Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1710
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: 97758
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:249 original size:62 final size:62
Alignment explanation
Indices: 1--920 Score: 1004
Period size: 62 Copynumber: 15.1 Consensus size: 62
** * * * * *
1 GACTAAAAAGTGCCACAAAC-CTTGTGGGCTTTGAAAAAAAAAAGG-GTCCTACTCTTTGAG
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* ** * * * *
61 GACAAAAGAATGCCACCAATTCATGTAGGCTTTGAAAAGAAAAAAGGCATCTTGCTCTTT-AG
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAAGGCATCCTGCTCTTTGAG
* * *
123 GACTAAA-GG-GCCACCAACTCCTGTGGGCTTTG-AAA-ATAAAGGGATCCTGCTCTTTGAG
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* **
181 GACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTCAAG
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * *
243 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTTAAAAAGAAAAAGG-GTCCTGCTCTTTAAG
1 GACTAAAGGGTGCCACCAACTCGTGTGGGC-TTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * *
305 GACTAAAGGGTGCCACCAACTCGTATAGG-TTTTAAAAGAAAAAGGCATCCTGCTCTTTGAG
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * * * *
366 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGTATCATGCTCTTTGAA
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * ** * * *
428 AACTAAA-AGTGCCATTAACT--TGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTTTTTGAA
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * * *
487 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTTAAAAGGAAAAGACGTCCTGCTCTTTGAG
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* ** * *
549 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTT-AAAATAAAAAGGTGTCCTGCTCTTCGAA
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * * *
610 GACTAAAAGGTGCCGCCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCGTCTTGCTCTTTGAG
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * * * *
671 GGCTAAAAGGTTGCAACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTGCTCTTTGAG
1 GACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * * *
733 GACT-AAGAGGTGCCATCAACTCGTGTTGGCTTTG-AAAGGAAAA-G-A-CGT-CTCTTTGAG
1 GACTAAAG-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * * * *
790 GATTGAAA-GGTGCTACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAG
1 GACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * * *
852 GACT-AGGAGGTGCCACCAACTCATGTAGGCTTTGAAAAGAAAAAGGCATCTTGCTCTTTGAG
1 GACTAAAG-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
914 GACTAAA
1 GACTAAA
921 AGGCTAAATG
Statistics
Matches: 726, Mismatches: 107, Indels: 51
0.82 0.12 0.06
Matches are distributed among these distances:
57 50 0.07
58 19 0.03
59 49 0.07
60 87 0.12
61 177 0.24
62 319 0.44
63 25 0.03
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (62 bp):
GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
Found at i:379 original size:123 final size:122
Alignment explanation
Indices: 1--920 Score: 1015
Period size: 123 Copynumber: 7.5 Consensus size: 122
* * * * * *
1 GACTAAAAAGTGCCACAAAC-CTTGTGGGCTTTGAAAAAAAAAAGGGTCCTACTCTTTGAGGACA
1 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGGTCCTGCTCTTTGAGGACT
** * * * *
65 AAAGAATGCCACCAATTCATGTAGGCTTTGAAAAGAAAAAAGGCATCTTGCTCTTT-AG
65 AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAAGGCATCCTGCTCTTTGAG
* * *
123 GACT-AAAGG-GCCACCAACTCCTGTGGGCTTTGAAA-ATAAAGGGATCCTGCTCTTTGAGGACT
1 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGG-TCCTGCTCTTTGAGGACT
* **
185 AAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTCAAG
65 AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* *
243 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTTAAAAAGAAAAAGGGTCCTGCTCTTTAAGGAC
1 GACTAAAAGGTGCCACCAACTCGTGTGGGC-TTT-AAAAGAAAAAGGGTCCTGCTCTTTGAGGAC
* * *
308 TAAAGGGTGCCACCAACTCGTATAGG-TTTTAAAAGAAAAAGGCATCCTGCTCTTTGAG
64 TAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * **
366 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGTATCATGCTCTTTGAAAAC
1 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGG-GTCCTGCTCTTTGAGGAC
* ** * * *
431 TAAA-AGTGCCATTAACT--TGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTTTTTGAA
64 TAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * *
487 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGAC
1 GACTAAAAGGTGCCACCAACTCGTGTGGGC-TTTAAAAGAAAAAG-GGTCCTGCTCTTTGAGGAC
* ** * *
552 TAAAGGGTGCCACCAACTCGTGTGGGCTTT-AAAATAAAAAGGTGTCCTGCTCTTCGAA
64 TAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * *
610 GACTAAAAGGTGCCGCCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTCTTTGAGGGCT
1 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG-GTCCTGCTCTTTGAGGACT
* * * *
675 AAAAGGTTGCAACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTGCTCTTTGAG
65 -AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
* * * * * * * *
733 GACTAAGAGGTGCCATCAACTCGTGTTGGCTTTGAAAGGAAAA--GACGT-CTCTTTGAGGATTG
1 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGGTCCTGCTCTTTGAGGACT-
* * * *
795 AAA-GGTGCTACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAG
65 AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
** * * * *
852 GACTAGGAGGTGCCACCAACTCATGTAGGCTTTGAAAAGAAAAAGGCATCTTGCTCTTTGAGGAC
1 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGG-GTCCTGCTCTTTGAGGAC
917 TAAA
64 TAAA
921 AGGCTAAATG
Statistics
Matches: 680, Mismatches: 95, Indels: 45
0.83 0.12 0.05
Matches are distributed among these distances:
118 23 0.03
119 94 0.14
120 77 0.11
121 104 0.15
122 91 0.13
123 220 0.32
124 64 0.09
125 7 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (122 bp):
GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGGTCCTGCTCTTTGAGGACTA
AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
Found at i:459 original size:244 final size:245
Alignment explanation
Indices: 1--922 Score: 1068
Period size: 244 Copynumber: 3.8 Consensus size: 245
** * * * * * *
1 GACTAAAAAGTGCCACAAAC-CTTGTGGGCTTTGAAAAAAAAAAGGGTCCTACTCTTTGAGGACA
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTTAAAAGAAAAAGGGTCCTGCTCTTTGAGGACT
** * * * *
65 AAAGAATGCCACCAATTCATGTAGGCTTTGAAAAGAAAAAAGGCATCTTGCTCTTT-AGGACT-A
66 AAAGGGTGCCACCAACTCGTGTAGGCTTTTAAAAG-AAAAAGGCATCCTGCTCTTTGAGGACTAA
* * * * * *
128 AAGG-GCCACCAACTCCTGTGGGCTTTGAAA-ATAAAGGGATCCTGCTCTTTGAGGACTAAAGGG
130 AAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCTTGCTCTTTGAGGACTAAA-AG
191 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTCAAG
194 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTCAAG
*
243 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTTAAAAAGAAAAAGGGTCCTGCTCTTTAAGGAC
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTT-AAAAGAAAAAGGGTCCTGCTCTTTGAGGAC
*
308 TAAAGGGTGCCACCAACTCGTATAGG-TTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAA
65 TAAAGGGTGCCACCAACTCGTGTAGGCTTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAA
* * **
372 AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGTATCATGCTCTTTGAAAACTAAAAG
130 AAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCATCTTGCTCTTTGAGGACTAAAAG
** * * *
437 TGCCATTAAC-T-TGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTTTTTGAA-
194 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGC-TCTTCAAG
* *
487 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGAC
1 GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTTAAAAGAAAAAG-GGTCCTGCTCTTTGAGGAC
* * ** * *
552 TAAAGGGTGCCACCAACTCGTGTGGGC-TTTAAAATAAAAAGGTGTCCTGCTCTTCGAAGACTAA
