Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013456.1 Corchorus olitorius cultivar O-4 contig13489, whole genome shotgun sequence
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: 240106
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:1278 original size:6 final size:6
Alignment explanation
Indices: 1267--1305 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
1257 TAGTCATCAT
1267 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
1306 GCACAAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:13596 original size:37 final size:37
Alignment explanation
Indices: 13546--13621 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
13536 GGGAAACATC
13546 TAGCTAACAAACGCCAAAAGAGTAACTATAGTCTACA
1 TAGCTAACAAACGCCAAAAGAGTAACTATAGTCTACA
13583 TAGCTAACAAACGCCAAAAGAGTAACTATAGTCTACA
1 TAGCTAACAAACGCCAAAAGAGTAACTATAGTCTACA
13620 TA
1 TA
13622 AGAACCATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.20
Consensus pattern (37 bp):
TAGCTAACAAACGCCAAAAGAGTAACTATAGTCTACA
Found at i:18131 original size:17 final size:18
Alignment explanation
Indices: 18092--18139 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
18082 TTTTTTTTTT
*
18092 TAAATTATAAATAAATAG
1 TAAATAATAAATAAATAG
*
18110 T-AATAATATATAAATA-
1 TAAATAATAAATAAATAG
18126 TAAATAAATAAATA
1 TAAAT-AATAAATA
18140 CATTCAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 16 0.64
18 8 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAATAATAAATAAATAG
Found at i:25187 original size:6 final size:6
Alignment explanation
Indices: 25176--25201 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25166 GAAGAGAGAC
25176 GAACCA GAACCA GAACCA GAACCA GA
1 GAACCA GAACCA GAACCA GAACCA GA
25202 CCTGTTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.31, G:0.19, T:0.00
Consensus pattern (6 bp):
GAACCA
Found at i:28566 original size:16 final size:17
Alignment explanation
Indices: 28545--28577 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
28535 TCCGCAATGT
28545 AGGCAC-CCACAATAAG
1 AGGCACACCACAATAAG
*
28561 AGGCACACCATAATAAG
1 AGGCACACCACAATAAG
28578 CTGGAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (17 bp):
AGGCACACCACAATAAG
Found at i:29269 original size:22 final size:23
Alignment explanation
Indices: 29241--29289 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
29231 TATTGTGTAC
29241 CAATTGG-ATATTAATTAATAAA
1 CAATTGGAATATTAATTAATAAA
29263 CAATTGGATATATTAATTAATAAA
1 CAATTGGA-ATATTAATTAATAAA
29287 CAA
1 CAA
29290 ACATGAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 7 0.28
24 18 0.72
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (23 bp):
CAATTGGAATATTAATTAATAAA
Found at i:36227 original size:321 final size:318
Alignment explanation
Indices: 35510--36542 Score: 1084
Period size: 321 Copynumber: 3.2 Consensus size: 318
35500 ACCATGATGG
* * * * * * *
35510 TAAAAA-TGACCTGAAAGATTTTTCCTCAATTTTTTGCAAAAACACTCATAAAAATATATATAAT
1 TAAAAACTGACCTGAAAGTTTTTTTCTCAATTTTTTGCCATAATACT-AGAAAAA-AAATATAAT
* * *
35574 TCAACGCCAAAAAGATTGAAGGACTTTTCACGCTT-TAAATATCG-TTTTTCATATTTTTCTGAA
64 TCAACGCCAAAAAGATT-AAGGGCTTTTAACGCTTCT-AATATCGTTTTTTCAT-TTTTTCCGAA
** * * * *
35637 TTAATTTCTAATTAAATCGAAACAAGATTCTGATGCACATAAAAACAAATCCTTAAATCTAATGT
126 TTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTATATCCAATGT
* ** * * * ** * * *
35702 GACTAAGATTTGACTAGACTAATAAAGATATTTCAAGGAGTCTCAGTGCAAAAAACCATGCAAAA
191 GACTGAGATTTGGTTCGACAAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAA
** * * * * * *
35767 CAGAGTCGTGACATCGGAAA-GTGTTTTTAGTCAAAAATCGTGTGATGGTCAGTACACGATTTTG
256 TTGAGTCG-GGC-TCCGAAACGCGTTTTTAG-CAAAAAAC-TGTGATGGTTAGTACACGATTTCG
35831 GC
317 GC
* * * * * *
35833 TAAAAACTGACCCGAAAG--ATTTTCTCAAATTTTTGCCACAATATTTAGAAAAAATATATAATT
1 TAAAAACTGACCTGAAAGTTTTTTTCTCAATTTTTTGCCATAATA-CTAGAAAAAAAATATAATT
* *
35896 CAACGCCAAAATGATTAATGGGCTTTTGACGCTTCTAATATCGTTTTTTCATTTTTTCCGAATTA
65 CAACGCCAAAAAGATTAA-GGGCTTTTAACGCTTCTAATATCGTTTTTTCATTTTTTCCGAATTA
* * * *
35961 ATTTCTAATTAAATCGAAACAAGATTGGGATGCTCGTAAAAAGAAATCCTCATATCCAATGTGGC
129 ATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGAC
*
36026 TGACATTTGGTTCGACAAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTG
194 TGAGATTTGGTTCGACAAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTG
* * * *
36091 AGTCAGGGCTCCGAAACGCGTTTTTAGCAAAAAAACCGTGATGATTAATACACGATTTCAGC
259 AGTC-GGGCTCCGAAACGCGTTTTTAGC-AAAAAACTGTGATGGTTAGTACACGATTTCGGC
* *
36153 TAAAAATTGACCTGAAAAGTTTTTTTTCTCAATTTTTTGCCGTAATACTA-AAAAAAAATA-AAT
1 TAAAAACTGACCTG-AAAG-TTTTTTTCTCAATTTTTTGCCATAATACTAGAAAAAAAATATAAT
* * *
36216 TTAATGCCAAAAAGATTGACA-GGCTTTTAACGCTTCTAATATCGTTTTTCCATTTCTTTTCCGA
64 TCAACGCCAAAAAGATT-A-AGGGCTTTTAACGCTTCTAATATCGTTTTTTCA-TT-TTTTCCGA
* * * *
36280 GTTAATTTCTAATTAAATCGAAACAAGATTGAGACGATCG-ACAAAACAAATCCTTATATTCAAT
125 ATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGTA-AAAACAAATCCTTATATCCAAT
* **
36344 ATGACTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAA
189 GTGACTGAGATTTGGTTCGACAAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAA
* * * *
36409 AATAT-AGCCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACAATTTCG
254 AAT-TGAGTC-GGGCTCCGAAACGCGTTTTTAGCAAAAAACTGTGATGGTTAGTACACGATTTCG
36473 GC
317 GC
* **
36475 TAAAAACTGA-CTCGAAAAGTTTTTTTTTTTCTCACTTTTTTGTTATAATACTA-AAAAAAAATA
1 TAAAAACTGACCT-G-AAAG----TTTTTTTCTCAATTTTTTGCCATAATACTAGAAAAAAAATA
36538 TAATT
60 TAATT
36543 TTAGCCCAAA
Statistics
Matches: 602, Mismatches: 85, Indels: 43
0.82 0.12 0.06
Matches are distributed among these distances:
320 41 0.07
321 237 0.39
322 90 0.15
323 161 0.27
324 32 0.05
325 37 0.06
326 4 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.33
Consensus pattern (318 bp):
TAAAAACTGACCTGAAAGTTTTTTTCTCAATTTTTTGCCATAATACTAGAAAAAAAATATAATTC
AACGCCAAAAAGATTAAGGGCTTTTAACGCTTCTAATATCGTTTTTTCATTTTTTCCGAATTAAT
TTCTAATTAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGACTG
AGATTTGGTTCGACAAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAG
TCGGGCTCCGAAACGCGTTTTTAGCAAAAAACTGTGATGGTTAGTACACGATTTCGGC
Found at i:37226 original size:322 final size:321
Alignment explanation
Indices: 36707--42746 Score: 7153
Period size: 322 Copynumber: 18.8 Consensus size: 321
36697 ACAAGATTTT
* * * * * * *
36707 TTTTTTCTGAATTTTTTGCCAGAGTACTTAGAAAAAATGTATAATTCAACGCCAAAAAAACTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * * ** * * * *
36772 GGGATTTGCACACTTCTAATATCATTTTTCCAATTTTTTTCCGAAGCAATATATAATTAATTCGG
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCC-ATTTTTTTCCGAATTAATTTCTAATTAAATCGA
*
36837 AACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATG
130 AACAAGATTCAGATGCT-CTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATG
* * * *
36902 AATATAGGTATTTCAAGGAGTCTTTGAGCTAAAAATGATGCAAAATTGTGTCGGGGCTCCGAAAC
194 AATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAAC
*
36967 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTGCGGCTAAAAACTGACCCGAATAG
259 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAATAG
* *
37030 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAACAAGAATGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* *
37095 GGGCTTTTCACGCTTTTAATATTGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
* * ** * *
37160 ACAAGATTCATATGCTCATAAAAACAAATCCTTAAATTTAAGGTGGCTGAGATTTGGTTAGATGA
131 ACAAGATTCAGATGCTC-TAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGA
* * * * * *
37225 ATATAGATACTTCACGGAGTCTTTGTGCTATATATCATGCAAAATTGAGTCGGGACTCCGAAACG
195 ATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACG
* *
37290 CATTTTTAGCCAAAAACCGTGATGATTAGTACACCATTCCGGCTAAAAACTGACCCGGAA-AG
260 CGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCC-GAATAG
* * ** *
37352 TTTTTTCTCAATTTTTTGCCAGAATACTCAGAACAAATATATAATTCAACGCCATGAAGATTGAT
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * * ** * *
