Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold4818.1
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: 43508
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.25
Warning! 10052 characters in sequence are not A, C, G, or T
Found at i:707 original size:54 final size:54
Alignment explanation
Indices: 648--755 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
638 TACGATAAAT
*
648 AAAAAAAAAGGTTTATCATTAGATATGCTTCATTCCTTGAAGTGAATGTAGCATG
1 AAAAAAAAA-GTTTATCATTAGATATGCTTCATTCCCTGAAGTGAATGTAGCATG
703 AAAAAAAAAGTTTATCATTAGATATGCTTCATTCCCTGAAGTGAATGTAGCAT
1 AAAAAAAAAGTTTATCATTAGATATGCTTCATTCCCTGAAGTGAATGTAGCAT
756 TACATAATCA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 43 0.83
55 9 0.17
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (54 bp):
AAAAAAAAAGTTTATCATTAGATATGCTTCATTCCCTGAAGTGAATGTAGCATG
Found at i:8702 original size:23 final size:21
Alignment explanation
Indices: 8667--8710 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
8657 AATACAACAC
*
8667 TAAAAAGGTATATACATAATATA
1 TAAAAAGGCATAT--ATAATATA
*
8690 TAAAAATGCATATATAATATA
1 TAAAAAGGCATATATAATATA
8711 ATGTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
TAAAAAGGCATATATAATATA
Found at i:8900 original size:27 final size:26
Alignment explanation
Indices: 8842--8901 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
8832 CATAGTATAT
* *
8842 ATATACATATAATATAATTATTAAGA
1 ATATACATACAATATAAGTATTAAGA
*
8868 AAATACATACAATATATAGTATTAAGA
1 ATATACATACAATATA-AGTATTAAGA
8895 ATATACA
1 ATATACA
8902 CAATACGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (26 bp):
ATATACATACAATATAAGTATTAAGA
Found at i:9217 original size:16 final size:16
Alignment explanation
Indices: 9184--9233 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
9174 AATCATAGGC
9184 ATAATA-AT-AAATATA
1 ATAATATATGAAA-ATA
9199 ATAATATATGAAAATA
1 ATAATATATGAAAATA
*
9215 ATACTATATGTAAAA-A
1 ATAATATATG-AAAATA
9231 ATA
1 ATA
9234 TGTATTGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 6 0.19
16 18 0.58
17 7 0.23
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (16 bp):
ATAATATATGAAAATA
Found at i:9317 original size:71 final size:73
Alignment explanation
Indices: 9228--9370 Score: 254
Period size: 71 Copynumber: 2.0 Consensus size: 73
9218 CTATATGTAA
*
9228 AAAATATGTATTGGTATTAACAACAAATATAATATAGATAAAAATAG-AT-ATAATAATATACGT
1 AAAATATGTATTAGTATTAACAACAAATATAATATAGATAAAAATAGAATAATAATAATATACGT
9291 AATATGAT
66 AATATGAT
9299 AAAATATGTATTAGTATTAACAACAAATATAATATAGATAAAAATAGATATAATAATAATATACG
1 AAAATATGTATTAGTATTAACAACAAATATAATATAGATAAAAATAGA-ATAATAATAATATACG
9364 TAATATG
65 TAATATG
9371 GTATAAAAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
71 46 0.68
73 2 0.03
74 20 0.29
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (73 bp):
AAAATATGTATTAGTATTAACAACAAATATAATATAGATAAAAATAGAATAATAATAATATACGT
AATATGAT
Found at i:9332 original size:38 final size:39
Alignment explanation
Indices: 9228--9341 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 39
9218 CTATATGTAA
*
9228 AAAATATGTATTGGTATTAACAACAAATATAATATAGAT
1 AAAATATGTATTAGTATTAACAACAAATATAATATAGAT
* * * * **
9267 AAAA-A--TA-GA-TA-TAATAATATACGTAATAT-GAT
1 AAAATATGTATTAGTATTAACAACAAATATAATATAGAT
9299 AAAATATGTATTAGTATTAACAACAAATATAATATAGAT
1 AAAATATGTATTAGTATTAACAACAAATATAATATAGAT
9338 AAAA
1 AAAA
9342 ATAGATATAA
Statistics
Matches: 55, Mismatches: 13, Indels: 14
0.67 0.16 0.17
Matches are distributed among these distances:
32 7 0.13
33 14 0.25
34 2 0.04
35 2 0.04
36 3 0.05
37 2 0.04
38 14 0.25
39 11 0.20
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (39 bp):
AAAATATGTATTAGTATTAACAACAAATATAATATAGAT
Found at i:9639 original size:12 final size:13
Alignment explanation
Indices: 9583--9642 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 13
9573 ATATTTAAAA
*
9583 TAATACTAAATA-
1 TAATAATAAATAG
9595 TAAT-ATAAAATAG