65 TAAAGGGTGCCACCAACTCGTGTAGGCTTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAA
* * *
616 AAGGTGCCGCCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTCTTTGAGGGCTAAAAGG
130 AAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCTTGCTCTTTGAGGACTAAAA-G
* * **
681 TTGCAACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTGCTCTTTGAG
194 -TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTCAAG
* * * * * * *
733 GACT-AAGAGGTGCCATCAACTCGTGTTGGC-TTTGAAAGGAAAA--GACGT-CTCTTTGAGGAT
1 GACTAAAG-GGTGCCACCAACTCGTGTGGGCTTTTAAAAGAAAAAGGGTCCTGCTCTTTGAGGAC
* * * * *
793 TGAAA-GGTGCTACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAGGACTA
65 T-AAAGGGTGCCACCAACTCGTGTAGGCTTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTA
** * *
857 GGAGGTGCCACCAACTCATGTAGGCTTTGAAAAGAAAAAGGCATCTTGCTCTTTGAGGACTAAAA
129 AAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCATCTTGCTCTTTGAGGACTAAAA
922 G
193 G
923 GCTAAATGAG
Statistics
Matches: 585, Mismatches: 76, Indels: 38
0.84 0.11 0.05
Matches are distributed among these distances:
241 32 0.05
242 95 0.16
243 99 0.17
244 216 0.37
245 53 0.09
246 55 0.09
247 35 0.06
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (245 bp):
GACTAAAGGGTGCCACCAACTCGTGTGGGCTTTTAAAAGAAAAAGGGTCCTGCTCTTTGAGGACT
AAAGGGTGCCACCAACTCGTGTAGGCTTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAA
AGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCTTGCTCTTTGAGGACTAAAAGTG
CCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTCAAG
Found at i:7174 original size:77 final size:77
Alignment explanation
Indices: 7066--7485 Score: 310
Period size: 77 Copynumber: 5.5 Consensus size: 77
7056 TATTTTGGAG
* * * * *
7066 ATAAAAAT-GGGTTAGAGTATTCCCTTGGAAATAAC-GGTTGGAGTAATCCC-GTATGGTGGAAA
1 ATAAAACTAGGGTTGGAGTA-TCCCTTCGAAATAACGGGTTGGAGT-ATCCCTG-ATTGTGAAAA
*
7128 ATCAATGTTTTGGAA
63 ATCAATGTTTTAGAA
7143 ATAAAACTAGGGTTGGAGTAT-CCTCTCGAAAT-ACAGGGTTGGAGTAT-CCTCGATTGTGAAAA
1 ATAAAACTAGGGTTGGAGTATCCCT-TCGAAATAAC-GGGTTGGAGTATCCCT-GATTGTG-AAA
*
7205 AATCAATGTTTTAAAA
62 AATCAATGTTTTAGAA
* * * ** * *
7221 ATAAATC-GGGGTTGGAGTATCCCCTTAGAATATAACGGGGTCAGAGTATCCCTGATGGTAAAAA
1 ATAAAACTAGGGTTGGAGTAT-CCCTTCGAA-ATAAC-GGGTTGGAGTATCCCTGATTGTGAAAA
** *
7285 ATTGATATTTTAGAA
63 ATCAATGTTTTAGAA
* * * * * * *
7300 ATAAAACCAAGGCTAGAGTATCCCTTCGAAAATAACAGGTTGGGGT-TCCCTGATTATGAAAAAT
1 ATAAAACTAGGGTTGGAGTATCCCTTCG-AAATAACGGGTTGGAGTATCCCTGATTGTGAAAAAT
* *
7364 CAATATTTTGGAA
65 CAATGTTTTAGAA
* * *
7377 ACAAAA-TCAGGGTTGGAGTATCCC-TCAAAAATAACGGGGTTAGAGTATCCCTGATTGTG-AAA
1 ATAAAACT-AGGGTTGGAGTATCCCTTC-GAAATAAC-GGGTTGGAGTATCCCTGATTGTGAAAA
**
7439 ATTGATGTTTTAGAA
63 ATCAATGTTTTAGAA
** *
7454 ATAAGTC-A-GGTTGGAGTATCCC-TCAAAATAAC
1 ATAAAACTAGGGTTGGAGTATCCCTTCGAAATAAC
7486 AGGAAAATCA
Statistics
Matches: 272, Mismatches: 52, Indels: 41
0.75 0.14 0.11
Matches are distributed among these distances:
74 8 0.03
75 16 0.06
76 17 0.06
77 100 0.37
78 63 0.23
79 37 0.14
80 28 0.10
81 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (77 bp):
ATAAAACTAGGGTTGGAGTATCCCTTCGAAATAACGGGTTGGAGTATCCCTGATTGTGAAAAATC
AATGTTTTAGAA
Found at i:7304 original size:157 final size:150
Alignment explanation
Indices: 7135--7488 Score: 392
Period size: 157 Copynumber: 2.3 Consensus size: 150
7125 AAAATCAATG
*
7135 TTTTGGAAATAAAACTAGGGTTGGAGTATCCTCTCGAAAT-ACAGGGTTGGAGTAT-CCTCGATT
1 TTTTAGAAATAAAAC-A-GGTTGGAGTATCC-CTCGAAATAACAGGGTTGGAGT-TCCCT-GATT
* * * * *
7198 GTGAAAAAATCAATGTTTT-AAAAATAAATCGGGGTTGGAGTATCCCCTTAGAATATAACGGGGT
61 ATG-AAAAATCAATATTTTGAAAAA-AAATCAGGGTTGGAGTAT-CCCTCA-AAAATAACGGGGT
7262 CAGAGTATCCCTGATGGTAAAAAATTGATA
122 CAGAGTATCCCTGATGGT-AAAAATTGATA
* * *
7292 TTTTAGAAATAAAACCAAGGCTAGAGTATCCCTTCGAAAATAACA-GGTTGGGGTTCCCTGATTA
1 TTTTAGAAATAAAA-C-AGGTTGGAGTATCCC-TCG-AAATAACAGGGTTGGAGTTCCCTGATTA
* *
7356 TGAAAAATCAATATTTTGGAAACAAAATCAGGGTTGGAGTATCCCTCAAAAATAACGGGGTTAGA
62 TGAAAAATCAATATTTT-GAAAAAAAATCAGGGTTGGAGTATCCCTCAAAAATAACGGGGTCAGA
* * *
7421 GTATCCCTGATTGTGAAAATTGATG
126 GTATCCCTGATGGTAAAAATTGATA
** *
7446 TTTTAGAAATAAGTCAGGTTGGAGTATCCCTCAAAATAACAGG
1 TTTTAGAAATAAAACAGGTTGGAGTATCCCTCGAAATAACAGG
7489 AAAATCAGTA
Statistics
Matches: 169, Mismatches: 20, Indels: 22
0.80 0.09 0.10
Matches are distributed among these distances:
150 8 0.05
151 3 0.02
152 13 0.08
153 1 0.01
154 21 0.12
155 28 0.17
156 20 0.12
157 51 0.30
158 21 0.12
159 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (150 bp):
TTTTAGAAATAAAACAGGTTGGAGTATCCCTCGAAATAACAGGGTTGGAGTTCCCTGATTATGAA
AAATCAATATTTTGAAAAAAAATCAGGGTTGGAGTATCCCTCAAAAATAACGGGGTCAGAGTATC
CCTGATGGTAAAAATTGATA
Found at i:7715 original size:65 final size:65
Alignment explanation
Indices: 7607--7803 Score: 376
Period size: 65 Copynumber: 3.0 Consensus size: 65
7597 AGAAGCTCCT
7607 AACAGGGTCCAAGGCTGATCGGGGTTTCGAGGAGACATCCAAGTGTCTCGGGATGAAGTTTTGAA
1 AACAGGGTCCAAGGCTGATCGGGGTTTCGAGGAGACATCCAAGTGTCTCGGGATGAAGTTTTGAA
*
7672 AACAGGGTCCAAGGCTGATCGGGGTTTCGAGGAGACATTCAAGTGTCTCGGGATGAAGTTTTGAA
1 AACAGGGTCCAAGGCTGATCGGGGTTTCGAGGAGACATCCAAGTGTCTCGGGATGAAGTTTTGAA
*
7737 AACAGGGTCCAAGGCTGATCGGGGTTTCGAGGAGACATCCGAGTGTCTCGGGATGAAGTTTTGAA
1 AACAGGGTCCAAGGCTGATCGGGGTTTCGAGGAGACATCCAAGTGTCTCGGGATGAAGTTTTGAA
7802 AA
1 AA
7804 ACAACATAAT
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 129 1.00
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.23
Consensus pattern (65 bp):
AACAGGGTCCAAGGCTGATCGGGGTTTCGAGGAGACATCCAAGTGTCTCGGGATGAAGTTTTGAA
Found at i:10668 original size:150 final size:150
Alignment explanation
Indices: 10502--10913 Score: 474
Period size: 150 Copynumber: 2.7 Consensus size: 150
10492 TTAGGAGTAA
* * * *
10502 GTTTGTTTTTATCTTTTCCAAGTCCTTTAGGAT-ATTCGGGCACTTCTATGTCAATGGTAGACCT
1 GTTTGCTTTTA-CTTTTTCAAGTCCTTTAGGATCA-TCGGGCACTTCTAAGTCGATGGTAGACCT
* * *
10566 TAAGGATCTTTTAGCATTTTTCCCTTGAAACCTAGCCTTATGAAACTACCAAGTCGCTTATATGC
64 TAGGGACCTTTTAGCATTTTTCCCTTGAAACCTAGCCTTATGAAACTACCAAGTCACTTATATGC
*
10631 TGAGGGTACATATTAGGCAAAG
129 CGAGGGTACATATTAGGCAAAG
* *
10653 GTTTGCTTTTACTTTTTCAAGT-CTTCTAGGATCA-CTGGGCACCAT-TAAGTTGATGGTAGACC
1 GTTTGCTTTTACTTTTTCAAGTCCTT-TAGGATCATC-GGGCA-CTTCTAAGTCGATGGTAGACC
* * *** *
10715 TTAGGGACCTTTTAGCATTTTTCCCTTGAAACCTAGCCCTATGAAACTGCTGGGTCACTTCTATG
63 TTAGGGACCTTTTAGCATTTTTCCCTTGAAACCTAGCCTTATGAAACTACCAAGTCACTTATATG
* *
10780 CCGAGGGTACATATTATGCGAAG
128 CCGAGGGTACATATTAGGCAAAG
** ** * * **
10803 GTTCACTTTTGTTTTTTTAAGTCCTTTAGGATCACCAAGCACTTCTAAGTCGATGGTAGACCTTA
1 GTTTGCTTTTACTTTTTCAAGTCCTTTAGGATCATCGGGCACTTCTAAGTCGATGGTAGACCTTA
* ** *
10868 GGGACCTTTTAGCA-TTTTCCCTCGAAACCTAATCTTGTGAAACTAC
66 GGGACCTTTTAGCATTTTTCCCTTGAAACCTAGCCTTATGAAACTAC
10914 TGGTCACTTT
Statistics
Matches: 221, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
149 32 0.14
150 172 0.78
151 17 0.08
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (150 bp):
GTTTGCTTTTACTTTTTCAAGTCCTTTAGGATCATCGGGCACTTCTAAGTCGATGGTAGACCTTA
GGGACCTTTTAGCATTTTTCCCTTGAAACCTAGCCTTATGAAACTACCAAGTCACTTATATGCCG
AGGGTACATATTAGGCAAAG
Found at i:13976 original size:89 final size:86
Alignment explanation
Indices: 13823--14100 Score: 240
Period size: 89 Copynumber: 3.1 Consensus size: 86
13813 GTCACTTTTG
* * * ** *
13823 GGGAAACTCCATCCCCACTTTTCCGAGAAGG-CATTCCAACACTGCTCTTCAAAAAAA-ATCAAA
1 GGGAAACTCCATCCCCACTTCTCCGA-AGGGACACT-CAAC-CCACTCTTCAAAAAAATA-AAAA
13886 TTTTCCTTTGTGTAAATTTATCTTTA
62 TTTTCCTTTGTG-AAATTTATCTTTA
* * * * *
13912 GGGAAACTCCATCCCTAGTTTTTCGAGGGGACACTTCAATCCCACTCTTCAAAAAAATAAAAATT
1 GGGAAACTCCATCCCCACTTCTCCGAAGGGACAC-TCAA-CCCACTCTTCAAAAAAATAAAAATT
* *
