Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold322
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: 1390506
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 9
Found at i:1842 original size:20 final size:18
Alignment explanation
Indices: 1817--1867 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
1807 GTTTGAGGCA
*
1817 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATGC--C
*
1837 ATGTATCGATA-TATGCC
1 ATGTATCGATACAATGCC
1854 ATGTATCGATACAA
1 ATGTATCGATACAA
1868 ATAGTGGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 12 0.44
18 1 0.04
19 3 0.11
20 11 0.41
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (18 bp):
ATGTATCGATACAATGCC
Found at i:1955 original size:13 final size:13
Alignment explanation
Indices: 1937--1961 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1927 ACAATAAACA
1937 TGTATCGATACAT
1 TGTATCGATACAT
1950 TGTATCGATACA
1 TGTATCGATACA
1962 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2889 original size:19 final size:19
Alignment explanation
Indices: 2865--2923 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
2855 TTTTACATAT
2865 GATAATAATTTATATAATA
1 GATAATAATTTATATAATA
* *
2884 GATAATATACTTTATGTAACA
1 GATAATA-A-TTTATATAATA
*
2905 -ATTAATATTTTATATAATA
1 GA-TAATAATTTATATAATA
2924 TTACTTTCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 16 0.50
20 2 0.06
21 14 0.44
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (19 bp):
GATAATAATTTATATAATA
Found at i:3548 original size:13 final size:13
Alignment explanation
Indices: 3530--3556 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3520 ACATGCTATT
3530 TTGTATCGATACA
1 TTGTATCGATACA
3543 TTGTATCGATACA
1 TTGTATCGATACA
3556 T
1 T
3557 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3645 original size:13 final size:13
Alignment explanation
Indices: 3627--3652 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3617 CATGGTATAA
3627 TGTATCGATACAT
1 TGTATCGATACAT
3640 TGTATCGATACAT
1 TGTATCGATACAT
3653 GAAGAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3651 original size:33 final size:32
Alignment explanation
Indices: 3609--3672 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 32
3599 TCACTATTTA
3609 TATCGATACATG-GTATAATGTATCGATACATTG
1 TATCGATACATGAG-A-AATGTATCGATACATTG
3642 TATCGATACATGAAGAAATGTATCGATACAT
1 TATCGATACATG-AGAAATGTATCGATACAT
3673 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (32 bp):
TATCGATACATGAGAAATGTATCGATACATTG
Found at i:5892 original size:21 final size:21
Alignment explanation
Indices: 5868--5908 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5858 TGATATTAAA
* *
5868 GAATTAGCTAATAAAAATAAT
1 GAATTAACTAAGAAAAATAAT
5889 GAATTAACTAAGAAAAATAA
1 GAATTAACTAAGAAAAATAA
5909 AAACTTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
GAATTAACTAAGAAAAATAAT
Found at i:10242 original size:13 final size:13
Alignment explanation
Indices: 10224--10249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10214 CATGGGACAA
10224 TGTATCGATACAT
1 TGTATCGATACAT
10237 TGTATCGATACAT
1 TGTATCGATACAT
10250 GAGGAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:10245 original size:33 final size:34
Alignment explanation
Indices: 10203--10272 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
10193 CTATCACTAT
10203 TTGTATCGATACATG-GGACAA-TGTATCGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
* *
10236 TTGTATCGATACATGAGGAAATTGTATTGATAGA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
10270 TTG
1 TTG
10273 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:11192 original size:97 final size:97
Alignment explanation
Indices: 11062--11257 Score: 277
Period size: 97 Copynumber: 2.0 Consensus size: 97
11052 CATGTCCTTA
* * * *
11062 ATGGTGATAATTTAAGCAAAAATAAGATCTAAATCTTGACGAGTTTAAACATGGGATTAAAGTTT
1 ATGGTGATAATTAAAGCAAAAATAAGATCTAAATCTTGACGAGTTTAAAAAAGGGATTAAAGTAT
* *
11127 CCTCTCGGAAGAA-TGGGGTTAGAGTATCCCCG
66 CCTCTCGGAA-AATTGAGGTTACAGTATCCCCG
* * *
11159 ATGGTGATAATTAAAGCAAAAATAAGATTTAAATCTTGACGAGTTTAAAAAAGGGGTTCAAGTAT
1 ATGGTGATAATTAAAGCAAAAATAAGATCTAAATCTTGACGAGTTTAAAAAAGGGATTAAAGTAT
* *
11224 CCTCTTGGAAAATTGAGGTTACAGTATCCTCG
66 CCTCTCGGAAAATTGAGGTTACAGTATCCCCG
11256 AT
1 AT
11258 AAATAAAATT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 2 0.02
97 85 0.98
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (97 bp):
ATGGTGATAATTAAAGCAAAAATAAGATCTAAATCTTGACGAGTTTAAAAAAGGGATTAAAGTAT
CCTCTCGGAAAATTGAGGTTACAGTATCCCCG
Found at i:13667 original size:19 final size:19
Alignment explanation
Indices: 13622--13667 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13612 TACCATAATT
* *
13622 TATGTAAATAAATAATATA
1 TATGTAATTAAATAATAAA
13641 TATGTAATTATAATAA-AAA
1 TATGTAATTA-AATAATAAA
13660 TATGTAAT
1 TATGTAAT
13668 ATTGATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (19 bp):
TATGTAATTAAATAATAAA
Found at i:14751 original size:13 final size:13
Alignment explanation
Indices: 14711--14763 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
14701 CCGTTACAAG
14711 CAATGTATCGATA
1 CAATGTATCGATA
14724 CAA--T-TC-AT-
1 CAATGTATCGATA
14732 C-ATGTATCGATA
1 CAATGTATCGATA
14744 CAATGTATCGATA
1 CAATGTATCGATA
*
14757 AAATGTA
1 CAATGTA
14764 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:14751 original size:33 final size:33
Alignment explanation
Indices: 14711--14779 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
14701 CCGTTACAAG
* *
14711 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATAAAATGT-ACCATGTATCGATA
14744 CAATGTATCGATAAAATGTACCATGTATCGATA
1 CAATGTATCGATAAAATGTACCATGTATCGATA
14777 CAA
1 CAA
14780 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATAAAATGTACCATGTATCGATA
Found at i:17336 original size:13 final size:13
Alignment explanation
Indices: 17317--17356 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
17307 ATAGTAACCC
17317 ATGTATCGATACA
1 ATGTATCGATACA
*
17330 TTGTATCGATACA
1 ATGTATCGATACA
*
17343 ATGTATCGAAACA
1 ATGTATCGATACA
17356 A
1 A
17357 GAAATATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:22911 original size:20 final size:19
Alignment explanation
Indices: 22886--22956 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
22876 TGCCAGTTTC
* *
22886 ATGTATCGATACAATTATCT
1 ATGTATCGATACAATGA-AT
22906 ATGTATCGATACAATGAAT
1 ATGTATCGATACAATGAAT
* * *
22925 ATGTACCGATACAAAGCAT
1 ATGTATCGATACAATGAAT
22944 AATGTATCGATAC
1 -ATGTATCGATAC
22957 TTCTGGGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.39
20 27 0.61
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAAT
Found at i:24285 original size:224 final size:229
Alignment explanation
Indices: 23924--24342 Score: 713
Period size: 224 Copynumber: 1.8 Consensus size: 229
23914 ATGTCTTCTC
23924 CTCATATAAAATAAAATATAATATATAATTAAATTTATATTTATATACTAAATTATAAAAATATC
1 CTCATATAAAATAAAATATAATATATAATTAAA-TTATA-TTATATACTAAATTATAAAAATATC
*
23989 ATTTAGAAAAAGCTTTGCAAAAAAGAAAAAAATCCTACTCTCATACTCATATAACCAACTTTTAA
64 ATTTAGAAAAAACTTTGCAAAAAAGAAAAAAATCCTACTCTCATACTCATATAACCAACTTTTAA
24054 TGGTATATATTTTAAGGATAAAATGATAATTTAATATTAAAATATTAAAAATATATGTAAAAAAT
129 TGGTATATATTTTAAGGATAAAATGATAATTTAATATTAAAATATTAAAAATATATGTAAAAAAT
24119 GATAATCTCCCTTTCAAATATGATTGGATTTTTTTA
194 GATAATCTCCCTTTCAAATATGATTGGATTTTTTTA
* *
24155 CTCATTTAAAATAAAATATAATATATAATTAAA-TATA-TATATACTAAATTATAAAAATATTAT
1 CTCATATAAAATAAAATATAATATATAATTAAATTATATTATATACTAAATTATAAAAATATCAT
* * * *
24218 TTAGAAAAAACTTTGC-AAAAAG-AAAAAAT-TTACTCTCATATTTATATAACCAACTTTTAGTG
66 TTAGAAAAAACTTTGCAAAAAAGAAAAAAATCCTACTCTCATACTCATATAACCAACTTTTAATG
*
24280 GTATATATTTTAAGGGTAAAATGATAATTTAATATTAAAATATTAAAAATATATGTAAAAAAT
131 GTATATATTTTAAGGATAAAATGATAATTTAATATTAAAATATTAAAAATATATGTAAAAAAT
24343 AAAAAACTCT
Statistics
Matches: 180, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
224 91 0.51
225 7 0.04
226 6 0.03
227 40 0.22
229 4 0.02
231 32 0.18
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (229 bp):
CTCATATAAAATAAAATATAATATATAATTAAATTATATTATATACTAAATTATAAAAATATCAT
TTAGAAAAAACTTTGCAAAAAAGAAAAAAATCCTACTCTCATACTCATATAACCAACTTTTAATG
GTATATATTTTAAGGATAAAATGATAATTTAATATTAAAATATTAAAAATATATGTAAAAAATGA
TAATCTCCCTTTCAAATATGATTGGATTTTTTTA
Found at i:24645 original size:16 final size:16
Alignment explanation
Indices: 24624--24675 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
24614 ATTTTATATT
*
24624 TAAATAAAGATTTTAA
1 TAAATAAATATTTTAA
*
24640 TAAATAAATATATTAA
1 TAAATAAATATTTTAA
*
24656 -AAATAATATATTATAA
1 TAAATAA-ATATTTTAA
24672 TAAA
1 TAAA
24676 ATTTTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 6 0.20
16 21 0.70
17 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAATAAATATTTTAA
Found at i:24852 original size:16 final size:15
Alignment explanation
Indices: 24808--24917 Score: 94
Period size: 16 Copynumber: 6.9 Consensus size: 15
24798 TCTAATTTAA
**
24808 AAAAAATTTAAACTCA
1 AAAAAATTTAAA-TTT
24824 AAAAAATTTAAATTT
1 AAAAAATTTAAATTT
24839 AAAAATATTTAAATCTT
1 AAAAA-ATTTAAAT-TT
* *
24856 AATAAATATAAATCTT
1 AAAAAATTTAAAT-TT
* *
24872 AATAAATTTACACTTT
1 AAAAAATTTA-AATTT
24888 AAAAAATTTTAAATTT
1 AAAAAA-TTTAAATTT
*
24904 AAAATAATTAAAAT
1 AAAA-AATTTAAAT
24918 AAAATAATCC
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
15 6 0.08
16 60 0.75
17 14 0.17
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAAATTTAAATTT
Found at i:25121 original size:3 final size:3
Alignment explanation
Indices: 25113--25161 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
25103 CTTTCGTTCT
*
25113 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TATA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
25158 TTA T
1 TTA T
25162 AAACTGCTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30370 original size:30 final size:30
Alignment explanation
Indices: 30251--30370 Score: 204
Period size: 30 Copynumber: 4.0 Consensus size: 30
30241 ATTTAAATCC
* * *
30251 CTTAAATTAAAGACTAGTGCACCACTATCC
1 CTTAGATTAAGGACTAGTGCACCACTATCT
*
30281 CTTAGATTAAGGACTAGTGCATCACTATCT
1 CTTAGATTAAGGACTAGTGCACCACTATCT
30311 CTTAGATTAAGGACTAGTGCACCACTATCT
1 CTTAGATTAAGGACTAGTGCACCACTATCT
30341 CTTAGATTAAGGACTAGTGCACCACTATCT
1 CTTAGATTAAGGACTAGTGCACCACTATCT
