Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012517.1 Kokia drynarioides strain JFW-HI SEQ_127522, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 34842
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 50 characters in sequence are not A, C, G, or T
Found at i:647 original size:30 final size:30
Alignment explanation
Indices: 611--843 Score: 121
Period size: 30 Copynumber: 8.0 Consensus size: 30
601 CCCTGGAGGT
* *
611 CCTTAAACTATCCAAAAATCACATTTTGAC
1 CCTTAAACTTTCCAAAAATCACATTTTTAC
* * * *
641 CCTTAAACTCCTCC-AAAATTATATTTTAAC
1 CCTTAAACT-TTCCAAAAATCACATTTTTAC
* *** * *
671 CCTTGAA-TTTTTGAGAATTACA-TTTTAC
1 CCTTAAACTTTCCAAAAATCACATTTTTAC
* * * *
699 CCCTGAACTTTCCAAAATTC-CATTTTTAA
1 CCTTAAACTTTCCAAAAATCACATTTTTAC
* * *
728 CCTT-GATTTTCCCAAAAATTACATTTTTAC
1 CCTTAAACTTT-CCAAAAATCACATTTTTAC
*
758 CCCTAAAC-TTCCTAAAAATC-CATTTTTGAC
1 CCTTAAACTTTCC-AAAAATCACATTTTT-AC
*
788 CC---AA-TTATCCCAAAAATTACATTTTTAC
1 CCTTAAACTT-T-CCAAAAATCACATTTTTAC
* *
816 CCTCAAACTTTCCAAAATTC-CATTTTTA
1 CCTTAAACTTTCCAAAAATCACATTTTTA
844 GCCCCAATTT
Statistics
Matches: 154, Mismatches: 32, Indels: 35
0.70 0.14 0.16
Matches are distributed among these distances:
27 3 0.02
28 29 0.19
29 55 0.36
30 58 0.38
31 7 0.05
32 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
CCTTAAACTTTCCAAAAATCACATTTTTAC
Found at i:725 original size:29 final size:30
Alignment explanation
Indices: 693--994 Score: 140
Period size: 29 Copynumber: 10.3 Consensus size: 30
683 GAGAATTACA
693 TTTTACCCCTGAACTTT-CC-AAAATTCCAT
1 TTTTACCCCT-AACTTTCCCAAAAATTCCAT
* * * * *
722 TTTTAACCTTGATTTTCCCAAAAATTACAT
1 TTTTACCCCTAACTTTCCCAAAAATTCCAT
*
752 TTTTACCCCTAAAC-TTCCTAAAAA-TCCAT
1 TTTTACCCCT-AACTTTCCCAAAAATTCCAT
*
781 TTTTGA-CCC-AA-TTATCCCAAAAATTACAT
1 TTTT-ACCCCTAACTT-TCCCAAAAATTCCAT
*
810 TTTTACCCTCAAACTTT-CC-AAAATTCCAT
1 TTTTACCC-CTAACTTTCCCAAAAATTCCAT
* *
839 TTTTAGCCCC-AATTTTACCAAAAATTACCA-
1 TTTTA-CCCCTAACTTTCCCAAAAATT-CCAT
* * **
869 TTTTACCCCCAAAC-TACCC-AAAATTTTAT
1 TTTTA-CCCCTAACTTTCCCAAAAATTCCAT
* *
898 TTTTGACCTC-GA-TTTCACCAAAAATTGCCA-
1 TTTT-ACCCCTAACTTTC-CCAAAAATT-CCAT
* * *
928 TTTTACCCTCGAA-GTT-CCTAAAATTCCAT
1 TTTTACCC-CTAACTTTCCCAAAAATTCCAT
* *
957 TTTT-CACCCTAATTTTTCC-AAAATTACCAT
1 TTTTAC-CCCTAACTTTCCCAAAAATT-CCAT
*
987 TCTTACCC
1 TTTTACCC
995 TTCAGTGTCT
Statistics
Matches: 210, Mismatches: 33, Indels: 59
0.70 0.11 0.20
Matches are distributed among these distances:
27 3 0.01
28 29 0.14
29 88 0.42
30 74 0.35
31 14 0.07
32 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (30 bp):
TTTTACCCCTAACTTTCCCAAAAATTCCAT
Found at i:828 original size:117 final size:118
Alignment explanation
Indices: 686--994 Score: 362
Period size: 117 Copynumber: 2.6 Consensus size: 118
676 AATTTTTGAG
* * *
686 AATTACATTTTACCC-CTGAACTTTCCAAAATTCCATTTTTAACCTTGATTTTCCCAAAAATTA-
1 AATTACATTTTACCCTC-GAACTTTCCAAAATTCCATTTTTAACCCTAATTTTACCAAAAATTAC
* * *
749 CATTTTTACCCCTAAACTTCCTAAAAATCCATTTTTGACC-CAATTATC-CCAAA
65 CATTTTTACCCCCAAACTACCCAAAAATCCATTTTTGACCTCAATT-TCACCAAA
* * *
802 AATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTAGCCCCAATTTTACCAAAAATTAC
1 AATTACA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCTAATTTTACCAAAAATTAC
* ** *
867 CA-TTTTACCCCCAAACTACCCAAAATTTTATTTTTGACCTCGATTTCACCAAA
65 CATTTTTACCCCCAAACTACCCAAAAATCCATTTTTGACCTCAATTTCACCAAA
* * * *
920 AATTGCCATTTTACCCTCGAA-GTTCCTAAAATTCCATTTTTCACCCTAATTTTTCC-AAAATTA
1 AATT-ACATTTTACCCTCGAACTTTCC-AAAATTCCATTTTTAACCCTAATTTTACCAAAAATTA
*
983 CCATTCTTACCC
64 CCATTTTTACCC
995 TTCAGTGTCT
Statistics
Matches: 164, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
116 7 0.04
117 95 0.58