1 TAATAAT-AAATAG
9608 TAATAATAATAATAG
1 TAATAAT-A-AATAG
*
9623 CAATAATAAAT-G
1 TAATAATAAATAG
9635 TAATAATA
1 TAATAATA
9643 TATAAAAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.02
12 17 0.41
13 7 0.17
14 5 0.12
15 11 0.27
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (13 bp):
TAATAATAAATAG
Found at i:11692 original size:88 final size:89
Alignment explanation
Indices: 11445--11795 Score: 308
Period size: 88 Copynumber: 3.9 Consensus size: 89
11435 TGAATTGACT
* * *
11445 CTTT-AAAACAAACAT-T-AAAACAGAAATTAAAAATAGCTTAGCACGTGAGCCAAGGCTCAACT
1 CTTTAAAAACAAACATGTAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACT
*
11507 CAACTCTCGCAATATG-GATTGGTC
66 CACCTCTCGCAATATGAG-TTGGTC
** ** * ** * *
11531 CTTTTGAAACTTA-ATTTGAAAAGTAG-ATTTCGAAAATACCTC-GTCATGTGA-CCAGAGGCTC
1 CTTTAAAAACAAACATGT-AAAAACAGAAATT-GAAAATACCTCAG-CACGTGAGCCA-AGGCTC
11592 AACTCACCTCTCGCAATATGAGTTGGTC
62 AACTCACCTCTCGCAATATGAGTTGGTC
* * * *
11620 CTTTAAAAACAGACA-GTAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAAGCTCAACT
1 CTTTAAAAACAAACATGTAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACT
* *
11684 CATCTCTCGCAATATGAGTTGAT-
66 CACCTCTCGCAATATGAGTTGGTC
* * * * * * *
11707 TTTTGAAAAATAAAAATTGAAAAAAAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCT
1 CTTT-AAAAACAAACA-TG---TAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCT
11772 CAACTCACCTCTCGCAATATGAGT
61 CAACTCACCTCTCGCAATATGAGT
11796 CGATTTTTTT
Statistics
Matches: 212, Mismatches: 35, Indels: 29
0.77 0.13 0.11
Matches are distributed among these distances:
86 6 0.03
87 9 0.04
88 68 0.32
89 67 0.32
90 3 0.01
93 59 0.28
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (89 bp):
CTTTAAAAACAAACATGTAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACT
CACCTCTCGCAATATGAGTTGGTC
Found at i:11729 original size:177 final size:175
Alignment explanation
Indices: 11445--11795 Score: 417
Period size: 177 Copynumber: 2.0 Consensus size: 175
11435 TGAATTGACT
* * *
11445 CTTTAAAACAAACATTAAAACAGAAATTAAAAATAGCTTAGCACGTGAGCCAAGGCTCAACTCAA
1 CTTTAAAACAAACATAAAAACAGAAATTAAAAATAGCTCAGCACGTGAGCCAAAGCTCAACTCAA
* * * * ** **
11510 CTCTCGCAATATGGATTGGTCCTTTTGAAACTTAATTTG-AAAAGTAG-ATTTCGAAAATACCTC
66 CTCTCGCAATATGGATTGAT-CTTTTGAAAATAAAATTGAAAAAACAGAAACT-GAAAATACCTC
11573 -GTCATGTGA-CCAGAGGCTCAACTCACCTCTCGCAATATGAGTTGGTC
129 AG-CATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGGTC
* * *
11620 CTTTAAAAACAGACAGTAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAAGCTCAACTC
1 CTTT-AAAACAAACA-TAAAAACAGAAATTAAAAATAGCTCAGCACGTGAGCCAAAGCTCAACTC
*
11685 ATCTCTCGCAATAT-GAGTTGAT-TTTTGAAAAATAAAAATTGAAAAAAAAACAGAAACTGAAAA
64 AACTCTCGCAATATGGA-TTGATCTTTTG-AAAAT-AAAATTG---AAAAAACAGAAACTGAAAA
11748 TACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
123 TACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
11796 CGATTTTTTT
Statistics
Matches: 149, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
175 9 0.06
176 15 0.10
177 66 0.44
181 54 0.36
182 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (175 bp):
CTTTAAAACAAACATAAAAACAGAAATTAAAAATAGCTCAGCACGTGAGCCAAAGCTCAACTCAA
CTCTCGCAATATGGATTGATCTTTTGAAAATAAAATTGAAAAAACAGAAACTGAAAATACCTCAG
CATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGGTC
Found at i:11773 original size:93 final size:87
Alignment explanation
Indices: 11562--11803 Score: 263
Period size: 93 Copynumber: 2.7 Consensus size: 87
11552 AGTAGATTTC
* *
11562 GAAAATACCTC-GTCATGTGA-CCAGAGGCTCAACTCACCTCTCGCAATATGAGTTGGTCCTTTA
1 GAAAATACCTCAG-CATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTA
* * * * *
11625 AAAACAGACAGTAAAAATAGAAATT
63 AAAACAAAAAGAAAAAACAGAAACT
* * * * *
11650 GAAAATAGCTCAGCACGTGAGCCAAAGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAA
1 GAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAA
*
11715 AATAAAAATTGAAAAAAAAACAGAAACT
