Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold827
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: 66965
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Found at i:1249 original size:50 final size:51
Alignment explanation
Indices: 1132--1304 Score: 183
Period size: 50 Copynumber: 3.4 Consensus size: 51
1122 GAAATAACGA
* * * * * *
1132 GGTTGGAGTGTCCTCGATT-GTGAAAAAATTGGTGTTTTTGGAAATAGAATCG
1 GGTTGGAGTATCCCCGATTAGTGGAAAAA-TAGTGTTTTAGAAAATA-AATCG
* * *
1184 AGCTGGAGTATCCCCGATTAAG-GGAAAATTAGTGTTTTA-AAAATAAATCG
1 GGTTGGAGTATCCCCGATT-AGTGGAAAAATAGTGTTTTAGAAAATAAATCG
* *
1234 GGTTGGAGTATCCCCGATT-GTGGAAAAATATTGTTTTAGCAAATAAATCGG
1 GGTTGGAGTATCCCCGATTAGTGGAAAAATAGTGTTTTAGAAAATAAATC-G
1285 GGTTGGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
1305 TGAGAAATCA
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.01
49 15 0.15
50 31 0.31
51 25 0.25
52 23 0.23
53 5 0.05
54 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTAGTGGAAAAATAGTGTTTTAGAAAATAAATCG
Found at i:1322 original size:51 final size:48
Alignment explanation
Indices: 1187--1351 Score: 161
Period size: 50 Copynumber: 3.2 Consensus size: 48
1177 AGAATCGAGC
* * *
1187 TGGAGTATCCCCGATTAAGGGAAAATTAGTGTTTTAAAAATAAATC-GGGT
1 TGGAGTATCCCCGATTATGAG-AAA-TAATGTTTT-AAAATAAATCGGGGT
* * *
1237 TGGAGTATCCCCGATTGTGGAAAAATATTGTTTTAGCAAATAAATCGGGGT
1 TGGAGTATCCCCGATTAT-GAGAAATAATGTTTTA--AAATAAATCGGGGT
* *
1288 TGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGGGGGT
1 TGGAGTATCCCCGATTATGAGAAAT-AATGTTTTAA-AATAAATC--GGGGT
1340 TGGAGTATCCCC
1 TGGAGTATCCCC
1352 TCGGAAATAA
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
48 1 0.01
49 9 0.09
50 41 0.42
51 29 0.30
52 17 0.18
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (48 bp):
TGGAGTATCCCCGATTATGAGAAATAATGTTTTAAAATAAATCGGGGT
Found at i:3802 original size:20 final size:20
Alignment explanation
Indices: 3775--3829 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
3765 TAAAATTTCC
*
3775 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
3795 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
3815 AAATGTATCGATACA
1 AAATGTATCGATACA
3830 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:3873 original size:19 final size:18
Alignment explanation
Indices: 3849--3916 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
3839 CAGTAGCTAA
3849 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
3868 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
3883 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
3900 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
3917 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:3889 original size:13 final size:13
Alignment explanation
Indices: 3871--3895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3861 ACAATACTTA
3871 TGTATCGATACAT
1 TGTATCGATACAT
3884 TGTATCGATACA
1 TGTATCGATACA
3896 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3893 original size:32 final size:32
Alignment explanation
Indices: 3852--3914 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3842 TAGCTAATTA
*
3852 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
3884 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
3915 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:3979 original size:21 final size:22
Alignment explanation
Indices: 3953--4010 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
3943 GTTGGGACCC
* *
3953 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
3974 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
3995 TGTATCGATACATTTG
1 TGTATCGATACATTTG
4011 GATAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:8136 original size:13 final size:13
Alignment explanation
Indices: 8118--8147 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8108 ACTTTTTACC
*
8118 ATGTATTGATACA
1 ATGTATCGATACA
8131 ATGTATCGATACA
1 ATGTATCGATACA
8144 ATGT
1 ATGT
8148 CCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8153 original size:33 final size:33
Alignment explanation
Indices: 8095--8163 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
8085 GCCGTTGGGC
** * *
8095 ACAATGTATCGATACTTTTTACCATGTATTGAT
1 ACAATGTATCGATACAATGTACCATGTATCGAT
*
8128 ACAATGTATCGATACAATGTCCCATGTATCGAT
1 ACAATGTATCGATACAATGTACCATGTATCGAT
8161 ACA
1 ACA
8164 TTTCACTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTACCATGTATCGAT
Found at i:8238 original size:19 final size:19
Alignment explanation
Indices: 8192--8247 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
8182 CTGCCAGTTT
*
8192 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
8212 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
8231 CGTGTATCGATACAATG
1 CATGTATCGATACAATG
8248 TCTCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:8866 original size:155 final size:155
Alignment explanation
Indices: 8575--9869 Score: 1131
Period size: 155 Copynumber: 8.3 Consensus size: 155
8565 GTTTATACGA
* * * * *
8575 GTATACCTTAGACGTAAAAGTATCCCGACAACCTTAAAGGACTTAAAAAGACTCATAAAAAGGAT
1 GTATACCTTCGACGTAAAAGTATCCTGGCAACCCTAAAGGACTTAAAAAGACT-ATAAAAGGGAT
* * * *
8640 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACTCGGTGACAACCTAAGAGT-TAGTT
65 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAAGACTCGA-TT
*
8704 -TTAAAAATTACAAAAATGCCCTTACGG
129 CTAAAAAATTACAAAAATGCCCTTA-GG
* *
8731 GTATACCTTCGATGTAAAAGTATCCTGGCAACCCTAAAAGACTTAAAAAGACTCATAAAAGGGAT
1 GTATACCTTCGACGTAAAAGTATCCTGGCAACCCTAAAGGACTTAAAAAGACT-ATAAAAGGGAT
* * ** * *
8796 GAACCTAT-CTAAATGCCCACCTTCGACATAAAAGC-AGACTCGGTGATGACCTAAGAGTTGATT
65 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGA-ACCCGGTGACAACCTAAGACTCGATT
** **
8859 CT-AAAAATTATGAAAATGCCCTTACAA
129 CTAAAAAATTACAAAAATGCCCTTA-GG
* * * *
8886 GCATACCTTCGATGTAAAAATAT-CTCGGCAACCTTAAAGGACTTAAAAAGACTCAT-AAAGGGA
1 GTATACCTTCGACGTAAAAGTATCCT-GGCAACCCTAAAGGACTTAAAAAGACT-ATAAAAGGG-
* * * *
8949 ATGAAACTATCCTAAATGCCCACCTTCGGCTTAAAAGC-AGACCCGGGTGACAACTTAGGACTCG
63 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGA-ACCC-GGTGACAACCTAAGACTCG
** *
9013 ATTCTAAAAAATTACAAAAAT-ATCGTAGG
126 ATTCTAAAAAATTACAAAAATGCCCTTAGG
* * * * * *
9042 GGATACCTTCGACGTAGAAGTA-CCCGGC-ACCCTTAAA-GACTTAAAAAGGATTATAGAAGGGG
1 GTATACCTTCGACGTAAAAGTATCCTGGCAACCC-TAAAGGACTTAAAAA-GACTATAAAAGGGA
* * * * *
9104 TGAATCTATCGTAAATACCCACCTTCGGCATAAAAGC-AGACCCGGTGACAACTTAGGACTCGAT
64 TGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGA-ACCCGGTGACAACCTAAGACTCGAT
*
9168 TCTAGAAAAATTACGAAAATGACCCTTAGG
128 TCTA-AAAAATTACAAAAATG-CCCTTAGG
* * * * * * * * *
9198 G-ATGCCTTTGACGTGAAAGTATCCAGGTACCCCTAAAAGACTTAAAAAGGACTATAGATGGGAT
1 GTATACCTTCGACGTAAAAGTATCCTGGCAACCCTAAAGGACTTAAAAA-GACTATAAAAGGGAT
* * * * * *
9262 AAACCTATCCCAAATGCCCACCATCGGCATAAAAGTGAACCCGATGACAACCTAGGACTC-AGTT
65 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAAGACTCGA-TT
*
9326 CTAGAAAATTACAAAAATGCCC-TATGG
129 CTAAAAAATTACAAAAATGCCCTTA-GG
* * * * * *
9353 GTATACCTTTGACATAAAAGTAT-CTCAGCAACCCTAAAGGACTTAAAAAGACTAGAGATGGGAT
1 GTATACCTTCGACGTAAAAGTATCCT-GGCAACCCTAAAGGACTTAAAAAGACTATAAAAGGGAT
** * * * *
9417 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGTTC
65 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAAGACTCGATTC
* * *
9482 TAAAAAGTTAAAAAAATGCCCCTTGGG
130 TAAAAAATTACAAAAATG-CCCTTAGG
* *
9509 GTATACCTTCGATGTAAAATTA-CC---CATACCCCTAAAGGACTTAAAAAAGACTATAAAAGAG
1 GTATACCTTCGACGTAAAAGTATCCTGGCA-A-CCCTAAAGGACTT-AAAAAGACTATAAAAG-G
* * * *
9570 G-CGAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCGAACTCGATGACAACCTAAGACTCGA
62 GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAAGACTCGA
* ** * *
9634 TAT-TGAAAAATTATGAGAATGCCCCTAGG
127 T-TCTAAAAAATTACAAAAATGCCCTTAGG
* * * * *
9663 GGATACCTTCGACGTGAAAGTAT-CTCGGTATCCCTAAAAGACTTTAAAAAGACTATTAAAAGGG
1 GTATACCTTCGACGTAAAAGTATCCT-GGCAACCCTAAAGGAC-TTAAAAAGACTA-TAAAAGGG
* * * *
9727 -TAAACCTATCAC-AAATACCCACCGTT-GGCATAAAAGCGAACTCGGTGATGAA-CTAAGACTC
63 ATGAACCTATC-CTAAATGCCCACC-TTCGGCATAAAAGCGAACCCGGTGA-CAACCTAAGACTC
* ** * *
9788 GGTTCTAAAAAATTATGAAAATACCCCTAAGG
125 GATTCTAAAAAATTACAAAAAT-GCCCTTAGG
* *
9820 G-ATACCTTCG--GTATGAAAGTATCCCGGCAACCCTAAAGGGCTTAAAAAGA
1 GTATACCTTCGACGTA--AAAGTATCCTGGCAACCCTAAAGGACTTAAAAAGA
9870 TTAGAGTGCT
Statistics
Matches: 945, Mismatches: 147, Indels: 95
0.80 0.12 0.08
Matches are distributed among these distances:
152 2 0.00
153 26 0.03
154 118 0.12
155 337 0.36
156 324 0.34
157 123 0.13
158 15 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (155 bp):
GTATACCTTCGACGTAAAAGTATCCTGGCAACCCTAAAGGACTTAAAAAGACTATAAAAGGGATG
AACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAAGACTCGATTCT
AAAAAATTACAAAAATGCCCTTAGG
Found at i:9242 original size:311 final size:310
Alignment explanation
Indices: 8577--9869 Score: 1205
Period size: 311 Copynumber: 4.2 Consensus size: 310
8567 TTATACGAGT
* * * * * *
8577 ATACCTTAGACGTAAAAGTATCCCGACAACCTTAAAGGACTTAAAAAGACTCATAAAAAGGATGA
1 ATACCTTCGATGTAAAAGTATCCAGGCAACCCTAAAGGACTTAAAAAGACT-ATAAAAGGGATGA
* * * * * * *
8642 ACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACTCGGTGACAACCTAAGAGT-TAGTTTT
65 AACTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGATGACAACCTAAGACTCGAGTTTA
* * * *
8706 AAAAATTACAAAAATGCCCTTACGGGTATACCTTCGATGTAAAAGTATCCTGGCAACCCTAAAAG
130 AAAAATTACAAAAATGCCCCTACGGGGATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAAG
* * *
8771 ACTTAAAAAGACTCATAAAAGGGATGAACCTATCTAAATGCCCACCTTCGACATAAAAGC-AGAC
195 ACTTAAAAAGACT-ATAGAAGGGATGAACCTATCTAAATACCCACCTTCGGCATAAAAGCGA-AC
* * * * * *
8835 TCGGTGATGACCTAAGAGTTGATTCT-AAAAATTATGAAAATG-CCCTTACAAGC
258 CCGGTGATAACCTAAGACTCGATTCTAAAAAATTATGAAAATGACCCTT--AGGG
* *