37417 GGTCATTTCACGCTTCTAATATC-ATTTTCCATTTATTTCCGAATTAA-TAATATATTAATTCGG
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTA-ATTAAATCGA
* * * *
37480 AACAATATTCAGATACTCTAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGA
130 AACAAGATTCAGATGCTCTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGA
* * * * *
37545 ATATAGGTATTTCAAGGAGACTTTGAGCTAAAAATCATGCAAAATTGAGTCTGGGTTCCGAAACG
195 ATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACG
* * **
37610 CGTTTTTAGCCAAAAACCGTGATGATTAGTACACCATTCCAGCTAAAAACTGACCCGAAATTT
260 CGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCG-AATAG
* * ** *
37673 TTTTTTCTCAATTTTTTGCCACCATACTCAGAAAAAAAATATAATTCATTGCCAAAAATATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * *
37738 GGGTTTTTCACGCTTCTAATATTGTTTTTCCATTTTTTTCTGAATTAATTTCTAATTAAATCGAA
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
* * * ** * *
37803 ACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCAGAGATTTGGTTCGGA-AA
131 ACAAGATTCAGATGCTCTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTC-GATGA
* * * * * * * *
37867 ATGTAGATATTTCAAGGAGTCTTTGTGCTAAAAATCCTGCAAAACTAAGCCGGGGCTCCAAAATG
195 ATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACG
* * * * * * *
37932 CGTTTTTAGCCAAAAACTGTGGTGGTTAGTACACGATTTCAGCTAAAAACTGACACGAAAAG
260 CGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAATAG
* * * * *
37994 TTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTTAATGCCAAAAATATTGAA
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * * * *
38059 TGGTTTTTCAAGCTTCTAATATAGTTTTTCAAAATTTTATTCCGAATTAATTTCTAATTAAATCG
66 GGGCTTTTCACGCTTCTAATATCGTTTTTC--CATTTTTTTCCGAATTAATTTCTAATTAAATCG
* * * * *
38124 AAACAAGATTCAGAGGCTCGTAAAAACAAATCGTTAAATCGAATGTGGCTGGGATTTGGTTCGAT
129 AAACAAGATTCAGATGCTC-TAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGAT
* * * * * *
38189 GAATGTAGATATTTCAAGGAGTCTTT-CTACCAAAAATCATGCAAAACTGAGGCGGGGCCCCCGA
193 GAATATAGATATTTCAAGGAGTCTTTGC-GCTAAAAATCATGCAAAATTGAGTCGGGG-CTCCGA
* * * * ** **
38253 AACGAGTTTTTAGCCAAAAAACCGTGAGGGTTAGTACACGATTTCGGCTAAAATTTGACAAG-AT
256 AACGCGTTTTTAGCC-AAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAAT
38317 -G
320 AG
* * * * * * *
38318 TTTTTTTTAAAGAATTTTTTGCCACAATACTCAGAAAAAATGTGTAATTCAACGTCAAAAAAACT
1 TTTTTTCT---CAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATT
* * * ** *
38383 GACGGGATTTTCACGCTTCTAATATCATTTTTCCAATTATTTTCCGAAGCAATTTTTAATTAAAT
63 GACGGGCTTTTCACGCTTCTAATATCGTTTTTCC-ATTTTTTTCCGAATTAATTTCTAATTAAAT
* * * ** * *
38448 CGGAACAAGATTCAGATGTTCGTAAAAACAAATTCTTA-ATTTTAATATGGCTGAGATTTGGTTA
127 CGAAACAAGATTCAGATGCTC-TAAAAACAAATCCTTATA-TCCAATGTGGCTGAGATTTGGTTC
* * * * * *
38512 GATGAATATAAATACTTCACGGAGTCTTT-CTGCTATAAATCATGCAAAGCTT-AGTCGGGGCCC
190 GATGAATATAGATATTTCAAGGAGTCTTTGC-GCTAAAAATCATGCAAA-ATTGAGTCGGGG-CT
* * ** * *
38575 CCGAAACGAGTTTTTAGCCCCAAAACAATGATGGTTAGTACACGATTTCC-GCTAAAAACTTACC
252 CCGAAACGCGTTTTTAG-CCAAAAACCGTGATGATTAGTACACGA-TTCCGGCTAAAAACTGACC
* * **
38639 TGATTTTT
315 CGA-ATAG
* * * * *
38647 TTTTTTCTGAATTTTTTAGCCACAATACTCAGAAAAAATTTATAATTCAATGCCAAGACGATTGA
1 TTTTTTCTCAATTTTTT-GCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGA
* * * * * * * * *
38712 TGGTC-TTTCATGCTTTTAATATCATTTTTCCATTTTTTTCCGAATTAATTTATTATTAATTCGG
65 CGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGA
*
38776 AACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATG
130 AACAAGATTCAGATGCT-CTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATG
* * * *
38841 AATATAGGTATTTAAAGGAGTCTTTGTGCTAAAAAATCATGCAAAATTGAGTCGGGACTCCGAAA
194 AATATAGATATTTCAAGGAGTCTTTGCGCT-AAAAATCATGCAAAATTGAGTCGGGGCTCCGAAA
* *
38906 CGCATTTTTAGCCAAAAACCGTGATGATTAGTACACCATTCCGGCTAAAAACTGACCCGGAA-AG
258 CGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCC-GAATAG
* *
38970 TTTTTTCTCAATTTTTTGCCAGAATACTCAGAACAAATATATAATTCAACGCCAAAAAGATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
*
39035 GGGTTTTTCACGCTTCTAATATCG-TTTTCCATTTTTTT-CGAATTAATTTCTAATTAAATCGAA
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
* * * * * * ** **
39098 ACAATATTCAGATACTCGAAAAGCAAATCCTTATTTCGAATAAGGCTGAGATTTGGTTCGAAAAA
131 ACAAGATTCAGATGCTCTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAA
* * * *
39163 TGTAGATATTTCAAGGAGTCTTTGCGCTAAAAATCTTGCAAAATTGAGACGGGGCTCCAAAACGC
196 TATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACGC
* * * *
39228 GTTTTTAGCCAAAAACCGTGATAATTAATTAGTACACGATTCTGGCTAAAAACTGACCAGAA-AA
261 GTTTTTAGCCAAAAACCGTG---A-TGATTAGTACACGATTCCGGCTAAAAACTGACCCGAATAG
** *
39292 TTTCTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCATTGACAAAAAGATTGA
1 TTT-TTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGA
* * *
39357 CGGGTTTTTCACGTTTCTAATATTGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGA
65 CGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGA
* * * ** * *
39422 AACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGTTGGA-AA
130 AACAAGATTCAGATGCTCTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGA
* * * * * *
39486 ATTGTAGATATTTCAAGGAGTCTTTGCGCTAAAAATCTTTCAAAATTGAGCCGGGGATCCAAAAC
195 A-TATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAAC
* * * *
39551 GCCTTTTTTGCCAAAAACCGTGATGATTAGTACACGATCCCAGCTAAAAA-TGA-CCGAGCA-AG
259 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGA--ATAG
* * *
39613 TTTTTTCTCAATTTTTTGCCACAATACTCAGAACAAATATATAATTCAACGCCAACAAGAATGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
39678 GGGCTTTTCACGCATT-TAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGA
66 GGGCTTTTCACGC-TTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGA
* * * * * * *
39742 AACAAGATTCAGAGGGTCATAAAAACAAATCGTTAAATCGAATGTGGC-AAGGATTTGTTTCGAT
130 AACAAGATTCAGATGCTC-TAAAAACAAATCCTTATATCCAATGTGGCTGA-GATTTGGTTCGAT
* * * * * * * * *
39806 GAATGTAGATATTTCAAGAAGTCTTT-CTACAAAAAAATCATACAAAACTGAGCCAGGGCCCCCG
193 GAATATAGATATTTCAAGGAGTCTTTGC-GC-TAAAAATCATGCAAAATTGAGTC-GGGGCTCCG
* * ** * ** *
39870 AAACGAGTTTTTAGGCCAAAAACCGTGATGGTTTCTACACGATTTCGGCTAAAAACTGACAAGAT
255 AAACGCGTTTTTA-GCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAA
*
39935 TTG
319 TAG
* * *
39938 TTTTTTCTGAATTTTTTGCCACAATACTCAGAAAAAATGTATAATTCAACGCCAAAAAAATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * ** *
40003 GGGATTTTCACGCTTCTAATATCATTTTTCCAATTTTTTCCGAAGCAATTTCTAATTTAATCGGA
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATC-GA
* * ** *
40068 AA-AATATTCAGATGCTCGTAAAAACAAATCCTTAAATTTAATGTGGCTGAGATTTGGTTAGATG
130 AACAAGATTCAGATGCTC-TAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATG
* * * * ** ** *
40132 AATATAGATACTTCACGGAGTCTTT-CTGCCATAAATCATGCAAAGCTGACCCGGGGCCCCTGAA
194 AATATAGATATTTCAAGGAGTCTTTGC-GCTAAAAATCATGCAAAATTGAGTCGGGGCTCC-GAA
* * ** * * *
40196 ATGCGTTTTTAGCCCCAAAA-CGATGATGGGTAGTACACGATTTCAGCTAAAAACTGACCCGATT
257 ACGCGTTTTTAG-CCAAAAACCG-TGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAAT
**
40260 TT
320 AG
* * * *
40262 TTTTTTCTGAA-TTTTTGCCACAATACTCAGAAAAAA-ATTATAATGCAATGCCAAGAAGATTGA
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATA-TATAATTCAACGCCAAAAAGATTGA
* * * ** * * * *
40325 TGGTCTTTTCACGCTTCTAATTTTATTTTTCCA--TTTTT-----TT--TTCCGAATTAATTCGG
65 CGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGA
*
40381 AACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATG
130 AACAAGATTCAGATGCT-CTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATG
* *
40446 AATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAAT
194 AATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAAC
* *
40511 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACTCG-ATAA
259 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAATAG
*
40573 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* *
40638 GGGATTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
