Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold126
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: 2080828
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 191490 characters in sequence are not A, C, G, or T
File 1 of 13
Found at i:6224 original size:29 final size:29
Alignment explanation
Indices: 6185--6243 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
6175 TTCAACGATT
6185 TGTATCGATACATAAGT-TTGTATCGATACA
1 TGTATCGATACAT-AGTATTGTATCG-TACA
6215 TGTAT-GATACATAGTATTGTATCGTACA
1 TGTATCGATACATAGTATTGTATCGTACA
6243 T
1 T
6244 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 8 0.29
29 15 0.54
30 5 0.18
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (29 bp):
TGTATCGATACATAGTATTGTATCGTACA
Found at i:8847 original size:30 final size:28
Alignment explanation
Indices: 8765--8835 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
8755 CTTCACAATC
* * *
8765 GGGGACACTCCAACCCCGTTA-ATCAT-C
1 GGGGATACTCCAACCCCGTTATTTC-TGA
8792 GGGGATACTCCAACCCCGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATTTCTGA
8820 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
8836 GACTTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTGA
Found at i:9005 original size:28 final size:28
Alignment explanation
Indices: 8973--9055 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
8963 ATTTTTCACA
8973 CATCGAGGATACTCCAACCTCGTTATTT
1 CATCGAGGATACTCCAACCTCGTTATTT
* * *
9001 CATCGGGGATACTCCAACCCCGTTACTT
1 CATCGAGGATACTCCAACCTCGTTATTT
*
9029 C--CGAGGGAACACTCCAACCTCGTTATT
1 CATCGA-GG-ATACTCCAACCTCGTTATT
9056 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 42 0.91
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.27
Consensus pattern (28 bp):
CATCGAGGATACTCCAACCTCGTTATTT
Found at i:23409 original size:28 final size:28
Alignment explanation
Indices: 23328--23409 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
23318 TTTTGGAGAT
*
23328 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
23356 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
23384 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
23410 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:23554 original size:51 final size:50
Alignment explanation
Indices: 23392--23562 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 50
23382 GAAATAACGA
* * *
23392 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCG
* * * * * *
23443 GAATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 G-GTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATC-G
* * *
23497 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATC-G
23548 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
23563 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 30 0.31
54 12 0.12
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCG
Found at i:26104 original size:13 final size:13
Alignment explanation
Indices: 26086--26111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26076 ACAAAGATCC
26086 ATGTATCGATACA
1 ATGTATCGATACA
26099 ATGTATCGATACA
1 ATGTATCGATACA
26112 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:26107 original size:33 final size:33
Alignment explanation
Indices: 26065--26131 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
26055 AAAATTTCCA
***
26065 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
26098 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
26131 A
1 A
26132 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:26175 original size:19 final size:18
Alignment explanation
Indices: 26151--26218 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
26141 CAGTAGCTAA
26151 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
26170 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
26185 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
26202 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
26219 TCGTTGAATT
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:26191 original size:13 final size:13
Alignment explanation
Indices: 26173--26197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26163 ACAATACTTA
26173 TGTATCGATACAT
1 TGTATCGATACAT
26186 TGTATCGATACA
1 TGTATCGATACA
26198 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:26195 original size:32 final size:32
Alignment explanation
Indices: 26154--26216 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
26144 TAGCTAATTA
*
26154 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
26186 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
26217 AATCGTTGAA
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:26376 original size:13 final size:13
Alignment explanation
Indices: 26358--26414 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
26348 GGTGTCTACA
26358 GTATCGATACAAT
1 GTATCGATACAAT
26371 GTATCGATACATAAGTTTT
1 GTATCGATAC--AA----T
26390 GTATCGATACAAT
1 GTATCGATACAAT
*
26403 GTATCGCTACAA
1 GTATCGATACAA
26415 AGCTACTGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:33071 original size:11 final size:11
Alignment explanation
Indices: 33055--33106 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
33045 ATGGTCAGCT
33055 GAAAAAAGAGA
1 GAAAAAAGAGA
33066 GAAAAAA-ATGA
1 GAAAAAAGA-GA
33077 GAAAGAAAAGAGA
1 G-AA-AAAAGAGA
*
33090 GAAAAAAATAGA
1 G-AAAAAAGAGA
33102 GAAAA
1 GAAAA
33107 TAGGTAGAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 1 0.03
11 14 0.39
12 10 0.28
13 10 0.28
14 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (11 bp):
GAAAAAAGAGA
Found at i:33085 original size:24 final size:25
Alignment explanation
Indices: 33058--33105 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
33048 GTCAGCTGAA
33058 AAAAGAGAGAAAAAAAT-GAGAAAG
1 AAAAGAGAGAAAAAAATAGAGAAAG
33082 AAAAGAGAGAAAAAAATAGAGAAA
1 AAAAGAGAGAAAAAAATAGAGAAA
33106 ATAGGTAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (25 bp):
AAAAGAGAGAAAAAAATAGAGAAAG
Found at i:34276 original size:162 final size:162
Alignment explanation
Indices: 33899--34796 Score: 1188
Period size: 162 Copynumber: 5.6 Consensus size: 162
33889 TATTTCCATG
* * * * *
33899 TTTACTTTTTCTAATCTTTTATATTCTTATGGGTATCCGTAAGGGTATAAAAGATTTTAAAAACC
1 TTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAAAACC
* * *
33964 TTTCGTATTCTTTCGGGCTTCCATTAGGGTACGAAATGGTGTTTTCGAAAATAAAT---A--AAA
66 TTTCGTATTCTTTCAGACTTCCATTAGAGTACGAAATGGTGTTTTCGAAAATAAATAAAATTAAA
*
34024 TTAAATTGGTATTATGGGGATAAATTCTAATA
131 TTAAATTGGTATTATTGGGATAAATTCTAATA
*
34056 TTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAATGATTTCAAAAACC
1 TTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAAAACC
* * *
34121 TTTTGTATTCTTTTAGACTTCCATTAGAGTACGAAATGGTGTTTTTGAAAATAAATAAAATTAAA
66 TTTCGTATTCTTTCAGACTTCCATTAGAGTACGAAATGGTGTTTTCGAAAATAAATAAAATTAAA
* * *
34186 TTAAATTGGTATTATTAGGATAAGTTCTAGTA
131 TTAAATTGGTATTATTGGGATAAATTCTAATA
* * *
34218 TTTATTTTTTCTAATATTTTATATTCCTATGGGCATTCGTGGGGGTATAAAAGATTTCAAAAACC
1 TTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAAAACC
* * *
34283 TTTCTTATTCTTTCA-AGCTTCCATTAGGGTAAGAAATGGTGTTTTCGAAAATAAATAAAATTAA
66 TTTCGTATTCTTTCAGA-CTTCCATTAGAGTACGAAATGGTGTTTTCGAAAATAAATAAAATTAA
* *
34347 ATGAAATTGGTATTATTGGGATAAATTTTAATA
130 ATTAAATTGGTATTATTGGGATAAATTCTAATA
* * * *
34380 TTTATTTTTTTCTAATCTTTTATATTCTTATGGGCATCCATAGGGATATAAAATATTTC-AAAAC
1 TTTA-TTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAAAAC
* * ** * *
34444 CTTTCATATTCTTTCAGGCTTCCATTAGAGTATAAAATGATATTTTCG---------AAAA-TAA
65 CTTTCGTATTCTTTCAGACTTCCATTAGAGTACGAAATGGTGTTTTCGAAAATAAATAAAATTAA
* *
34499 ATTAAATTGGTATTATTAGGATAAATTCTAGTA
130 ATTAAATTGGTATTATTGGGATAAATTCTAATA
*
34532 TTTATTTTTTCTAATCTTTTATATTCCTATGGG-AGTCCGTGGGGGTATAAAAGATTTCAAAAAC
1 TTTATTTTTTCTAATCTTTTATATTCCTATGGGCA-TCCGTAGGGGTATAAAAGATTTCAAAAAC
* * * * *
34596 CTTTCGTATTCTTTCGGGCTTCCATTA-AGGTAAGAAACGGTGTTTTCAAAAATAAATAAAATTA
65 CTTTCGTATTCTTTCAGACTTCCATTAGA-GTACGAAATGGTGTTTTCGAAAATAAATAAAATTA
34660 AATTAAATTGGTATTATTGGGATAAATTCTAATA
129 AATTAAATTGGTATTATTGGGATAAATTCTAATA
* * *
34694 TTTATTTTTTCTAATCTTTTATATTCCTATGAGCATCTGTAGGGGTATAAAACATTTCAAAAACC
1 TTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAAAACC
* *
34759 TTTCGTATTCTTTCA-AGCTTCCATTAGGGTACAAAATG
66 TTTCGTATTCTTTCAGA-CTTCCATTAGAGTACGAAATG
34797 TTAAAGCTCA
Statistics
Matches: 643, Mismatches: 74, Indels: 43
0.85 0.10 0.06
Matches are distributed among these distances:
150 1 0.00
151 48 0.07
152 79 0.12
153 4 0.01
157 109 0.17
160 1 0.00
161 5 0.01
162 348 0.54
163 48 0.07
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (162 bp):
TTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAAAACC
TTTCGTATTCTTTCAGACTTCCATTAGAGTACGAAATGGTGTTTTCGAAAATAAATAAAATTAAA
TTAAATTGGTATTATTGGGATAAATTCTAATA
Found at i:34593 original size:314 final size:315
Alignment explanation
Indices: 33899--34796 Score: 1301
Period size: 314 Copynumber: 2.8 Consensus size: 315
33889 TATTTCCATG
* * * ** *
33899 TTTACTTTTTCTAATCTTTTATATTCTTATGGGTATCCGTAAGGGTATAAAAGATTTTAAAAACC
1 TTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTGGGGGTATAAAAGATTTCAAAAACC
*
33964 TTTCGTATTCTTTCGGGCTTCCATTAGGGTACGAAATGGTGTTTTCGAAAATAAATAAAA-T---
66 TTTCGTATTCTTTCGGGCTTCCATTAGGGTAAGAAATGGTGTTTTCGAAAATAAATAAAATTAAA
*
34025 TAAATTGGTATTATGGGGATAAATTCTAATATTTATTTTTTCTAATCTTTTATATTCCTATGGGC
131 TAAATTGGTATTATTGGGATAAATTCTAATATTTATTTTTTCTAATCTTTTATATTCCTATGGGC
* * * *
34090 ATCCGTAGGGGTAT-AAATGATTTCAAAAACCTTTTGTATTCTTTTAGACTTCCATTAGAGTACG
196 ATCCGTAGGGGTATAAAAT-ATTTCAAAAACCTTTCGTATTCTTTCAGGCTTCCATTAGAGTACA
* * * *
34154 AAATGGTGTTTTTGAAAATAAATAAAATTAAATTAAATTGGTATTATTAGGATAAGTTCTAGTA
260 AAATGATATTTTCG-------A-AAAATTAAATTAAATTGGTATTATTAGGATAAATTCTAGTA
* *
34218 TTTATTTTTTCTAATATTTTATATTCCTATGGGCATTCGTGGGGGTATAAAAGATTTCAAAAACC
1 TTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTGGGGGTATAAAAGATTTCAAAAACC
* **
34283 TTTCTTATTCTTTCAAGCTTCCATTAGGGTAAGAAATGGTGTTTTCGAAAATAAATAAAATTAAA
66 TTTCGTATTCTTTCGGGCTTCCATTAGGGTAAGAAATGGTGTTTTCGAAAATAAATAAAATTAAA
* *
34348 TGAAATTGGTATTATTGGGATAAATTTTAATATTTATTTTTTTCTAATCTTTTATATTCTTATGG
131 T-AAATTGGTATTATTGGGATAAATTCTAATATTTA-TTTTTTCTAATCTTTTATATTCCTATGG
* * * *
34413 GCATCCATAGGGATATAAAATATTTC-AAAACCTTTCATATTCTTTCAGGCTTCCATTAGAGTAT
194 GCATCCGTAGGGGTATAAAATATTTCAAAAACCTTTCGTATTCTTTCAGGCTTCCATTAGAGTAC
34477 AAAATGATATTTTCG-AAAA-TAAATTAAATTGGTATTATTAGGATAAATTCTAGTA
259 AAAATGATATTTTCGAAAAATTAAATTAAATTGGTATTATTAGGATAAATTCTAGTA
34532 TTTATTTTTTCTAATCTTTTATATTCCTATGGG-AGTCCGTGGGGGTATAAAAGATTTCAAAAAC
1 TTTATTTTTTCTAATCTTTTATATTCCTATGGGCA-TCCGTGGGGGTATAAAAGATTTCAAAAAC
* * *
34596 CTTTCGTATTCTTTCGGGCTTCCATTAAGGTAAGAAACGGTGTTTTCAAAAATAAATAAAATTAA
