Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2542
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: 31230
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Found at i:9662 original size:187 final size:186
Alignment explanation
Indices: 9369--13253 Score: 7206
Period size: 187 Copynumber: 20.8 Consensus size: 186
9359 CTTAGATGTG
*
9369 GTCAAACAAGGAGACTCGCCCTAAGAGAAACCTATTTCTCCCGTAGAAATTTTTCAACTTGACAC
1 GTCAAACAA-GAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGAC-C
9434 C-CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAA
64 CTCTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAA
**
9498 TACACGGGAAGAATAAATTTCTTACGGGAGAAGATAGCTCTCTGTAGCGGTTAGTCGTC
129 TACACGGGAAGAA-AAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
9557 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
9622 CTCATTTTGTCTTCCCATATATAAGAAAATGTAAAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
*
9687 CACGGGAAGAATAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTGGTCGTC
131 CACGGGAAGAA-AAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
* *
9744 GTCAGACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGCAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
9809 CTCATTTTGTCTTCCCATATA-AAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
*
9873 CACGGGAAGAAAATATTTCTTACGGGAGAAGTGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAAAA-ATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
*
9930 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCC
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
9995 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAATAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
10060 CACGGGAAGAAAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAG-AAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
*
10117 GTCAGACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
10182 CTCATTTTGTCTTCCCATATATAAGAAAATGTAAAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
10247 CACGGGAAGAAAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAG-AAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
10304 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
10369 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
10434 CACGGGAAGAAAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAG-AAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
10491 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
10556 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
10621 CACGGGAAGAATAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAA-AAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
10678 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
10743 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
*
10808 CACGGGAAGAAAATATTTCTTACGGGAGAAGTGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAAAA-ATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
10865 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
10930 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
10995 CACGGGAAGAAAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAG-AAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
11052 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
11117 CTCATTTTGTCTTCCCATATAAAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
*
11182 CACGGGAAGAAAATATTTCTTACGGGAGAAGTGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAAAA-ATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
11239 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
11304 CTCATTTTGTCTTCCCATATAAAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
*
11369 CACGGGAAGAAAAAATTTCTTACGGGAGAAGTGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAG-AAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
11426 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCC-
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
11490 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
11555 CACGGGAAGAAAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAG-AAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
11612 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
11677 CTCATTTTGTCTTCCCATATAAAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
11742 CACGGGAAGAAAATATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAAAA-ATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
11799 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
11864 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
11929 CACGGGAAGAAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
11985 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
12050 CTCATTTTGTCTTCCCATATA-AAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
*
12114 CACGGGAAGAAAATATTTCTTACGGGAGAAGTGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAAAA-ATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
*
12171 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCC
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
12236 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
12301 CACGGGAAGAATAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAA-AAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
12358 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
12423 CTCATTTTGTCTTCCCATATAAAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
*
