATA-AGAGCTA
* * * *
18429772 AACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
18429793 AACA-AGAGCTCGTGAGAGCTA
1 AACAGA-AGCTCATAAGAGCTA
18429814 AAC
1 AAC
18429817 GGAAAGTAAA
Statistics
Matches: 89, Mismatches: 35, Indels: 10
0.66 0.26 0.07
Matches are distributed among these distances:
20 4 0.04
21 82 0.92
22 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:18429727 original size:42 final size:42
Alignment explanation
Indices: 18429662--18429821 Score: 137
Period size: 42 Copynumber: 3.8 Consensus size: 42
18429652 AAAGCCCGAA
* * *
18429662 GGTTGAACAGAAGCTCATGAGAGCTAAACAGTAACTCATAAG
1 GGTTGAACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
** * *
18429704 GGTTGAACAGAAGCTCGTAAGAGCTAAATGGAATCCCATAAG
1 GGTTGAACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
* * * *
18429746 GGTT-AACCAGAAGCTC-AATAGAGCTGAACGGAAACTCATATG
1 GGTTGAA-CAGAAGCTCGTA-AGAGCTAAACAGAAACTCATAAG
* * * *
18429788 AGTTAAACA-AGAGCTCGTGAGAGCTAAACGGAAA
1 GGTTGAACAGA-AGCTCGTAAGAGCTAAACAGAAA
18429822 GTAAACACGA
Statistics
Matches: 96, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 4 0.04
42 90 0.94
43 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (42 bp):
GGTTGAACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
Found at i:18432981 original size:19 final size:19
Alignment explanation
Indices: 18432957--18432995 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18432947 CCATCGTCTC
18432957 TGTCTCAAATTCAATTCTT
1 TGTCTCAAATTCAATTCTT
18432976 TGTCTCAAATTCAATTCTT
1 TGTCTCAAATTCAATTCTT
18432995 T
1 T
18432996 CTCTGTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.49
Consensus pattern (19 bp):
TGTCTCAAATTCAATTCTT
Found at i:18437337 original size:21 final size:21
Alignment explanation
Indices: 18437284--18437337 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
18437274 AGACTAAATA
* * *
18437284 GAAACCCATAAGGGTTGAACG
1 GAAACCCATAAGAGCTAAACG
* * *
18437305 GAAGCTCGTAAGAGCTAAACG
1 GAAACCCATAAGAGCTAAACG
18437326 GAAACCCATAAG
1 GAAACCCATAAG
18437338 GGTTAATCAA
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (21 bp):
GAAACCCATAAGAGCTAAACG
Found at i:18437352 original size:42 final size:41
Alignment explanation
Indices: 18437260--18437412 Score: 123
Period size: 42 Copynumber: 3.7 Consensus size: 41
18437250 CCGAAGGCTG
* * *
18437260 AACAAAAGCTCATGAGA-CTAAATAGAAACCCATAAGGGTT
1 AACAAAAGCTCGTAAGAGCTAAACAGAAACCCATAAGGGTT
** *
18437300 GAACGGAAGCTCGTAAGAGCTAAACGGAAACCCATAAGGGTT
1 -AACAAAAGCTCGTAAGAGCTAAACAGAAACCCATAAGGGTT
* * * * * *
18437342 AATCAAAAGCTC-AATAGAGCTTAACAAAAACTCATATGAGTT
1 AA-CAAAAGCTCGTA-AGAGCTAAACAGAAACCCATAAGGGTT
* *
18437384 AAACAGAAGCTCGTGAGAGCTAAAC-GAAA
1 -AACAAAAGCTCGTAAGAGCTAAACAGAAA
18437413 AGTAAAACTT
Statistics
Matches: 87, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
41 19 0.22
42 66 0.76
43 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (41 bp):
AACAAAAGCTCGTAAGAGCTAAACAGAAACCCATAAGGGTT
Found at i:18437388 original size:21 final size:21
Alignment explanation
Indices: 18437339--18437388 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
18437329 ACCCATAAGG
* *
18437339 GTTAATCAAAAGCTCAATAGA
1 GTTAAACAAAAACTCAATAGA
18437360 GCTT-AACAAAAACTC-ATATGA
1 G-TTAAACAAAAACTCAATA-GA
18437381 GTTAAACA
1 GTTAAACA
18437389 GAAGCTCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 5 0.21
21 17 0.71
22 2 0.08
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (21 bp):
GTTAAACAAAAACTCAATAGA
Found at i:18441232 original size:18 final size:18
Alignment explanation
Indices: 18441211--18441247 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18441201 ATTCTTTCTT
*
18441211 TTATTATTATAACTTTTA
1 TTATTATTATAACCTTTA
*
18441229 TTATTTTTATAACCTTTA
1 TTATTATTATAACCTTTA
18441247 T
1 T
18441248 ACATATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATTATAACCTTTA
Found at i:18454403 original size:30 final size:30
Alignment explanation
Indices: 18454354--18454410 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
18454344 AATCATAGTT
*
18454354 TAAAGCTTATTTAATTAAAA-ATAATAATC
1 TAAAGCTTATTTAAATAAAATATAATAATC
*
18454383 TAAAGGCTTGTTTAAATAAAATATAATA
1 TAAA-GCTTATTTAAATAAAATATAATA
18454411 GTTAAGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 14 0.58
31 6 0.25
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (30 bp):
TAAAGCTTATTTAAATAAAATATAATAATC
Found at i:18454417 original size:29 final size:28
Alignment explanation
Indices: 18454342--18454417 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 28
18454332 TTTTACACAT
* * *
18454342 AAAATCATAGTTTAAAGCTTATTTAATTA
1 AAAATAATAG-TTAAGGCTTATTTAAATA
* *
18454371 AAAATAATAATCTAAAGGCTTGTTTAAATA
1 AAAATAATAGT-T-AAGGCTTATTTAAATA
18454401 AAATATAATAGTTAAGG
1 AAA-ATAATAGTTAAGG
18454418 ATTTTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 1 0.03
29 13 0.34
30 17 0.45
31 7 0.18
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.36
Consensus pattern (28 bp):
AAAATAATAGTTAAGGCTTATTTAAATA
Found at i:18456578 original size:33 final size:33
Alignment explanation
Indices: 18456541--18456614 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
18456531 TGGCCTGTCC
* *
18456541 ATGGTCTTA-CATTCATAGTACCATAACCCAGTT
1 ATGGTCTTATCA-TCATAATACCATAACCCAGCT
* * *
18456574 ATGGTCTTATCATCATAATGCCATAGCTCAGCT
1 ATGGTCTTATCATCATAATACCATAACCCAGCT
18456607 ATGGTCTT
1 ATGGTCTT
18456615 GTATTTAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (33 bp):
ATGGTCTTATCATCATAATACCATAACCCAGCT
Found at i:18458871 original size:20 final size:20
Alignment explanation
Indices: 18458829--18458871 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
18458819 ATAATTCATA
* **
18458829 ATAATTTAAAAATATTTGGT
1 ATAAATTAAAAATATTTAAT
*
18458849 ATAAATTAATAATATTTAAT
1 ATAAATTAAAAATATTTAAT
18458869 ATA
1 ATA