65 CTTTCGTATTCTTTCGGGCTTCCATTAGGGTAAGAAATGGTGTTTTCGAAAATAAATAAAATTAA
*
34661 ATTAAATTGGTATTATTGGGATAAATTCTAATATTTATTTTTTCTAATCTTTTATATTCCTATGA
130 A-TAAATTGGTATTATTGGGATAAATTCTAATATTTATTTTTTCTAATCTTTTATATTCCTATGG
* * * *
34726 GCATCTGTAGGGGTATAAAACATTTCAAAAACCTTTCGTATTCTTTCAAGCTTCCATTAGGGTAC
194 GCATCCGTAGGGGTATAAAATATTTCAAAAACCTTTCGTATTCTTTCAGGCTTCCATTAGAGTAC
34791 AAAATG
259 AAAATG
34797 TTAAAGCTCA
Statistics
Matches: 523, Mismatches: 46, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
313 49 0.09
314 228 0.44
315 5 0.01
319 113 0.22
320 1 0.00
323 1 0.00
324 76 0.15
325 46 0.09
326 4 0.01
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (315 bp):
TTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTGGGGGTATAAAAGATTTCAAAAACC
TTTCGTATTCTTTCGGGCTTCCATTAGGGTAAGAAATGGTGTTTTCGAAAATAAATAAAATTAAA
TAAATTGGTATTATTGGGATAAATTCTAATATTTATTTTTTCTAATCTTTTATATTCCTATGGGC
ATCCGTAGGGGTATAAAATATTTCAAAAACCTTTCGTATTCTTTCAGGCTTCCATTAGAGTACAA
AATGATATTTTCGAAAAATTAAATTAAATTGGTATTATTAGGATAAATTCTAGTA
Found at i:35643 original size:19 final size:19
Alignment explanation
Indices: 35599--35654 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
35589 CTGCCAGTTT
**
35599 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
35619 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
35638 CATGTATCGATACAATG
1 CATGTATCGATACAATG
35655 TATCAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:35676 original size:20 final size:20
Alignment explanation
Indices: 35651--35724 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
35641 GTATCGATAC
*
35651 AATGTATCAATACAAAGCAT
1 AATGTATCGATACAAAGCAT
* *
35671 AATGTATCGATACATCTAG-GT
1 AATGTATCGATACA--AAGCAT
*
35692 -GTGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
35711 AATGTATCGATACA
1 AATGTATCGATACA
35725 TCTAGGTGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 37 0.86
21 1 0.02
22 2 0.05
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAAAGCAT
Found at i:35708 original size:40 final size:40
Alignment explanation
Indices: 35653--35745 Score: 177
Period size: 40 Copynumber: 2.3 Consensus size: 40
35643 ATCGATACAA
*
35653 TGTATCAATACAAAGCATAATGTATCGATACATCTAGGTG
1 TGTATCGATACAAAGCATAATGTATCGATACATCTAGGTG
35693 TGTATCGATACAAAGCATAATGTATCGATACATCTAGGTG
1 TGTATCGATACAAAGCATAATGTATCGATACATCTAGGTG
35733 TGTATCGATACAA
1 TGTATCGATACAA
35746 TCATGGGTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (40 bp):
TGTATCGATACAAAGCATAATGTATCGATACATCTAGGTG
Found at i:35736 original size:20 final size:20
Alignment explanation
Indices: 35673--35744 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
35663 CAAAGCATAA
35673 TGTATCGATACATCTAGGTG
1 TGTATCGATACATCTAGGTG
* * *
35693 TGTATCGATACA--AAGCATAA
1 TGTATCGATACATCTAG-GT-G
35713 TGTATCGATACATCTAGGTG
1 TGTATCGATACATCTAGGTG
35733 TGTATCGATACA
1 TGTATCGATACA
35745 ATCATGGGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 36 0.86
21 1 0.02
22 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATCTAGGTG
Found at i:38167 original size:13 final size:13
Alignment explanation
Indices: 38149--38175 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38139 ATAGTAACCC
38149 ATGTATCGATACA
1 ATGTATCGATACA
38162 ATGTATCGATACA
1 ATGTATCGATACA
38175 A
1 A
38176 GCAATGTTGT
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
Found at i:44336 original size:20 final size:20
Alignment explanation
Indices: 44311--44350 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44301 GTTACAAGCA
* *
44311 ATGTATCGATACAATTTATC
1 ATGTATCAATACAATGTATC
44331 ATGTATCAATACAATGTATC
1 ATGTATCAATACAATGTATC
44351 GATACAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGTATCAATACAATGTATC
Found at i:44714 original size:21 final size:20
Alignment explanation
Indices: 44672--44708 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44662 TGAGTGAATA
*
44672 AAACTTTTTTACGGTTTTTC
1 AAACATTTTTACGGTTTTTC
44692 AAACATTTTT-CGGTTTT
1 AAACATTTTTACGGTTTT
44709 ATTCAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.54
Consensus pattern (20 bp):
AAACATTTTTACGGTTTTTC
Found at i:44934 original size:162 final size:162
Alignment explanation
Indices: 44743--45108 Score: 547
Period size: 162 Copynumber: 2.3 Consensus size: 162
44733 CAAGATCCTA
*
44743 ACAAAATGGTATTTTCGAAAATAAATAAAATTAAATTAAATTGGTATTATTGGGATAAATTCTAA
1 ACAAAATGGTATTTTTGAAAATAAATAAAATTAAATTAAATTGGTATTATTGGGATAAATTCTAA
* * *
44808 TATTTATTTTTT-TGATCTTTTATAATCCTATAGGCATCCATACGGGTATAAAAGATTTCAAAAA
66 TATTTATTTTTTCTAATATTTTATAATCCTATAGGCACCCATACGGGTATAAAAGATTTCAAAAA
*
44872 CCTTTCATATTCTTTCGGGCTTCCATT-AGAGT
131 CCTTACATATTCTTTCGGGCTTCCATTAAG-GT
** * *
44904 AGGAAATGGTATTTTTTGAAAATAAATAAAATAAAATAAAATTGGTATTATTGGGATAAATTCTA
1 ACAAAATGGTA-TTTTTGAAAATAAATAAAATTAAATTAAATTGGTATTATTGGGATAAATTCTA
* * *
44969 ATATTTATTTTTTCTAATATTTTATATTCCTATTGGCACCCATAGGGGTATAAAAGATTTCAAAA
65 ATATTTATTTTTTCTAATATTTTATAATCCTATAGGCACCCATACGGGTATAAAAGATTTCAAAA
* * *
45034 ACCTTACGTATTCTTTTGGGCTTCTATTAAGGT
130 ACCTTACATATTCTTTCGGGCTTCCATTAAGGT
* *
45067 ACAAAATGGTATTTTTGAAAAGAAATAAAATTAAATTGAATT
1 ACAAAATGGTATTTTTGAAAATAAATAAAATTAAATTAAATT
45109 AATACTTTCG
Statistics
Matches: 181, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
161 9 0.05
162 90 0.50
163 80 0.44
164 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (162 bp):
ACAAAATGGTATTTTTGAAAATAAATAAAATTAAATTAAATTGGTATTATTGGGATAAATTCTAA
TATTTATTTTTTCTAATATTTTATAATCCTATAGGCACCCATACGGGTATAAAAGATTTCAAAAA
CCTTACATATTCTTTCGGGCTTCCATTAAGGT
Found at i:47938 original size:20 final size:21
Alignment explanation
Indices: 47878--47951 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
47868 TTTTACAATT
* *
47878 TGTATCGATATA-AACAGTAAA
1 TGTATCGATACATAACTG-AAA
* *
47899 TGTATTGATACATAAGTG-AA
1 TGTATCGATACATAACTGAAA
*
47919 TGTATCGATACATACCTGAAA
1 TGTATCGATACATAACTGAAA
*
47940 TATATCGATACA
1 TGTATCGATACA
47952 AAACCACCCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 17 0.40
21 23 0.53
22 3 0.07
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATAACTGAAA
Found at i:47999 original size:20 final size:20
Alignment explanation
Indices: 47971--48011 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47961 TACATATTGC
*
47971 TAAGGAAATGTATCAATACA
1 TAAGGAAATATATCAATACA
*
47991 TAAGTAAATATATCAATACA
1 TAAGGAAATATATCAATACA
48011 T
1 T
48012 TTACTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
TAAGGAAATATATCAATACA
Found at i:54721 original size:20 final size:19
Alignment explanation
Indices: 54696--54767 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
54686 CTGCCTGTTT
**
54696 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
54716 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
54735 CATGTATTGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
54756 -ATGTATCGATAC
1 CATGTATCGATAC
54768 CTTTAGGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
19 17 0.38
20 27 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:55362 original size:22 final size:20
Alignment explanation
Indices: 55325--55365 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
55315 CTCTCGTTAA
*
55325 AAAATTTTCCCTTTGATAAC
1 AAAATTTTCCCCTTGATAAC
55345 AAAATTTCTCCCCCTTGATAA
1 AAAATTT-T-CCCCTTGATAA
55366 TTGGTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAATTTTCCCCTTGATAAC
Found at i:55777 original size:33 final size:33
Alignment explanation
Indices: 55722--55788 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
55712 AAGTACACCA
*
55722 AAGTGCTCATCCATATGCTGTGAGAGAGAAGTG
1 AAGTGCTCATCCATATGCTGTGAAAGAGAAGTG
* * *
55755 AAGTGCTCA-CTCATGTGTTGTGAAAGTGAAGTG
1 AAGTGCTCATC-CATATGCTGTGAAAGAGAAGTG
55788 A
1 A
55789 TCAAGTCTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (33 bp):
AAGTGCTCATCCATATGCTGTGAAAGAGAAGTG
Found at i:57138 original size:22 final size:21
Alignment explanation
Indices: 57103--57152 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
57093 TTTGTTGATG
*
57103 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
57123 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
57144 AATTTGAAG
1 ATTTTGAAG
57153 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:57149 original size:21 final size:22
Alignment explanation
Indices: 57110--57152 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
57100 ATGATTTTGA
* *
57110 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
57132 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
57153 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:57169 original size:10 final size:10
Alignment explanation
Indices: 57142--57176 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
57132 TGAAAAATAA
*
57142 GAAATTTGAA
1 GAAATTTGAT
57152 GAAGATTTGAT
1 GAA-ATTTGAT
57163 GAAATTTGAT
1 GAAATTTGAT
57173 GAAA
1 GAAA
57177 GGATGTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (10 bp):
GAAATTTGAT
Found at i:63454 original size:20 final size:19
Alignment explanation
Indices: 63412--63465 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
63402 GTTTGAAGCA
63412 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCA-C
63432 ATGTATCGATACAATGTGC-C
1 ATGTATCGATACAAT-T-CAC
*
63452 ATGTATCAATACAA
1 ATGTATCGATACAA
63466 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATTCAC
Found at i:64537 original size:52 final size:52
Alignment explanation
Indices: 64478--65224 Score: 536
Period size: 52 Copynumber: 14.6 Consensus size: 52
64468 TCATGGCTAG
* * * *
64478 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAGAAAAATGACAATGTGT
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * * * * * *
64530 TGATTCAAGACTAGTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTAC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * * * *
64582 TGATTCAAGACCAGTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * ** * * *
64634 TAATTCAAGGCCAGCGACATT-GAGCTT-AGGAATGTTAAAAATTCCAATATGA
1 TGATTCAAGGCCAGCGACATTGGA-CTTAAAG-ATGAGAAAAATGCCAATGTGC
* * * * * ** *
64686 TGATTCAAGGTCAACGATATCGGACTTAAATAT--G-AAGGTGCCGATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * * *
64735 TGATTCAAGGGCAGCGATATTGGACTTAAAGGTGAGAAAAATGCTAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * * * * * *
64787 TGATTCAAGACTAGTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTTC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * * * * * *
64839 TAATTCAAGACCAACGACATTAGACTTGAATATGAGAAGAATGCCAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * * ** * *
64891 TAATTCAAGGCCAGTGACATT-GAGCTT-AGGAATGTTAAAAATGCCAATATGA
1 TGATTCAAGGCCAGCGACATTGGA-CTTAAAG-ATGAGAAAAATGCCAATGTGC
* * * * * * ** *
64943 TGATTCAAGGTCAACAATATCGGACTTAAATAT--G-AAGGTGCCGATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * * *
64992 TGATTCAAGGCCAACGATATTGGACTTAAAGGTGAGAAAAATCCCAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * * * * *
65044 TGATTCAAGACTAGTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
* * ** * *
65096 TAATTCAAGGCCAGCGACATTAGG-CTTAGA-ATG-TTAAAATCCCAATATGC
1 TGATTCAAGGCCAGCGACATT-GGACTTAAAGATGAGAAAAATGCCAATGTGC
* * * * ** *
65146 TGATTTAAGGCCAACGATATCGGACTTAAAGAT--G-AAGGTGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
*
65195 TGATTCAAGGCCAGCGATATTGGACTTAAA
1 TGATTCAAGGCCAGCGACATTGGACTTAAA
65225 TATTGTAGAC
Statistics
Matches: 546, Mismatches: 132, Indels: 37
0.76 0.18 0.05
Matches are distributed among these distances:
49 116 0.21
50 33 0.06
51 14 0.03
52 376 0.69
53 7 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (52 bp):
TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
Found at i:64881 original size:257 final size:256
Alignment explanation
Indices: 64478--65127 Score: 1129
Period size: 257 Copynumber: 2.5 Consensus size: 256
64468 TCATGGCTAG
*
64478 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAGAAAAATGACAATGTGTTGATTCAAGACTA
1 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAGAAAAATG-CAATGTGCTGATTCAAGACTA
* *
64543 GTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTACTGATTCAAGACCAGTGACATTAGACT
65 GTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTACTAATTCAAGACCAGCGACATTAGACT
*
64608 TGAAGATGAGAAGAATGCCAATGTGCTAATTCAAGGCCAGCGACATTGAGCTTAGGAATGTTAAA
130 TGAATATGAGAAGAATGCCAATGTGCTAATTCAAGGCCAGCGACATTGAGCTTAGGAATGTTAAA
* *
64673 AATTCCAATATGATGATTCAAGGTCAACGATATCGGACTTAAATATGAAGGTGCCGATGTGC
195 AATGCCAATATGATGATTCAAGGTCAACAATATCGGACTTAAATATGAAGGTGCCGATGTGC
*
64735 TGATTCAAGGGCAGCGATATTGGACTTAAAGGTGAGAAAAATGCTAATGTGCTGATTCAAGACTA
1 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAGAAAAATGC-AATGTGCTGATTCAAGACTA
* *
64800 GTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTTCTAATTCAAGACCAACGACATTAGACT
65 GTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTACTAATTCAAGACCAGCGACATTAGACT
*
64865 TGAATATGAGAAGAATGCCAATGTGCTAATTCAAGGCCAGTGACATTGAGCTTAGGAATGTTAAA
130 TGAATATGAGAAGAATGCCAATGTGCTAATTCAAGGCCAGCGACATTGAGCTTAGGAATGTTAAA
64930 AATGCCAATATGATGATTCAAGGTCAACAATATCGGACTTAAATATGAAGGTGCCGATGTGC
195 AATGCCAATATGATGATTCAAGGTCAACAATATCGGACTTAAATATGAAGGTGCCGATGTGC
* *
64992 TGATTCAAGGCCAACGATATTGGACTTAAAGGTGAGAAAAATCCCAATGTGCTGATTCAAGACTA
1 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAGAAAAAT-GCAATGTGCTGATTCAAGACTA
* * *
65057 GTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTGCTAATTCAAGGCCAGCGACATTAGGCT
65 GTGACATTAGACTTGAAGATGAGAAGAATGCCAATGTACTAATTCAAGACCAGCGACATTAGACT
65122 TAGAAT
130 T-GAAT
65128 GTTAAAATCC
Statistics
Matches: 373, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
256 1 0.00
257 367 0.98
258 5 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (256 bp):
TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAGAAAAATGCAATGTGCTGATTCAAGACTAG
TGACATTAGACTTGAAGATGAGAAGAATGCCAATGTACTAATTCAAGACCAGCGACATTAGACTT
GAATATGAGAAGAATGCCAATGTGCTAATTCAAGGCCAGCGACATTGAGCTTAGGAATGTTAAAA
ATGCCAATATGATGATTCAAGGTCAACAATATCGGACTTAAATATGAAGGTGCCGATGTGC
Found at i:64899 original size:205 final size:206
Alignment explanation
Indices: 64552--65176 Score: 606
Period size: 205 Copynumber: 3.0 Consensus size: 206
64542 AGTGACATTA
* * *
64552 GACTTGAAGATGAGAAGAATGCCAATGTACTGATTCAAGACCAGTGACATTAGACTTGAAGATGA
1 GACTTAAAG-TGAGAAAAATGCCAATGTGCTGATTCAAGACCAGTGACATTAGACTTGAAGATGA
* * * *
64617 GAAGAATGCCAATGTGCTAATTCAAGGCCAGCGACATT-GAGCTTAGGAATGTTA-AA-AATTCC
65 GAAGAATGCCAATGTGCTAATTCAAGACCAGCGACATTAGA-CTT--GAATATGAGAAGAATGCC
* * * * * * ** * * *
64679 AATATGATGATTCAAGGTCAACGATATCGGA-CTTA-AAT-ATGAAGGTGCCGATGTGCTGATTC
127 AATGTGCTAATTCAAGGCCAACGACAT-GGAGCTTAGAATGATAAAAATGCCAATATGATGATTC
* * *
64741 AAGGGCAGCGATATTG
191 AAGGGCAACAATATCG
* *
64757 GACTTAAAGGTGAGAAAAATGCTAATGTGCTGATTCAAGACTAGTGACATTAGACTTGAAGATGA
1 GACTTAAA-GTGAGAAAAATGCCAATGTGCTGATTCAAGACCAGTGACATTAGACTTGAAGATGA
* *
64822 GAAGAATGCCAATGTTCTAATTCAAGACCAACGACATTAGACTTGAATATGAGAAGAATGCCAAT
65 GAAGAATGCCAATGTGCTAATTCAAGACCAGCGACATTAGACTTGAATATGAGAAGAATGCCAAT
** * *
64887 GTGCTAATTCAAGGCCAGTGACATTGAGCTTAGGAATGTTAAAAATGCCAATATGATGATTCAAG
130 GTGCTAATTCAAGGCCAACGACATGGAGCTTA-GAATGATAAAAATGCCAATATGATGATTCAAG
*
64952 GTCAACAATATCG
194 GGCAACAATATCG
** * * ** * * * *
64965 GACTTAAA-T-ATG-AAGGTGCCGATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGA
1 GACTTAAAGTGA-GAAAAATGCCAATGTGCTGATTCAAGACCAGTGACATTAGACTTGAAGATGA
* * * * * *
65027 GAAAAATCCCAATGTGCTGATTCAAGACTAGTGACATTAGACTTGAAGATGAGAAGAATGCCAAT
65 GAAGAATGCCAATGTGCTAATTCAAGACCAGCGACATTAGACTTGAATATGAGAAGAATGCCAAT
* * * * * *
65092 GTGCTAATTCAAGGCCAGCGACAT-TAGGCTTAGAATG-TTAAAATCCCAATATGCTGATTTAAG
130 GTGCTAATTCAAGGCCAACGACATGGA-GCTTAGAATGATAAAAATGCCAATATGATGATTCAAG
* *
65155 GCCAACGATATCG
194 GGCAACAATATCG
65168 GACTTAAAG
1 GACTTAAAG
65177 ATGAAGGTGC
Statistics
Matches: 351, Mismatches: 58, Indels: 23
0.81 0.13 0.05
Matches are distributed among these distances:
203 47 0.13
204 10 0.03
205 249 0.71
206 5 0.01
207 3 0.01
208 37 0.11
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (206 bp):
GACTTAAAGTGAGAAAAATGCCAATGTGCTGATTCAAGACCAGTGACATTAGACTTGAAGATGAG
AAGAATGCCAATGTGCTAATTCAAGACCAGCGACATTAGACTTGAATATGAGAAGAATGCCAATG
TGCTAATTCAAGGCCAACGACATGGAGCTTAGAATGATAAAAATGCCAATATGATGATTCAAGGG
CAACAATATCG
Found at i:67701 original size:80 final size:78
Alignment explanation
Indices: 67607--67992 Score: 407
Period size: 79 Copynumber: 4.9 Consensus size: 78
67597 ATCACCCCAG
* * * * *
67607 TTTTATTTCCAAAACACTGATTTTTCACCATCGGGGATACTCTAACCCCATTATTTTTGAGAGGA
1 TTTTATTTCTAAAACA-TAATTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTTGAGAGGA
67672 TACTCTAACCCCGA
65 TACTCTAACCCCGA
* * *
67686 TTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTGC-AACCTCATTATTTTTGAAAG
1 -TTTTATTTCTAAAACA-TAATTTTTCACAATCGGGGATACT-CTAACCTCGTTATTTTTGAGAG
*
67750 GATACTTTAACCCCGA
63 GATACTCTAACCCCGA
* * ** * * * *
67766 CTTTATTTCTAAAACATTGATTTTTCACAATCAAGGATACTTTTACCTCGTTATTTTTAAGGGGA
1 TTTTATTTCTAAAACA-TAATTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTTGAGAGGA
*
67831 TACTCTAACCCCGG
65 TACTCTAACCCCGA
* * * * *
67845 CTTTACTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCTTGTTATTTTCGAGAGGA
1 TTTTATTTCTAAAACAT-AATTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTTGAGAGGA
*
67910 CACTCTAACCCCGA
65 TACTCTAACCCCGA
* * * * * * * *
67924 TTTTATTTCCAAAATATCAGTTTTCCACCATCTGGGATACTTTAACC-CGTTATTTCTGAGAGGA
1 TTTTATTTCTAAAACAT-AATTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTTGAGAGGA
67988 TACTC
65 TACTC
67993 CAACTCCATT
Statistics
Matches: 255, Mismatches: 48, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
78 19 0.07
79 165 0.65
80 70 0.27
81 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (78 bp):
TTTTATTTCTAAAACATAATTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTTGAGAGGAT
ACTCTAACCCCGA
Found at i:67962 original size:158 final size:159
Alignment explanation
Indices: 67607--67992 Score: 492
Period size: 158 Copynumber: 2.4 Consensus size: 159
67597 ATCACCCCAG
* * *
67607 TTTTATTTCCAAAACA-CTGATTTTTCACCATCGGGGATACTCTAACCCCATTATTTTTGAGAGG
1 TTTTATTTCCAAAACATCTGATTTTTCACCATCAGGGATACTTTAA-CCCGTTATTTTTGAGAGG
** * *
67671 ATACTCTAACCCCGATTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTGCAACCTC
65 ATACTCTAACCCCGAGCTTTACTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCTC
* * *
67736 ATTATTTTTGAAAGGATACTTTAACCCCGA
130 ATTATTTTCGAAAGGACACTCTAACCCCGA
* * * * * * *
67766 CTTTATTTCTAAAACAT-TGATTTTTCACAATCAAGGATACTTTTACCTCGTTATTTTTAAGGGG
1 TTTTATTTCCAAAACATCTGATTTTTCACCATCAGGGATACTTTAACC-CGTTATTTTTGAGAGG
* *
67830 ATACTCTAACCCCG-GCTTTACTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCTT
65 ATACTCTAACCCCGAGCTTTACTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCTC
* *
67894 GTTATTTTCGAGAGGACACTCTAACCCCGA
130 ATTATTTTCGAAAGGACACTCTAACCCCGA
* * * * *
67924 TTTTATTTCCAAAATATCAG-TTTTCCACCATCTGGGATACTTTAACCCGTTATTTCTGAGAGGA
1 TTTTATTTCCAAAACATCTGATTTTTCACCATCAGGGATACTTTAACCCGTTATTTTTGAGAGGA
67988 TACTC
66 TACTC
67993 CAACTCCATT
Statistics
Matches: 191, Mismatches: 33, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
157 19 0.10
158 107 0.56
159 65 0.34
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (159 bp):
TTTTATTTCCAAAACATCTGATTTTTCACCATCAGGGATACTTTAACCCGTTATTTTTGAGAGGA
TACTCTAACCCCGAGCTTTACTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCTCA
TTATTTTCGAAAGGACACTCTAACCCCGA
Found at i:69157 original size:33 final size:33
Alignment explanation
Indices: 69066--69165 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
69056 CATTGGGCTT
*
69066 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGACTTTAG
** * ** *
69099 AGAATAGCTGCCACTAACTTATGTGGACTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGACTTTAG
*
69132 AGAAGGGTTGCAACCGACTTGTGTGGACTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGACTTTAG
69165 A
1 A
69166 AAGAGATGCC
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGACTTTAG
Found at i:69204 original size:27 final size:27
Alignment explanation
Indices: 69165--69237 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
69155 TGGACTTTAG
*
69165 AAAGAGATGCCACGGAGTTGTGGAGTTAA
1 AAAGAG-TGCCACGGAGTTGTGGA-CTAA
*
69194 AAAG-GTGCCACAGAGTTGTGGACTAA
1 AAAGAGTGCCACGGAGTTGTGGACTAA
*
69220 AAAGAGTGCCACGAAGTT
1 AAAGAGTGCCACGGAGTT
69238 ATGAGCTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 7 0.18
27 27 0.69
28 1 0.03
29 4 0.10
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.19
Consensus pattern (27 bp):
AAAGAGTGCCACGGAGTTGTGGACTAA
Found at i:69290 original size:34 final size:33
Alignment explanation
Indices: 69248--70038 Score: 483
Period size: 34 Copynumber: 25.1 Consensus size: 33
69238 ATGAGCTTTG
*
69248 AAAA-GAAAAATGTGCCACGGAGTTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAG-TTGTGGACTT
*
69281 AAAAGGAAAAAGGGTGCCACTGAGTTGTGGACTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
** *
69315 AAAAGGAAAAAGGGTGCCACTAAGCTGTGGACTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
* * *
69349 AAAACGAAAAAGGGTGCCATGGAGTTATGGACTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
*
69383 AAAA-GAAAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
69416 AAAA-G-----GGTGCCAC-GACGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGA-GTTGTGGACTT
* *
69443 -------AAACGGTGCCACGGAGTT-TATGAGCTTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGT-GGA-C-TT
* **
69471 GAAAA-GAAAAAGATGCCACAAAGTTGTGGACTT
1 -AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* ***