12488 CACGGGAAGAAAATATTTCTTACGGGAGAAGTGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAAAA-ATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
12545 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
12610 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAATAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
12675 CACGGGAAGAAAATATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAAAA-ATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
12732 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
12797 CTCATTTTGTCTTCCCATATAAAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
*
12862 CACGGGAAGAAAATATTTCTTACGGGAGAAGTGAGCTCTCTGTAGCGGTTAGTCGTC
131 CACGGGAAGAAAA-ATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
12919 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
*
12984 CTCATTTTGTCTTCCCATATATAAGAAAATGTAAAAAATTTCATGCTCAATGAACTTTAAAAATA
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
* *
13049 CACGGGAAGAAAAAATTTCTTACGGGAGAAACGAGCTCTCTGTAGCGGTTAGTCATC
131 CACGGGAAG-AAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
* *
13106 GTCATACAAGAGACTCGCCCTAAGAGAAACCTACTTCGCCCGTAGAAATTTTTCAACTTGACCCT
1 GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
* ** *
13171 CTCATTTTGTCTTCCCATATATAAGAAAATATA-AATTTTTATATGCTCAATGAACTTT-AAAAT
66 CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTT-CATGCTCAATGAACTTTAAAAAT
*
13234 ACACGGAAAGAAAAAATTTC
130 ACACGGGAAG-AAAAATTTC
13254 ATCGAGCTCT
Statistics
Matches: 3627, Mismatches: 53, Indels: 36
0.98 0.01 0.01
Matches are distributed among these distances:
185 58 0.02
186 662 0.18
187 2880 0.79
188 27 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (186 bp):
GTCAAACAAGAGACTCGCCCTAAGAGAAACCTACTTCTCCCGTAGAAATTTTTCAACTTGACCCT
CTCATTTTGTCTTCCCATATATAAGAAAATGTACAAAATTTCATGCTCAATGAACTTTAAAAATA
CACGGGAAGAAAAATTTCTTACGGGAGAAGCGAGCTCTCTGTAGCGGTTAGTCGTC
Found at i:13599 original size:152 final size:152
Alignment explanation
Indices: 13323--14769 Score: 2490
Period size: 152 Copynumber: 9.5 Consensus size: 152
13313 ACTTTATCAC
* ** *
13323 TGTAAATGTTGGAGTGTTCTTGAGTCCGTCGGGTGGTACCGTAAGAGCGGTTCTGACACATTTTC
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
*
13388 ATACATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
66 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
*
13453 ATTATATCACTGTAAAGGTAGA
131 ATTATATCACTGTAAATGTAGA
* *
13475 TGTAATTGTTGGAGTATTCAGGAGTCGGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
13540 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGAG-
66 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAG-GT
*
13604 AATTTTATCACTGTAAATGTAGA
130 AATTATATCACTGTAAATGTAGA
* * *
13627 TTTAATTGTTGGAGTGTGCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGATTCTGACACATTTTC
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
13692 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
66 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
13757 ATTATATCACTGTAAATGTAGA
131 ATTATATCACTGTAAATGTAGA
* *
13779 TGTAATTGTTGGAGTGTTCTGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTTTGACACATTTTC
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
* *
13844 ATACATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTGACATACTTGTTCATTATAGAG-
66 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAG-GT
*
13908 AATTTTATCACTGTAAATGTAGA
130 AATTATATCACTGTAAATGTAGA
* * *
13931 TTTAATTGTTGTAGTGTGCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
13996 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
66 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
*
14061 ATTATATCCCTGTAAATGTAGA
131 ATTATATCACTGTAAATGTAGA
14083 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
14148 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
66 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
14213 ATTATATCACTGTAAATGTAGA
131 ATTATATCACTGTAAATGTAGA
*
14235 TGTAATTGTTGGAGTGTTCAGGAGTCGGTCGGGTGGTACCGTAAAAGCGGTTTCTGACACATTTT
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGG-TTCTGACACATTTT
*
14300 CATACATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGAG
65 CATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAG-G
*
14365 -AATTTTATCACTGTAAATGTAGA
129 TAATTATATCACTGTAAATGTAGA
* *
14388 TTTAATTGTTGGAGTGTGCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
14453 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGAG-
66 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAG-GT
*
14517 AATTTTATCACTGTAAATGTAGA
130 AATTATATCACTGTAAATGTAGA
* *
14540 TTTAATTGTTGGAGTGTGCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
*
14605 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAAGTA
66 ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
*
14670 ATTATATCACTGTAAATGAAGA
131 ATTATATCACTGTAAATGTAGA
* * *
14692 TGTAATTGTTGGAGTGTTCTGGAGT-CGTCGGGTGGTACCGTAAAAGCGGGTCTGACACATATTC
1 TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
**
14756 ATACGTTGAAGGGG
66 ATAAATTGAAGGGG
14770 TGATATACCT
Statistics
Matches: 1235, Mismatches: 53, Indels: 15
0.95 0.04 0.01
Matches are distributed among these distances:
151 52 0.04
152 1035 0.84
153 147 0.12
154 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (152 bp):
TGTAATTGTTGGAGTGTTCAGGAGTCCGTCGGGTGGTACCGTAAAAGCGGTTCTGACACATTTTC
ATAAATTGAAGGGGCTTTATTCGACATAGAGCATTCAAATTTCACATACTTGTTCATTATAGGTA
ATTATATCACTGTAAATGTAGA
Found at i:15940 original size:231 final size:231
Alignment explanation
Indices: 15391--16111 Score: 1365
