Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold532
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: 62656
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:1014 original size:28 final size:26
Alignment explanation
Indices: 946--1056 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 26
936 ATGAAATTTC
946 TATCATGGAACATTTACCTAAACCCAT
1 TATCATGGAACATTTACCT-AACCCAT
* *
973 TATCATGGAACATTGACCAGAACCCAT
1 TATCATGGAACATTTACC-TAACCCAT
*
1000 TATACATGAAACATTTTACCTAACCCAT
1 TAT-CATGGAACA-TTTACCTAACCCAT
1028 TATTCAT-GAACATTTACCTAACCCAT
1 TA-TCATGGAACATTTACCTAACCCAT
1054 TAT
1 TAT
1057 TCAATTTGTA
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.01
26 16 0.22
27 31 0.42
28 20 0.27
29 6 0.08
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:1025 original size:55 final size:54
Alignment explanation
Indices: 949--1056 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 54
939 AAATTTCTAT
*
949 CATGGAACATTTACCTAAACCCATTA-TCATGGAACATTGACCAGAACCCATTATA
1 CATGAAACATTTACCTAAACCCATTATTCAT-GAACATTGACC-GAACCCATTATA
* *
1004 CATGAAACATTTTACCT-AACCCATTATTCATGAACATTTACCTAACCCATTAT
1 CATGAAACA-TTTACCTAAACCCATTATTCATGAACATTGACCGAACCCATTAT
1057 TCAATTTGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
54 10 0.21
55 27 0.56
56 11 0.23
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (54 bp):
CATGAAACATTTACCTAAACCCATTATTCATGAACATTGACCGAACCCATTATA
Found at i:5776 original size:93 final size:93
Alignment explanation
Indices: 5664--5834 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
5654 GCCCATAAGT
* *
5664 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5729 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
5757 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5822 CGAGTTCGGATGC
66 CGAGTTCGGATGC
5835 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:5831 original size:46 final size:46
Alignment explanation
Indices: 5656--5831 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
5646 TGTAACCCGC
* * *
5656 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
5702 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
5752 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
5795 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5832 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:12513 original size:26 final size:26
Alignment explanation
Indices: 12484--12592 Score: 209
Period size: 26 Copynumber: 4.2 Consensus size: 26
12474 TGGTACAAAT
12484 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12510 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12536 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12562 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12588 TGATA
1 TGATA
12593 GGAATTTCAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16337 original size:27 final size:29
Alignment explanation
Indices: 16276--16337 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
16266 AAAATAATAA
*
16276 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
16305 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
16332 AAATAT
1 AAATAT
16338 GTATGAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:16487 original size:9 final size:10
Alignment explanation
Indices: 16466--16538 Score: 51
Period size: 10 Copynumber: 7.1 Consensus size: 10
16456 TTGAAGTAAT
16466 ATAAAATATA
1 ATAAAATATA
16476 ATAAAA-ATA
1 ATAAAATATA
*
16485 ATATAATGAATA
1 ATAAAAT--ATA
*
16497 ATATATATATA
1 ATA-AAATATA