8888 ATACCTTCGATGTAAAAATATCTC-GGCAACCTTAAAGGACTTAAAAAGACTCAT-AAAGGGAAT
1 ATACCTTCGATGTAAAAGTATC-CAGGCAACCCTAAAGGACTTAAAAAGACT-ATAAAAGGG-AT
* * * *
8951 GAAACTATCCTAAATGCCCACCTTCGGCTTAAAAGC-AGACCCGGGTGACAACTTAGGACTCGA-
63 GAAACTATCCTAAATGCCCACCTTCGGCATAAAAGCGA-ACCC-GATGACAACCTAAGACTCGAG
** * *
9014 TTCTAAAAAATTACAAAAAT-ATCGTA-GGGGATACCTTCGACGTAGAAGTA-CCCGGC-ACCCT
126 TT-TAAAAAATTACAAAAATGCCCCTACGGGGATACCTTCGACGTAAAAGTATCCCGGCAACCCT
* * * *
9075 TAAAGACTTAAAAAGGATTATAGAAGGGGTGAATCTATCGTAAATACCCACCTTCGGCATAAAAG
190 AAAAGACTTAAAAA-GACTATAGAAGGGATGAACCTATC-TAAATACCCACCTTCGGCATAAAAG
* * * *
9140 C-AGACCCGGTGACAACTTAGGACTCGATTCTAGAAAAATTACGAAAATGACCCTTAGGG
253 CGA-ACCCGGTGATAACCTAAGACTCGATTCTA-AAAAATTATGAAAATGACCCTTAGGG
* * * * * * * * *
9199 ATGCCTTTGACGTGAAAGTATCCAGGTACCCCTAAAAGACTTAAAAAGGACTATAGATGGGAT-A
1 ATACCTTCGATGTAAAAGTATCCAGGCAACCCTAAAGGACTTAAAAA-GACTATAAAAGGGATGA
* * * *
9263 AACCTATCCCAAATGCCCACCATCGGCATAAAAGTGAACCCGATGACAACCTAGGACTC-AGTTC
65 AA-CTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGATGACAACCTAAGACTCGAGTT-
* * * * * * *
9327 TAGAAAATTACAAAAATG-CCCTATGGGTATACCTTTGACATAAAAGTATCTCAGCAACCCTAAA
128 TAAAAAATTACAAAAATGCCCCTACGGGGATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAA
* * * *
9391 GGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAA
193 AGACTTAAAAAGACTATAGAAGGGATGAACCTAT-CTAAATACCCACCTTCGGCATAAAAGCGAA
* * * * * * ** * *
9456 CCCGGTGATGACCTAGGAGTTGGTTCTAAAAAGTTAAAAAAATGCCCCTTGGGG
257 CCCGGTGATAACCTAAGACTCGATTCTAAAAAATTATGAAAATGACCCTTAGGG
* * * * *
9510 TATACCTTCGATGTAAAATTACCCA--TACCCCTAAAGGACTTAAAAAAGACTATAAAAGAGG-C
1 -ATACCTTCGATGTAAAAGTATCCAGGCAACCCTAAAGGACTT-AAAAAGACTATAAAAG-GGAT
* * *
9572 GAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCGAACTCGATGACAACCTAAGACTCGA-TA
63 GAAACTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGATGACAACCTAAGACTCGAGT-
* ** * * * * *
9636 TTGAAAAATTATGAGAATGCCCCTA-GGGGATACCTTCGACGTGAAAGTATCTCGGTATCCCTAA
127 TTAAAAAATTACAAAAATGCCCCTACGGGGATACCTTCGACGTAAAAGTATCCCGGCAACCCTAA
* * *
9700 AAGACTTTAAAAAGACTATTAAAAGGG-TAAACCTATCACAAATACCCACCGTT-GGCATAAAAG
192 AAGAC-TTAAAAAGACTA-TAGAAGGGATGAACCTATC-TAAATACCCACC-TTCGGCATAAAAG
* * *
9763 CGAACTCGGTGATGAA-CTAAGACTCGGTTCTAAAAAATTATGAAAAT-ACCCCTAAGGG
253 CGAACCCGGTGAT-AACCTAAGACTCGATTCTAAAAAATTATGAAAATGA-CCCTTAGGG
* * * * *
9821 ATACCTTCGGTATGAAAGTATCCCGGCAACCCTAAAGGGCTTAAAAAGA
1 ATACCTTCGATGTAAAAGTATCCAGGCAACCCTAAAGGACTTAAAAAGA
9870 TTAGAGTGCT
Statistics
Matches: 805, Mismatches: 139, Indels: 76
0.79 0.14 0.07
Matches are distributed among these distances:
309 36 0.04
310 245 0.30
311 330 0.41
312 153 0.19
313 41 0.05
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (310 bp):
ATACCTTCGATGTAAAAGTATCCAGGCAACCCTAAAGGACTTAAAAAGACTATAAAAGGGATGAA
ACTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGATGACAACCTAAGACTCGAGTTTAA
AAAATTACAAAAATGCCCCTACGGGGATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAAGA
CTTAAAAAGACTATAGAAGGGATGAACCTATCTAAATACCCACCTTCGGCATAAAAGCGAACCCG
GTGATAACCTAAGACTCGATTCTAAAAAATTATGAAAATGACCCTTAGGG
Found at i:11321 original size:20 final size:20
Alignment explanation
Indices: 11284--11321 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11274 GTCCCAAAAA
* *
11284 TCTTTTCTTTTTTTTTCTTC
1 TCTTTTCTTTATTCTTCTTC
11304 TCTTTTCTTTATTCTTCT
1 TCTTTTCTTTATTCTTCT
11322 CATGAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTTTTCTTTATTCTTCTTC
Found at i:11440 original size:22 final size:22
Alignment explanation
Indices: 11414--11455 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11404 TTGCTGATGG
* *
11414 TTGCTGTTTACGTTGTTTCCGA
1 TTGCTATTTACGTTGCTTCCGA
*
11436 TTGCTATTTGCGTTGCTTCC
1 TTGCTATTTACGTTGCTTCC
11456 TGCTGCTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.50
Consensus pattern (22 bp):
TTGCTATTTACGTTGCTTCCGA
Found at i:11686 original size:20 final size:20
Alignment explanation
Indices: 11643--11708 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
11633 CTTTCTTTTT
* *
11643 TCTTCTTT-CGGTGTTGTT-
1 TCTTCTTTCCGTTTTTGTTC
*
11661 TCTTCTTTCC-TCTTTTTTTC
1 TCTTCTTTCCGT-TTTTGTTC
11681 TCTTCTATTCCGTTTTTGTTC
1 TCTTCT-TTCCGTTTTTGTTC
11702 T-TTCTTT
1 TCTTCTTT
11709 AGCTGTTGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 8 0.21
19 8 0.21
20 10 0.26
21 12 0.31
22 1 0.03
ACGTcount: A:0.02, C:0.23, G:0.09, T:0.67
Consensus pattern (20 bp):
TCTTCTTTCCGTTTTTGTTC
Found at i:12846 original size:14 final size:14
Alignment explanation
Indices: 12829--12859 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
12819 TTTTCTTTTC
12829 TTTCTTTGTTTTGT
1 TTTCTTTGTTTTGT
12843 TTTCTTTGTTTTGT
1 TTTCTTTGTTTTGT
12857 TTT
1 TTT
12860 TTTTTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.13, T:0.81
Consensus pattern (14 bp):
TTTCTTTGTTTTGT
Found at i:13034 original size:14 final size:13
Alignment explanation
Indices: 13015--13050 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
13005 TAAAAAATAA
13015 AAAAATTAAATTGT
1 AAAAATTAAATT-T
*
13029 AAAAATAAAATTT
1 AAAAATTAAATTT
13042 AAAAATTAA
1 AAAAATTAA
13051 GATAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAAATTAAATTT
Found at i:14499 original size:84 final size:83
Alignment explanation
Indices: 14411--14569 Score: 212
Period size: 83 Copynumber: 1.9 Consensus size: 83
14401 ACCTAGGTTA
* *
14411 AACCGAT-ATGCCAACAAAAGATAAAAAGATTTACTCGAGACTAAGCCGACAAGTAAATAAGGGA
1 AACCGATGA-GCCAACAAAAGAT-AAAAGATTTACTCGAGACCAAGCCGACAAGTAAATAAAGGA
* *
14475 TGAAAGGTTGACTGAGATTG
64 TAAAAAGTTGACTGAGATTG
* ** * *
14495 AACCGATGAGTCAACAATGGATAAAAGATTTACTCGAGACCAAGCCGACAGGTGAATAAAGGATA
1 AACCGATGAGCCAACAAAAGATAAAAGATTTACTCGAGACCAAGCCGACAAGTAAATAAAGGATA
14560 AAAAGTTGAC
66 AAAAGTTGAC
14570 CAGGATTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 47 0.72
84 17 0.26
85 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (83 bp):
AACCGATGAGCCAACAAAAGATAAAAGATTTACTCGAGACCAAGCCGACAAGTAAATAAAGGATA
AAAAGTTGACTGAGATTG
Found at i:14590 original size:83 final size:83
Alignment explanation
Indices: 14434--14610 Score: 203
Period size: 83 Copynumber: 2.1 Consensus size: 83
14424 ACAAAAGATA
* * * * * *
14434 AAAAGATTTACTCGAGACTAAGCCGACAAGTAAATAAGGGATGAAAGGTTGACTGAGATTGAACC
1 AAAAGATTTACTCGAGACCAAGCCGACAAGTAAATAAAGGATAAAAAGTTGACAGAGATTAAACC
** *
14499 GATGAGTCAACAATGGAT
66 GACAAGTCAACAAGGGAT
* * *
14517 AAAAGATTTACTCGAGACCAAGCCGACAGGTGAATAAAGGATAAAAAGTTGACCAG-GATTAAAT
1 AAAAGATTTACTCGAGACCAAGCCGACAAGTAAATAAAGGATAAAAAGTTGA-CAGAGATTAAAC
*
14581 TGACAAGTCAACAAGGGAT
65 CGACAAGTCAACAAGGGAT
* *
14600 CAAGGATTTAC
1 AAAAGATTTAC
14611 CTAAGATTGG
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 76 0.97
84 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (83 bp):
AAAAGATTTACTCGAGACCAAGCCGACAAGTAAATAAAGGATAAAAAGTTGACAGAGATTAAACC
GACAAGTCAACAAGGGAT
Found at i:14848 original size:84 final size:83
Alignment explanation
Indices: 14752--15062 Score: 398
Period size: 84 Copynumber: 3.7 Consensus size: 83
14742 CTAAATTGAT
* *
14752 AGGTCACCATAAGGGTAATGGGCTTACCGATGACTAAGCCGACAAGTAAACAATGGATGAAGGTT
1 AGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACAATGGATGAAGGTT
14817 GACCTAAGACTGAGCTGAC
66 GA-CTAAGACTGAGCTGAC
* *
14836 AGGTCACCATAAGGGTAATGGGTTTACCAAGGACTAAGCCGACAGGTAAACAATGGATGAAGGTT
1 AGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACAATGGATGAAGGTT
* * * *
14901 GACTGGAGACTAAGTTGAT
66 GACT-AAGACTGAGCTGAC
* * * *
14920 AGGTCACCATAAGGGTAATGGGTTTACCGGGGACTAAGCCAATAGGTAAACAATGGATGAAGGTT
1 AGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACAATGGATGAAGGTT
14985 GACTAGAGACTGAGCTGAC
66 GACTA-AGACTGAGCTGAC
* * *
15004 AAGCCA-C-TAAGGAG-AGA-GGGTTTACCGAGGACTAAG-CTAGCAAGTAAACAATGGATGAA
1 AGGTCACCATAAGG-GTA-ATGGGTTTACCGAGGACTAAGCCGA-CAAGTAAACAATGGATGAA
15063 AGTTATTTCC
Statistics
Matches: 200, Mismatches: 22, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
81 2 0.01
82 41 0.20
83 5 0.03
84 152 0.76
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (83 bp):
AGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACAATGGATGAAGGTT
GACTAAGACTGAGCTGAC
Found at i:14923 original size:168 final size:165
Alignment explanation
Indices: 14729--15062 Score: 460
Period size: 168 Copynumber: 2.0 Consensus size: 165
14719 TGAAGGATAC
* *
14729 AGGTTGATCGAGACTAAATTGATAGGTCACCATAAGGGTAATGGGCTTACCGATGACTAAGCCGA
1 AGGTTGATCGAGACTAAATTGATAGGTCACCATAAGGGTAATGGGCTTACCGAGGACTAAGCCAA
* *
14794 CAAGTAAACAATGGATGAAGGTTGACCTA-AGACTGAGCTGACAGGTCACCATAAGG-GTA-ATG
66 CAAGTAAACAATGGATGAAGGTTGA-CTAGAGACTGAGCTGACAAGCCA-C-TAAGGAG-AGA-G
*
14856 GGTTTACCAAGGACTAAGCCGA-CAGGTAAACAATGGATGA
126 GGTTTACCAAGGACTAAG-CGAGCAAGTAAACAATGGATGA
* * * *
14896 AGGTTGACTGGAGACTAAGTTGATAGGTCACCATAAGGGTAATGGGTTTACCGGGGACTAAGCCA
1 AGGTTGA-TCGAGACTAAATTGATAGGTCACCATAAGGGTAATGGGCTTACCGAGGACTAAGCCA
* *
14961 ATAGGTAAACAATGGATGAAGGTTGACTAGAGACTGAGCTGACAAGCCACTAAGGAGAGAGGGTT
65 ACAAGTAAACAATGGATGAAGGTTGACTAGAGACTGAGCTGACAAGCCACTAAGGAGAGAGGGTT
* *
15026 TACCGAGGACTAAGCTAGCAAGTAAACAATGGATGA
130 TACCAAGGACTAAGCGAGCAAGTAAACAATGGATGA
15062 A
1 A
15063 AGTTATTTCC
Statistics
Matches: 149, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
165 2 0.01
166 42 0.28
167 13 0.09
168 92 0.62
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (165 bp):
AGGTTGATCGAGACTAAATTGATAGGTCACCATAAGGGTAATGGGCTTACCGAGGACTAAGCCAA
CAAGTAAACAATGGATGAAGGTTGACTAGAGACTGAGCTGACAAGCCACTAAGGAGAGAGGGTTT
ACCAAGGACTAAGCGAGCAAGTAAACAATGGATGA
Found at i:15363 original size:85 final size:84
Alignment explanation
Indices: 15185--17360 Score: 751
Period size: 85 Copynumber: 25.7 Consensus size: 84
15175 GTAGATGAAA
* * * * * *
15185 GATAAAGAAGT-TTCCTAGGTCTAAGTTGACGGGCAGACGGTTGATAAAGGAAGTCTCCCAAGAC
