Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold146
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1000955
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 102963 characters in sequence are not A, C, G, or T
File 4 of 3
Found at i:945523 original size:21 final size:20
Alignment explanation
Indices: 945497--945562 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
945487 CAAAAACGCA
*
945497 TGCAACGAATGCGAAAGCTCG
1 TGCAACGTATG-GAAAGCTCG
*
945518 TGCAACGTATGTAAGAGCTCG
1 TGCAACGTATGGAA-AGCTCG
*
945539 TGCAACGTATGAGAGAGCTCG
1 TGCAACGTATG-GAAAGCTCG
945560 TGC
1 TGC
945563 GAATCTAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.05
21 36 0.92
22 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (20 bp):
TGCAACGTATGGAAAGCTCG
Found at i:953783 original size:37 final size:37
Alignment explanation
Indices: 953730--953962 Score: 201
Period size: 37 Copynumber: 6.4 Consensus size: 37
953720 ACAAACAATG
* * *
953730 TACGATAAACTATAAGTTAAATCAGTTACAATAAGTA
1 TACGGTAAACTCTAAGTTAAATCGGTTACAATAAGTA
*
953767 TACGGTGAACTCTAAGTTAAATCGGTTACAATAAGTA
1 TACGGTAAACTCTAAGTTAAATCGGTTACAATAAGTA
* * *
953804 TACGGTGACCTCTAAATTAAATCGGTTACAATAAGTA
1 TACGGTAAACTCTAAGTTAAATCGGTTACAATAAGTA
* ** *
953841 AATAGTAAAATCTAAGTTAAAGT-GGTTACAA-ACAGTA
1 TACGGTAAACTCTAAGTTAAA-TCGGTTACAATA-AGTA
* * * *
953878 TAAGGTAAACTCTAACTTTAATCGGTT-CAA-AAATA
1 TACGGTAAACTCTAAGTTAAATCGGTTACAATAAGTA
* * * * *
953913 TTCGATAATA-TTTAAG-TAAAACGGTTACAA-CAGTA
1 TACGGTAA-ACTCTAAGTTAAATCGGTTACAATAAGTA
*
953948 TACGGTAAGCTCTAA
1 TACGGTAAACTCTAA
953963 CAGAGGGCGA
Statistics
Matches: 157, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
34 8 0.05
35 28 0.18
36 7 0.04
37 113 0.72
38 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (37 bp):
TACGGTAAACTCTAAGTTAAATCGGTTACAATAAGTA
Found at i:954310 original size:2 final size:2
Alignment explanation
Indices: 954303--954340 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
954293 TTCCAAGAGG
954303 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
954341 TCCAGGCGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:966015 original size:205 final size:201
Alignment explanation
Indices: 965662--966067 Score: 715
Period size: 205 Copynumber: 2.0 Consensus size: 201
965652 NNGGGGGGGG
*
965662 GGGGTTAGAGGAAAATTTAATTTTGTTTAAACTTACATAGTACAACTATCCAACATATGTCTAAG
1 GGGGTTAGAGGAAAATTAAATTTTGTTTAAACTTACATAGTACAACTATCCAACATATGTCTAAG
965727 CTCCCCCCCAAAAAAAGTATCCCTGCCCTTTCCCTGGAAAGAATTCTGACCGCGCATGTAATTTT
66 CTCCCCCCCAAAAAAAGTATCCCTGCCCTTTCCCTGGAAAGAATTCTGACCGCGCATGTAATTTT
965792 ATATGAACTTAAAGAAATAGAAGCCCATTTTCTCTCTTGTAAGCAATAGGATAATTCAAAACAAA
131 ATATGAACTTAAAGAAATAGAAGCCCATTTTCTCTCTTGTAAGCAATAGGATAATTCAAAACAAA
965857 TCCAGA
196 TCCAGA
*
965863 NGGGG-TAGAGGAAAATTAAATTTTTTTTAAACTTACATAGTACAACTATCCAACATATGTCTAA
1 -GGGGTTAGAGGAAAATTAAATTTTGTTTAAACTTACATAGTACAACTATCCAACATATGTCTAA
* *
965927 GCTCCCCCCCCCAAAAAAAAATTATCCCTGCCCTTTCCCTGGAAAGAATTCTGACCGCGCATGTC
65 GCT--CCCCCCC--AAAAAAAGTATCCCTGCCCTTTCCCTGGAAAGAATTCTGACCGCGCATGTA
*
965992 ATTTTTTATGAACTTAAAGAAATAGAAGCCCATTTTCTCTCTTGTAAGCAATAGGATAATTCAAA