118 60 0.37
119 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (118 bp):
AATTACATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCTAATTTTACCAAAAATTACC
ATTTTTACCCCCAAACTACCCAAAAATCCATTTTTGACCTCAATTTCACCAAA
Found at i:995 original size:59 final size:58
Alignment explanation
Indices: 686--995 Score: 269
Period size: 59 Copynumber: 5.3 Consensus size: 58
676 AATTTTTGAG
* * * * *
686 AATTA-CATTTTACCC-CTGAACTTTCCAAAATTCCATTTTTAACCTTGATTTTCCCAAA
1 AATTACCATTTTACCCTC-AAAC-TTCCAAAATTCCATTTTTGACCCTAATTTTACCAAA
* * *
744 AATTA-CATTTTTACCC-CTAAACTTCCTAAAAATCCATTTTTGACCC-AATTATCCCAAA
1 AATTACCA-TTTTACCCTC-AAACTTCC-AAAATTCCATTTTTGACCCTAATTTTACCAAA
*
802 AATTA-CATTTTTACCCTCAAACTTTCCAAAATTCCATTTTT-AGCCCCAATTTTACCAAA
1 AATTACCA-TTTTACCCTCAAAC-TTCCAAAATTCCATTTTTGA-CCCTAATTTTACCAAA
* * ** * *
861 AATTACCATTTTACCCCCAAACTACCCAAAATTTTATTTTTGA-CCTCGATTTCACCAAA
1 AATTACCATTTTACCCTCAAACT-TCCAAAATTCCATTTTTGACCCT-AATTTTACCAAA
* * * * *
920 AATTGCCATTTTACCCTCGAAGTTCCTAAAATTCCATTTTTCACCCTAATTTTTCC-AA
1 AATTACCATTTTACCCTCAAACTTCC-AAAATTCCATTTTTGACCCTAATTTTACCAAA
978 AATTACCATTCTTACCCT
1 AATTACCATT-TTACCCT
996 TCAGTGTCTA
Statistics
Matches: 211, Mismatches: 28, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
57 1 0.00
58 73 0.35
59 131 0.62
60 6 0.03
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (58 bp):
AATTACCATTTTACCCTCAAACTTCCAAAATTCCATTTTTGACCCTAATTTTACCAAA
Found at i:1151 original size:15 final size:15
Alignment explanation
Indices: 1133--1181 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
1123 TTTTTATTTT
1133 TGCTTACCATTTATC
1 TGCTTACCATTTATC
1148 TGCTTA--A-TTATC
1 TGCTTACCATTTATC
1160 TTGCTTACCATTTATC
1 -TGCTTACCATTTATC
1176 TGCTTA
1 TGCTTA
1182 ATTATCTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.17
13 7 0.23
15 13 0.43
16 5 0.17
ACGTcount: A:0.20, C:0.22, G:0.08, T:0.49
Consensus pattern (15 bp):
TGCTTACCATTTATC
Found at i:1160 original size:12 final size:13
Alignment explanation
Indices: 1143--1193 Score: 61
Period size: 13 Copynumber: 3.8 Consensus size: 13
1133 TGCTTACCAT
1143 TTATC-TGCTTAA
1 TTATCTTGCTTAA
1155 TTATCTTGCTTACCA
1 TTATCTTGCTTA--A
1170 TTTATC-TGCTTAA
1 -TTATCTTGCTTAA
1183 TTATCTTGCTT
1 TTATCTTGCTT
1194 CATGTTATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 10 0.29
13 12 0.35
15 7 0.21
16 5 0.15
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.53
Consensus pattern (13 bp):
TTATCTTGCTTAA
Found at i:1163 original size:28 final size:28
Alignment explanation
Indices: 1132--1193 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
1122 TTTTTTATTT
1132 TTGCTTACCATTTATCTGCTTAATTATC
1 TTGCTTACCATTTATCTGCTTAATTATC
1160 TTGCTTACCATTTATCTGCTTAATTATC
1 TTGCTTACCATTTATCTGCTTAATTATC
1188 TTGCTT
1 TTGCTT
1194 CATGTTATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.19, C:0.21, G:0.08, T:0.52
Consensus pattern (28 bp):
TTGCTTACCATTTATCTGCTTAATTATC
Found at i:1203 original size:15 final size:14
Alignment explanation
Indices: 1140--1203 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 14
1130 TTTTGCTTAC
1140 CATTTATC-TGCTT
1 CATTTATCTTGCTT
*
1153 -AATTATCTTGCTT
1 CATTTATCTTGCTT
1166 ACCATTTATC-TGCTT
1 --CATTTATCTTGCTT
*
1181 -AATTATCTTGCTT
1 CATTTATCTTGCTT
1194 CATGTTATCT
1 CAT-TTATCT
1204 AATATTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
12 12 0.30
13 10 0.25
14 1 0.03
15 11 0.28
16 6 0.15
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (14 bp):
CATTTATCTTGCTT
Found at i:6515 original size:39 final size:39
Alignment explanation
Indices: 6472--7456 Score: 340
Period size: 39 Copynumber: 25.3 Consensus size: 39
6462 GAAGATCCCG
* * *