* * * ** **
40703 ACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCAAATAAGGCTGAGATTTGGTTCGAAAAA
131 ACAAGATTCAGATGCTCTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAA
* * * *
40768 TGTACATATTTCAAAGAGTCTTTGCGCTAAAAA-CATGCAAAATTGAGTCGGGGCT-CTAGAACG
196 TATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGA-AACG
* * * * *
40831 AGTTTTTAGCCAAAAACCGTGGTGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAG
260 CGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAATAG
* *
40893 TTTTTTCTCAA-TTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAA
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * * * *
40957 GGGTTTTTCAAGCTTCTAATATAGTTTTTCCAAAATTTATTCCGAATTAATTTCTAGTTAAATCG
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTAATTTCTAATTAAATCG
* ** *
41022 GAACAAGATTCAGATGCTCCCCAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGAT
129 AAACAAGATTCAGATGCT-CTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGAT
* *
41087 GAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTTGGGGCTCCGAAA
193 GAATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAA
* *
41152 CGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAAAAT
258 CGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAATAG
* * *
41216 TTTTTTCTCAATTTTTTGGCACAATACTCAGAAAAATATATATAATTCAACGCCAAAAAAGCTAG
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAA-ATATATAATTCAACGCC-AAAAAGATTG
* * **
41281 ACGGGATTTTCACGCTTCTAATATCATTTTTCCAATTTTTTTCCGAAGCAATTTCTAATTAAATC
64 ACGGGCTTTTCACGCTTCTAATATCGTTTTTCC-ATTTTTTTCCGAATTAATTTCTAATTAAATC
* * * * * ** *
41346 GGAACAATATTCAGATGCTCGTAAAAACATATCCATAAATTTAA-GCTGGCTGAGATTTGGTTAG
128 GAAACAAGATTCAGATGCTC-TAAAAACAAATCCTTATATCCAATG-TGGCTGAGATTTGGTTCG
* * * * * *
41410 ATGAATATAGATACTTCACGGAGTCTTT-CTGCCATAAATCATGCAAAACTGAGCCGGGGCTCCT
191 ATGAATATAGATATTTCAAGGAGTCTTTGC-GCTAAAAATCATGCAAAATTGAGTCGGGGCTCC-
* * * * *
41474 GAAACGCCG-TTTTAGCCCCAAAA-CGATGATGGTTAGTACATGATTTCAGCTAAAAACTGACCC
254 GAAACG-CGTTTTTAG-CCAAAAACCG-TGATGATTAGTACACGATTCCGGCTAAAAACTGACCC
*
41537 G-AT-T
316 GAATAG
* * * *
41541 TTTTTTCTGAA-TTTTTGCCACAATACTCAGAAAAAATTTATAATTCAACGCCAAGAAGATTGAT
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * * *
41605 GGTCTTTTCACG---C---T-TC-TTTTTCCATTTTTTTCCGAATTAATATATAATTAATTCGGA
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
*
41662 ACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGA
131 ACAAGATTCAGATGCT-CTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGA
* * * * *
41727 ATATAGGTATTTAAAGGAGTTTTTGTGCTAAAAAATCATGCAAAATTGAGTCGGGACTCCGAAAC
195 ATATAGATATTTCAAGGAGTCTTTGCGCT-AAAAATCATGCAAAATTGAGTCGGGGCTCCGAAAC
*
41792 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACCATTCCGGCTAAAAACTGACCCGGAA-AG
259 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCC-GAATAG
*
41855 TTTTTTCTCAATTTTTTGCCAGAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
*
41920 GGG-TTTATCACGCTTCTAATATCGTTTTTCCAATTTTATTCCGAATTAATTTCTAATTAAATCG
66 GGGCTTT-TCACGCTTCTAATATCGTTTTTCC-ATTTTTTTCCGAATTAATTTCTAATTAAATCG
* * * ** **
41984 AAACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGTTCGAAA
129 AAACAAGATTCAGATGCTCTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATG
* *
42049 AATGTAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCT-CAAAAC
194 AATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAAC
* * * * *
42113 GAGTTTTTAGCCAAAAACCGTGGTGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAG
259 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAATAG
* * *
42176 TTTTTTCTCAATTTTTTACCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAA
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * *
42241 GGGCTTATCAAGCTTCTAATATAGTTTTTCCAAATTTTATTCCGAATTAATTTCTAATTAAATCG
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTAATTTCTAATTAAATCG
* * *
42306 AAACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGCA-
129 AAACAAGATTCAGATGCTCTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCG-AT
* *
42370 AAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAA
193 GAATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAA
* * * *
42435 CGCGTTTTTAGGCAAAAACCGTGGTGGTTAGTACACGATTCCGGCTAAAAACTGACCCGAA-AA
258 CGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAATAG
42498 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* *
42563 GGGCTTATCACGCTTCTAATATCGTTTTTCCAAATTTTATTCCGAATTAATTTCTAATTAAATCG
66 GGGCTTTTCACGCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTAATTTCTAATTAAATCG
* *
42628 GAACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGAT
129 AAACAAGATTCAGATGCT-CTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGAT
* * *
42693 GAATATAGGTATTTCAAGGAGTCTTTGGGCTAAATATCATGCAAAATTGAGTCG
193 GAATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCG
42747 AAAATTTTTT
Statistics
Matches: 4925, Mismatches: 670, Indels: 244
0.84 0.11 0.04
Matches are distributed among these distances:
311 11 0.00
312 151 0.03
313 139 0.03
314 166 0.03
315 60 0.01
316 1 0.00
318 3 0.00
319 215 0.04
320 439 0.09
321 555 0.11
322 956 0.19
323 720 0.15
324 358 0.07
325 653 0.13
326 328 0.07
327 162 0.03
328 1 0.00
329 7 0.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (321 bp):
TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
GGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
ACAAGATTCAGATGCTCTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAA
TATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACGC
GTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAATAG
Found at i:39479 original size:645 final size:639
Alignment explanation
Indices: 36707--42746 Score: 7051
Period size: 645 Copynumber: 9.4 Consensus size: 639
36697 ACAAGATTTT
* * * * * * *
36707 TTTTTTCTGAATTTTTTGCCAGAGTACTTAGAAAAAATGTATAATTCAACGCCAAAAAAACTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * * ** * * * *
36772 GGGATTTGCACACTTCTAATATCATTTTTCCAATTTTTTTCCGAAGCAATATATAATTAATTCGG
66 GGGTTTTTCACGCTTCTAATATCGTTTTTCC-ATTTTTTTCCGAATTAATTTCTAATTAAATCGA
* *
36837 AACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATG
130 AACAAGATTCAGATGCT-CGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATG
* * * *
36902 AATATAGGTATTTCAAGGAGTCTTTGAGCTAAAAATGATGCAAAATTGTGTCGGGGCTCCGAAAC
194 AATATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAAC
* * *
36967 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTGCGGCTAAAAACTGACCCGAATAGTT
259 GCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAA-AGTT
* *
37032 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAACAAGAATGACGG
323 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGG
* * *
37097 GCTTTTCACGCTTTTAATATTGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAAC
388 GTTTTTCACGCTTCTAATATAGTTTTTCCATTTTTTT-CGAATTAATTTCTAATTAAATCGAAAC
* * * ** * *
37162 AAGATTCATATGCTCATAAAAACAAATCCTTAAATTTAAGGTGGCTGAGATTTGGTTAGATGAAT
452 AAGATTCAGATGCTC-GAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAAT
* * * * * * *
37227 ATAGATACTTCACGGAGTCTTTGTGCTATATATCATGCAAAATTGAGTCGGGACTCCGAAACGCA
516 ATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACGCG
* * *
37292 TTTTTAGCCAAAAACCGTGATGATTAGTACACCATTCCGGCTAAAAACTGACCCGGAAAG
581 TTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGA-CCAGAAAA
* * **
37352 TTTTTTCTCAATTTTTTGCCAGAATACTCAGAACAAATATATAATTCAACGCCATGAAGATTGA-
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * * ** *
37416 TGGTCATTTCACGCTTCTAATATC-ATTTTCCATTTATTTCCGAATTAA-TAATATATTAATTCG
66 GGGT-TTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTA-ATTAAATCG
* * * * * *
37479 GAACAATATTCAGATACTCTAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATG
129 AAACAAGATTCAGATGCTCGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATG
* * * * *
37544 AATATAGGTATTTCAAGGAGACTTTGAGCTAAAAATCATGCAAAATTGAGTCTGGGTTCCGAAAC