13977 TTCCTTTATGAAATTTTATGTTTA
64 TTCCTTTGTGAAA-TTTATCTTTA
* * * * * *
14001 GGGAAATTCTATCCCCACTTCTCCGAAGTGACACTCCAGCCA-TGTTCTAACAAAAATAAAAATT
1 GGGAAACTCCATCCCCACTTCTCCGAAGGGACACTCAACCCACTCTTC-AA-AAAAATAAAAATT
*
14065 TTCCTTTGTGGAATTTTATCTTT-
64 TTCCTTTGT-GAAATTTATCTTTA
14088 GGAGAAACTCCAT
1 GG-GAAACTCCAT
14101 TTGCACTTCT
Statistics
Matches: 153, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
86 4 0.03
87 7 0.05
88 45 0.29
89 94 0.61
90 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.33
Consensus pattern (86 bp):
GGGAAACTCCATCCCCACTTCTCCGAAGGGACACTCAACCCACTCTTCAAAAAAATAAAAATTTT
CCTTTGTGAAATTTATCTTTA
Found at i:14136 original size:88 final size:88
Alignment explanation
Indices: 13823--14136 Score: 228
Period size: 89 Copynumber: 3.5 Consensus size: 88
13813 GTCACTTTTG
* * * * * *
13823 GGGAAACTCCATCCCCACTTTTCCGAGAAGG-CATTCCAA-CACTGCTCTTCAAAAAAAAT-CAA
1 GGGAAACTCCATCCCCACTTCTCCGA-AGGGACACTCCAACCAC-GTTC-T-AACAAAAATAAAA
*
13885 ATTTTCCTTTGTGTAAA-TTTATCTTTA
62 ATTTTCCTTTATG-AAATTTTATCTTTA
* * * * * * *
13912 GGGAAACTCCATCCCTAGTTTTTCGAGGGGACACTTCAATCCCACTCTTC-AA-AAAAATAAAAA
1 GGGAAACTCCATCCCCACTTCTCCGAAGGGACACTCCAA--CCAC-GTTCTAACAAAAATAAAAA
*
13975 TTTTCCTTTATGAAATTTTATGTTTA
63 TTTTCCTTTATGAAATTTTATCTTTA
* * * * *
14001 GGGAAATTCTATCCCCACTTCTCCGAAGTGACACTCCAGCCATGTTCTAACAAAAATAAAAATTT
1 GGGAAACTCCATCCCCACTTCTCCGAAGGGACACTCCAACCACGTTCTAACAAAAATAAAAATTT
* *
14066 TCCTTTGTGGAATTTTATCTTT-
66 TCCTTTATGAAATTTTATCTTTA
*** * * * * *
14088 GGAGAAACTCCATTTGCACTTCTCTGAGGGGATACTCTAACCCCGTTCT
1 GG-GAAACTCCATCCCCACTTCTCCGAAGGGACACTCCAACCACGTTCT
14137 TCATGAAAAT
Statistics
Matches: 176, Mismatches: 40, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
86 3 0.02
87 7 0.04
88 77 0.44
89 83 0.47
92 6 0.03
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (88 bp):
GGGAAACTCCATCCCCACTTCTCCGAAGGGACACTCCAACCACGTTCTAACAAAAATAAAAATTT
TCCTTTATGAAATTTTATCTTTA
Found at i:14947 original size:34 final size:35
Alignment explanation
Indices: 14909--14975 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
14899 CCTTACAACA
14909 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
14943 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
14976 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:15597 original size:22 final size:22
Alignment explanation
Indices: 15541--15597 Score: 98
Period size: 21 Copynumber: 2.6 Consensus size: 22
15531 AACAGTGACC
15541 TATGAACAGTGATGTATCGATA
1 TATGAACAGTGATGTATCGATA
*
15563 CATGAA-AGTGATGTATCGATA
1 TATGAACAGTGATGTATCGATA
15584 TATGAACAGTGATG
1 TATGAACAGTGATG
15598 AATAGTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.30
Consensus pattern (22 bp):
TATGAACAGTGATGTATCGATA
Found at i:15604 original size:10 final size:10
Alignment explanation
Indices: 15585--15615 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
15575 GTATCGATAT
15585 ATGAACAGTG
1 ATGAACAGTG
*
15595 ATGAATAGTG
1 ATGAACAGTG
15605 ATGAACAGTG
1 ATGAACAGTG
15615 A
1 A
15616 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:15770 original size:20 final size:20
Alignment explanation
Indices: 15745--15782 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15735 GCCAATGTCC
*
15745 TGTATCGATACATATTTGTG
1 TGTATCGATACAAATTTGTG
15765 TGTATCGATACAAATTTG
1 TGTATCGATACAAATTTG
15783 GCTACTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAAATTTGTG
Found at i:15788 original size:54 final size:54
Alignment explanation
Indices: 15639--15829 Score: 341
Period size: 54 Copynumber: 3.6 Consensus size: 54
15629 CTACTACCAA
* *
15639 TGTATCGATACATATTT-TGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
15692 TGTATCGATACATA-TTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
15745 TGTATCGATACATATTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
*
15799 TGTATCGATACATATTTGTGTGTATTGATAC
1 TGTATCGATACATATTTGTGTGTATCGATAC
15830 TATGCAATCT
Statistics
Matches: 133, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
52 2 0.02
53 62 0.47
54 69 0.52
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (54 bp):
TGTATCGATACATATTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
Found at i:15936 original size:21 final size:21
Alignment explanation
Indices: 15910--15950 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15900 GTCAACCTTG
15910 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
15931 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
15951 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:16467 original size:13 final size:13
Alignment explanation
Indices: 16449--16508 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
16439 CAATTGTTCA
16449 TGTATCGATACAT
1 TGTATCGATACAT
*
16462 TGTATCGATACAA
1 TGTATCGATACAT
*
16475 TG--TC---CCA-
1 TGTATCGATACAT
16482 TGTATCGATACAT
1 TGTATCGATACAT
*
16495 TATATCGATACAT
1 TGTATCGATACAT
16508 T
1 T
16509 TCACTTAGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 2 0.05
11 2 0.05
12 2 0.05
13 27 0.73
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16472 original size:33 final size:33
Alignment explanation
Indices: 16429--16506 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
16419 TTAGGCATAA
* *
16429 TGTATTGATACAATTGT-TCATGTATCGATACAT
1 TGTATCGATACAA-TGTCCCATGTATCGATACAT
16462 TGTATCGATACAATGTCCCATGTATCGATACAT
1 TGTATCGATACAATGTCCCATGTATCGATACAT
*
16495 TATATCGATACA
1 TGTATCGATACA
16507 TTTCACTTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 3 0.07
33 38 0.93
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTCCCATGTATCGATACAT
Found at i:16578 original size:19 final size:20
Alignment explanation
Indices: 16535--16587 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
16525 CTGCCAATTT
16535 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
16555 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
16574 CATGTATCGATACA
1 CATGTATCGATACA
16588 TTGCATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:21436 original size:20 final size:20
Alignment explanation
Indices: 21390--21445 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
21380 GTAAAAAGAC
*
21390 AAAATGTATCGATACATTCA
1 AAAATGTATCGATATATTCA
* * * *
21410 TACATGTATCGATATGTTGA
1 AAAATGTATCGATATATTCA
21430 AAAATGTATCGATATA
1 AAAATGTATCGATATA
21446 CCTGGGTAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (20 bp):
AAAATGTATCGATATATTCA
Found at i:22460 original size:32 final size:31
Alignment explanation
Indices: 22418--22648 Score: 133
Period size: 28 Copynumber: 8.0 Consensus size: 31
22408 CATTAGGTTT
22418 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAA
1 AGAAGGGTTGCCACCAAC-T-TGTGGGCTTTAA
22451 AGAA-GGTTGCCACCAACTTGTGGGCTTT-A
1 AGAAGGGTTGCCACCAACTTGTGGGCTTTAA
* ** * * *
22480 A-AA-GGATGCCACTGATTTGTGAGC-TTCA
1 AGAAGGGTTGCCACCAACTTGTGGGCTTTAA
*
22508 A-AAGGG-TGCCACTAACTTGTGGGCTTT-A
1 AGAAGGGTTGCCACCAACTTGTGGGCTTTAA
* * *
22536 A-AAGGG-TACCACTAACTTGTGGGC-TTCA
1 AGAAGGGTTGCCACCAACTTGTGGGCTTTAA
** **
22564 A-AAGGG-TGCCACTGACTTGTGGG--TTCG
1 AGAAGGGTTGCCACCAACTTGTGGGCTTTAA
*
22591 A-AAGGG-TGCCACTAACTTGTGGGCTTT--
1 AGAAGGGTTGCCACCAACTTGTGGGCTTTAA
* * * *
22618 -GAAAGGCTACCACTAACTTGTGGGCTTTAA
1 AGAAGGGTTGCCACCAACTTGTGGGCTTTAA
22648 A
1 A
22649 AGACGTTGCC
Statistics
Matches: 172, Mismatches: 15, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
27 33 0.19
28 103 0.60
29 8 0.05
30 10 0.06
31 1 0.01
32 13 0.08
33 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGAAGGGTTGCCACCAACTTGTGGGCTTTAA
Found at i:22739 original size:29 final size:29
Alignment explanation