18458872 GTTTAAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAAATTAAAAATATTTAAT
Found at i:18459011 original size:25 final size:25
Alignment explanation
Indices: 18458983--18459034 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
18458973 TTCTCAAATT
18458983 AATATATTTAAAGTAGAAATAGAGA
1 AATATATTTAAAGTAGAAATAGAGA
18459008 AATATATTTAAAGTAGAAATAGAGA
1 AATATATTTAAAGTAGAAATAGAGA
18459033 AA
1 AA
18459035 GGAAAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (25 bp):
AATATATTTAAAGTAGAAATAGAGA
Found at i:18464426 original size:189 final size:178
Alignment explanation
Indices: 18464113--18464467 Score: 557
Period size: 189 Copynumber: 1.9 Consensus size: 178
18464103 AAAGACCCTT
18464113 AGAAATATGTCAGGCCTCTTAATATCACTTATATCTTAAGTCAATAAGGATAATTGCTAATTCAG
1 AGAAATATGTCAGGCCTCTTAATATCACTTATATCTTAAGTCAATAAGGATAATTGCTAATTCAG
18464178 AGCTCAACTAACAAAATATTCCCCCTTTTGATTCCATCAATTCTCACATGAATGCACACACTCAA
66 AGCTCAACTAACAAAATATTCCCCCTTTTGATTCCATCAATTCTCACATGAATGCACACACTCAA
18464243 AATTCATGTGCAAAAACCATCTAAACAAAGGTTTCAAGTAAAGATCCTTAGA
131 AATTCATGTGCAAAAA-C--C-AAACAAAGGTTTCAAGTAAAGATCCTTAGA
* *
18464295 AGAAATATGTCAGGCTTCTTAATATCACTTATATCTTAAGTCAATAATGATAATTGCAAGTCAAT
1 AGAAATATGTCAGGCCTCTTAATATCACTTATATCTTAAGTCAATAAGGATAATT----G-C--T
*
18464360 AATTCAGAGCTCAACTAACAAAATATTCCCCCTTTTGATTCCATCAATTCTCACATGCATGCACA
59 AATTCAGAGCTCAACTAACAAAATATTCCCCCTTTTGATTCCATCAATTCTCACATGAATGCACA
* * *
18464425 CATTCATAGTTCATGTGCAAAAACCAAACAAAGGTTTCAAGTA
124 CACTCAAAATTCATGTGCAAAAACCAAACAAAGGTTTCAAGTA
18464468 GAAAATTTTC
Statistics
Matches: 160, Mismatches: 6, Indels: 11
0.90 0.03 0.06
Matches are distributed among these distances:
182 53 0.33
185 18 0.11
186 2 0.01
187 1 0.01
188 1 0.01
189 85 0.53
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (178 bp):
AGAAATATGTCAGGCCTCTTAATATCACTTATATCTTAAGTCAATAAGGATAATTGCTAATTCAG
AGCTCAACTAACAAAATATTCCCCCTTTTGATTCCATCAATTCTCACATGAATGCACACACTCAA
AATTCATGTGCAAAAACCAAACAAAGGTTTCAAGTAAAGATCCTTAGA
Found at i:18466252 original size:27 final size:27
Alignment explanation
Indices: 18466217--18466280 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
18466207 TATAAAATGT
*
18466217 TTTTAGTTTGTTTGAT-AAATTTTTCGAA
1 TTTT-GTTTGTTTAATGAAATTTTT-GAA
* *
18466245 TTTTGTTTTTTTTAATGATATTTTTGAA
1 TTTTG-TTTGTTTAATGAAATTTTTGAA
18466273 TTTTGTTT
1 TTTTGTTT
18466281 TTAGGTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 4 0.13
28 20 0.65
29 7 0.23
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.66
Consensus pattern (27 bp):
TTTTGTTTGTTTAATGAAATTTTTGAA
Found at i:18468357 original size:25 final size:23
Alignment explanation
Indices: 18468329--18468404 Score: 84
Period size: 22 Copynumber: 3.3 Consensus size: 23
18468319 GACCCTAGCA
18468329 TGCTCTCCGATTATTAGCACATTAG
1 TGCTCTCCG--TATTAGCACATTAG
*
18468354 TGCTCTCCGT-TTAGCACATTTG
1 TGCTCTCCGTATTAGCACATTAG
* * *
18468376 TGCCCTCTGTA-TAGCACTTTAG
1 TGCTCTCCGTATTAGCACATTAG
18468398 TGCTCTC
1 TGCTCTC
18468405 TACTTAATAG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 34 0.77
23 1 0.02
25 9 0.20
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (23 bp):
TGCTCTCCGTATTAGCACATTAG
Found at i:18500022 original size:11 final size:9
Alignment explanation
Indices: 18499997--18500040 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
18499987 TATCGACATA
18499997 TAATATATT
1 TAATATATT
18500006 TAATATATT
1 TAATATATT
18500015 TAATATA--
1 TAATATATT
18500022 TAA-ATATT
1 TAATATATT
18500030 TAATAT-TT
1 TAATATATT
18500038 TAA
1 TAA
18500041 ATTTTATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 3 0.09
7 3 0.09
8 8 0.25
9 18 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TAATATATT
Found at i:18500030 original size:24 final size:24
Alignment explanation
Indices: 18499994--18500040 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
18499984 CTCTATCGAC
18499994 ATATAATATATTTAATATATTTAAT
1 ATATAATATATTTAATAT-TTTAAT
18500019 ATATAA-ATATTTAATATTTTAA
1 ATATAATATATTTAATATTTTAA
18500041 ATTTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 11 0.50
25 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATAATATATTTAATATTTTAAT
Found at i:18503617 original size:17 final size:18
Alignment explanation
Indices: 18503589--18503622 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
18503579 CATTTAATTT
18503589 TTTTATTTTTATTTTTTG
1 TTTTATTTTTATTTTTTG
18503607 TTTTA-TTTTATTTTTT
1 TTTTATTTTTATTTTTT
18503623 CTCTTTTTGC
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:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTATTTTTATTTTTTG
Found at i:18503806 original size:17 final size:17
Alignment explanation
Indices: 18503786--18503824 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
18503776 GAATTTTCCA
*
18503786 TTTAAAATACTTATTAT
1 TTTAAAATACTTAATAT
* *
18503803 TTTAAAGTTCTTAATAT
1 TTTAAAATACTTAATAT
18503820 TTTAA
1 TTTAA
18503825 CACATGTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAAATACTTAATAT
Found at i:18505376 original size:126 final size:126
Alignment explanation
Indices: 18505083--18505529 Score: 562
Period size: 126 Copynumber: 3.5 Consensus size: 126
18505073 AAAAATTCCT
* * * * *
18505083 TAAAACGAAGGTAATGTTCGATGTTTGGAAATTC--GAAATCGTGCCCTACCGTGCTGGGTTTTG
1 TAAAAC-AAGGCAATGTTTGATGCTTGG-AATTCGGGAAACCGTGCCCTATCGTGCTGGGTTTTG
* * * * ** * * *
18505146 ACTTC-CTGTTTGTTCAAAATAATCAAACCTTCCTTTAGAATTTCACTCGTTTTTTTTTAAATTC
64 ATTTCTC-GTTTATCCAAAATCATCAAATATTCCTTTAGAATTTCATTCG-TATTCTTTAAATTC
* * *
18505210 TAAAACAAGACAATGTTTGATGCTTGGAATTCAGGG-AACCGTGTCCTATTGTGCTGGGTTTTGA
1 TAAAACAAGGCAATGTTTGATGCTTGGAATTC-GGGAAACCGTGCCCTATCGTGCTGGGTTTTGA
18505274 TTTCTCGTTTATCCAAAATCATCAAATATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
65 TTTCTCGTTTATCCAAAATCATCAAATATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