194 AATATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAAC
* * * * * *
37609 GCGTTTTTAGCCAAAAACCGTGATGATTAGTACACCATTCCAGCTAAAAACTGACCCGAAATTTT
259 GCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAA--GT
* * ** *
37674 TTTTTCTCAATTTTTTGCCACCATACTCAGAAAAAAAATATAATTCATTGCCAAAAATATTGACG
322 TTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACG
*
37739 GGTTTTTCACGCTTCTAATATTGTTTTTCCATTTTTTTCTGAATTAATTTCTAATTAAATCGAAA
387 GGTTTTTCACGCTTCTAATATAGTTTTTCCATTTTTTTC-GAATTAATTTCTAATTAAATCGAAA
* * ** * *
37804 CAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCAGAGATTTGGTTCGGA-AAA
451 CAAGATTCAGATGCTCGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTC-GATGAA
* * * * * * * *
37868 TGTAGATATTTCAAGGAGTCTTTGTGCTAAAAATCCTGCAAAACTAAGCCGGGGCTCCAAAATGC
515 TATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACGC
* * * * *
37933 GTTTTTAGCCAAAAACTGTGGTGGTTAGTACACGATTTCAGCTAAAAACTGA-CACGAAAA
580 GTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCA-GAAAA
* * * *
37993 GTTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTTAATGCCAAAAATATTGA
1 -TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGA
** * * * *
38058 ATGGTTTTTCAAGCTTCTAATATAGTTTTTCAAAATTTTATTCCGAATTAATTTCTAATTAAATC
65 CGGGTTTTTCACGCTTCTAATATCGTTTTTC--CATTTTTTTCCGAATTAATTTCTAATTAAATC
* * * * *
38123 GAAACAAGATTCAGAGGCTCGTAAAAACAAATCGTTAAATCGAATGTGGCTGGGATTTGGTTCGA
128 GAAACAAGATTCAGATGCTCG-AAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGA
* * * * * * *
38188 TGAATGTAGATATTTCAAGGAGTCTTTCTACCAAAAATCATGCAAAACTGAGGCGGGGCCCCCGA
192 TGAATATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGG-CTCCGA
* ** **
38253 AACG-AGTTTTTAGCCAAAAAACCGTGAGGGTTAGTACACGATTTCGGCTAAAATTTGACAAG-A
256 AACGCA-TTTTTAGCC-AAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAA
* * * * * * *
38316 TGTTTTTTTTAAAGAATTTTTTGCCACAATACTCAGAAAAAATGTGTAATTCAACGTCAAAAAAA
319 AGTTTTTTCT---CAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGA
* * * ** *
38381 CTGACGGGATTTTCACGCTTCTAATATCA-TTTTTCCAATTATTTTCCGAAGCAATTTTTAATTA
381 TTGACGGGTTTTTCACGCTTCTAATAT-AGTTTTTCC-ATT-TTTTTCGAATTAATTTCTAATTA
* * * ** *
38445 AATCGGAACAAGATTCAGATGTTCGTAAAAACAAATTCTTA-ATTTTAATATGGCTGAGATTTGG
443 AATCGAAACAAGATTCAGATGCTCG-AAAAACAAATCCTTATA-TCCAATGTGGCTGAGATTTGG
* * * * * *
38509 TTAGATGAATATAAATACTTCACGGAGTCTTT-CTGCTATAAATCATGCAAAGCTT-AGTCGGGG
506 TTCGATGAATATAGATATTTCAAGGAGTCTTTGC-GCTAAAAATCATGCAAA-ATTGAGTCGGGG
* * * ** * *
38572 CCCCCGAAACGAGTTTTTAGCCCCAAAACAATGATGGTTAGTACACGATTTCC-GCTAAAAACTT
569 -CTCCGAAACGCGTTTTTAG-CCAAAAACCGTGATGATTAGTACACGA-TTCCGGCTAAAAACTG
* ***
38636 ACCTGATTTTT
631 ACCAGA--AAA
* * * * *
38647 TTTTTTCTGAATTTTTTAGCCACAATACTCAGAAAAAATTTATAATTCAATGCCAAGACGATTGA
1 TTTTTTCTCAATTTTTT-GCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGA
* * * * * * * * *
38712 -TGGTCTTTCATGCTTTTAATATCATTTTTCCATTTTTTTCCGAATTAATTTATTATTAATTCGG
65 CGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGA
* *
38776 AACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATG
130 AACAAGATTCAGATGCT-CGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATG
* * *
38841 AATATAGGTATTTAAAGGAGTCTTTGTGCTAAAAAATCATGCAAAATTGAGTCGGGACTCCGAAA
194 AATATAGATATTTCAAGGAGTCTTTGTGCT-AAAAATCATGCAAAATTGAGTCGGGGCTCCGAAA
* * *
38906 CGCATTTTTAGCCAAAAACCGTGATGATTAGTACACCATTCCGGCTAAAAACTGACCCGGAAAGT
258 CGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCC-GAAAGT
* *
38971 TTTTTCTCAATTTTTTGCCAGAATACTCAGAACAAATATATAATTCAACGCCAAAAAGATTGACG
322 TTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACG
*
39036 GGTTTTTCACGCTTCTAATATCG-TTTTCCATTTTTTTCGAATTAATTTCTAATTAAATCGAAAC
387 GGTTTTTCACGCTTCTAATATAGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATCGAAAC
* * * * * ** ** *
39100 AATATTCAGATACTCGAAAAGCAAATCCTTATTTCGAATAAGGCTGAGATTTGGTTCGAAAAATG
452 AAGATTCAGATGCTCGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATA
* * *
39165 TAGATATTTCAAGGAGTCTTTGCGCTAAAAATCTTGCAAAATTGAGACGGGGCTCCAAAACGCGT
517 TAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACGCGT
* *
39230 TTTTAGCCAAAAACCGTGATAATTAATTAGTACACGATTCTGGCTAAAAACTGACCAGAAAA
582 TTTTAGCCAAAAACCGTG---A-TGATTAGTACACGATTCCGGCTAAAAACTGACCAGAAAA
** *
39292 TTTCTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCATTGACAAAAAGATTGA
1 TTT-TTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGA
* *
39357 CGGGTTTTTCACGTTTCTAATATTGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGA
65 CGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGA
* * ** * *
39422 AACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGTTGGA-AA
130 AACAAGATTCAGATGCTCGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGA
* * * * * * *
39486 ATTGTAGATATTTCAAGGAGTCTTTGCGCTAAAAATCTTTCAAAATTGAGCCGGGGATCCAAAAC
195 A-TATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAAC
* * * ** *
39551 GCCTTTTTTGCCAAAAACCGTGATGATTAGTACACGATCCCAGCTAAAAA-TGA-CCGAGCAAGT
259 GCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGA--AAGT
* * *
39614 TTTTTCTCAATTTTTTGCCACAATACTCAGAACAAATATATAATTCAACGCCAACAAGAATGACG
322 TTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACG
* *
39679 GGCTTTTCACGCATT-TAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
387 GGTTTTTCACGC-TTCTAATATAGTTTTTCCATTTTTTT-CGAATTAATTTCTAATTAAATCGAA
* * * * * * * *
39743 ACAAGATTCAGAGGGTCATAAAAACAAATCGTTAAATCGAATGTGGC-AAGGATTTGTTTCGATG
450 ACAAGATTCAGATGCTC-GAAAAACAAATCCTTATATCCAATGTGGCTGA-GATTTGGTTCGATG
* * * * * * * * *
39807 AATGTAGATATTTCAAGAAGTCTTT-CTACAAAAAAATCATACAAAACTGAGCCAGGGCCCCCGA
513 AATATAGATATTTCAAGGAGTCTTTGC-GC-TAAAAATCATGCAAAATTGAGTC-GGGGCTCCGA
* * ** * * *
39871 AACGAGTTTTTAGGCCAAAAACCGTGATGGTTTCTACACGATTTCGGCTAAAAACTGACAAGATT
575 AACGCGTTTTTA-GCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCAGA-A
**
39936 TG
638 AA
* * *
39938 TTTTTTCTGAATTTTTTGCCACAATACTCAGAAAAAATGTATAATTCAACGCCAAAAAAATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * * ** *
40003 GGGATTTTCACGCTTCTAATATCATTTTTCCAATTTTTTCCGAAGCAATTTCTAATTTAATCGGA
66 GGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATC-GA
* * ** *
40068 AA-AATATTCAGATGCTCGTAAAAACAAATCCTTAAATTTAATGTGGCTGAGATTTGGTTAGATG
130 AACAAGATTCAGATGCTCG-AAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATG
* * * * * ** ** *
40132 AATATAGATACTTCACGGAGTCTTTCTGCCATAAATCATGCAAAGCTGACCCGGGGCCCCTGAAA
194 AATATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCTCC-GAAA
* * * * * **
40197 TGCGTTTTTAGCCCCAAAA-CGATGATGGGTAGTACACGATTTCAGCTAAAAACTGACCCGATTT
258 CGCATTTTTAG-CCAAAAACCG-TGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGA-AA
* * * * *
40261 TTTTTTTCTGAA-TTTTTGCCACAATACTCAGAAAAAA-ATTATAATGCAATGCCAAGAAGATTG
320 GTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATA-TATAATTCAACGCCAAAAAGATTG
* * * * *
40324 A-TGGTCTTTTCACGCTTCTAATTTTA-TTTTTCCA--TTTTT----TT--TTCCGAATTAATTC
384 ACGGGT-TTTTCACGCTTCTAA-TATAGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATC
* * *
40379 GGAACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGA
447 GAAACAAGATTCAGATGCT-CGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGA
*
40444 TGAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAA
511 TGAATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAA
* *
40509 ATGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACTC-GATAA
576 ACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGAC-CAGAAAA
*
40573 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* *
40638 GGGATTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
66 GGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
* * ** **
40703 ACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCAAATAAGGCTGAGATTTGGTTCGAAAAA
131 ACAAGATTCAGATGCTCGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAA
* * * * *