Period size: 229 Copynumber: 3.1 Consensus size: 231
15381 TTTTAAATTA
*
15391 AAAAACCCAACAAAACATTGAGGATACATTTATATTTTTTTGAAGTTTTATTTTTTAAAAATTTC
1 AAAAACCCAACAAAACATTGAGCATACATTTATATTTTTTTGAAGTTTTATTTTTT-AAAATTTC
15456 GCCAAAATAAAAAATGAAAAAAAAATTTTATTTGTCAGTCAGTTCAATGAATTTTGTTTTTCCCT
65 GCCAAAATAAAAAATGAAAAAAAAATTTTATTTGTCAGTCAGTTCAATGAATTTTGTTTTTCCCT
15521 ATCTACATATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCG
130 ATCTACATATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCG
*
15586 GACACTCGGACTGTGCCTTTTTAGATTAAAGCGCACC
195 GACGCTCGGACTGTGCCTTTTTAGATTAAAGCGCACC
15623 AAAAACCCAACAAAACATTGAGCATACATTTATATTTTTTTGAAGTTTTATTTTTTAAAATTTCG
1 AAAAACCCAACAAAACATTGAGCATACATTTATATTTTTTTGAAGTTTTATTTTTTAAAATTTCG
15688 CCAAAATAAAAAATGAAAAAAAAATTTTATTTGTCAGTCAGTTCAATGAATTTTGTTTTTCCCTA
66 CCAAAATAAAAAATGAAAAAAAAATTTTATTTGTCAGTCAGTTCAATGAATTTTGTTTTTCCCTA
15753 TCTACATATGGGCTTAGCTCGAGCT-CCAGACCCATCAAAA-TTTTGACCAGGAGACGGGTCCGG
131 TCTACATATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGG
15816 ACGCTCGGACTGTGCCTTTTTAGATTAAAGCGCACC
196 ACGCTCGGACTGTGCCTTTTTAGATTAAAGCGCACC
15852 AAAAACCCAACAAAACATTGAGCATACATTTATATTTTTTTGAAGTTTTATTTTTTAAAATTTCG
1 AAAAACCCAACAAAACATTGAGCATACATTTATATTTTTTTGAAGTTTTATTTTTTAAAATTTCG
15917 CCAAAATAAAAAATGAAAAAAAAATTTTATTTGTCAGTCAGTTCAATGAATTTTGTTTTTCCCTA
66 CCAAAATAAAAAATGAAAAAAAAATTTTATTTGTCAGTCAGTTCAATGAATTTTGTTTTTCCCTA
15982 TCTACATATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGG
131 TCTACATATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGG
16047 ACGCTCGGACTGTGCCTTTTTAGATTAAAGCGCACC
196 ACGCTCGGACTGTGCCTTTTTAGATTAAAGCGCACC
* * *
16083 AAAAAACCCAGCAAAACCTTGAGCGTACA
1 -AAAAACCCAACAAAACATTGAGCATACA
16112 ACTATTTTTT
Statistics
Matches: 481, Mismatches: 5, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
229 213 0.44
230 30 0.06
231 158 0.33
232 80 0.17
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (231 bp):
AAAAACCCAACAAAACATTGAGCATACATTTATATTTTTTTGAAGTTTTATTTTTTAAAATTTCG
CCAAAATAAAAAATGAAAAAAAAATTTTATTTGTCAGTCAGTTCAATGAATTTTGTTTTTCCCTA
TCTACATATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGG
ACGCTCGGACTGTGCCTTTTTAGATTAAAGCGCACC
Found at i:16362 original size:56 final size:56
Alignment explanation
Indices: 16190--16363 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 56
16180 TCCTTTGGCA
*
16190 AAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* * * * * * *
16246 AAATTTTC-TAG-ACTAAC-CGTACACACACAACCACAAAA-ACTTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCGCA-TATCTCGCAAACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
16301 AAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
16358 AAATTT
1 AAATTT
16364 TCTAGACCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
55 17 0.19
56 44 0.49
57 18 0.20
58 1 0.01
59 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (56 bp):
AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
Found at i:16704 original size:388 final size:388
Alignment explanation
Indices: 15988--19479 Score: 6968
Period size: 388 Copynumber: 9.0 Consensus size: 388
15978 CCTATCTACA
15988 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
1 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
16053 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
66 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
16118 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
131 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
16183 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
196 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
16248 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
261 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
16313 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
326 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
16376 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
1 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
16441 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
66 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
16506 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
131 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
16571 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
196 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
16636 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
261 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
16701 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
326 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
16764 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
1 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
16829 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
66 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
16894 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
131 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
16959 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
196 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
17024 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
261 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
17089 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
326 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
17152 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
1 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