* *
18505336 TAAGACAAGGCAATGTTTGATGCTTGGAATTCGGGAAACCGTGCCCTATCGTGCTGGGTTTCGAT
1 TAAAACAAGGCAATGTTTGATGCTTGGAATTCGGGAAACCGTGCCCTATCGTGCTGGGTTTTGAT
18505401 TTCTCGTTTATCCAAAATCATCAAATATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
66 TTCTCGTTTATCCAAAATCATCAAATATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
** * * * * *
18505462 TAAAACAAGGCAATGTTCAATGTTTGGGAATTTGAGG-AATCGTGCCCTACCGTGCTGGGTTTCG
1 TAAAACAAGGCAATGTTTGATGCTT-GGAATTCG-GGAAACCGTGCCCTATCGTGCTGGGTTTTG
18505526 ATTT
64 ATTT
18505530 TTTGTTGGAC
Statistics
Matches: 284, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
125 8 0.03
126 167 0.59
127 105 0.37
128 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (126 bp):
TAAAACAAGGCAATGTTTGATGCTTGGAATTCGGGAAACCGTGCCCTATCGTGCTGGGTTTTGAT
TTCTCGTTTATCCAAAATCATCAAATATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
Found at i:18512664 original size:14 final size:14
Alignment explanation
Indices: 18512645--18512672 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18512635 GAACGTTAGA
18512645 ACTATATTATAAGT
1 ACTATATTATAAGT
18512659 ACTATATTATAAGT
1 ACTATATTATAAGT
18512673 GGAAATTCAT
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:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
ACTATATTATAAGT
Found at i:18518021 original size:32 final size:32
Alignment explanation
Indices: 18517985--18518050 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
18517975 GAACCCAAAA
18517985 ACATAAAAATTACTAAAAAC-GAGCATTAATAC
1 ACATAAAAATTACTAAAAACAG-GCATTAATAC
18518017 ACATAAAAATTACTAAAAACAGGCATTAATAC
1 ACATAAAAATTACTAAAAACAGGCATTAATAC
18518049 AC
1 AC
18518051 TTACCAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 32 0.97
33 1 0.03
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.21
Consensus pattern (32 bp):
ACATAAAAATTACTAAAAACAGGCATTAATAC
Found at i:18519311 original size:12 final size:13
Alignment explanation
Indices: 18519294--18519324 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18519284 ACTTTACACC
18519294 TTTAATT-AAAAT
1 TTTAATTAAAAAT
18519306 TTTAATTAAAAAT
1 TTTAATTAAAAAT
18519319 TTTAAT
1 TTTAAT
18519325 AATATAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAATTAAAAAT
Found at i:18521579 original size:17 final size:17
Alignment explanation
Indices: 18521557--18521589 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18521547 TCTTCCTTTA
18521557 TAAAAAA-AGTCAATTAC
1 TAAAAAATAGT-AATTAC
18521574 TAAAAAATAGTAATTA
1 TAAAAAATAGTAATTA
18521590 AATCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (17 bp):
TAAAAAATAGTAATTAC
Found at i:18523069 original size:16 final size:17
Alignment explanation
Indices: 18523037--18523069 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18523027 GTTGGCTAGG
18523037 TTTATCTCTTATATTTT
1 TTTATCTCTTATATTTT
*
18523054 TTTATCT-TTCTATTTT
1 TTTATCTCTTATATTTT
18523070 GTGTTCATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATCTCTTATATTTT
Found at i:18524040 original size:149 final size:150
Alignment explanation
Indices: 18523782--18524091 Score: 358
Period size: 149 Copynumber: 2.1 Consensus size: 150
18523772 TTGACAAAGT
* * **
18523782 TAATTGTTTGACTTGATGTTTTCCCTTGAAGGATTATGCTTTATTGATTAAATGGGAGTAGATCT
1 TAATTGTTTGACTTGATGTTTGCCCTTGAAAGATTATGCTTTACCGATTAAATGGGAGTAGATCT
*** * *
18523847 TTGAGAAAGTTGGTTATTTGGCTTGATGTTTTCCCTTTGGGGATTATGCTCTACCAACTAAGTGG
66 TTGAGAAAGTCAATTATTTGACTTGATGTTTTCCCTTTGGGGATTATACTCTACCAACTAAGTGG
* *
18523912 TG-GCAGATTTTTTAGGAAGC
131 -GAGCAGATGTTTGAGGAAGC
* * *
18523932 TAATTGTTTGACTTGATGTTTGCCC-TGAAAGATTATG-TTCTACCGATTAAGTGGGAGTATATG
1 TAATTGTTTGACTTGATGTTTGCCCTTGAAAGATTATGCTT-TACCGATTAAATGGGAGTAGATC
* * * * **
18523995 TTTGAGGAAGTCAATTGTTTGATTTGATGTTTTCTC-TTGAGGGATTATACTCTTTCAACTAAGT
65 TTTGAGAAAGTCAATTATTTGACTTGATGTTTTCCCTTTG-GGGATTATACTCTACCAACTAAGT
* * *
18524059 GGGAGTATATGTTTGAGGAAGT
129 GGGAGCAGATGTTTGAGGAAGC
18524081 TAATTGTTTGA
1 TAATTGTTTGA
18524092 TTTTTGAGAA
Statistics
Matches: 134, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
148 6 0.04
149 104 0.78
150 24 0.18
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.42
Consensus pattern (150 bp):
TAATTGTTTGACTTGATGTTTGCCCTTGAAAGATTATGCTTTACCGATTAAATGGGAGTAGATCT
TTGAGAAAGTCAATTATTTGACTTGATGTTTTCCCTTTGGGGATTATACTCTACCAACTAAGTGG
GAGCAGATGTTTGAGGAAGC
Found at i:18524094 original size:75 final size:75
Alignment explanation
Indices: 18523778--18524091 Score: 310
Period size: 75 Copynumber: 4.2 Consensus size: 75
18523768 GTTTTTGACA
* *** * *
18523778 AAGTTAATTGTTTGACTTGATGTTTTCCCTTGAAGGATTATGCTTTATTGATTAAATGGGAGTAG
1 AAGTTAATTGTTTGACTTGATGTTTTCCCTTGAAGGATTATGCTCTACCAACTAAGTGGGAGTAG
* *
18523843 ATCTTTGAGA
66 ATGTTTGAGG
** * * * *
18523853 AAGTTGGTTATTTGGCTTGATGTTTTCCCTTTG-GGGATTATGCTCTACCAACTAAGTGGTG-GC
1 AAGTTAATTGTTTGACTTGATGTTTTCCC-TTGAAGGATTATGCTCTACCAACTAAGTGG-GAGT
* *
18523916 AGATTTTTTAGG
64 AGATGTTTGAGG
* * * * * * *
18523928 AAGCTAATTGTTTGACTTGATGTTTGCCC-TGAAAGATTATGTTCTACCGATTAAGTGGGAGTAT
1 AAGTTAATTGTTTGACTTGATGTTTTCCCTTGAAGGATTATGCTCTACCAACTAAGTGGGAGTAG
18523992 ATGTTTGAGG
66 ATGTTTGAGG
* * * * * ** *
18524002 AAGTCAATTGTTTGATTTGATGTTTTCTCTTGAGGGATTATACTCTTTCAACTAAGTGGGAGTAT
1 AAGTTAATTGTTTGACTTGATGTTTTCCCTTGAAGGATTATGCTCTACCAACTAAGTGGGAGTAG
18524067 ATGTTTGAGG
66 ATGTTTGAGG
18524077 AAGTTAATTGTTTGA
1 AAGTTAATTGTTTGA
18524092 TTTTTGAGAA
Statistics
Matches: 190, Mismatches: 44, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
73 3 0.02
74 55 0.29
75 128 0.67
76 4 0.02
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.41
Consensus pattern (75 bp):
AAGTTAATTGTTTGACTTGATGTTTTCCCTTGAAGGATTATGCTCTACCAACTAAGTGGGAGTAG
ATGTTTGAGG
Found at i:18531826 original size:18 final size:18
Alignment explanation
Indices: 18531797--18531840 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
