Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_1211
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: 34561
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Found at i:994 original size:45 final size:45
Alignment explanation
Indices: 943--1270 Score: 182
Period size: 45 Copynumber: 7.4 Consensus size: 45
933 GATCGCATCT
943 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA
* **
988 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGGCTAAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCAAAGCA
* * * **
1033 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-CA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAAGCA
* * ** ** * **
1078 A-TCCTATCTCCCTGAAATTATAGTGGAGTGGATTAA--AACCTCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAA-AGCA
* * * * * * * *
1121 AATCTTATCTCTCTGAAGTTACAG-AGAGTAGA-T-CGC--ATCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA
* *
1161 AGTCTTATCTCCCTGAAGCTGCAGTGCAGCAGACTAAGCAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA
* * * **
1206 AGTCTTATC-CTCCTAAAGTTGTAGT-GAGGTAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCAAAGCA
*
1251 AATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTT
1271 ACGGTGGAAC
Statistics
Matches: 215, Mismatches: 48, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
40 22 0.10
41 5 0.02
42 2 0.01
43 13 0.06
44 49 0.23
45 114 0.53
46 10 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA
Found at i:2567 original size:22 final size:22
Alignment explanation
Indices: 2524--2569 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
2514 AGTTTTTCTT
*
2524 ATTTTTTTAAATTCGACCTTTA
1 ATTTTTTTAAATTCGACATTTA
*
2546 ATTTATTTTAAATTCTA-ATTTA
1 ATTT-TTTTAAATTCGACATTTA
2568 AT
1 AT
2570 CCTTTTGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTTTTAAATTCGACATTTA
Found at i:3640 original size:98 final size:98
Alignment explanation
Indices: 3526--3722 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
3516 TTTAAAATAA
* * * *
3526 TAAAGGAAATATTCCGAGTTTGGGATTTTAATGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
3591 TTAAATCTTGGATCAA-TGGATGTTCTTTTAAAG
66 TTAAATCTTGGAT-AAGTGGATGTTCTTTTAAAG
*
3624 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGACTCGTGCCCTAACGTATTAGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
3689 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
3722 T
1 T
3723 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 2 0.02
98 91 0.98
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:6144 original size:53 final size:53
Alignment explanation
Indices: 6063--6170 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
6053 CCTTAAATTC
*
6063 TTCCATATGATGTCATAACTCACCAGTTACGGTATTACACGATATGGTCTTCT
1 TTCCATATGATGTCATAACCCACCAGTTACGGTATTACACGATATGGTCTTCT
* * * *
6116 TTCCATATGATGTCATAACCCACTAGTTATGGTCTTACACGATATGTTCTTCT
1 TTCCATATGATGTCATAACCCACCAGTTACGGTATTACACGATATGGTCTTCT
6169 TT
1 TT
6171 AGTGCCATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (53 bp):
TTCCATATGATGTCATAACCCACCAGTTACGGTATTACACGATATGGTCTTCT
Found at i:17521 original size:38 final size:37
Alignment explanation
Indices: 17448--17526 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
17438 TATTACGAAA
* *
17448 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
17485 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
17523 TCTT
1 TCTT
17527 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:17723 original size:47 final size:47
Alignment explanation
Indices: 17645--18078 Score: 708
Period size: 47 Copynumber: 9.2 Consensus size: 47
17635 CCCTTCGGGA
* * * * * * *
17645 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
17692 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17739 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17788 CTTATAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17835 CCTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17882 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17929 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17975 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18023 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18070 CTTATCACA