1 GATAAAGAAGTCTTCC-AGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCT-CCAGGTC
* **
15249 TCAA-CCGATGGGCAAACGAAA
64 T-AAGCCGATGGGCAGACGATT
* * * * *
15270 AATGAAGAAGTCTTCCAGGTTTAAGTCGATGGGTAGACGGTTGATAAAAGAAGTCTCCAAGGTCT
1 GATAAAGAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTCC-AGGTCT
15335 AAGCCGATGGGCAGACGATT
65 AAGCCGATGGGCAGACGATT
* * * * * * *
15355 GATAAAGAAGTCTCCCAAGTCAAAGTCGATGGGCAAACGAATGAT-AATGGAGTCTCTCAGGTCT
1 GATAAAGAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTC-CAGGTCT
* *
15419 GAGCCGAAGGGCAGACGATT
65 AAGCCGATGGGCAGACGATT
* * * * * * * * * *
15439 GATGAAGGGAGTC-TCCCGAGTCTTAGCCAATGGGCAGACGGTGGAT-GAAGAAGTCTCCCAAGT
1 GAT-AAAGAAGTCTTCCAG-GTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCT-CCAGGT
* * * * * **
15502 CAAAGTCGACGGGCAAATGAAA
63 CTAAGCCGATGGGCAGACGATT
* * ** * * *
15524 GATGAAGGAAGTC-TCTCGGGTCTAAGTCGATGGGCAGACGAAAGATGAAGGAAGTCTCTCGGGT
1 GAT-AAAGAAGTCTTC-CAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTC-CAGGT
** *** *
15588 CTAAGTTGACAAGCAGACGAAT
63 CTAAGCCGATGGGCAGACGATT
* * * * * * * * ** **
15610 GATAAAGGAGTCTCCCAAGTTTGAGTCGACGGGCGGACAAAAGATGGAA-AAGTCTTCCAGGTC-
1 GATAAAGAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTC-TCCAGGTCT
* * *
15673 ---CCGAT-GGTAGATGAAT
65 AAGCCGATGGGCAGACGATT
* * * * * * *
15689 GATGAAAGAAGTCTCCCAGGTCTAAGTCAACGGGCAGATGAATGATGAAA-AAGTCTCTC-GAAT
1 GAT-AAAGAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTC-CAG-GT
* * *
15752 CTAAGCCAACGGGCAGATGATT
63 CTAAGCCGATGGGCAGACGATT
* * * * * * * *
15774 GACAAAGGAAGTCTCCCAAGTCTAAGTCGACGGGCAGATGATTGACAAAGGAAGTCTCCTAGGTT
1 GATAAA-GAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTCC-AGGTC
* **
15839 TAAGTCGACAGGCAGACGATT
64 TAAGCCGATGGGCAGACGATT
* * * * * * * * * * *
15860 GACAAAGGAAGTCTCCCAAGTCCAAGCCAACGGGTAGACGATTGACAAAGGAAGTCTTCCAAGTC
1 GATAAA-GAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTC-TCCAGGTC
* * **
15925 TAAGCTGATGGGCAGACAAAA
64 TAAGCCGATGGGCAGACGATT
* * * * * * *
15946 GATGAAAGAAATC-TCTCGGGTCTAAGCCGATGGGTAGACGAATGATGAAA-AAGTCACTC-GAG
1 GAT-AAAGAAGTCTTC-CAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTC-CAG-G
* *
16008 TCTAAGTCGACGGGCAGACGATT
62 TCTAAGCCGATGGGCAGACGATT
* * * * *
16031 GACAAAGGAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGATTGACAAAGGAAGTCTCCCGAGTC
1 GATAAA-GAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTCCAG-GTC
* *
16096 TAAGTCGATGGGTAGACGATT
64 TAAGCCGATGGGCAGACGATT
* * * * ** *
16117 AATGAAA-AAGTC-TCCTGGGTTTGAACT-GATGGGCAGACGATTGATAAGCGAAGTCTCTTAGG
1 GAT-AAAGAAGTCTTCC-AGGTCT-AAGTCGATGGGCAGACGATTGATAAAAGAAGTCTC-CAGG
* * * * **
16179 TCTAAGTCAACGGGCAGACAAAA
62 TCTAAGCCGATGGGCAGACGATT
** * * * * * **
16202 GATGAAAGAAGTC-TCTTGAGTCTAAGCCGA-GAGGTAGCCGAATGATGAAA-AAGTCTCTTGGG
1 GAT-AAAGAAGTCTTCCAG-GTCTAAGTCGATG-GGCAGACGATTGATAAAAGAAGTCTC-CAGG
* * *
16264 TCTCATCTGATGGGCAGACGATT
62 TCTAAGCCGATGGGCAGACGATT
* * * * * * * ** **
16287 GACAAAGGAAGTCTCCCGGGTCTAAATTGACGGGTA-AATAGTTGATAAAAGAAGTCTCTTGAGT
1 GATAAA-GAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGA-TTGATAAAAGAAGTCTCCAG-GT
* ** * * *
16351 CTAAGCTGAAAGGTAGATGATC
63 CTAAGCCGATGGGCAGACGATT
* * ** * * * *
16373 GACAAAGGAAGTC-TCCTAGGTCTAAGCCGACAGGCAGGCGAATGATGAAA-AAGTCTCCTGGGT
1 GATAAA-GAAGTCTTCC-AGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTCC-AGGT
* * * *
16436 TTAAGCTGATAGGCAGATGATT
63 CTAAGCCGATGGGCAGACGATT
** * * * ** * *
16458 GATAAAGGAAGTC-TCTTGGGTTTAAG-CTGACGGACAGGTGATTGATAAAGGAAGTCTCTCGGG
1 GATAAA-GAAGTCTTC-CAGGTCTAAGTC-GATGGGCAGACGATTGATAAAAGAAGTCTC-CAGG
* * * *
16521 TTTAAGTCGACGGGCAAACGATT
62 TCTAAGCCGATGGGCAGACGATT
* * * * * * * * * ***
16544 AACAAAAGAAAGTC-TCCTGGGTTTAAGCCAATGAGCAGACGGTTGATAAAAGAAGACTTTTGGG
1 GA-TAAAG-AAGTCTTCC-AGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTC-TCCAGG
** *
16608 TCTAAGTTGATAGGCAGACGATT
62 TCTAAGCCGATGGGCAGACGATT
* * * * * *
16631 GACAAAAGAAGTCTTCC-GAGTCTAAGCCGACGGGTAAACGA-AGATGAAAA-AAGTCTCTC-GG
1 GA-TAAAGAAGTCTTCCAG-GTCTAAGTCGATGGGCAGACGATTGAT-AAAAGAAGTCTC-CAGG
* *
16692 ATCTAAGCCGACGGGCAGACGAAT
62 -TCTAAGCCGATGGGCAGACGATT
* * * * * *
16716 GATGAAA-AA-TC-TCCAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTT
1 GAT-AAAGAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTCC-AGGTC
**
16778 TAAGCCGGCGGGCAGACGATT
64 TAAGCCGATGGGCAGACGATT
* * * * * *
16799 GATGAAA-AAGTCTCCCGGGTCTGAA-CCAATGGGCAGACGATTGAT-AAAGAAAATCTCTCGGG
1 GAT-AAAGAAGTCTTCCAGGTCT-AAGTCGATGGGCAGACGATTGATAAAAG-AAGTCTC-CAGG
* ** * **
16861 TCTAAGCCAACAGGCAGACAAAA
62 TCTAAGCCGATGGGCAGACGATT
* * * * *
16884 GATGAAAGAAGTCTCCCGGGTCTAAG-CTGATGGGCAGTCGAATGATAAAA-AAGGCT-----T-
1 GAT-AAAGAAGTCTTCCAGGTCTAAGTC-GATGGGCAGACGATTGATAAAAGAAGTCTCCAGGTC
*
16941 TAAGCCGATGAGCAGACGATT
64 TAAGCCGATGGGCAGACGATT
* * * * * * *
16962 AACAAAGGAAGTC-TCCTAGGTCTAAGTCGATGGGTAGATGATTGACAAAGGAAGTCTCCCGAGT
1 GATAAA-GAAGTCTTCC-AGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTCCAG-GT
* **
17026 GTAAGTGGATGGGCAGACGATT
63 CTAAGCCGATGGGCAGACGATT
* * * * * *
17048 GATGGAA-AAGT-TTCCTTA-GTCTAAGTTGATGGGTAGACGATTAACAAAAGAAGTCTCCTGGG
1 GAT-AAAGAAGTCTTCC--AGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTCC-AGG
* *
17110 TGTAAGTCGATGGGCAGACGATT
62 TCTAAGCCGATGGGCAGACGATT
* * * * *
17133 GATGGAA-AAGTC-TCCTAAGTCTAAG-CTGATGGGTAGACGATTAACAAAAGAAGTCTCCCAGG
1 GAT-AAAGAAGTCTTCC-AGGTCTAAGTC-GATGGGCAGACGATTGATAAAAGAAGTCT-CCAGG
* * * *
17195 TCTAAGCCGACGGGAAAATGATT
62 TCTAAGCCGATGGGCAGACGATT
* * * * * * * *
17218 GATAGAA-AAGTCTCTCGA-GTTTGAGCCGATGGGCAAACGATTGAGAAATGAAGTCTCCCGAGT
1 GATA-AAGAAGTCT-TCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTCCAG-GT
* * *
17281 CTAAGCTGATGGGCAAATGATT
63 CTAAGCCGATGGGCAGACGATT
* * * * *
17303 AATAAAAAAGTCTTCCGGGTCTAAG-CTGATGGGC-GAACGATTGAGAAAGGAAGTCTCC
1 GATAAAGAAGTCTTCCAGGTCTAAGTC-GATGGGCAG-ACGATTGATAAAAGAAGTCTCC
17361 CGAGTGATTG
Statistics
Matches: 1605, Mismatches: 379, Indels: 214
0.73 0.17 0.10
Matches are distributed among these distances:
77 5 0.00
78 45 0.03
79 21 0.01
80 46 0.03
82 27 0.02
83 41 0.03
84 91 0.06
85 844 0.53
86 395 0.25
87 88 0.05
88 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (84 bp):
GATAAAGAAGTCTTCCAGGTCTAAGTCGATGGGCAGACGATTGATAAAAGAAGTCTCCAGGTCTA
AGCCGATGGGCAGACGATT
Found at i:16097 original size:128 final size:128
Alignment explanation
Indices: 15276--17365 Score: 642
Period size: 128 Copynumber: 16.4 Consensus size: 128
15266 GAAAAATGAA
* * * ** * * *
15276 GAAGTCTTCCAGGTTTAAGTCGATGGGTAGACGGTTGATAAAAGAAGTCT-CCAAGGTCTAAGCC
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGAGAAAGGAAGTCTCCCGA-GTCTAAGCC
* * * * * * *
15340 GATGGGCAGACGATTGAT-AAAGAAGTCTCCCAAGTCAAAGTCGATGGGCAAACGAATGATAATG
65 GATGGGCAGACGAATGATGAAA-AAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGACAAAG
* * * * * * *
15404 G-AGTCTCTCAGGTCTGAGCCGAAGGGCAGACGATTGATG-AAGGGAGTCTCCCGAGTCTTAGCC
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGA-GAAAGGAAGTCTCCCGAGTCTAAGCC
* * * * * * ** **
15467 AATGGGCAGACG-GTGGATGAAGAAGTCTCCCAAGTCAAAGTCGACGGGCAAATGAAAGATGAAG
65 GATGGGCAGACGAAT-GATGAAAAAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGACAAAG
* * * * * **
15531 GAAGTCTCTCGGGTCTAAGTCGATGGGCAGACGAAAGATG-AAGGAAGTCTCTCGGGTCTAAGTT
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGA-GAAAGGAAGTCTCCCGAGTCTAAGCC
*** * * * * * ** **
15595 GACAAGCAGACGAATGAT-AAAGGAGTCTCCCAAGTTTGAGTCGACGGGCGGACAAAAGATGGAA
65 GATGGGCAGACGAATGATGAAA-AAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGA-CAAA
15659 -
128 G
* * * * *
15659 -AAGTCTTCCAGGTC----CCGAT-GGTAGATGAATGATGAAA-GAAGTCTCCC-AGGTCTAAGT
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGA-GAAAGGAAGTCTCCCGA-GTCTAAGC
* * * * * * *
15716 CAACGGGCAGATGAATGATGAAAAAGTCTCTCGAA-TCTAAGCCAACGGGCAGATGATTGACAAA
64 CGATGGGCAGACGAATGATGAAAAAGTCTC-CCAAGTCTAAGTCGACGGGCAGACGATTGACAAA
15780 G
128 G
* * * * * * * *
15781 GAAGTCTCCCAAGTCTAAGTCGACGGGCAGATGATTGACAAAGGAAGTCT-CCTAGGTTTAAGTC
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGAGAAAGGAAGTCTCCCGA-GTCTAAGCC
** * * * * * *
15845 GACAGGCAGACGATTGA-CAAAGGAAGTCTCCCAAGTCCAAGCCAACGGGTAGACGATTGACAAA
65 GATGGGCAGACGAATGATGAAA--AAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGACAAA
15909 G
128 G
* * * * * * *
15910 GAAGTCTTCCAAGTCTAAG-CTGATGGGCAGACAAAAGATGAAA-GAAATCTCTCGGGTCTAAGC
1 GAAGTCTCCCAGGTCTAAGTC-GATGGGCAGACGAATGA-GAAAGGAAGTCTCCCGAGTCTAAGC
* * * *
15973 CGATGGGTAGACGAATGATGAAAAAGTCACTCGAGTCTAAGTCGACGGGCAGACGATTGACAAAG
64 CGATGGGCAGACGAATGATGAAAAAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGACAAAG
* * *
16038 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGATTGACAAAGGAAGTCTCCCGAGTCTAAGTCG
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGAGAAAGGAAGTCTCCCGAGTCTAAGCCG
* * * *** * * * *
16103 ATGGGTAGACGATTAATGAAAAAGTCTCCTGGGTTTGAACT-GATGGGCAGACGATTGA-TAAG
66 ATGGGCAGACGAATGATGAAAAAGTCTCCCAAGTCT-AAGTCGACGGGCAGACGATTGACAAAG
** * * * * **
16165 CGAAGTCTCTTAGGTCTAAGTCAACGGGCAGACAAAAGATGAAA-GAAGTCTCTTGAGTCTAAGC
1 -GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGA-GAAAGGAAGTCTCCCGAGTCTAAGC
* * **** * *
16229 CGA-GAGGTAGCCGAATGATGAAAAAGTCTCTTGGGTCTCA-TCTGATGGGCAGACGATTGACAA
64 CGATG-GGCAGACGAATGATGAAAAAGTCTCCCAAGTCTAAGTC-GACGGGCAGACGATTGACAA
16292 AG
127 AG
* * * * * ** * * * ** *
16294 GAAGTCTCCCGGGTCTAAATTGACGGGTA-AATAGTTGATAAAAGAAGTCTCTTGAGTCTAAGCT
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGA-ATGAGAAAGGAAGTCTCCCGAGTCTAAGCC
** * * * * * * * * * *
16358 GAAAGGTAGATG-ATCGA-CAAAGGAAGTCTCCTAGGTCTAAGCCGACAGGCAGGCGAATGATGA
65 GATGGGCAGACGAAT-GATGAAA--AAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGA-CA