40768 TGTACATATTTCAAAGAGTCTTTGCGCTAAAAA-CATGCAAAATTGAGTCGGGGCT-CTAGAACG
196 TATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGA-AACG
*
40831 -AGTTTTTAGCCAAAAACCGTGGTGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTT
260 CA-TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCG-AAAGTT
* *
40895 TTTTCTCAA-TTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGG
323 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGG
* * * * *
40959 GTTTTTCAAGCTTCTAATATAGTTTTTCCAAAATTTATTCCGAATTAATTTCTAGTTAAATCGGA
388 GTTTTTCACGCTTCTAATATAGTTTTTCC---ATTTTTTTCGAATTAATTTCTAATTAAATCGAA
** *
41024 ACAAGATTCAGATGCTCCCCAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGATGA
450 ACAAGATTCAGATGCT-CGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGA
* *
41089 ATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTTGGGGCTCCGAAACG
514 ATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACG
*
41154 CGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCCGAAAA
579 CGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCAGAAAA
* * *
41215 TTTTTTTCTCAATTTTTTGGCACAATACTCAGAAAAATATATATAATTCAACGCCAAAAAAGCTA
1 -TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAA-ATATATAATTCAACGCC-AAAAAGATT
* * **
41280 GACGGGATTTTCACGCTTCTAATATCATTTTTCCAATTTTTTTCCGAAGCAATTTCTAATTAAAT
63 GACGGGTTTTTCACGCTTCTAATATCGTTTTTCC-ATTTTTTTCCGAATTAATTTCTAATTAAAT
* * * * * ** *
41345 CGGAACAATATTCAGATGCTCGTAAAAACATATCCATAAATTTAA-GCTGGCTGAGATTTGGTTA
127 CGAAACAAGATTCAGATGCTCG-AAAAACAAATCCTTATATCCAATG-TGGCTGAGATTTGGTTC
* * * * * * *
41409 GATGAATATAGATACTTCACGGAGTCTTTCTGCCATAAATCATGCAAAACTGAGCCGGGGCTCCT
190 GATGAATATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCTCC-
** * * *
41474 GAAACGCCGTTTTAGCCCCAAAA-CGATGATGGTTAGTACATGATTTCAGCTAAAAACTGACCCG
254 GAAACGCATTTTTAG-CCAAAAACCG-TGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCG
** * * *
41538 -ATTTTTTTTCTGAA-TTTTTGCCACAATACTCAGAAAAAATTTATAATTCAACGCCAAGAAGAT
317 AAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGAT
* * * *
41601 TGA-TGGTCTTTTCACGCTTC--------TTTTTCCATTTTTTTCCGAATTAATATATAATTAAT
382 TGACGGGT-TTTTCACGCTTCTAATATAGTTTTTCCATTTTTTT-CGAATTAATTTCTAATTAAA
* * *
41657 TCGGAACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTC
445 TCGAAACAAGATTCAGATGCT-CGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTC
* * * * *
41722 GATGAATATAGGTATTTAAAGGAGTTTTTGTGCTAAAAAATCATGCAAAATTGAGTCGGGACTCC
509 GATGAATATAGATATTTCAAGGAGTCTTTGCGCT-AAAAATCATGCAAAATTGAGTCGGGGCTCC
* *
41787 GAAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACCATTCCGGCTAAAAACTGACCCGGA
573 GAAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGA-CCAGA
*
41852 AAG
637 AAA
*
41855 TTTTTTCTCAATTTTTTGCCAGAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* *
41920 GGGTTTATCACGCTTCTAATATCGTTTTTCCAATTTTATTCCGAATTAATTTCTAATTAAATCGA
66 GGGTTTTTCACGCTTCTAATATCGTTTTTCC-ATTTTTTTCCGAATTAATTTCTAATTAAATCGA
* * ** **
41985 AACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGTTCGAAAA
130 AACAAGATTCAGATGCTCGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGA
* * *
42050 ATGTAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCT-CAAAACG
195 ATATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACG
*
42114 -AGTTTTTAGCCAAAAACCGTGGTGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTT
260 CA-TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCG-AAAGTT
* * *
42178 TTTTCTCAATTTTTTACCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGG
323 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGG
* * * *
42243 GCTTATCAAGCTTCTAATATAGTTTTTCCAAATTTTATTCCGAATTAATTTCTAATTAAATCGAA
388 GTTTTTCACGCTTCTAATATAGTTTTTCC--ATTTT-TTTCGAATTAATTTCTAATTAAATCGAA
* * *
42308 ACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGCA-AA
450 ACAAGATTCAGATGCTCGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCG-ATGA
*
42372 ATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACG
514 ATATAGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACG
* * * *
42437 CGTTTTTAGGCAAAAACCGTGGTGGTTAGTACACGATTCCGGCTAAAAACTGACCCGAAAA
579 CGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCAGAAAA
42498 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
1 TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
* * *
42563 GGGCTTATCACGCTTCTAATATCGTTTTTCCAAATTTTATTCCGAATTAATTTCTAATTAAATCG
66 GGGTTTTTCACGCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTAATTTCTAATTAAATCG
* * *
42628 GAACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGAT
129 AAACAAGATTCAGATGCT-CGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGAT
* * *
42693 GAATATAGGTATTTCAAGGAGTCTTTGGGCTAAATATCATGCAAAATTGAGTCG
193 GAATATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCG
42747 AAAATTTTTT
Statistics
Matches: 4607, Mismatches: 651, Indels: 274
0.83 0.12 0.05
Matches are distributed among these distances:
630 3 0.00
631 119 0.03
632 18 0.00
633 58 0.01
634 80 0.02
635 146 0.03
636 187 0.04
637 112 0.02
638 146 0.03
639 208 0.05
640 19 0.00
641 10 0.00
642 570 0.12
643 417 0.09
644 276 0.06
645 690 0.15
646 458 0.10
647 150 0.03
648 324 0.07
649 154 0.03
650 163 0.04
651 143 0.03
652 70 0.02
653 44 0.01
654 42 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (639 bp):
TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC
GGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
ACAAGATTCAGATGCTCGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAA
TATAGATATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACGC
ATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAGTTTTT
TCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGTT
TTTCACGCTTCTAATATAGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATCGAAACAAGA
TTCAGATGCTCGAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGA
TATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAAACGCGTTTTT
AGCCAAAAACCGTGATGATTAGTACACGATTCCGGCTAAAAACTGACCAGAAAA
Found at i:44009 original size:321 final size:321
Alignment explanation
Indices: 42745--44982 Score: 3210
Period size: 322 Copynumber: 7.0 Consensus size: 321
42735 AAAATTGAGT
*
42745 CGAAAATTTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAA
1 CGAAAATGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAA
*
42810 GATTGACGAGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
66 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
* * *
42875 AATCGAAACAAGATTCAGACGCTCGAAAAGAAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
131 AATCGGAACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
* ** ** *
42940 CGAAAAATGTACATA-TTCAA-GAGAATTTGCGCTAAAAATCATGCAAAATTGAGCCGGGGCT-C
196 CGAAAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCC
* * * *
43002 GAAAACGCGTTTTAATCCAAAAACCGT-AGTGGTTAATACACGATTTCGGCTAAAAACTGACC
261 G-AAACGCGTTTTTAGCCAAAAACCGTGA-TGATTAATACACGATTCCGGCTAAAAACTGACC
43064 CGAAAA-GTTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAA
1 CGAAAATG-TTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAA
43128 AGATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATT
65 AGATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATT
*
43193 AAATCGAAACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGT
130 AAATCGGAACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGT
43258 TCGAAAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTC
195 TCGAAAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTC
* * *
43323 CGAAATGCGTTTTTAGCCAAAAACCGTG--G--TGATAC-CGATT----C---AAATTGACC
260 CGAAACGCGTTTTTAGCCAAAAACCGTGATGATTAATACACGATTCCGGCTAAAAACTGACC
* * * * *
43373 CGAAAGTTTTTTTCTCAATTTTTTACCACAATACTCAGAAAAAAATATATAATTCAACGCCAAAA
1 CGAAAATGTTTTTCCCAATTTTTTGCCACAATACTCAG-AAAAAATATATAATTCAACGTCAAAA
* * * * * * *
43438 ATATTGAAGGGTTTTTCAAGCTTCTAATATAGTTTTTCCAAATTTTATTCCGAATTAATTTCTAA