18531787 AAAATAAGTA
* *
18531797 TTATAAATTTATATAATT
1 TTATAAAATTATATAAAT
*
18531815 TTTTAAAATTATATAAAT
1 TTATAAAATTATATAAAT
18531833 TTATAAAA
1 TTATAAAA
18531841 GTAGAGAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATAAAATTATATAAAT
Found at i:18532395 original size:20 final size:20
Alignment explanation
Indices: 18532372--18532409 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18532362 TTTTTCTTTT
18532372 TTTTTATGAATTTT-TATAAG
1 TTTTTATG-ATTTTATATAAG
18532392 TTTTTATGATTTTATATA
1 TTTTTATGATTTTATATA
18532410 TATAAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (20 bp):
TTTTTATGATTTTATATAAG
Found at i:18533395 original size:105 final size:106
Alignment explanation
Indices: 18532987--18533416 Score: 458
Period size: 110 Copynumber: 4.0 Consensus size: 106
18532977 TAGATAGCCT
*
18532987 GCACC-AGATACAATTTTTGGTTCCCAATGCACTTTTTTTTTACTTTGGGACACTGATGGCCGGC
1 GCACCAAG-TACAATTTTTGGTT-CCAATGCA--TTTTTTTTA-TTTGGAACACTGATGGCCGGC
*
18533051 ACCAGTGTATTTAAAAAAAAAATTTGGGTGCTTGCCATGTAATGGCCG
61 ACCAGTGTATTT-AAAAAAAAA-TTGGGTGCTGGCCATGTAATGGCCG
* * * *
18533099 GCACCAAGTACAATTTTTGGCTCCAATGCATTTTTTTTATTTTGGAATATTGATGGCCGACACCA
1 GCACCAAGTACAATTTTTGGTTCCAATGCATTTTTTTTA-TTTGGAACACTGATGGCCGGCACCA
* * **
18533164 GTGTATTTAAAAAAAAATT-AGTGTTGGCCATGTAATGGTTG
65 GTGTATTTAAAAAAAAATTGGGTGCTGGCCATGTAATGGCCG
* * * ** * * **
18533205 GCACCAGGTACAATTTTCGGTCCCCAGGGGAATTTTTTTTTTACTTTGGGACACTGATGGCAAGC
1 GCACCAAGTACAATTTTTGGT-TCCA-ATGCA--TTTTTTTTA-TTTGGAACACTGATGGCCGGC
18533270 ACCAGTGTATTTAAAAAAAAATTGGGTGCTGGCCA-GTAGATGGCCG
61 ACCAGTGTATTTAAAAAAAAATTGGGTGCTGGCCATGTA-ATGGCCG
* * * *
18533316 GCACCAAGTTCAATTTTTGGCTTCCAATGCA-TTTGTTT-TTTGGAACACTGATGGTCGGCATCA
1 GCACCAAGTACAATTTTTGG-TTCCAATGCATTTTTTTTATTTGGAACACTGATGGCCGGCACCA
* *
18533379 GTGTATTTAAAAAAAAATTGGGT-TTGGGCATGTAATGG
65 GTGTATTTAAAAAAAAATTGGGTGCTGGCCATGTAATGG
18533417 TCAACACCAA
Statistics
Matches: 265, Mismatches: 44, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
104 9 0.03
105 46 0.17
106 35 0.13
107 11 0.04
108 11 0.04
109 38 0.14
110 52 0.20
111 42 0.16
112 19 0.07
113 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (106 bp):
GCACCAAGTACAATTTTTGGTTCCAATGCATTTTTTTTATTTGGAACACTGATGGCCGGCACCAG
TGTATTTAAAAAAAAATTGGGTGCTGGCCATGTAATGGCCG
Found at i:18533460 original size:105 final size:106
Alignment explanation
Indices: 18532987--18533463 Score: 457
Period size: 105 Copynumber: 4.4 Consensus size: 106
18532977 TAGATAGCCT
* * *
18532987 GCACC-AGATACAATTTTTGGTTCCCAATGCACTTTTTTTTTACTTTGGGACACTGATGGCCGGC
1 GCACCAAG-TACAATTTTTGGCTCCCAATGCA--ATTTTTTT--TTTGGAACACTGATGGCCGGC
18533051 ACCAGTGTATTTAAAAAAAAAATTTGGGTGCTT-GCCATGTAATGGCCG
61 ACCAGTGTATTT-AAAAAAAAA-TTGGGTG-TTGGCCATGTAATGGCCG
* * * *
18533099 GCACCAAGTACAATTTTTGGCT-CCAATGCATTTTTTTTATTTTGGAATATTGATGGCCGACACC
1 GCACCAAGTACAATTTTTGGCTCCCAATGCA-ATTTTTT-TTTTGGAACACTGATGGCCGGCACC
* **
18533163 AGTGTATTTAAAAAAAAATT-AGTGTTGGCCATGTAATGGTTG
64 AGTGTATTTAAAAAAAAATTGGGTGTTGGCCATGTAATGGCCG
* * ** * * **
18533205 GCACCAGGTACAATTTTCGG-TCCCCAGGGGAATTTTTTTTTTACTTTGGGACACTGATGGCAAG
1 GCACCAAGTACAATTTTTGGCT-CCCAATGCAA---TTTTTTT--TTTGGAACACTGATGGCCGG
*
18533269 CACCAGTGTATTTAAAAAAAAATTGGGTGCTGGCCA-GTAGATGGCCG
60 CACCAGTGTATTTAAAAAAAAATTGGGTGTTGGCCATGTA-ATGGCCG
* * * * *
18533316 GCACCAAGTTCAATTTTTGGCTTCCAATGC-ATTTGTTTTTTGGAACACTGATGGTCGGCATCAG
1 GCACCAAGTACAATTTTTGGCTCCCAATGCAATTTTTTTTTTGGAACACTGATGGCCGGCACCAG
* * *
18533380 TGTATTTAAAAAAAAATTGGGT-TTGGGCATGTAATGGTCA
66 TGTATTTAAAAAAAAATTGGGTGTTGGCCATGTAATGGCCG
* * * * *
18533420 ACACCAAATACATTTTTTGTCTCCCAATACAATTTTTTTTTTGG
1 GCACCAAGTACAATTTTTGGCTCCCAATGCAATTTTTTTTTTGG
18533464 TTTTGGGATA
Statistics
Matches: 301, Mismatches: 49, Indels: 37
0.78 0.13 0.10
Matches are distributed among these distances:
104 33 0.11
105 61 0.20
106 34 0.11
107 13 0.04
108 10 0.03
109 35 0.12
110 50 0.17
111 44 0.15
112 19 0.06
113 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (106 bp):
GCACCAAGTACAATTTTTGGCTCCCAATGCAATTTTTTTTTTGGAACACTGATGGCCGGCACCAG
TGTATTTAAAAAAAAATTGGGTGTTGGCCATGTAATGGCCG
Found at i:18539050 original size:6 final size:6
Alignment explanation
Indices: 18539032--18539069 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
18539022 TTTTGTTTTT
*
18539032 ATTT-C ATTT-C ATTTCC ATTTCC ATTTTC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
18539070 AATTTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (6 bp):
ATTTCC
Found at i:18539218 original size:47 final size:50
Alignment explanation
Indices: 18539161--18539296 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 50
18539151 TTTTCATTTC
18539161 AATTTCATTTCATAATCATTTAAAC-TTTCATTCCATTTTATAATCA-T-
1 AATTTCATTTCATAATCATTTAAACATTTCATTCCATTTTATAATCATTA
* *
18539208 AATTTCATTTCATAATCATTT-AACATTTCATTTCATTTTATATTCATTACA
1 AATTTCATTTCATAATCATTTAAACATTTCATTCCATTTTATAATCATT--A
* * * *
18539259 AATTACATTTCATACTCATTT-AACATTTTATTTCATTT
1 AATTTCATTTCATAATCATTTAAACATTTCATTCCATTT
18539297 AAAATTTTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
46 3 0.04
47 40 0.51
48 1 0.01
51 35 0.44
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (50 bp):
AATTTCATTTCATAATCATTTAAACATTTCATTCCATTTTATAATCATTA
Found at i:18539254 original size:28 final size:28
Alignment explanation
Indices: 18539207--18539296 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
18539197 TTTATAATCA
18539207 TAATTTCATTTCATAATCATTTAACATT
1 TAATTTCATTTCATAATCATTTAACATT
* * *
18539235 TCATTTCATTTTATATTCA-TT-ACA--
1 TAATTTCATTTCATAATCATTTAACATT
* *
18539259 -AATTACATTTCATACTCATTTAACATT
1 TAATTTCATTTCATAATCATTTAACATT
*
18539286 TTATTTCATTT
1 TAATTTCATTT
18539297 AAAATTTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
23 14 0.29
24 2 0.04
25 3 0.06
26 3 0.06
27 2 0.04