*
16508 GTAAAATGAT-
1 ATAAAAT-ATA
* *
16518 ATAATATATT
1 ATAAAATATA
16528 ATAAAATATA
1 ATAAAATATA
16538 A
1 A
16539 ATAATAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
9 10 0.21
10 23 0.48
11 7 0.15
12 6 0.12
13 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (10 bp):
ATAAAATATA
Found at i:16506 original size:18 final size:18
Alignment explanation
Indices: 16443--16507 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
16433 AAAATTATAC
* *
16443 ATAATA-ATAAATATTGA
1 ATAATATATATATAATGA
*
16460 AGTAATATAAAATATAAT-A
1 A-TAATAT-ATATATAATGA
16479 A-AA-ATA-ATATAATGA
1 ATAATATATATATAATGA
16494 ATAATATATATATA
1 ATAATATATATATA
16508 GTAAAATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
14 7 0.18
15 3 0.08
16 4 0.11
17 6 0.16
18 10 0.26
19 2 0.05
20 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
ATAATATATATATAATGA
Found at i:26686 original size:16 final size:17
Alignment explanation
Indices: 26655--26690 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26645 TTGAGGGTCA
26655 AATTTATTTAAAATTTT
1 AATTTATTTAAAATTTT
* *
26672 AATTTTTTTAAATTTTT
1 AATTTATTTAAAATTTT
26689 AA
1 AA
26691 AATTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTTATTTAAAATTTT
Found at i:27099 original size:18 final size:19
Alignment explanation
Indices: 27076--27113 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
27066 ACCATTTTCT
27076 GTTAAAAA-GAAAAAAATA
1 GTTAAAAACGAAAAAAATA
27094 GTTAAAAACGGAAAAAAATA
1 GTTAAAAAC-GAAAAAAATA
27114 AAAAGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.68, C:0.03, G:0.13, T:0.16
Consensus pattern (19 bp):
GTTAAAAACGAAAAAAATA
Found at i:27812 original size:152 final size:150
Alignment explanation
Indices: 27652--27923 Score: 474
Period size: 151 Copynumber: 1.8 Consensus size: 150
27642 TTTCGAATTT
*
27652 TATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAAT
1 TATTTTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAAT
* * *
27717 TTAGTAAATAACCTTAATTTTGTTCC-TTTATTTGTATTTTTAAAATTTTCGGATCTTATTTTTT
65 TTAGTAAATAACCCTAATTTTG-TCCGTTTATTTGTATTTTCAAAATTTTCGAATCTTATTTTTT
27781 AAAATATACTATTTTCCTATTC
129 AAAATATACTATTTTCCTATTC
27803 TATTCTTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAAT
1 TATT-TTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAAT
27868 TTAGTAAATAACCCTAATTTTGTCCGTTTATTTGTATTTTCAAAATTTTCGAATCT
65 TTAGTAAATAACCCTAATTTTGTCCGTTTATTTGTATTTTCAAAATTTTCGAATCT
27924 AAATTTTATA
Statistics
Matches: 115, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
150 3 0.03
151 67 0.58
152 45 0.39
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (150 bp):
TATTTTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATT
TAGTAAATAACCCTAATTTTGTCCGTTTATTTGTATTTTCAAAATTTTCGAATCTTATTTTTTAA
AATATACTATTTTCCTATTC
Found at i:34216 original size:12 final size:12
Alignment explanation
Indices: 34188--34226 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
34178 TCGGAAATAG
34188 TTGTGTTTGTTTGT
1 TTGT-TTTGTTT-T
34202 TTGTTTTGTTTT
1 TTGTTTTGTTTT
34214 TTGTTTT-TTTT
1 TTGTTTTGTTTT
34225 TT
1 TT
34227 TAAATGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 8 0.32
13 7 0.28
14 4 0.16
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (12 bp):
TTGTTTTGTTTT
Found at i:35641 original size:21 final size:21
Alignment explanation
Indices: 35615--35660 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
35605 TTTCCCTCAG
35615 CAAATTACACAAAATCTTATT
1 CAAATTACACAAAATCTTATT
