Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold716
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: 33663
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Found at i:15331 original size:108 final size:107
Alignment explanation
Indices: 15219--15749 Score: 320
Period size: 111 Copynumber: 4.8 Consensus size: 107
15209 TGTAAATGGG
* * *
15219 TCTATCCCAACATTTTTAACGTTGTC-TTAGATAGGTCAATCCCAACCTTTTCTAAAAGTTGCTT
1 TCTATCCCAACATTTTTAACGTTG-CATTAGAAAGGTCTATCCCAACCTTTT-TAAAAGTTGCCT
* * * *
15283 TAGACAAGATCTATTCCAACCTTTTGGAGGTTACCTTAGACGA-A
64 TAGACAAG-TCTATCCCAACCTTTTGAAGGTTACCTTAAACAAGA
* * * ** * *
15327 TCTATCCCAACCTTTTTAAGGTTGCTTTAGACAA-GTCTATCGTAACCTTTTTTTAAGGTTGCCT
1 TCTATCCCAACATTTTTAACGTTGCATTAGA-AAGGTCTATCCCAACC-TTTTTAAAAGTTGCCT
* * *
15391 TAAACAAGTCTATCCCAACCCTTTTTTAAGGTTGCCTTAAACAAGA
64 TAGACAAGTCTATCCCAA-CC-TTTTGAAGGTTACCTTAAACAAGA
* * * *
15437 TCTATCCCAACCTTTTTTAAATGTTGCATTAGACAAGGTCTATCTCAACATTTTTAAAAGGTTGC
1 TCTATCCCAA-CATTTTT-AACGTTGCATTAGA-AAGGTCTATCCCAACCTTTTTAAAA-GTTGC
* * * * ** *
15502 CTTAGATAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCCTGGACAAGG
62 CTTAGACAA-GTCTATCCCAACC--TTTTGAAGGTTACCTTAAACAAGA
* * * * * * * *
15551 TCTA-CACCAACCTATTTAAGGTTGCTTTAG-ACGATTCTATCCCAATCTTTTTTAAAGGTTGCC
1 TCTATC-CCAACATTTTTAACGTTGCATTAGAAAG-GTCTATCCCAA-CCTTTTTAAAAGTTGCC
* * * * * * * * * *
15614 TTAGACAAGGTTTATCGCAACTTTTTTTAAATGTTGCCTTAGATATGG
63 TTAGACAA-GTCTATCCCAAC--CTTTTGAAGGTTACCTTAAACAAGA
* * * ** *
15662 TCTATCCCAACTTTTTTTAAAGGTTATC-TTAGACTGGTCTATCCCAACCTTTTT-AAGGTTGCC
1 TCTATCCCAAC-ATTTTT-AACGTT-GCATTAGAAAGGTCTATCCCAACCTTTTTAAAAGTTGCC
* *
15725 TTAGACAGGTCTATCACAACCTTTT
63 TTAGACAAGTCTATCCCAACCTTTT
15750 TCAAAGGTTG
Statistics
Matches: 341, Mismatches: 60, Indels: 44
0.77 0.13 0.10
Matches are distributed among these distances:
107 10 0.03
108 59 0.17
109 22 0.06
110 23 0.07
111 83 0.24
112 53 0.16
113 50 0.15
114 41 0.12
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (107 bp):
TCTATCCCAACATTTTTAACGTTGCATTAGAAAGGTCTATCCCAACCTTTTTAAAAGTTGCCTTA
GACAAGTCTATCCCAACCTTTTGAAGGTTACCTTAAACAAGA
Found at i:15592 original size:187 final size:183
Alignment explanation
Indices: 15257--15795 Score: 552
Period size: 187 Copynumber: 2.9 Consensus size: 183
15247 AGATAGGTCA
* * * * * * **
15257 ATCCCAACCTTTTCTAAAAGTTGCTTTAGACAAGATCTATTCCAAC-CTTTT-GGAGGTTACCTT
1 ATCCCAACCTTTTTTAAATGTTGCATTAGACAAGGTCTATCCCAACATTTTTAAAAGGTTACCTT
* ** * ** *
15320 AGAC-GAATCTATCCCAACCTTTTTAAGGTTGCTTTAGACAAGTCTATCGTAACCTTTTTTTAAG
66 AGACTG-GTCTATCCCAACCTTTTTAAGGTTGCCCTAGACAGGTCTATCACAACC--TATTTAAG
15384 GTTGCCTTAAACAAGTCTATCCCAACCCTTTTTT-AAGGTTGCCTTAAACAAGATCT
128 GTTGCCTTAAACAAGTCTATCCCAA-CCTTTTTTAAAGGTTGCCTTAAACAAGATCT
* *
15440 ATCCCAACCTTTTTTAAATGTTGCATTAGACAAGGTCTATCTCAACATTTTTAAAAGGTTGCCTT
1 ATCCCAACCTTTTTTAAATGTTGCATTAGACAAGGTCTATCCCAACATTTTTAAAAGGTTACCTT
*
15505 AGA-TAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCCTGGACAAGGTCTA-CACCAACCTATTT
66 AGACT--GGTCTATCCCAACC-TTTTT-AAGGTTGCCCTAGAC-AGGTCTATCA-CAACCTATTT
* * * * * * * *
15568 AAGGTTGCTTTAGACGATTCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAGGTTT
125 AAGGTTGCCTTAAACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAAGATCT
* * * * * * * *
15627 ATCGCAACTTTTTTTAAATGTTGCCTTAGATATGGTCTATCCCAACTTTTTTTAAAGGTTATCTT
1 ATCCCAACCTTTTTTAAATGTTGCATTAGACAAGGTCTATCCCAACATTTTTAAAAGGTTACCTT
* *
15692 AGACTGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCACAACCTTTTTCAAAGG
66 AGACTGGTCTATCCCAACCTTTTTAAGGTTGCCCTAGACAGGTCTATCACAACCTATTT--AAGG
* * *
15757 TTGGCCTT-GACTAGGTCTATCGCAACCTTTTTTAAAGGT
129 TT-GCCTTAAAC-AAGTCTATCCCAACCTTTTTTAAAGGT
15796 CGGCATTGAC
Statistics
Matches: 295, Mismatches: 45, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
183 56 0.19
184 19 0.06
185 26 0.09
186 59 0.20
187 111 0.38
188 14 0.05
189 10 0.03
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (183 bp):