17217 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
66 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
17282 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
131 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
17347 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
196 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
17412 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
261 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
17477 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
326 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
17540 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
1 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
17605 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
66 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
17670 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
131 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
17735 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
196 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
17800 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
261 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
17865 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
326 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
17928 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
1 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
17993 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
66 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
18058 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
131 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
18123 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
196 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
18188 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
261 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
18253 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
326 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
18316 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
1 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
18381 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
66 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
18446 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
131 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
18511 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
196 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
18576 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
261 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
18641 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
326 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
18704 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
1 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
18769 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
66 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
18834 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
131 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
18899 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
196 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
18964 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
261 ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
19029 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
326 CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
19092 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
1 TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
19157 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
66 GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
19222 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
131 TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
19287 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
196 TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
19352 ATTTTCTAGACTAACCGTACAC-CACAAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATC
261 ATTTTCTAGACTAACCGTACACACAC-AACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATC
19416 GCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
325 GCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
19480 GGTACACACA
Statistics
Matches: 3103, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
387 3 0.00
388 3100 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (388 bp):
TATGGGCTTAGCTCGAGCTCCCAGACCCATCAAAATTTTTGACCAGGAGACGGGTCCGGACGCTC
GGACTGTGCCTTTTTAGATTAAAGCGCACCAAAAAACCCAGCAAAACCTTGAGCGTACAACTATT
TTTTGGGTTTTTTGGTGCGCTTTAATCTAAAAAGGCACAGTCCGAGCGTCCGGACCTGCCTTTCC
TTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTCAA
ATTTTCTAGACTAACCGTACACACACAACCACAAAAACTTGCCTTTCTTTGGCAAAATTTCATCG
CATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTCAAATTTTCTAGACCAACC
Found at i:16750 original size:56 final size:56
Alignment explanation
Indices: 16578--16751 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 56
16568 TCCTTTGGCA
*
16578 AAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* * * * * * *
16634 AAATTTTC-TAG-ACTAAC-CGTACACACACAACCACAAAA-ACTTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCGCA-TATCTCGCAAACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
16689 AAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
16746 AAATTT
1 AAATTT
16752 TCTAGACCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