126 ATTTTATATGAACTTAAAGAAATAGAAGCCCATTTTCTCTCTTGTAAGCAATAGGATAATTCAAA
966057 ACAAATCCAGA
191 ACAAATCCAGA
966068 TTTTGGTCTC
Statistics
Matches: 195, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
201 60 0.31
202 4 0.02
203 7 0.04
205 124 0.64
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (201 bp):
GGGGTTAGAGGAAAATTAAATTTTGTTTAAACTTACATAGTACAACTATCCAACATATGTCTAAG
CTCCCCCCCAAAAAAAGTATCCCTGCCCTTTCCCTGGAAAGAATTCTGACCGCGCATGTAATTTT
ATATGAACTTAAAGAAATAGAAGCCCATTTTCTCTCTTGTAAGCAATAGGATAATTCAAAACAAA
TCCAGA
Found at i:966190 original size:10 final size:10
Alignment explanation
Indices: 966177--966350 Score: 68
Period size: 10 Copynumber: 16.1 Consensus size: 10
966167 GTCAGTACCC
966177 TGTACAGTGG
1 TGTACAGTGG
*
966187 TGTACAGTGC
1 TGTACAGTGG
*
966197 TGGT-CAGTGCCC
1 T-GTACAGTG--G
*
966209 CGTACAGTGG
1 TGTACAGTGG
*
966219 TGTACAGTGC
1 TGTACAGTGG
966229 TGGT-CAGTGGG
1 T-GTACAGT-GG
* *
966240 TAGGTACTGTGC
1 T--GTACAGTGG
*
966252 TGTCCAGTGG
1 TGTACAGTGG
*
966262 AGTACAGTGG
1 TGTACAGTGG
966272 CTCTGTACAGTGG
1 ---TGTACAGTGG
*
966285 GGTACAGT-G
1 TGTACAGTGG
*
966294 TGGTACAGTAGCTC
1 T-GTACAGT-G--G
966308 TGTACAGTGGG
1 TGTACAGT-GG
966319 TGTACAGTGG
1 TGTACAGTGG
*
966329 ATTTACAGTAGG
1 -TGTACAGT-GG
966341 -GTACAGTGG
1 TGTACAGTGG
966350 T
1 T
966351 TATACAGTAG
Statistics
Matches: 124, Mismatches: 21, Indels: 38
0.68 0.11 0.21
Matches are distributed among these distances:
9 3 0.02
10 64 0.52
11 23 0.19
12 13 0.10
13 20 0.16
14 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.37, T:0.28
Consensus pattern (10 bp):
TGTACAGTGG
Found at i:966237 original size:32 final size:32
Alignment explanation
Indices: 966147--966237 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 32
966137 TACAGTGGGT
** * * *
966147 TACAGTGGTGTACAGTATTTGTCAGTACCCTG
1 TACAGTGGTGTACAGTGCTGGTCAGTGCCCCG
966179 TACAGTGGTGTACAGTGCTGGTCAGTGCCCCG
1 TACAGTGGTGTACAGTGCTGGTCAGTGCCCCG
966211 TACAGTGGTGTACAGTGCTGGTCAGTG
1 TACAGTGGTGTACAGTGCTGGTCAGTG
966238 GGTAGGTACT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.30
Consensus pattern (32 bp):
TACAGTGGTGTACAGTGCTGGTCAGTGCCCCG
Found at i:966293 original size:33 final size:34
Alignment explanation
Indices: 966256--966339 Score: 118
Period size: 33 Copynumber: 2.5 Consensus size: 34
966246 CTGTGCTGTC
*
966256 CAGTGGAGTACAGTGGCTCTGTACAGTGGG-GTA
1 CAGTGGAGTACAGTAGCTCTGTACAGTGGGTGTA
966289 CAGTGTG-GTACAGTAGCTCTGTACAGTGGGTGTA
1 CAGTG-GAGTACAGTAGCTCTGTACAGTGGGTGTA
*
966323 CAGTGGATTTACAGTAG
1 CAGTGGA-GTACAGTAG
966340 GGTACAGTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
33 28 0.62
34 9 0.20
35 8 0.18
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.27
Consensus pattern (34 bp):
CAGTGGAGTACAGTAGCTCTGTACAGTGGGTGTA
Found at i:966346 original size:21 final size:22
Alignment explanation
Indices: 966310--966360 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
966300 AGTAGCTCTG
*
966310 TACAGTGGGTGTACAGTGGATT-
1 TACAGTAGGTGTACAGTGG-TTA
966332 TACAGTAGG-GTACAGTGGTTA
1 TACAGTAGGTGTACAGTGGTTA
966353 TACAGTAG
1 TACAGTAG