35636 CAAATTACACAAAATCTTATT
1 CAAATTACACAAAATCTTATT
35657 CAAA
1 CAAA
35661 AAGGACACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (21 bp):
CAAATTACACAAAATCTTATT
Found at i:36640 original size:88 final size:86
Alignment explanation
Indices: 36341--36858 Score: 442
Period size: 87 Copynumber: 6.0 Consensus size: 86
36331 AAATAAAAAA
* ** *
36341 AATTAAAATTAAATAAAATCTGTTTCAGGAATTTATTCATGCCGTTCAACAGATTTTATT-TCAT
1 AATTAAAATTAAATAAAATCTGTTTC-GGGATTTATTCCCGCCGTTCAACAAATTTTATTCT-AT
36405 TTTTTATTTTGTTTCCAAACGAG
64 TTTTTATTTTGTTTCCAAACGAG
* * * * * *
36428 TATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCTGCTGTTCAACAGATTTTATTCAATTT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATTCTA-TT
36493 TTTTATTTTGTTTCCAAACGAG
65 TTTTATTTTGTTTCCAAACGAG
* * * * *
36515 TATTAAAATTAAAAAATATATATATTTCGGGATTTATTCCCGCTGTTCAACAAATTTTATTCTAT
1 AATTAAAATTAAATAA-A-ATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATTCTAT
*
36580 TTTTTATTTTGTTGCCAAACGAG
64 TTTTTATTTTGTTTCCAAACGAG
* * * *
36603 AAATTAAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAACTAATTTTATTCCA-
1 -AATT-AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATTCTAT
* * * **
36667 TTTTAATTTAGTTTCTAAAATAG
64 TTTTTATTTTGTTTCCAAACGAG
* * * * * * * * *
36690 -ATTTAAATTGAAT-AATTTTGTTTTGGGGGTTTATTCCCACCG-TCTAACAGATTTTATTCGA-
1 AATTAAAATTAAATAAAATCTG-TTTCGGGATTTATTCCCGCCGTTC-AACAAATTTTATTCTAT
* **
36751 TTTTAATTTTGTTTCCAAAATAG
64 TTTTTATTTTGTTTCCAAACGAG
* * * * * * * * * *
36774 AATT-AAATTGAAT-AATTTTGTTTCAGGATTTATTCTCGCCATTTAACAGATTTTCTTCGA-TT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATTCTATTT
** *
36836 TCGATTTTGCTTCCAAACGAG
66 TTTATTTTGTTTCCAAACGAG
36857 AA
1 AA
36859 GACTTAATCA
Statistics
Matches: 367, Mismatches: 54, Indels: 24
0.82 0.12 0.05
Matches are distributed among these distances:
83 56 0.15
84 78 0.21
85 6 0.02
86 30 0.08
87 81 0.22
88 62 0.17
89 43 0.12
90 11 0.03
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (86 bp):
AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAAATTTTATTCTATTT
TTTATTTTGTTTCCAAACGAG
Found at i:36850 original size:83 final size:83
Alignment explanation
Indices: 36382--36852 Score: 343
Period size: 84 Copynumber: 5.5 Consensus size: 83
36372 TTTATTCATG
* * ** * * *
36382 CCGTTCAACAGATTTTATTTC-ATTTTTTATTTTGTTTCCAAACGAGTATTAAAATTAAATAAAA
1 CCGTTTAACAGATTTTA-TTCGA-TTTTAATTTTGTTTCCAAAATAGAATT-AAATTGAAT-AAT
* * **
36446 TCTGTTTCGAGATTTATTCCTG
62 TTTGTTTCGGGATTTATTCCCA
* * * * ** * * *
36468 CTGTTCAACAGATTTTATTCAATTTTTTTATTTTGTTTCCAAACGAGTATTAAAATTAAAAAATA
1 CCGTTTAACAGATTTTATTCGA--TTTTAATTTTGTTTCCAAAATAGAATT-AAATTGAATAAT-
* *
36533 TATATATTTCGGGATTTATTCCCG
62 T-T-TGTTTCGGGATTTATTCCCA
* * * * * * ** *
36557 CTGTTCAACAAATTTTATTCTATTTTTTATTTTGTTGCCAAACGAGAAATTAAAAATTAAATAAA
1 CCGTTTAACAGATTTTATTCGA-TTTTAATTTTGTTTCCAAAATAG-AATT--AAATTGAAT-AA
* *
36622 ATCTGTTTCGGGATTTATTCCCA
61 TTTTGTTTCGGGATTTATTCCCA
* * * *
36645 CCGTTTAACTA-ATTTTATTCCATTTTAATTTAGTTTCTAAAATAGATTTAAATTGAATAATTTT
1 CCGTTTAAC-AGATTTTATTCGATTTTAATTTTGTTTCCAAAATAGAATTAAATTGAATAATTTT
* *
36709 GTTTTGGGGGTTTATTCCCA
65 G-TTTCGGGATTTATTCCCA
*
36729 CCGTCTAACAGATTTTATTCGATTTTAATTTTGTTTCCAAAATAGAATTAAATTGAATAATTTTG
1 CCGTTTAACAGATTTTATTCGATTTTAATTTTGTTTCCAAAATAGAATTAAATTGAATAATTTTG
* * *
36794 TTTCAGGATTTATTCTCG
66 TTTCGGGATTTATTCCCA
* * ** *
36812 CCATTTAACAGATTTTCTTCGATTTCGATTTTGCTTCCAAA
1 CCGTTTAACAGATTTTATTCGATTTTAATTTTGTTTCCAAA
36853 CGAGAAGACT
Statistics