1 CTTATCACA
18079 ATTTAGAATT
Statistics
Matches: 362, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 6 0.02
47 305 0.84
48 6 0.02
49 45 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21564 original size:40 final size:40
Alignment explanation
Indices: 21427--21612 Score: 123
Period size: 40 Copynumber: 4.7 Consensus size: 40
21417 CACCAGCATG
* * * *
21427 ATTGCTCTTCGGGACCTAGCCCGGATATAA-CACCAGCACGA
1 ATTGC-CTTCGGGACTTAGCCCGGATATAATAACTAGC-CCA
* * ** * *
21468 A-TGCCTTCGGAACTTAGTCC-GATA-CCTCACTAGCACGA
1 ATTGCCTTCGGGACTTAGCCCGGATATAATAACTAGC-CCA
* * * * *
21506 A-TGCTCTTCGGAATTTAGCCCGGATTTAGTAACTCGCACCA
1 ATTGC-CTTCGGGACTTAGCCCGGATATAATAACTAGC-CCA
* * *
21547 A-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCTCA
1 ATTGCCTTCGGGACTTAGCCCGGATATAATAACTAGCCCA
21586 ATTGCCTTCGGGACTTAGCCCGGATAT
1 ATTGCCTTCGGGACTTAGCCCGGATAT
21613 CATTCAAATG
Statistics
Matches: 117, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
38 18 0.15
39 30 0.26
40 55 0.47
41 14 0.12
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
ATTGCCTTCGGGACTTAGCCCGGATATAATAACTAGCCCA
Found at i:21938 original size:29 final size:29
Alignment explanation
Indices: 21904--22006 Score: 163
Period size: 29 Copynumber: 3.6 Consensus size: 29
21894 TAATCAACCA
21904 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGTACTTTAAACT
21933 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGTACTTTAAACT
* * *
21962 CGCACACTTAGTGCCATGCA-TTTCAAGCC
1 CGCACACTTAGTGCCATGTACTTT-AAACT
21991 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
22007 ATCTCACAAC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 3 0.04
29 67 0.96
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGTACTTTAAACT
Found at i:22023 original size:17 final size:17
Alignment explanation
Indices: 22001--22037 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
21991 CGCACACTTA
22001 GTGCCAATCTCACAACC
1 GTGCCAATCTCACAACC
22018 GTGCCAATCTCACAACC
1 GTGCCAATCTCACAACC
22035 GTG
1 GTG
22038 AACACTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.19
Consensus pattern (17 bp):
GTGCCAATCTCACAACC
Found at i:22203 original size:42 final size:43
Alignment explanation
Indices: 22018--22191 Score: 325
Period size: 42 Copynumber: 4.1 Consensus size: 43
22008 TCTCACAACC
*
22018 GTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTA
1 GTGCCAATCTCACAACCGTGAACACTTATTGCTCGCACACTTA
22061 GTGCCAATCTCACAACCGTGAACACTTATTGC-CGCACACTTA
1 GTGCCAATCTCACAACCGTGAACACTTATTGCTCGCACACTTA
22103 GTGCCAATCTCACAACCGTGAACA-TTATTGCTCGCACACTTA
1 GTGCCAATCTCACAACCGTGAACACTTATTGCTCGCACACTTA
22145 GTGCCAATCTCACAACCGTGAACACTTATTGCTCGCACACTTA
1 GTGCCAATCTCACAACCGTGAACACTTATTGCTCGCACACTTA
22188 GTGC
1 GTGC
22192 TGAAAACCAA
Statistics
Matches: 129, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
41 7 0.05
42 68 0.53
43 54 0.42
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (43 bp):
GTGCCAATCTCACAACCGTGAACACTTATTGCTCGCACACTTA
Found at i:24389 original size:47 final size:47
Alignment explanation
Indices: 24323--24564 Score: 468
Period size: 47 Copynumber: 5.1 Consensus size: 47
24313 CATCGGCCCC
24323 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
24369 TATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
24417 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
24464 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
24511 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
24558 TATCACA
1 TATCACA
24565 ATTTAGAATT
Statistics
Matches: 194, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
46 2 0.01
47 190 0.98
48 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:27811 original size:17 final size:18
Alignment explanation
Indices: 27779--27846 Score: 77
Period size: 17 Copynumber: 3.9 Consensus size: 18