69504 AAAAGGAAAAAAAGTGCCAATAAGTTGTGGACTT
1 AAAAGG-AAAAAGGTGCCACGGAGTTGTGGACTT
* * *
69538 AAAAGGAAAAAGGCTACAATGGAGTTGTGGACTT
1 AAAAGGAAAAAGG-TGCCACGGAGTTGTGGACTT
* ** *
69572 AAAAAG-AAAAGACGCCACGAAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* *
69604 AAAA-G-----GGTGCCACGAAGTTGTGTACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* **
69631 AAAA-G-----GGTACCATAGAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
*
69658 AAAAAGGAAAAAGGGTGCCATGGAGTTGTGGACTT
1 -AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
* **
69693 AAAA-G-----CGTGCCACAAAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
69720 ------AAAAAGGTGCCACAGAATTGTTGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* * **
69747 AAAAAGAAAAAAAGTGCCACTAAGTTGTGGACTT
1 -AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* **
69781 AAAAGGAAAAAAGATGCCATAGAGTTGTGGACTT
1 AAAAGG-AAAAAGGTGCCACGGAGTTGTGGACTT
69815 AAAA-GAAAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
* * *
69848 AAAAGGAAAAAGAGTACCACGAAGTTATGGACTT
1 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTT
* *
69882 AAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* *
69915 ------AAAAAGGTACCACGAAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
*
69942 --AA--AAAAA--TGCCATGGAGTTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAG-TTGTGGACTT
* ** *
69970 AAAAAGAAAAA--TGCCACAAAGTTATGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
*
70001 AAAAGGAAAAAGAGTGCCACGGAGTTATGGACTT
1 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTT
70035 AAAA
1 AAAA
70039 AGGTGCCACA
Statistics
Matches: 612, Mismatches: 90, Indels: 111
0.75 0.11 0.14
Matches are distributed among these distances:
25 1 0.00
26 15 0.02
27 129 0.21
28 16 0.03
29 6 0.01
30 2 0.00
31 20 0.03
32 40 0.07
33 97 0.16
34 239 0.39
35 46 0.08
36 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (33 bp):
AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:69386 original size:27 final size:27
Alignment explanation
Indices: 69356--69460 Score: 97
Period size: 27 Copynumber: 3.7 Consensus size: 27
69346 CTTAAAACGA
* *
69356 AAAAGGGTGCCATGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
69383 AAAAGAAAAAGGGTGCCACAGAGTTGTGGACTT
1 -----AAAA-GGGTGCCACGGAGTTGTGGACTT
69416 AAAAGGGTGCCAC-GACGTTGTGGACTT
1 AAAAGGGTGCCACGGA-GTTGTGGACTT
*
69443 -AAACGGTGCCACGGAGTT
1 AAAAGGGTGCCACGGAGTT
69461 TATGAGCTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
26 16 0.24
27 22 0.33
28 4 0.06
32 4 0.06
33 20 0.30
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:69535 original size:189 final size:188
Alignment explanation
Indices: 69259--69697 Score: 530
Period size: 189 Copynumber: 2.3 Consensus size: 188
69249 AAAGAAAAAT
* * **
69259 GTGCCACGGAGTTTGTGGACTTAAAAGGAAAAAGGGTGCCACTGAGTTGTGGACTTAAAAGGAAA
1 GTGCCACGGAGTTTATGGACTTAAAAGGAAAAAGGATGCCACAAAGTTGTGGACTTAAAAGGAAA
** * * * *
69324 AAGGGTGCCACTAAGCTGTGGACTTAAAACGAAAAAGGGTGCCATGGAGTTATGGACTT-AAAAG
66 AAAAGTGCCAATAAGCTGTGGACTTAAAACGAAAAAGGCTACAATGGAGTTATGGACTTAAAAAG
** *
69388 AAAAAGGGTGCCAC-AGAGTTGTGGACTTAAAAGGGTGCCACGACGTTGTGGACTTAAACG
131 -AAAA-GACGCCACGA-AGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAACG
69448 GTGCCACGGAGTTTAT-GAGCTTTGAAAA-GAAAAA-GATGCCACAAAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTTATGGA-C-TT-AAAAGGAAAAAGGATGCCACAAAGTTGTGGACTTAAAAGG
* * *
69510 AAAAAAAGTGCCAATAAGTTGTGGACTTAAAAGGAAAAAGGCTACAATGGAGTTGTGGACTTAAA
63 AAAAAAAGTGCCAATAAGCTGTGGACTTAAAACGAAAAAGGCTACAATGGAGTTATGGACTTAAA
* *
69575 AAGAAAAGACGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGTACTTAAAAGG
128 AAGAAAAGACGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTT-AAACG
* ** * * ***
69637 GTACCATAGAG-TTGTGGACTTAAAAAGGAAAAAGGGTGCCATGGAGTTGTGGACTTAAAAG
1 GTGCCACGGAGTTTATGGACTT-AAAAGGAAAAAGGATGCCACAAAGTTGTGGACTTAAAAG
69698 CGTGCCACAA
Statistics
Matches: 214, Mismatches: 27, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
187 6 0.03
188 55 0.26
189 136 0.64
190 13 0.06
191 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (188 bp):
GTGCCACGGAGTTTATGGACTTAAAAGGAAAAAGGATGCCACAAAGTTGTGGACTTAAAAGGAAA
AAAAGTGCCAATAAGCTGTGGACTTAAAACGAAAAAGGCTACAATGGAGTTATGGACTTAAAAAG
AAAAGACGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAACG
Found at i:69569 original size:223 final size:224
Alignment explanation
Indices: 69172--69663 Score: 589
Period size: 223 Copynumber: 2.2 Consensus size: 224
69162 TAGAAAGAGA
* *
69172 TGCCACGGAGTTGTGGAGTTAAAAAGGTGCCACAGAGTTGTGGACTAAAAAGAGTGCCACGAAGT
1 TGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTAAAAAGAGTGCCACGAAGT
** ** *
69237 TATGAGCTTTGAAAAGAAAAATGTGCCACGGAGTTTGTGGACTTAAAAGGAAAAAGGGTGCCACT
66 TATGAGCTTTGAAAAGAAAAATGTGCCACAAAGTTTGTGGACTTAAAAGGAAAAAAAGTGCCAAT
* * * * *
69302 GAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACTAAGCTGTGGACTTAAAACGAAAAAGGGTGCC
131 AAGTTGTGGACTTAAAAGGAAAAAGGCTGACAATAAGCTGTGGACTTAAAAAGAAAAAGGGTGCC
69367 ATGGAGTTATGGACTTAAAAGAAAAAGGG
196 ATGGAGTTATGGACTTAAAAGAAAAAGGG
* * * *
69396 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCAC-GACGTTGTGGACTTAAACG-GTGCCACGGAG
1 TGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGA-GTTGTGGACTAAAAAGAGTGCCACGAAG
69459 TTTATGAGCTTTGAAAAGAAAAA-GATGCCACAAAG-TTGTGGACTTAAAAGGAAAAAAAGTGCC
65 -TTATGAGCTTTGAAAAGAAAAATG-TGCCACAAAGTTTGTGGACTTAAAAGGAAAAAAAGTGCC
* * *
69522 AATAAGTTGTGGACTTAAAAGGAAAAAGGCT-ACAATGGAGTTGTGGACTTAAAAAG-AAAA-GA
128 AATAAGTTGTGGACTTAAAAGGAAAAAGGCTGACAAT-AAGCTGTGGACTTAAAAAGAAAAAGGG
* * * *
69584 CGCCACGAAGTTGTGGACTT------AAAAGGG
192 TGCCATGGAGTTATGGACTTAAAAGAAAAAGGG
* * * *
69611 TGCCAC-GAAGTTGTGTACTTAAAAGGGTACCATAGAGTTGTGGACTTAAAAAG
1 TGCCACAG-AGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGAC-TAAAAAG
69664 GAAAAAGGGT
Statistics
Matches: 233, Mismatches: 28, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
214 1 0.00
215 44 0.19
216 7 0.03
221 17 0.07
222 7 0.03
223 83 0.36
224 74 0.32
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (224 bp):
TGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTAAAAAGAGTGCCACGAAGT
TATGAGCTTTGAAAAGAAAAATGTGCCACAAAGTTTGTGGACTTAAAAGGAAAAAAAGTGCCAAT
AAGTTGTGGACTTAAAAGGAAAAAGGCTGACAATAAGCTGTGGACTTAAAAAGAAAAAGGGTGCC
ATGGAGTTATGGACTTAAAAGAAAAAGGG
Found at i:69616 original size:27 final size:27
Alignment explanation
Indices: 69585--69750 Score: 147
Period size: 27 Copynumber: 5.9 Consensus size: 27
69575 AAGAAAAGAC
69585 GCCACGAAGTTGTGGACTTAAAAGGGT
1 GCCACGAAGTTGTGGACTTAAAAGGGT
*
69612 GCCACGAAGTTGTGTACTTAAAAGGGT
1 GCCACGAAGTTGTGGACTTAAAAGGGT
* *
69639 ACCA-TAGAGTTGTGGACTTAAAAAGGAAAAAGGGT
1 GCCACGA-AGTTGTGGACTT--------AAAAGGGT
* * *
69674 GCCATGGAGTTGTGGACTTAAAAGCGT
1 GCCACGAAGTTGTGGACTTAAAAGGGT
* *
69701 GCCACAAAGTTGTGGACTTAAAAAGGT
1 GCCACGAAGTTGTGGACTTAAAAGGGT
*
69728 GCCACAGAA-TTGTTGACTTAAAA
1 GCCAC-GAAGTTGTGGACTTAAAA
69751 AGAAAAAAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
26 1 0.01
27 87 0.77
28 2 0.02
35 23 0.20
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.23
Consensus pattern (27 bp):
GCCACGAAGTTGTGGACTTAAAAGGGT
Found at i:69672 original size:277 final size:277
Alignment explanation
Indices: 69356--69946 Score: 752
Period size: 277 Copynumber: 2.1 Consensus size: 277
69346 CTTAAAACGA
* * *
69356 AAAAGGGTGCCATGGAGTTATGGACTT-AAAAGAAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
1 AAAAGGGTACCATAGAGTTGTGGACTTAAAAAGAAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
* * * * * * * *
69420 GGGTGCCACGACGTTGTGGACTT-AAACGGTGCCACGGAGTT-TATGAGCTTTGAAAAGAAAAAG
66 GCGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACAGAATTGT-TGA-C-TTAAAAAGAAAAAA
69483 A-TGCCACAAAGTTGTGGACTTAAAAGGAAAAAA-AGTGCCAATA-AGTTGTGGACTTAAAAGGA
128 AGTGCCACAAAGTTGTGGACTTAAAAGGAAAAAAGA-TGCC-ATAGAGTTGTGGACTTAAAA-GA
* *
69545 AAAAGGCTACAATGGAGTTGTGGACTTAAAAAG-AAAAGACG-CCACGAAGTTGTGGACTTAAAA
190 AAAAGGCTACAACGGAGTTGTGGACTTAAAAAGAAAAAGA-GACCACGAAGTTATGGACTTAAAA
*
69608 GG-GTGCCACGAAGTTGTGTACTT
254 GGAGTGCCACGAAGTTGTGGACTT
**
69631 AAAAGGGTACCATAGAGTTGTGGACTTAAAAAGGAAAAAGGGTGCCATGGAGTTGTGGACTTAAA
1 AAAAGGGTACCATAGAGTTGTGGACTTAAAAA-GAAAAAGGGTGCCACAGAGTTGTGGACTTAAA
69696 AGCGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACAGAATTGTTGACTTAAAAAGAAAAAAAG
65 AGCGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACAGAATTGTTGACTTAAAAAGAAAAAAAG
*
69761 TGCCACTAAGTTGTGGACTTAAAAGGAAAAAAGATGCCATAGAGTTGTGGACTTAAAAGAAAAAG
130 TGCCACAAAGTTGTGGACTTAAAAGGAAAAAAGATGCCATAGAGTTGTGGACTTAAAAGAAAAAG
* * * *
69826 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTACCACGAAGTTATGGACTTAAAAGGAAA
195 GCTACAACGGAGTTGTGGACTTAAAAAGAAAAAGAG-ACCACGAAGTTATGGACTTAAAAGG---
* *
69891 AAAGTGCCACGGAGTTGTGGGCTT
256 --AGTGCCACGAAGTTGTGGACTT
* *
69915 AAAAAGGTACCA-CGAAGTTGTGGACTTAAAAA
1 AAAAGGGTACCATAG-AGTTGTGGACTTAAAAA
69947 AATGCCATGG
Statistics
Matches: 274, Mismatches: 25, Indels: 25
0.85 0.08 0.08
Matches are distributed among these distances:
275 24 0.09
276 51 0.19
277 109 0.40
278 42 0.15
279 1 0.00
283 1 0.00
284 46 0.17
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.21
Consensus pattern (277 bp):
AAAAGGGTACCATAGAGTTGTGGACTTAAAAAGAAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
GCGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACAGAATTGTTGACTTAAAAAGAAAAAAAGT
GCCACAAAGTTGTGGACTTAAAAGGAAAAAAGATGCCATAGAGTTGTGGACTTAAAAGAAAAAGG
CTACAACGGAGTTGTGGACTTAAAAAGAAAAAGAGACCACGAAGTTATGGACTTAAAAGGAGTGC
CACGAAGTTGTGGACTT
Found at i:69685 original size:62 final size:62
Alignment explanation
Indices: 69604--69726 Score: 183
Period size: 62 Copynumber: 2.0 Consensus size: 62
69594 TTGTGGACTT
* * * *
69604 AAAAGGGTGCCACGAAGTTGTGTACTTAAAAGGGTACCATAGAGTTGTGGACTTAAAAAGGA
1 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGCGTACCACAAAGTTGTGGACTTAAAAAGGA
* * *
69666 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAGCGTGCCACAAAGTTGTGGACTTAAAAAGG
1 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGCGTACCACAAAGTTGTGGACTTAAAAAGG
69727 TGCCACAGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (62 bp):
AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGCGTACCACAAAGTTGTGGACTTAAAAAGGA
Found at i:69711 original size:89 final size:87
Alignment explanation
Indices: 69545--69785 Score: 288
Period size: 89 Copynumber: 2.7 Consensus size: 87
69535 CTTAAAAGGA
* * * ** *
69545 AAAAGGCTACAATGGAGTTGTGGACTTAAAAAG-AAAAGACGCCACGAAGTTGTGGACTTAAAAG
1 AAAAGGGTACCATAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCATGAAGTTGTGGACTTAAAAG
* * *
69609 GGTGCCACGAAGTTGTGTACTT
66 CGTGCCACAAAGTTGTGGACTT
*
69631 AAAAGGGTACCATAGAGTTGTGGACTTAAAAAGGAAAAAGGGTGCCATGGAGTTGTGGACTTAAA