966361 ATGTCAGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.07
21 17 0.63
22 8 0.30
ACGTcount: A:0.27, C:0.10, G:0.33, T:0.29
Consensus pattern (22 bp):
TACAGTAGGTGTACAGTGGTTA
Found at i:970108 original size:11 final size:11
Alignment explanation
Indices: 970092--970117 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
970082 TTCGTGTAAG
970092 TTAATGTAACA
1 TTAATGTAACA
970103 TTAATGTAACA
1 TTAATGTAACA
970114 TTAA
1 TTAA
970118 CTAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (11 bp):
TTAATGTAACA
Found at i:971588 original size:161 final size:160
Alignment explanation
Indices: 971226--971711 Score: 608
Period size: 161 Copynumber: 3.0 Consensus size: 160
971216 GGTCAACCAA
* * *
971226 CAGTTTCCGCTCATTTTCTTCGCAGAGGATAAATATATTGAAATTAAATTTGGTATACAGGTTTA
1 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
* *** **
971291 TCA-GGATAATATCTAGGTCAAGTGCCATATTAAGTACGATCGAGCAATTTTCGAGCA-A--T-T
66 TCATGG-TAATATCTAAGTCAAGTTTGA-ATTTGGTACGATCGAGCAATTTTCGA-CAGAGTTAT
971351 GGCCCTTGGACGTAGAAAAACTT-TAGTTATTTG
128 GGCCCTTGGACGTAGAAAAA-TTCTAGTTATTTG
* *
971384 CAGTTTCCGCTTATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAAGTTTA
1 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
* *
971449 TCATGGTAATATCTAAGTCAAGTTTGAGATTTGGTACGCTCGAGCAATTTTCGACAGAGTTATAG
66 TCATGGTAATATCTAAGTCAAGTTTGA-ATTTGGTACGATCGAGCAATTTTCGACAGAGTTATGG
*
971514 CCCTTGGACGTAGAAAAATTCTAGTTTTTTG
130 CCCTTGGACGTAGAAAAATTCTAGTTATTTG
** * * * *
971545 CAGTTTTTGCTCATTTTCTTCGCAGAGAATGAACATTTTGAAATGACATTTGGTATACAGGTTAA
1 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
* * * *
971610 TCATGATAATATCT-AGTTCAAGTTTGATTTTGGGTATGATAGAGCAATTTTCGACAGAGTTATG
66 TCATGGTAATATCTAAG-TCAAGTTTGAATTT-GGTACGATCGAGCAATTTTCGACAGAGTTATG
* * *
971674 GCCTTTGGACTTAGAAAAATTCAAGTTATTTG
129 GCCCTTGGACGTAGAAAAATTCTAGTTATTTG
*
971706 AAGTTT
1 CAGTTT
971712 ACGTTAATTT
Statistics
Matches: 286, Mismatches: 34, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
157 2 0.01
158 104 0.36
159 2 0.01
160 8 0.03
161 170 0.59
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (160 bp):
CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
TCATGGTAATATCTAAGTCAAGTTTGAATTTGGTACGATCGAGCAATTTTCGACAGAGTTATGGC
CCTTGGACGTAGAAAAATTCTAGTTATTTG
Found at i:980212 original size:2 final size:2
Alignment explanation
Indices: 980205--980247 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
980195 TCCCTCTTGT
*
980205 TC TC TC TC TC TC TC TC TC TC -C T- TC TC TC TC TC TC TC TT TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
980245 TC T
1 TC T
980248 ATATTACAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:990056 original size:168 final size:169
Alignment explanation
Indices: 989822--990800 Score: 1389
Period size: 168 Copynumber: 5.8 Consensus size: 169
989812 AAAAACTGGT
* * *
989822 TGCATGGTTATGTTGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGGCCCCTGGGTCAGG
1 TGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
* *
989887 GGTTCTGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTT-AACCTTAGAAAAT