30371 AATTTAAATC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (30 bp):
CTTAGATTAAGGACTAGTGCACCACTATCT
Found at i:30421 original size:6 final size:6
Alignment explanation
Indices: 30410--30435 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30400 TTCTTAAACC
30410 TTACAT TTACAT TTACAT TTACAT TT
1 TTACAT TTACAT TTACAT TTACAT TT
30436 CAACAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (6 bp):
TTACAT
Found at i:30489 original size:15 final size:16
Alignment explanation
Indices: 30469--30502 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30459 ATATTTAAAT
30469 TAAAATA-TAATTTAA
1 TAAAATATTAATTTAA
*
30484 TAAAATATTAATTTGA
1 TAAAATATTAATTTAA
30500 TAA
1 TAA
30503 TAATTAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAAATATTAATTTAA
Found at i:31319 original size:189 final size:194
Alignment explanation
Indices: 30969--31346 Score: 577
Period size: 189 Copynumber: 2.0 Consensus size: 194
30959 GATATTTATA
* * *
30969 CTTATTAAATTAACTTTTCTATTATATAATGATATTGTATAATATTGCAATTGGATATTATATTT
1 CTTATTAAATTAACTTTTCTATTATATAATGACATTATATAATATTGAAATTGG----TATATTT
* *
31034 AAGTAATTATTTATAATGATAATATATTAAAAATTATTAGACTTAGCAATTTTAGACACGACATG
62 AAGTAATTATTTATAATGATAATATATTAAAAATTATTAGACCTAGCAATTTTAAACACGACATG
* * * * *
31099 AAAGCGCGACATGCTTTAATCGTGTATGGGCTTTATGTAATCGTGTA-TGTGTCATAATCGTCTC
127 AAAACGCAACATGCTTTAACCGTGTATGGGCTTTATGTAATCATGTATTGTGCCATAATCGTCTC
31163 GAT
192 GAT
*
31166 CTTATTTAATTAACTTTTCTATTATATAATGACATTATATAATATTGAAATTGG-ATA-TTAA-T
1 CTTATTAAATTAACTTTTCTATTATATAATGACATTATATAATATTGAAATTGGTATATTTAAGT
*
31228 AATTATTTATAATGATAATATATT-AAAATTATTAGACCTAGCAATTTTAAACACGATATGAAAA
66 AATTATTTATAATGATAATATATTAAAAATTATTAGACCTAGCAATTTTAAACACGACATGAAAA
31292 CGCAACATGCTTTAACCGTGTATGGGCTTTATGTAATCATGTATTGTGCCATAAT
131 CGCAACATGCTTTAACCGTGTATGGGCTTTATGTAATCATGTATTGTGCCATAAT
31347 TGTGTTGATA
Statistics
Matches: 168, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
189 76 0.45
190 35 0.21
191 4 0.02
192 3 0.02
197 50 0.30
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (194 bp):
CTTATTAAATTAACTTTTCTATTATATAATGACATTATATAATATTGAAATTGGTATATTTAAGT
AATTATTTATAATGATAATATATTAAAAATTATTAGACCTAGCAATTTTAAACACGACATGAAAA
CGCAACATGCTTTAACCGTGTATGGGCTTTATGTAATCATGTATTGTGCCATAATCGTCTCGAT
Found at i:32625 original size:22 final size:21
Alignment explanation
Indices: 32597--32637 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
32587 TTACTCAAAG
*
32597 AAAAAAATTGAAATTAGAAATT
1 AAAAAAATTAAAATT-GAAATT
32619 AAAAAAATTAAAATTGAAA
1 AAAAAAATTAAAATTGAAA
32638 AAGCAATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAAAAATTAAAATTGAAATT
Found at i:32628 original size:16 final size:16
Alignment explanation
Indices: 32607--32639 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32597 AAAAAAATTG
32607 AAATTAGAAATT-AAAA
1 AAATTA-AAATTGAAAA
32623 AAATTAAAATTGAAAA
1 AAATTAAAATTGAAAA
32639 A
1 A
32640 GCAATGGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAATTAAAATTGAAAA
Found at i:32638 original size:15 final size:16
Alignment explanation
Indices: 32607--32639 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
32597 AAAAAAATTG
32607 AAATTAGAAATTAAAA
1 AAATTAGAAATTAAAA
*
32623 AAATTA-AAATTGAAA
1 AAATTAGAAATTAAAA
32638 AA
1 AA
32640 GCAATGGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAATTAGAAATTAAAA
Found at i:45904 original size:16 final size:16
Alignment explanation
Indices: 45885--45917 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45875 TTTAAATACG
45885 ACAAAATTAAAATCAT
1 ACAAAATTAAAATCAT
*
45901 ACAAAATTAACATCAT
1 ACAAAATTAAAATCAT
45917 A
1 A
45918 TTAACAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (16 bp):
ACAAAATTAAAATCAT
Found at i:46502 original size:5 final size:5
Alignment explanation
Indices: 46492--46542 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
46482 AACTACTTAA
**
46492 AAAAT AAAAT AAAAT AAAAT AAAA- AATTT AAAAT AAAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT
46543 TAATAATCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
4 2 0.05
5 27 0.68
6 11 0.28
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:46516 original size:6 final size:6
Alignment explanation
Indices: 46491--46541 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
46481 AAACTACTTA
*
46491 AAAAAT -AAAAT -AAAAT -AAAAT AAAAAATT TAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAA-T AAAAAT AAAAAT AAAAAT
46538 AAAA
1 AAAA
46542 TTAATAATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
5 15 0.38
6 16 0.40
7 8 0.20
8 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:46525 original size:14 final size:14
Alignment explanation
Indices: 46492--46530 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
46482 AACTACTTAA
46492 AAAATAAAATAAAAT
1 AAAATAAAA-AAAAT
**
46507 AAAATAAAAAATTT
1 AAAATAAAAAAAAT
46521 AAAATAAAAA
1 AAAATAAAAA
46531 TAAAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:50468 original size:20 final size:21
Alignment explanation
Indices: 50442--50498 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
50432 GTTAGGCTCA
50442 ATGTATCGATACAATGC-ACT
1 ATGTATCGATACAATGCAACT
* * *
50462 GTGTATCGATACAATTCAAGT
1 ATGTATCGATACAATGCAACT
50483 ATGTATCGATACAATG
1 ATGTATCGATACAATG
50499 TATCGATACT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACAATGCAACT
Found at i:50501 original size:13 final size:13
Alignment explanation
Indices: 50483--50507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50473 CAATTCAAGT
50483 ATGTATCGATACA
1 ATGTATCGATACA
50496 ATGTATCGATAC
1 ATGTATCGATAC
50508 TTAGTGAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:50598 original size:32 final size:33
Alignment explanation
Indices: 50557--50619 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
50547 CTTTTCAAGG
* *
50557 TGTATCGATACTATG-AACATGTATCTATACTA
1 TGTATCGATACTAGGCAACATGTATCAATACTA
*
50589 TGTATCGATACTAGGCAATATGTATCAATAC
1 TGTATCGATACTAGGCAACATGTATCAATAC
50620 ATCTGGGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACTAGGCAACATGTATCAATACTA
Found at i:53713 original size:33 final size:33
Alignment explanation
Indices: 53666--53768 Score: 188
Period size: 33 Copynumber: 3.1 Consensus size: 33
53656 ATACATTGTT
53666 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
53699 CATTGTATCAATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
53732 CATTGTATCGATACATTGCTCATTGTATCGAAA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
53765 CATT
1 CATT
53769 TTATAAAGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:53722 original size:20 final size:20
Alignment explanation
Indices: 53648--53768 Score: 117
Period size: 20 Copynumber: 6.8 Consensus size: 20
53638 TTTTCACACT
*
53648 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGCTCA
53668 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGCTCA
53688 TTGTATCGAT--A-----CA
1 TTGTATCGATACATTGCTCA
*
53701 TTGTATCAATACATTGCTCA
1 TTGTATCGATACATTGCTCA
53721 TTGTATCGAT--A-----CA
1 TTGTATCGATACATTGCTCA
53734 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGCTCA
*
53754 TTGTATCGAAACATT
1 TTGTATCGATACATT
53769 TTATAAAGTA
Statistics
Matches: 83, Mismatches: 4, Indels: 28
0.72 0.03 0.24
Matches are distributed among these distances:
13 23 0.28
15 2 0.02
18 2 0.02
20 56 0.67
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATTGCTCA
Found at i:53768 original size:13 final size:13
Alignment explanation
Indices: 53686--53749 Score: 77
Period size: 13 Copynumber: 5.4 Consensus size: 13
53676 ATACATTGCT
53686 CATTGTATCGATA
1 CATTGTATCGATA
*
53699 CATTGTATCAATA
1 CATTGTATCGATA
53712 CATTG---C--T-
1 CATTGTATCGATA
53719 CATTGTATCGATA
1 CATTGTATCGATA
53732 CATTGTATCGATA
1 CATTGTATCGATA
53745 CATTG
1 CATTG
53750 CTCATTGTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
7 5 0.11
8 1 0.02
10 2 0.05
12 1 0.02
13 35 0.80
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:56153 original size:51 final size:51
Alignment explanation
Indices: 56091--56206 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
56081 GTTATTTCCG
* *
56091 AGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATT
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAA-T
* *
56143 A-GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAAT
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAAT
56193 AGGGGATACTCCAA
1 AGGGGATACTCCAA
56207 TCTAGTTATT
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 2 0.03
51 56 0.95
52 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (51 bp):
AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAAT
Found at i:56378 original size:78 final size:79
Alignment explanation
Indices: 56144--56435 Score: 306
Period size: 79 Copynumber: 3.7 Consensus size: 79
56134 TCCACAATTA
* * * *
56144 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAAT-AGGGGATACTCCAA-
1 GGGATACTCCAACCCCGATTTTATTTTCAAAATATCAATTTTTCACAATCA-GGGATACTCCAAC
* * *
56207 TCTAGTTATTTCCAAG
65 CCT-GTTATTTTCGAG
* *** *
56223 GGGATACTTCAACCCCGGCCTTA-TTTCTAAATCATCAATTTTTCACAATC-GAGGATACTCCAA
1 GGGATACTCCAACCCCGATTTTATTTTCAAAAT-ATCAATTTTTCACAATCAG-GGATACTCCAA
*
56286 CCCCGTTATTTTCGAG
64 CCCTGTTATTTTCGAG
* * * *
56302 GGGATACTCCAACCCCGATTTCATTTTCAAAATATCGATTTTT-ATAATCAGGGATACTCTAACC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAATATCAATTTTTCACAATCAGGGATACTCCAACC
56366 CTGTTATTTTCGAG
66 CTGTTATTTTCGAG
*** * * *
56380 GGGATACTCCAACCCCGATTTTATTTTTGGAACACCAATTTTTCATAATCAGGGAT
1 GGGATACTCCAACCCCGATTTTATTTTCAAAATATCAATTTTTCACAATCAGGGAT
56436 GTTAGGATCT
Statistics
Matches: 176, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
78 73 0.41
79 94 0.53
80 9 0.05
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAATATCAATTTTTCACAATCAGGGATACTCCAACC
CTGTTATTTTCGAG
Found at i:59102 original size:21 final size:21
Alignment explanation
Indices: 59069--59113 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
59059 TTGCAAGTTG
*
59069 AAATAAAGAAGTTGGCTAAAGA
1 AAATAAAGAAGTTAGCT-AAGA
*
59091 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
59111 AAA
1 AAA
59114 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.20
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:63044 original size:13 final size:13