1 AAAAGGGTACCATAGAGTTGTGGACTTAAAAA-GAAAAA-GGTGCCATGAAGTTGTGGACTTAAA
69696 AGCGTGCCACAAAGTTGTGGACTT
64 AGCGTGCCACAAAGTTGTGGACTT
* * * * * *
69720 AAAAAGGTGCCACAGAATTGTTGACTTAAAAAGAAAAAAAGTGCCACT-AAGTTGTGGACTTAAA
1 AAAAGGGTACCATAGAGTTGTGGACTTAAAAAG-AAAAAGGTGCCA-TGAAGTTGTGGACTTAAA
69784 AG
64 AG
69786 GAAAAAAGAT
Statistics
Matches: 133, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
86 29 0.22
87 1 0.01
88 28 0.21
89 75 0.56
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (87 bp):
AAAAGGGTACCATAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCATGAAGTTGTGGACTTAAAAG
CGTGCCACAAAGTTGTGGACTT
Found at i:69831 original size:67 final size:64
Alignment explanation
Indices: 69720--70038 Score: 259
Period size: 67 Copynumber: 5.0 Consensus size: 64
69710 TTGTGGACTT
* * * **
69720 AAAAAGGTGCCACAGAATTGTTGACTTAAAAAGAAAAAAAGTGCCACTAAGTTGTGGACTTAAAA
1 AAAAAGATGCCA-AGAGTTGTGGACTT-AAAAG-AAAAAAGTGCCACGGAGTTGTGGACTTAAAA
69785 GG
63 GG
*
69787 AAAAAAGATGCCATAGAGTTGTGGACTTAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 -AAAAAGATGCCA-AGAGTTGTGGACTTAAAAGAAAAA-AGTGCCACGGAGTTGTGGACTTAAAA
69852 GG
63 GG
* * * *
69854 AAAAAGAGTACCACGAAGTTATGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTT----
1 AAAAAGA-TGCCAAG-AGTTGTGGACTTAAAA-GAAAAAAGTGCCACGGAGTTGTGGACTTAAAA
69915 --
63 GG
* * * * *
69915 AAAAAGGTACCACGAAGTTGTGGACTT---A-AAAAAA-TGCCATGGAGTTTGTGGACTTAAAAA
1 AAAAAGATGCCAAG-AGTTGTGGACTTAAAAGAAAAAAGTGCCACGGAG-TTGTGGACTTAAAAG
69975 G
64 G
* * *
69976 -AAAA-ATGCCACAAAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGACTTAAAA
1 AAAAAGATGCCA-AGAGTTGTGGACTTAAAA-GAAAAA-AGTGCCACGGAGTTGTGGACTTAAAA
70039 AGGTGCCACA
Statistics
Matches: 209, Mismatches: 23, Indels: 41
0.77 0.08 0.15
Matches are distributed among these distances:
54 9 0.04
55 15 0.07
57 1 0.00
59 15 0.07
60 23 0.11
61 6 0.03
62 1 0.00
64 5 0.02
65 14 0.07
66 22 0.11
67 69 0.33
68 29 0.14
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.20
Consensus pattern (64 bp):
AAAAAGATGCCAAGAGTTGTGGACTTAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:69946 original size:28 final size:28
Alignment explanation
Indices: 69854--69974 Score: 84
Period size: 27 Copynumber: 4.1 Consensus size: 28
69844 ACTTAAAAGG
*
69854 AAAAAGAGTACCACGAAGTTATGGACTTAAAA
1 AAAAAG-GTACCACGAAGTTGTGGACTT---A
* * * *
69886 GGAAAAAAGTGCCACGGAGTTGTGGGCTT-
1 --AAAAAGGTACCACGAAGTTGTGGACTTA
69915 AAAAAGGTACCACGAAGTTGTGGACTTA
1 AAAAAGGTACCACGAAGTTGTGGACTTA
* * * *
69943 AAAAA-ATGCCATGGAGTTTGTGGACTTA
1 AAAAAGGTACCACGAAG-TTGTGGACTTA
69971 AAAA
1 AAAA
69975 GAAAAATGCC
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
27 30 0.42
28 20 0.28
33 17 0.24
34 5 0.07
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (28 bp):
AAAAAGGTACCACGAAGTTGTGGACTTA
Found at i:70046 original size:27 final size:27
Alignment explanation
Indices: 69888--70061 Score: 105
Period size: 27 Copynumber: 6.0 Consensus size: 27
69878 ACTTAAAAGG
* * *
69888 AAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACGGAGTTATGGACTT
* * *
69915 AAAAAGGTACCACGAAGTTGTGGACTT
1 AAAAAGGTGCCACGGAGTTATGGACTT
** * *
69942 AAAAAAATGCCATGGAGTTTGTGGACTT
1 AAAAAGGTGCCACGGAG-TTATGGACTT
* **
69970 AAAAAGAAAAATGCCACAAAGTTATGGACTT
1 AAAAAG----GTGCCACGGAGTTATGGACTT
70001 AAAAGGAAAAAGAGTGCCACGGAGTTATGGACTT
1 ------AAAAAG-GTGCCACGGAGTTATGGACTT
* *
70035 AAAAAGGTGCCACAGAGTTATGAACTT
1 AAAAAGGTGCCACGGAGTTATGGACTT
70062 TAAAGGAAAA
Statistics
Matches: 117, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
27 54 0.46
28 21 0.18
31 9 0.08
32 8 0.07
34 19 0.16
37 6 0.05
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (27 bp):
AAAAAGGTGCCACGGAGTTATGGACTT
Found at i:70093 original size:61 final size:61
Alignment explanation
Indices: 69854--70095 Score: 167
Period size: 61 Copynumber: 4.0 Consensus size: 61
69844 ACTTAAAAGG
* * * * * * *
69854 AAAAAGAGTACCACGAAGTTATGGACTTAAAAGGAAAAA-AGTGCCACGGAGTTGTGGGCTT
1 AAAAAG-GTGCCACAAAGTTATGAACTTAAAAGGAAAAAGAATGCCACGAAGTTATGGACTT
* * * * * * *
69915 AAAAAGGTACCACGAAGTTGTGGACTT------AAAAA-AATGCCATGGAGTTTGTGGACTT
1 AAAAAGGTGCCACAAAGTTATGAACTTAAAAGGAAAAAGAATGCCACGAAG-TTATGGACTT
* * * *
69970 AAAAAGAAAAATGCCACAAAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGACTT
1 AAAAAG----GTGCCACAAAGTTATGAACTTAAAAGGAAAAAGAATGCCACGAAGTTATGGACTT
* * ** *
70035 AAAAAGGTGCCACAGAGTTATGAACTTTAAAGGAAAAAGAATGGTACGAAGTTGTGGACTT
1 AAAAAGGTGCCACAAAGTTATGAACTTAAAAGGAAAAAGAATGCCACGAAGTTATGGACTT
70096 TGAAGAAAAT
Statistics
Matches: 149, Mismatches: 20, Indels: 24
0.77 0.10 0.12
Matches are distributed among these distances:
54 15 0.10
55 15 0.10
59 17 0.11
60 20 0.13
61 52 0.35
65 20 0.13
66 10 0.07
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (61 bp):
AAAAAGGTGCCACAAAGTTATGAACTTAAAAGGAAAAAGAATGCCACGAAGTTATGGACTT
Found at i:70134 original size:33 final size:33
Alignment explanation
Indices: 70097--70185 Score: 117
Period size: 33 Copynumber: 2.7 Consensus size: 33
70087 TGTGGACTTT
*
70097 GAAGAAAATGGATGCCACTAAGTCAT-GAACTGG
1 GAAGAAAAAGGATGCCACTAAGTCATGGAA-TGG
* **
70130 GAAGAAAAAGGATGCCACTGAGTCATGGAATTT
1 GAAGAAAAAGGATGCCACTAAGTCATGGAATGG
*
70163 GAAGAAAAAGGATGCCATTAAGT
1 GAAGAAAAAGGATGCCACTAAGT
70186 AGTGGACTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
33 46 0.94
34 3 0.06
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (33 bp):
GAAGAAAAAGGATGCCACTAAGTCATGGAATGG
Found at i:74124 original size:97 final size:97
Alignment explanation
Indices: 73912--74125 Score: 288
Period size: 97 Copynumber: 2.2 Consensus size: 97
73902 TTTTTGATTG
* * * * * *
73912 AAAAACGAGGTTAGAGTATCTCCTCGGAGGAGTGGGGATGGAGTGTCCCCGATGATGACAATTTA
1 AAAAGCGAGGTTAGAGTATCCCCTCAGAGAAATGGGGATGGAGTGTCCCCGATGATAACAATTTA
* *
73977 AGCGAGAATAAGATTTAAACTTTGATGAGTTT
66 AGCGAGAATAAGATTTAAACTCTAATGAGTTT
* ** *
74009 AAAAGTGAGGTT-GCAGTATCCCCTCAGAGAAATGGGTTTGGAGTGTCCCCGATGATAATAATTT
1 AAAAGCGAGGTTAG-AGTATCCCCTCAGAGAAATGGGGATGGAGTGTCCCCGATGATAACAATTT
74073 AAGCGAGAATAAGATTTAAACTCTAATGAGTTT
65 AAGCGAGAATAAGATTTAAACTCTAATGAGTTT
74106 AAAAGCG-GGATTAGAGTATC
1 AAAAGCGAGG-TTAGAGTATC
74126 AATAAAATTT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
96 3 0.03
97 97 0.96
98 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.27
Consensus pattern (97 bp):
AAAAGCGAGGTTAGAGTATCCCCTCAGAGAAATGGGGATGGAGTGTCCCCGATGATAACAATTTA
AGCGAGAATAAGATTTAAACTCTAATGAGTTT
Found at i:75286 original size:2 final size:2
Alignment explanation
Indices: 75281--75317 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
75271 GAGATGTTCA
*
75281 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75318 AATAAAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:76547 original size:11 final size:9
Alignment explanation
Indices: 76518--76560 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
76508 CAGGCCACTC
*
76518 ATTTTTTCT
1 ATTTTTTAT
76527 ATTTTTTAT
1 ATTTTTTAT
*
76536 -TTTATATAT
1 ATTT-TTTAT
76545 ATTTTTTAT
1 ATTTTTTAT
76554 ATTTTTT
1 ATTTTTT
76561 TGTCTCTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.10
9 23 0.79
10 3 0.10
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:77398 original size:19 final size:18
Alignment explanation
Indices: 77374--77437 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
77364 TAGCCAAACT
77374 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
77393 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
77406 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
77425 TTGTATCGATACA
1 -TGTATCGATACA
77438 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:77410 original size:13 final size:13
Alignment explanation
Indices: 77392--77417 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77382 TACACAAAAT
77392 ATGTATCGATACA
1 ATGTATCGATACA
77405 ATGTATCGATACA
1 ATGTATCGATACA
77418 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:77415 original size:32 final size:33
Alignment explanation
Indices: 77374--77437 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
77364 TAGCCAAACT
*
77374 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
77406 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
77438 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:85902 original size:20 final size:19
Alignment explanation
Indices: 85848--85902 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
85838 AAAACCCTTA
*
85848 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
85868 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
85888 AATGTATCGATACAT
1 AAAGTATCGATACAT
85903 CAAAAAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:85979 original size:19 final size:18
Alignment explanation
Indices: 85955--86018 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
85945 TAGCCAAACT
85955 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
85974 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
85987 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
86006 TTGTATCGATACA
1 -TGTATCGATACA
86019 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:85991 original size:13 final size:13
Alignment explanation
Indices: 85973--85998 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85963 TACACAAAAT
85973 ATGTATCGATACA
1 ATGTATCGATACA
85986 ATGTATCGATACA
1 ATGTATCGATACA
85999 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:85996 original size:32 final size:33
Alignment explanation
Indices: 85955--86018 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
85945 TAGCCAAACT
*
85955 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
85987 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
86019 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:101351 original size:21 final size:21
Alignment explanation
Indices: 101312--101351 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
101302 GTTTTATGTA
**
101312 AATGTTTTCAAGTCTAAATTG
1 AATGTTTTCAAGTAAAAATTG
101333 AATGTTTTCAAGTAAAAAT
1 AATGTTTTCAAGTAAAAAT
101352 AAACTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (21 bp):
AATGTTTTCAAGTAAAAATTG
Found at i:101506 original size:19 final size:20
Alignment explanation
Indices: 101482--101535 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
101472 ATCAATACAA
*
101482 TGTATCGATACATGCTC-AT
1 TGTATCGATACATACTCAAT
101501 TGTATCGATACATACTCAAT
1 TGTATCGATACATACTCAAT
*
101521 TGTATCAATACATAC
1 TGTATCGATACATAC
101536 CCTAAGTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATACTCAAT
Found at i:104615 original size:13 final size:13
Alignment explanation
Indices: 104597--104621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104587 ACACACAGTA
104597 TGTATCGATACAT