Matches: 327, Mismatches: 47, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
83 54 0.17
84 82 0.25
85 3 0.01
86 22 0.07
87 55 0.17
88 58 0.18
89 41 0.13
90 10 0.03
91 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (83 bp):
CCGTTTAACAGATTTTATTCGATTTTAATTTTGTTTCCAAAATAGAATTAAATTGAATAATTTTG
TTTCGGGATTTATTCCCA
Found at i:36967 original size:77 final size:78
Alignment explanation
Indices: 36832--37005 Score: 183
Period size: 77 Copynumber: 2.2 Consensus size: 78
36822 GATTTTCTTC
* * * *
36832 GATTTCGATTTTGCTTCCAAACGAGAAGACTTAATCAAATAATTCTGTTTTGAAATTTAATCCTG
1 GATTTTGATTTTGTTTCCAAAC--GAAGACTTAATCAAATAATTCTATTTCGAAATTTAATCCTG
*
36897 -CTGCTT-AACAGATTT
64 TC-G-TTCAACAGACTT
* * * * * *
36912 TATTTTGATTTTGTTTCCAAAC-AAGATTTAATTAAATAATTTTATTTCGAGATTTAATCTTGTC
1 GATTTTGATTTTGTTTCCAAACGAAGACTTAATCAAATAATTCTATTTCGAAATTTAATCCTGTC
36976 GTTCAACAGACTT
66 GTTCAACAGACTT
*
36989 GATCTTGATTTTGTTTC
1 GATTTTGATTTTGTTTC
37006 AGAAATTTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
76 2 0.03
77 57 0.72
78 1 0.01
80 19 0.24
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (78 bp):
GATTTTGATTTTGTTTCCAAACGAAGACTTAATCAAATAATTCTATTTCGAAATTTAATCCTGTC
GTTCAACAGACTT
Found at i:37499 original size:40 final size:40
Alignment explanation
Indices: 37441--37530 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
37431 CGAAAAACTC
* *
37441 CAAGCATTAGCGGTGC-TTTCCTGAAAACGCCGCTAAATAT
1 CAAGCATTAGCGGCGCTTTTCC-GAAAACGCCGCTAAAGAT
*
37481 CAAGCATTAGCTGCGCTTTTCCGAAAACGCCGCTAAAGAT
1 CAAGCATTAGCGGCGCTTTTCCGAAAACGCCGCTAAAGAT
37521 CAAGCATTAG
1 CAAGCATTAG
37531 TGGAAGATCG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 41 0.89
41 5 0.11
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAGCATTAGCGGCGCTTTTCCGAAAACGCCGCTAAAGAT
Found at i:37645 original size:40 final size:40
Alignment explanation
Indices: 37545--37645 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
37535 AGATCGGGAT
* * ** *
37545 TTAGCGGCGCTTTTCGAAAAATGCTTCTAAATATCAAGCA
1 TTAGCGGCGCTTTTAGAAAAACGCCGCTAAAGATCAAGCA
* * *
37585 TTAGCGGCGCTTTCAAAAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCGCTTTTAGAAAAACGCCGCTAAAGATCAAGCA
* *
37625 TTAGCGGCGTTTTTTGAAAAA
1 TTAGCGGCGCTTTTAGAAAAA
37646 TGCCACAAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (40 bp):
TTAGCGGCGCTTTTAGAAAAACGCCGCTAAAGATCAAGCA
Found at i:37918 original size:14 final size:14
Alignment explanation
Indices: 37901--37951 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
37891 TATTTTGTGA
37901 TTAGAGTTTTGAGT
1 TTAGAGTTTTGAGT
* *
37915 TTAGGGTTTAGAGT
1 TTAGAGTTTTGAGT
*
37929 TTAAAGTTTGTG-GT
1 TTAGAGTTT-TGAGT
*
37943 TTAGGGTTT
1 TTAGAGTTT
37952 ATTTTTTTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 28 0.97
15 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TTAGAGTTTTGAGT
Found at i:37936 original size:21 final size:21
Alignment explanation
Indices: 37901--37952 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
37891 TATTTTGTGA
**
37901 TTAGAGTTTTGAGTTTAG-GGT
1 TTAGAGTTTAAAGTTT-GTGGT
37922 TTAGAGTTTAAAGTTTGTGGT
1 TTAGAGTTTAAAGTTTGTGGT
*
37943 TTAGGGTTTA
1 TTAGAGTTTA
37953 TTTTTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTAGAGTTTAAAGTTTGTGGT
Found at i:39023 original size:22 final size:22
Alignment explanation
Indices: 38998--39059 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
38988 AAAATCTTCA
*
38998 AAAAAATTTAAAATTTAAAACT
1 AAAAAATTAAAAATTTAAAACT
* *
39020 AAAAAATAAAAAACTTAAAACT