16421 AA-
126 AAG
** * * * * * ** * * *
16423 -AAGTCTCCTGGGTTTAAG-CTGATAGGCAGATGATTGATAAAGGAAGTCTCTTGGGTTTAAGCT
1 GAAGTCTCCCAGGTCTAAGTC-GATGGGCAGACGAATGAGAAAGGAAGTCTCCCGAGTCTAAGCC
* * ** * * ** * * *
16486 GACGGACAGGTGATTGAT-AAAGGAAGTCTCTCGGGTTTAAGTCGACGGGCAAACGATTAACAAA
65 GATGGGCAGACGAATGATGAAA--AAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGAC-AA
16550 AG
127 AG
* ** * * * * ** * * * *** * **
16552 AAAGTCTCCTGGGTTTAAGCCAATGAGCAGACGGTTGATAAAAGAAGACTTTTGGGTCTAAGTTG
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGAGAAAGGAAGTCTCCCGAGTCTAAGCCG
* * ** * * * * * *
16617 ATAGGCAGACGATTGACAAAAGAAGTCTTCCGAGTCTAAGCCGACGGGTAAACGAAGATGA-AAA
66 ATGGGCAGACGAATGATGAAA-AAGTCTCCCAAGTCTAAGTCGACGGGCAGACG-A-TTGACAAA
16681 -
128 G
* * * *
16681 -AAGTCTCTC-GGATCTAAGCCGACGGGCAGACGAATGATGAAA--AA-TCTCCAG-GTCTAAGC
1 GAAGTCTCCCAGG-TCTAAGTCGATGGGCAGACGAATGA-GAAAGGAAGTCTCCCGAGTCTAAGC
* * * *** * * * *
16740 CGACGGGCAGACGATTGA-CAAAGGAAGTCTCCTGGGTTTAAGCCGGCGGGCAGACGATTGATGA
64 CGATGGGCAGACGAATGATGAAA--AAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGA-CA
16804 AA-
126 AAG
* * * * * * * * *
16806 -AAGTCTCCCGGGTCTGAA-CCAATGGGCAGACGATTGATAAAGAAAATCTCTCGGGTCTAAGCC
1 GAAGTCTCCCAGGTCT-AAGTCGATGGGCAGACGAATGAGAAAGGAAGTCTCCCGAGTCTAAGCC
* ** * * ** * * * *
16869 AACAGGCAGACAAAAGATGAAAGAAGTCTCCCGGGTCTAAG-CTGATGGGCAGTCGAATGATAAA
65 GATGGGCAGACGAATGATGAAA-AAGTCTCCCAAGTCTAAGTC-GACGGGCAGACGATTGACAAA
16933 -
128 G
* * * * * * * * *
16933 AAAGGCT------T-TAAGCCGATGAGCAGACGATTAACAAAGGAAGTCT-CCTAGGTCTAAGTC
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGAGAAAGGAAGTCTCCCGA-GTCTAAGCC
* * * * * * * * **
16990 GATGGGTAGATGATTGA-CAAAGGAAGTCTCCCGAGTGTAAGTGGATGGGCAGACGATTGATGGA
65 GATGGGCAGACGAATGATGAAA--AAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGA-CAA
17054 A-
127 AG
* * * * * * * * * * * *
17055 -AAGTTTCCTTA-GTCTAAGTTGATGGGTAGACGATTAACAAAAGAAGTCTCCTGGGTGTAAGTC
1 GAAGTCTCC-CAGGTCTAAGTCGATGGGCAGACGAATGAGAAAGGAAGTCTCCCGAGTCTAAGCC
* * * * * * *
17118 GATGGGCAGACGATTGATGGAAAAGTCTCCTAAGTCTAAG-CTGATGGGTAGACGATTAACAAAA
65 GATGGGCAGACGAATGATGAAAAAGTCTCCCAAGTCTAAGTC-GACGGGCAGACGATTGACAAAG
* * * * * * * * * *
17182 GAAGTCTCCCAGGTCTAAGCCGACGGGAAAATGATTGATAGAA--AAGTCTCTCGAGTTTGAGCC
1 GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGAGA-AAGGAAGTCTCCCGAGTCTAAGCC
* * * * * * * *
17245 GATGGGCAAACGATTGA-GAAATGAAGTCTCCCGAGTCTAAG-CTGATGGGCAAATGATTAATAA
65 GATGGGCAGACGAATGATGAAA--AAGTCTCCCAAGTCTAAGTC-GACGGGCAGACGATTGACAA
17308 A-
127 AG
* * * *
17309 AAAGTCTTCCGGGTCTAAG-CTGATGGGC-GAACGATTGAGAAAGGAAGTCTCCCGAGT
1 GAAGTCTCCCAGGTCTAAGTC-GATGGGCAG-ACGAATGAGAAAGGAAGTCTCCCGAGT
17366 GATTGATGAA
Statistics
Matches: 1504, Mismatches: 363, Indels: 190
0.73 0.18 0.09
Matches are distributed among these distances:
120 6 0.00
121 81 0.05
122 68 0.05
123 27 0.02
124 7 0.00
125 78 0.05
126 19 0.01
127 242 0.16
128 720 0.48
129 145 0.10
130 104 0.07
131 5 0.00
132 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (128 bp):
GAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGAATGAGAAAGGAAGTCTCCCGAGTCTAAGCCG
ATGGGCAGACGAATGATGAAAAAGTCTCCCAAGTCTAAGTCGACGGGCAGACGATTGACAAAG
Found at i:16184 original size:171 final size:170
Alignment explanation
Indices: 15793--16197 Score: 444
Period size: 171 Copynumber: 2.4 Consensus size: 170
15783 AGTCTCCCAA
* * * * * *
15793 GTCTAAGTCGACGGGCAGATGATTGACAAAGGAAGTCTCCTAGGTTTAAGTCGACAGGCAGACGA
1 GTCTAAGCCGATGGGCAGACGATTGA-TAAGGAAGTCT-CTAGGTCTAAGTCGACGGGCAGACGA
* *
15858 TTGACAAAGGAAGTCTCCCAAGTCCAAGCCAACGGGTAGACGATTGACAAAGGAAGTCTTCCAAG
64 TTGACAAAGGAAGTCTCCCAAGTCCAAGCCAACGGGCAGACGATTGACAAAGGAAGTCTCCCAAG
15923 TCTAAGCTGATGGGCAGACAAAAGATGAAAGAAATCTCTCGG
129 TCTAAGCTGATGGGCAGACAAAAGATGAAAGAAATCTCTCGG
* * * * *
15965 GTCTAAGCCGATGGGTAGACGAATGATGAA-AAAGTCACTCGAGTCTAAGTCGACGGGCAGACGA
1 GTCTAAGCCGATGGGCAGACGATTGAT-AAGGAAGTCTCTAG-GTCTAAGTCGACGGGCAGACGA
* * * * * *
16029 TTGACAAAGGAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGATTGACAAAGGAAGTCTCCCGAG
64 TTGACAAAGGAAGTCTCCCAAGTCCAAGCCAACGGGCAGACGATTGACAAAGGAAGTCTCCCAAG
* ** *
16094 TCTAAG-TCGATGGGTAGACGATTA-ATGAAA-AAGTCTC-CTGG
129 TCTAAGCT-GATGGGCAGAC-AAAAGATGAAAGAAATCTCTC-GG
* * *
16135 GTTTGAA-CTGATGGGCAGACGATTGATAAGCGAAGTCTCTTAGGTCTAAGTCAACGGGCAGAC
1 GTCT-AAGCCGATGGGCAGACGATTGATAAG-GAAGTCTC-TAGGTCTAAGTCGACGGGCAGAC
16198 AAAAGATGAA
Statistics
Matches: 193, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
169 3 0.02
170 32 0.17
171 131 0.68
172 27 0.14
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (170 bp):
GTCTAAGCCGATGGGCAGACGATTGATAAGGAAGTCTCTAGGTCTAAGTCGACGGGCAGACGATT
GACAAAGGAAGTCTCCCAAGTCCAAGCCAACGGGCAGACGATTGACAAAGGAAGTCTCCCAAGTC
TAAGCTGATGGGCAGACAAAAGATGAAAGAAATCTCTCGG
Found at i:16301 original size:171 final size:168
Alignment explanation
Indices: 16007--16936 Score: 421
Period size: 171 Copynumber: 5.5 Consensus size: 168
15997 AGTCACTCGA
* * ** * * ** *
16007 GTCTAAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCCAGGTCTAAGTCGATGGGCAGACGA
1 GTCTAAGTCAACGGGCAGACAAAAGACAAAGGAAGTCTCCTAGGTCTAAGCCGACAGGCAGCCGA
* * * * * * * *
16072 TTGA-CAAAGGAAGTCTCCCGAGTCTAAG-TCGATGGGTAGACGATTAATGAAA--AAGTCTCCT
66 ATGATGAAA--AAGTCTCCTGGGTCTAAGCT-GATAGGCAGACGATTGA-CAAAGGAAGTCTCCT
* *
16133 GGGTTTGAACTGATGGGCAGACGATTGATAAGCGAAGTCTCTTAG
127 GGGTTT-AACTGACGGGCAGAAGATTGATAAG-GAAGTCTCTT-G
* * * *
16178 GTCTAAGTCAACGGGCAGACAAAAGATGAAA-GAAGTCT-CTTGAGTCTAAGCCGAGAGGTAGCC
1 GTCTAAGTCAACGGGCAGACAAAAGA-CAAAGGAAGTCTCCTAG-GTCTAAGCCGACAGGCAGCC
* * * * *
16241 GAATGATGAAAAAGTCTCTTGGGTCTCATCTGATGGGCAGACGATTGACAAAGGAAGTCTCCCGG
64 GAATGATGAAAAAGTCTCCTGGGTCTAAGCTGATAGGCAGACGATTGACAAAGGAAGTCTCCTGG
* * * * *
16306 GTCTAAATTGACGGGTA-AATAGTTGATAAAAGAAGTCTCTTG
129 GT-TTAACTGACGGGCAGAAGA-TTGAT-AAGGAAGTCTCTTG
* * * ** ** *
16348 AGTCTAAGCTGAA-AGGTAGATGATCGACAAAGGAAGTCTCCTAGGTCTAAGCCGACAGGCAGGC
1 -GTCTAAG-TCAACGGGCAGACAAAAGACAAAGGAAGTCTCCTAGGTCTAAGCCGACAGGCAGCC
* * * *
16412 GAATGATGAAAAAGTCTCCTGGGTTTAAGCTGATAGGCAGATGATTGATAAAGGAAGTCTCTTGG
64 GAATGATGAAAAAGTCTCCTGGGTCTAAGCTGATAGGCAGACGATTGACAAAGGAAGTCTCCTGG
* ** *
16477 GTTTAAGCTGACGGACAGGTGATTGATAAAGGAAGTCTCTCGG
129 GTTTAA-CTGACGGGCAGAAGATTGAT-AAGGAAGTCTCT-TG
* * * ** * * *
16520 GTTTAAGTCGACGGGCAAACGATTA-ACAAAAGAAAGTCTCCTGGGTTTAAGCC-A-ATGAGCAG
1 GTCTAAGTCAACGGGCAGAC-AAAAGAC-AAAGGAAGTCTCCTAGGTCTAAGCCGACA-G-GCAG
* ** * * ** * *
16582 ACGGTTGATAAAAGAAGACTTTTGGGTCTAAGTTGATAGGCAGACGATTGACAAAAGAAGTCTTC
62 CCGAATGATGAAA-AAGTCTCCTGGGTCTAAGCTGATAGGCAGACGATTGACAAAGGAAGTC-TC
* * * * * *
16647 C-GAGTCTAAGCCGACGGGTAAACGAAGA-TGA-AA-AAAGTCTCTCG
125 CTGGGTTTAA-CTGACGGG--CA-GAAGATTGATAAGGAAGTCTCTTG
* * * * * * *
16691 GATCTAAGCCGACGGGCAGACGAATGATGAAA--AA-TCTCC-AGGTCTAAGCCGACGGGCAGAC
1 G-TCTAAGTCAACGGGCAGACAAAAGA-CAAAGGAAGTCTCCTAGGTCTAAGCCGACAGGCAGCC
* * * * *** *
16752 GATTGA-CAAAGGAAGTCTCCTGGGTTTAAGCCGGCGGGCAGACGATTGATGAAA--AAGTCTCC
64 GAATGATGAAA--AAGTCTCCTGGGTCTAAGCTGATAGGCAGACGATTGA-CAAAGGAAGTCTCC
* * ** * * * * *
16814 CGGGTCTGAACCAATGGGCAGACGATTGATAAAGAAAATCTCTCGG
126 TGGGT-TTAACTGACGGGCAGAAGATTGAT-AAGGAAGTCTCT-TG
* * * ** * ** *
16860 GTCTAAGCCAACAGGCAGACAAAAGATGAAA-GAAGTCTCCCGGGTCTAAGCTGATGGGCAGTCG
1 GTCTAAGTCAACGGGCAGACAAAAGA-CAAAGGAAGTCTCCTAGGTCTAAGCCGACAGGCAGCCG
*
16924 AATGATAAAAAAG
65 AATGATGAAAAAG
16937 GCTTTAAGCC
Statistics
Matches: 578, Mismatches: 137, Indels: 89
0.72 0.17 0.11
Matches are distributed among these distances:
164 4 0.01
165 4 0.01
166 3 0.01
167 19 0.03
168 85 0.15
169 17 0.03
170 52 0.09
171 246 0.43
172 84 0.15
173 55 0.10
174 2 0.00
175 4 0.01
176 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (168 bp):
GTCTAAGTCAACGGGCAGACAAAAGACAAAGGAAGTCTCCTAGGTCTAAGCCGACAGGCAGCCGA
ATGATGAAAAAGTCTCCTGGGTCTAAGCTGATAGGCAGACGATTGACAAAGGAAGTCTCCTGGGT
TTAACTGACGGGCAGAAGATTGATAAGGAAGTCTCTTG
Found at i:16721 original size:43 final size:43
Alignment explanation
Indices: 15304--17359 Score: 511
Period size: 43 Copynumber: 48.5 Consensus size: 43
15294 GTCGATGGGT
* * *
15304 AGACGGTTGAT-AAAAGAAGTCTC-CAAGGTCTAAGCCGATGGGC
1 AGACGATTGATGAAAA-AAGTCTCTC-GGGTCTAAGCCGACGGGC
* * ** * * *
15347 AGACGATTGAT-AAAGAAGTCTCCCAAGTCAAAGTCGATGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * *** * * *
15389 AAACGAATGAT-AATGGAGTCTCTCAGGTCTGAGCCGAAGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
*** * * * * *
15431 AGACGATTGATGAAGGGAGTCTCCCGAGTCTTAGCCAATGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * ** * *
15474 AGACGGTGGATG-AAGAAGTCTCCCAAGTCAAAGTCGACGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * ** ** * *
15516 AAATGAAAGATGAAGGAAGTCTCTCGGGTCTAAGTCGATGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
** ** ** **
15559 AGACGAAAGATGAAGGAAGTCTCTCGGGTCTAAGTTGACAAGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* ** * ** * * *
15602 AGACGAATGAT-AAAGGAGTCTCCCAAGTTTGAGTCGACGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * ** * * * *
15644 GGACAAAAGATG-GAAAAGTCT-TCCAGGTC----CCGA-TGGT
1 AGACGATTGATGAAAAAAGTCTCT-CGGGTCTAAGCCGACGGGC
* * * * * * *
15681 AGATGAATGATGAAAGAAGTCTCCCAGGTCTAAGTCAACGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * ** *
15724 AGATGAATGATG-AAAAAGTCTCTCGAATCTAAGCCAACGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * ** *
15766 AGATGATTGA-CAAAGGAAGTCTCCCAAGTCTAAGTCGACGGGC
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * * * *
15809 AGATGATTGA-CAAAGGAAGTCTC-CTAGGTTTAAGTCGACAGGC
1 AGACGATTGATGAAA-AAAGTCTCTC-GGGTCTAAGCCGACGGGC
* * * ** * * *
15852 AGACGATTGA-CAAAGGAAGTCTCCCAAGTCCAAGCCAACGGGT
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
* * ** * *
15895 AGACGATTGA-CAAAGGAAGTCT-TCCAAGTCTAAGCTGATGGGC