65 AACAAAAA--G---AAAAAACAGAAACT
*
11743 GAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTT
1 GAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
11804 TTGAAAAGCA
Statistics
Matches: 127, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
87 3 0.02
88 54 0.43
89 3 0.02
90 1 0.01
93 66 0.52
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (87 bp):
GAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAA
ACAAAAAGAAAAAACAGAAACT
Found at i:11823 original size:14 final size:14
Alignment explanation
Indices: 11804--11836 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
11794 GTCGATTTTT
11804 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
11818 TTGAAAAGCAGGAA
1 TTGAAAAGCAGAAA
11832 TTGAA
1 TTGAA
11837 TTCCTTAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.24, T:0.18
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:13154 original size:26 final size:26
Alignment explanation
Indices: 13125--13177 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13115 TCAAACATGC
13125 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
13151 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
13177 A
1 A
13178 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:15440 original size:40 final size:40
Alignment explanation
Indices: 15396--15663 Score: 491
Period size: 40 Copynumber: 6.7 Consensus size: 40
15386 GCAAACACAT
* *
15396 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15436 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
15476 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
15516 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15556 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15596 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
15636 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
15664 TCCAATGCTC
Statistics
Matches: 223, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:28607 original size:26 final size:26
Alignment explanation
Indices: 28571--28626 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
28561 TGAAATTCCC
*
28571 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
28597 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
28623 ATCA
1 ATCA
28627 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29121 original size:78 final size:78
Alignment explanation
Indices: 28963--29220 Score: 400
Period size: 78 Copynumber: 3.4 Consensus size: 78
28953 GGGCGTTACA
** * * * * *
28963 CAACTCACCTCTCATAATATGAGTTGA--TTTTTG---ACAAACAGAAATCAAAAATACCTCAGC
1 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAATAGGAATTAAAAATACCTCAAC
**
29023 GTGACCTGAGGCT
66 GCAACCTGAGGCT
29036 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAATAGGAATTAAAAATACCTCAAC
1 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAATAGGAATTAAAAATACCTCAAC
29101 GCAACCTGAGGCT
66 GCAACCTGAGGCT
29114 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAATAGGAATTAAAAATACCTCAAC
1 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAATAGGAATTAAAAATACCTCAAC
29179 GCAACCTGAGGCT
66 GCAACCTGAGGCT
29192 CAACTCACCTCTCGCAATATGAGTTGATT
1 CAACTCACCTCTCGCAATATGAGTTGATT
29221 GATTCTTTTC
Statistics
Matches: 171, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
73 25 0.15
75 6 0.04
78 140 0.82
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (78 bp):
CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAATAGGAATTAAAAATACCTCAAC
GCAACCTGAGGCT
Found at i:29242 original size:93 final size:93
Alignment explanation
Indices: 29141--29311 Score: 209
Period size: 93 Copynumber: 1.8 Consensus size: 93
29131 TATGAGTTGA
*
29141 TTTTTTTGAAAAAAAAT-AGGAATTAAAAATACCTCAACGCAACCTGAGGCTCAACTCACCTCTC
1 TTTTTTTG-AAAAAAATCAGAAATTAAAAATACCTCAACGCAACCTGAGGCTCAACTCACCTCTC
29205 GCAATATGAGTTGATTGATTCTTTTCTTT
65 GCAATATGAGTTGATTGATTCTTTTCTTT
** *** * *** * **
29234 TTTTTTTGATGAGTGTCAGAAATTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCG
1 TTTTTTTGAAAAAAATCAGAAATTAAAAATACCTCAACGCAACCTGAGGCTCAACTCACCTCTCG
29299 CAATATGAGTTGA
66 CAATATGAGTTGA
29312 ATTTTGAAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
92 3 0.05
93 61 0.95
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (93 bp):
TTTTTTTGAAAAAAATCAGAAATTAAAAATACCTCAACGCAACCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTGATTCTTTTCTTT
Found at i:33017 original size:41 final size:41
Alignment explanation
Indices: 32955--33185 Score: 259
Period size: 41 Copynumber: 5.7 Consensus size: 41
32945 TCGGGGTTTA
*
32955 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGGGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
32996 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * *
33037 AA-CCGAACCTAGTTTCGAAGGGCCTTTGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* *
33077 AATCTGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
33118 AA-CCGAACCTAGTTTCGAAGGGCATTCGGGCCAATTTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
33158 AATCCGAGCTTGGTCTCGAAGGGTTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
33186 TGAGTCAGCG
Statistics
Matches: 151, Mismatches: 37, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
40 61 0.40
41 90 0.60
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:33105 original size:81 final size:81
Alignment explanation
Indices: 32970--33185 Score: 342
Period size: 81 Copynumber: 2.7 Consensus size: 81
32960 GAGCTTGGTC
* * **
32970 TCGAAGGGCTTTTGAGCCAGGGTCATAATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTC
1 TCGAAGGGCATTTGGGCCAATGTCATAATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTC
33035 ATAACCGAACCTAGTT
66 ATAACCGAACCTAGTT
* *
33051 TCGAAGGGCCTTTGGGCCAATGTCATAATCTGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGTGTC
1 TCGAAGGGCATTTGGGCCAATGTCATAATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTC
33116 ATAACCGAACCTAGTT
66 ATAACCGAACCTAGTT
* * * *
33132 TCGAAGGGCATTCGGGCCAATTTCATAATCCGAGCTTGGTCTCGAAGGGTTTTT
1 TCGAAGGGCATTTGGGCCAATGTCATAATCTGAGCTTGGTCTCGAAGGGCTTTT
33186 TGAGTCAGCG
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 124 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (81 bp):
TCGAAGGGCATTTGGGCCAATGTCATAATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTC
ATAACCGAACCTAGTT
Found at i:33177 original size:122 final size:122
Alignment explanation
Indices: 32955--33180 Score: 283
Period size: 122 Copynumber: 1.9 Consensus size: 122
32945 TCGGGGTTTA
* * * * *
32955 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGGGTCATAATCTGAGCTTGGTCTCGAAGGGC
1 AATCCGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGGGTCATAATCCGAACCTAGTCTCGAAGGGC
* * * *
33020 TTTTGAGCCAGTGTCATAACCGAACCTAGTTTCGAAGGGCCTTTGGGCCAATGTCAT
66 ATTCGAGCCAATGTCATAACCGAACCTAGTCTCGAAGGGCCTTTGGGCCAATGTCAT
* * *
33077 AATCTGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGTGTCATAA-CCGAACCTAGTTTCGAAGGGC
1 AATCCGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGGGTCATAATCCGAACCTAGTCTCGAAGGGC
* * * * *
33141 ATTCGGGCCAATTTCATAATCCGAGCTTGGTCTCGAAGGG
66 ATTCGAGCCAATGTCATAA-CCGAACCTAGTCTCGAAGGG
33181 TTTTTTGAGT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
121 30 0.35
122 56 0.65
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (122 bp):
AATCCGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGGGTCATAATCCGAACCTAGTCTCGAAGGGC
ATTCGAGCCAATGTCATAACCGAACCTAGTCTCGAAGGGCCTTTGGGCCAATGTCAT
Found at i:37022 original size:30 final size:30
Alignment explanation
Indices: 36986--37046 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
36976 GCAACTTTAC
36986 TTACTTCAATGAATGGTGCGTCGGTAGAAA
1 TTACTTCAATGAATGGTGCGTCGGTAGAAA
*
37016 TTACTTCAATGTATGGTGCGTCGGTAGAAA
1 TTACTTCAATGAATGGTGCGTCGGTAGAAA
37046 T
1 T
37047 AGATGCTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (30 bp):
TTACTTCAATGAATGGTGCGTCGGTAGAAA
Done.