27769 GGCCCATTCC
27779 AGTAACAGTAAACAGTGT
1 AGTAACAGTAAACAGTGT
27797 AGTAACAGT-AACAGTGT
1 AGTAACAGTAAACAGTGT
* * ** *
27814 AGTAATAG-AAATAACGC
1 AGTAACAGTAAACAGTGT
27831 AGTAACAGTAAACAGT
1 AGTAACAGTAAACAGT
27847 ATGTAAGTCC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 26 0.67
18 13 0.33
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (18 bp):
AGTAACAGTAAACAGTGT
Found at i:28427 original size:27 final size:27
Alignment explanation
Indices: 28189--28425 Score: 309
Period size: 27 Copynumber: 8.8 Consensus size: 27
28179 TCTACCATAA
28189 AAGGGCAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
28216 AAGGGCAAAATAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
28243 AAGGGCAAAACAGTCATTTCACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* * * * *
28270 AAGGGTAGAACAGTCATTTTGCCACGT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
28297 AAGGGTAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
28324 ATA-GGCAGAACAGTCATTTTATCC-CAT
1 A-AGGGCAAAACAGTCATTTTA-CCTCAT
*
28351 AAGGGGAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
28378 AAGGGCAGAACAGTCATTTTATCC-CAT
1 AAGGGCAAAACAGTCATTTTA-CCTCAT
**
28405 AAGGGCAAAACAACCATTTTA
1 AAGGGCAAAACAGTCATTTTA
28426 TCGATTAAGT
Statistics
Matches: 183, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.02
27 175 0.96
28 5 0.03
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCTCAT
Found at i:31719 original size:6 final size:6
Alignment explanation
Indices: 31710--31762 Score: 74
Period size: 6 Copynumber: 8.8 Consensus size: 6
31700 TGGCCCATTG
31710 CAGTAA CAGTAAA CAGT-A CAGTAA CAGTAA CAGT-A CAGTAA CAGTAAA
1 CAGTAA CAGT-AA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGT-AA
31758 CAGTA
1 CAGTA
31763 TGTATCTCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 10 0.23
6 21 0.49
7 12 0.28
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:31737 original size:11 final size:12
Alignment explanation
Indices: 31710--31762 Score: 74
Period size: 11 Copynumber: 4.4 Consensus size: 12
31700 TGGCCCATTG
31710 CAGTAACAGTAAA
1 CAGTAACAGT-AA
31723 CAGT-ACAGTAA
1 CAGTAACAGTAA
31734 CAGTAACAGT-A
1 CAGTAACAGTAA
31745 CAGTAACAGTAAA
1 CAGTAACAGT-AA
31758 CAGTA
1 CAGTA
31763 TGTATCTCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 17 0.46
12 10 0.27
13 10 0.27
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (12 bp):
CAGTAACAGTAA
Found at i:31743 original size:17 final size:18
Alignment explanation
Indices: 31710--31762 Score: 99
Period size: 17 Copynumber: 3.0 Consensus size: 18
31700 TGGCCCATTG
31710 CAGTAACAGTAAACAGTA
1 CAGTAACAGTAAACAGTA
31728 CAGTAACAGT-AACAGTA
1 CAGTAACAGTAAACAGTA
31745 CAGTAACAGTAAACAGTA
1 CAGTAACAGTAAACAGTA
31763 TGTATCTCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.50
18 17 0.50
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTA
Found at i:32065 original size:26 final size:27
Alignment explanation
Indices: 32036--32264 Score: 87
Period size: 27 Copynumber: 8.6 Consensus size: 27
32026 ACATAGGGGT
* *
32036 AAAACAGTCATCTTACTATAAAAAGGA
1 AAAACAGTCATTTTACCATAAAAAGGA
* * *
32063 AAAATAGTCATTTTACCAT-ATAAGGG
1 AAAACAGTCATTTTACCATAAAAAGGA
* * * *
32089 CAAACAGTCATTTTACC-TCATAAGGGC
1 AAAACAGTCATTTTACCAT-AAAAAGGA
* * * *
32116 AAAACAGTCATTTCACC-TCATAAGGGC
1 AAAACAGTCATTTTACCAT-AAAAAGGA
* * *** *
32143 AGAATAGTCATTTTACCA-CGTAAGGTC
1 AAAACAGTCATTTTACCATAAAAAGG-A
* * *
32170 AAAGCAGTCATTTTACC-TCATAAAGGT
1 AAAACAGTCATTTTACCAT-AAAAAGGA
* * * *
32197 AGAACAGCCATTTTATCCAT--AAGGGG
1 AAAACAGTCATTTTA-CCATAAAAAGGA
* *
32223 AAAACAGTCATTTTACC-TCATAAAGGC
1 AAAACAGTCATTTTACCAT-AAAAAGGA
*
32250 AGAACAGTCATTTTA
1 AAAACAGTCATTTTA
32265 TCCCATAAGG
Statistics
Matches: 154, Mismatches: 37, Indels: 22
0.72 0.17 0.10
Matches are distributed among these distances:
24 1 0.01
25 3 0.02
26 40 0.26
27 103 0.67
28 6 0.04
29 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATAAAAAGGA
Found at i:32221 original size:80 final size:78