1 AGACGATTGATGAAA-AAAGTCTCT-CGGGTCTAAGCCGACGGGC
* ** * *
15938 AGACAAAAGATGAAAGAAA-TCTCTCGGGTCTAAGCCGATGGGT
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * *
15981 AGACGAATGATG-AAAAAGTCACTCGAGTCTAAGTCGACGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * * *
16023 AGACGATTGA-CAAAGGAAGTCTCCCAGGTCTAAGTCGATGGGC
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * * * *
16066 AGACGATTGA-CAAAGGAAGTCTCCCGAGTCTAAGTCGATGGGT
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * *
16109 AGACGATTAATG-AAAAAGTCTC-CTGGGTTTGAA-CTGATGGGC
1 AGACGATTGATGAAAAAAGTCTCTC-GGGTCT-AAGCCGACGGGC
** ** * *
16151 AGACGATTGAT-AAGCGAAGTCTCTTAGGTCTAAGTCAACGGGC
1 AGACGATTGATGAA-AAAAGTCTCTCGGGTCTAAGCCGACGGGC
* ** * * * *
16194 AGACAAAAGATGAAAGAAGTCTCTTGAGTCTAAGCCGA-GAGGT
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACG-GGC
* * * * * * *
16237 AGCCGAATGATG-AAAAAGTCTCTTGGGTCTCATCTGATGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * *** *
16279 AGACGATTGA-CAAAGGAAGTCTCCCGGGTCTAAATTGACGGGT
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
** * * * ** *
16322 A-AATAGTTGAT-AAAAGAAGTCTCTTGAGTCTAAGCTGAAAGGT
1 AGACGA-TTGATGAAAA-AAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * * *
16365 AGATGATCGA-CAAAGGAAGTCTC-CTAGGTCTAAGCCGACAGGC
1 AGACGATTGATGAAA-AAAGTCTCTC-GGGTCTAAGCCGACGGGC
* * * * **
16408 AGGCGAATGATG-AAAAAGTCTC-CTGGGTTTAAGCTGATAGGC
1 AGACGATTGATGAAAAAAGTCTCTC-GGGTCTAAGCCGACGGGC
* * * * * *
16450 AGATGATTGAT-AAAGGAAGTCTCTTGGGTTTAAGCTGACGGAC
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
** * * *
16493 AGGTGATTGAT-AAAGGAAGTCTCTCGGGTTTAAGTCGACGGGC
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
* * ** * * * *
16536 AAACGATTAACAAAAGAAAGTCTC-CTGGGTTTAAGCCAATGAGC
1 AGACGATTGATGAAA-AAAGTCTCTC-GGGTCTAAGCCGACGGGC
* * * * ** **
16580 AGACGGTTGAT-AAAAGAAGACTTTTGGGTCTAAGTTGATAGGC
1 AGACGATTGATGAAAA-AAGTCTCTCGGGTCTAAGCCGACGGGC
* * *
16623 AGACGATTGA-CAAAAGAAGTCT-TCCGAGTCTAAGCCGACGGGT
1 AGACGATTGATGAAAA-AAGTCTCT-CGGGTCTAAGCCGACGGGC
* * *
16666 AAACGA-AGATGAAAAAAGTCTCTCGGATCTAAGCCGACGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* *
16708 AGACGAATGATG-AAAAA-TCTC-CAGGTCTAAGCCGACGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * *
16748 AGACGATTGA-CAAAGGAAGTCTC-CTGGGTTTAAGCCGGCGGGC
1 AGACGATTGATGAAA-AAAGTCTCTC-GGGTCTAAGCCGACGGGC
* * *
16791 AGACGATTGATG-AAAAAGTCTCCCGGGTCTGAA-CCAATGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCT-AAGCCGACGGGC
* * *
16833 AGACGATTGAT-AAAGAAAATCTCTCGGGTCTAAGCCAACAGGC
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
* ** * * * *
16876 AGACAAAAGATGAAAGAAGTCTCCCGGGTCTAAGCTGATGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * *
16919 AGTCGAATGAT-AAAAAAG--GCT----T-TAAGCCGATGAGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
** * * * * *
16954 AGACGATT-AACAAAGGAAGTCTC-CTAGGTCTAAGTCGATGGGT
1 AGACGATTGATGAAA-AAAGTCTCTC-GGGTCTAAGCCGACGGGC
* * * * * * ** *
16997 AGATGATTGA-CAAAGGAAGTCTCCCGAGTGTAAGTGGATGGGC
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
* * ** ** * *
17040 AGACGATTGATG-GAAAAGTTTC-CTTAGTCTAAGTTGATGGGT
1 AGACGATTGATGAAAAAAGTCTCTC-GGGTCTAAGCCGACGGGC
** * * *
17082 AGACGATT-AACAAAAGAAGTCTC-CTGGGTGTAAGTCGATGGGC
1 AGACGATTGATGAAAA-AAGTCTCTC-GGGTCTAAGCCGACGGGC
* ** * * *
17125 AGACGATTGATG-GAAAAGTCTC-CTAAGTCTAAGCTGATGGGT
1 AGACGATTGATGAAAAAAGTCTCTC-GGGTCTAAGCCGACGGGC
** * * *
17167 AGACGATT-AACAAAAGAAGTCTCCCAGGTCTAAGCCGACGGGA
1 AGACGATTGATGAAAA-AAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * * * *
17210 AAATGATTGAT-AGAAAAGTCTCTCGAGTTTGAGCCGATGGGC
1 AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * * *
17252 AAACGATTGA-GAAATGAAGTCTCCCGAGTCTAAGCTGATGGGC
1 AGACGATTGATGAAA-AAAGTCTCTCGGGTCTAAGCCGACGGGC
* * * * *
17295 AAATGATTAAT-AAAAAAGTCT-TCCGGGTCTAAGCTGATGGGC
1 AGACGATTGATGAAAAAAGTCTCT-CGGGTCTAAGCCGACGGGC
*
17337 -GAACGATTGA-GAAAGGAAGTCTC
1 AG-ACGATTGATGAAA-AAAGTCTC
17360 CCGAGTGATT
Statistics
Matches: 1535, Mismatches: 384, Indels: 187
0.73 0.18 0.09
Matches are distributed among these distances:
34 1 0.00
35 20 0.01
36 4 0.00
37 10 0.01
38 17 0.01
40 29 0.02
41 13 0.01
42 505 0.33
43 884 0.58
44 52 0.03
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (43 bp):
AGACGATTGATGAAAAAAGTCTCTCGGGTCTAAGCCGACGGGC
Found at i:16767 original size:125 final size:128
Alignment explanation
Indices: 16619--16879 Score: 309
Period size: 125 Copynumber: 2.1 Consensus size: 128
16609 CTAAGTTGAT
*
16619 AGGCAGACGATTGACAAAAGAAGTCTTCC-GAGTCTAAGCCGACGGGTAAACGA-AGATGAAAAA
1 AGGCAGACGATTGACAAAAGAAGTC-TCCTGAGTCTAAGCCGACGGGCAAACGATAGATG-AAAA
* * * *
16682 AGTCTCTCGGATCT-AAGCCGACGGGCAGACGAATGAT-GA-AAAATCTC-CAGGTCTAAGCCGA
64 AGTCTCCCGGATCTGAA-CCAACGGGCAGACGAATGATAAAGAAAATCTCTCAGGTCTAAGCCAA
16743 C
128 C
* * * * * * *
16744 GGGCAGACGATTGACAAAGGAAGTCTCCTGGGTTTAAGCCGGCGGGCAGACGATTGATGAAAAAG
1 AGGCAGACGATTGACAAAAGAAGTCTCCTGAGTCTAAGCCGACGGGCAAACGATAGATGAAAAAG
* * * *
16809 TCTCCCGGGTCTGAACCAATGGGCAGACGATTGATAAAGAAAATCTCTCGGGTCTAAGCCAAC
66 TCTCCCGGATCTGAACCAACGGGCAGACGAATGATAAAGAAAATCTCTCAGGTCTAAGCCAAC
16872 AGGCAGAC
1 AGGCAGAC
16880 AAAAGATGAA
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
124 3 0.03
125 75 0.66
126 7 0.06
127 8 0.07
128 20 0.18
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.17
Consensus pattern (128 bp):
AGGCAGACGATTGACAAAAGAAGTCTCCTGAGTCTAAGCCGACGGGCAAACGATAGATGAAAAAG
TCTCCCGGATCTGAACCAACGGGCAGACGAATGATAAAGAAAATCTCTCAGGTCTAAGCCAAC
Found at i:17245 original size:42 final size:41
Alignment explanation
Indices: 16981--17365 Score: 178
Period size: 42 Copynumber: 9.0 Consensus size: 41
16971 AGTCTCCTAG
* * * *
16981 GTCTAAGTCGATGGGTAGATGATTGACAAAGGAAGTCTCCCGA
1 GTCTAAGCCGATGGGCAAATGATTGATAAA--AAGTCTCCCGA
* ** * * * * **
17024 GTGTAAGTGGATGGGCAGACGATTGATGGAAAAGTTTCCTTA
1 GTCTAAGCCGATGGGCAAATGATTGAT-AAAAAGTCTCCCGA
** * * * * * * *
17066 GTCTAAGTTGATGGGTAGACGATTAACAAAAGAAGTCTCCTGG
1 GTCTAAGCCGATGGGCAAATGATTGA-TAAA-AAGTCTCCCGA
* * * * * **
17109 GTGTAAGTCGATGGGCAGACGATTGATGGAAAAGTCTCCTAA
1 GTCTAAGCCGATGGGCAAATGATTGAT-AAAAAGTCTCCCGA
* * * * * *
17151 GTCTAAGCTGATGGGTAGACGATTAACAAAAGAAGTCTCCC-A
1 GTCTAAGCCGATGGGCAAATGATTGA-TAAA-AAGTCTCCCGA
* * *
17193 GGTCTAAGCCGACGGGAAAATGATTGATAGAAAAGTCTCTCGA
1 -GTCTAAGCCGATGGGCAAATGATTGATA-AAAAGTCTCCCGA
* * * *
17236 GTTTGAGCCGATGGGCAAACGATTGAGAAATGAAGTCTCCCGA
1 GTCTAAGCCGATGGGCAAATGATTGATAAA--AAGTCTCCCGA
* * * *
17279 GTCTAAGCTGATGGGCAAATGATTAATAAAAAAGTCTTCCGG
1 GTCTAAGCCGATGGGCAAATGATTGAT-AAAAAGTCTCCCGA
* * * *
17321 GTCTAAGCTGATGGGCGAACGATTGAGAAAGGAAGTCTCCCGA
1 GTCTAAGCCGATGGGCAAATGATTGATAAA--AAGTCTCCCGA
17364 GT
1 GT
17366 GATTGATGAA
Statistics
Matches: 265, Mismatches: 63, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
41 5 0.02
42 128 0.48
43 127 0.48
44 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (41 bp):
GTCTAAGCCGATGGGCAAATGATTGATAAAAAGTCTCCCGA
Found at i:17413 original size:67 final size:67
Alignment explanation
Indices: 17298--17426 Score: 172
Period size: 67 Copynumber: 1.9 Consensus size: 67
17288 GATGGGCAAA
* *
17298 TGATTAATAAAAAAGTCTTCCGGGTCTAAGCTGATGGGCGAACGATTGAGAAAGGAAGTCTCCCG
1 TGATTAATAAAAAAGTCTTCCGGGTCTAAGCTGACGGGCGAACAATTGAGAAAGGAAGTCTCCCG
17363 AG
66 AG
* * * *
17365 TGATTGATGAAAAAGTC-TCTCGGGTCTGAGCTGACGGGC-AGACAATTGATAAAGGAAGTCTC
1 TGATTAATAAAAAAGTCTTC-CGGGTCTAAGCTGACGGGCGA-ACAATTGAGAAAGGAAGTCTC
17427 TCGGGTGTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
66 3 0.06
67 51 0.94
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (67 bp):
TGATTAATAAAAAAGTCTTCCGGGTCTAAGCTGACGGGCGAACAATTGAGAAAGGAAGTCTCCCG
AG
Found at i:17466 original size:43 final size:43
Alignment explanation
Indices: 17370--17480 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 43
17360 CCGAGTGATT
* * * *
17370 GATGAAA-AAGTCTCTCGGGTCTGAGCTGACGGGCAGACAATT
1 GATGAAAGAAGTCTCTCGGGTCTAAGCTGACGAGCAAACAATA
* *
17412 GAT-AAAGGAAGTCTCTCGGGTGTAAGTTGACGAGCAAACGAA-A
1 GATGAAA-GAAGTCTCTCGGGTCTAAGCTGACGAGCAAAC-AATA
17455 GATGAAAGAAGTCTC-CTGGGTCTAAG
1 GATGAAAGAAGTCTCTC-GGGTCTAAG
17481 GCGAGGGGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 3 0.05
42 4 0.07
43 45 0.79
44 5 0.09
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (43 bp):
GATGAAAGAAGTCTCTCGGGTCTAAGCTGACGAGCAAACAATA
Found at i:18322 original size:89 final size:89
Alignment explanation
Indices: 18138--18338 Score: 276
Period size: 89 Copynumber: 2.2 Consensus size: 89
18128 TTTGGTAAGG
* * * *
18138 AAGGATATGATTAGGAATGTCTGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTGGTGATGCACC
1 AAGGATATGATTAGGAATGTGTGGGCTACACCTTGCCCCAAGAAAATTAGGCTTGGTGAGGCACC
18203 AATACCATCTAGTGATTAGAGGAA
66 AATACCATCTAGTGATTAGAGGAA
* * * *
18227 AAGGATATAACTAGGAATGTGTGGGTTACACCTTGCCCCAAGAAAATTAGGCTTGGTGAGGCATC
1 AAGGATATGATTAGGAATGTGTGGGCTACACCTTGCCCCAAGAAAATTAGGCTTGGTGAGGCACC
* * *
18292 AATACCATCTAGTGGTTGGATGAA
66 AATACCATCTAGTGATTAGAGGAA
**
18316 GGGGATATGATTAGGAAATGTGT
1 AAGGATATGATTAGG-AATGTGT
18339 CTTCGTTGAA
Statistics
Matches: 96, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
89 89 0.93
90 7 0.07
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (89 bp):
AAGGATATGATTAGGAATGTGTGGGCTACACCTTGCCCCAAGAAAATTAGGCTTGGTGAGGCACC
AATACCATCTAGTGATTAGAGGAA
Found at i:20173 original size:16 final size:16
Alignment explanation
Indices: 20133--20185 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
20123 TTCTTTTTCA
20133 TTTGATTTTTTTCTTTT
1 TTTG-TTTTTTTCTTTT
20150 TCTT-TTTTTTTCTTTT
1 T-TTGTTTTTTTCTTTT
20166 TTTGTTTTTGTT-TTTT
1 TTTGTTTTT-TTCTTTT
20182 TTTG
1 TTTG
20186 GTTTGTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
15 2 0.06
16 26 0.79
17 3 0.09
18 2 0.06