Alignment explanation
Indices: 63026--63064 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
63016 ACATTTTTCT
63026 TTGTATCGATACA
1 TTGTATCGATACA
*
63039 TTGTATCGATGCA
1 TTGTATCGATACA
63052 TTGTATCGATACA
1 TTGTATCGATACA
63065 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:65618 original size:13 final size:13
Alignment explanation
Indices: 65600--65625 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65590 TACAGCAAGT
65600 ATGTATCGATACA
1 ATGTATCGATACA
65613 ATGTATCGATACA
1 ATGTATCGATACA
65626 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:72774 original size:15 final size:15
Alignment explanation
Indices: 72754--72784 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
72744 ATTTCGTTTG
*
72754 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
72769 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
72784 G
1 G
72785 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:76856 original size:19 final size:20
Alignment explanation
Indices: 76814--76865 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 20
76804 TACAGGCCAA
76814 TGTATCGATACAACTTTATG
1 TGTATCGATACAACTTTATG
76834 TGTATCGATACATAC-TT-TG
1 TGTATCGATACA-ACTTTATG
76853 TGTATCGATACAA
1 TGTATCGATACAA
76866 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.03
19 14 0.45
20 14 0.45
21 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAACTTTATG
Found at i:77836 original size:33 final size:33
Alignment explanation
Indices: 77798--78073 Score: 144
Period size: 33 Copynumber: 8.8 Consensus size: 33
77788 CCTTTCCTAA
77798 AAGTCCACTACTCAGTGGCATCCTTTTTCTTCT
1 AAGTCCACTACTCAGTGGCATCCTTTTTCTTCT
* * * *
77831 AAGTCCA-TGACTCATTGGCA-CC--CTTC-CCA
1 AAGTCCACT-ACTCAGTGGCATCCTTTTTCTTCT
* * *
77860 AAGTTCACGACTCAATGGCAT-CTCTTTTC--C-
1 AAGTCCACTACTCAGTGGCATCCT-TTTTCTTCT
* *
77890 AAGTCCACGACTCAGTGGTATCCTTTTTCTTCT
1 AAGTCCACTACTCAGTGGCATCCTTTTTCTTCT
** * *
77923 AAAACCA-TGACTCAGTGGCAT--ATTTT-TTCC
1 AAGTCCACT-ACTCAGTGGCATCCTTTTTCTTCT
* **
77953 AAGACCACTACTCAGTGGCATCCTTTTTCTTAA
1 AAGTCCACTACTCAGTGGCATCCTTTTTCTTCT
* *
77986 AAGTCCACAACTCCA-TGGCAT-CTTTTCCATT-T
1 AAGTCCACTACT-CAGTGGCATCCTTTTTC-TTCT
*
78018 AAGTCCAC-AGCTCTGTGGCA--CTTTTTCCTT-T
1 AAGTCCACTA-CTCAGTGGCATCCTTTTT-CTTCT
* *
78049 AAGCCCACAACTCCA-TGGCATCCTT
1 AAGTCCACTACT-CAGTGGCATCCTT
78074 CTAAGTCCAT
Statistics
Matches: 190, Mismatches: 29, Indels: 48
0.71 0.11 0.18
Matches are distributed among these distances:
29 18 0.09
30 47 0.25
31 32 0.17
32 35 0.18
33 56 0.29
34 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (33 bp):
AAGTCCACTACTCAGTGGCATCCTTTTTCTTCT
Found at i:77888 original size:62 final size:60
Alignment explanation
Indices: 77783--77903 Score: 138
Period size: 62 Copynumber: 2.0 Consensus size: 60
77773 CATGACTTCG
* * * *
77783 TGGCACCTTTCCTAAAAGTCCACTACTCAGTGGCATCCTTTTTCTTCTAAGTCCATGACTCAT
1 TGGCACCCTTCCTAAAAGTCCACGACTCAATGGCATCCTTTTTC--C-AAGTCCACGACTCAT
* *
77846 TGGCACCCTTCC-CAAAGTTCACGACTCAATGGCAT-CTCTTTTCCAAGTCCACGACTCA
1 TGGCACCCTTCCTAAAAGTCCACGACTCAATGGCATCCT-TTTTCCAAGTCCACGACTCA
77904 GTGGTATCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
59 13 0.25
60 1 0.02
61 2 0.04
62 24 0.47
63 11 0.22
ACGTcount: A:0.23, C:0.33, G:0.13, T:0.31
Consensus pattern (60 bp):
TGGCACCCTTCCTAAAAGTCCACGACTCAATGGCATCCTTTTTCCAAGTCCACGACTCAT
Found at i:77901 original size:30 final size:30
Alignment explanation
Indices: 77782--78176 Score: 142
Period size: 30 Copynumber: 13.0 Consensus size: 30
77772 CCATGACTTC
*
77782 GTGGCA-CC-TTTCCTAAAAGTCCACTACTCA
1 GTGGCATCCTTTTCCT--AAGTCCACGACTCA
*
77812 GTGGCATCCTTTTTCTTCTAAGTCCATGACTCA
1 GTGGCATCC-TTTTC--CTAAGTCCACGACTCA
* * * * *
77845 TTGGCA-CCCTTCCCAAAGTTCACGACTCA
1 GTGGCATCCTTTTCCTAAGTCCACGACTCA
*
77874 ATGGCATCTCTTTTCC-AAGTCCACGACTCA
1 GTGGCATC-CTTTTCCTAAGTCCACGACTCA
* ** *
77904 GTGGTATCCTTTTTCTTCTAAAACCATGACTCA
1 GTGGCATCC-TTTTC--CTAAGTCCACGACTCA
** * *
77937 GTGGCATATTTTTTCC-AAGACCACTACTCA
1 GTGGCAT-CCTTTTCCTAAGTCCACGACTCA
* *
77967 GTGGCATCCTTTTTCTTAAAAGTCCACAACTCCA
1 GTGGCATCC-TTTTCCT--AAGTCCACGACT-CA
*
78001 -TGGCAT-CTTTTCCATTTAAGTCCAC-AGCTCT
1 GTGGCATCCTTTTCC---TAAGTCCACGA-CTCA
* * *
78032 GTGGCA-CTTTTTCCTTTAAGCCCACAACTCCA
1 GTGGCATCCTTTTCC--TAAGTCCACGACT-CA
** **
78064 -TGGCATCC--TT-CTAAGTCCATAACTTT
1 GTGGCATCCTTTTCCTAAGTCCACGACTCA
* * *
78090 GTGGCA-CC-CTT-CAAAGTCCATGACTCA
1 GTGGCATCCTTTTCCTAAGTCCACGACTCA
* * *
78117 GTGGCAT-CTCTTCTATAAGTCCATGACTCA
1 GTGGCATCCTTTTC-CTAAGTCCACGACTCA
* *
78147 GTGGCAT-TTTTTCTTCTAAGTCCACAACTC
1 GTGGCATCCTTTTC--CTAAGTCCACGACTC
78177 TGAAGCACCT
Statistics
Matches: 283, Mismatches: 49, Indels: 65
0.71 0.12 0.16
Matches are distributed among these distances:
26 2 0.01
27 37 0.13
28 3 0.01
29 20 0.07
30 81 0.29
31 48 0.17
32 28 0.10
33 59 0.21
34 3 0.01
35 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (30 bp):
GTGGCATCCTTTTCCTAAGTCCACGACTCA
Found at i:78005 original size:63 final size:65
Alignment explanation
Indices: 77859--78011 Score: 181
Period size: 63 Copynumber: 2.4 Consensus size: 65
77849 CACCCTTCCC
* * * * *
77859 AAAGTTCACGACTCAATGGCATCTCTTTTCCAAGTCCACGACTCAGTGGTATCCTTTTTCTTCTA
1 AAAGTCCACGACTCCATGGCATCTTTTTTCCAAGACCACGACTCAGTGGCATCCTTTTTCTTCTA
* * *
77924 AAA--CCATGACT-CAGTGGCATATTTTTTCCAAGACCACTACTCAGTGGCATCCTTTTTC-T-T
1 AAAGTCCACGACTCCA-TGGCATCTTTTTTCCAAGACCACGACTCAGTGGCATCCTTTTTCTTCT
77984 A
65 A
*
77985 AAAGTCCACAACTCCATGGCATCTTTT
1 AAAGTCCACGACTCCATGGCATCTTTT
78012 CCATTTAAGT
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
61 5 0.07
62 2 0.03
63 61 0.84
64 2 0.03
65 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.34
Consensus pattern (65 bp):
AAAGTCCACGACTCCATGGCATCTTTTTTCCAAGACCACGACTCAGTGGCATCCTTTTTCTTCTA
Found at i:78022 original size:32 final size:31
Alignment explanation
Indices: 77968--78410 Score: 169
Period size: 32 Copynumber: 14.4 Consensus size: 31
77958 CACTACTCAG
* *
77968 TGGCATCCTTTTTCTTAAAAGTCCACAACTCCA
1 TGGCAT-CTTTTCCTT-TAAGTCCACAACTCCA
* **
78001 TGGCATCTTTTCCATTTAAGTCCACAGCTCTG
1 TGGCATCTTTTCC-TTTAAGTCCACAACTCCA
*
78033 TGGCA-CTTTTTCCTTTAAGCCCACAACTCCA
1 TGGCATC-TTTTCCTTTAAGTCCACAACTCCA
* * ***
78064 TGGCATC-CTT-C--TAAGTCCATAACTTTG
1 TGGCATCTTTTCCTTTAAGTCCACAACTCCA
* **
78091 TGGCA-C----CCTTCAAAGTCCATGACT-CA
1 TGGCATCTTTTCCTT-TAAGTCCACAACTCCA
* * **
78117 GTGGCATCTCTT-CTATAAGTCCATGACT-CA
1 -TGGCATCTTTTCCTTTAAGTCCACAACTCCA
*
78147 GTGGCAT-TTTTTCTTCTAAGTCCACAACT-C-
1 -TGGCATCTTTTCCTT-TAAGTCCACAACTCCA
* * * * *
78177 TGAAGCACCTTTTCCTTTTAAATCCATAACTTCG
1 TG--GCATCTTTTCC-TTTAAGTCCACAACTCCA
* *
78211 TGGCACCCTTTTTCCTTTTAAATCCACAACTCCA
1 TGGCA-TC-TTTTCC-TTTAAGTCCACAACTCCA
*
78245 TGGCACCTTTTCCTTTTAAGTCCACAACTCCA
1 TGGCATCTTTTCC-TTTAAGTCCACAACTCCA
* * *
78277 TGGCA-C----CCTTCAAAGTCCACAATTCCG
1 TGGCATCTTTTCCTT-TAAGTCCACAACTCCA
* ** **
78304 TGGCATCTCTT-CTCCAAGTCCACAA-TTTA
1 TGGCATCTTTTCCTTTAAGTCCACAACTCCA
* *
78333 GTGGCGTCCTTTTTCTTTTAAGTCCACAACTCCA
1 -TGGCAT-C-TTTTCCTTTAAGTCCACAACTCCA
* *
78367 TGGCA-CATTTTCCTTTTTAGGTCCACAACTCCG
1 TGGCATC-TTTTCC--TTTAAGTCCACAACTCCA
78400 TGGCATCTTTT
1 TGGCATCTTTT
78411 TCTGCTTTTT
Statistics
Matches: 320, Mismatches: 53, Indels: 74
0.72 0.12 0.17
Matches are distributed among these distances:
24 1 0.00
26 3 0.01
27 52 0.16
28 2 0.01
29 7 0.02
30 40 0.12
31 47 0.15
32 81 0.25
33 55 0.17
34 32 0.10
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.35
Consensus pattern (31 bp):
TGGCATCTTTTCCTTTAAGTCCACAACTCCA
Found at i:78087 original size:27 final size:27
Alignment explanation
Indices: 78043--78153 Score: 100
Period size: 27 Copynumber: 4.0 Consensus size: 27
78033 TGGCACTTTT
* *
78043 TCCTT-TAAGCCCACAACTCCA-TGGCA
1 TCCTTCTAAGTCCATAACT-CAGTGGCA
**
78069 TCCTTCTAAGTCCATAACTTTGTGGCA
1 TCCTTCTAAGTCCATAACTCAGTGGCA
* * *
78096 CCCTTCAAAGTCCATGACTCAGTGGCA
1 TCCTTCTAAGTCCATAACTCAGTGGCA
*
78123 TCTCTTCTATAAGTCCATGACTCAGTGGCA
1 TC-CTTC--TAAGTCCATAACTCAGTGGCA
78153 T
1 T
78154 TTTTTCTTCT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.07
27 39 0.57
28 4 0.06
30 21 0.30
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (27 bp):
TCCTTCTAAGTCCATAACTCAGTGGCA
Found at i:78239 original size:66 final size:66
Alignment explanation
Indices: 78153--78286 Score: 173
Period size: 66 Copynumber: 2.0 Consensus size: 66
78143 CTCAGTGGCA
* * * * *
78153 TTTTTTCTTCTAAGTCCACAACT-C-TGAAGCACCTTTTCCTTTTAAATCCATAACTTCGTGGCA
1 TTTTTCCTTCTAAATCCACAACTCCATG--GCACCTTTTCCTTTTAAATCCACAACTCCATGGCA
78216 CCC
64 CCC
* *
78219 TTTTTCCTTTTAAATCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCCATGGCACC
1 TTTTTCCTTCTAAATCCACAACTCCATGGCACCTTTTCCTTTTAAATCCACAACTCCATGGCACC
78284 C
66 C
78285 TT
1 TT
78287 CAAAGTCCAC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
66 56 0.95
67 1 0.02
68 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.08, T:0.37
Consensus pattern (66 bp):
TTTTTCCTTCTAAATCCACAACTCCATGGCACCTTTTCCTTTTAAATCCACAACTCCATGGCACC
C
Found at i:78310 original size:186 final size:178
Alignment explanation
Indices: 77932--78412 Score: 455
Period size: 186 Copynumber: 2.6 Consensus size: 178
77922 TAAAACCATG
* * * * * * *
77932 ACTCAGTGGCATATTTTTTCCAAGACCACTACTCAGTGGCATCCTTTTTCTTAAAAGTCCACAAC
1 ACTCAGTGGCATCTCTTCTACAAGTCCACAACTCAGTGGCAT-CTTTTTCTTATAAGTCCACAAC
* * * *
77997 TCCATGGCATCTTTTCCATTTAAGTCCACAGCTCTGTGGCACTTTTTCCTTTAAGCCCACAACTC
65 T-CATGGCACCTTTTCCATTTAAATCCACAACTCTGTGGCACTTTTTCCTTTAAACCCACAACTC
* *** **
78062 CATGGCATCCTTCTAAGTCCATAACTTTGTGGCACCCTTCAAAGTCCATG
129 CATGGCATCCTTCTAAGTCCACAACTCCATGGCACCCTTCAAAGTCCACA
* ** *
78112 ACTCAGTGGCATCTCTTCTATAAGTCCATGACTCAGTGGCAT-TTTTTCTTCTAAGTCCACAACT
1 ACTCAGTGGCATCTCTTCTACAAGTCCACAACTCAGTGGCATCTTTTTCTTATAAGTCCACAACT
* * *
78176 C-TGAAGCACCTTTTCCTTTTAAATCCATAACT-TCGTGGCACCCTTTTTCCTTTTAAATCCACA
66 CATG--GCACCTTTTCCATTTAAATCCACAACTCT-GTGGCA--CTTTTTCC-TTTAAACCCACA
*
78239 ACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCAAAGTCCACA
125 ACTCCATGGCA-----TCCTTCTAAGTCCACAACTCCATGGCACCCTTCAAAGTCCACA
* * * * * * *
78298 ATTCCGTGGCATCTCTTCTCCAAGTCCACAATTTAGTGGCGTCCTTTTTCTTTTAAGTCCACAAC
1 ACTCAGTGGCATCTCTTCTACAAGTCCACAACTCAGTGGCAT-CTTTTTCTTATAAGTCCACAAC
* * ** *
78363 TCCATGGCACATTTTCCTTTTTAGGTCCACAACTCCGTGGCATCTTTTTC