1 AAAAAATTAAAAATTTAAAACT
* *
39042 TAAAACTTAAAAATTTAA
1 AAAAAATTAAAAATTTAA
39060 TATTTTAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAAAATTAAAAATTTAAAACT
Found at i:39025 original size:15 final size:14
Alignment explanation
Indices: 39007--39059 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
38997 AAAAAAATTT
39007 AAAATTTAAAACTAA
1 AAAATTTAAAACT-A
** *
39022 AAAATAAAAAACTT
1 AAAATTTAAAACTA
*
39036 AAAACTTAAAACTTA
1 AAAATTTAAAAC-TA
39051 AAAATTTAA
1 AAAATTTAA
39060 TATTTTAGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATTTAAAACTA
Found at i:39030 original size:29 final size:29
Alignment explanation
Indices: 38998--39055 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
38988 AAAATCTTCA
* *
38998 AAAAAATTTAAAATTTAAAACTAAAAAAT
1 AAAAAACTTAAAACTTAAAACTAAAAAAT
*
39027 AAAAAACTTAAAACTTAAAACTTAAAAAT
1 AAAAAACTTAAAACTTAAAACTAAAAAAT
39056 TTAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (29 bp):
AAAAAACTTAAAACTTAAAACTAAAAAAT
Found at i:41674 original size:8 final size:8
Alignment explanation
Indices: 41661--41699 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
41651 TTACTACGTT
41661 TTTTAAAA
1 TTTTAAAA
41669 TTTTAAAA
1 TTTTAAAA
*
41677 TTTTAACA
1 TTTTAAAA
41685 TTTTGAAAAA
1 TTTT--AAAA
41695 TTTTA
1 TTTTA
41700 TTAATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 20 0.74
10 7 0.26
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:43675 original size:15 final size:16
Alignment explanation
Indices: 43655--43684 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43645 ATTTTGTCTC
43655 ATATATGAT-TAAAAT
1 ATATATGATCTAAAAT
43670 ATATATGATCTAAAA
1 ATATATGATCTAAAA
43685 GCAAGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (16 bp):
ATATATGATCTAAAAT
Found at i:45298 original size:21 final size:22
Alignment explanation
Indices: 45274--45318 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
45264 TAATGGAAAA
45274 TTTA-ATTTAATTAATATTTTT
1 TTTATATTTAATTAATATTTTT
*
45295 TTTATTTTTTAATTAATATTTTT
1 TTTA-TATTTAATTAATATTTTT
45318 T
1 T
45319 AAATTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
23 17 0.81
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATATTTAATTAATATTTTT
Found at i:45324 original size:23 final size:23
Alignment explanation
Indices: 45279--45324 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45269 GAAAATTTAA
**
45279 TTTAATTAATATTTTTTTTATTT
1 TTTAATTAATATTTTTTAAATTT
45302 TTTAATTAATATTTTTTAAATTT
1 TTTAATTAATATTTTTTAAATTT
45325 CAAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTAATTAATATTTTTTAAATTT
Found at i:49255 original size:30 final size:30
Alignment explanation
Indices: 49221--49281 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49211 TCCTTAACTC
49221 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
49251 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
49281 A
1 A
49282 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:50962 original size:11 final size:11
Alignment explanation
Indices: 50939--50991 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 11
50929 ATTTTAATCC
50939 TTTTATATATAT
1 TTTTATAT-TAT
50951 TTTTATATTA-
1 TTTTATATTAT
50961 -TTTAT-TTA-
1 TTTTATATTAT
*
50969 TTTTA-AATAT
1 TTTTATATTAT
50979 TTTTATATTAT
1 TTTTATATTAT
50990 TT
1 TT
50992 ATTTTACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.09
9 11 0.31
10 5 0.14
11 8 0.23
12 8 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATTAT
Found at i:50979 original size:28 final size:29