6472 ATCTCTTACCCCGAGCTTAGGGTAGATCATCATTAACCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * *
6511 ATCTCTTACCCTGAGCCTGGGGCAGAT--T--GTAGCCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * * * ** ** **
6546 TTCGATCTATTACCACGAGCTTGGGGCAGATCAAAACCAGTAA
1 ----ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * *
6589 ATCTCTTACCCCGAGCCTGGGCTAGATCATCATCAGCAA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * *
6628 ATCTCTTACCCCGAGCCTAGGGAAGATCATCATTAGCAA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * * *
6667 ATCTCTTACCCCAAGCTTGGGGTAGATTGCAGCCA-T--CCG
1 ATCTCTTACCCCGAGCCTGGGGTAGA-T-CA-TCATTAGCCA
* *
6706 ATCTCTTACCTCGAGCCTGGGGCAGATCATCATTAGCCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* *
6745 ATCTCTTACCCCGAGCCTGGGGTAGATTGCAGCCATT---CG
1 ATCTCTTACCCCGAGCCTGGGGTAGA-T-CA-TCATTAGCCA
* * * * *
6784 ATCTCTTACCTCGAACTTGGGTTAGATCATCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* *
6823 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTCATT---CG
1 ATCTCTTACCCCGAGCCTGGGGTAGA-T-CA-TCATTAGCCA
* * * * * * *
6862 ATTTCTTACCCCAAGCTTGGGGCAGATCACCATCAGGCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * * * *
6901 ATCTCTTACCTCGAGCCTGGGGCAAATTGTAGTCATT---CG
1 ATCTCTTACCCCGAGCCTGGGGTAGA-T-CA-TCATTAGCCA
* * * * * **
6940 ATCTCTTACCCCAAACCTGGGGCAGATCACCATCAGTAA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* *
6979 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATT---CA
1 ATCTCTTACCCCGAGCCTGGGGTAGA-T-CA-TCATTAGCCA
* * * * * * *
7018 ATCTCTTACCCCGAGCTTCGGGCAAATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * * * * *
7057 ATCTCTCACCCCAAGCCTGGGGCAGATTGCTACCGTT---CG
1 ATCTCTTACCCCGAGCCTGGGGTAGA-T-C-ATCATTAGCCA
* * * * * *
7096 ATCTCATACCTCGAGCCTAGGGCAGATCATCATCAGTCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * * ** *** * *
7135 TTCTCTTACCCTGAGCCTGGGGCAGAT-AGAAGCCGTTCG
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAG-CCA
* * * * * * *
7174 ATCTTTTACCCCGAGCTTGGGGCAAATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * * * ** *
7213 ATCTCTTACCTCGAGCCTGGGGCAGATTAT-AGTCATTCG
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCA-TTAGCCA
* * * * *
7252 ATCTCTTACCCCGAGCTTGGGGCAGATAATCATCAGCAA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * * * *
7291 ATCTCTTACCCTGATCCTGAGGCAGATTGCAACCATT---CA
1 ATCTCTTACCCCGAGCCTGGGGTAGA-T-C-ATCATTAGCCA
* * * * * * *
7330 ATCTCTTACCTCAAGGCTGAGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
* * *
7369 ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGTCATT---CG
1 ATCTCTTACCCCGAGCCTGGGGTAGA-T-CA-TCATTAGCCA
* * * * *
7408 ATCTCTTATCTCGAGCCTGAGGCAGATCATCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
*
7447 AT-TCTCACCC
1 ATCTCTTACCC
7457 GATCATGAGG
Statistics
Matches: 709, Mismatches: 177, Indels: 121
0.70 0.18 0.12
Matches are distributed among these distances:
35 5 0.01
36 27 0.04
37 15 0.02
38 18 0.03
39 588 0.83
40 12 0.02
41 13 0.02
42 28 0.04
43 3 0.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGTAGATCATCATTAGCCA
Found at i:6566 original size:78 final size:78
Alignment explanation
Indices: 6470--7456 Score: 1045
Period size: 78 Copynumber: 12.7 Consensus size: 78
6460 TTGAAGATCC
* * * * *
6470 CGATCTCTTACCCCGAGCTTAGGGTAGATCATCATTAACCAATCTCTTACCCTGAGCCTGGGGCA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
*
6535 GATTGTAGCCATT
66 GATTGCAGCCATT
* * ** * **
6548 CGATCTATTACCACGAGCTTGGGGCAGATCAAAACCAGTAAATCTCTTACCCCGAGCCT-GGGCT
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGC-
*
6612 AGA-T-CA-TCA-T
65 AGATTGCAGCCATT
* * * * * * *
6622 CAGCAAATCTCTTACCCCGAGCCTAGGGAAGATCATCATTAGCAAATCTCTTACCCCAAGCTTGG