65 AGATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTAATTTCTAA
* * *
43503 TTAAATCGGAACAAGATTGAGATGCTCGAAAAGAAAATCCTTATATCGAATAAGTCTGAGATTTG
128 TTAAATCGGAACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTG
* ** * *
43568 GTTCGAAAAATGTACATATTTCAAGGAGCCTTTGCGCTAAAAATCATGCAAAATTGAGCCGGGGC
193 GTTCGAAAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGC
* * *
43633 T-CGAAAACGCGTTTTAAGCCAAAAACCGT-AGTGGTTAATACACGATTTCGGCTAAAAACTGAC
258 TCCG-AAACGCGTTTTTAGCCAAAAACCGTGA-TGATTAATACACGATTCCGGCTAAAAACTGAC
43696 C
321 C
43697 CGAAAA-GTTTTTCCCAA-TTTTTGCCACAATACTCAG-AAAAATATATAATTCAACGTCAAAAA
1 CGAAAATGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAA
* * * * * * * *
43759 TATTGAAGGGTTTTTCAAGCTTCTAATATAGTTTTTCCAAATTTTATTCCGAATTAATTTCTAGT
66 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTAATTTCTAAT
* * ** *
43824 TAAATCGGAACAAGATTCAGATGCTCCTAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTG
129 TAAATCGGAACAAGATTCAGATGCT-CGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTG
**
43889 GTTCGATGAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGC
193 GTTCGAAAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGC
* *
43954 TCCGAAACGCGTTTTTAGCCAAAAACCGTGATGATTATTACACGATTCCGGCTAAAAACTGATC
258 TCCGAAACGCGTTTTTAGCCAAAAACCGTGATGATTAATACACGATTCCGGCTAAAAACTGACC
* * * *
44018 CGAAAATTTTTTTCTCAATTTTTTGGCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
1 CGAAAATGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAA
*
44083 GATTGACGGCCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
66 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
* *
44148 AATCGAAACAAGATTCAGATGCTCGAAAAGAAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
131 AATCGGAACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
* **
44213 CGAAAAATGTACATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCT-C
196 CGAAAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCC
* * * * *
44277 GAAAACGCGTTTTAAGCCAAAAACCGTGGTGGTTAGTACACGATTTCGGCTAAAAACTGACC
261 G-AAACGCGTTTTTAGCCAAAAACCGTGATGATTAATACACGATTCCGGCTAAAAACTGACC
* *
44339 CGAAAAGGTTTTTCCCAATTTTTTGCCACAATATTCAGAAAAAATATATAATTCAACGTCAAAAA
1 CGAAAATGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAA
*
44404 GATTGACGGGTTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
66 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
* * * ** * *
44469 AATCGGAACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGTTGACATTTGGT
131 AATCGGAACAAGATTCAGATGCT-CGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGT
** *
44534 TCGATGAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTAAGTCGGGGCTC
195 TCGAAAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTC
* **
44599 CGAAACGCGTTTTTAGCCAAAAACTGTGATGATTGCTACACGATTCCGGCTAAAAACTGACC
260 CGAAACGCGTTTTTAGCCAAAAACCGTGATGATTAATACACGATTCCGGCTAAAAACTGACC
* * * * *
44661 CGAAAATTTTTTTCTCAATTTTTTGGCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAA
1 CGAAAATGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAA
44726 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
66 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
* * * ** *
44791 AATCGGAACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGT
131 AATCGGAACAAGATTCAGATGCT-CGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGT
* ** *
44856 TTGATGAATATAGGTATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCTC
195 TCGAAAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTC
* * *
44921 TGAAACGCGTTTTTAGCCAAAACCCGTGATGATTAGTACACGATTCCGGCT-AAAACTGACC
260 CGAAACGCGTTTTTAGCCAAAAACCGTGATGATTAATACACGATTCCGGCTAAAAACTGACC
44982 C
1 C
44983 CAGAACGCGT
Statistics
Matches: 1743, Mismatches: 144, Indels: 62
0.89 0.07 0.03
Matches are distributed among these distances:
309 41 0.02
310 58 0.03
311 2 0.00
312 169 0.10
314 1 0.00
316 10 0.01
317 10 0.01
319 203 0.12
320 120 0.07
321 514 0.29
322 517 0.30
323 29 0.02
324 69 0.04
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (321 bp):
CGAAAATGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAA
GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
AATCGGAACAAGATTCAGATGCTCGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
CGAAAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCC
GAAACGCGTTTTTAGCCAAAAACCGTGATGATTAATACACGATTCCGGCTAAAAACTGACC
Found at i:44650 original size:643 final size:643
Alignment explanation
Indices: 42745--44982 Score: 3577
Period size: 643 Copynumber: 3.5 Consensus size: 643
42735 AAAATTGAGT
* *
42745 CGAAAATTTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAA
1 CGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
*
42810 GATTGACGAGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
66 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
*
42875 AATCGAAACAAGATTCAGACGCTCGAAAAGAAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
131 AATCGAAACAAGATTCAGATGCTCGAAAAGAAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
**
42940 CGAAAAATGTACATA-TTCAA-GAGAATTTGCGCTAAAAATCATGCAAAATTGAGCCGGGGCTCG
196 CGAAAAATGTACATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGCCGGGGCTCG
*
43003 AAAACGCGTTTTAATCCAAAAACCGTAGTGGTTAATACACGATTTCGGCTAAAAACTGACCCGAA
261 AAAACGCGTTTTAAGCCAAAAACCGTAGTGGTTAATACACGATTTCGGCTAAAAACTGACCCGAA
*
43068 AAGTTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAAGATT
326 AAGGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAAGATT
*
43133 GACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATC
391 GACGGGTTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATC
* * * ** *
43198 GAAACAAGATTCAGATGCT-CGAAAAGCAAATCCTTATATCGAATAAGGCTGAGATTTGGTTCGA
456 GGAACAAGATTCAGATGCTCCTAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGA
**
43262 AAAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAA
521 TGAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAA
* *
43327 ATGCGTTTTTAGCCAAAAACCGTG--G--TGATAC-CGATT----C---AAATTGACC
586 ACGCGTTTTTAGCCAAAAACCGTGATGATTGATACACGATTCCGGCTAAAAACTGACC
* *
43373 CGAAAGTTTTTTTCTCAATTTTTTACCACAATACTCAGAAAAAAATATATAATTCAACGCCAAAA
1 CGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAAATATATAATTCAACGCCAAAA
* * * * * * *
43438 ATATTGAAGGGTTTTTCAAGCTTCTAATATAGTTTTTCCAAATTTTATTCCGAATTAATTTCTAA
65 AGATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTAATTTCTAA
* * *
43503 TTAAATCGGAACAAGATTGAGATGCTCGAAAAGAAAATCCTTATATCGAATAAGTCTGAGATTTG
128 TTAAATCGAAACAAGATTCAGATGCTCGAAAAGAAAATCCTTATATCGAATAAGGCTGAGATTTG
*
43568 GTTCGAAAAATGTACATATTTCAAGGAGCCTTTGCGCTAAAAATCATGCAAAATTGAGCCGGGGC
193 GTTCGAAAAATGTACATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGCCGGGGC
43633 TCGAAAACGCGTTTTAAGCCAAAAACCGTAGTGGTTAATACACGATTTCGGCTAAAAACTGACCC
258 TCGAAAACGCGTTTTAAGCCAAAAACCGTAGTGGTTAATACACGATTTCGGCTAAAAACTGACCC
*
43698 GAAAA-GTTTTTCCCAA-TTTTTGCCACAATACTCAG-AAAAATATATAATTCAACGTCAAAAAT
323 GAAAAGGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAAG
* * * * * *
43760 ATTGAAGGGTTTTTCAAGCTTCTAATATAGTTTTTCCAAATTTTATTCCGAATTAATTTCTAGTT
388 ATTGACGGGTTTATCACGCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTAATTTCTAATT
43825 AAATCGGAACAAGATTCAGATGCTCCTAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTGG
451 AAATCGGAACAAGATTCAGATGCTCCTAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTGG
43890 TTCGATGAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCT
516 TTCGATGAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCT
*
43955 CCGAAACGCGTTTTTAGCCAAAAACCGTGATGATT-ATTACACGATTCCGGCTAAAAACTGATC
581 CCGAAACGCGTTTTTAGCCAAAAACCGTGATGATTGA-TACACGATTCCGGCTAAAAACTGACC
*
44018 CGAAAATTTTTTTCTCAATTTTTTGGCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
1 CGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
*
44083 GATTGACGGCCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