1 TGTATCGATACAT
104610 TGTATCGATACA
1 TGTATCGATACA
104622 CAATAAAATG
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:104618 original size:32 final size:33
Alignment explanation
Indices: 104577--104641 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
104567 GTAGCCAAAC
**
104577 TTGTATCGATACAC-ACAGTATGTATCGATACA
1 TTGTATCGATACACAACAAAATGTATCGATACA
*
104609 TTGTATCGATACACAATAAAATGTATCGATACA
1 TTGTATCGATACACAACAAAATGTATCGATACA
104642 GTGGCTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (33 bp):
TTGTATCGATACACAACAAAATGTATCGATACA
Found at i:105895 original size:19 final size:19
Alignment explanation
Indices: 105871--105938 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
105861 AATTCAACAA
105871 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
105890 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
105905 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
105922 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
105939 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:105910 original size:13 final size:13
Alignment explanation
Indices: 105892--105916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105882 ACATAAGTTT
105892 TGTATCGATACAA
1 TGTATCGATACAA
105905 TGTATCGATACA
1 TGTATCGATACA
105917 TAAGTATTGT
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:105914 original size:32 final size:32
Alignment explanation
Indices: 105873--105935 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
105863 TTCAACAATT
*
105873 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
105905 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
105936 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:105996 original size:13 final size:13
Alignment explanation
Indices: 105978--106003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105968 CATTTTTCTG
105978 TGTATCGATACAT
1 TGTATCGATACAT
105991 TGTATCGATACAT
1 TGTATCGATACAT
106004 GGATCTTTGT
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:106000 original size:33 final size:33
Alignment explanation
Indices: 105958--106024 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
105948 GCCAAGGAAA
***
105958 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
105991 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
106024 T
1 T
106025 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:108544 original size:28 final size:27
Alignment explanation
Indices: 108477--108545 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
108467 CTTCACAATC
**
108477 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
108504 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
108532 GGGGATACTCCAAC
1 GGGGATACTCCAAC
108546 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:108658 original size:51 final size:52
Alignment explanation
Indices: 108366--108702 Score: 208
Period size: 51 Copynumber: 6.4 Consensus size: 52
108356 TTAATTCTCC
* *
108366 ACAATCGTGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATTT-TCT
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTCT-T
* * * *
108417 ATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAAACACTAATTTCTT
* * ** ** * * * ***
108470 CACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTT
1 -ACAATCGGGGATACTCCAACTCCGATTTTATTTTC--AAAAACACTAATTTC-TT
** * ** *
108524 A-TTTCCGAGGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTT-TT
1 ACAAT-C--GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTCTT
* *
108576 CCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAGACACTAATTT-TCT
1 --ACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAAACACTAATTTCT-T
* * *
108629 ATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAAACACTAATTTCTT
108682 CACAATCGGGGATACTCCAAC
1 -ACAATCGGGGATACTCCAAC
108703 CCCGTTATTT
Statistics
Matches: 217, Mismatches: 47, Indels: 41
0.71 0.15 0.13
Matches are distributed among these distances:
51 61 0.28
52 44 0.20
53 38 0.18
54 52 0.24
55 18 0.08
56 1 0.00
57 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (52 bp):
ACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTCTT
Found at i:108693 original size:105 final size:104
Alignment explanation
Indices: 108360--108701 Score: 338
Period size: 105 Copynumber: 3.2 Consensus size: 104
108350 AGTTTATTAA
* * * * *
108360 TTCTCCACAATCGTGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGG
1 TTCTTCACAATCGGGGATACTCCAA-TCCGGTTTTATTTTCAAGACACTAATTTTCTATAATCGG
*
108425 GGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
65 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
* * * ** ** * *** *
108465 TTCTTCACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA-CCCCGT-TATT
1 TTCTTCACAATCGGGGATACTCCAATCCGGTTTTATTTTC-AAGACACT--AATTTTC-TATA-A
* * *
108527 TCCGAGGGGATACTCCAACTCCGGTTTTA--TCGC-TAAAACACTAAT
61 T-C--GGGGATACTCCAACTCCGATTTTATTTC-CAAAAAACACCAAT
108572 TT-TTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAGACACTAATTTTCTATAATCG
1 TTCTT-CACAATCGGGGATACTCCAATCC-GGTTTTATTTTCAAGACACTAATTTTCTATAATCG
108636 GGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
64 GGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
108677 TTCTTCACAATCGGGGATACTCCAA
1 TTCTTCACAATCGGGGATACTCCAA
108702 CCCCGTTATT
Statistics
Matches: 183, Mismatches: 36, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
103 29 0.16
104 7 0.04
105 60 0.33
106 12 0.07
107 40 0.22
108 7 0.04
109 28 0.15
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (104 bp):
TTCTTCACAATCGGGGATACTCCAATCCGGTTTTATTTTCAAGACACTAATTTTCTATAATCGGG
GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
Found at i:108734 original size:82 final size:80
Alignment explanation
Indices: 108635--108810 Score: 253
Period size: 80 Copynumber: 2.2 Consensus size: 80
108625 TTCTATAATC
*
108635 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TTCACAATCGAGGATACTCC
108700 AACCCCGTTATTTCCGA
64 AACCCCGTTATTTCCGA
* * * *
108717 GGGGATACTCTAACTCCGATTTTATTTCCAAAAATACCAATTTTTCATAGTCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
* ***
108782 CCTCGTTATTTCATC
66 CCCCGTTATTTCCGA
108797 GGGGATACTCCAAC
1 GGGGATACTCCAAC
108811 CCCGTTACTT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 43 0.51
81 13 0.15
82 28 0.33
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (80 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
CCCCGTTATTTCCGA
Found at i:108804 original size:28 final size:28
Alignment explanation
Indices: 108771--108842 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
108761 TCATAGTCGA
* * **
108771 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
108799 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
108827 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
108843 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:113086 original size:16 final size:16
Alignment explanation
Indices: 113050--113086 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
113040 GATAAAAATG
*
113050 TCCAAATTGAAGAAGC
1 TCCAAAATGAAGAAGC
113066 T-CAAAATGAAGAAGC
1 TCCAAAATGAAGAAGC
113081 TCCAAA
1 TCCAAA
113087 CGAAATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (16 bp):
TCCAAAATGAAGAAGC
Found at i:115185 original size:13 final size:13
Alignment explanation
Indices: 115167--115202 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
115157 GCATTCTTTA
*
115167 TATCGATACATTG
1 TATCGATACACTG
115180 TATCGATACACTG
1 TATCGATACACTG
115193 TATCGATACA
1 TATCGATACA
115203 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACACTG
Found at i:115328 original size:21 final size:21
Alignment explanation
Indices: 115302--115353 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
115292 CTTCCATTAT
115302 CAAAATTCTTCAAATCTTTTG
1 CAAAATTCTTCAAATCTTTTG
115323 CAAAATTCTTCAAATCTTTTG
1 CAAAATTCTTCAAATCTTTTG
115344 CAAAATTCTT
1 CAAAATTCTT
115354 GTTTTTCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (21 bp):
CAAAATTCTTCAAATCTTTTG
Found at i:115389 original size:20 final size:20
Alignment explanation
Indices: 115354--115394 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
115344 CAAAATTCTT
115354 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
115376 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
115395 TTCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:117117 original size:95 final size:95
Alignment explanation
Indices: 116954--117140 Score: 347
Period size: 95 Copynumber: 2.0 Consensus size: 95
116944 AAGGGGAGAA
* **
116954 AAATATGTGCAAATAAATTTTTGATTAAGGGGGAGAAAGAGATAAGTGCTTATGATTAAAGGTTG
1 AAATATGTGCAAATAAATTTTTGACTAAGGGGGAGAAAGAGATAAGTGCTTATGATTAAAGGGGG
117019 AGAATGCGAATTTGTTTAAATTACCTTGAG
66 AGAATGCGAATTTGTTTAAATTACCTTGAG
117049 AAATATGTGCAAATAAATTTTTGACTAAGGGGGAGAAAGAGATAAGTGCTTATGATTAAAGGGGG
1 AAATATGTGCAAATAAATTTTTGACTAAGGGGGAGAAAGAGATAAGTGCTTATGATTAAAGGGGG
117114 AGAATGCGAATTTGTTTAAATTACCTT
66 AGAATGCGAATTTGTTTAAATTACCTT
117141 CTTAAGGGGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 89 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (95 bp):
AAATATGTGCAAATAAATTTTTGACTAAGGGGGAGAAAGAGATAAGTGCTTATGATTAAAGGGGG
AGAATGCGAATTTGTTTAAATTACCTTGAG
Found at i:117157 original size:37 final size:37
Alignment explanation
Indices: 117107--117191 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
117097 CTTATGATTA
*
117107 AAGGGGGAGAATGCGAATTTGTTTAAATTACCTTCTT
1 AAGGGGGAGAATGCGAATTTGTTTAAATTACCTTATT
117144 AAGGGGGAGAATGCGAATTTGTTTAAATTACCTTATT
1 AAGGGGGAGAATGCGAATTTGTTTAAATTACCTTATT
*
117181 AAGGGGAAGAA
1 AAGGGGGAGAA
117192 ATGTTTGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (37 bp):
AAGGGGGAGAATGCGAATTTGTTTAAATTACCTTATT
Found at i:117870 original size:13 final size:13
Alignment explanation
Indices: 117852--117876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117842 ACACACAGTA
117852 TGTATCGATACAT
1 TGTATCGATACAT
117865 TGTATCGATACA
1 TGTATCGATACA
117877 CCATAAAATG
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:117873 original size:32 final size:33
Alignment explanation
Indices: 117832--117896 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
117822 GTAGCCAAAC
**
117832 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
117864 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
117897 GTGGCTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:121826 original size:34 final size:34
Alignment explanation
Indices: 121769--121838 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
121759 AACTCTCTTT
* * *
121769 TTATATTTTCTAAGCTTAGATATAACCTCTTTAC
1 TTATATTTTCCAAGATTAAATATAACCTCTTTAC
*
121803 TTATCTTTTCCAAGATTAAATATAACCTCTTTAC
1 TTATATTTTCCAAGATTAAATATAACCTCTTTAC
121837 TT