1 C-G---ATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGG
* *
6687 GGTAGATTGCAGCCATC
62 GGCAGATTGCAGCCATT
* * * *
6704 CGATCTCTTACCTCGAGCCTGGGGCAGATCATCATTAGCCAATCTCTTACCCCGAGCCTGGGGTA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
6769 GATTGCAGCCATT
66 GATTGCAGCCATT
* * **
6782 CGATCTCTTACCTCGAACTTGGGTTAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
*
6847 GATTGCAGTCATT
66 GATTGCAGCCATT
* * * * *
6860 CGATTTCTTACCCCAAGCTTGGGGCAGATCACCATCAGGCAATCTCTTACCTCGAGCCTGGGGCA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
* * *
6925 AATTGTAGTCATT
66 GATTGCAGCCATT
* * * * **
6938 CGATCTCTTACCCCAAACCTGGGGCAGATCACCATCAGTAAATCTCTTACCCCGAGCCTGGGGCA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
7003 GATTGCAGCCATT
66 GATTGCAGCCATT
* * * * * * *
7016 CAATCTCTTACCCCGAGCTTCGGGCAAATCACCATCAACCAATCTCTCACCCCAAGCCTGGGGCA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
*
7081 GATTGCTA-CCGTT
66 GATTGC-AGCCATT
* * * * * * *
7094 CGATCTCATACCTCGAGCCTAGGGCAGATCATCATCAGTCATTCTCTTACCCTGAGCCTGGGGCA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
* * *
7159 GATAGAAGCCGTT
66 GATTGCAGCCATT
* * * * *
7172 CGATCTTTTACCCCGAGCTTGGGGCAAATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
** *
7237 GATTATAGTCATT
66 GATTGCAGCCATT
* * * * *
7250 CGATCTCTTACCCCGAGCTTGGGGCAGATAATCATCAGCAAATCTCTTACCCTGATCCTGAGGCA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
*
7315 GATTGCAACCATT
66 GATTGCAGCCATT
* * * * * *
7328 CAATCTCTTACCTCAAGGC-TGAGGCAGATCACCATCAGCCAATCTTTTACCCCGAGCCTGGGGC
1 CGATCTCTTACCCCGA-GCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGC
*
7392 AGATTGCAGTCATT
65 AGATTGCAGCCATT
* * * * *
7406 CGATCTCTTATCTCGAGCCTGAGGCAGATCATCATCAGCCAAT-TCTCACCC
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCC
7457 GATCATGAGG
Statistics
Matches: 755, Mismatches: 140, Indels: 29
0.82 0.15 0.03
Matches are distributed among these distances:
74 2 0.00
75 3 0.00
76 1 0.00
77 14 0.02
78 722 0.96
79 7 0.01
80 2 0.00
81 3 0.00
82 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (78 bp):
CGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
GATTGCAGCCATT
Found at i:7934 original size:6 final size:6
Alignment explanation
Indices: 7925--7996 Score: 58
Period size: 6 Copynumber: 12.2 Consensus size: 6
7915 TTAAATTGGT
** ** **
7925 TTTAAA TTTATT TTTAAA TTTAAA TTT-GT TTTAAA TTTATT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
7972 TTTAAA TTT-AG TTTAAA TTTGAAA T
1 TTTAAA TTTAAA TTTAAA TTT-AAA T
7997 GGTTTTAAAC
Statistics
Matches: 49, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
5 7 0.14
6 38 0.78
7 4 0.08
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:7934 original size:17 final size:15
Alignment explanation
Indices: 7909--8023 Score: 66
Period size: 17 Copynumber: 7.7 Consensus size: 15
7899 TTAAATTATA
*
7909 TTAAGTTTAAATTGGTT
1 TTAAATTTAAA-T-GTT
7926 TTAAATTT--AT-TT
1 TTAAATTTAAATGTT
7938 TTAAATTTAAATTTGTT
1 TTAAATTTAAA--TGTT
7955 TTAAATTT--AT-TT
1 TTAAATTTAAATGTT
*
7967 TTAAATTTAAATTTAGT
1 TTAAATTTAAATGT--T
7984 TTAAATTTGAAATGGTT
1 TTAAATTT-AAAT-GTT
*
8001 TTAAACTT-AAT-TT
1 TTAAATTTAAATGTT
*
8014 TAAAATTTAA
1 TTAAATTTAA
8024 TTTAAAAAGT
Statistics
Matches: 80, Mismatches: 5, Indels: 29
0.70 0.04 0.25
Matches are distributed among these distances:
12 20 0.25
13 9 0.11
14 5 0.06
15 6 0.08
16 1 0.01
17 34 0.43
18 4 0.05
19 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (15 bp):
TTAAATTTAAATGTT
Found at i:7938 original size:11 final size:11
Alignment explanation
Indices: 7914--7975 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