28 24 0.50
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (28 bp):
TAATTTCATTTCATAATCATTTAACATT
Found at i:18539304 original size:17 final size:16
Alignment explanation
Indices: 18539274--18539308 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
18539264 CATTTCATAC
*
18539274 TCATTTAACATTTTATT
1 TCATTTAAAATTTT-TT
18539291 TCATTTAAAATTTTTT
1 TCATTTAAAATTTTTT
18539307 TC
1 TC
18539309 CTAATATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (16 bp):
TCATTTAAAATTTTTT
Found at i:18539689 original size:5 final size:5
Alignment explanation
Indices: 18539681--18539768 Score: 104
Period size: 5 Copynumber: 16.6 Consensus size: 5
18539671 ATCTTTTTTT
* *
18539681 TTTCA TTTCA TTTATA TTTCCA TTTCA TTTCA TTTCA TTTCA TTTGTA
1 TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA TTTCA TTTCA TTT-CA
*
18539729 TTTCCA TTTCA TTTCG TTTCA TTTCA TTTCTA TTTCA TTT
1 TTT-CA TTTCA TTTCA TTTCA TTTCA TTTC-A TTTCA TTT
18539769 AAATTATCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
5 51 0.71
6 21 0.29
ACGTcount: A:0.18, C:0.18, G:0.02, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:18539718 original size:32 final size:32
Alignment explanation
Indices: 18539681--18539768 Score: 142
Period size: 32 Copynumber: 2.8 Consensus size: 32
18539671 ATCTTTTTTT
18539681 TTTCATTTCATTTATATTTCCATTTCATTTCA
1 TTTCATTTCATTTATATTTCCATTTCATTTCA
* *
18539713 TTTCATTTCATTTGTATTTCCATTTCATTTCG
1 TTTCATTTCATTTATATTTCCATTTCATTTCA
*
18539745 TTTCATTTCATTTCTATTT-CATTT
1 TTTCATTTCATTTATATTTCCATTT
18539769 AAATTATCTT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 5 0.09
32 48 0.91
ACGTcount: A:0.18, C:0.18, G:0.02, T:0.61
Consensus pattern (32 bp):
TTTCATTTCATTTATATTTCCATTTCATTTCA
Found at i:18539807 original size:48 final size:47
Alignment explanation
Indices: 18539755--18540151 Score: 450
Period size: 48 Copynumber: 8.7 Consensus size: 47
18539745 TTTCATTTCA
*
18539755 TTTCT-ATTTCATTTAAATTATCTTTTTTTTTCCATTTAAATTTATTTT
1 TTTCTCATTTCATTTAAATTATC--TTTTTTTCCATTTTAATTTATTTT
* *
18539803 TTTCTCATTTCATTTAAATTATCTATATTTCCATTTTAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTTAATTT-ATTTT
*
18539851 TTTCTTATTTCATTTAAATTA--TTTTTTTCCATTTTAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTTAATTT-ATTTT
* * * * *
18539897 TTTATCATTTCATTTAAATTATCTCTCTTCCCATTTTAATTTAATTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTTAATTTATTTT
* *
18539944 TTTCTCATGTCATTTAAATTATCTTTTTTTTCCATTTAAATTTATTTT
1 TTTCTCATTTCATTTAAATTATC-TTTTTTTCCATTTTAATTTATTTT
*
18539992 TTTCTCATTTCATTTAAATTAT-ATTTTTTCCAATTTTAA-TT-TTTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCC-ATTTTAATTTATTTT
* *
18540037 TTTCTAATTTCATTT--A--A----TTTTTCCATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTTAATTT-ATTTT
* * *
18540077 TTTCTCATTTTATTTAAATTATCTATATTTCCATTTTAA-TT-TTTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTTAATTTATTTT
*
18540122 TTTCTCATTTCATTTAAATT-TATTTTTTTC
1 TTTCTCATTTCATTTAAATTATCTTTTTTTC
18540152 TCTTTTCATT
Statistics
Matches: 300, Mismatches: 32, Indels: 38
0.81 0.09 0.10
Matches are distributed among these distances:
37 6 0.02
38 9 0.03
40 17 0.06
41 1 0.00
42 1 0.00
43 1 0.00
44 8 0.03
45 41 0.14
46 52 0.17
47 49 0.16
48 98 0.33
49 17 0.06
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (47 bp):
TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTTAATTTATTTT
Found at i:18539821 original size:26 final size:26
Alignment explanation
Indices: 18539755--18540167 Score: 168
Period size: 26 Copynumber: 16.8 Consensus size: 26
18539745 TTTCATTTCA
18539755 TTTCT-ATTTCATTTAAA-TTATCTTT
1 TTTCTCATTTCATTTAAATTTAT-TTT
*
18539780 TTT-T--TTCCATTTAAATTTATTTT
1 TTTCTCATTTCATTTAAATTTATTTT
*
18539803 TTTCTCATTTCATTTAAA-TTATCTATA
1 TTTCTCATTTCATTTAAATTTAT-T-TT
18539830 TTTC-CA--T--TTT-AATTTAATTTT
1 TTTCTCATTTCATTTAAATTT-ATTTT
*
18539851 TTTCTTATTTCATTTAAA-TTATTTT
1 TTTCTCATTTCATTTAAATTTATTTT
18539876 TTTC-CA--T--TTT-AATTTAATTTT
1 TTTCTCATTTCATTTAAATTT-ATTTT
*
18539897 TTTATCATTTCATTTAAA-TTA----
1 TTTCTCATTTCATTTAAATTTATTTT
* * * *
18539918 TCTCTC-TTCCCATTTTAATTTAATTT
1 TTTCTCATT-TCATTTAAATTTATTTT
* *
18539944 TTTCTCATGTCATTTAAA-TTATCTT
1 TTTCTCATTTCATTTAAATTTATTTT
*
18539969 TTT-T--TTCCATTTAAATTTATTTT
1 TTTCTCATTTCATTTAAATTTATTTT
18539992 TTTCTCATTTCATTTAAA-TTATATTT
1 TTTCTCATTTCATTTAAATTTAT-TTT
*
18540018 TTTC-CA----ATTTTAA-TT-TTTT
1 TTTCTCATTTCATTTAAATTTATTTT
* * *
18540037 TTTCTAATTTCATTTAATTTTTCCATTTAA
1 TTTCTCATTTCATTTAA-ATTT--ATTT-T
* * ** * *
18540067 ATT-TAATTTTTTTCTCATTTTATTTAAAT
1 TTTCTCATTTCATT-TAAATTTATTT---T
* * *
18540096 TATCTATATTTCCATTTTAA-TT-TTTT
1 TTTCT-CATTT-CATTTAAATTTATTTT
18540122 TTTCTCATTTCATTTAAATTTATTTT
1 TTTCTCATTTCATTTAAATTTATTTT
*
18540148 TTTCTCTTTTCATTTAAATT
1 TTTCTCATTTCATTTAAATT
18540168 ATCTTTCTTC
Statistics
Matches: 293, Mismatches: 42, Indels: 105
0.67 0.10 0.24
Matches are distributed among these distances:
19 9 0.03
20 9 0.03
21 34 0.12
22 22 0.08
23 27 0.09
24 24 0.08
25 37 0.13
26 82 0.28
27 14 0.05
29 20 0.07
30 7 0.02
31 6 0.02
32 2 0.01
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTCTCATTTCATTTAAATTTATTTT
Found at i:18539958 original size:141 final size:136
Alignment explanation
Indices: 18539755--18540164 Score: 502
Period size: 141 Copynumber: 3.0 Consensus size: 136
18539745 TTTCATTTCA
*
18539755 TTTCT-ATTTCATTTAAATTATCTTTTTTTTTCCATTTAAATTTATTTTTTTCTCATTTCATTTA
1 TTTCTAATTTCATTTAAATTATC-----TTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTA
*
18539819 AATTATCTATATTTCCATTTTAATTTAATTTTTTTCTTATTTCATTTAAATTATTTTTTTCCATT
61 AATTATCTATATTTCCATTTTAATTT-ATTTTTTTCTCATTTCATTTAAATTATTTTTTTCCATT
18539884 TTAATTTAATTT
125 TTAATTTAATTT
* *
18539896 TTT-TATCATTTCATTTAAATTATCTCTCTTCCCATTTTAATTTAATTTTTTCTCATGTCATTTA