1 TT
121839 TCTAGGCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (34 bp):
TTATATTTTCCAAGATTAAATATAACCTCTTTAC
Found at i:123162 original size:13 final size:13
Alignment explanation
Indices: 123144--123170 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
123134 TCATTATGCT
123144 TTGTATCGATACA
1 TTGTATCGATACA
123157 TTGTATCGATACA
1 TTGTATCGATACA
123170 T
1 T
123171 GAAATTGGCA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:123233 original size:20 final size:20
Alignment explanation
Indices: 123208--123266 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
123198 GTTTGCATCA
123208 ATACATGGTACAATGTATCG
1 ATACATGGTACAATGTATCG
123228 ATACA---T----TGTATCG
1 ATACATGGTACAATGTATCG
123241 ATACATGGTACAATGTATCG
1 ATACATGGTACAATGTATCG
123261 ATACAT
1 ATACAT
123267 TGTATCGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 12 0.38
16 1 0.03
17 1 0.03
20 18 0.56
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (20 bp):
ATACATGGTACAATGTATCG
Found at i:123237 original size:13 final size:13
Alignment explanation
Indices: 123216--123279 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
123206 CAATACATGG
*
123216 TACAATGTATCGA
1 TACATTGTATCGA
123229 TACATTGTATCGA
1 TACATTGTATCGA
123242 TACA-TG----G-
1 TACATTGTATCGA
*
123249 TACAATGTATCGA
1 TACATTGTATCGA
123262 TACATTGTATCGA
1 TACATTGTATCGA
123275 TACAT
1 TACAT
123280 GATGAATTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
12 3 0.07
13 33 0.77
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:123246 original size:33 final size:33
Alignment explanation
Indices: 123208--123300 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
123198 GTTTGCATCA
123208 ATACATGGTACAATGTATCGATACATTGTATCG
1 ATACATGGTACAATGTATCGATACATTGTATCG
123241 ATACATGGTACAATGTATCGATACATTGTATCG
1 ATACATGGTACAATGTATCGATACATTGTATCG
* *
123274 ATACATGATGA-ATTGTATCGATACATT
1 ATACATGGT-ACAATGTATCGATACATT
123301 ACTTATAACG
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 56 0.98
34 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
ATACATGGTACAATGTATCGATACATTGTATCG
Found at i:129475 original size:13 final size:13
Alignment explanation
Indices: 129457--129483 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
129447 ACAATATTCC
129457 TTGTATCGATACA
1 TTGTATCGATACA
129470 TTGTATCGATACA
1 TTGTATCGATACA
129483 T
1 T
129484 GGGTTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:129927 original size:20 final size:20
Alignment explanation
Indices: 129902--129948 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
129892 GCAACCATCT
*
129902 CCAGGTTACGATCGGCACTC
1 CCAGGTCACGATCGGCACTC
129922 CCAGGTCACGATCGGCACTC
1 CCAGGTCACGATCGGCACTC
129942 CCAGGTC
1 CCAGGTC
129949 GCAACCAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.38, G:0.26, T:0.17
Consensus pattern (20 bp):
CCAGGTCACGATCGGCACTC
Found at i:131380 original size:22 final size:22
Alignment explanation
Indices: 131355--131396 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
131345 TTTTTAAAGA
131355 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
131377 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
131397 ATGTTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:132091 original size:13 final size:13
Alignment explanation
Indices: 132073--132108 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
132063 ATTCTTCATG
132073 TATCGATACAATA
1 TATCGATACAATA
*
132086 TATCGATACAATG
1 TATCGATACAATA
132099 TATCGATACA
1 TATCGATACA
132109 TTGTCCCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:132716 original size:42 final size:42
Alignment explanation
Indices: 132547--132719 Score: 136
Period size: 42 Copynumber: 4.1 Consensus size: 42
132537 TGGAGATGAT
* * * * * *
132547 TTTATCCTTCGTCTGCCCGTTGGCTTAGACCCGAGAGATTTC
1 TTTATCATTCATCTACCCGTCGACTTAGACCCGAGAGACTTC
* * * * * * *
132589 -TTACGCTTTCGTCTACCCGTC-ACTCAGACTCGTGAAACTTC
1 TTTA-TCATTCATCTACCCGTCGACTTAGACCCGAGAGACTTC
* * * * * *
132630 TTAATCTTTCATCTGCCCATTGGCTTAGACCCGAGAGACTTC
1 TTTATCATTCATCTACCCGTCGACTTAGACCCGAGAGACTTC
132672 TTTATCATTCATCTACCCGTCGACTTAGACCCCG-GAGACTTC
1 TTTATCATTCATCTACCCGTCGACTTAGA-CCCGAGAGACTTC
132714 TTTATC
1 TTTATC
132720 TTTTGTTTGT
Statistics
Matches: 100, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
41 29 0.29
42 67 0.67
43 4 0.04
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (42 bp):
TTTATCATTCATCTACCCGTCGACTTAGACCCGAGAGACTTC
Found at i:132907 original size:42 final size:42
Alignment explanation
Indices: 132625--133147 Score: 165
Period size: 42 Copynumber: 12.5 Consensus size: 42
132615 GACTCGTGAA
* ** * * *
132625 ACTTCTTAATCTTTCATCTGCCCATTGGCTTAGACCCGAGAG
1 ACTTCTTTATCTTTTGTCTGCCTATCGGCTTAGACCTGAGAG
* ** * ** * *
132667 ACTTCTTTATCATTCATCTACCCGTCGACTTAGACCCCG-GAG
1 ACTTCTTTATCTTTTGTCTGCCTATCGGCTTAGA-CCTGAGAG
* * * * ** *
132709 ACTTCTTTATCTTTTGTTTGTCTGTCAGCTTAGAAGTAAGAG
1 ACTTCTTTATCTTTTGTCTGCCTATCGGCTTAGACCTGAGAG
* * * * * * * ** * *
132751 ACTTCTTCATTTTTTTTTTCTGCCCATCAGCTCAAATTTGAAAA
1 ACTTCTT--TATCTTTTGTCTGCCTATCGGCTTAGACCTGAGAG
* ** ** **
132795 ACTTCCTT-T-TTTTGTCTGCCCGTCGAATTAGACCCAAGAG
1 ACTTCTTTATCTTTTGTCTGCCTATCGGCTTAGACCTGAGAG
* ** * *
132835 ACTTCTTAATCTTTCATCT-ACTCATAGGCTTAGACCTGAGAG
1 ACTTCTTTATCTTTTGTCTGCCT-ATCGGCTTAGACCTGAGAG
* * * *
132877 ACTTCTTCATCTTTTGTTTGCCTGTCGGCTTAGACC-CAGAAG
1 ACTTCTTTATCTTTTGTCTGCCTATCGGCTTAGACCTGAG-AG
* * **
132919 ACTTCTTTATCTTTCGTCTTTCCGT-T-AACTTAGA-CTCGAGAG
1 ACTTCTTTATCTTTTGTC-TGCC-TATCGGCTTAGACCT-GAGAG
* * * * *
132961 ACTTTTTTATCTTTTATCTGCCTGTCGG-TTCA-AACTCGAGAA
1 ACTTCTTTATCTTTTGTCTGCCTATCGGCTT-AGACCT-GAGAG
* * * * * *
133003 ACTTCTTCATTTTTTGTCCGCCCATCGACTTAGACCT-AGGAA
1 ACTTCTTTATCTTTTGTCTGCCTATCGGCTTAGACCTGA-GAG
** * * *
133045 ACTT-TTTAATCTTTCATTTACCTATCGACTTAGACCTG-GTAG
1 ACTTCTTT-ATCTTTTGTCTGCCTATCGGCTTAGACCTGAG-AG
* * * *
133087 ACTTCTTAATCTTTTGTCTGCCCATCAGCTTAGA-CTCGGGAG
1 ACTTCTTTATCTTTTGTCTGCCTATCGGCTTAGACCT-GAGAG
*
133129 ACTTTTTTATCTTTTGTCT
1 ACTTCTTTATCTTTTGTCT
133148 ACTGTAGACA
Statistics
Matches: 346, Mismatches: 109, Indels: 52
0.68 0.21 0.10
Matches are distributed among these distances:
40 25 0.07
41 19 0.05
42 254 0.73
43 20 0.06
44 28 0.08
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (42 bp):
ACTTCTTTATCTTTTGTCTGCCTATCGGCTTAGACCTGAGAG
Found at i:133034 original size:84 final size:83
Alignment explanation
Indices: 132946--133149 Score: 191
Period size: 84 Copynumber: 2.4 Consensus size: 83
132936 CTTTCCGTTA
* * *
132946 ACTTAGACTCGAGAGACTTTTTTATCTTTTATCTGCCTGTCG-GTTCAAA-CTCGAG-AAACTTC
1 ACTTAGACTCGAGAGACTTTTTTATCTTTTATCTACCTATCGACTT-AAACCT-G-GTAAACTTC
* *
133008 TTCATTTTTTGTCCGCCCATC
63 TTAATCTTTTGTCCGCCCATC
* * * * * * *
133029 GACTTAGAC-CTAGGAAACTTTTTAATCTTTCATTTACCTATCGACTTAGACCTGGTAGACTTCT
1 -ACTTAGACTCGA-GAGACTTTTTTATCTTTTATCTACCTATCGACTTAAACCTGGTAAACTTCT
*
133093 TAATCTTTTGTCTGCCCATC
64 TAATCTTTTGTCCGCCCATC
* *
133113 AGCTTAGACTCGGGAGACTTTTTTATCTTTTGTCTAC
1 A-CTTAGACTCGAGAGACTTTTTTATCTTTTATCTAC
133150 TGTAGACACC
Statistics
Matches: 94, Mismatches: 20, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
83 4 0.04
84 85 0.90
85 5 0.05
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (83 bp):
ACTTAGACTCGAGAGACTTTTTTATCTTTTATCTACCTATCGACTTAAACCTGGTAAACTTCTTA
ATCTTTTGTCCGCCCATC
Found at i:140485 original size:16 final size:14
Alignment explanation
Indices: 140459--140499 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 14
140449 CTCAAAAGTG
*
140459 CAAAAAAAAAAAAA
1 CAAAAACAAAAAAA
140473 CAACAACACAAAAAAA
1 CAA-AA-ACAAAAAAA
140489 CAAAAACAAAA
1 CAAAAACAAAA
140500 CCAAGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 11 0.46
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (14 bp):
CAAAAACAAAAAAA
Found at i:140789 original size:9 final size:9
Alignment explanation
Indices: 140775--140819 Score: 63
Period size: 9 Copynumber: 4.8 Consensus size: 9
140765 CTCAACACAC
140775 AAAAAAACA
1 AAAAAAACA
*
140784 AAAAAAGAAA
1 AAAAAA-ACA
140794 GAAAAAAACA
1 -AAAAAAACA
140804 AAAAAAACA
1 AAAAAAACA
140813 AAAAAAA
1 AAAAAAA
140820 AGAGAGAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 22 0.69
10 4 0.12
11 6 0.19
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:140806 original size:17 final size:17
Alignment explanation
Indices: 140773--140818 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 17
140763 TTCTCAACAC
140773 ACAAAAAAACAAAAAAAGAA
1 ACAAAAAAAC--AAAAA-AA
*
140793 AGAAAAAAACAAAAAAA
1 ACAAAAAAACAAAAAAA
140810 ACAAAAAAA
1 ACAAAAAAA
140819 AAGAGAGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 5 0.21
20 9 0.38
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (17 bp):
ACAAAAAAACAAAAAAA
Found at i:140818 original size:20 final size:20
Alignment explanation
Indices: 140775--140820 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
140765 CTCAACACAC
*
140775 AAAAAAACAAAAAAAGAAAG
1 AAAAAAACAAAAAAAGAAAA
140795 AAAAAAACAAAAAAA-ACAAA
1 AAAAAAACAAAAAAAGA-AAA
140815 AAAAAA
1 AAAAAA
140821 GAGAGAGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (20 bp):
AAAAAAACAAAAAAAGAAAA
Found at i:141933 original size:13 final size:13
Alignment explanation
Indices: 141882--141906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141872 TTCAACAATT
141882 TGTATCGATACAA
1 TGTATCGATACAA
141895 TGTATCGATACA
1 TGTATCGATACA
141907 TAAGTGTCGT
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:141978 original size:20 final size:20
Alignment explanation
Indices: 141953--141991 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
141943 TACTACCAAG
141953 GAAATGTATCAATACATTAC
1 GAAATGTATCAATACATTAC
*
141973 GAAATGTATCGATACATTA
1 GAAATGTATCAATACATTA
141992 TATTAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
GAAATGTATCAATACATTAC
Found at i:146225 original size:52 final size:52
Alignment explanation
Indices: 146093--146232 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 52
146083 AAAAGTTGTT
* **
146093 TGCATGTATCGATACACTGATCTTTGTATCGATACATCTAGGCAAATTTGCC
1 TGCATGTATCGATACAATGATCAATGTATCGATACATCTAGGCAAATTTGCC
* * *
146145 TGCATGTATCGATACATTTTAT-AATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-ATGATCAATGTATCGATACATCTAGGCAAATTTGCC
* *
146197 TGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TGCATGTATCGATACAATGATCAATGTATCGATACA
146233 ATGTATCGAT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.03
52 72 0.94
53 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACAATGATCAATGTATCGATACATCTAGGCAAATTTGCC
Found at i:146239 original size:13 final size:13
Alignment explanation
Indices: 146221--146245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
146211 CAAAGATCAG