55 17 0.19
56 44 0.49
57 18 0.20
58 1 0.01
59 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (56 bp):
AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
Found at i:17138 original size:56 final size:56
Alignment explanation
Indices: 16966--17139 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 56
16956 TCCTTTGGCA
*
16966 AAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* * * * * * *
17022 AAATTTTC-TAG-ACTAAC-CGTACACACACAACCACAAAA-ACTTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCGCA-TATCTCGCAAACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
17077 AAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
17134 AAATTT
1 AAATTT
17140 TCTAGACCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
55 17 0.19
56 44 0.49
57 18 0.20
58 1 0.01
59 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (56 bp):
AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
Found at i:17526 original size:56 final size:56
Alignment explanation
Indices: 17354--17527 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 56
17344 TCCTTTGGCA
*
17354 AAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* * * * * * *
17410 AAATTTTC-TAG-ACTAAC-CGTACACACACAACCACAAAA-ACTTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCGCA-TATCTCGCAAACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
17465 AAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
17522 AAATTT
1 AAATTT
17528 TCTAGACCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
55 17 0.19
56 44 0.49
57 18 0.20
58 1 0.01
59 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (56 bp):
AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
Found at i:17914 original size:56 final size:56
Alignment explanation
Indices: 17742--17915 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 56
17732 TCCTTTGGCA
*
17742 AAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* * * * * * *
17798 AAATTTTC-TAG-ACTAAC-CGTACACACACAACCACAAAA-ACTTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCGCA-TATCTCGCAAACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
17853 AAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
17910 AAATTT
1 AAATTT
17916 TCTAGACCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
55 17 0.19
56 44 0.49
57 18 0.20
58 1 0.01
59 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (56 bp):
AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
Found at i:18302 original size:56 final size:56
Alignment explanation
Indices: 18130--18303 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 56
18120 TCCTTTGGCA
*
18130 AAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* * * * * * *
18186 AAATTTTC-TAG-ACTAAC-CGTACACACACAACCACAAAA-ACTTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCGCA-TATCTCGCAAACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
18241 AAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
18298 AAATTT
1 AAATTT
18304 TCTAGACCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
55 17 0.19
56 44 0.49
57 18 0.20
58 1 0.01
59 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (56 bp):
AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
Found at i:18690 original size:56 final size:56
Alignment explanation
Indices: 18518--18691 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 56
18508 TCCTTTGGCA
*
18518 AAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* * * * * * *
18574 AAATTTTC-TAG-ACTAAC-CGTACACACACAACCACAAAA-ACTTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCGCA-TATCTCGCAAACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
18629 AAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
18686 AAATTT
1 AAATTT
18692 TCTAGACCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
55 17 0.19
56 44 0.49
57 18 0.20
58 1 0.01
59 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (56 bp):
AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
Found at i:19078 original size:56 final size:56
Alignment explanation
Indices: 18906--19079 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 56
18896 TCCTTTGGCA
*
18906 AAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* * * * * * *
18962 AAATTTTC-TAG-ACTAAC-CGTACACACACAACCACAAAA-ACTTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCGCA-TATCTCGCAAACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
19017 AAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
19074 AAATTT
1 AAATTT
19080 TCTAGACCAA
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
55 17 0.19
56 44 0.49
57 18 0.20
58 1 0.01
59 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (56 bp):
AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
Found at i:19424 original size:112 final size:113
Alignment explanation
Indices: 19275--19608 Score: 584
Period size: 112 Copynumber: 3.0 Consensus size: 113
19265 GAGCGTCCGG
19275 ACCTGCCTTTCCTTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCG
1 ACCTGCCTTT-CTTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCG
*
19340 TGTGTGTTTCAAATTTTCTAGACTAACC-GTACACCACAAACCAC-AAAA
65 TGTGTGTTTCAAATTTTCTAGACCAACCGGTACA-CACAAACCACAAAAA
* *
19388 ACTTGCCTTTCTTTGGCAAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGT
1 ACCTGCCTTTCTTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGT
19453 GTGTGTTTCAAATTTTCTAGACCAACCGGTACACAC-AACCACAAAAA
66 GTGTGTTTCAAATTTTCTAGACCAACCGGTACACACAAACCACAAAAA
19500 ACCTGCCTTTCTTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGT
1 ACCTGCCTTTCTTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGT
*
19565 GTGTGTTTCAAATTTTCTAGCCCAACCGGTACACACACAACCAC
66 GTGTGTTTCAAATTTTCTAGACCAACCGGTACACACA-AACCAC
19609 CTAACCTACC
Statistics
Matches: 211, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
111 6 0.03
112 185 0.88
113 14 0.07
114 6 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (113 bp):
ACCTGCCTTTCTTTGGCAAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGT
GTGTGTTTCAAATTTTCTAGACCAACCGGTACACACAAACCACAAAAA
Found at i:19466 original size:56 final size:56
Alignment explanation
Indices: 19294--19579 Score: 172
Period size: 56 Copynumber: 5.1 Consensus size: 56
19284 TCCTTTGGCA
*
19294 AAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* * * * * *
19350 AAATTTTC-TAG-ACTAAC-CGTACACCACA-AACCACAAAA-ACTTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCGCA-TATCTCGCA-AACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
19405 AAAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
* ** * * ** *
19462 AAATTTTC-TAGACCA-A-C-CG-GTACACACAACCACAAAAAACCTGCC-T-T-TCTTTGGC
1 AAA-TTTCATCG--CATATCTCGCAAACA-AGAACC-CAAAATATTTGCCGTGTGTGTTT--C
*
19517 AAAATTTCATCGCATATCTCGCAAAGAAGAACCCAAAATATTTGCCGTGTGTGTTTC
1 -AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
19574 AAATTT
1 AAATTT
19580 TCTAGCCCAA
Statistics
Matches: 168, Mismatches: 30, Indels: 64
0.64 0.11 0.24
Matches are distributed among these distances:
53 8 0.05
54 7 0.04
55 30 0.18
56 79 0.47
57 30 0.18
58 6 0.04
59 8 0.05
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (56 bp):
AAATTTCATCGCATATCTCGCAAACAAGAACCCAAAATATTTGCCGTGTGTGTTTC
Found at i:19624 original size:5 final size:5
Alignment explanation
Indices: 19607--19846 Score: 448
Period size: 5 Copynumber: 48.0 Consensus size: 5
19597 ACACACAACC
19607 ACCTA ACCT- ACCTA ACCTA A-CTA ACCTA ACCTA ACCTA ACCTA CTACCTA
1 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA --ACCTA
19657 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA
1 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA
19707 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA
1 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA
19757 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA
1 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA
19807 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA
1 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA
19847 TGTTTCAAAT
Statistics
Matches: 231, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.03
5 218 0.94
7 5 0.02
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
ACCTA
Found at i:20456 original size:13 final size:13
Alignment explanation
Indices: 20438--20471 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
20428 AGAGAGAGAG
20438 AAAAATTTTTGTA
1 AAAAATTTTTGTA
20451 AAAAA--TTTGTA
1 AAAAATTTTTGTA
20462 AAAAATTTTT
1 AAAAATTTTT
20472 TTCTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.58
13 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (13 bp):
AAAAATTTTTGTA
Found at i:21016 original size:347 final size:348
Alignment explanation
Indices: 20380--21077 Score: 1380
Period size: 347 Copynumber: 2.0 Consensus size: 348
20370 AGTAACCACA
20380 CCTCACACACAATATTAGCGAAAGGGTGGGTGGTGCGCGCATTATTGGAGAGAGAGAGAAAAATT
1 CCTCACACACAATATTAGCGAAAGGGTGGGTGGTGCGCGCATTATTGGAGAGAGAGAGAAAAATT
20445 TTTGTAAAAAATTTGTAAAAAATTTTTTTCTAATTTTTGGCCTGCCACGTACAACACAGGTTGAA
66 TTTGTAAAAAATTTGTAAAAAATTTTTTTCTAATTTTTGGCCTGCCACGTACAACACAGGTTGAA
20510 ACGTGATGATGATGATAAAATCATATACACGCTTCAACACAGTGCGCGGGTTGTTTATCCATCCA
131 ACGTGATGATGATGATAAAATCATATACACGCTTCAACACAGTGCGCGGGTTGTTTATCCATCCA
20575 AATAACCAAACAAACAAATTGTTGTTAATAGAAATTGGTGTATTAATTTTATTTTTTTCTTTCAT
196 AATAACCAAACAAACAAATTGTTGTTAATAGAAATTGGTGTATTAATTTTATTTTTTTCTTTCAT
20640 CTTCAGAGTGTTGTGAACCGCCAAAGCTAGGGGCTAGGTCTCAACAGATCGCAGCGTGGTAACTG
261 CTTCAGAGTGTTGTGAACCGCCAAAGCTAGGGGCTAGGTCTCAACAGATCGCAGCGTGGTAACTG
20705 CTCTACCGACTCACAGCGCCCCG
326 CTCTACCGACTCACAGCGCCCCG
20728 CCTCACACACAATATTAGCGAAAGGGTGGGTGGTGCGCGCATTATTGGAGAGAGAGAGAAAAATT
1 CCTCACACACAATATTAGCGAAAGGGTGGGTGGTGCGCGCATTATTGGAGAGAGAGAGAAAAATT
*
20793 TTTGTAAAAAATTTGT-AAAAATTTTTTTTTAATTTTTGGCCTGCCACGTACAACACAGGTTGAA
66 TTTGTAAAAAATTTGTAAAAAATTTTTTTCTAATTTTTGGCCTGCCACGTACAACACAGGTTGAA
20857 ACGTGATGATGATGATAAAATCATATACACGCTTCAACACAGTGCGCGGGTTGTTTATCCATCCA
131 ACGTGATGATGATGATAAAATCATATACACGCTTCAACACAGTGCGCGGGTTGTTTATCCATCCA
20922 AATAACCAAACAAACAAATTGTTGTTAATAGAAATTGGTGTATTAATTTTATTTTTTTCTTTCAT
196 AATAACCAAACAAACAAATTGTTGTTAATAGAAATTGGTGTATTAATTTTATTTTTTTCTTTCAT
20987 CTTCAGAGTGTTGTGAACCGCCAAAGCTAGGGGCTAGGTCTCAACAGATCGCAGCGTGGTAACTG
261 CTTCAGAGTGTTGTGAACCGCCAAAGCTAGGGGCTAGGTCTCAACAGATCGCAGCGTGGTAACTG
21052 CTCTACCGACTCACAGCGCCCCG
326 CTCTACCGACTCACAGCGCCCCG
21075 CCT
1 CCT
21078 GGTACGTAAG
Statistics
Matches: 349, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
347 268 0.77
348 81 0.23
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (348 bp):
CCTCACACACAATATTAGCGAAAGGGTGGGTGGTGCGCGCATTATTGGAGAGAGAGAGAAAAATT
TTTGTAAAAAATTTGTAAAAAATTTTTTTCTAATTTTTGGCCTGCCACGTACAACACAGGTTGAA
ACGTGATGATGATGATAAAATCATATACACGCTTCAACACAGTGCGCGGGTTGTTTATCCATCCA
AATAACCAAACAAACAAATTGTTGTTAATAGAAATTGGTGTATTAATTTTATTTTTTTCTTTCAT
CTTCAGAGTGTTGTGAACCGCCAAAGCTAGGGGCTAGGTCTCAACAGATCGCAGCGTGGTAACTG
CTCTACCGACTCACAGCGCCCCG
Done.