1 TTTCTA--ATTTCATTTAAATTATCT-T-TT-CCATTTAAATTTAATTTTTTCTCATTTCATTTA
* * *
18539960 AATTATCTTTTTTTTCCATTTAAATTTATTTTTTTCTCATTTCATTTAAATTATATTTTTTCCAA
61 AATTATC-TATATTTCCATTTTAATTTATTTTTTTCTCATTTCATTTAAATTAT-TTTTTTCC-A
18540025 TTTTAATTT--TTT
123 TTTTAATTTAATTT
*
18540037 TTTCTAATTTCATTT--A--AT-TTTTCCATTTAAATTTAATTTTTTTCTCATTTTATTTAAATT
1 TTTCTAATTTCATTTAAATTATCTTTTCCATTTAAATTTAA-TTTTTTCTCATTTCATTTAAATT
*
18540097 ATCTATATTTCCATTTTAA-TT-TTTTTTTCTCATTTCATTTAAATTTATTTTTTTCTC-TTTTC
65 ATCTATATTTCCATTTTAATTTATTTTTTTCTCATTTCATTTAAA-TTATTTTTTTC-CATTTTA
18540159 ATTTAA
128 ATTTAA
18540165 ATTATCTTTC
Statistics
Matches: 240, Mismatches: 14, Indels: 40
0.82 0.05 0.14
Matches are distributed among these distances:
129 8 0.03
130 29 0.12
131 7 0.03
132 26 0.11
133 26 0.11
134 1 0.00
135 1 0.00
136 2 0.01
138 2 0.01
139 1 0.00
140 12 0.05
141 72 0.30
142 26 0.11
143 27 0.11
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (136 bp):
TTTCTAATTTCATTTAAATTATCTTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTA
TCTATATTTCCATTTTAATTTATTTTTTTCTCATTTCATTTAAATTATTTTTTTCCATTTTAATT
TAATTT
Found at i:18540070 original size:84 final size:85
Alignment explanation
Indices: 18539970--18540138 Score: 279
Period size: 85 Copynumber: 2.0 Consensus size: 85
18539960 AATTATCTTT
*
18539970 TTTTTCCATTTAAATTT-ATTTTTTTCTCATTTCATTTAAATTATAT-TTTTTCCAATTTTAATT
1 TTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATATATATTTCC-ATTTTAATT
18540033 TTTTTTTCTAATTTCATTTAA
65 TTTTTTTCTAATTTCATTTAA
* *
18540054 TTTTTCCATTTAAATTTAATTTTTTTCTCATTTTATTTAAATTATCTATATTTCCATTTTAATTT
1 TTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATATATATTTCCATTTTAATTT
*
18540119 TTTTTTCTCATTTCATTTAA
66 TTTTTTCTAATTTCATTTAA
18540139 ATTTATTTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
84 17 0.22
85 56 0.71
86 6 0.08
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (85 bp):
TTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATATATATTTCCATTTTAATTT
TTTTTTCTAATTTCATTTAA
Found at i:18547182 original size:16 final size:16
Alignment explanation
Indices: 18547161--18547198 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
18547151 TTTGGTTCAC
18547161 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
*
18547177 TGTAATTGAATAGAGT
1 TGTAATGGAATAGAGT
18547193 TGTAAT
1 TGTAAT
18547199 AAGTAGTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:18548294 original size:25 final size:26
Alignment explanation
Indices: 18548266--18548316 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
18548256 ATAATTATTG
*
18548266 TTATTGTT-ATTAAATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
*
18548291 TTATTGTTAAATATATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
18548317 ATAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAAA
Found at i:18565295 original size:5 final size:5
Alignment explanation
Indices: 18565285--18565332 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
18565275 TTTCTTTATT
* * *
18565285 TTTTA TTTTA TTTTA TTATTA TTTTA TTTCA TTTTA TCTTA GTTTA TT
1 TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
18565333 GATTTACTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:18565297 original size:21 final size:21
Alignment explanation
Indices: 18565280--18565321 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18565270 CCCATTTTCT
*
18565280 TTATT-TTTTATTTTATTTTA
1 TTATTATTTTATTTCATTTTA
18565300 TTATTATTTTATTTCATTTTA
1 TTATTATTTTATTTCATTTTA
18565321 T
1 T
18565322 CTTAGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTATTATTTTATTTCATTTTA
Found at i:18570260 original size:20 final size:21
Alignment explanation
Indices: 18570237--18570285 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
18570227 TTAAATTCTA
*
18570237 AAAGATAAATACAA-ATAAAT
1 AAAGATAAATAAAAGATAAAT
18570257 AAAGAT-AATAAAAGATAAAT
1 AAAGATAAATAAAAGATAAAT
18570277 AAAGATAAA
1 AAAGATAAA
18570286 AAATTAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.23
20 18 0.69
21 2 0.08
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.18
Consensus pattern (21 bp):
AAAGATAAATAAAAGATAAAT
Found at i:18570264 original size:10 final size:10
Alignment explanation
Indices: 18570237--18570285 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
18570227 TTAAATTCTA
18570237 AAAGATAAAT
1 AAAGATAAAT
18570247 ACAA-ATAAAT
1 A-AAGATAAAT
18570257 AAAGAT-AAT
1 AAAGATAAAT
18570266 AAAAGATAAAT
1 -AAAGATAAAT
18570277 AAAGATAAA
1 AAAGATAAA
18570286 AAATTAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.14
10 25 0.71
11 5 0.14
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:18570935 original size:16 final size:15
Alignment explanation
Indices: 18570914--18570949 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
18570904 TACATCACTT
*
18570914 TTTTTTTCTTTTTCTG
1 TTTTTTTCCTTTT-TG
18570930 TTTTTTTCCTTTTTG
1 TTTTTTTCCTTTTTG
18570945 TTTTT
1 TTTTT
18570950 CTTTTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (15 bp):
TTTTTTTCCTTTTTG
Found at i:18571650 original size:3 final size:3
Alignment explanation
Indices: 18571642--18571711 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
18571632 AATATTCTTA
18571642 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18571690 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
18571712 TGGGCAGCAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18572085 original size:6 final size:6
Alignment explanation
Indices: 18572047--18572121 Score: 95
Period size: 6 Copynumber: 12.8 Consensus size: 6
18572037 AAGTAATAAT
*
18572047 AAAAT- AAAATA AATAAT- AAAATA AAAAT- -TAATA AAAATAA AAAATA
1 AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAAAT-A AAAATA
18572093 AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT
18572122 TGGTTTGCCT
Statistics
Matches: 62, Mismatches: 2, Indels: 11