65 T-CATGGCACCTTTTCC-ATTTAAATCCACAACTCTGTGGCA-CTTTTTC
78413 TGCTTTTTAG
Statistics
Matches: 244, Mismatches: 40, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
176 2 0.01
177 2 0.01
178 48 0.20
180 42 0.17
181 21 0.09
186 69 0.28
188 38 0.16
189 20 0.08
190 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.35
Consensus pattern (178 bp):
ACTCAGTGGCATCTCTTCTACAAGTCCACAACTCAGTGGCATCTTTTTCTTATAAGTCCACAACT
CATGGCACCTTTTCCATTTAAATCCACAACTCTGTGGCACTTTTTCCTTTAAACCCACAACTCCA
TGGCATCCTTCTAAGTCCACAACTCCATGGCACCCTTCAAAGTCCACA
Found at i:78344 original size:156 final size:155
Alignment explanation
Indices: 78184--78622 Score: 513
Period size: 158 Copynumber: 2.8 Consensus size: 155
78174 CTCTGAAGCA
* * * * *
78184 CCTTTTCCTTTTAAATCCATAACTTCGTGGCACCCTTTTTCCTTTTAAATCCACAACTCCATGGC
1 CCTTTTTCTTTTAAGTCCACAACTTCGTGGCA-CCTTTTTCCTTTTAAGTCCACAACTCCGTGGC
*
78249 ACCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCAAAGTCCACAATTCCGTGGCATCTCT
65 ACCTTTTCCTTTTAAGTCTACAACTCCATGGCACCCTTCAAAGTCCACAATTCCGTGGCATCTCT
*
78314 TCTCCAAGTCCACAATTTAGTGGCGT
130 TCTCCAAGTCCACAATTCAGTGGCGT
* * * *
78340 CCTTTTTCTTTTAAGTCCACAACTCCATGGCA-CATTTTCCTTTTTAGGTCCACAACTCCGTGGC
1 CCTTTTTCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCC-TTTTAAGTCCACAACTCCGTGGC
* * * * * * *
78404 ATCTTTTTCTGCTTTTTAGTCTACAACTTCGTGGCACCATTCAAAGTCCACGATTCAGTGGCATC
65 A-CCTTTTC--CTTTTAAGTCTACAACTCCATGGCACCCTTCAAAGTCCACAATTCCGTGGCATC
**
78469 TCTTCTCCAAGTCCATGATTCAGTGGCGT
127 TCTTCTCCAAGTCCACAATTCAGTGGCGT
* * * * * *
78498 CTTTTTTCTTCTAAGTCCACAACTTTGTGGCACCTTTTT-ATTTTAAGTCTACAACTCTGTGGCA
1 CCTTTTTCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* * ** * *
78562 CCTTTTTTCCTTTTAAGTCTATAACTCTATGGCACCCTTTGAAGTCCATAACTCCGTGGCA
66 CC--TTTTCCTTTTAAGTCTACAACTCCATGGCACCCTTCAAAGTCCACAATTCCGTGGCA
78623 CCCTTCAAAG
Statistics
Matches: 233, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
154 7 0.03
155 21 0.09
156 74 0.32
157 21 0.09
158 105 0.45
159 5 0.02
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (155 bp):
CCTTTTTCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
CCTTTTCCTTTTAAGTCTACAACTCCATGGCACCCTTCAAAGTCCACAATTCCGTGGCATCTCTT
CTCCAAGTCCACAATTCAGTGGCGT
Found at i:78385 original size:33 final size:34
Alignment explanation
Indices: 78348--78440 Score: 109
Period size: 33 Copynumber: 2.7 Consensus size: 34
78338 GTCCTTTTTC
*
78348 TTTTAAGTCCACAACTCCATGGCACATTTTC-CT
1 TTTTAAGTCCACAACTCCGTGGCACATTTTCGCT
* *
78381 TTTTAGGTCCACAACTCCGTGGCATCTTTTTCTGCT
1 TTTTAAGTCCACAACTCCGTGGCA-CATTTTC-GCT
* *
78417 TTTT-AGTCTACAACTTCGTGGCAC
1 TTTTAAGTCCACAACTCCGTGGCAC
78441 CATTCAAAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 22 0.43
34 7 0.14
35 16 0.31
36 6 0.12
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.39
Consensus pattern (34 bp):
TTTTAAGTCCACAACTCCGTGGCACATTTTCGCT
Found at i:78581 original size:34 final size:33
Alignment explanation
Indices: 78498--78597 Score: 130
Period size: 32 Copynumber: 3.0 Consensus size: 33
78488 TCAGTGGCGT
* * *
78498 CTTTTTTCTTCTAAGTCCACAACTTTGTGGCAC
1 CTTTTTTCTTTTAAGTCTACAACTCTGTGGCAC
*
78531 C-TTTTTATTTTAAGTCTACAACTCTGTGGCAC
1 CTTTTTTCTTTTAAGTCTACAACTCTGTGGCAC
* *
78563 CTTTTTTCCTTTTAAGTCTATAACTCTATGGCAC
1 CTTTTTT-CTTTTAAGTCTACAACTCTGTGGCAC
78597 C
1 C
78598 CTTTGAAGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
32 28 0.48
33 6 0.10
34 24 0.41
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.44
Consensus pattern (33 bp):
CTTTTTTCTTTTAAGTCTACAACTCTGTGGCAC
Found at i:78612 original size:27 final size:27
Alignment explanation
Indices: 78570--78627 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
78560 CACCTTTTTT
* * *
78570 CCTTTTAAGTCTATAACTCTATGGCAC
1 CCTTTGAAGTCCATAACTCCATGGCAC
*
78597 CCTTTGAAGTCCATAACTCCGTGGCAC
1 CCTTTGAAGTCCATAACTCCATGGCAC
78624 CCTT
1 CCTT
78628 CAAAGCCCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (27 bp):
CCTTTGAAGTCCATAACTCCATGGCAC
Found at i:78682 original size:61 final size:60
Alignment explanation
Indices: 78617--78823 Score: 265
Period size: 63 Copynumber: 3.4 Consensus size: 60
78607 CCATAACTCC
**
78617 GTGGC-ACCCTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTCCAAAGCCCACACAAGTTG
1 GTGGCAACCCTTCAAAGCCCACACAAGTTGGTGGCAA-CCTTT-CAAAGCCCACACAAGTTG
*
78678 GTGGCAACCTCTTCAAAGCCCACACAAGTTGGTGGCAACCTCTT-AAAGCCCACATAAGTTG
1 GTGGCAACC-CTTCAAAGCCCACACAAGTTGGTGGCAACCT-TTCAAAGCCCACACAAGTTG
*
78739 GTGGCAACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTG
1 GTGGCAACCC-TTCAAAGCCCACACAAGTTGGTGGCAACC-T-TTCAAAGCCCACACAAGTTG
* * *
78802 GTAGCATCTCCTTCTAAGCCCA
1 GTGGCAAC-CCTTCAAAGCCCA
78824 ATGTCACTGG
Statistics
Matches: 130, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
60 1 0.01
61 58 0.45
62 10 0.08
63 59 0.45
64 2 0.02
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (60 bp):
GTGGCAACCCTTCAAAGCCCACACAAGTTGGTGGCAACCTTTCAAAGCCCACACAAGTTG
Found at i:78698 original size:31 final size:30
Alignment explanation
Indices: 78617--78823 Score: 265
Period size: 31 Copynumber: 6.7 Consensus size: 30
78607 CCATAACTCC
**
78617 GTGGC-ACCCTTCAAAGCCCACACAAGTCA
1 GTGGCAACCCTTCAAAGCCCACACAAGTTG
78646 GTGGCAACCCTTTCCAAAGCCCACACAAGTTG
1 GTGGCAACCC-TT-CAAAGCCCACACAAGTTG
78678 GTGGCAACCTCTTCAAAGCCCACACAAGTTG
1 GTGGCAACC-CTTCAAAGCCCACACAAGTTG
*
78709 GTGGCAACCTCTT-AAAGCCCACATAAGTTG
1 GTGGCAACC-CTTCAAAGCCCACACAAGTTG
*
78739 GTGGCAACCCTTTTAAAGCCCACACAAGTTG
1 GTGGCAACCC-TTCAAAGCCCACACAAGTTG
78770 GTGGCAACCTTCTTCAAAGCCCACACAAGTTG
1 GTGGCAACC--CTTCAAAGCCCACACAAGTTG
* * *
78802 GTAGCATCTCCTTCTAAGCCCA
1 GTGGCAAC-CCTTCAAAGCCCA
78824 ATGTCACTGG
Statistics
Matches: 161, Mismatches: 8, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
29 6 0.04
30 31 0.19
31 69 0.43
32 52 0.32
33 3 0.02
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (30 bp):
GTGGCAACCCTTCAAAGCCCACACAAGTTG
Found at i:78743 original size:93 final size:92
Alignment explanation
Indices: 78617--78823 Score: 301
Period size: 93 Copynumber: 2.2 Consensus size: 92
78607 CCATAACTCC
78617 GTGGCACCCTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTCCAAAGCCCACACAAGTTGGTGG
1 GTGGCACCCTTCAAAGCCCACACAAGTCAGTGGCAACCCTTT-CAAAGCCCACACAAGTTGGTGG
78682 CAACC-TCTTCAAAGCCCACACAAGTTG
65 CAACCTTCTTCAAAGCCCACACAAGTTG
* ** *
78709 GTGGCAACCTCTT-AAAGCCCACATAAGTTGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTG
1 GTGGC-ACC-CTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTCAAAGCCCACACAAGTTGGTG
78773 GCAACCTTCTTCAAAGCCCACACAAGTTG
64 GCAACCTTCTTCAAAGCCCACACAAGTTG
* *
78802 GTAGCATCTCCTTCTAAGCCCA
1 GTGGCA-C-CCTTCAAAGCCCA
78824 ATGTCACTGG
Statistics
Matches: 103, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
92 32 0.31
93 60 0.58
94 11 0.11
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (92 bp):
GTGGCACCCTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTCAAAGCCCACACAAGTTGGTGGC
AACCTTCTTCAAAGCCCACACAAGTTG
Found at i:78882 original size:43 final size:44
Alignment explanation
Indices: 78811--79000 Score: 157
Period size: 49 Copynumber: 4.0 Consensus size: 44
78801 GGTAGCATCT
* *
78811 CCTTCTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCA-
1 CCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* *
78855 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAGCTTTAC
1 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-G--GC---AC
* * * * *
78905 CACATTTAAGTCTAATGTTGTTGGCCTTGAATTAGCATATTGGCACCTC
1 C-C-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---C
*
78954 CATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCAC
1 C--CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
79000 C
1 C
79001 TTCATCTTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
43 31 0.26
44 5 0.04
46 5 0.04
49 42 0.35
50 2 0.02
51 2 0.02
52 32 0.27
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (44 bp):
CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:78981 original size:49 final size:52
Alignment explanation
Indices: 78856--79198 Score: 251
Period size: 52 Copynumber: 6.7 Consensus size: 52
78846 ACATTGGCAC
* * *
78856 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAGCTTTACCA-
1 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTGGCAGCTCTACCAT
* * *
78907 CATTTAAGTCTAATGTTGTTGGCCTTGAATTAGCATATTGGCA-C-CT-CCAT
1 C-TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTGGCAGCTCTACCAT
* *
78957 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C-CT-TCAT
1 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTGGCAGCTCTACCAT
** * ** * * * *
79006 CTTTAAGTCTGATATCGTTATCCTTGAATCAGTATATTGGCATCTTTAACAT
1 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTGGCAGCTCTACCAT
* ** * * * *
79058 -TTTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCA-TTCTTCTTAT
1 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTGGCAGCTCTAC-CAT
* ** * * * * *
79109 CTTCAAGTCTTATGTCATTGG-CTGTGAATCAGCACATTGACA-TTCTTCGCAT
1 CTTTAAGTCCAATGTCGTTGGCCT-TGAATCAGCATATTGGCAGCTCTAC-CAT
* *
79161 CTTTAAG-CCGAATATCGTTGGCCTTGAATCAACATATT
1 CTTTAAGTCC-AATGTCGTTGGCCTTGAATCAGCATATT
79199 AGCACTTTTA
Statistics
Matches: 232, Mismatches: 50, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
49 81 0.35
50 5 0.02
51 39 0.17
52 105 0.45
53 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTGGCAGCTCTACCAT
Found at i:78989 original size:101 final size:101
Alignment explanation
Indices: 78856--79191 Score: 283
Period size: 101 Copynumber: 3.3 Consensus size: 101
78846 ACATTGGCAC
* * *
78856 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAGCTTTACCA-CATTTAAGTCTAA
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTT--CATC-TTTAAGTCTAA
* * * * *
78920 TGTTGTTGGCCTTGAATTAGCATATTGGCA-C-CT-CCAT
62 TATCGTTAGCCTTGAATCAGCATATTGGCATCTCTAACAT
* *
78957 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTGATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATC
* * *
79022 GTTATCCTTGAATCAGTATATTGGCATCTTTAACAT
66 GTTAGCCTTGAATCAGCATATTGGCATCTCTAACAT
* * * * *
79058 -TTTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCTTAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTC--ATCTTTAAGTCTAAT
* * * * * **
79122 GTCATT-GGCTGTGAATCAGCACATTGACAT-TCTTCGCAT