Alignment explanation
Indices: 32063--32302 Score: 275
Period size: 80 Copynumber: 3.0 Consensus size: 78
32053 ATAAAAAGGA
* *
32063 AAAATAGTCATTTTACCATATAAGGGCAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATT
1 AAAATAGTCATTTTACCACATAA-GGCAAACAGTCATTTTACCTCATAAGGGCAAAACAGCCATT
* *
32128 TCACCTCATAAGGGC
65 TTATC-CATAAGGGC
* * * * *
32143 AGAATAGTCATTTTACCACGTAAGGTCAAAGCAGTCATTTTACCTCATAAAGGTAGAACAGCCAT
1 AAAATAGTCATTTTACCACATAAGG-CAAA-CAGTCATTTTACCTCATAAGGGCAAAACAGCCAT
*
32208 TTTATCCATAAGGGG
64 TTTATCCATAAGGGC
* * *
32223 AAAACAGTCATTTTACCTCATAAAGGCAGAACAGTCATTTTATCC-CATAAGGGCAAAACAACCA
1 AAAATAGTCATTTTACCACAT-AAGGCA-AACAGTCATTTTA-CCTCATAAGGGCAAAACAGCCA
*
32287 TTTTATCGATTAAGGG
63 TTTTATCCA-TAAGGG
32303 TTTAGGTATG
Statistics
Matches: 135, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
79 2 0.01
80 85 0.63
81 48 0.36
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (78 bp):
AAAATAGTCATTTTACCACATAAGGCAAACAGTCATTTTACCTCATAAGGGCAAAACAGCCATTT
TATCCATAAGGGC
Found at i:32227 original size:107 final size:107
Alignment explanation
Indices: 32068--32264 Score: 290
Period size: 107 Copynumber: 1.8 Consensus size: 107
32058 AAGGAAAAAT
* *
32068 AGTCATTTTACCATATAAGGGCAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTCACC
1 AGTCATTTTACCATATAAAGGCAAACAGCCATTTTACCTCATAAGGGCAAAACAGTCATTTCACC
* *
32133 TCATAAGGGCAGAATAGTCATTTTACCACGTAAGGTCAAAGC
66 TCATAAAGGCAGAACAGTCATTTTACCACGTAAGGTCAAAGC
* * * *
32175 AGTCATTTTACC-TCATAAAGGTAGAACAGCCATTTTATC-CATAAGGGGAAAACAGTCATTTTA
1 AGTCATTTTACCAT-ATAAAGGCA-AACAGCCATTTTACCTCATAAGGGCAAAACAGTCATTTCA
32238 CCTCATAAAGGCAGAACAGTCATTTTA
64 CCTCATAAAGGCAGAACAGTCATTTTA
32265 TCCCATAAGG
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
106 1 0.01
107 66 0.82
108 13 0.16
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (107 bp):
AGTCATTTTACCATATAAAGGCAAACAGCCATTTTACCTCATAAGGGCAAAACAGTCATTTCACC
TCATAAAGGCAGAACAGTCATTTTACCACGTAAGGTCAAAGC
Found at i:32289 original size:107 final size:108
Alignment explanation
Indices: 32091--32291 Score: 280
Period size: 107 Copynumber: 1.9 Consensus size: 108
32081 TATAAGGGCA
* * *
32091 AACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTCACCTCATAAGGGCAGAATAGTCATTT
1 AACAGCCATTTTACCTCATAAGGGCAAAACAGTCATTTCACCTCATAAAGGCAGAACAGTCATTT
* * * **
32156 TACCACGTAAGGTCAAAGCAGTCATTTTACCTCATAAAGGTAG
66 TACCACATAAGGGCAAAACAACCATTTTACCTCATAAAGGTAG
* * *
32199 AACAGCCATTTTATC-CATAAGGGGAAAACAGTCATTTTACCTCATAAAGGCAGAACAGTCATTT
1 AACAGCCATTTTACCTCATAAGGGCAAAACAGTCATTTCACCTCATAAAGGCAGAACAGTCATTT
32263 TATCC-CATAAGGGCAAAACAACCATTTTA
66 TA-CCACATAAGGGCAAAACAACCATTTTA
32292 TCGATTAAGG
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
107 66 0.81
108 15 0.19
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (108 bp):
AACAGCCATTTTACCTCATAAGGGCAAAACAGTCATTTCACCTCATAAAGGCAGAACAGTCATTT
TACCACATAAGGGCAAAACAACCATTTTACCTCATAAAGGTAG
Found at i:32293 original size:27 final size:27
Alignment explanation
Indices: 32063--32291 Score: 250
Period size: 27 Copynumber: 8.6 Consensus size: 27
32053 ATAAAAAGGA
*
32063 AAAATAGTCATTTTACCAT-ATAAGGGC
1 AAAACAGTCATTTTACC-TCATAAGGGC
32090 -AAACAGTCATTTTACCTCATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
*
32116 AAAACAGTCATTTCACCTCATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
* * * * *
32143 AGAATAGTCATTTTACCACGTAAGGTC
1 AAAACAGTCATTTTACCTCATAAGGGC
* * *
32170 AAAGCAGTCATTTTACCTCATAAAGGT
1 AAAACAGTCATTTTACCTCATAAGGGC
* * * *
32197 AGAACAGCCATTTTATC-CATAAGGGG
1 AAAACAGTCATTTTACCTCATAAGGGC
*
32223 AAAACAGTCATTTTACCTCATAAAGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
*
32250 AGAACAGTCATTTTATCC-CATAAGGGC
1 AAAACAGTCATTTTA-CCTCATAAGGGC
**
32277 AAAACAACCATTTTA
1 AAAACAGTCATTTTA
32292 TCGATTAAGG
Statistics
Matches: 166, Mismatches: 32, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
25 1 0.01
26 44 0.27
27 119 0.72
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAACAGTCATTTTACCTCATAAGGGC
Done.