0.83 0.03 0.15
Matches are distributed among these distances:
4 3 0.05
5 8 0.13
6 42 0.68
7 9 0.15
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:18595103 original size:7 final size:6
Alignment explanation
Indices: 18595071--18595149 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
18595061 ATTGAGTCCA
* * * *
18595071 TTTATT TTTA-T TTT-CT TTTCTT TTAATT TTTAAT TTTAGTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT
* *
18595118 TTTATT TTTATT TTTCTA TTTA-T TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
18595150 CTTAGAATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
5 12 0.20
6 42 0.71
7 5 0.08
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:18595113 original size:13 final size:12
Alignment explanation
Indices: 18595071--18595149 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 12
18595061 ATTGAGTCCA
18595071 TTTATTTTT-AT
1 TTTATTTTTAAT
*
18595082 TTTCTTTTCT--T
1 TTTATTTT-TAAT
*
18595093 TTAATTTTTAAT
1 TTTATTTTTAAT
*
18595105 TTTAGTTTTTATT
1 TTTA-TTTTTAAT
*
18595118 TTTATTTTTATT
1 TTTATTTTTAAT
* *
18595130 TTTCTATTT-AT
1 TTTATTTTTAAT
18595141 TTTATTTTT
1 TTTATTTTT
18595150 CTTAGAATTT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
10 1 0.02
11 22 0.41
12 20 0.37
13 11 0.20
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (12 bp):
TTTATTTTTAAT
Found at i:18598015 original size:16 final size:15
Alignment explanation
Indices: 18597989--18598030 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
18597979 TACGCACTTT
*
18597989 TTTTTCTTTTTTTTC
1 TTTTTCTTTTTTTCC
18598004 TTTTTCTATTTTTTCC
1 TTTTTCT-TTTTTTCC
*
18598020 TTTTTGTTTTT
1 TTTTTCTTTTT
18598031 GTTTTTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTTTCC
Found at i:18598247 original size:99 final size:99
Alignment explanation
Indices: 18598067--18598248 Score: 294
Period size: 99 Copynumber: 1.8 Consensus size: 99
18598057 AGAATACATT
*
18598067 GAACCTTTTGACACGAAGAGAGATGACATCCAAGCACCCCACCCCGGTTACTCAGCCCAACATAC
1 GAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAACATAC
** **
18598132 TCCTAATTTATTATATTTTTCTTAAGTACATATC
66 TCCTAATAAAAAATATTTTTCTTAAGTACATATC
*
18598166 GAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAACATAT
1 GAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAACATAC
18598231 TCCTAA-AAAGAAATATTT
66 TCCTAATAAA-AAATATTT
18598249 AATTCTGGTT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
98 1 0.01
99 75 0.99
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.24
Consensus pattern (99 bp):
GAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAACATAC
TCCTAATAAAAAATATTTTTCTTAAGTACATATC
Found at i:18610373 original size:481 final size:482
Alignment explanation
Indices: 18609844--18610807 Score: 1903
Period size: 482 Copynumber: 2.0 Consensus size: 482
18609834 CTTCTTTTGC
* *
18609844 AGGCATAGAGTGGTGGAGGCAAGTGGGTGTGCTGGTGGCAGACAACTGGTAGTGGCGGGCCAAGG
1 AGGCATAGAGTGGTGGAGGCAAGTGGATGTGCTGGTGGCAGACAACTGGTAGTGGCAGGCCAAGG
18609909 TGGGGCGGCGGCTAGGGTTCTTCTCCTC-TTTTTTTTTTTGCTGAAAATTGTTTAGGTTTGGGCT
66 TGGGGCGGCGGCTAGGGTTCTTCTCCTCTTTTTTTTTTTTGCTGAAAATTGTTTAGGTTTGGGCT
18609973 GGGCTTAGGGTTTTAGTCTGTTGGGCTAAATTTGGGTCTTTACACTCGTCACACAACCTTTTGAC
131 GGGCTTAGGGTTTTAGTCTGTTGGGCTAAATTTGGGTCTTTACACTCGTCACACAACCTTTTGAC
18610038 GTGAAATAGGATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAATCACGTTTTAAGCTGTA
196 GTGAAATAGGATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAATCACGTTTTAAGCTGTA
18610103 ATCATAACCACAGAAGCATCGCAATTTGCTATAATGAAACAGAATTTTAATTTGGAGGACGAGGG
261 ATCATAACCACAGAAGCATCGCAATTTGCTATAATGAAACAGAATTTTAATTTGGAGGACGAGGG
18610168 AAAACAATCAAGTGTCAAAAATAAGTTTTGACAACTACGTAACAGTCATGAACATAAATTCAACA
326 AAAACAATCAAGTGTCAAAAATAAGTTTTGACAACTACGTAACAGTCATGAACATAAATTCAACA
18610233 TGCAATTTTCATTAAGTGTTCTCTTTACATTTAGACTTAATCGATTTTACTATAAGTAAGGTAGG
391 TGCAATTTTCATTAAGTGTTCTCTTTACATTTAGACTTAATCGATTTTACTATAAGTAAGGTAGG
18610298 GTTAACTCTATCAGTTATAATTATTCA
456 GTTAACTCTATCAGTTATAATTATTCA
18610325 AGGCATAGAGTGGTGGAGGCAAGTGGATGTGCTGGTGGCAGACAACTGGTAGTGGCAGGCCAAGG
1 AGGCATAGAGTGGTGGAGGCAAGTGGATGTGCTGGTGGCAGACAACTGGTAGTGGCAGGCCAAGG
18610390 TGGGGCGGCGGCTAGGGTTCTTCTCCTCTTTTTTTTTTTTGCTGAAAATTGTTTAGGTTTGGGCT
66 TGGGGCGGCGGCTAGGGTTCTTCTCCTCTTTTTTTTTTTTGCTGAAAATTGTTTAGGTTTGGGCT
18610455 GGGCTTAGGGTTTTAGTCTGTTGGGCTAAATTTGGGTCTTTACACTCGTCACACAACCTTTTGAC
131 GGGCTTAGGGTTTTAGTCTGTTGGGCTAAATTTGGGTCTTTACACTCGTCACACAACCTTTTGAC
18610520 GTGAAATAGGATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAATCACGTTTTAAGCTGTA
196 GTGAAATAGGATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAATCACGTTTTAAGCTGTA
18610585 ATCATAACCACAGAAGCATCGCAATTTGCTATAATGAAACAGAATTTTAATTTGGAGGACGAGGG
261 ATCATAACCACAGAAGCATCGCAATTTGCTATAATGAAACAGAATTTTAATTTGGAGGACGAGGG
18610650 AAAACAATCAAGTGTCAAAAATAAGTTTTGACAACTACGTAACAGTCATGAACATAAATTCAACA
326 AAAACAATCAAGTGTCAAAAATAAGTTTTGACAACTACGTAACAGTCATGAACATAAATTCAACA
18610715 TGCAATTTTCATTAAGTGTTCTCTTTACATTTAGACTTAATCGATTTTACTATAAGTAAGGTAGG
391 TGCAATTTTCATTAAGTGTTCTCTTTACATTTAGACTTAATCGATTTTACTATAAGTAAGGTAGG
18610780 GTTAACTCTATCAGTTATAATTATTCA
456 GTTAACTCTATCAGTTATAATTATTCA
18610807 A
1 A
18610808 CCTAAAAGAA
Statistics
Matches: 480, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
481 91 0.19
482 389 0.81
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (482 bp):
AGGCATAGAGTGGTGGAGGCAAGTGGATGTGCTGGTGGCAGACAACTGGTAGTGGCAGGCCAAGG
TGGGGCGGCGGCTAGGGTTCTTCTCCTCTTTTTTTTTTTTGCTGAAAATTGTTTAGGTTTGGGCT
GGGCTTAGGGTTTTAGTCTGTTGGGCTAAATTTGGGTCTTTACACTCGTCACACAACCTTTTGAC
GTGAAATAGGATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAATCACGTTTTAAGCTGTA
ATCATAACCACAGAAGCATCGCAATTTGCTATAATGAAACAGAATTTTAATTTGGAGGACGAGGG
AAAACAATCAAGTGTCAAAAATAAGTTTTGACAACTACGTAACAGTCATGAACATAAATTCAACA
TGCAATTTTCATTAAGTGTTCTCTTTACATTTAGACTTAATCGATTTTACTATAAGTAAGGTAGG