ATCCCAACCTTTTTTAAATGTTGCATTAGACAAGGTCTATCCCAACATTTTTAAAAGGTTACCTT
AGACTGGTCTATCCCAACCTTTTTAAGGTTGCCCTAGACAGGTCTATCACAACCTATTTAAGGTT
GCCTTAAACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAAGATCT
Found at i:15807 original size:38 final size:38
Alignment explanation
Indices: 15078--15795 Score: 550
Period size: 38 Copynumber: 19.6 Consensus size: 38
15068 GAGACAAATA
* * *
15078 TCTATCCCGACC-TTTTT-AAGTTTGCCTTAGAC-GGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* *
15113 TTTATCCTAA-CTTTTTT-AAGGTTGCCTTAGAC-AGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* * * * **
15148 TTTATCCCAA-TTTTTTTTAA-GTTGCCTTGGAAAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
** * * *
15184 TCTATCTTAA-CTTTTTT-AAGGTTG-TTGTA-AATGGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCT-TAGACTAGG
* * *
15219 TCTATCCCAA-CATTTTT-AACGTTGTCTTAGA-TAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* * * * * *
15254 TCAATCCCAACCTTTTCTAAAAGTTGCTTTAGACAAGA
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* ** * * *
15292 TCTATTCCAACC--TTTTGGAGGTTACCTTAGACGA-A
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* *
15327 TCTATCCCAACC-TTTTT-AAGGTTGCTTTAGAC-AAG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
** * * *
15362 TCTATCGTAACCTTTTTTTAAGGTTGCCTTAAAC-AAG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* * *
15399 TCTATCCCAACCCTTTTTT-AAGGTTGCCTTAAACAAGA
1 TCTATCCCAA-CCTTTTTTAAAGGTTGCCTTAGACTAGG
* * *
15437 TCTATCCCAACCTTTTTTAAATGTTGCATTAGACAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* * *
15475 TCTATCTCAACATTTTTAAAAGGTTGCCTTAGA-TAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACT-AGG
* * *
15513 TCTATCCCAACCTTTTTTAAAGGTTGCCCTGGACAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* * * *
15551 TCTA-CACCAACC-TATTT-AAGGTTGCTTTAGACGA-T
1 TCTATC-CCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* *
15586 TCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* * * *
15624 TTTATCGCAACTTTTTTTAAATGTTGCCTTAGA-TATGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTA-GG
* **
15662 TCTATCCCAACTTTTTTTAAAGGTTATCTTAGACT-GG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
15699 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGAC-AGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
* *
15734 TCTATCACAACCTTTTTCAAAGGTTGGCCTT-GACTAGG
1 TCTATCCCAACCTTTTTTAAAGGTT-GCCTTAGACTAGG
*
15772 TCTATCGCAACCTTTTTTAAAGGT
1 TCTATCCCAACCTTTTTTAAAGGT
15796 CGGCATTGAC
Statistics
Matches: 554, Mismatches: 98, Indels: 59
0.78 0.14 0.08
Matches are distributed among these distances:
34 2 0.00
35 163 0.29
36 81 0.15
37 101 0.18
38 206 0.37
39 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (38 bp):
TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACTAGG
Found at i:15818 original size:38 final size:38
Alignment explanation
Indices: 15735--15821 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 38
15725 TTAGACAGGT
* * * * *
15735 CTATCACAACCTTTTTCAAAGGTTGGCCTTGACTAGGT
1 CTATCGCAACCTTTTTCAAAGGTCGGCATTGACTAAGA
*
15773 CTATCGCAACCTTTTTTAAAGGTCGGCATTGACTAAGA
1 CTATCGCAACCTTTTTCAAAGGTCGGCATTGACTAAGA
*
15811 CTTTCGCAACC
1 CTATCGCAACC
15822 CTTCAATAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (38 bp):
CTATCGCAACCTTTTTCAAAGGTCGGCATTGACTAAGA
Found at i:16544 original size:43 final size:44
Alignment explanation
Indices: 16473--16607 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
16463 TATCGAAATG
* * *
16473 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
* *
16517 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
*
16560 T-ATTATTCGAGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
16605 TGA
1 TGA
16608 AATGTTATGT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.46
44 8 0.10
45 33 0.42
46 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
Found at i:16589 original size:45 final size:43