146221 TGTATCGATACAA
1 TGTATCGATACAA
146234 TGTATCGATACA
1 TGTATCGATACA
146246 TTTGAGTAAT
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:146328 original size:13 final size:13
Alignment explanation
Indices: 146310--146334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
146300 AAAAAAAATA
146310 TGTATCGATACAT
1 TGTATCGATACAT
146323 TGTATCGATACA
1 TGTATCGATACA
146335 ACATTTTACG
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:146433 original size:21 final size:21
Alignment explanation
Indices: 146392--146433 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
146382 GTTGGGACCT
*
146392 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
146413 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
146434 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:147850 original size:27 final size:27
Alignment explanation
Indices: 147819--147883 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
147809 TTCATCGAGG
147819 ACACTCCAACCTCATTCCTCCGAGGGA
1 ACACTCCAACCTCATTCCTCCGAGGGA
147846 ACACTCCAACCTCATTCCTCCGAGGGA
1 ACACTCCAACCTCATTCCTCCGAGGGA
147873 ACACTCCAACC
1 ACACTCCAACC
147884 CCGTTTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.43, G:0.12, T:0.17
Consensus pattern (27 bp):
ACACTCCAACCTCATTCCTCCGAGGGA
Found at i:149060 original size:42 final size:42
Alignment explanation
Indices: 148999--149122 Score: 119
Period size: 42 Copynumber: 3.0 Consensus size: 42
148989 TCTTTTATTC
* * * *
148999 TTCGTCTACCCGTCAGCTCAGACTTGGGAGACTT-TCCTATCA
1 TTCGTCTGCCAGTCGGCTCAGACTTAGGAGACTTCT-CTATCA
* * *
149041 TTCGTCTGCCTA-TCGGCTCATACCTAGGAGACTTCTTTATCA
1 TTCGTCTGCC-AGTCGGCTCAGACTTAGGAGACTTCTCTATCA
* * *
149083 TTCGTCTGTCAGTCGGCTCAGAC-TAAGAGACTTCTTTATC
1 TTCGTCTGCCAGTCGGCTCAGACTTAGGAGACTTCTCTATC
149123 TTTTTATTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
41 17 0.25
42 51 0.74
43 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (42 bp):
TTCGTCTGCCAGTCGGCTCAGACTTAGGAGACTTCTCTATCA
Found at i:149819 original size:20 final size:22
Alignment explanation
Indices: 149746--149825 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 22
149736 TTCTGGAAAG
* *
149746 AAATTATATCAATACATAAC-T
1 AAATTATATCGATACATTACTT
* *
149767 GAA-TGTATCGATACATTACTT
1 AAATTATATCGATACATTACTT
*
149788 AAATTGTATCGATACATTA-TT
1 AAATTATATCGATACATTACTT
*
149809 -CATTATATCGATACATT
1 AAATTATATCGATACATT
149826 CTGGGTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 28 0.56
21 7 0.14
22 15 0.30
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (22 bp):
AAATTATATCGATACATTACTT
Found at i:153240 original size:20 final size:20
Alignment explanation
Indices: 153166--153237 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
153156 AAAAAGACAT
*
153166 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
* * *
153186 AATATATCGATACATTCATA
1 AATGTATCGATACATTGAAA
* *
153206 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
153226 AATGTATCGATA
1 AATGTATCGATA
153238 TATCTGGGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:157745 original size:164 final size:164
Alignment explanation
Indices: 157221--157806 Score: 786
Period size: 165 Copynumber: 3.5 Consensus size: 164
157211 TTCAAACATC
* *
157221 AAATATTATCATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTA
1 AAATATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTA
* ** * **
157286 AATTTTTTCCTTGAAATTCCTTTTTTTCGAAATACATTGTTTTCTACTTCGTAAATTTTTTTAGG
66 AATTTTTTTCTTGAAATTTTTTTTTTTCAAAATATGTTGTTTTCTACTTCGT-AATTTTTTTAGG
*
157351 GGGATTTTT-TTAGTTTTTAATTTTTAAAATTCAT
130 GGGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
* * * * *
157385 CAAATATCATAATTTATTTCACATTAAATAAGTTTTCAAAAATTAATTTATTTTCATGATTTTTT
1 -AAATATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT
** * *
157450 AAATTTTTTTCTTGAAATTCTCTTTTTTTTTTAAATATGTTGTTTTCTACTTCGTAAATTTTTTC
65 AAATTTTTTTCTTGAAATT-T-TTTTTTTTCAAAATATGTTGTTTTCTACTTCGTAATTTTTTTA
* * *
157515 GAAGGGATTTCTCTTGATTTTTAATTTTTAAAATTCAT
128 G-GGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
* *
157553 AAACTATCATTATTTATTTCAAATTAAATCCGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT
1 AAA-TATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT
* *
157618 -GA-TTTTTTCTTTGAAATTTTTCTTTTTTCAAAATATGTTGTTTTCTACTAT-G-CATTTTTTT
65 AAATTTTTTTC-TTGAAATTTTT-TTTTTTCAAAATATGTTGTTTTCTACT-TCGTAATTTTTTT
*
157679 AGGGGGATTTTTCTTGGTTCTTAATTTTTAAAATTCAT
127 AGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
* *
157717 GAAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTAATTCATTTTCATGAGTTTTT
1 -AAATATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT
*
157782 AAATTTTTTTCTTGAAATATTTTTT
65 AAATTTTTTTCTTGAAATTTTTTTT
157807 CAAAAAATCG
Statistics
Matches: 369, Mismatches: 41, Indels: 23
0.85 0.09 0.05
Matches are distributed among these distances:
164 92 0.25
165 100 0.27
166 50 0.14
167 49 0.13
168 78 0.21
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.54
Consensus pattern (164 bp):
AAATATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTA
AATTTTTTTCTTGAAATTTTTTTTTTTCAAAATATGTTGTTTTCTACTTCGTAATTTTTTTAGGG
GGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
Found at i:157871 original size:164 final size:163
Alignment explanation
Indices: 157221--157881 Score: 721
Period size: 164 Copynumber: 4.0 Consensus size: 163
157211 TTCAAACATC
* *
157221 AAATATTATCATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTA
1 AAATATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTA
* * ** * * *
157286 AATTTTTTCCTTGAAATTCCTTTTTTTCGAAATACATTGTTTTCTACTTCGTAAATTTTTTTAGG
66 AATTTTTTTCTTGAAATT--TTTTTTTCAAAATATGTTGTTTTCTACTCCATAAATTTTTTCAGG
157351 GGGATTTTT-TT-AGTTTTTAATTTTTAAAATTCAT
129 GGGATTTTTCTTGA-TTTTTAATTTTTAAAATTCAT
* * * * *
157385 CAAATATCATAATTTATTTCACATTAAATAAGTTTTCAAAAATTAATTTATTTTCATGATTTTTT
1 -AAATATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT
** * *
157450 AAATTTTTTTCTTGAAATTCTCTTTTTTTTTTAAATATGTTGTTTTCTACTTCGTAAATTTTTTC
65 AAATTTTTTTCTTGAAA---T-TTTTTTTTCAAAATATGTTGTTTTCTACTCCATAAATTTTTTC
* *
157515 -GAAGGGATTTCTCTTGATTTTTAATTTTTAAAATTCAT
126 AG-GGGGATTTTTCTTGATTTTTAATTTTTAAAATTCAT
* *
157553 AAACTATCATTATTTATTTCAAATTAAATCCGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT
1 AAA-TATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT
* ** *
157618 -GA-TTTTTTCTTTGAAATTTTTCTTTTTTCAAAATATGTTGTTTTCTACT--ATGCATTTTTTT
65 AAATTTTTTTC-TTGAAA--TTT-TTTTTTCAAAATATGTTGTTTTCTACTCCATAAATTTTTTC
* *
157679 AGGGGGATTTTTCTTGGTTCTTAATTTTTAAAATTCAT
126 AGGGGGATTTTTCTTGATTTTTAATTTTTAAAATTCAT
* *
157717 GAAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATTAATTCATTTTCATGAGTTTTT
1 -AAATATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT
* * * ** *
157782 AAATTTTTTTCTTGAAA-TATTTTTTCAAAAAATCG-AGTTTTCTA-TCCCATAAAGGTCTTCAG
65 AAATTTTTTTCTTGAAATTTTTTTTTCAAAATAT-GTTGTTTTCTACT-CCATAAATTTTTTCAG
* * ** *
157844 AGGGGACTTTTCTCGATTTAAAATTTTTAGAATTCAT
128 -GGGGATTTTTCTTGATTTTTAATTTTTAAAATTCAT
157881 A
1 A
157882 TGATATTGTC
Statistics
Matches: 424, Mismatches: 53, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
160 1 0.00
161 21 0.05
162 2 0.00
163 9 0.02
164 126 0.30
165 87 0.21
166 42 0.10
167 55 0.13
168 79 0.19
169 2 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (163 bp):
AAATATCATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTA
AATTTTTTTCTTGAAATTTTTTTTTCAAAATATGTTGTTTTCTACTCCATAAATTTTTTCAGGGG
GATTTTTCTTGATTTTTAATTTTTAAAATTCAT
Found at i:159633 original size:19 final size:20
Alignment explanation
Indices: 159611--159649 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
159601 TTGGTAGTAG
159611 CCAAACT-TCTATCGATACA
1 CCAAACTATCTATCGATACA
* *
159630 CCAAAGTATGTATCGATACA
1 CCAAACTATCTATCGATACA
159650 ATGTATGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (20 bp):
CCAAACTATCTATCGATACA
Found at i:165229 original size:20 final size:20
Alignment explanation
Indices: 165203--165282 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 20
165193 AATGTCCAAA
165203 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* * * *
165223 GTGTATCAATACATATGGAAATTCA
1 ATGTATCGATAC--AT-G--TTTCT
*
165248 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
165268 TTGTATCGATACATG
1 ATGTATCGATACATG
165283 GTATCGATAC
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
20 26 0.59
22 2 0.05
23 3 0.07
25 13 0.30
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:165288 original size:13 final size:13
Alignment explanation
Indices: 165269--165306 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
165259 CATTTTTCTT
165269 TGTATCGATACA-
1 TGTATCGATACAC
165281 TGGTATCGATACAC
1 T-GTATCGATACAC
165295 TGTATCGATACA
1 TGTATCGATACA
165307 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:165470 original size:20 final size:20
Alignment explanation
Indices: 165427--165472 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
165417 AAATGTTTTG
165427 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
165448 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
165468 CAAAA
1 CAAAA
165473 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:166959 original size:20 final size:20
Alignment explanation
Indices: 166934--166983 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
166924 GCCAAACTTC
* *
166934 TATCGATACAC-CAAAGTATG
1 TATCGATACACAAAAAAT-TG
166954 TATCGATACACAAAAAATTG
1 TATCGATACACAAAAAATTG
166974 TATCGATACA
1 TATCGATACA
166984 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (20 bp):
TATCGATACACAAAAAATTG
Found at i:171224 original size:52 final size:52
Alignment explanation
Indices: 171146--171263 Score: 209
Period size: 52 Copynumber: 2.3 Consensus size: 52
171136 AAGTTGCTTG
*
171146 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
* *
171198 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
171250 CATGTATCGATACA
1 CATGTATCGATACA
171264 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:171276 original size:52 final size:51
Alignment explanation
Indices: 171139--171283 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
171129 ATATGAAAAG
*
171139 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* * *
171191 TTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
171243 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
171284 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:171290 original size:13 final size:13
Alignment explanation
Indices: 171272--171296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171262 CAAAGATCAG
171272 TGTATCGATACAA
1 TGTATCGATACAA
171285 TGTATCGATACA
1 TGTATCGATACA
171297 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
Done.