Indices: 22439--23345 Score: 921
Period size: 29 Copynumber: 31.6 Consensus size: 29
22429 CACCAACTTG
* * **
22439 TGTGGGCTTTAAAGAAGGTTGCCACCAACT
1 TGTGGGCTTT-GAGAAGGATGCCACTGACT
* *
22469 TGTGGGCTTT-AAAAGGATGCCACTGATT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * * * *
22497 TGTGAGC-TTCAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * * *
22525 TGTGGGCTTT-AAAAGGGTACCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
22553 TGTGGGC-TTCAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
22581 TGTGGG-TTCGA-AAGGGTGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
22608 TGTGGGCTTTGA-AAGGCTACCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* *
22636 TGTGGGCTTT-AAAAGACGTTGCCA-TCGACTT
1 TGTGGGCTTTGAGAAG--GATGCCACT-GAC-T
**
22667 GTGTGGGCTTAAAGAAGGATGCCACT---T
1 -TGTGGGCTTTGAGAAGGATGCCACTGACT
* *
22694 TGTGAGCTTTGA-AAGGATGCCGCTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
*
22722 TGTGGCCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
** *
22751 CCTGGGTTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
22780 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
** * * *
22809 CCTAGGCTTTGAAAAGGATGCCATTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
** *
22838 CATGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
22867 CGTGGGCTTTGAAAAGGATGCCATTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
** * * *
22896 CATGGGCTTTGAAAAGGATGCCATTGGCT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
22925 CGTGGGCTTTGAAAAGGATGCCATTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
22954 CGTAGGG-TTTGAAAAGGATGCCATTGACT
1 TGT-GGGCTTTGAGAAGGATGCCACTGACT
* *
22983 CGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * * * *
23012 CGTAGGCTTGGAAAAGAATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
*
23041 TGTGGGCTTTGAGAAAGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
*
23070 TGTGGGCTTTGAGAAGGATGCCACTGACA
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
*
23099 TGTGGGCTTTGAGAAGGATGTCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
23128 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
23157 TATGGGCTTTGAGAAGGATGCCACTAACA
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
23186 TGTGGGCTTTGA-AAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
23214 TATAGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* *
23243 TGTGGGCTTTGAGAAGGATGCCGCT-AAT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
*
23271 ATGTGGGCTTTGA-AAGGATGCCACTAACT
1 -TGTGGGCTTTGAGAAGGATGCCACTGACT
*
23300 TGTGGGTTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* *
23329 TGTGGGTTTTGAAAAGG
1 TGTGGGCTTTGAGAAGG
23346 GTCGTATTAA
Statistics
Matches: 760, Mismatches: 94, Indels: 47
0.84 0.10 0.05
Matches are distributed among these distances:
25 11 0.01
26 9 0.01
27 27 0.04
28 181 0.24
29 491 0.65
30 20 0.03
31 7 0.01
32 10 0.01
33 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (29 bp):
TGTGGGCTTTGAGAAGGATGCCACTGACT
Found at i:24622 original size:9 final size:8
Alignment explanation
Indices: 24594--24631 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
24584 ATCTGACCCC
24594 TTTTTTG-
1 TTTTTTGT
* *
24601 TTTGTTCT
1 TTTTTTGT
24609 TTTTTTGT
1 TTTTTTGT
24617 TTTTTTGT
1 TTTTTTGT
24625 TTTTTTG
1 TTTTTTG
24632 GTACGAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (8 bp):
TTTTTTGT
Found at i:38585 original size:20 final size:20
Alignment explanation
Indices: 38560--38684 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
38550 TTTTAGCTAG
38560 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
38580 ATGTATCGATACATCTTGGTAAAAAGATAAA
1 ATGTATCGATACA--TT-G-----A-A-A-A
*
38611 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
38631 ATGTATCGATACATTTATAC
1 ATGTATCGATACATTGAAAA
*
38651 ATGTATTGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
38671 ATATATCGATACAT
1 ATGTATCGATACAT
38685 CTGGGTAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 58 0.70
22 3 0.04
23 2 0.02
28 2 0.02
29 3 0.04
30 1 0.01
31 14 0.17
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:38669 original size:91 final size:90
Alignment explanation
Indices: 38560--38734 Score: 269
Period size: 90 Copynumber: 1.9 Consensus size: 90
38550 TTTTAGCTAG
* * * *
38560 ATGTATCGATACATTGAAAAATGTATCGATACATCTTGGTAAAAAGATAAAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATATATCGATACATCTGGGT-AAAAGATAAAATGCATCAATACAT
* *
38625 TGAAGAATGTATCGATACATTTATAC
65 TGAAAAATGTATCAATACATTTATAC
* *
38651 ATGTATTGATACATTGAAAAATATATCGATACATCTGGGTAAAAGATAGAATGCATCAATACATT
1 ATGTATCGATACATTGAAAAATATATCGATACATCTGGGTAAAAGATAAAATGCATCAATACATT
38716 GAAAAATGTATCAATACAT
66 GAAAAATGTATCAATACAT
38735 CTGGGTAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
90 39 0.51
91 37 0.49
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATATATCGATACATCTGGGTAAAAGATAAAATGCATCAATACATT
GAAAAATGTATCAATACATTTATAC
Found at i:38744 original size:24 final size:24
Alignment explanation
Indices: 38667--38748 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 24
38657 TGATACATTG
* *
38667 AAAAATATATCGATACATCTGGGT
1 AAAAATGTATCAATACATCTGGGT
38691 AAAAGATAGAATGCATCAATACAT-T--G-
1 AAAA-AT-G--T--ATCAATACATCTGGGT
38717 AAAAATGTATCAATACATCTGGGT
1 AAAAATGTATCAATACATCTGGGT
38741 AAAAATGT
1 AAAAATGT
38749 GACTTTTCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
20 10 0.22
21 1 0.02
22 1 0.02
23 1 0.02
24 13 0.28
25 4 0.09
26 4 0.09
27 1 0.02
28 1 0.02
29 1 0.02
30 9 0.20
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (24 bp):
AAAAATGTATCAATACATCTGGGT
Found at i:39983 original size:21 final size:21
Alignment explanation
Indices: 39934--39985 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
39924 TGTTTTTGTT
39934 GATG-ATTTTGATGAAAAATA
1 GATGAATTTTGATGAAAAATA
* *
39954 GAT-AGTTTTGATGTGAAAA-A
1 GATGAATTTTGATG-AAAAATA
39974 GATGAATTTTGA
1 GATGAATTTTGA
39986 AAAAGATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (21 bp):
GATGAATTTTGATGAAAAATA
Found at i:48851 original size:13 final size:13
Alignment explanation
Indices: 48833--48858 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48823 CAATTTTTTG
48833 TGTATCGATACAT
1 TGTATCGATACAT
48846 TGTATCGATACAT
1 TGTATCGATACAT
48859 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:51133 original size:13 final size:13
Alignment explanation
Indices: 51115--51152 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
51105 ATAATCACCC
51115 TGTATCGATACAA
1 TGTATCGATACAA
51128 TGTATCGATACAA
1 TGTATCGATACAA
51141 TGTATCGATACA
1 TGTATCGATACA
51153 TTGAATTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:53233 original size:15 final size:15
Alignment explanation
Indices: 53213--53243 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53203 ATTTCGTTTG
*
53213 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
53228 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
53243 G
1 G
53244 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:55077 original size:21 final size:21
Alignment explanation
Indices: 55048--55092 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
55038 AAGTTTTCAT
*
55048 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
55068 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
55090 TTT
1 TTT
55093 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:57323 original size:13 final size:13
Alignment explanation
Indices: 57305--57329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57295 CAATTTTTTG
57305 TGTATCGATACAT
1 TGTATCGATACAT
57318 TGTATCGATACA