Alignment explanation
Indices: 16490--16607 Score: 166
Period size: 45 Copynumber: 2.7 Consensus size: 43
16480 CGGGCTTCGG
* *
16490 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGTAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* *
16533 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGTAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
16578 GCCTAGTAGGCTATAATGCCGGTGAAATGA
1 GCCTAGTAGGCTATAATGCCGGTGAAATGA
16608 AATGTTATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.42
44 3 0.05
45 33 0.51
46 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
GCCTAGTAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:16936 original size:38 final size:38
Alignment explanation
Indices: 16904--17036 Score: 169
Period size: 38 Copynumber: 3.5 Consensus size: 38
16894 GCAGGCTATA
*
16904 TGCTAGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
16942 TGCTGGTAA-TATATCTGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * * *
16980 TGCTGGTATTATATCCGGGTTACATTCCGCAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
17018 TGCTGGTATTATATTCGGG
1 TGCTGGAATTATATCCGGG
17037 CCTTTGAGCC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 81 0.96
39 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:17154 original size:45 final size:45
Alignment explanation
Indices: 17029--17154 Score: 173
Period size: 45 Copynumber: 2.8 Consensus size: 45
17019 GCTGGTATTA
* * *
17029 TATTCGGGCCTTTGAGCCTAGGAGGCTATTATGCCAGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
17074 TATTCGGGCCTTTGGGCCTCGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
*
17119 TATTTGGG-CTTTCGAGCCTAGCAGGCTATAATGCCG
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCG
17155 ATGAAATGAT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 4 0.06
45 67 0.94
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:21196 original size:42 final size:43
Alignment explanation
Indices: 21117--21202 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
21107 CCACTAGGAA
21117 TTATGTGATCTAAACTCATTGAGTTGTGGTCTAAGTTCATGAT
1 TTATGTGATCTAAACTCATTGAGTTGTGGTCTAAGTTCATGAT
* * *
21160 TTATGTGATTTGAACTCA-TGAGTTGTGGTCTGAGTTCATGAT
1 TTATGTGATCTAAACTCATTGAGTTGTGGTCTAAGTTCATGAT
21202 T
1 T
21203 ACGAGACACT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 24 0.60
43 16 0.40
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.43
Consensus pattern (43 bp):
TTATGTGATCTAAACTCATTGAGTTGTGGTCTAAGTTCATGAT
Found at i:21198 original size:20 final size:20
Alignment explanation
Indices: 21136--21200 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
21126 CTAAACTCAT
*
21136 TGAGTTGTGGTCTAAGTTCA
1 TGAGTTGTGGTCTGAGTTCA
* * * **
21156 TGATTTATGTGATTTGAACTCA
1 TGA-GT-TGTGGTCTGAGTTCA
21178 TGAGTTGTGGTCTGAGTTCA
1 TGAGTTGTGGTCTGAGTTCA
21198 TGA
1 TGA
21201 TTACGAGACA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
20 17 0.53
21 2 0.06
22 13 0.41
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.42
Consensus pattern (20 bp):
TGAGTTGTGGTCTGAGTTCA
Found at i:24507 original size:20 final size:18
Alignment explanation
Indices: 24482--24520 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
24472 GAAGTTTATA
*
24482 AAATAGGTTGTAAATGTGTG
1 AAATA-GTTGAAAAT-TGTG
24502 AAATAGTTGAAAATTGTG
1 AAATAGTTGAAAATTGTG
24520 A
1 A
24521 GTTGCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (18 bp):
AAATAGTTGAAAATTGTG
Found at i:25059 original size:48 final size:48
Alignment explanation
Indices: 24985--25303 Score: 387
Period size: 48 Copynumber: 6.6 Consensus size: 48
24975 TATATGTGCT
*
24985 AGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
*
25033 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * * *
25081 AGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGA-TATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
*
25129 AGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * *
25177 AGTGTAAGACCATGTCTGGGATATGGCATCGG---CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
* * * * *
25225 AGTGTAAGGCCATGTTTGGGACATGGCATCGGCCTCGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCC
*
25273 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
25304 ATAATTTACC
Statistics
Matches: 234, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
45 4 0.02
47 1 0.00
48 226 0.97
49 1 0.00
51 1 0.00
52 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:25149 original size:96 final size:95
Alignment explanation
Indices: 24985--25303 Score: 433
Period size: 96 Copynumber: 3.3 Consensus size: 95
24975 TATATGTGCT
* *** *
24985 AGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-TATGAGAGCTAGTGTAAGACCATGTTT
25050 GGGACATGGCATCGGCCACATTATGAGAGCC
65 GGGACATGGCATCGGCCACATTATGAGAGCC
* * * *
25081 AGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGATATGTGTGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGATATGAGAGCTAGTGTAAGACCATGTTT
*
25146 GGGATATGGCATCGGCCACATTATGAGAGCC
65 GGGACATGGCATCGGCCACATTATGAGAGCC
* * * *
25177 AGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGGCCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGATATGAGAGCTAGTGTAAGACCATGTTT
* * *
25242 GGGACATGGCATCGGCCTCGA-CATGTGAGCC
65 GGGACATGGCATCGGCCAC-ATTATGAGAGCC
*
25273 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
25304 ATAATTTACC
Statistics
Matches: 196, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
96 194 0.99
97 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGAGAGCTAGTGTAAGACCATGTTTG
GGACATGGCATCGGCCACATTATGAGAGCC
Found at i:25232 original size:144 final size:142
Alignment explanation
Indices: 24972--25303 Score: 468
Period size: 144 Copynumber: 2.3 Consensus size: 142
24962 GACATTTGGG
*
24972 TGATATATGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCCAGTG
* *
25037 TAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
66 TAAGACCATGTCTGGGACATGGCATCGG-C-CATTACGAGAGCCAGTGTAAGACCATGTCTGGGA
* *
25102 CATGGCATTGGCGT
129 CATGGCATCGGCCT
*
25116 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCCAGTG
* * * *
25181 TAAGACCATGTCTGGGATATGGCATCGG-CATTGAGACGAGAGCTAGTGTAAGGCCATGTTTGGG
66 TAAGACCATGTCTGGGACATGGCATCGGCCATT---ACGAGAGCCAGTGTAAGACCATGTCTGGG
25245 ACATGGCATCGGCCT
128 ACATGGCATCGGCCT
* * * * * *
25260 CGACATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCG
25304 ATAATTTACC
Statistics
Matches: 169, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
141 4 0.02
144 165 0.98
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (142 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGCCACATTATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCGGCCATTACGAGAGCCAGTGTAAGACCATGTCTGGGACA
TGGCATCGGCCT
Found at i:28001 original size:39 final size:39
Alignment explanation
Indices: 27797--28019 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
27787 TTGAATGCTG
* * * * * *
27797 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
27837 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
27877 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
27917 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
27957 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
27996 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
28020 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:28039 original size:79 final size:80
Alignment explanation
Indices: 27877--28054 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
27867 AGATACAAGT
* * * *
27877 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
27942 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
27957 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
28021 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
28036 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
28055 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Done.