7904 TTATATTAAG
**
7914 TTTAAATTGGT
1 TTTAAATTTAT
7925 TTTAAATTTAT
1 TTTAAATTTAT
*
7936 TTTTAA---A-
1 TTTAAATTTAT
*
7943 TTTAAATTTGT
1 TTTAAATTTAT
7954 TTTAAATTTATT
1 TTTAAATTTA-T
7966 TTTAAATTTA
1 TTTAAATTTA
7976 AATTTAGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
7 5 0.12
8 1 0.03
11 23 0.57
12 11 0.28
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:7948 original size:18 final size:17
Alignment explanation
Indices: 7925--8010 Score: 69
Period size: 17 Copynumber: 5.3 Consensus size: 17
7915 TTAAATTGGT
*
7925 TTTAAATTTATTTTTAAA
1 TTTAAATTT-GTTTTAAA
7943 TTTAAATTTGTTTTAAA
1 TTTAAATTTGTTTTAAA
7960 TTT--A--T-TTTTAAA
1 TTTAAATTTGTTTTAAA
7972 TTTAAATTTAG-TTTAAA
1 TTTAAATTT-GTTTTAAA
*
7989 TTTGAAA-TGGTTTTAAA
1 TTT-AAATTTGTTTTAAA
*
8006 CTTAA
1 TTTAA
8011 TTTTAAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
12 10 0.18
13 1 0.02
14 1 0.02
15 1 0.02
16 4 0.07
17 28 0.49
18 12 0.21
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTAAATTTGTTTTAAA
Found at i:7980 original size:29 final size:29
Alignment explanation
Indices: 7892--7991 Score: 134
Period size: 29 Copynumber: 3.5 Consensus size: 29
7882 GAATCAAACT
* *
7892 TTTGATTTTAAA-TTA-TATTAAGTTTAAA
1 TTTG-TTTTAAATTTATTTTTAAATTTAAA
*
7920 TTGGTTTTAAATTTATTTTTAAATTTAAA
1 TTTGTTTTAAATTTATTTTTAAATTTAAA
7949 TTTGTTTTAAATTTATTTTTAAATTTAAA
1 TTTGTTTTAAATTTATTTTTAAATTTAAA
7978 TTTAG-TTTAAATTT
1 TTT-GTTTTAAATTT
7992 GAAATGGTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
27 7 0.11
28 6 0.09
29 51 0.78
30 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (29 bp):
TTTGTTTTAAATTTATTTTTAAATTTAAA
Found at i:8096 original size:40 final size:40
Alignment explanation
Indices: 8046--8121 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
8036 AAAATACAAA
8046 AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAACACT
1 AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAACACT
*
8086 AAGGCGCAATTACAAGTTTAACTAGACAAACCCAAA
1 AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAA
8122 ACCTAACCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (40 bp):
AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAACACT
Found at i:8721 original size:23 final size:23
Alignment explanation
Indices: 8678--8721 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
8668 GAATATTATT
* *
8678 AATAGTAATAAATATTTTAAATA
1 AATAATAATAAATATTATAAATA
8701 AATAATAAT-AATATTAATAAA
1 AATAATAATAAATATT-ATAAA
8722 AATAAAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AATAATAATAAATATTATAAATA
Found at i:9656 original size:30 final size:30
Alignment explanation
Indices: 9598--9675 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
9588 ATCCAAAAGG
*
9598 TCCCTAAATTTTCCAAAAATACAATTTGAC
1 TCCCTAAACTTTCCAAAAATACAATTTGAC
* *
9628 TCCC-AAACTTTCTAAAAATTATAATTTGAC
1 TCCCTAAACTTTCCAAAAA-TACAATTTGAC
*
9658 -CCCTAATCTTTTCCAAAA
1 TCCCTAAAC-TTTCCAAAA
9676 TCACATATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 15 0.38
30 17 0.43
31 8 0.20
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
TCCCTAAACTTTCCAAAAATACAATTTGAC
Found at i:9720 original size:30 final size:29
Alignment explanation
Indices: 9668--10014 Score: 142
Period size: 30 Copynumber: 11.8 Consensus size: 29
9658 CCCTAATCTT
* * *
9668 TTCC-AAAATCACATATTAACCCTTAAAC
1 TTCCAAAAATTACATTTTTACCCTTAAAC
*
9696 TTCACAAAAATTACATTTTTACCCTCAAAC
1 TTC-CAAAAATTACATTTTTACCCTTAAAC
* * **
9726 TTCAAAAAATTTATATTTTTACCCTCGAAC
1 TTCCAAAAA-TTACATTTTTACCCTTAAAC
**
9756 TTTCCAAAAATTACCA-TTTTACCCTCGAAC
1 -TTCCAAAAATTA-CATTTTTACCCTTAAAC
*** ** * * *** *
9786 TTTTTGAAAATTACCGTTTTGCTCTCGGAT
1 -TTCCAAAAATTACATTTTTACCCTTAAAC