63 ATCGTTAGCCT-TGAATCAGCATATTGGCATCTC-TAACAT
* *
79161 CTTTAAG-CCGAATATCGTTGGCCTTGAATCA
1 CTTTAAGTCC-AATGTCGCTGGCCTTGAATCA
79192 ACATATTAGC
Statistics
Matches: 192, Mismatches: 32, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
98 36 0.19
99 2 0.01
100 42 0.22
101 46 0.24
102 3 0.02
103 39 0.20
104 24 0.12
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (101 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATC
GTTAGCCTTGAATCAGCATATTGGCATCTCTAACAT
Found at i:79233 original size:61 final size:61
Alignment explanation
Indices: 79153--79346 Score: 293
Period size: 61 Copynumber: 3.2 Consensus size: 61
79143 CATTGACATT
* *
79153 CTTCGCATCTTTAAGCCGAATATCGTTGGCCTTGAATCAACATATTAGCACTTTTATCATC
1 CTTCTCATCTTTAAGCCGAATATCGTTGGCCTTGAATCAACATATTGGCACTTTTATCATC
79214 CTTCTCATCTTTAAGCCGAATATCGTTGGCCTTGAATCAACATATTGGCACTTTTATCATC
1 CTTCTCATCTTTAAGCCGAATATCGTTGGCCTTGAATCAACATATTGGCACTTTTATCATC
* * * *
79275 CTTCTCATCTTTAAGCCTAATATTGCTGGCCTTGAATCAGCATATTGGCA-TCTTTATCA-C
1 CTTCTCATCTTTAAGCCGAATATCGTTGGCCTTGAATCAACATATTGGCACT-TTTATCATC
*
79335 TCTTTTCATCTT
1 -CTTCTCATCTT
79347 CATCATTTTT
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
60 2 0.02
61 122 0.98
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (61 bp):
CTTCTCATCTTTAAGCCGAATATCGTTGGCCTTGAATCAACATATTGGCACTTTTATCATC
Found at i:80946 original size:20 final size:21
Alignment explanation
Indices: 80907--80947 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
80897 ACAGCCCATG
80907 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
80928 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
80948 CCAACACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:82636 original size:22 final size:21
Alignment explanation
Indices: 82604--82644 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
82594 GCTGTATTGA
82604 TACAATGTATCGATACATGTG
1 TACAATGTATCGATACATGTG
82625 TACAATTGTATCGATACATG
1 TACAA-TGTATCGATACATG
82645 AAACTGGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (21 bp):
TACAATGTATCGATACATGTG
Found at i:82715 original size:33 final size:33
Alignment explanation
Indices: 82673--82774 Score: 152
Period size: 33 Copynumber: 3.1 Consensus size: 33
82663 CTACCACTGT
*
82673 TTGTATCGATACATGGT-ACATTGTATCAATGCA
1 TTGTATCGATACATGATGA-ATTGTATCAATGCA
*
82706 TTGTATCGATACATGATGAATTGTATCGATGCA
1 TTGTATCGATACATGATGAATTGTATCAATGCA
* *
82739 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCAATGCA
82772 TTG
1 TTG
82775 CTTCAAACGG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
33 64 0.98
34 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCAATGCA
Found at i:82730 original size:20 final size:20
Alignment explanation
Indices: 82705--82772 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
82695 GTATCAATGC
82705 ATTGTATCGATACATGATGA
1 ATTGTATCGATACATGATGA
*
82725 ATTG--T--AT-C--GATGC
1 ATTGTATCGATACATGATGA
82738 ATTGTATCGATACATGATGA
1 ATTGTATCGATACATGATGA
82758 ATTGTATCGATACAT
1 ATTGTATCGATACAT
82773 TGCTTCAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
13 8 0.21
15 2 0.05
16 2 0.05
17 2 0.05
18 2 0.05
20 23 0.59
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (20 bp):
ATTGTATCGATACATGATGA
Found at i:82741 original size:13 final size:13
Alignment explanation
Indices: 82691--82748 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
82681 ATACATGGTA
*
82691 CATTGTATCAATG
1 CATTGTATCGATG
*
82704 CATTGTATCGATA
1 CATTGTATCGATG
82717 CA-TG-AT-GA--
1 CATTGTATCGATG
82725 -ATTGTATCGATG
1 CATTGTATCGATG
82737 CATTGTATCGAT
1 CATTGTATCGAT
82749 ACATGATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 1 0.03
8 2 0.05
9 2 0.05
10 4 0.11
11 2 0.05
12 2 0.05
13 24 0.65
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATG
Found at i:89253 original size:3 final size:3
Alignment explanation
Indices: 89247--89271 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
89237 GAAGATGCTT
89247 CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC C
89272 ACCCGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:89780 original size:50 final size:49
Alignment explanation
Indices: 89705--89802 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 49
89695 AAAATAAATT
* *
89705 TTTATCAAGGGGGAGAAAATCTTTTTA-ACAGTAGAAAATCTTTTTAACCA
1 TTTATCAAGGGAGAGAAAATCTTTTTACAAAG-AGAAAAT-TTTTTAACCA
* *
89755 TTTATCAAGGGAGAGAAATTTTTTTTATCAAAGAGAAAATTTTTTAAC
1 TTTATCAAGGGAGAGAAAATCTTTTTA-CAAAGAGAAAATTTTTTAAC
89803 TAGAGTCTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 32 0.76
51 7 0.17
52 3 0.07
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (49 bp):
TTTATCAAGGGAGAGAAAATCTTTTTACAAAGAGAAAATTTTTTAACCA
Found at i:90431 original size:20 final size:19
Alignment explanation
Indices: 90380--90436 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
90370 TTTGTATCGA
*
90380 TACAATGTATCGATCCATG
1 TACAATGTATCGATACATG
* * *
90399 TTCACTATATCGATACATG
1 TACAATGTATCGATACATG
90418 TACAATTGTATCGATACAT
1 TACAA-TGTATCGATACAT
90437 CAAATTGGCA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (19 bp):
TACAATGTATCGATACATG
Found at i:99249 original size:19 final size:18
Alignment explanation
Indices: 99227--99275 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
99217 GTGAAGAAGT
99227 AAAAAAAAC--AAAAACA
1 AAAAAAAACAAAAAAACA
*
99243 ACAAAAAAACAAACAAACAA
1 A-AAAAAAACAAAAAAAC-A
99263 AAAAAAAACAAAA
1 AAAAAAAACAAAA
99276 TGAAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 8 0.30
19 16 0.59
20 2 0.07
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAAAAACA
Found at i:99256 original size:15 final size:15
Alignment explanation
Indices: 99228--99273 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
99218 TGAAGAAGTA
99228 AAAAAAACAAAAACAAC
1 AAAAAAAC--AAACAAC
99245 AAAAAAACAAACAAAC
1 AAAAAAACAAAC-AAC
99261 AAAAAAA-AAACAA
1 AAAAAAACAAACAA
99274 AATGAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.07
15 8 0.29
16 10 0.36
17 8 0.29
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAACAAC
Found at i:99274 original size:15 final size:15
Alignment explanation
Indices: 99230--99274 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
99220 AAGAAGTAAA
99230 AAAAACAAAAAC-AAC
1 AAAAA-AAAAACAAAC
99245 AAAAAAACAAACAAAC
1 AAAAAAA-AAACAAAC
99261 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
99275 ATGAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.07
15 16 0.57
16 10 0.36
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAC
Found at i:99275 original size:8 final size:8
Alignment explanation
Indices: 99228--99267 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
99218 TGAAGAAGTA
99228 AAAAAAAC
1 AAAAAAAC
99236 AAAAACAAC
1 AAAAA-AAC
99245 AAAAAAAC
1 AAAAAAAC
*
99253 AAACAAAC
1 AAAAAAAC
99261 AAAAAAA
1 AAAAAAA
99268 AAACAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:106121 original size:13 final size:13
Alignment explanation
Indices: 106103--106128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106093 CAATTTTTTG
106103 TGTATCGATACAT
1 TGTATCGATACAT
106116 TGTATCGATACAT
1 TGTATCGATACAT
106129 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:106140 original size:32 final size:33
Alignment explanation
Indices: 106083--106146 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
106073 TACAAGCCAA
**
106083 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
106116 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
106147 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:106832 original size:47 final size:47
Alignment explanation
Indices: 106780--106875 Score: 176
Period size: 47 Copynumber: 2.0 Consensus size: 47
106770 AATAATTTTA
106780 ACAAGTTTGTACATTCTCCCCCTTAATAA-GATAATTTTAGCAAATTT
1 ACAAGTTTGTACATTCTCCCCCTTAATAAGGA-AATTTTAGCAAATTT
106827 ACAAGTTTGTACATTCTCCCCCTTAATAAGGAAATTTTAGCAAATTT
1 ACAAGTTTGTACATTCTCCCCCTTAATAAGGAAATTTTAGCAAATTT
106874 AC
1 AC
106876 GCATTCTCCC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 46 0.96
48 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (47 bp):
ACAAGTTTGTACATTCTCCCCCTTAATAAGGAAATTTTAGCAAATTT
Found at i:108277 original size:21 final size:20
Alignment explanation
Indices: 108248--108290 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
108238 GACTAGTGTA
*
108248 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
108269 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
108289 GG
1 GG
108291 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:108749 original size:13 final size:13
Alignment explanation
Indices: 108731--108768 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
108721 ATAATCCCCC
108731 TGTATCGATACAG
1 TGTATCGATACAG
*
108744 TGTATCGATACAT
1 TGTATCGATACAG
108757 TGTATCGATACA
1 TGTATCGATACA
108769 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:109977 original size:13 final size:13
Alignment explanation
Indices: 109959--109983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109949 AATTTTTTGG
109959 GTATCGATACATT
1 GTATCGATACATT
109972 GTATCGATACAT
1 GTATCGATACAT
109984 ACTTTGTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:110000 original size:32 final size:33
Alignment explanation
Indices: 109938--110001 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
109928 TACAAGCTAA
**
109938 TGTATCGATACAATTTTTTGGGTATCGATACAT
1 TGTATCGATACAATACTTTGGGTATCGATACAT
*
109971 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGGGTATCGATACA
110002 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGGGTATCGATACAT
Found at i:110746 original size:13 final size:13
Alignment explanation
Indices: 110728--110754 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
110718 ACAATATTTC
110728 TTGTATCGATACA
1 TTGTATCGATACA
110741 TTGTATCGATACA
1 TTGTATCGATACA
110754 T
1 T
110755 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:112539 original size:16 final size:16
Alignment explanation
Indices: 112515--112545 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112505 ATTATCAAGG
*
112515 GGGAGAAATTTTTTAA
1 GGGAAAAATTTTTTAA
112531 GGGAAAAATTTTTTA
1 GGGAAAAATTTTTTA
112546 TTAGGGGGAA
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:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (16 bp):