66 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
44148 AATCGAAACAAGATTCAGATGCTCGAAAAGAAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
131 AATCGAAACAAGATTCAGATGCTCGAAAAGAAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
*
44213 CGAAAAATGTACATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCG
196 CGAAAAATGTACATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGCCGGGGCTCG
* *
44278 AAAACGCGTTTTAAGCCAAAAACCGTGGTGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAA
261 AAAACGCGTTTTAAGCCAAAAACCGTAGTGGTTAATACACGATTTCGGCTAAAAACTGACCCGAA
*
44343 AAGGTTTTTCCCAATTTTTTGCCACAATATTCAGAAAAAATATATAATTCAACGTCAAAAAGATT
326 AAGGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAAGATT
44408 GACGGGTTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATC
391 GACGGGTTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATC
* *
44473 GGAACAAGATTCAGATGCTCCTAAAAACAAATCCTTATATCCAATGTGGTTGACATTTGGTTCGA
456 GGAACAAGATTCAGATGCTCCTAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGA
*
44538 TGAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTAAGTCGGGGCTCCGAA
521 TGAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAA
* *
44603 ACGCGTTTTTAGCCAAAAACTGTGATGATTGCTACACGATTCCGGCTAAAAACTGACC
586 ACGCGTTTTTAGCCAAAAACCGTGATGATTGATACACGATTCCGGCTAAAAACTGACC
* *
44661 CGAAAATTTTTTTCTCAATTTTTTGGCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAA
1 CGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
44726 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
66 GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
* * * ** *
44791 AATCGGAACAAGATTCAGATGCTCCTAAAA-ACAAATCCTTATATCCAATGTGGCTGACATTTGG
131 AATCGAAACAAGATTCAGATGCT-CGAAAAGA-AAATCCTTATATCGAATAAGGCTGAGATTTGG
* ** * ** * *
44855 TTTGATGAATATAGGTATTTCAAGGAGTCTTTGTGCTAAAAATCATGCAAAATTGAGTCGGGGCT
194 TTCGAAAAATGTACATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGCCGGGGCT
* * * * *
44920 CTG-AAACGCGTTTTTAGCCAAAACCCGT-GATGATTAGTACACGATTCCGGCT-AAAACTGACC
259 C-GAAAACGCGTTTTAAGCCAAAAACCGTAG-TGGTTAATACACGATTTCGGCTAAAAACTGACC
44982 C
322 C
44983 CAGAACGCGT
Statistics
Matches: 1491, Mismatches: 90, Indels: 43
0.92 0.06 0.03
Matches are distributed among these distances:
628 35 0.02
629 57 0.04
630 58 0.04
631 121 0.08
632 62 0.04
633 233 0.16
635 1 0.00
636 1 0.00
637 4 0.00
638 5 0.00
642 217 0.15
643 384 0.26
644 211 0.14
645 102 0.07
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (643 bp):
CGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
GATTGACGGGCTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTA
AATCGAAACAAGATTCAGATGCTCGAAAAGAAAATCCTTATATCGAATAAGGCTGAGATTTGGTT
CGAAAAATGTACATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGCCGGGGCTCG
AAAACGCGTTTTAAGCCAAAAACCGTAGTGGTTAATACACGATTTCGGCTAAAAACTGACCCGAA
AAGGTTTTTCCCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGTCAAAAAGATT
GACGGGTTTATCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATC
GGAACAAGATTCAGATGCTCCTAAAAGCAAATCCTTATATCCAATGTGGCTGACATTTGGTTCGA
TGAATATAGGTATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCGAA
ACGCGTTTTTAGCCAAAAACCGTGATGATTGATACACGATTCCGGCTAAAAACTGACC
Found at i:45968 original size:15 final size:16
Alignment explanation
Indices: 45948--45984 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
45938 AAGTTTCATG
*
45948 ATTATAAATTATA-AT
1 ATTATAAATTAAATAT
45963 ATTAT-AATTAAATAT
1 ATTATAAATTAAATAT
45978 ATTATAA
1 ATTATAA
45985 CCGAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 12 0.63
16 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAAATTAAATAT
Found at i:46433 original size:38 final size:38
Alignment explanation
Indices: 46391--46467 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
46381 TTCCCAATTA
*
46391 AAACTTTTGAATTCGTGATTTTATATAGTAGTGTATGT
1 AAACTTTTGAATTCGTGATTTTATATAGTACTGTATGT
*
46429 AAACTTTTGAGTTCGTGATTTTATATAGTACTGTATGT
1 AAACTTTTGAATTCGTGATTTTATATAGTACTGTATGT
46467 A
1 A
46468 TGTATTGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (38 bp):
AAACTTTTGAATTCGTGATTTTATATAGTACTGTATGT
Found at i:49136 original size:30 final size:30
Alignment explanation
Indices: 49102--49158 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
49092 GGAGGAATAA
49102 GTTCATTATCAGGAGGAGGAGGTGGAACTT
1 GTTCATTATCAGGAGGAGGAGGTGGAACTT
* *
49132 GTTCATTCTCAGGAGGAGGTGGTGGAA
1 GTTCATTATCAGGAGGAGGAGGTGGAA
49159 TCCACTCCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.11, G:0.39, T:0.26
Consensus pattern (30 bp):
GTTCATTATCAGGAGGAGGAGGTGGAACTT
Found at i:57206 original size:16 final size:16
Alignment explanation
Indices: 57187--57283 Score: 76
Period size: 16 Copynumber: 6.1 Consensus size: 16
57177 ACCATTTTGT
57187 TCTCGGAACTTAACTG
1 TCTCGGAACTTAACTG
*
57203 TCTCGAAACTTAACTG
1 TCTCGGAACTTAACTG
57219 --TCGGAACTTAACTG
1 TCTCGGAACTTAACTG
* * * *
57233 TAAACTC--TATTTCAAATT
1 T---CTCGGAACTT-AACTG
57251 TCTCGGAACTTAACTG
1 TCTCGGAACTTAACTG
*
57267 TCTCGAAACTTAACTG
1 TCTCGGAACTTAACTG
57283 T
1 T
57284 AAACTCTATT
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
14 13 0.21
15 3 0.05
16 34 0.55
17 6 0.10
18 4 0.06
19 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (16 bp):
TCTCGGAACTTAACTG
Found at i:57228 original size:14 final size:14
Alignment explanation
Indices: 57189--57233 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
57179 CATTTTGTTC
57189 TCGGAACTTAACTG
1 TCGGAACTTAACTG
*
57203 TCTCGAAACTTAACTG
1 --TCGGAACTTAACTG
57219 TCGGAACTTAACTG
1 TCGGAACTTAACTG
57233 T
1 T
57234 AAACTCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 14 0.52
16 13 0.48
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (14 bp):
TCGGAACTTAACTG
Found at i:57261 original size:48 final size:49
Alignment explanation
Indices: 57203--57302 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 49
57193 AACTTAACTG
*
57203 TCTCGAAACTTAACTG-TCGGAACTTAACTGTAAACTCTATTTCAAATT
1 TCTCGAAACTTAACTGCTCGAAACTTAACTGTAAACTCTATTTCAAATT
*
57251 TCTCGGAACTTAACTGTCTCGAAACTTAACTGTAAACTCTATTTCAAATT
1 TCTCGAAACTTAACTG-CTCGAAACTTAACTGTAAACTCTATTTCAAATT
57301 TC
1 TC
57303 AATCGCAACG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 15 0.31
50 33 0.69
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (49 bp):
TCTCGAAACTTAACTGCTCGAAACTTAACTGTAAACTCTATTTCAAATT
Found at i:89863 original size:16 final size:18
Alignment explanation
Indices: 89842--89878 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
89832 TAATGTTGCC
*
89842 AAACTTGCAA-TAAA-GT
1 AAACTTGAAACTAAATGT
89858 AAACTTGAAACTAAATGT
1 AAACTTGAAACTAAATGT
89876 AAA
1 AAA
89879 AGGATATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 4 0.22
18 5 0.28
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (18 bp):
AAACTTGAAACTAAATGT
Found at i:92949 original size:21 final size:20
Alignment explanation
Indices: 92899--92953 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 20
92889 AGATGCTCTT
*
92899 AAACATAATGAAGTTTGTGA
1 AAACATAATGAAGTTTCTGA
92919 AAA-A-AATGAAGTTTCT-A
1 AAACATAATGAAGTTTCTGA
92936 TAGAACATAATGAAGTTT
1 -A-AACATAATGAAGTTT
92954 ATGTTAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.03
18 12 0.40
19 3 0.10
20 4 0.13
21 10 0.33
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.31
Consensus pattern (20 bp):
AAACATAATGAAGTTTCTGA
Found at i:95633 original size:6 final size:7
Alignment explanation
Indices: 95607--95631 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
95597 TATGACTTTG
95607 TTTTTCT
1 TTTTTCT
95614 TTTTTCT
1 TTTTTCT
95621 TTTTTCT
1 TTTTTCT
95628 TTTT
1 TTTT
95632 CTCTCCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:97538 original size:5 final size:5
Alignment explanation
Indices: 97530--97554 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
97520 AAGTAAAGAG
97530 GGGTT GGGTT GGGTT GGGTT GGGTT