1 TGTATCGATACA
57330 AACTTGCTGT
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:59104 original size:165 final size:166
Alignment explanation
Indices: 58923--59302 Score: 579
Period size: 165 Copynumber: 2.3 Consensus size: 166
58913 TATTAATTAA
* **
58923 AAATTAATTTTCATGAGTTTTTTATTTTTCCTTGAAATTCTTTTTTTTTTC-AAAATACGATGTT
1 AAATTCATTTTCATGAGTTTTTTATTTTTCCTTGAAATTCCCTTTTTTTTCTAAAATACGATGTT
58987 T-TCCACTCCGTAAATTTTTTCGAGGGGATTTTTCTTGATTTTTAATTTTTAAAATTCAT-ATAA
66 TCT-CACTCCGT-AATTTTTTCGAGGGGATTTTTCTTGATTTTTAATTTTTAAAATTCATCA-AA
* *
59050 -ATCGTTATTTATTTCATATTAATTCATTTTTAAAAAAC
128 TATCATTATTTATTTCATATTAATTCAATTTTAAAAAAC
* *
59088 AAATTCATTTTCATGAGTTTTTTATTTTTCCTTGAAATTCCCTTTTTTTTCTAAAATATGGTGTT
1 AAATTCATTTTCATGAGTTTTTTATTTTTCCTTGAAATTCCCTTTTTTTTCTAAAATACGATGTT
* * *
59153 TCTTACTCCGTAATTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAATAT
66 TCTCACTCCGTAATTTTTTCGAGGGGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAATAT
59218 CATTATTTATTTCATATTAATTCAATTTTAAAAAAC
131 CATTATTTATTTCATATTAATTCAATTTTAAAAAAC
*
59254 AAATTCATTTCCATGAGTTTTTTATTTTTCTCCTTGAAATTTCCCTTTT
1 AAATTCATTTTCATGAGTTTTTTA-TTTT-TCCTTGAAA-TTCCCTTTT
59303 CTCGAAATAT
Statistics
Matches: 197, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
165 95 0.48
166 79 0.40
167 5 0.03
168 9 0.05
169 9 0.05
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (166 bp):
AAATTCATTTTCATGAGTTTTTTATTTTTCCTTGAAATTCCCTTTTTTTTCTAAAATACGATGTT
TCTCACTCCGTAATTTTTTCGAGGGGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAATAT
CATTATTTATTTCATATTAATTCAATTTTAAAAAAC
Found at i:59916 original size:11 final size:11
Alignment explanation
Indices: 59900--59926 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59890 AAAGAGAGAA
59900 AAAAAAGAAAG
1 AAAAAAGAAAG
59911 AAAAAAGAAAG
1 AAAAAAGAAAG
59922 AAAAA
1 AAAAA
59927 TAGAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:60537 original size:25 final size:25
Alignment explanation
Indices: 60502--60557 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
60492 TAGGGACTTG
*
60502 GGTGCATTTTTTTCTTGACAAATTT
1 GGTGCAATTTTTTCTTGACAAATTT
60527 GGTGCAATTTTTTCTTGACAAATTT
1 GGTGCAATTTTTTCTTGACAAATTT
60552 GGTGCA
1 GGTGCA
60558 TGGCCGAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.46
Consensus pattern (25 bp):
GGTGCAATTTTTTCTTGACAAATTT
Found at i:69633 original size:22 final size:22
Alignment explanation
Indices: 69605--69659 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
69595 TGGACATGTT
69605 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
69627 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
69649 AAAAATGCATG
1 AAAAATGCATG
69660 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:70619 original size:20 final size:20
Alignment explanation
Indices: 70572--70646 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
70562 AAAAAGACAT
*
70572 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
70591 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
70612 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
70632 AATGCATCGATACAT
1 AATGTATCGATACAT
70647 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:70641 original size:40 final size:39
Alignment explanation
Indices: 70569--70646 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
70559 GGTAAAAAGA
* * *
70569 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATACATCGATACATT
* *
70608 CATACATGTATCGATATATTGAAAAATGCATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATACATCGATACAT
70647 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATACATCGATACATT
Found at i:79529 original size:31 final size:31
Alignment explanation
Indices: 79483--79654 Score: 128
Period size: 31 Copynumber: 5.4 Consensus size: 31
79473 TGCCACTGAT
*
79483 TTGTGTCGGCTTTAAAAGGGTTGCCACCAAC
1 TTGTGTGGGCTTTAAAAGGGTTGCCACCAAC
* * * * *
79514 TTATGTGGGCATTAAAGAAAGTTTGCCACCGAC
1 TTGTGTGGGC-TTTAA-AAGGGTTGCCACCAAC
* * * * * *
79547 TTGTGTAGCCTTTAGAAGGGTTGTCTCTAAC
1 TTGTGTGGGCTTTAAAAGGGTTGCCACCAAC
* * * *
79578 TTTTGTGGGCTTTAGAGAAAGGTTGCCATCGAC
1 TTGTGTGGGCTTTA-A-AAGGGTTGCCACCAAC
* *
79611 TTGTGTGGGCTTTAGAAGGGTTGCTACCAAC
1 TTGTGTGGGCTTTAAAAGGGTTGCCACCAAC
* *
79642 TTGTCTAGGCTTT
1 TTGTGTGGGCTTT
79655 GTGGACTTTG
Statistics
Matches: 102, Mismatches: 35, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
31 52 0.51
32 7 0.07
33 43 0.42
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (31 bp):
TTGTGTGGGCTTTAAAAGGGTTGCCACCAAC
Found at i:79602 original size:33 final size:33
Alignment explanation
Indices: 79483--79626 Score: 109
Period size: 33 Copynumber: 4.5 Consensus size: 33
79473 TGCCACTGAT
* * *
79483 TTGTGTCGGCTTTA-A-AAGGGTTGCCACCAAC
1 TTGTGTGGGCTTTAGAGAAAGGTTGCCATCAAC
* * * * * *
79514 TTATGTGGGCATTAAAGAAAGTTTGCCACCGAC
1 TTGTGTGGGCTTTAGAGAAAGGTTGCCATCAAC
* * * *
79547 TTGTGTAGCCTTT--AGAAGGGTTGTC-TCTAAC
1 TTGTGTGGGCTTTAGAGAAAGGTTGCCATC-AAC
* *
79578 TTTTGTGGGCTTTAGAGAAAGGTTGCCATCGAC
1 TTGTGTGGGCTTTAGAGAAAGGTTGCCATCAAC
79611 TTGTGTGGGCTTTAGA
1 TTGTGTGGGCTTTAGA
79627 AGGGTTGCTA
Statistics
Matches: 85, Mismatches: 22, Indels: 10
0.73 0.19 0.09
Matches are distributed among these distances:
30 1 0.01
31 32 0.38
32 1 0.01
33 49 0.58
34 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (33 bp):
TTGTGTGGGCTTTAGAGAAAGGTTGCCATCAAC
Found at i:79654 original size:64 final size:64
Alignment explanation
Indices: 79472--79643 Score: 211
Period size: 64 Copynumber: 2.7 Consensus size: 64
79462 AAGCAATGAT
* * * * * * *
79472 TTGCCACTGATTTGTGTCGGCTTTAAAAGGGTTGCCACCAACTTATGTGGGCATTAAAGAAAGT
1 TTGCCACCGACTTGTGTAGGCTTTAGAAGGGTTGCTACCAACTTATGTGGGCTTTAAAGAAAGG
* * * *
79536 TTGCCACCGACTTGTGTAGCCTTTAGAAGGGTTGTCT-CTAACTTTTGTGGGCTTTAGAGAAAGG
1 TTGCCACCGACTTGTGTAGGCTTTAGAAGGGTTG-CTACCAACTTATGTGGGCTTTAAAGAAAGG
* *
79600 TTGCCATCGACTTGTGTGGGCTTTAGAAGGGTTGCTACCAACTT
1 TTGCCACCGACTTGTGTAGGCTTTAGAAGGGTTGCTACCAACTT
79644 GTCTAGGCTT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
63 2 0.02
64 88 0.97
65 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (64 bp):
TTGCCACCGACTTGTGTAGGCTTTAGAAGGGTTGCTACCAACTTATGTGGGCTTTAAAGAAAGG
Found at i:79734 original size:34 final size:33
Alignment explanation
Indices: 79653--79829 Score: 182
Period size: 35 Copynumber: 5.3 Consensus size: 33
79643 TGTCTAGGCT
**
79653 TTGTGGACTTTGAA-GAAAAAGGTGCCA-AGAAG
1 TTGTGGACTTAAAAGGAAAAAGGTGCCATAG-AG
* *
79685 TTGTGGACTTAAAAAGGAAAAAAGGTGCTATAGCG
1 TTGTGGACTT-AAAAGG-AAAAAGGTGCCATAGAG
**
79720 TTGTGGACTTAAAA-GAAAAA-GTGCCACGGAG
1 TTGTGGACTTAAAAGGAAAAAGGTGCCATAGAG
*
79751 TTGTGGACTTTAAAAGGACAAAGGTGCCATAGAG
1 TTGTGGAC-TTAAAAGGAAAAAGGTGCCATAGAG
* *
79785 TTATGGACTTAAAAGGGAAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAA-GGAAAAA-GGTGCCATAGAG
*
79820 TCGTGGACTT
1 TTGTGGACTT
79830 TGAGAAGAGA
Statistics
Matches: 120, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
31 15 0.12
32 21 0.17
33 14 0.12
34 27 0.22
35 41 0.34
36 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.23
Consensus pattern (33 bp):
TTGTGGACTTAAAAGGAAAAAGGTGCCATAGAG
Found at i:80850 original size:12 final size:14
Alignment explanation
Indices: 80824--80853 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
80814 TGAGGTGAAA
80824 TTTTTCTCTTCTTT
1 TTTTTCTCTTCTTT
80838 TTTTTCTCTT-TTT
1 TTTTTCTCTTCTTT
80851 TTT
1 TTT
80854 AAGACCAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTCTTCTTT
Found at i:86419 original size:52 final size:52
Alignment explanation
Indices: 86349--86469 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