GGGAAAAATTTTTTAA
Found at i:112578 original size:69 final size:69
Alignment explanation
Indices: 112470--112612 Score: 243
Period size: 69 Copynumber: 2.1 Consensus size: 69
112460 AAAATAAATT
* *
112470 TTTTTTATCAAGGGGGAGAAAATCTTTTTAAACCGATTATCAAGGGGGAGAAATTTTTTAAGGGA
1 TTTTTTATCAAGGGGGAAAAAATCTTTTTAAACCGATTATCAAAGGGGAGAAATTTTTTAAGGGA
112535 AAAA
66 AAAA
*
112539 TTTTTTAT-TAGGGGGAAAAAAATCTTTTTAAACCGATTATCAAAGGGGAGAAATTTTTTAAGGG
1 TTTTTTATCAAGGGGG-AAAAAATCTTTTTAAACCGATTATCAAAGGGGAGAAATTTTTTAAGGG
112603 AAAAA
65 AAAAA
112608 TTTTT
1 TTTTT
112613 AACGAGAGCC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 6 0.09
69 64 0.91
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (69 bp):
TTTTTTATCAAGGGGGAAAAAATCTTTTTAAACCGATTATCAAAGGGGAGAAATTTTTTAAGGGA
AAAA
Found at i:113236 original size:20 final size:19
Alignment explanation
Indices: 113190--113246 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
113180 TTGTATCCAT
*
113190 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
113209 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
113228 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
113247 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:113300 original size:20 final size:19
Alignment explanation
Indices: 113275--113341 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
113265 CTACCACTGT
113275 TTGTATCGATACATGATACA
1 TTGTATCGATACATGATA-A
113295 TTGTATCGATAC-----AA
1 TTGTATCGATACATGATAA
113309 -TGTATCGATACATGATGAA
1 TTGTATCGATACATGAT-AA
113328 TTGTATCGATACAT
1 TTGTATCGATACAT
113342 TGCTTCTAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
15 1 0.03
19 2 0.05
20 25 0.62
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATGATAA
Found at i:113307 original size:13 final size:13
Alignment explanation
Indices: 113289--113343 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
113279 ATCGATACAT
113289 GATACATTGTATC
1 GATACATTGTATC
*
113302 GATACAATGTATC
1 GATACATTGTATC
113315 GATACA-TG-AT-
1 GATACATTGTATC
113325 G--A-ATTGTATC
1 GATACATTGTATC
113335 GATACATTG
1 GATACATTG
113344 CTTCTAACGG
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 22 0.63
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:113318 original size:33 final size:33
Alignment explanation
Indices: 113276--113340 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
113266 TACCACTGTT
113276 TGTATCGATACATGAT-ACATTGTATCGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
113309 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
113341 TTGCTTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:114177 original size:33 final size:32
Alignment explanation
Indices: 114099--114230 Score: 105
Period size: 33 Copynumber: 4.2 Consensus size: 32
114089 ATCTTCAAAA
* * *
114099 CCTTTTTC-AAAAAGCCCACGACTTCGTGGCAT
1 CCTTTTTCTTAAAAGTCCACAAC-TCGTGGCAT
* *
114131 -C--TTTCCTAAAAGTCCACTACTCAGTGGCAT
1 CCTTTTTCTTAAAAGTCCACAACTC-GTGGCAT
*
114161 CCTTTTTCTTAAAAGTCCACAACTTCGTAGCAT
1 CCTTTTTCTTAAAAGTCCACAAC-TCGTGGCAT
* * *
114194 -ATTTTCCTT-TAAGTCCACAACTCTGTGGCAT
1 CCTTTTTCTTAAAAGTCCACAACTC-GTGGCAT
114225 CCTTTT
1 CCTTTT
114231 AAGTCCATAA
Statistics
Matches: 81, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
29 6 0.07
30 20 0.25
31 19 0.23
32 11 0.14
33 23 0.28
34 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (32 bp):
CCTTTTTCTTAAAAGTCCACAACTCGTGGCAT
Found at i:114209 original size:64 final size:62
Alignment explanation
Indices: 114099--114230 Score: 165
Period size: 64 Copynumber: 2.1 Consensus size: 62
114089 ATCTTCAAAA
* * *
114099 CCTTTTTCAAAAAGCCCACGACTTCGTGGCATCTTTCCTAAAAGTCCACTACTCAGTGGCAT
1 CCTTTTTCAAAAAGCCCACAACTTCGTAGCATCTTTCCTAAAAGTCCACAACTCAGTGGCAT
* * * ** *
114161 CCTTTTTCTTAAAAGTCCACAACTTCGTAGCATATTTTCCTTTAAGTCCACAACTCTGTGGCAT
1 CCTTTTTC-AAAAAGCCCACAACTTCGTAGCAT-CTTTCCTAAAAGTCCACAACTCAGTGGCAT
114225 CCTTTT
1 CCTTTT
114231 AAGTCCATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 8 0.14
63 20 0.34
64 31 0.53
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (62 bp):
CCTTTTTCAAAAAGCCCACAACTTCGTAGCATCTTTCCTAAAAGTCCACAACTCAGTGGCAT
Found at i:114263 original size:58 final size:58
Alignment explanation
Indices: 114173--114539 Score: 250
Period size: 58 Copynumber: 6.1 Consensus size: 58
114163 TTTTTCTTAA
*
114173 AAGTCCACAACT-TCGTAGCA-TATTTTCCTTTAAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCT-GTGGCACT-TTTTCCTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * *
114231 AAGTCCATAACTCTGTGGCACTTTTTCCTTTAAGCCCATAACTCCGTGGCATCCTTCT
1 AAGTCCACAACTCTGTGGCACTTTTTCCTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * ** *
114289 AAATCCACATCTTTGTGGCAC-----CCTTCGAAGTCCATGACTCAGTGGCATCTCTTCTCT
1 AAGTCCACAACTCTGTGGCACTTTTTCCTT-TAAGTCCACAACTCTGTGGCATC-CTT-T-T
* * * *
114346 AGGTCCACGACTCAGTGGTGTC-CTTTTT-CTTCTAAGTCCACAACTCTGTGGTAGATTTTCCTT
1 AAGTCCACAACTC--T-GTGGCACTTTTTCCTT-TAAGTCCACAACTCTGTGG--CA---TCCTT
114409 TT
57 TT
* * *
114411 AAGTCCACAACTCTGTGGCATCTTTTTTCCTTTTGAGTCCACAATTCTATGGCATCCTTTTT
1 AAGTCCACAACTCTGTGGCA-C-TTTTTCC-TTTAAGTCCACAACTCTGTGGCATCC-TTTT
* * * * *
114473 AAGTCCACAACTCTGTGGCACCTTTTCCTTTTAAGTCCATAACTCCGTGGGA-CCTTTCA
1 AAGTCCACAACTCTGTGGCACTTTTTCC-TTTAAGTCCACAACTCTGTGGCATCCTTT-T
114532 AAGTCCAC
1 AAGTCCAC
114540 GATTCAGTGG
Statistics
Matches: 242, Mismatches: 41, Indels: 51
0.72 0.12 0.15
Matches are distributed among these distances:
53 4 0.02
54 19 0.08
55 3 0.01
57 9 0.04
58 68 0.28
59 14 0.06
60 28 0.12
61 4 0.02
62 28 0.12
63 20 0.08
64 2 0.01
65 18 0.07
66 18 0.07
67 5 0.02
68 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.36
Consensus pattern (58 bp):
AAGTCCACAACTCTGTGGCACTTTTTCCTTTAAGTCCACAACTCTGTGGCATCCTTTT
Found at i:114419 original size:32 final size:32
Alignment explanation
Indices: 114369--114522 Score: 138
Period size: 32 Copynumber: 4.9 Consensus size: 32
114359 AGTGGTGTCC
* * *
114369 TTTTTCTTCTAAGTCCACAACTCTGTGGTAGA
1 TTTTCCTTTTAAGTCCACAACTCTGTGGTACA
* *
114401 TTTTCCTTTTAAGTCCACAACTCTGTGGCATCTT
1 TTTTCCTTTTAAGTCCACAACTCTGTGGTA-C-A
* * *
114435 TTTTCCTTTTGAGTCCACAATTCTATGG--CA
1 TTTTCCTTTTAAGTCCACAACTCTGTGGTACA
* *
114465 ---TCCTTTTTAAGTCCACAACTCTGTGGCACC
1 TTTTCC-TTTTAAGTCCACAACTCTGTGGTACA
* *
114495 TTTTCCTTTTAAGTCCATAACTCCGTGG
1 TTTTCCTTTTAAGTCCACAACTCTGTGG
114523 GACCTTTCAA
Statistics
Matches: 99, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
27 3 0.03
28 19 0.19
30 1 0.01
31 1 0.01
32 47 0.47
33 3 0.03
34 25 0.25
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (32 bp):
TTTTCCTTTTAAGTCCACAACTCTGTGGTACA
Found at i:114444 original size:34 final size:33
Alignment explanation
Indices: 114140--114805 Score: 195
Period size: 27 Copynumber: 21.6 Consensus size: 33
114130 TCTTTCCTAA
* * **
114140 AAGTCCACTACTCAGTGGCATCCTTTTT-CTTAA
1 AAGTCCACAACTCTGTGGCAT-CTTTTTCCTTTT
* *
114173 AAGTCCACAACT-TCGTAGCAT-ATTTTCC-TTT
1 AAGTCCACAACTCT-GTGGCATCTTTTTCCTTTT
114204 AAGTCCACAACTCTGTGGCA------TCCTTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
*
114231 AAGTCCATAACTCTGTGGCA-CTTTTTCC-TTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
* * * *
114262 AAGCCCATAACTCCGTGGCA------TCCTTCT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
* * * **
114289 AAATCCACATCTTTGTGGCA-C-----CCTTCG
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
** * * *
114316 AAGTCCATGACTCAGTGGCATC-TCTT-C-TCT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
* * * ** *
114346 AGGTCCACGACTCAGTGGTGTCCTTTTT-CTTCT
1 AAGTCCACAACTCTGTGGCAT-CTTTTTCCTTTT
* **
114379 AAGTCCACAACTCTGTGGTA-GATTTTCCTTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
114411 AAGTCCACAACTCTGTGGCATCTTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCATC-TTTTTCCTTTT
* * * *
114445 GAGTCCACAATTCTATGGCATC-----CTTTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
*
114473 AAGTCCACAACTCTGTGGCA-CCTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
* * * * *
114505 AAGTCCATAACTCCGTGGGA-C-CTTT-C---A
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
* * * *
114532 AAGTCCACGATTCAGTGGCATCTCTTCTCC----
1 AAGTCCACAACTCTGTGGCATCT-TTTTCCTTTT
* * * * *
114562 AAGTCCACGATTCAGTGGCGTCCTTTTT-CTTCT
1 AAGTCCACAACTCTGTGGCAT-CTTTTTCCTTTT
* ** *
114595 AAGTCCATAACTCCATGGCA-CGTTTTCCTTTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCC-TTTT
* * *
114628 AGGTCCATAACTCTGTGGCACCTTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCATC-TTTTTCCTTTT
** **
114662 AAGTCCACAACTCCATGGCA-C-----CCTTCA
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
* * * * *
114689 AAGTTCACGATTCAGTGGCATCTCTTCTCC----
1 AAGTCCACAACTCTGTGGCATCT-TTTTCCTTTT
* * * *
114719 AAGTCCACGATTCAGTGGCATCCTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
*
114752 AAGTCCACAACTCTGTGGCACCTTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCATC-TTTTTCCTTTT
* *
114786 AAGCCCACAACTCTATGGCA
1 AAGTCCACAACTCTGTGGCA
114806 CCCTTTTAAG
Statistics
Matches: 486, Mismatches: 95, Indels: 103
0.71 0.14 0.15
Matches are distributed among these distances:
26 6 0.01
27 92 0.19
28 25 0.05
29 6 0.01
30 66 0.14
31 60 0.12
32 56 0.12
33 89 0.18
34 80 0.16
35 6 0.01
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
Found at i:114481 original size:28 final size:27
Alignment explanation
Indices: 114441--114498 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
114431 TCTTTTTTCC
* *
114441 TTTTGAGTCCACAATTCTATGGCATCCT
1 TTTTAAGTCCACAACTCTATGGCA-CCT
*
114469 TTTTAAGTCCACAACTCTGTGGCACCT
1 TTTTAAGTCCACAACTCTATGGCACCT
114496 TTT
1 TTT
114499 CCTTTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.40
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTATGGCACCT
Found at i:114634 original size:33 final size:33
Alignment explanation
Indices: 114585--114682 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
114575 AGTGGCGTCC
* *
114585 TTTTTCTTCTAAGTCCATAACTCCATGGCAC-G
1 TTTTCCTTTTAAGTCCATAACTCCATGGCACTG
* ** *
114617 TTTTCCTTTTTAGGTCCATAACTCTGTGGCACCTT
1 TTTTCC-TTTTAAGTCCATAACTCCATGGCA-CTG
*
114652 TTTTCCTTTTAAGTCCACAACTCCATGGCAC
1 TTTTCCTTTTAAGTCCATAACTCCATGGCAC
114683 CCTTCAAAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
32 5 0.09
33 21 0.40