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.85
Consensus pattern (16 bp):
TTTGTTTTTTTCTTTT
Found at i:20633 original size:13 final size:13
Alignment explanation
Indices: 20615--20639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20605 CCAAGGAAAG
20615 GTATCGATACATT
1 GTATCGATACATT
20628 GTATCGATACAT
1 GTATCGATACAT
20640 GGATCTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:23167 original size:27 final size:27
Alignment explanation
Indices: 23100--23179 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
23090 CACCAATTTC
* * *
23100 TTCACAATCGGGGATACTCCAACCCCG
1 TTCATAATTGGGGATACTCCAACCCCA
23127 TTCATAATTGGGGATACTCCAACCCCA
1 TTCATAATTGGGGATACTCCAACCCCA
*
23154 TT-AT-TTCTGAGGGATACTCCAACCCC
1 TTCATAAT-TG-GGGATACTCCAACCCC
23180 GGTTTTATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 42 0.89
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (27 bp):
TTCATAATTGGGGATACTCCAACCCCA
Found at i:23248 original size:52 final size:52
Alignment explanation
Indices: 22996--23333 Score: 210
Period size: 52 Copynumber: 6.5 Consensus size: 52
22986 TTCTCAATTC
* * * *
22996 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-TTT
1 TCCACAATCGGGGATACTCCAAC-CCGGTTTTATTTCCAAAAACACCAATTTT
* * * * *
23047 TCTATAATCAGGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTCT
1 TCCACAATCGGGGATACTCCAAC-CCGGTTTTATTTCCAAAAACACCAATTT-T
* * * **** * * *
23101 T-CACAATCGGGGATACTCCAACCCCGTTCATAATTGGGGATACTCCAA---C
1 TCCACAATCGGGGATACTCCAACCCGGTT-TTATTTCCAAAAACACCAATTTT
* * * * * *
23150 CCCATTATTTCTGAGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTT
1 TCCA-CA-ATC-G-GGGATACTCCAA-CCCGGTTTTATTTCCAAAAACACCAATTTT
* *
23206 TCCACAATCGGGGATACTCCAACCCTGGTTTTATTTTC-AAAACGCCAA-TTT
1 TCCACAATCGGGGATACTCCAACCC-GGTTTTATTTCCAAAAACACCAATTTT
** * *
23257 TCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTT
1 TCC-ACAATCGGGGATACTCCAAC-CCGGTTTTATTTCCAAAAACACCAATTTT
*
23311 T-CACAATCGAGGATACTCCAACC
1 TCCACAATCGGGGATACTCCAACC
23334 TCGTTATTTC
Statistics
Matches: 219, Mismatches: 49, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
50 2 0.01
51 43 0.20
52 87 0.40
53 55 0.25
54 22 0.10
55 7 0.03
56 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
TCCACAATCGGGGATACTCCAACCCGGTTTTATTTCCAAAAACACCAATTTT
Found at i:23352 original size:28 final size:28
Alignment explanation
Indices: 23316--23392 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
23306 ATTTTTCACA
* *
23316 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*
23344 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
23372 CGAGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
23393 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:23432 original size:211 final size:209
Alignment explanation
Indices: 22993--23441 Score: 598
Period size: 211 Copynumber: 2.1 Consensus size: 209
22983 AGTTTCTCAA
* *
22993 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCAG
1 TTCTCCACAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATCAG
* *
23058 GGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
65 GGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * * *
23123 CCCGTTCATAATTGGGGATACTCCAACCCCATTATTTCTGAGGGATACTCCAACCCCGGTTTTAT
130 CCCGTTCATAATCGGGGATACTCCAACCCCATTACTTCCGAGGGATACTCCAACCCCGGCTTTAT
* *
23188 TGCTAAAACACTAAT
195 TCCCAAAACACTAAT
* * * * *
23203 TTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCG
1 TTCTCCACAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCA
*
23268 GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTT-TTCACAATCGAGGATACTCCAA
64 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* * * *
23332 CCTCGTT-ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGCT
129 CCCCGTTCA--TAATCGGGGATACTCCAACCCCATTACTTCCGA-GGGATACTCCAACCCCGGCT
* * *
23396 TTATTCCCAAAATATTGAT
191 TTATTCCCAAAACACTAAT
* *
23415 TTCT-CATAATTGGGGATACTCCAACCC
1 TTCTCCACAATCGGGGATACTCCAACCC
23442 CGTTATTATC
Statistics
Matches: 208, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
209 3 0.01
210 74 0.36
211 96 0.46
212 35 0.17
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (209 bp):
TTCTCCACAATCGGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGG
GATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
CCGTTCATAATCGGGGATACTCCAACCCCATTACTTCCGAGGGATACTCCAACCCCGGCTTTATT
CCCAAAACACTAAT
Found at i:23457 original size:51 final size:52
Alignment explanation
Indices: 23375--23473 Score: 123
Period size: 51 Copynumber: 1.9 Consensus size: 52
23365 TTACTTCCGA
* * *
23375 GGGGATACTCCAACCTCGGCTTTATTCCCAAAATATT-GATTTCTCATAATT
1 GGGGATACTCCAACCTCCGCTTTATTCCCAAAACATTAAATTTCTCATAATT
*
23426 GGGGATACTCCAACC-CCGTTATTA-TCTCCAAAACATTAAATTTCTCAT
1 GGGGATACTCCAACCTCCGCT-TTATTC-CCAAAACATTAAATTTCTCAT
23474 CGGGAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
50 5 0.12
51 27 0.66
52 9 0.22
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCTCCGCTTTATTCCCAAAACATTAAATTTCTCATAATT
Found at i:35856 original size:13 final size:13
Alignment explanation
Indices: 35838--35912 Score: 70
Period size: 13 Copynumber: 5.8 Consensus size: 13
35828 ACCTTCTCTT
35838 CAAAAAAAAAAAG
1 CAAAAAAAAAAAG
35851 C--AAAAAAAAAG
1 CAAAAAAAAAAAG
*
35862 GAAAAAAAAAAA-
1 CAAAAAAAAAAAG
35874 CAAAAAAACAAAA-
1 CAAAAAAA-AAAAG
35887 CAAAGAAAAAAAGAG
1 CAAA-AAAAAAA-AG
35902 -AAAAGAAAAAA
1 CAAAA-AAAAAA
35913 CCTACTTAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
11 10 0.19
12 7 0.13
13 22 0.42
14 14 0.26
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAG
Found at i:35857 original size:11 final size:11
Alignment explanation
Indices: 35841--35881 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
35831 TTCTCTTCAA
35841 AAAAAAAAAGC
1 AAAAAAAAAGC
*
35852 AAAAAAAAAGGA
1 AAAAAAAAA-GC
*
35864 AAAAAAAAAAC
1 AAAAAAAAAGC
35875 AAAAAAA
1 AAAAAAA
35882 CAAAACAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGC
Found at i:35857 original size:12 final size:12
Alignment explanation
Indices: 35840--35899 Score: 68
Period size: 12 Copynumber: 4.9 Consensus size: 12
35830 CTTCTCTTCA
35840 AAAAAAAAAAGC
1 AAAAAAAAAAGC
*
35852 -AAAAAAAAAGG
1 AAAAAAAAAAGC
*
35863 AAAAAAAAAAAC
1 AAAAAAAAAAGC
*
35875 AAAAAAACAAAAC
1 AAAAAAA-AAAGC
35888 AAAGAAAAAAAG
1 AAA-AAAAAAAG
35900 AGAAAAGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
11 10 0.24
12 16 0.39
13 11 0.27
14 4 0.10
ACGTcount: A:0.85, C:0.07, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGC
Found at i:35905 original size:25 final size:23
Alignment explanation
Indices: 35838--35911 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
35828 ACCTTCTCTT
35838 CAAAAAAAAAAAGCAAAAAAAAAG
1 CAAAAAAAAAAAG-AAAAAAAAAG
* * *
35862 GAAAAAAAAAAACAAAAAAACAAAA
1 CAAAAAAAAAAA-GAAAAAA-AAAG
35887 CAAAGAAAAAAAGAGAAAAGAAAAA
1 CAAA-AAAAAAA-AGAAAA-AAAAA
35912 ACCTACTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
24 17 0.43
25 6 0.15
26 14 0.35
27 3 0.08
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (23 bp):
CAAAAAAAAAAAGAAAAAAAAAG
Found at i:35911 original size:39 final size:36
Alignment explanation
Indices: 35838--35913 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 36
35828 ACCTTCTCTT
35838 CAAAAAAAAAAAGCAAAAAAAAAGGAAAAAAAAAAA
1 CAAAAAAAAAAAGCAAAAAAAAAGGAAAAAAAAAAA
*
35874 CAAAAAAACAAAA-CAAAGAAAAAAAGAGAAAAGAAAAAA
1 CAAAAAAA-AAAAGC-AA-AAAAAAAG-GAAAAAAAAAAA
35913 C
1 C
35914 CTACTTAAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 9 0.26
37 6 0.17
38 8 0.23
39 12 0.34
ACGTcount: A:0.83, C:0.08, G:0.09, T:0.00
Consensus pattern (36 bp):
CAAAAAAAAAAAGCAAAAAAAAAGGAAAAAAAAAAA
Found at i:36964 original size:55 final size:54
Alignment explanation
Indices: 36879--37619 Score: 973
Period size: 55 Copynumber: 13.3 Consensus size: 54
36869 TCCGCTTTTT
*
36879 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
*
36934 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTTGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
36989 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
37044 AGTCCTCAAAGTGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
*
37099 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
37154 AGTCCTCAGAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
37208 AGTCCTCCAAGAGCGGGATACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGG--ACA---CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* ** * *
37267 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCAACATAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA-CTTTC
*
37327 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
37382 AGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
37437 AGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* *
37491 TAGTCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
37547 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTC
* *
37602 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
37620 TACACTTTAT
Statistics
Matches: 624, Mismatches: 42, Indels: 40
0.88 0.06 0.06
Matches are distributed among these distances:
54 26 0.04
55 486 0.78
56 14 0.02
57 1 0.00
58 2 0.00
59 71 0.11
60 24 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:37069 original size:27 final size:27
Alignment explanation
Indices: 37039--37124 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
37029 TTGGTGGCAT
37039 TTTCCAGTCCTCAAAGTGCAGGACACC
1 TTTCCAGTCCTCAAAGTGCAGGACACC
* * * ** *
37066 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-TGCAGGACACC
*
37094 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGTGCAGGACACC
37121 TTTC
1 TTTC
37125 AAAGCCCACA
Statistics
Matches: 41, Mismatches: 13, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