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTTAAATCTTAGAAAAT
*
989951 CTTCTTCTCTACTACGATATATATTTTTAAAAAACTAAA
131 CTTCTTCTCTACTACCATATATATTTTTAAAAAACTAAA
* *
989990 TGCATGATTATGATGTCCATGAAGCCCTCTACCAAACTTGTGAAATTTATGACCCCTGGGTCAGG
1 TGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
* * *
990055 GGTTCAGGATCTAGGGTGGGGCCAATGTGGCCAAATAGTAAAAATGTA-TTAAATCTTAGAAAAT
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTTAAATCTTAGAAAAT
* * *
990119 CTTCTTCTCTACTATCATATATATTTGTCAAAAACTAAA
131 CTTCTTCTCTACTACCATATATATTTTTAAAAAACTAAA
* * * *
990158 TGCAAGATAATGATGTCCATGAAGCCCTCTACCTAAATTGTGAAATTCATGACCCCTTGGTCAGG
1 TGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
* *
990223 GGTTCATGCTCTAGGGTGGGGCCAATATGGCCATATAGTACAAATGTA-TTAAATCTTAGAAAAT
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTTAAATCTTAGAAAAT
* * *
990287 ATTCTTCTCTACTCCCATATATATATGTT-AAAAACTAAA
131 CTTCTTCTCTACTACCATATATAT-TTTTAAAAAACTAAA
* *
990326 TGCATGATTATGATGTCCATGAGGCCCTCTATCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
1 TGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
* *
990391 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAACT-TTTTTAAATCTTAGAAAAT
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTTAAATCTTAGAAAAT
* * *
990455 CTTCTTCTCCACAACCATATAT-TTTTGTTAAAAACTAAA
131 CTTCTTCTCTACTACCATATATATTTT-TAAAAAACTAAA
*
990494 TGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGTTCAGG
1 TGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
* * *
990559 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAACT-TTTTTAAATCTTAAAAAAT
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTTAAATCTTAGAAAAT
* * * * **** *
990623 CTTCTTCTCTACTCCCACACATGTGAGCAAAAAACTGAA
131 CTTCTTCTCTACTACCATATATATTTTTAAAAAACTAAA
* * * * * * *** *
990662 TACATGGTTATGATGTTCATGAGGGCCTCTACTAAAATTGTGAAATTCATGACCCCTTTATTAGG
1 TGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
* *
990727 TGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGT-TTTAAATCTTAAAAAAT
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTTAAATCTTAGAAAAT
990791 CTTCTTCTCT
131 CTTCTTCTCT
990801 CCTCCCACAC
Statistics
Matches: 732, Mismatches: 72, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
166 2 0.00
167 5 0.01
168 721 0.98
169 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (169 bp):
TGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTTAAATCTTAGAAAAT
CTTCTTCTCTACTACCATATATATTTTTAAAAAACTAAA
Found at i:990808 original size:168 final size:168
Alignment explanation
Indices: 989778--990907 Score: 1386
Period size: 168 Copynumber: 6.7 Consensus size: 168
989768 CAAATTTTCA
*** * * *** * *
989778 AAAATCTTCTTCTCTACTCCCACGCATGTGAGGAAAAAACTGGTTGCATGGTTATGTTGTCCATG
1 AAAATCTTCTTCTCTACTCCCATATATATGAGCAAAAAACTAAATGCATGATTATGATGTCCATG
* *
989843 AAGCCCTCTACCAAAATTGTGAAATTCATGGCCCCTGGGTCAGGGGTTCTGGCTCTAGGGTGGGG
66 AAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGGGG
*
989908 CCAATATGGCCATATAGTAAAAATGTATTT-AACCTTAG
131 CCAATATGGCCATATAGTAAAAATGT-TTTAAATCTTAG
* * ****
989946 AAAATCTTCTTCTCTACTACGATATATATTTTTAAAAAACTAAATGCATGATTATGATGTCCATG