34 21 0.40
35 6 0.11
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (33 bp):
TTTTCCTTTTAAGTCCATAACTCCATGGCACTG
Found at i:114698 original size:157 final size:155
Alignment explanation
Indices: 114465--114847 Score: 508
Period size: 157 Copynumber: 2.5 Consensus size: 155
114455 TTCTATGGCA
* * * *
114465 TCCTTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTAAGTCCATAACTCCGTGGGACCTTT
1 TCCTTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTT
* *
114530 CAAAGTCCACGATTCAGTGGCATCTCTTCTCCAAGTCCACGATTCAGTGGCGTCCTTTTTCTTCT
66 CAAAGTCCACGATTCAGTGGCATCTCTTCTCCAAGTCCACGATTCAGTGGCATCCTTTTCCTTCT
*
114595 AAGTCCATAACTCCATGGCACGTTT
131 AAGTCCACAACTCCATGGCACGTTT
* *
114620 TCCTTTTTAGGTCCATAACTCTGTGGCACCTTTTTTCCTTTTAAGTCCACAACTCCATGGCACCC
1 TCCTTTTTAAGTCCACAACTCTGTGGCACC--TTTTCCTTTTAAGTCCACAACTCCATGGCACCC
*
114685 TTCAAAGTTCACGATTCAGTGGCATCTCTTCTCCAAGTCCACGATTCAGTGGCATCCTTTTCCTT
64 TTCAAAGTCCACGATTCAGTGGCATCTCTTCTCCAAGTCCACGATTCAGTGGCATCCTTTTCCTT
* ** *
114750 TTAAGTCCACAACTCTGTGGCACCTTTTT
129 CTAAGTCCACAACTCCATGGCA-C-GTTT
* * * * *
114779 TCC-TTTTAAGCCCACAACTCTATGGCA-C----CCTTTTAAGTCCACAACCCCGTTGCACCCTT
1 TCCTTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTT
*
114838 CAAAGCCCAC
66 CAAAGTCCAC
114848 ACAAGTCAGT
Statistics
Matches: 201, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
151 36 0.18
155 28 0.14
157 110 0.55
158 21 0.10
159 6 0.03
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.34
Consensus pattern (155 bp):
TCCTTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTT
CAAAGTCCACGATTCAGTGGCATCTCTTCTCCAAGTCCACGATTCAGTGGCATCCTTTTCCTTCT
AAGTCCACAACTCCATGGCACGTTT
Found at i:114806 original size:34 final size:34
Alignment explanation
Indices: 114734--114812 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
114724 CACGATTCAG
* * *
114734 TGGCATCC-TTTTCCTTTTAAGTCCACAACTCTG
1 TGGCACCCTTTTTCCTTTTAAGCCCACAACTCTA
*
114767 TGGCACCTTTTTTCCTTTTAAGCCCACAACTCTA
1 TGGCACCCTTTTTCCTTTTAAGCCCACAACTCTA
114801 TGGCACCCTTTT
1 TGGCACCCTTTT
114813 AAGTCCACAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 6 0.15
34 34 0.85
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (34 bp):
TGGCACCCTTTTTCCTTTTAAGCCCACAACTCTA
Found at i:114833 original size:27 final size:27
Alignment explanation
Indices: 114780--114848 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
114770 CACCTTTTTT
* *
114780 CCTTTTAAGCCCACAACTCTATGGCAC
1 CCTTTTAAGCCCACAACCCCATGGCAC
* * *
114807 CCTTTTAAGTCCACAACCCCGTTGCAC
1 CCTTTTAAGCCCACAACCCCATGGCAC
**
114834 CCTTCAAAGCCCACA
1 CCTTTTAAGCCCACA
114849 CAAGTCAGTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.41, G:0.10, T:0.23
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACCCCATGGCAC
Found at i:114868 original size:124 final size:125
Alignment explanation
Indices: 114617--114868 Score: 287
Period size: 124 Copynumber: 2.0 Consensus size: 125
114607 CCATGGCACG
* * *
114617 TTTTCCTTTTTAGGTCCATAACTCTGTGGCACCTTTTTTCCTTTTAAGTCCACAACTCCATGGCA
1 TTTTCCTTTTTAAGTCCACAACTCTGTGGCACCTTTTTTCCTTTTAAGCCCACAACTCCATGGCA
* * ** * * * * * *
114682 CCCTTCAAAGTTCACGATTCAGTGGCATCTCTTCTCCAAGTCCACGATTCAGTGGCATCC
66 CCCTTCAAAGTCCACAACCCAGTGGCATCTCCTCTCAAAGCCCACAAGTCAGTGGCACCC
*
114742 TTTTCC-TTTTAAGTCCACAACTCTGTGGCACCTTTTTTCCTTTTAAGCCCACAACTCTATGGCA
1 TTTTCCTTTTTAAGTCCACAACTCTGTGGCACCTTTTTTCCTTTTAAGCCCACAACTCCATGGCA
** * *
114806 CCCTTTTAAGTCCACAACCCCGTTGCA-C-CCT-TCAAAGCCCACACAAGTCAGTGGCAACCC
66 CCCTTCAAAGTCCACAACCCAGTGGCATCTCCTCTCAAAG-CC-CACAAGTCAGTGGC-ACCC
114866 TTT
1 TTT
114869 CCAAAGCCCA
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
121 5 0.05
122 3 0.03
123 13 0.12
124 79 0.75
125 6 0.06
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (125 bp):
TTTTCCTTTTTAAGTCCACAACTCTGTGGCACCTTTTTTCCTTTTAAGCCCACAACTCCATGGCA
CCCTTCAAAGTCCACAACCCAGTGGCATCTCCTCTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:114915 original size:31 final size:31
Alignment explanation
Indices: 114835--115017 Score: 228
Period size: 31 Copynumber: 5.9 Consensus size: 31
114825 CCGTTGCACC
**
114835 CTTCAAAGCCCACACAAGTCAGTGGCAACC-
1 CTTCAAAGCCCACACAAGTTGGTGGCAACCT
114865 CTTTCCAAAGCCCACACAAGTTGGTGGCAACCT
1 C-TT-CAAAGCCCACACAAGTTGGTGGCAACCT
* * *
114898 CTTCAAGGCCCATACAAGCTGGTGGCAACCT
1 CTTCAAAGCCCACACAAGTTGGTGGCAACCT
*
114929 CTT-AAAGCCCACACAAGTCGGTGGCAACC-
1 CTTCAAAGCCCACACAAGTTGGTGGCAACCT
** *
114958 CTTTTGAAGCCCACACAAGTTGGTCGCAACCTT
1 C-TTCAAAGCCCACACAAGTTGGTGGCAACC-T
114991 CTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTCAAAGCCCACACAAGTTGGTGGCA
115018 TCTCCTTTTA
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
29 1 0.01
30 25 0.19
31 53 0.40
32 50 0.38
33 2 0.02
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.19
Consensus pattern (31 bp):
CTTCAAAGCCCACACAAGTTGGTGGCAACCT
Found at i:114941 original size:93 final size:93
Alignment explanation
Indices: 114839--115017 Score: 279
Period size: 93 Copynumber: 1.9 Consensus size: 93
114829 TGCACCCTTC
*
114839 AAAGCCCACACAAGTCAGTGGCAACCCTTTCCAAAGCCCACACAAGTTGGTGGCAACC-TCTTCA
1 AAAGCCCACACAAGTCAGTGGCAACCCTTT-CAAAGCCCACACAAGTTGGTCGCAACCTTCTTCA
* *
114903 AGGCCCATACAAGCTGGTGGCAACCTCTT
65 AAGCCCACACAAGCTGGTGGCAACCTCTT
* **
114932 AAAGCCCACACAAGTCGGTGGCAACCCTTTTGAAGCCCACACAAGTTGGTCGCAACCTTCTTCAA
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCAAAGCCCACACAAGTTGGTCGCAACCTTCTTCAA
*
114997 AGCCCACACAAGTTGGTGGCA
66 AGCCCACACAAGCTGGTGGCA
115018 TCTCCTTTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 24 0.31
93 54 0.69
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.18
Consensus pattern (93 bp):
AAAGCCCACACAAGTCAGTGGCAACCCTTTCAAAGCCCACACAAGTTGGTCGCAACCTTCTTCAA
AGCCCACACAAGCTGGTGGCAACCTCTT
Found at i:114957 original size:61 final size:63
Alignment explanation
Indices: 114835--115017 Score: 214
Period size: 61 Copynumber: 2.9 Consensus size: 63
114825 CCGTTGCACC
* * *
114835 CTTCAAAGCCCACACAAG-TCAGTGGCAACCCTT-TCCAAAGCCCACACAAGTTGGTGGCAA-CC
1 CTTC-AAGCCCACACAAGCT-GGTCGCAA-CCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCC
114897 T
63 T
* * *
114898 CTTCAAGGCCCATACAAGCTGGTGGCAACC-TCTT-AAAGCCCACACAAGTCGGTGGCAACCCT
1 CTTCAA-GCCCACACAAGCTGGTCGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCT
* * *
114960 TTTGAAGCCCACACAAGTTGGTCGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTCAAGCCCACACAAGCTGGTCGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCA
115018 TCTCCTTTTA
Statistics
Matches: 104, Mismatches: 10, Indels: 12
0.83 0.08 0.10
Matches are distributed among these distances:
61 44 0.42
62 16 0.15
63 43 0.41
64 1 0.01
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.19
Consensus pattern (63 bp):
CTTCAAGCCCACACAAGCTGGTCGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCT
Found at i:119834 original size:81 final size:82
Alignment explanation
Indices: 119702--119856 Score: 183
Period size: 82 Copynumber: 1.9 Consensus size: 82
119692 TCGACAATGG
* ** *
119702 TGAGGTTGGATTATCCCTTAAGATAAAAATTTTGATGTTTTGGAAAAT-AAAAACAGGGTTGAAG
1 TGAGGTTGGAGTATCCCTTAAGATAAAAATTTCAATGTTTTAGAAAATAAAAAACAGGGTTGAAG
*
119766 TATCCCCTCGGAAACGA
66 CATCCCCTCGGAAACGA
* *
119783 TGAGGTTGGAGTATCCC-TAGAGATGAAGAAA-TTCAATGTTTTAG-AAGTAAAAAATAGGGTTG
1 TGAGGTTGGAGTATCCCTTA-AGAT-AA-AAATTTCAATGTTTTAGAAAATAAAAAACAGGGTTG
*
119845 GAGCATCCCCTC
63 AAGCATCCCCTC
119857 ACAGTTGATA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
80 2 0.03
81 23 0.37
82 34 0.55
83 3 0.05
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (82 bp):
TGAGGTTGGAGTATCCCTTAAGATAAAAATTTCAATGTTTTAGAAAATAAAAAACAGGGTTGAAG
CATCCCCTCGGAAACGA
Found at i:120009 original size:27 final size:28
Alignment explanation
Indices: 119956--120014 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
119946 TAGGGCTAGG
* *
119956 GTATCCCCTCGGAAACGATGGGTTTGGA
1 GTATCCCCCCGAAAACGATGGGTTTGGA
* *
119984 GTATCCCCCCGAAAATGGTGGG-TTGGA
1 GTATCCCCCCGAAAACGATGGGTTTGGA
120011 GTAT
1 GTAT
120015 GCCCTGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (28 bp):
GTATCCCCCCGAAAACGATGGGTTTGGA
Found at i:120084 original size:108 final size:109
Alignment explanation
Indices: 119867--120098 Score: 272
Period size: 108 Copynumber: 2.1 Consensus size: 109
119857 ACAGTTGATA
* * *
119867 GGGTTAGAGTATCCCCTCAAAAATGGTGGGGTTGGAGTATCCCCTAAGATGAAAATTTTGATGTT
1 GGGTTGGAGTATCCCCCCAAAAATGGTGGGGTTGGAGTATCCCCTAAGATGAAAATTTTCATGTT
* * * * **
119932 TTGGAAAATAAAAATAGGGCTAGGGTATCCCCTCGGAAACGATG
66 TTGAAAAATAAAAACAAGGCTAGAGTATCCCCTCAAAAACGATG
* * *
119976 GGTTTGGAGTATCCCCCCGAAAATGGT-GGGTTGGAGTATGCCCTGAA-ATGAAAA-TTTCATTG
1 GGGTTGGAGTATCCCCCCAAAAATGGTGGGGTTGGAGTATCCCCT-AAGATGAAAATTTTCA-TG
* ** * *
120038 TTTTGAAAAATAAAAACAAGGTTAGAGTATCTTCTTAAAAATGATG
64 TTTTGAAAAATAAAAACAAGGCTAGAGTATCCCCTCAAAAACGATG
120084 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
120099 TAGAGATGAA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
107 4 0.04
108 74 0.72
109 25 0.24
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (109 bp):
GGGTTGGAGTATCCCCCCAAAAATGGTGGGGTTGGAGTATCCCCTAAGATGAAAATTTTCATGTT
TTGAAAAATAAAAACAAGGCTAGAGTATCCCCTCAAAAACGATG
Found at i:120108 original size:81 final size:81
Alignment explanation
Indices: 119985--120261 Score: 263
Period size: 81 Copynumber: 3.4 Consensus size: 81
119975 GGGTTTGGAG
* * * * * *
119985 TATCCCCCCGAAAATGGT-GGGTTGGAGTATGCCCT-GAAATGAA-AATTTCATTGTTTTGAAAA
1 TATCCCCTCAAAAATGATGGGGTTGGAGTAT-CCCTAGAGATGAAGAAATTCAATGTTTT-AAAA
*
120047 ATAAAAACAAGGTTAGAG
64 ATAAAAACAAGGTTAGAA
** * * *
120065 TATCTTCTTAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAATGTTTTAGAAGT
1 TATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAATGTTTTAAAAAT
* * *
120130 AAAAATAGGGTTGGAA
66 AAAAACAAGGTTAGAA
* * *
120146 TATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATAAAGAAATTCAATGTTTTAGAAGT
1 TATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAATGTTTTAAAAAT
* * *
120211 AAAAAACGAGGTTGGAG
66 -AAAAACAAGGTTAGAA
* * * * * *
120228 CACCCCCTCGAAATTGATGGGGCTAGAGTATCCC
1 TATCCCCTCAAAAATGATGGGGTTGGAGTATCCC
120262 CTCAGAAATG
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
80 16 0.10
81 96 0.59
82 52 0.32
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (81 bp):
TATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAATGTTTTAAAAAT
AAAAACAAGGTTAGAA
Found at i:120288 original size:28 final size:28
Alignment explanation
Indices: 120220--120289 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
120210 TAAAAAACGA
*
120220 GGTTGGAGCACCCCCTCGAAATTGATGG
1 GGTTGGAGCATCCCCTCGAAATTGATGG
* * *
120248 GGCTAGAGTATCCCCTCAGAAA-TGATGG
1 GGTTGGAGCATCCCCTC-GAAATTGATGG
120276 GGTTGGAGCATCCC
1 GGTTGGAGCATCCC
120290 TTGAGATGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.21
Consensus pattern (28 bp):
GGTTGGAGCATCCCCTCGAAATTGATGG
Found at i:120419 original size:108 final size:110
Alignment explanation
Indices: 120146--120426 Score: 295
Period size: 108 Copynumber: 2.6 Consensus size: 110
120136 AGGGTTGGAA
* * * * * * * *
120146 TATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATAAAGAAATTCAATG-TTTTAG-AA
1 TATCCCCTCAGAAATGATGGGGTTCGAGCATCCCTTGAAATGAA-AATTTCAATGTTTTTGGAAA
* **
120209 GTAAAAA-ACGAGGTTGGAGCACCCCCTCGAAATTGATGGGGCTAGAG
65 ATAAAAATA-G-GGTTGGAGCACCCCCTCGAAAACGATGGGGCTAGAG
* *
120256 TATCCCCTCAGAAATGATGGGGTTGGAGCATCCCTTGAGATGAAAATTTCAATG-TTTTGGAAAA
1 TATCCCCTCAGAAATGATGGGGTTCGAGCATCCCTTGAAATGAAAATTTCAATGTTTTTGGAAAA
* * *
120320 TAAAAATAGGGTTGGAGTATCCCCTCGAAAACGAT-GGGTTAGAG
66 TAAAAATAGGGTTGGAGCACCCCCTCGAAAACGATGGGGCTAGAG
* * * **
120364 TATCCCTTTAGAAATGATGGGGTTCGAGTATCTCC-TGAAATGAAAATTTTGATGTTTTTGGAA
1 TATCCCCTCAGAAATGATGGGGTTCGAGCATC-CCTTGAAATGAAAATTTCAATGTTTTTGGAA
120427 GGAAAAATTT
Statistics
Matches: 148, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
108 52 0.35
109 46 0.31
110 49 0.33
111 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (110 bp):
TATCCCCTCAGAAATGATGGGGTTCGAGCATCCCTTGAAATGAAAATTTCAATGTTTTTGGAAAA
TAAAAATAGGGTTGGAGCACCCCCTCGAAAACGATGGGGCTAGAG
Found at i:122541 original size:20 final size:20
Alignment explanation
Indices: 122516--122590 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
122506 AATAGCTTGC
*
122516 ATGTATCGATACATTCACGA
1 ATGTATCGATACATTCAAGA
*
122536 ATGTATCGATACATTTAAGA
1 ATGTATCGATACATTCAAGA
122556 ATGTATCGATACATTCAAGA
1 ATGTATCGATACATTCAAGA
*
122576 ATGTATCAATACATT
1 ATGTATCGATACATT
122591 TAGGTCAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTCAAGA
Found at i:122560 original size:40 final size:40
Alignment explanation
Indices: 122516--122592 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
122506 AATAGCTTGC
* *
122516 ATGTATCGATACATTCACGAATGTATCGATACATTTAAGA
1 ATGTATCGATACATTCAAGAATGTATCAATACATTTAAGA
122556 ATGTATCGATACATTCAAGAATGTATCAATACATTTA
1 ATGTATCGATACATTCAAGAATGTATCAATACATTTA
122593 GGTCAAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (40 bp):
ATGTATCGATACATTCAAGAATGTATCAATACATTTAAGA
Found at i:122690 original size:51 final size:52
Alignment explanation
Indices: 122553--122694 Score: 139
Period size: 51 Copynumber: 2.8 Consensus size: 52
122543 GATACATTTA
** * *
122553 AGAATGTATCGATAC-ATTCAAGAATGTATCAATACATTTAGGTCAAAAACCC
1 AGAATGTATCGATACAATAAAAG-ATGAATCGATACATTTAGGTCAAAAACCC
* * * * *
122605 AAAATGTATCGATACAATAAAA-A-AAATACTGATACATTTGGGT-TAAAACCT
1 AGAATGTATCGATACAATAAAAGATGAAT-C-GATACATTTAGGTCAAAAACCC
*
122656 AGAATGTATCGATACAATAAAAGATGCATCGATACATTT
1 AGAATGTATCGATACAATAAAAGATGAATCGATACATTT
122695 TCTTTCCAGA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
50 2 0.03
51 38 0.52
52 27 0.37
53 6 0.08
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.27
Consensus pattern (52 bp):
AGAATGTATCGATACAATAAAAGATGAATCGATACATTTAGGTCAAAAACCC
Found at i:123615 original size:74 final size:75
Alignment explanation
Indices: 123440--123643 Score: 221
Period size: 74 Copynumber: 2.7 Consensus size: 75
123430 GGAGGCTATG
* * * * *
123440 ATGAAACCTAAGTTGAAAAGGGTTGACCAGGGTGAAACTAGAATAGTAAACTAAAGGTAAAAAAA
1 ATGAGACCTAAGTCGAAAAGGGTTAACCAGGGTAAAACAAGAATAGTAAACTAAAGGT-AAAAAA
*
123505 AAGTGAATAGG
65 AAGTGAATAGA
* * *
123516 ATGAGACCTAAGTCGAAAAGGGTTAACCGGGGTAAAACAAGAATAGTCAGCTAAAGGT-AAAAAA
1 ATGAGACCTAAGTCGAAAAGGGTTAACCAGGGTAAAACAAGAATAGTAAACTAAAGGTAAAAAAA
* *
123580 GGTGACTAGA
66 AGTGAATAGA
* * * * * * * *
123590 ATGAGACCTAAGTCGAAATGAGTTAACTAAGGCAAAACTAGATTAGTCAACTAA
1 ATGAGACCTAAGTCGAAAAGGGTTAACCAGGGTAAAACAAGAATAGTAAACTAA
123644 GGGTGATTAG
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
74 58 0.54
76 50 0.46
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (75 bp):
ATGAGACCTAAGTCGAAAAGGGTTAACCAGGGTAAAACAAGAATAGTAAACTAAAGGTAAAAAAA
AGTGAATAGA
Found at i:123976 original size:105 final size:105
Alignment explanation
Indices: 123813--124166 Score: 410
Period size: 105 Copynumber: 3.4 Consensus size: 105
123803 TTGATTGGGT
* * * ** * * *
123813 TGAAATTGATAAGTCAATAAGTTTAAAAAGGTTAACCAAAATGAAATAGATAAATCAACAAAGGA
1 TGAAATTGATAAGTCAATAAGTTTAAAGAGGTTGACTAGGATGAAACAGACAAGTCAACAAAGGA
* *
123878 TAACCAGGATAAAACCTAAGTTAAAGAGGGTTGACCAAGG
66 TGACCAGGATAAAACCTAAGTCAAAGAGGGTTGACCAAGG
* * * *
123918 TGAAATTGATAAGCCAATAAGTTTAAAGGGGTTGACTGGGATGAAACCGACAAGTCAACAAAAGG
1 TGAAATTGATAAGTCAATAAGTTTAAAGAGGTTGACTAGGATGAAACAGACAAGTCAAC-AAAGG
* * *
123983 -TGGCCAAGATAAAACCTAAGTCAAAGAGGATTGACCAAGG
65 ATGACCAGGATAAAACCTAAGTCAAAGAGGGTTGACCAAGG
** * * *
124023 CAAAATTAATAAGTCAATAAGTTTAAAGAGGTTGACTAGGATGAAACGGACAAGTCAATAAA-GA
1 TGAAATTGATAAGTCAATAAGTTTAAAGAGGTTGACTAGGATGAAACAGACAAGTCAACAAAGGA
* * *
124087 GTGATCAGTATAAAACCTAAGTCAAAAAGGGTTGACCAAGG
66 -TGACCAGGATAAAACCTAAGTCAAAGAGGGTTGACCAAGG
* * *
124128 TGAAATCGATAAGTCAACAAG-TT-AAGAGGTTGATTAGGA
1 TGAAATTGATAAGTCAATAAGTTTAAAGAGGTTGACTAGGA
124167 CAAAACTTAC
Statistics
Matches: 209, Mismatches: 37, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
103 16 0.08
104 5 0.02
105 183 0.88
106 5 0.02
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.21
Consensus pattern (105 bp):
TGAAATTGATAAGTCAATAAGTTTAAAGAGGTTGACTAGGATGAAACAGACAAGTCAACAAAGGA
TGACCAGGATAAAACCTAAGTCAAAGAGGGTTGACCAAGG
Found at i:124637 original size:41 final size:41
Alignment explanation
Indices: 124507--124639 Score: 119
Period size: 41 Copynumber: 3.3 Consensus size: 41
124497 CAATAGATAA
* * * *
124507 GAAAAGTTAACCAGAACAAAACTTACAAGTTAACTAAGAGT
1 GAAAGGTTGACCAAAACAAAACTAACAAGTTAACTAAGAGT
** * * *
124548 GAATTGTT-ACTAAAACAAAACTAATAAGTCAACTAACG-GT
1 GAAAGGTTGACCAAAACAAAACTAACAAGTTAACTAA-GAGT
* *
124588 AAAAGGTTGACCAAAACAAAA-TCGACAAGTTAACTAAGAGT
1 GAAAGGTTGACCAAAACAAAACT-AACAAGTTAACTAAGAGT
*
124629 GAAGGGTTGAC
1 GAAAGGTTGAC
124640 TGAAATAAAT
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
40 32 0.44
41 40 0.56
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (41 bp):
GAAAGGTTGACCAAAACAAAACTAACAAGTTAACTAAGAGT
Found at i:125692 original size:13 final size:13
Alignment explanation
Indices: 125674--125699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
125664 CAATTTTTTG
125674 TGTATCGATACAT
1 TGTATCGATACAT
125687 TGTATCGATACAT
1 TGTATCGATACAT
125700 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:126456 original size:76 final size:76
Alignment explanation
Indices: 126328--126741 Score: 260
Period size: 76 Copynumber: 5.4 Consensus size: 76
126318 CTACAATAAG
** * * *
126328 AGAACATGATTAGGAATATGTGGTTTCTATAATTTGCT-TCAACAGCCAAAACAAATTGATAACG
1 AGAACATGATGGGGAATATGTGGTTTCTAAAATTT-CTATTAACAGCCGAAACAAATT-ATAACG
126392 AGCTGAAA-AAGA
64 AGCTGAAACAAGA
** * *
126404 AGATTATGATGGGGAATATGTGGTGTCTAAAATTTCTATTAACAACCGAAACAAATTATTAAC-A
1 AGAACATGATGGGGAATATGTGGTTTCTAAAATTTCTATTAACAGCCGAAACAAATTA-TAACGA
126468 G-TCGAAACAAGCTGA
65 GCT-GAAACAA---GA
* *
126483 AGAACA-GCCTATGGAGAATATGTGGTTTCTAAAATTTCTATTAACAGCTGAAACAAATTAATAA
1 AGAACATG---ATGGGGAATATGTGGTTTCTAAAATTTCTATTAACAGCCGAAACAAATT-ATAA
* *
126547 CG-GCTTAAAGAAGA
62 CGAGCTGAAACAAGA
* * * * * * * * * * * *
126561 AAAACATGATGAGGAATATGTGGTTTCTAAAATCTCCCATCAATAGTCAAAAAAAATCAATCACA
1 AGAACATGATGGGGAATATGTGGTTTCTAAAAT-TTCTATTAACAGCCGAAACAAAT-TATAACG
* * *
126626 AGATG-GAGAAGA
64 AGCTGAAACAAGA
* * * *
126638 AGATCATGAT-GGGAATATGTAGTTTCTAAAATTT-TCATTAA-ATGCCAAAACAAACTGATAAC
1 AGAACATGATGGGGAATATGTGGTTTCTAAAATTTCT-ATTAACA-GCCGAAACAAA-TTATAAC
126700 G-GCCTGAAGA-AA-A
63 GAG-CTGAA-ACAAGA
* **
126713 AGAATATGATGGAAAATATGTGGTTTCTA
1 AGAACATGATGGGGAATATGTGGTTTCTA
126742 TAATATCCCA
Statistics
Matches: 261, Mismatches: 53, Indels: 48
0.72 0.15 0.13
Matches are distributed among these distances:
74 3 0.01
75 38 0.15
76 112 0.43
77 34 0.13
78 10 0.04
79 7 0.03
81 55 0.21
82 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.27
Consensus pattern (76 bp):
AGAACATGATGGGGAATATGTGGTTTCTAAAATTTCTATTAACAGCCGAAACAAATTATAACGAG
CTGAAACAAGA
Found at i:126465 original size:20 final size:20
Alignment explanation
Indices: 126440--126477 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
126430 CTAAAATTTC
126440 TATTAACAACCGAAACAAAT
1 TATTAACAACCGAAACAAAT
**
126460 TATTAACAGTCGAAACAA
1 TATTAACAACCGAAACAA
126478 GCTGAAGAAC
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:0.53, C:0.18, G:0.08, T:0.21
Consensus pattern (20 bp):
TATTAACAACCGAAACAAAT
Found at i:128480 original size:13 final size:13
Alignment explanation
Indices: 128462--128488 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
128452 CAATTTTTTG
128462 TGTATCGATACAT
1 TGTATCGATACAT
128475 TGTATCGATACAT
1 TGTATCGATACAT
128488 T
1 T
128489 CTTACTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:128503 original size:32 final size:33
Alignment explanation
Indices: 128442--128505 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
128432 TACAAGCCAA
* **
128442 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTCTTACTGTATCGATACAT
128475 TGTATCGATAC-ATTCTTACTGTATCGATACA
1 TGTATCGATACAATTCTTACTGTATCGATACA
128506 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATTCTTACTGTATCGATACAT
Found at i:128552 original size:21 final size:21
Alignment explanation
Indices: 128526--128601 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
128516 CTGCCAAGAA
128526 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
128547 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
128567 ATGTATCGATGCATCTTTTTC
1 ATGTATCGATACATCTTTTTC
128588 ATGTATCGATACAT
1 ATGTATCGATACAT
128602 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Done.