86339 GAAAATTTAT
*
86349 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
86401 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
86453 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
86470 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:86482 original size:52 final size:51
Alignment explanation
Indices: 86349--86489 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
86339 GAAAATTTAT
86349 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
86401 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
86453 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
86490 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:86496 original size:13 final size:13
Alignment explanation
Indices: 86478--86502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86468 CAAAGATCAG
86478 TGTATCGATACAA
1 TGTATCGATACAA
86491 TGTATCGATACA
1 TGTATCGATACA
86503 TGTGAGTAAT
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:86586 original size:13 final size:13
Alignment explanation
Indices: 86568--86592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86558 CAAAAAAATA
86568 TGTATCGATACAT
1 TGTATCGATACAT
86581 TGTATCGATACA
1 TGTATCGATACA
86593 ACATTTTATG
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:86588 original size:33 final size:33
Alignment explanation
Indices: 86546--86612 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
86536 AGTAGCTTAA
86546 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
86579 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
86612 A
1 A
86613 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:87579 original size:22 final size:22
Alignment explanation
Indices: 87554--87622 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
87544 ATGCTGATTC
87554 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
87576 AAGGTGCCA-ATGTGTT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
87597 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
87619 AAGG
1 AAGG
87623 TGAAGGTGCC
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.18
22 10 0.30
23 5 0.15
24 4 0.12
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:87648 original size:49 final size:49
Alignment explanation
Indices: 87488--88096 Score: 750
Period size: 49 Copynumber: 12.7 Consensus size: 49
87478 AAAAGGATGT
*
87488 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
87540 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
87583 CAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
87632 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
87681 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
87730 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
87779 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
87828 CAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
87877 CAATATGCTGATTCAATGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
87920 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
87969 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
88012 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
88061 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
88097 GAAGGGTTGC
Statistics
Matches: 474, Mismatches: 65, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
43 113 0.24
45 2 0.00
47 2 0.00
48 1 0.00
49 325 0.69
52 31 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:87724 original size:98 final size:98
Alignment explanation
Indices: 87483--88101 Score: 869
Period size: 98 Copynumber: 6.5 Consensus size: 98
87473 GATGAAAAAG
* * * * * * *
87483 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGC
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G--AAGGTGCCAATGTGC
* *
87548 TGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--
63 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
87579 G-TGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
*
87643 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
87676 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
*
87741 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
87774 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGTTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
87839 GTCAAGGCCAGCTACATTGGACTTAAAGATGAA
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
87872 GATGCCAATATGCTGATTCAATGCCAGCGATATTGGACTT--A----AAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
*
87931 TTCAAGGCCAGCTACATTGGACTTAAAGATGAA
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
87964 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT--A----AAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
*
88023 TTCAAGGCCAGCTACATTGGACTTAAAGATGAA
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
88056 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAGAAGG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGG
88102 GTTGCCACCG
Statistics
Matches: 492, Mismatches: 20, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
92 216 0.44
93 2 0.00
94 2 0.00
95 42 0.09
96 2 0.00
97 1 0.00
98 227 0.46
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (98 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
GTCAAGGCCAGCTACATTGGACTTAAAGATGAA
Found at i:88140 original size:33 final size:35
Alignment explanation
Indices: 88096--88165 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
88086 TATTGGGCTT
*
88096 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTAGGCTTTAGGA
88130 AGAA-GGTTGCCACCGACTTGTGTAGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTAGGCTTTAGGA
88164 AG
1 AG
88166 GGAGAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTAGGCTTTAGGA
Found at i:88208 original size:34 final size:32
Alignment explanation
Indices: 88170--89046 Score: 600
Period size: 34 Copynumber: 27.1 Consensus size: 32
88160 AGGAAGGGAG
*
88170 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTAAAA-GG-AA
*
88205 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAAAG--GAA
* * *
88241 AAAGGTGCCACGGAGTTATGGACTTAAAGATGAAA
1 AAA-GTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
*
88276 AAAGTGCCACGGAGTTATGGGCTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
88306 ---GTGCCACGGAGTTGTGGGCTTAGAAGGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGG-AA
* * **
88336 AAGAGTGCCACAGAGTTGTGAGCTTAGGAGGAAA
1 AA-AGTGCCACGGAGTTGTGGGCTTAAAAGG-AA
*
88370 AAGAGTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AA-AGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
88400 AGAGTGCCACGGAGTCGTGGGCTTTGAAAA-GAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
88433 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 -AAAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
88467 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 -AAAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
88501 GAAGGTGCCACGGAGTTGTGGGCTTTAAA-G--
1 -AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
88531 --AGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAAG-G-AA
88565 AAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
*
88599 AAAGGTGCCACGGAGTTGTGGGCTT----TG-A
1 AAA-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
88627 AGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAAG-G-AA
*
88663 AAGAGTGCCACGAAGTTGTGGGCTTTAAACA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
88697 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAA
1 AAA-GTGCCACGGAGTTGTGGGC-TT-AAAA-GG-AA
*
88734 AAGAGTGCCACAGAGTTGTGGGCTTTAAAA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