Alignment explanation
Indices: 50947--51004 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
50937 CCTTTTATAT
*
50947 ATATTTTTATATTATTTA-TTTATTTTAA
1 ATATTTTTATATTATTTATTTTACTTTAA
50975 ATATTTTTATATTATTTATTTTACTTTAA
1 ATATTTTTATATTATTTATTTTACTTTAA
51004 A
1 A
51005 CCTTATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
ATATTTTTATATTATTTATTTTACTTTAA
Found at i:50992 original size:19 final size:19
Alignment explanation
Indices: 50939--50992 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
50929 ATTTTAATCC
**
50939 TTTTATATATATTTTTATAT
1 TTTTATAT-TATTTAAATAT
50959 TATTTAT-TTATTTTAAATAT
1 T-TTTATATTA-TTTAAATAT
50979 TTTTATATTATTTA
1 TTTTATATTATTTA
50993 TTTTACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 11 0.38
20 13 0.45
21 5 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATATTATTTAAATAT
Found at i:50994 original size:15 final size:15
Alignment explanation
Indices: 50948--50996 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
50938 CTTTTATATA
50948 TATTTTTATATTATT
1 TATTTTTATATTATT
* **
50963 TA--TTTATTTTAAA
1 TATTTTTATATTATT
50976 TATTTTTATATTATT
1 TATTTTTATATTATT
50991 TATTTT
1 TATTTT
50997 ACTTTAAACC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 10 0.38
15 16 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTTATATTATT
Found at i:51057 original size:12 final size:12
Alignment explanation
Indices: 51040--51090 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
51030 ATTTTATTTG
51040 TATTATTTATTA
1 TATTATTTATTA
51052 TATTATTTATT-
1 TATTATTTATTA
*
51063 TTTTATTGTA-TA
1 TATTATT-TATTA
51075 -A-TATTTATTA
1 TATTATTTATTA
51085 TATTAT
1 TATTAT
51091 GTATAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
9 2 0.06
10 6 0.19
11 8 0.25
12 16 0.50
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:51085 original size:33 final size:30
Alignment explanation
Indices: 50948--51090 Score: 96
Period size: 28 Copynumber: 4.5 Consensus size: 30
50938 CTTTTATATA
*
50948 TATTT-TTATATTATTTA-TTTATTT-TAAA
1 TATTTATTATATTATTTATTTTATTTGT-AT
**
50976 TATTT-TTATATTATTTATTTTACTTTAAACCT
1 TATTTATTATATTATTTATTTTA-TTTGTA--T
* *
51008 TATTTATATGCAAAAAATATTTATTTTATTTGTAT
1 TATTTAT-T----ATATTATTTATTTTATTTGTAT
*
51043 TATTTATTATATTATTTATTTTTTATTGTAT
1 TATTTATTATATTATTTATTTTAT-TTGTAT
51074 AATATTTATTATATTAT
1 --TATTTATTATATTAT
51091 GTATAATTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
28 17 0.18
29 4 0.04
30 17 0.18
31 6 0.07
32 5 0.05
33 16 0.17
34 2 0.02
35 8 0.09
37 4 0.04
38 13 0.14
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (30 bp):
TATTTATTATATTATTTATTTTATTTGTAT
Found at i:51156 original size:15 final size:15
Alignment explanation
Indices: 51117--51157 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
51107 TTTGTAAATT
51117 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
51132 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
51145 ATTATTAAATATT
1 ATTATTAAATATT
51158 TAGTATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:51171 original size:21 final size:21
Alignment explanation
Indices: 51124--51171 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
51114 ATTATTATTA
* *
51124 AATATTACATTTTTATATATC
1 AATATTAAATATTTATATATC
*
51145 ATTATTAAATATTTAGTATAT-
1 AATATTAAATATTTA-TATATC
51166 AATATT
1 AATATT
51172 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
AATATTAAATATTTATATATC
Found at i:51782 original size:31 final size:31
Alignment explanation