* * *
9816 TTCCAGAACTTACCA-TTTTA-CCTCTAAAT
1 TTCCAAAAATTA-CATTTTTACCCT-TAAAC
*
9845 TTCCAAAAATTCCATTTTTAACCC-TAAAC
1 TTCCAAAAATTACATTTTT-ACCCTTAAAC
* *
9874 TTACAAAAAATTATATTTTTACCCTTAAA-
1 TT-CCAAAAATTACATTTTTACCCTTAAAC
9903 TTGCCAAAAATTCACATTTTTATCCC-TAAAC
1 TT-CCAAAAATT-ACATTTTTA-CCCTTAAAC
* * **
9934 TT-CACAAATTCCCA-TTTTACCCTCGAAC
1 TTCCAAAAATT-ACATTTTTACCCTTAAAC
* * * *
9962 TTCTAAAAA-TATCATTTTAAACCATAAA-
1 TTCCAAAAATTA-CATTTTTACCCTTAAAC
9990 TTCTCTAAAAATTACCA-TTTTACCC
1 TTC-C-AAAAATTA-CATTTTTACCC
10015 CTAAGGTTCT
Statistics
Matches: 242, Mismatches: 54, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
27 3 0.01
28 23 0.10
29 75 0.31
30 121 0.50
31 20 0.08
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTTACCCTTAAAC
Found at i:9863 original size:29 final size:28
Alignment explanation
Indices: 9814--10014 Score: 115
Period size: 29 Copynumber: 6.9 Consensus size: 28
9804 TTGCTCTCGG
* *
9814 ATTTCCAGAACTTACCA-TTTTACCTCTAA
1 ATTTCCAAAAATT-CCATTTTTACC-CTAA
9843 ATTTCCAAAAATTCCATTTTTAACCCTAA
1 ATTTCCAAAAATTCCATTTTT-ACCCTAA
* * **
9872 ACTTACAAAAAATTATATTTTTACCCTTAA
1 A-TTTCCAAAAATTCCATTTTTACCC-TAA
*
9902 ATTGCCAAAAATTCACATTTTTATCCCTAA
1 ATTTCCAAAAATTC-CATTTTTA-CCCTAA
* * *
9932 ACTT-CACAAATTCCCA-TTTTACCCTCGA
1 ATTTCCAAAAATT-CCATTTTTACCCT-AA
* * * *
9960 ACTTCTAAAAATAT-CATTTTAAACCATAA
1 ATTTCCAAAAAT-TCCATTTT-TACCCTAA
*
9989 ATTCTCTAAAAATTACCA-TTTTACCC
1 ATT-TCCAAAAATT-CCATTTTTACCC
10015 CTAAGGTTCT
Statistics
Matches: 135, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
27 4 0.03
28 15 0.11
29 58 0.43
30 53 0.39
31 5 0.04
ACGTcount: A:0.37, C:0.24, G:0.01, T:0.37
Consensus pattern (28 bp):
ATTTCCAAAAATTCCATTTTTACCCTAA
Found at i:9951 original size:59 final size:59
Alignment explanation
Indices: 9829--10018 Score: 162
Period size: 59 Copynumber: 3.3 Consensus size: 59
9819 CAGAACTTAC
*
9829 CATTTTA-CCTCTAAATTTCCAAAAATTCCATTTTTAACCCTAAACTTACAAAAAATTA
1 CATTTTACCCTCTAAATTGCCAAAAATTCCATTTTTAACCCTAAACTTACAAAAAATTA
* * * *
9887 TATTTTTACCCT-TAAATTGCCAAAAATTCACATTTTTATCCCTAAACTT-C-ACAAATTCC
1 CA-TTTTACCCTCTAAATTGCCAAAAATTC-CATTTTTAACCCTAAACTTACAAAAAATT-A
* * * * * * *
9946 CATTTTACCCTCGAACTT-CTAAAAATAT-CATTTTAAACCATAAA-TTCTCTAAAAATTA
1 CATTTTACCCTCTAAATTGCCAAAAAT-TCCATTTTTAACCCTAAACTT-ACAAAAAATTA
10004 CCATTTTACCC-CTAA
1 -CATTTTACCCTCTAA
10019 GGTTCTAAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
56 2 0.02
57 13 0.12
58 27 0.25
59 44 0.41
60 21 0.20
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.37
Consensus pattern (59 bp):
CATTTTACCCTCTAAATTGCCAAAAATTCCATTTTTAACCCTAAACTTACAAAAAATTA
Found at i:10463 original size:23 final size:23
Alignment explanation
Indices: 10433--10480 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
10423 AAATGTAAAA
10433 TCATTTGTTGTTTCCAATTTAAC
1 TCATTTGTTGTTTCCAATTTAAC
10456 TCATTTGTTGTTTCCAATTTAAC
1 TCATTTGTTGTTTCCAATTTAAC
10479 TC
1 TC
10481 TATAAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (23 bp):
TCATTTGTTGTTTCCAATTTAAC
Found at i:20402 original size:14 final size:14
Alignment explanation
Indices: 20381--20412 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
20371 ATTATTTACA
20381 TTTT-TAATTTAAT
1 TTTTCTAATTTAAT
20394 TTTTCTAATTTAAT
1 TTTTCTAATTTAAT
20408 TTTTC
1 TTTTC
20413 CCTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTAATTTAAT
Found at i:25716 original size:17 final size:17
Alignment explanation
Indices: 25694--25731 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
25684 AATTAGTATA
25694 TTTATTTTCAATTTTAT
1 TTTATTTTCAATTTTAT
*
25711 TTTATTTTTAATTTTAT
1 TTTATTTTCAATTTTAT
25728 TTTA
1 TTTA