88767 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAA-GTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
88801 AAAGGTGCCACGGAGTTGTGGGCTTAAACGG--
1 AAA-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
88832 ---GTGCCACGGAGTTGTGGGCTTAAACGG--
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
88859 ---GTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
*
88890 AAAGTGCCACGGAGTTATGGGCTTAAAA-G--
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
88919 --AGTGCCACGGAGTCGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
*
88951 AAAGTGCCACGGAATTGTGGGCTTCAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGCTT-AAAAGGAA
*
88982 ---GTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
89011 CAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAA
1 -AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
89044 AAA
1 AAA
89047 TACCACTGAG
Statistics
Matches: 711, Mismatches: 59, Indels: 147
0.78 0.06 0.16
Matches are distributed among these distances:
27 139 0.20
28 27 0.04
29 24 0.03
30 5 0.01
31 1 0.00
32 10 0.01
33 73 0.10
34 277 0.39
35 40 0.06
36 43 0.06
37 71 0.10
38 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (32 bp):
AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:88229 original size:71 final size:67
Alignment explanation
Indices: 88170--89045 Score: 707
Period size: 61 Copynumber: 13.5 Consensus size: 67
88160 AGGAAGGGAG
* *
88170 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAA
*
88235 GAAAAA
63 -AAGAA
* * *
88241 AAAGGTGCCACGGAGTTATGGACTTAAAGATGAAAAA-AGTGCCACGGAGTTATGGGC-TT-AAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAA-A-GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
88303 AG--
64 AGAA
* * * ** *
88305 ---GGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGAGC-TTAGGAG
1 AAAGGTGCCACGGAGTTGTGGGCTTA-AAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
88366 GAA
65 GAA
* * *
88369 AAAGAGTGCCACGGAGTTGTGGGCTT----TAAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
88430 GAA
65 GAA
* * * * *
88433 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACAGAGTTGTGGGCTTTGAAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
88497 AGAA
64 AGAA
* * *
88501 GAAGGTGCCACGGAGTTGTGGGCTT------TAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-
88560 AGAA
64 AGAA
88564 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG-GTGCCACGGAGTTGTGGGCTTT---
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
88625 --G-A
63 AAGAA
* * *
88627 AGA-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT--AAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
88691 ACAGAA
62 AAAGAA
*
88697 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-A
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
88761 AAAGAA
62 AAAGAA
88767 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGC-TT-AAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
*
88829 CG--
64 AGAA
* * *
88831 ---GGTGCCACGGAGTTGTGGGCTTAAACG-----G-GTGCCACGGAGTTGTGGAC-TTAAAGAT
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AA
88886 GAA
65 GAA
* * * * *
88889 AAAAGTGCCACGGAGTTATGGGCTT------AAAAGAGTGCCACGGAGTCGTGGAC-TTAAAGAT
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AA
88947 GAA
65 GAA
* * * *
88950 AAAAGTGCCACGGAATTGTGGGCTTCAAAAG-----G-GTGCCACGGAGTTGTGGAC-TTAAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
89008 GAA
65 GAA
* *
89011 CAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAA
89046 ATACCACTGA
Statistics
Matches: 677, Mismatches: 64, Indels: 134
0.77 0.07 0.15
Matches are distributed among these distances:
54 21 0.03
55 2 0.00
56 2 0.00
59 4 0.01
60 16 0.02
61 199 0.29
62 30 0.04
63 63 0.09
64 52 0.08
65 2 0.00
66 8 0.01
67 23 0.03
68 78 0.12
69 9 0.01
70 61 0.09
71 102 0.15
72 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (67 bp):
AAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
AA
Found at i:88311 original size:27 final size:27
Alignment explanation
Indices: 88279--88332 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
88269 GATGAAAAAA
88279 GTGCCACGGAGTTATGGGCTTAAAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
* *
88306 GTGCCACGGAGTTGTGGGCTTAGAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
88333 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (27 bp):
GTGCCACGGAGTTATGGGCTTAAAAGG
Found at i:88322 original size:97 final size:97
Alignment explanation
Indices: 88202--89073 Score: 495
Period size: 98 Copynumber: 9.1 Consensus size: 97
88192 CTTAAAAGGG
* *
88202 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAAGGTGCCACGGAGTTATGGACTTA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG-AAAAAAAGGTGCCACAGAGTTGTGGACTTA
*
88267 AAGATGAAAAAAGTGCCACGGAGTTATGGGC-TT
65 AAGA-GAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * *
88300 -AAAAGGGTGCCACGGAGTTGTGGGC-TTAGAAG-GAAAAAGAGTGCCACAGAGTTGT-GAGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAG-GTGCCACAGAGTTGTGGA-CTT
*
88361 -AGGAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
64 AAAGA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTT
* * *
88396 AAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAG--AAGAAGGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAAAGGTGCCACAGAGTTGTGGAC-TT
* * *
88459 GAAA-AGAAGAAGGTGCCACAGAGTTGTGGGCTTT
64 -AAAGAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * *
88493 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAG------A-GTGCCACGGAGTCGTGGG
1 --AAA-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAGGTGCCACAGAGTTGTGGA
88550 CTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
61 C-TT--AAAGAGAAAAA-AGTGCCACGGAGTTGTGGGCTTT
* * * * *
88591 AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT----G---AAGA-GTGCCACGGAGTCGTGGG
1 --A-A-AAAGA-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAGGTGCCACAGAGTTGTGGA
*
88648 CTTTGAAAAGAGAAAAAGAGTGCCACGAAGTTGTGGGCTTT
61 C-TT--AAAGAGAAAAA-AGTGCCACGGAGTTGTGGGCTTT
* **
88689 AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTG
1 --A-A-AAAGA-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAAAG-GTGCCACAGAGTTGTG
* *
88754 GGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT
59 GAC-TTAAAGAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * *
88793 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAACG-------GGTGCCACGGAGTTGTGGG
1 AAAAAG----A-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAGGTGCCACAGAGTTGTGGA
*
88850 CTTAAACG-G------GTGCCACGGAGTTGTGGACTTAAAGAT
61 CTTAAA-GAGAAAAAAGTGCCACGGAGTTGTGGGCTT-----T
* * *
88886 GAAAAA-AGTGCCACGGAGTTATGGGC-TTAAAAG------A-GTGCCACGGAGTCGTGGACTTA
1 -AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAGGTGCCACAGAGTTGTGGACTTA
*
88942 AAGATGAAAAAAGTGCCACGGAATTGTGGGC-TT
65 AAGA-GAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * * * * * * *
88975 CAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG-GAACAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAGGTGCCACAGAGTTGTGGACTTAA
* * * *
89038 A-AGAAAAAA-TACCACTGAGTCGTGGACTTT
66 AGAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
*
89068 GAAAAG
1 AAAAAG
89074 TATTTGAAGA
Statistics
Matches: 656, Mismatches: 55, Indels: 131
0.78 0.07 0.16
Matches are distributed among these distances:
87 1 0.00
88 70 0.11
89 27 0.04
92 13 0.02
93 20 0.03
94 44 0.07
95 95 0.14
96 12 0.02
97 90 0.14
98 155 0.24
99 11 0.02
100 12 0.02
101 2 0.00
102 26 0.04
103 3 0.00
104 42 0.06
105 7 0.01
106 6 0.01
108 20 0.03