25 3 0.07
26 5 0.12
27 14 0.34
28 10 0.24
29 5 0.12
30 4 0.10
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGTGCAGGACACC
Found at i:37389 original size:29 final size:29
Alignment explanation
Indices: 37357--37444 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
37347 CCTTTCAAAG
37357 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
** * * ***
37386 CCCA-A-AGAG-CAG-GACCCCTTTCAAAG
1 CCCACACA-AGTTGGTGGCACCTTTCAGTC
37412 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
37441 CCCA
1 CCCA
37445 AAGAGCAGGA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 13 0.32
27 5 0.12
28 5 0.12
29 17 0.43
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:38330 original size:21 final size:21
Alignment explanation
Indices: 38304--38360 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
38294 AAATTATCCA
38304 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
38325 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
38346 AATGTATCGATACAT
1 AATGTATCGATACAT
38361 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:38528 original size:33 final size:33
Alignment explanation
Indices: 38471--38537 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
38461 GCCAAGGAAA
*** *
38471 TGTATCGATACATTTTTCTGTGTATTGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
38504 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
38537 T
1 T
38538 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:40943 original size:51 final size:53
Alignment explanation
Indices: 40882--41004 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 53
40872 AAATCTCCAC
* * *
40882 AATCGGGGATATTCCAACTCCAATTTTATTTTC-AAAACACTAA-TT-TTCTAT
1 AATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAATTTCTTC-AT
* * *
40933 AATCAGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAT
1 AATCGGGGATACTCCAACTCCAATTTTATTTCC-AAAAACACCAATTTCTTCAT
40987 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
41005 CCCATTATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
51 28 0.47
53 9 0.15
54 20 0.33
55 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (53 bp):
AATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAATTTCTTCAT
Found at i:41104 original size:52 final size:50
Alignment explanation
Indices: 41019--41189 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 50
41009 TTATTTCTGA
* *
41019 GGGGATACTCCAACCCCGGTTTTATTGGT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAA-CCCGGTTTTATT-TTCAAAACACCAA-TTTTCCACAATC
* **
41071 GGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
1 GGGGATACTCCAACCC-GGTTTTATTTTCAAAACACCAATTTTCC-ACAATC
* * * *
41123 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTGCACAATC
1 GGGGATACTCCAAC-CCGGTTTTATTTTC-AAAACACCAATTTTCCACAATC
*
41175 GAGGATACTCCAACC
1 GGGGATACTCCAACC
41190 TCGTTATTTC
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
51 11 0.11
52 75 0.74
53 15 0.15
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCCACAATC
Found at i:46775 original size:156 final size:155
Alignment explanation
Indices: 46427--47687 Score: 948
Period size: 156 Copynumber: 8.1 Consensus size: 155
46417 TACTTGATAC
* ** * *
46427 CCCTAAAGGACTTAAAAAGATTCCAAATGGGATGAACCTATCTTAAATGCCCACCTTCGGCATAA
1 CCCTAAAGGACTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAA
** * * * ** *
46492 AAGCGAACCCGGTGACAACCTAGGAGTTGGTTCTAAAAAAGTACGAAAATGTCCCTA-CGAGTAT
66 AAGTAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATG-CCCTATAG-GTAT
* * * *
46556 ACTTTTGACATAAAAGTA-CCTCGACAA
129 ACCTTCGACGTAAAAGTATCC-CGGCAA
* ** **
46583 CCTTGAAA-GACTTAAAAAGACTCATAAAAACGATGAACCTATCCTAAATGCCCACCTTCAACAT
1 CCCT-AAAGGACTTAAAAAGACT-ATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCAT
* * ** * * * *
46647 AAAAGCAAACTCGGTGATGACCTAAGAGTTGGTTCT-AAAAATTATGAAAATGCCCCTATAGGTA
64 AAAAGTAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATG-CCCTATAGGTA
*
46711 TACCTTCAACGTAAAAGTATCCCGGCAA
128 TACCTTCGACGTAAAAGTATCCCGGCAA
* * *
46739 CCCTAAAGGACTTAAAAAGACTCATAAAAGGGATGAAACTATCCTAAATACCCACCTTCAGCATA
1 CCCTAAAGGACTTAAAAAGACT-ATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATA
* * * ** * * * *
46804 AAAGTAGACCCGATTACAACCTAGGACTCAATTCTAAAAAATTACAAAAAT-ACCTTTAGGGGAT
65 AAAGTAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATGCCCTATA-GGTAT
* *
46868 ACCTTTGACGTAGAAGTA-CCC-G-ATA
129 ACCTTCGACGTAAAAGTATCCCGGCA-A
* * * * * * * *
46893 CACCTAAATGACTTAAAAAAGATTATAGAAGGGGTGAATCTATCCTAAATACCCACATTTGGCAT
1 C-CCTAAAGGACTT-AAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCAT
* ** * * * * *
46958 AAAAGTAGACCTAGTGACAACCTAGGACTCGATTCTAAAAAAATTATGAAAGTGACCCCA-AAG-
64 AAAAGTAAACCCGGTGACAACCTAGGACTCGGTTCT-AAAAAATTATAAAAATG-CCCTATAGGT
* * *
47021 ATACCTTCGACGTGAAAGTATCTC--AATA
127 ATACCTTCGACGTAAAAGTATCCCGGCA-A
* * * * *
47049 CCTCTAAAGGACTTAAAAAGGACTATAGACGGGATGAACCTATCTTAAATGCTCACTTTCGGCAT
1 CC-CTAAAGGACTTAAAAA-GACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCAT
* * * * * *
47114 AAAAGCAAACCCGGTGACAACCTAAGACTCAGTTCTAGAAAATTATAAAAATGGCCCTGTGGGTA
64 AAAAGTAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAAT-GCCCTATAGGTA
*
47179 TACCTTCGACATAAAAGTATCCCGGCAA
128 TACCTTCGACGTAAAAGTATCCCGGCAA
* * *
47207 CCCTAAAGGACTTAAAAATACTAGAGATA-GGATGAACCTATCCTAAATGCCCACCTTCGGCATA
1 CCCTAAAGGACTTAAAAAGACTATA-AAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATA
** * ** ** * * ** **
47271 AAAGTGGACCCGATGATGACCTAATAGTTGGTTC-AAAAAATTACCAAAATGCCCTAGGGGTATA
65 AAAGTAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATGCCCTATAGGTATA
* **
47335 CCTTCAACGTAAAAGTA--CC-TAATA
130 CCTTCGACGTAAAAGTATCCCGGCA-A
* * * * *
47359 CCTGTAAAGGACTTAAAAAAGACTGTAAAAGGGGTGAACCT-TCCTAAATACCCACCTTCAGCAT
1 CC-CTAAAGGACTT-AAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCAT
* * * *
47423 AAAAGTGAACCCAGTGACAACCTAGGACTCGTTTCTAAAAAATTATAAAAATGCCCT-TAGGGGA
64 AAAAGTAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATGCCCTATA-GGTA
* * * *
47487 TACCTTCAACGTGAAAGTAT-CCGAGTAC
128 TACCTTCGACGTAAAAGTATCCCG-GCAA
* * * * * *
47515 CCCTAAAGGATTTAAAAAAACTATTAAATGGG-TGAACCTATCCTAAATACCAACCATCGGCATA
1 CCCTAAAGGACTTAAAAAGACTA-TAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATA
* ** * * * * * *
47579 ATAGTGGACCTGGTGACGACCTAAGACTCGATTCTAAAAAATTACAAAAATACCCCTA-AGAG-A
65 AAAGTAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAAT-GCCCTATAG-GTA
* * * ***
47642 TATCTTCGACATGAAAGTATATTGGCAA
128 TACCTTCGACGTAAAAGTATCCCGGCAA
* *
47670 CCTTAAAGGGCTTAAAAA
1 CCCTAAAGGACTTAAAAA
47688 TATTAGAAAT
Statistics
Matches: 884, Mismatches: 183, Indels: 77
0.77 0.16 0.07
Matches are distributed among these distances:
151 1 0.00
152 5 0.01
153 59 0.07
154 103 0.12
155 258 0.29
156 330 0.37
157 122 0.14
158 5 0.01
159 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (155 bp):
CCCTAAAGGACTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAA
AAGTAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATGCCCTATAGGTATAC
CTTCGACGTAAAAGTATCCCGGCAA
Found at i:52415 original size:29 final size:29
Alignment explanation
Indices: 52341--53263 Score: 1174
Period size: 29 Copynumber: 31.7 Consensus size: 29
52331 CACCAACTTG
* **
52341 TGTGGGCTTTGAAAAGAGTTGCCACCAACT
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACT
* *
52371 CGTGTGGGCTTTGAAAAGAGTGACACTGACT
1 --TGTGGGCTTTGAAAAGGGTGCCACTGACT
52402 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
52430 TGTGGGCTTTG-AAAGGGTGCGATTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
52458 CGTGGGCTTCGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
52487 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
52515 TGTGGG-TTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
52543 TGCGTAGGCTTTGAAAGGGGTGCCACTAACT
1 T--GTGGGCTTTGAAAAGGGTGCCACTGACT
52574 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
52603 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACT
* *
52633 CATGTTGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
52664 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
52693 TGTGGGCTTTGAAAA-GGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
52721 TGTGGGCTTTG-AATGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
52749 TGTGGGCTTTGAAAGGGGTGCCACTGTCT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* ** *
52778 TGTTGGCTTTGAAAAGAATGCCACTGATT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
52807 TGTGGGCTTT-AAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
52835 TGCGTGGGCTTTGAAAGGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAAGGGTGCCACTGACT
*
52866 TGTGGGCTTTG-AAAGGGTACCACTGACTT
1 TGTGGGCTTTGAAAAGGGTGCCACTGAC-T
*
52895 GTGTGGGCTTTGAAAGGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
52925 TGTGGGCTTTG-AAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
52953 TGTGGGCTTT-AAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
52981 TGCGTGGGCTTT-AAAAGGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAA-GGGTGCCACTGACT
*
53012 TGTGGGCTTT-AAAAGGGTACCACTGACTT
1 TGTGGGCTTTGAAAAGGGTGCCACTGAC-T
*
53041 GTGTGGGCTTTGAAAGGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
53071 TGTGGGCTTTG-AAAGGGTGCCACTGACC
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * * *
53099 TGTGGGCTCTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACT
* *
53129 CGTGTGGGTTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTGAAAAGGGTGCCACTGACT
53160 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
53188 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
53217 TGTGGGCTTTGAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
53246 TGTGGGCTTT-TAAAGGGT
1 TGTGGGCTTTGAAAAGGGT
53264 TTGAACGTTC
Statistics