GTTAACTCTATCAGTTATAATTATTCA
Found at i:18611309 original size:5 final size:5
Alignment explanation
Indices: 18611288--18611359 Score: 65
Period size: 5 Copynumber: 13.4 Consensus size: 5
18611278 ATCCAAACAG
*
18611288 AATAA AGTAA TAATAA AATAA AATAA AATAAA TAATAA AATAAA AATTAA
1 AATAA AATAA -AATAA AATAA AATAA AAT-AA -AATAA AAT-AA AA-TAA
*
18611338 GA-AA AATAA AATAAA AATAA AA
1 AATAA AATAA AAT-AA AATAA AA
18611360 ATTGGGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
4 3 0.05
5 29 0.52
6 20 0.36
7 4 0.07
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:18611314 original size:21 final size:22
Alignment explanation
Indices: 18611288--18611358 Score: 92
Period size: 21 Copynumber: 3.3 Consensus size: 22
18611278 ATCCAAACAG
18611288 AATAAAGTAATAATAAAAT-AA
1 AATAAAGTAATAATAAAATAAA
*
18611309 AATAAAATAAATAATAAAATAAA
1 AATAAAGT-AATAATAAAATAAA
* *
18611332 AATTAAG-AAAAATAAAATAAA
1 AATAAAGTAATAATAAAATAAA
18611353 AATAAA
1 AATAAA
18611359 AATTGGGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
21 25 0.58
22 11 0.26
23 7 0.16
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (22 bp):
AATAAAGTAATAATAAAATAAA
Found at i:18617645 original size:20 final size:19
Alignment explanation
Indices: 18617599--18617658 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
18617589 ATTAAATTCC
18617599 AAAAGATAAATACAA-ATAA
1 AAAAGATAAATA-AAGATAA
* *
18617618 ATAAGATAATTAAAGATAGA
1 AAAAGATAAATAAAGATA-A
18617638 AAAAGATAAATAAAGATAA
1 AAAAGATAAATAAAGATAA
18617657 AA
1 AA
18617659 GCTAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 2 0.06
19 16 0.46
20 17 0.49
ACGTcount: A:0.70, C:0.02, G:0.10, T:0.18
Consensus pattern (19 bp):
AAAAGATAAATAAAGATAA
Found at i:18617657 original size:10 final size:10
Alignment explanation
Indices: 18617600--18617657 Score: 68
Period size: 10 Copynumber: 5.9 Consensus size: 10
18617590 TTAAATTCCA
18617600 AAAGATAAAT
1 AAAGATAAAT
18617610 ACAA-ATAAAT
1 A-AAGATAAAT
*
18617620 -AAGATAATT
1 AAAGATAAAT
18617629 AAAGATAGAA-
1 AAAGATA-AAT
18617639 AAAGATAAAT
1 AAAGATAAAT
18617649 AAAGATAAA
1 AAAGATAAA
18617658 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 2 0.05
9 7 0.17
10 29 0.71
11 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:18625432 original size:19 final size:21
Alignment explanation
Indices: 18625410--18625456 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18625400 GGCCCGGTCT
18625410 TATAAT-TTTTTAAA-TAATA
1 TATAATATTTTTAAATTAATA
*
18625429 TATATTATTTTTAAATTAATA
1 TATAATATTTTTAAATTAATA
*
18625450 TTTAATA
1 TATAATA
18625457 AATTTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATAATATTTTTAAATTAATA
Found at i:18626058 original size:20 final size:20
Alignment explanation
Indices: 18626035--18626072 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18626025 AATAATTTTT
18626035 AAAATTCAAAATATTTATAA
1 AAAATTCAAAATATTTATAA
* *
18626055 AAAATTTAAAATTTTTAT
1 AAAATTCAAAATATTTAT
18626073 TTTTAAAAAA
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTCAAAATATTTATAA
Found at i:18626087 original size:9 final size:9
Alignment explanation
Indices: 18626075--18626129 Score: 67
Period size: 9 Copynumber: 5.8 Consensus size: 9
18626065 ATTTTTATTT
18626075 TTAAAAAAA
1 TTAAAAAAA
18626084 TTAAAAAAA
1 TTAAAAAAA
18626093 TCTAAAAAATA
1 T-TAAAAAA-A
18626104 TATAAAAAAA
1 T-TAAAAAAA
18626114 GTT-AAAAAA
1 -TTAAAAAAA
18626123 TTAAAAA
1 TTAAAAA
18626130 TTTTCTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
8 2 0.05
9 20 0.49
10 9 0.22
11 10 0.24
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:18626109 original size:21 final size:20
Alignment explanation
Indices: 18626075--18626123 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
18626065 ATTTTTATTT
18626075 TTAAAAAA-ATTAAAAAAA-
1 TTAAAAAATATTAAAAAAAG
18626093 TCTAAAAAATATATAAAAAAAG
1 T-TAAAAAATAT-TAAAAAAAG
18626115 TTAAAAAAT
1 TTAAAAAAT
18626124 TAAAAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 1 0.04
19 7 0.26
20 2 0.07
21 16 0.59
22 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
TTAAAAAATATTAAAAAAAG
Found at i:18633082 original size:24 final size:24
Alignment explanation
Indices: 18633055--18633134 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
18633045 TACCTTTGTT
18633055 TCAATAATTTCCTCCAAAGAATCA
1 TCAATAATTTCCTCCAAAGAATCA
*** * *
18633079 TCAATAATGTTCGCAGTATATAAT--
1 TCAATAAT-TTC-CTCCAAAGAATCA
18633103 TCAATAATTTCCTCCAAAGAATCA
1 TCAATAATTTCCTCCAAAGAATCA
18633127 TCAATAAT
1 TCAATAAT
18633135 GTTCGCAGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
22 6 0.14
23 3 0.07
24 24 0.57
25 3 0.07
26 6 0.14
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (24 bp):
TCAATAATTTCCTCCAAAGAATCA
Found at i:18633106 original size:48 final size:48
Alignment explanation
Indices: 18633054--18633152 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
18633044 CTACCTTTGT
18633054 TTCAATAATTTCCTCCAAAGAATCATCAATAATGTTCGCAGTATATAA
1 TTCAATAATTTCCTCCAAAGAATCATCAATAATGTTCGCAGTATATAA
18633102 TTCAATAATTTCCTCCAAAGAATCATCAATAATGTTCGCAGTATATAA
1 TTCAATAATTTCCTCCAAAGAATCATCAATAATGTTCGCAGTATATAA
18633150 TTC
1 TTC
18633153 TTCCATTCGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.34
Consensus pattern (48 bp):
TTCAATAATTTCCTCCAAAGAATCATCAATAATGTTCGCAGTATATAA
Found at i:18634605 original size:31 final size:31
Alignment explanation
Indices: 18634570--18634632 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
18634560 AAGCAATAAA
18634570 CACTTCTTTCTTTGCTAAAATGAGTTTTTTT
1 CACTTCTTTCTTTGCTAAAATGAGTTTTTTT
18634601 CACTTCTTTCTTTGCTAAAATGAGTTTTTTT
1 CACTTCTTTCTTTGCTAAAATGAGTTTTTTT
18634632 C
1 C
18634633 TTTTATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.54
Consensus pattern (31 bp):
CACTTCTTTCTTTGCTAAAATGAGTTTTTTT
Done.