Indices: 51706--51779 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
51696 TCAAGTTATC
*
51706 TTAAATATTAAAATAAAAATAAAAATTTTGAA
1 TTAAATA-TAAAATAAAAATAAAAATTTAGAA
*
51738 TCAAA-ACTAAAATAAATAATAAAAA-TTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATTTAGAA
51768 TTAAATATAAAA
1 TTAAATATAAAA
51780 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATTTAGAA
Found at i:56459 original size:34 final size:34
Alignment explanation
Indices: 56419--56486 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
56409 AGTAAACCTT
56419 AAATCCTAAACCATTTAATATATAAAAAGCCTAA
1 AAATCCTAAACCATTTAATATATAAAAAGCCTAA
*
56453 AAATCCTAAACCATTTAATATATATAAAGCCTAA
1 AAATCCTAAACCATTTAATATATAAAAAGCCTAA
56487 TCCTTAAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (34 bp):
AAATCCTAAACCATTTAATATATAAAAAGCCTAA
Found at i:56546 original size:14 final size:15
Alignment explanation
Indices: 56508--56548 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
56498 ACCTAACACT
56508 TAACCCTT-AACCCC
1 TAACCCTTAAACCCC
*
56522 TAAGCCTTAAACCCC
1 TAACCCTTAAACCCC
56537 -AACCCTTAAACC
1 TAACCCTTAAACC
56549 ATAAACTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.34, C:0.44, G:0.02, T:0.20
Consensus pattern (15 bp):
TAACCCTTAAACCCC
Found at i:56567 original size:14 final size:15
Alignment explanation
Indices: 56547--56583 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
56537 AACCCTTAAA
56547 CCATAAACT-ATAAT
1 CCATAAACTCATAAT
*
56561 CCCTAAACTCATAAT
1 CCATAAACTCATAAT
56576 CCATAAAC
1 CCATAAAC
56584 CTTAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (15 bp):
CCATAAACTCATAAT
Found at i:56589 original size:22 final size:22
Alignment explanation
Indices: 56540--56647 Score: 82
Period size: 22 Copynumber: 5.0 Consensus size: 22
56530 AAACCCCAAC
* *
56540 CCTTAAAC-CATAAACTATAAT
1 CCTTAAACTCATAAACCATAAA
* *
56561 CCCTAAACTCATAATCCATAAA
1 CCTTAAACTCATAAACCATAAA
* *
56583 CCTTAAAAT-AGT-AACTCATACA
1 CCTTAAACTCA-TAAAC-CATAAA
* *
56605 CTTTAAACTC-TAAACCATATA
1 CCTTAAACTCATAAACCATAAA
*
56626 CCTTAAA-TCATAAACCCTAAA
1 CCTTAAACTCATAAACCATAAA
56647 C
1 C
56648 TATAATGATA
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
20 2 0.03
21 32 0.48
22 33 0.49
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (22 bp):
CCTTAAACTCATAAACCATAAA
Found at i:56757 original size:7 final size:7
Alignment explanation
Indices: 56745--56792 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
56735 ACTAATTAAT
56745 CTAAACC
1 CTAAACC
56752 CTAAACTC
1 CTAAAC-C
*
56760 CTAATCC
1 CTAAACC
*
56767 CTAATCC
1 CTAAACC
56774 CTAAACC
1 CTAAACC
* *
56781 GTAAATC
1 CTAAACC
56788 CTAAA
1 CTAAA
56793 ACATGAACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.40, C:0.35, G:0.02, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:56824 original size:23 final size:21
Alignment explanation
Indices: 56798--56845 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
56788 CTAAAACATG
56798 AACCTTAAACCCACTAACACTTA
1 AACCTTAAA-CCAC-AACACTTA
*
56821 AACCTTAAACCACAACCCTTA
1 AACCTTAAACCACAACACTTA
56842 AACC
1 AACC
56846 ATAATCCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.46
22 4 0.17
23 9 0.38
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCTTAAACCACAACACTTA
Found at i:56842 original size:14 final size:15
Alignment explanation
Indices: 56823--56859 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
56813 AACACTTAAA
56823 CCTTAAACCACAA-C
1 CCTTAAACCACAATC
*
56837 CCTTAAACCATAATC