Matches: 784, Mismatches: 79, Indels: 60
0.85 0.09 0.07
Matches are distributed among these distances:
27 5 0.01
28 276 0.35
29 281 0.36
30 69 0.09
31 108 0.14
32 45 0.06
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGGTGCCACTGACT
Found at i:52426 original size:28 final size:28
Alignment explanation
Indices: 52341--53263 Score: 1126
Period size: 28 Copynumber: 31.6 Consensus size: 28
52331 CACCAACTTG
* **
52341 TGTGGGCTTTGAAAAGAGTTGCCACCAACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
52371 CGTGTGGGCTTTGAAAAGAGTGACACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
52402 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
52430 TGTGGGCTTTGAAAGGGTGCGATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
52458 CGTGGGCTTCGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
52487 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
52515 TGTGGGTTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
52543 TGCGTAGGCTTTGAAAGGGGTGCCACTAACT
1 T--GTGGGCTTTGAAA-GGGTGCCACTGACT
52574 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
52603 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
52633 CATGTTGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
52664 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
52693 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
52721 TGTGGGCTTTGAATGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
52749 TGTGGGCTTTGAAAGGGGTGCCACTGTCT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* ** *
52778 TGTTGGCTTTGAAAAGAATGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
52807 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
52835 TGCGTGGGCTTTGAAAGGGGTGCCACTGACT
1 T--GTGGGCTTTGAAA-GGGTGCCACTGACT
*
52866 TGTGGGCTTTGAAAGGGTACCACTGACTT
1 TGTGGGCTTTGAAAGGGTGCCACTGAC-T
52895 GTGTGGGCTTTGAAAGGGGTGCCACTGACT
1 -TGTGGGCTTTGAAA-GGGTGCCACTGACT
*
52925 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
52953 TGTGGGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
52981 TGCGTGGGCTTTAAAAGGGGTGCCACTGACT
1 T--GTGGGCTTTGAAA-GGGTGCCACTGACT
* *
53012 TGTGGGCTTTAAAAGGGTACCACTGACTT
1 TGTGGGCTTTGAAAGGGTGCCACTGAC-T
53041 GTGTGGGCTTTGAAAGGGGTGCCACTGACT
1 -TGTGGGCTTTGAAA-GGGTGCCACTGACT
*
53071 TGTGGGCTTTGAAAGGGTGCCACTGACC
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
53099 TGTGGGCTCTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
53129 CGTGTGGGTTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
53160 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
53188 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
53217 TGTGGGCTTTGAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
*
53246 TGTGGGCTTTTAAAGGGT
1 TGTGGGCTTTGAAAGGGT
53264 TTGAACGTTC
Statistics
Matches: 787, Mismatches: 76, Indels: 60
0.85 0.08 0.07
Matches are distributed among these distances:
28 280 0.36
29 278 0.35
30 90 0.11
31 94 0.12
32 45 0.06
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:52754 original size:146 final size:144
Alignment explanation
Indices: 52341--53255 Score: 1184
Period size: 146 Copynumber: 6.3 Consensus size: 144
52331 CACCAACTTG
** *
52341 TGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAAGAGTGACACTGACTT-GT
1 TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAAGAGTGCCACTGACTTCGT
* * * * *
52405 GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCGATTGACTCGTGGGCTTCGA
63 GGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
52470 AAAGAGTGCCACTGACT
128 AAGGGGTGCCACTGACT
* * * *
52487 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGG-TTTTAAAAGGGTGCCACTGACTTGCGTAG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT-CGTGG
* *
52550 GCTTTGAAAGGGGTGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGA
65 GCTTTGAAA-AGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-
* * *
52615 AAAGAGTTGCCACCGACT
127 AAAGGGGTGCCACTGACT
*
52633 CATGTTGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT-GTG
1 --TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTCGTG
* *
52697 GGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAATGGGTGCCACTGACTTGTGGGCTTTGAA
64 GGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
*
52762 AGGGGTGCCACTGTCT
129 AGGGGTGCCACTGACT
* * * *
52778 TGTTGGCTTTGAAAAGAATGCCACTGATTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGTGG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT-CGTGG
* *
52842 GCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTACCACTGACTTGTGTGGGCTTTG
65 GCTTTGAAA-AGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC-T-TGTGGGCTTTG
52907 AAAGGGGTGCCACTGACT
127 AAAGGGGTGCCACTGACT
* *
52925 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTAACTTGCGTGG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT-CGTGG
* *
52988 GCTTT-AAAAGGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGACTTGTGTGGGCTTT
65 GCTTTGAAAA--GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC-T-TGTGGGCTTT
53052 GAAAGGGGTGCCACTGACT
126 GAAAGGGGTGCCACTGACT
* * * * *
53071 TGTGGGCTTTG-AAAGGGTGCCACTGACCTGTGGGCTCTGAAAAGAGTTACCACCGAC-TCGTGT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTC--GT
*
53134 GGGTTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
63 GGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
*
53199 AAAAGGGTGCCACTGACT
127 AAAGGGGTGCCACTGACT
* *
53217 TGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
53256 TAAAGGGTTT
Statistics
Matches: 690, Mismatches: 56, Indels: 45
0.87 0.07 0.06
Matches are distributed among these distances:
141 20 0.03
142 24 0.03
143 49 0.07
144 46 0.07
145 83 0.12
146 252 0.37
147 95 0.14
148 74 0.11
149 26 0.04
150 21 0.03
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (144 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTCGTGGG
CTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
GGGTGCCACTGACT
Found at i:54492 original size:1 final size:1
Alignment explanation
Indices: 54488--54553 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
54478 TTTTTTGCTA
* * * * * * * * *
54488 TTTTTTCTTGTTTTTTTTTTGTTTTTTTGTTTTGTTTTTGTTTTGTTTTTGTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
54553 T
1 T
54554 GGGTGCAAAG
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (1 bp):
T
Found at i:54512 original size:5 final size:5
Alignment explanation
Indices: 54499--54551 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
54489 TTTTTCTTGT
*
54499 TTTTT TTTTG -TTT- TTTTG TTTTG TTTTTG TTTTG TTTTTG TTTTG TTTT-
1 TTTTG TTTTG TTTTG TTTTG TTTTG -TTTTG TTTTG -TTTTG TTTTG TTTTG
54548 TTTT
1 TTTT
54552 TTGGGTGCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
4 10 0.23
5 23 0.53
6 10 0.23
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (5 bp):
TTTTG
Found at i:54513 original size:22 final size:22
Alignment explanation
Indices: 54477--54554 Score: 86
Period size: 24 Copynumber: 3.4 Consensus size: 22
54467 GACCCTTCTA
54477 TTTTTTTGCTATTTTTTCTTGTTT
1 TTTTTTTGCT-TTTTTT-TTGTTT
*
54501 TTTTTTTGTTTTTTTGTTTTGTTT
1 TTTTTTTG-CTTTTT-TTTTGTTT
*
54525 TTGTTTTG-TTTTTGTTTTGTTT
1 TTTTTTTGCTTTTT-TTTTGTTT
54547 TTTTTTTG
1 TTTTTTTG
54555 GGTGCAAAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
22 21 0.43
24 25 0.51
25 3 0.06
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (22 bp):
TTTTTTTGCTTTTTTTTTGTTT
Found at i:54554 original size:11 final size:11
Alignment explanation
Indices: 54477--54554 Score: 93
Period size: 11 Copynumber: 6.7 Consensus size: 11
54467 GACCCTTCTA
54477 TTTTTTTGCTATT
1 TTTTTTTG-T-TT
*
54490 TTTTCTTGTTT
1 TTTTTTTGTTT
54501 TTTTTTTGTTTT
1 TTTTTTTG-TTT
54513 TTTGTTTTGTTT
1 TTT-TTTTGTTT
*
54525 TTGTTTTGTTT
1 TTTTTTTGTTT
*
54536 TTGTTTTGTTT
1 TTTTTTTGTTT
54547 TTTTTTTG
1 TTTTTTTG
54555 GGTGCAAAGG
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
11 35 0.59
12 12 0.20
13 12 0.20
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:55185 original size:19 final size:19
Alignment explanation
Indices: 55161--55226 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
55151 TGTCAACGAT
55161 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
55180 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
55194 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
55212 TTGTATCGATACATA
1 TTGTATCGATACATA
55227 TGAAGCTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:55198 original size:32 final size:32
Alignment explanation
Indices: 55162--55224 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
55152 GTCAACGATT
55162 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
55194 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
55225 TATGAAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:55199 original size:13 final size:13
Alignment explanation
Indices: 55181--55205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55171 ACATAAGTGT
55181 TGTATCGATACAA
1 TGTATCGATACAA
55194 TGTATCGATACA
1 TGTATCGATACA
55206 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:55345 original size:52 final size:52
Alignment explanation
Indices: 55281--55424 Score: 236
Period size: 52 Copynumber: 2.8 Consensus size: 52
55271 ATCAATACAT
55281 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCATATTTGCCCAGA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCATATTTGCCCAGA
55333 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCATATTTGCCCAGA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCATATTTGCCCAGA
*** *
55385 TGTATCGATACACT-ATGAAATATATCGATACATGCAGGCA
1 TGTATCGATACACTGAT-CTTTGTATCGATACATGCAGGCA
55425 AAATTTCATA
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (52 bp):
TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCATATTTGCCCAGA
Done.