25732 GTTATGCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTTCAATTTTAT
Found at i:27941 original size:25 final size:23
Alignment explanation
Indices: 27900--27945 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
27890 GCAATTAGGG
*
27900 AATTATTGTTTAGATTTAATTCA
1 AATTATTATTTAGATTTAATTCA
27923 AATTATCTATTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
27946 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCA
Found at i:31721 original size:40 final size:40
Alignment explanation
Indices: 31677--31752 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
31667 AAAATACAAA
*
31677 AAGGCCCAATTACAGGTTTAACTAAACAAACCCAAACACT
1 AAGGCCCAATTACAAGTTTAACTAAACAAACCCAAACACT
*
31717 AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAA
1 AAGGCCCAATTACAAGTTTAACTAAACAAACCCAAA
31753 ACCTAACCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.17
Consensus pattern (40 bp):
AAGGCCCAATTACAAGTTTAACTAAACAAACCCAAACACT
Found at i:33351 original size:58 final size:57
Alignment explanation
Indices: 33289--33470 Score: 174
Period size: 57 Copynumber: 3.1 Consensus size: 57
33279 AAACTTTTCC
* * *
33289 AAAATCATATTTTAACCCCTAACTTCACAAATACTACATTTTACCCCCGAACTTCACA
1 AAAATCATATTTTTACCCCAAACTTCACAAA-ATTACATTTTACCCCCGAACTTCACA
* * *
33347 AAAATTATATTTTTGCCCTCGAAA-TTC-CAAAATTTACATTTTA-CCCCTAACTTC-CAA
1 AAAATCATATTTTTACCC-C-AAACTTCACAAAA-TTACATTTTACCCCCGAACTTCAC-A
* * * * *
33404 AAAAACACATTTTTCCCCCAAACTTCAAAAAATTACCATTTTACCCCCGAACTTCCAAA
1 AAAATCATATTTTTACCCCAAACTTCACAAAATTA-CATTTTACCCCCGAACTT-CACA
33463 AAAATCAT
1 AAAATCAT
33471 TCTTGACCCT
Statistics
Matches: 99, Mismatches: 15, Indels: 19
0.74 0.11 0.14
Matches are distributed among these distances:
55 3 0.03
56 8 0.08
57 37 0.37
58 37 0.37
59 12 0.12
60 2 0.02
ACGTcount: A:0.39, C:0.29, G:0.02, T:0.30
Consensus pattern (57 bp):
AAAATCATATTTTTACCCCAAACTTCACAAAATTACATTTTACCCCCGAACTTCACA
Found at i:33358 original size:29 final size:28
Alignment explanation
Indices: 33297--33795 Score: 222
Period size: 29 Copynumber: 17.2 Consensus size: 28
33287 CCAAAATCAT
* * * *
33297 ATTTTAACCCCTAACTTCACAAATACTAC
1 ATTTTACCCCCGAACTTC-CAAAAATTAC
*
33326 ATTTTACCCCCGAACTTCACAAAAATTAT
1 ATTTTACCCCCGAACTTC-CAAAAATTAC
* * * *
33355 ATTTTTGCCCTCGAAATTCCAAAATTTAC
1 A-TTTTACCCCCGAACTTCCAAAAATTAC
* **
33384 ATTTTA-CCCCTAACTTCCAAAAAAACAC
1 ATTTTACCCCCGAACTTCC-AAAAATTAC
* * *
33412 ATTTTTCCCCCAAACTTCAAAAAATTACC
1 ATTTTACCCCCGAACTTCCAAAAATTA-C
*
33441 ATTTTACCCCCGAACTTCCAAAAA-AATC
1 ATTTTACCCCCGAACTTCCAAAAATTA-C
** *
33469 ATTCTTGA-CCCTAAACTTTTCAAAAATTACC
1 ATT-TT-ACCCCCGAAC-TTCCAAAAATTA-C
* ** * *
33500 ATGTTACCCTTGAATTTCCAAAAAATACC
1 ATTTTACCCCCGAACTTCCAAAAATTA-C
** * *
33529 ATTTTACCCTTGAATTTCCAAAAATTCC
1 ATTTTACCCCCGAACTTCCAAAAATTAC
*
33557 ATTATTAACCCTCGAACTTTCCAAAAATTACC
1 ATT-TT-ACCCCCGAAC-TTCCAAAAATTA-C
*
33589 ATTTTACCCCCGAACTTCCGAAAA-TATC
1 ATTTTACCCCCGAACTTCCAAAAATTA-C
* *** * * *
33617 ATTTTAACATTGAATTTTCTAAAAATTTCC
1 ATTTTACCCCCGAA-CTTCCAAAAA-TTAC
* *
33647 ATTTTACCCCC-AAGCTTCTAGAAATTAC
1 ATTTTACCCCCGAA-CTTCCAAAAATTAC
* * *
33675 TTTTTTTACCCTCG-AGTGTCC-AAAATTACC
1 --ATTTTACCCCCGAACT-TCCAAAAATTA-C
* ** * *
33705 ATTTTGCCCCTAAAGTGTCC-AAAATTATT
1 ATTTTACCCCCGAACT-TCCAAAAATTA-C
* *
33734 ATTTTACCCTCGAACCTCCAAAAATTACC
1 ATTTTACCCCCGAACTTCCAAAAATTA-C
* * * * *
33763 AATTTACCCCTGAGCATCCAAAAATTAT
1 ATTTTACCCCCGAACTTCCAAAAATTAC
33791 ATTTT
1 ATTTT
33796 TTACTCCGTT
Statistics
Matches: 357, Mismatches: 90, Indels: 47
0.72 0.18 0.10
Matches are distributed among these distances:
27 9 0.03
28 60 0.17
29 198 0.55
30 68 0.19
31 18 0.05
32 4 0.01
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (28 bp):