1 CCTTAAACCACAATC
56852 CC-TAAACC
1 CCTTAAACC
56860 CATAATCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (15 bp):
CCTTAAACCACAATC
Found at i:56862 original size:15 final size:15
Alignment explanation
Indices: 56840--56874 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
56830 CCACAACCCT
*
56840 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
56854 TAAACCCATAATCCA
1 TAAACCCATAATCCA
56869 TAAACC
1 TAAACC
56875 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:56879 original size:22 final size:21
Alignment explanation
Indices: 56842--56925 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 21
56832 ACAACCCTTA
* *
56842 AACCATAATCCCTAAACCCAT
1 AACCATAAACCTTAAACCCAT
***
56863 AATCCATAAACCTTAAAATAAT
1 AA-CCATAAACCTTAAACCCAT
* *
56885 AACTCATAAACATTAAACCCTT
1 AAC-CATAAACCTTAAACCCAT
* *
56907 AACCATATACCGTAAACCC
1 AACCATAAACCTTAAACCC
56926 TAAACTATAA
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
21 16 0.33
22 32 0.67
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (21 bp):
AACCATAAACCTTAAACCCAT
Found at i:59697 original size:22 final size:22
Alignment explanation
Indices: 59669--59744 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
59659 AGGTGTGTAT
59669 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
59691 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
59716 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
59738 ATGTGAT
1 ATGTGAT
59745 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:59730 original size:47 final size:47
Alignment explanation
Indices: 59661--60006 Score: 552
Period size: 47 Copynumber: 7.4 Consensus size: 47
59651 GGTGTACAAG
*
59661 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
59708 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
59755 GTGTATATA-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
59801 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
59848 GTGTATATATGTGA-AAGGCCGAATGGCCAATGTGATGAATGTGAAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA
*
59895 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
59942 GTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
59989 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
60007 TCCCGAAGGG
Statistics
Matches: 277, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 70 0.25
47 180 0.65
48 27 0.10
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:59788 original size:93 final size:94
Alignment explanation
Indices: 59661--60006 Score: 606
Period size: 93 Copynumber: 3.7 Consensus size: 94
59651 GGTGTACAAG
* * *
59661 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
59726 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCGATGTGATGAATGTGAAA
59755 GTGTATATA-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
59819 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCGATGTGATGAATGTGAAA
59848 GTGTATATATGTGA-AAGGCCGAATGGCCAATGTGATGAATGTGAAAAGTGTGTATATGTGATAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AAAGTGTGTATATGTGATAA
59912 GGCCTAATGGCCGATGTGATGAATGTGAAA
65 GGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
59942 GTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
60007 TCCCGAAGGG
Statistics
Matches: 242, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
93 120 0.50
94 94 0.39
95 28 0.12
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (94 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
GCCTAATGGCCGATGTGATGAATGTGAAA
Done.