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (97 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAGGTGCCACAGAGTTGTGGACTTAA
AGAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
Found at i:88604 original size:98 final size:94
Alignment explanation
Indices: 88335--89045 Score: 633
Period size: 98 Copynumber: 7.4 Consensus size: 94
88325 TTAGAAGGAA
* * * * *
88335 AAAGAGTGCCACAGAGTTGTGAGC-TTAGGAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--A
1 AAAGAGTGCCACGGAGTCGTGGGCTTTA-AAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
* *
88397 A-AAAGA-GTGCCACGGAGTCGTGGGCTTT
65 AGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * * *
88425 GAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACAGAGTTGTGGG
1 ----A-AAG-A-GTGCCACGGAGTCGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGG
*
88489 CTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
58 CTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
88527 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTCGTGGGCTTT--AAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
88592 AACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
63 AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
88625 GAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGAAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTCGTGGGCTTT--AAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
88690 AACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
63 AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
88723 GAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAG-GTGCCACGGAGTTGTG
1 ----------AAAGAGTGCCACGGAGTCGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTG
88787 GGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TT
56 GGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * * *
88826 AAACGGGTGCCACGGAGTTGTGGGC-TTAAACG-----G-GTGCCACGGAGTTGTGGAC-TTAAA
1 AAA-GAGTGCCACGGAGTCGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
* * *
88883 GATGAAAAAAGTGCCACGGAGTTATGGGCTTA
65 -A-GAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * *
88915 AAAGAGTGCCACGGAGTCGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTCAA
1 AAAGAGTGCCACGGAGTCGTGGGCTTTAAA-A-GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
88978 AAG-----GGTGCCACGGAGTTGTGGACTTA
64 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
*
89004 AAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAAAAA
1 AAA-G----A-GTGCCACGGAGTCGTGGGCTTTAAAAGAAAAA
89046 ATACCACTGA
Statistics
Matches: 533, Mismatches: 39, Indels: 91
0.80 0.06 0.14
Matches are distributed among these distances:
86 3 0.01
87 3 0.01
88 66 0.12
89 27 0.05
90 2 0.00
93 15 0.03
94 23 0.04
95 60 0.11
96 11 0.02
97 52 0.10
98 156 0.29
99 1 0.00
100 2 0.00
101 3 0.01
102 21 0.04
103 2 0.00
104 48 0.09
105 11 0.02
106 3 0.01
108 24 0.05
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (94 bp):
AAAGAGTGCCACGGAGTCGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
GAAAAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:88641 original size:27 final size:27
Alignment explanation
Indices: 88603--88654 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
88593 ACAGAAAAAG
*
88603 GTGCCACGGAGTTGTGGGCTTTGAAGA
1 GTGCCACGGAGTCGTGGGCTTTGAAGA
88630 GTGCCACGGAGTCGTGGGCTTTGAA
1 GTGCCACGGAGTCGTGGGCTTTGAA
88655 AAGAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.40, T:0.25
Consensus pattern (27 bp):
GTGCCACGGAGTCGTGGGCTTTGAAGA
Found at i:88823 original size:104 final size:107
Alignment explanation
Indices: 88626--88825 Score: 334
Period size: 104 Copynumber: 1.9 Consensus size: 107
88616 GTGGGCTTTG
*
88626 AAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAA
1 AAGAGTGCCACAGAGTCGTGGGCTTT-AAAAGAGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAA
*
88691 ACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAA
65 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAA
* *
88734 AAGAGTGCCACAGAGTTGTGGGCTTT-AAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
1 AAGAGTGCCACAGAGTCGTGGGCTTTAAAAGAGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAA
88796 AAGAAAAAGGTGCCACGGAGTTGTGGGCTT
66 AAGAAAAAGGTGCCACGGAGTTGTGGGCTT
88826 AAACGGGTGC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
104 53 0.60
105 8 0.09
106 3 0.03
108 24 0.27
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (107 bp):
AAGAGTGCCACAGAGTCGTGGGCTTTAAAAGAGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAA
AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAA
Found at i:88842 original size:27 final size:26
Alignment explanation
Indices: 88804--89005 Score: 152
Period size: 27 Copynumber: 7.0 Consensus size: 26
88794 AAAAGAAAAA
88804 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGGCTTAAA-G
88831 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGGCTTAAA-G
*
88858 GGTGCCACGGAGTTGTGGACTTAAAG
1 GGTGCCACGGAGTTGTGGGCTTAAAG
*
88884 ATGAAAAAAGTGCCACGGAGTTATGGGCTTAAAAG
1 --G------GTGCCACGGAGTTGTGGGCTT-AAAG
* * *
88919 AGTGCCACGGAGTCGTGGACTTAAAG
1 GGTGCCACGGAGTTGTGGGCTTAAAG
*
88945 ATGAAAAAAGTGCCACGGAATTGTGGGCTTCAAAAG
1 --G------GTGCCACGGAGTTGTGGGCTT--AAAG
*
88981 GGTGCCACGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGGCTTAAA
89006 AGGAACAAGG
Statistics
Matches: 143, Mismatches: 13, Indels: 39
0.73 0.07 0.20
Matches are distributed among these distances:
26 8 0.06
27 69 0.48
28 20 0.14
34 38 0.27
35 4 0.03
36 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.35, T:0.21
Consensus pattern (26 bp):
GGTGCCACGGAGTTGTGGGCTTAAAG
Found at i:88897 original size:88 final size:88
Alignment explanation
Indices: 88770--88943 Score: 260
Period size: 88 Copynumber: 2.0 Consensus size: 88
88760 AAAAGAAAAA
* * * * *
88770 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAACGGGTG
1 GGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGTGCCACGGAGTTATGGGCTTAAAAGAGTG
* *
88835 CCACGGAGTTGTGGGCTTAAACG
66 CCACGGAGTCGTGGACTTAAACG
*
88858 GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTATGGGCTTAAAAGAGT
1 GGTGCCACGGAGTTGTGGACTTTAAA-AAGAAAAAAGTGCCACGGAGTTATGGGCTTAAAAGAGT
88922 GCCACGGAGTCGTGGACTTAAA
65 GCCACGGAGTCGTGGACTTAAA
88944 GATGAAAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 5 0.06
88 72 0.94
ACGTcount: A:0.28, C:0.16, G:0.35, T:0.21
Consensus pattern (88 bp):
GGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGTGCCACGGAGTTATGGGCTTAAAAGAGTG
CCACGGAGTCGTGGACTTAAACG
Found at i:91273 original size:27 final size:27
Alignment explanation
Indices: 91232--91295 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
91222 TTCGGCCCTT
*
91232 GGCTTCAAATTCTCCACCTACTAGCTA
1 GGCTTCAAATCCTCCACCTACTAGCTA
91259 GGCTTCAAATCCTCCACCTACTAGCTA
1 GGCTTCAAATCCTCCACCTACTAGCTA
91286 GGCTTCAAAT
1 GGCTTCAAAT
91296 TGTCGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (27 bp):
GGCTTCAAATCCTCCACCTACTAGCTA
Found at i:94569 original size:20 final size:20
Alignment explanation
Indices: 94544--94597 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
94534 GTTACAAGCA
*
94544 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
94564 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
94584 ATGTATCGATACAA
1 ATGTATCGATACAA
94598 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:94665 original size:13 final size:13
Alignment explanation
Indices: 94647--94673 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94637 ACAATTGTCC
94647 ATGTATCGATACA
1 ATGTATCGATACA
94660 ATGTATCGATACA
1 ATGTATCGATACA
94673 A
1 A
94674 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Done.