ATTTTACCCCCGAACTTCCAAAAATTAC
Found at i:33507 original size:59 final size:58
Alignment explanation
Indices: 33371--33597 Score: 196
Period size: 59 Copynumber: 3.9 Consensus size: 58
33361 GCCCTCGAAA
* * * * ** *
33371 TTCCAAAATTTA-CATTTTACCC-CTAACTTCCAAAAAA-ACACATTTTTCCCCCAAAC
1 TTCCAAAAATTACCATATTACCCTCGAACTTCCAAAAAATAC-CATTTTACCCTTAAAT
* * * *
33427 TTCAAAAAATTACCATTTTACCCCCGAACTTCCAAAAAA-ATCATTCTTGACCC-TAAACT
1 TTCCAAAAATTACCATATTACCCTCGAACTTCCAAAAAATACCATT-TT-ACCCTTAAA-T
* * * * *
33486 TTTCAAAAATTACCATGTTACCCTTGAATTTCCAAAAAATACCATTTTACCCTTGAAT
1 TTCCAAAAATTACCATATTACCCTCGAACTTCCAAAAAATACCATTTTACCCTTAAAT
*
33544 TTCCAAAAATT-CCATTATTAACCCTCGAACTTTCCAAAAATTACCATTTTACCC
1 TTCCAAAAATTACCA-TATT-ACCCTCGAAC-TTCCAAAAAATACCATTTTACCC
33598 CCGAACTTCC
Statistics
Matches: 141, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
56 10 0.07
57 17 0.12
58 38 0.27
59 49 0.35
60 27 0.19
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (58 bp):
TTCCAAAAATTACCATATTACCCTCGAACTTCCAAAAAATACCATTTTACCCTTAAAT
Found at i:33523 original size:88 final size:89
Alignment explanation
Indices: 33429--33597 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 89
33419 CCCCAAACTT
* * *
33429 CAAAAAATTACCATTTTACCCCCGAACTTCCAAAAAAAT-CATTCTTGACCCT-AAACTTTTCAA
1 CAAAAAA-TACCATTTTACCCCCGAACTTCC-AAAAAATCCATTATTAACCCTCAAACTTTCCAA
33492 AAATTACCATGTTACCCTTGAATTTC
64 AAATTACCATGTTACCCTTGAATTTC
** * * *
33518 CAAAAAATACCATTTTACCCTTGAATTTCCAAAAATTCCATTATTAACCCTCGAACTTTCCAAAA
1 CAAAAAATACCATTTTACCCCCGAACTTCCAAAAAATCCATTATTAACCCTCAAACTTTCCAAAA
*
33583 ATTACCATTTTACCC
66 ATTACCATGTTACCC
33598 CCGAACTTCC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 6 0.09
88 31 0.45
89 32 0.46
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (89 bp):
CAAAAAATACCATTTTACCCCCGAACTTCCAAAAAATCCATTATTAACCCTCAAACTTTCCAAAA
ATTACCATGTTACCCTTGAATTTC
Found at i:33614 original size:88 final size:87
Alignment explanation
Indices: 33325--33789 Score: 292
Period size: 88 Copynumber: 5.3 Consensus size: 87
33315 ACAAATACTA
* * * * *
33325 CATTTTACCCCCGAACTTCACAAAAATTA-TATTTTTGCCCTCGAAATTCCAAAATTTACATTTT
1 CATTTTACCCCCGAACTTC-CAAAAATTACCA-TTTTACCCTCGAATTTCCAAAAATTCCATTTT
* *
33389 ACCC-CTAAC-TTCCAAAAA-AAC
64 ACCCTCAAACTTTCCAAAAATTAC
* * * * * *
33410 ACATTTTTCCCCCAAACTTCAAAAAATTACCATTTTACCCCCGAACTTCCAAAAAAAT-CATTCT
1 -CATTTTACCCCCGAACTTCCAAAAATTACCATTTTACCCTCGAATTTCC-AAAAATTCCATT-T
*
33474 TGACCCT-AAACTTTTCAAAAATTAC
63 T-ACCCTCAAACTTTCCAAAAATTAC
* ** * * *
33499 CATGTTACCCTTGAATTTCCAAAAAATACCATTTTACCCTTGAATTTCCAAAAATTCCATTATTA
1 CATTTTACCCCCGAACTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTCCATT-TT-
*
33564 ACCCTCGAACTTTCCAAAAATTAC
64 ACCCTCAAACTTTCCAAAAATTAC
* * * * * *
33588 CATTTTACCCCCGAACTTCCGAAAA-TATCATTTTAACATTGAATTTTCTAAAAATTTCCATTTT
1 CATTTTACCCCCGAACTTCCAAAAATTACCATTTTACCCTCGAA-TTTCCAAAAA-TTCCATTTT
* * * *
33652 ACCCCCAAGC-TTCTAGAAATTAC
64 ACCCTCAAACTTTCCAAAAATTAC
** * * * * *
33675 TTTTTTTACCCTCG-AGTGTCC-AAAATTACCATTTTGCCC-CTAAAGTGTCCAAAATTATT--A
1 -CATTTTACCCCCGAACT-TCCAAAAATTACCATTTTACCCTC-GAA-TTTCCAAAA--ATTCCA
* *
33735 TTTTACCCTCGAAC-CTCCAAAAATTAC
60 TTTTACCCTCAAACTTTCCAAAAATTAC
* * * *
33762 CAATTTACCCCTGAGCATCCAAAAATTA
1 CATTTTACCCCCGAACTTCCAAAAATTA
33790 TATTTTTTAC
Statistics
Matches: 291, Mismatches: 69, Indels: 37
0.73 0.17 0.09
Matches are distributed among these distances:
85 27 0.09
86 36 0.12
87 59 0.20
88 110 0.38
89 51 0.18
90 8 0.03
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (87 bp):
CATTTTACCCCCGAACTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTCCATTTTAC
CCTCAAACTTTCCAAAAATTAC
Done.