1 AAAATCTTCTTCTCTACTCCCATATATATGAGCAAAAAACTAAATGCATGATTATGATGTCCATG
* * *
990011 AAGCCCTCTACCAAACTTGTGAAATTTATGACCCCTGGGTCAGGGGTTCAGGATCTAGGGTGGGG
66 AAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGGGG
* * *
990076 CCAATGTGGCCAAATAGTAAAAATGTATTAAATCTTAG
131 CCAATATGGCCATATAGTAAAAATGTTTTAAATCTTAG
** ** * *
990114 AAAATCTTCTTCTCTACTATCATATATATTTGTC-AAAAACTAAATGCAAGATAATGATGTCCAT
1 AAAATCTTCTTCTCTACTCCCATATATATGAG-CAAAAAACTAAATGCATGATTATGATGTCCAT
* * *
990178 GAAGCCCTCTACCTAAATTGTGAAATTCATGACCCCTTGGTCAGGGGTTCATGCTCTAGGGTGGG
65 GAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGGG
* *
990243 GCCAATATGGCCATATAGTACAAATGTATTAAATCTTAG
130 GCCAATATGGCCATATAGTAAAAATGTTTTAAATCTTAG
* **
990282 AAAATATTCTTCTCTACTCCCATATATAT-ATGTTAAAAACTAAATGCATGATTATGATGTCCAT
1 AAAATCTTCTTCTCTACTCCCATATATATGA-GCAAAAAACTAAATGCATGATTATGATGTCCAT
* *
990346 GAGGCCCTCTATCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGGG
65 GAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGGG
* *
990411 GCCAATATGGCCATATAGTAAAACTTTTTTAAATCTTAG
130 GCCAATATGGCCATATAGTAAAAATGTTTTAAATCTTAG
* ** * ** **
990450 AAAATCTTCTTCTCCACAACCATATATTTTTGTTAAAAACTAAATGCATGATTATGATGTCCATG
1 AAAATCTTCTTCTCTACTCCCATATATATGAGCAAAAAACTAAATGCATGATTATGATGTCCATG
*
990515 AAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGTTCAGGGGTTCAGGCTCTAGGGTGGGG
66 AAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGGGG
* * *
990580 CCAATATGGCCATATAGTAAAACTTTTTTAAATCTTAA
131 CCAATATGGCCATATAGTAAAAATGTTTTAAATCTTAG
* * * * * * *
990618 AAAATCTTCTTCTCTACTCCCACACATGTGAGCAAAAAACTGAATACATGGTTATGATGTTCATG
1 AAAATCTTCTTCTCTACTCCCATATATATGAGCAAAAAACTAAATGCATGATTATGATGTCCATG
* * * *** * *
990683 AGGGCCTCTACTAAAATTGTGAAATTCATGACCCCTTTATTAGGTGTTCAGGCTCTAGGGTGGGG
66 AAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGGGG
*
990748 CCAATATGGCCATATAGTAAAAATGTTTTAAATCTTAA
131 CCAATATGGCCATATAGTAAAAATGTTTTAAATCTTAG
* * * ** * * * *
990786 AAAATCTTCTTCTCTCCTCCCACACATGGGGGCAAAAAACTGAATACATGGTTTACTTATGATAT
1 AAAATCTTCTTCTCTACTCCCATATATATGAGCAAAAAACTAAATGCAT-G---A-TTATGATGT
* * * * *
990851 CCA-CAATCTCCTTTACCTAAATTGTGAAATTCATGGCCCCTGGGTCAGGGGTTCAGG
61 CCATGAAGC-CCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGG
990908 ACATGAGGGG
Statistics
Matches: 843, Mismatches: 108, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
167 2 0.00
168 790 0.94
169 1 0.00
172 1 0.00
173 49 0.06
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (168 bp):
AAAATCTTCTTCTCTACTCCCATATATATGAGCAAAAAACTAAATGCATGATTATGATGTCCATG
AAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGGCTCTAGGGTGGGG
CCAATATGGCCATATAGTAAAAATGTTTTAAATCTTAG
Found at i:992835 original size:20 final size:20
Alignment explanation
Indices: 992810--992849 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
992800 GGCTGTCTTG
*
992810 TAAAATCCCCAACAAGCAGA
1 TAAAATCCCAAACAAGCAGA
992830 TAAAATCCCAAACAAGCAGA
1 TAAAATCCCAAACAAGCAGA
992850 GAGTCTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.28, G:0.10, T:0.10
Consensus pattern (20 bp):
TAAAATCCCAAACAAGCAGA
Done.