1 GGGTT GGGTT GGGTT GGGTT GGGTT
97555 TGATGACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.60, T:0.40
Consensus pattern (5 bp):
GGGTT
Found at i:97710 original size:7 final size:8
Alignment explanation
Indices: 97677--97712 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
97667 CAAGGAGGCA
97677 TGACAAAT
1 TGACAAAT
97685 TGACAAAT
1 TGACAAAT
97693 TGACAAAT
1 TGACAAAT
97701 TGAC-AAT
1 TGACAAAT
97708 TGACA
1 TGACA
97713 TGACCACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (8 bp):
TGACAAAT
Found at i:100889 original size:38 final size:38
Alignment explanation
Indices: 100836--100917 Score: 155
Period size: 38 Copynumber: 2.1 Consensus size: 38
100826 TCTCAATCAG
100836 AAATGAATAATGATATACAGCTTGAAGAGGGGATCAAGC
1 AAAT-AATAATGATATACAGCTTGAAGAGGGGATCAAGC
100875 AAATAATAATGATATACAGCTTGAAGAGGGGATCAAGC
1 AAATAATAATGATATACAGCTTGAAGAGGGGATCAAGC
100913 AAATA
1 AAATA
100918 TGAAGGGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 39 0.91
39 4 0.09
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (38 bp):
AAATAATAATGATATACAGCTTGAAGAGGGGATCAAGC
Found at i:101498 original size:25 final size:26
Alignment explanation
Indices: 101439--101504 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
101429 TACACTAATA
*
101439 AAATATTAAAAATAAAATATACTATTG
1 AAATATT-AAAATAATATATACTATTG
* * *
101466 TAAT-TTAAAATAATATGTATTATT-
1 AAATATTAAAATAATATATACTATTG
101490 AAATATTAAAA-AATA
1 AAATATTAAAATAATA
101505 AATGTATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 7 0.21
25 21 0.64
26 2 0.06
27 3 0.09
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (26 bp):
AAATATTAAAATAATATATACTATTG
Found at i:102047 original size:6 final size:6
Alignment explanation
Indices: 102036--102060 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
102026 CTTTCACTCT
102036 CTGCAA CTGCAA CTGCAA CTGCAA C
1 CTGCAA CTGCAA CTGCAA CTGCAA C
102061 AACCACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (6 bp):
CTGCAA
Found at i:104039 original size:31 final size:31
Alignment explanation
Indices: 104004--104067 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
103994 GAGTCTCAAA
* *
104004 TTAGGATTTTTGTGATTTCTAGAGGAAATTC
1 TTAGGATTTTTGTAATTTCTAGAGAAAATTC
104035 TTAGGATTTTTGTAATTTCTAGAGAAAATTC
1 TTAGGATTTTTGTAATTTCTAGAGAAAATTC
104066 TT
1 TT
104068 CACTGTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (31 bp):
TTAGGATTTTTGTAATTTCTAGAGAAAATTC
Found at i:107556 original size:2 final size:2
Alignment explanation
Indices: 107549--107583 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107539 AGTGGGAACT
107549 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
107584 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:118943 original size:2 final size:2
Alignment explanation
Indices: 118938--118962 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
118928 TCTCTCTCTC
118938 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
118963 GAAGACTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:125206 original size:14 final size:14
Alignment explanation
Indices: 125187--125226 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
125177 ATTCTACTTT
125187 TATAAA-AATTAATA
1 TATAAATAA-TAATA
125201 TATAAATAATAATA
1 TATAAATAATAATA
125215 -AT-AATAATAATA
1 TATAAATAATAATA
125227 ATACCATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 10 0.40
13 2 0.08
14 11 0.44
15 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TATAAATAATAATA
Found at i:125213 original size:3 final size:3
Alignment explanation
Indices: 125205--125229 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
125195 TTAATATATA
125205 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
125230 CCATTAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:133481 original size:15 final size:14
Alignment explanation
Indices: 133456--133486 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
133446 TTTTGATTGA
133456 TGAAAAACAGCTTT
1 TGAAAAACAGCTTT
133470 TGAAAGAACAGCTTT
1 TGAAA-AACAGCTTT
133485 TG
1 TG
133487 GATTTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (14 bp):
TGAAAAACAGCTTT
Found at i:144566 original size:7 final size:7
Alignment explanation
Indices: 144531--144565 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
144521 TTATTGGTGC
144531 TTCTCTT
1 TTCTCTT
144538 TTCTCTT
1 TTCTCTT
144545 TTCTCTT
1 TTCTCTT
144552 TTCT-TT
1 TTCTCTT
144558 TTCT-TT
1 TTCTCTT
144564 TT
1 TT
144566 TTAGCACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTCTCTT
Found at i:144615 original size:13 final size:14
Alignment explanation
Indices: 144590--144622 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
144580 ATTTTGTTCT
144590 TTTTTTCTCTTTTC
1 TTTTTTCTCTTTTC
144604 TTTTTTCT-TTTTC
1 TTTTTTCTCTTTTC
144617 TTTTTT
1 TTTTTT
144623 TAGCACAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTCTCTTTTC
Found at i:144622 original size:7 final size:7
Alignment explanation
Indices: 144590--144622 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
144580 ATTTTGTTCT
144590 TTTTTTC
1 TTTTTTC
*
144597 TCTTTTC
1 TTTTTTC
144604 TTTTTTC
1 TTTTTTC
144611 -TTTTTC
1 TTTTTTC
144617 TTTTTT
1 TTTTTT
144623 TAGCACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:144623 original size:14 final size:15
Alignment explanation
Indices: 144586--144623 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
144576 TCAGATTTTG
144586 TTCTTTTTTTCTCTT
1 TTCTTTTTTTCTCTT
144601 TTC-TTTTTTCT-TT
1 TTCTTTTTTTCTCTT
144614 TTCTTTTTTT
1 TTCTTTTTTT
144624 AGCACAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 14 0.64
15 3 0.14
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTCTTTTTTTCTCTT
Found at i:144676 original size:2 final size:2
Alignment explanation
Indices: 144660--144696 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
144650 AGCACAACTG
144660 AT AT -T AT AT AT -T AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
144697 GTAGTGCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:144682 original size:13 final size:13
Alignment explanation
Indices: 144660--144696 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
144650 AGCACAACTG
144660 ATAT-TATATATT
1 ATATATATATATT
144672 ATATATATATA-T
1 ATATATATATATT
144684 ATAATATATATAT
1 AT-ATATATATAT
144697 GTAGTGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATATATATATATT
Found at i:144684 original size:15 final size:15
Alignment explanation
Indices: 144660--144696 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
144650 AGCACAACTG
*
144660 ATAT-TATATATTAT
1 ATATATATATATAAT
144674 ATATATATATATAAT
1 ATATATATATATAAT
144689 ATATATAT
1 ATATATAT
144697 GTAGTGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATATATATATAAT
Found at i:147352 original size:3 final size:3
Alignment explanation
Indices: 147344--147371 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
147334 TCTGTCCTCT
147344 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
147372 CCCAAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:151736 original size:12 final size:12
Alignment explanation
Indices: 151719--151743 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
151709 ATGTTCTTGC
151719 TTCTTTTTTTTT
1 TTCTTTTTTTTT
151731 TTCTTTTTTTTT
1 TTCTTTTTTTTT
151743 T
1 T
151744 ATTCATAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:157576 original size:2 final size:2
Alignment explanation
Indices: 157569--157593 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
157559 GCAAATTGAG
157569 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
157594 TGGTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:157846 original size:6 final size:6
Alignment explanation
Indices: 157835--157863 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
157825 TACTTTAGCC
157835 AGCCAA AGCCAA AGCCAA AGCCAA AGCCA
1 AGCCAA AGCCAA AGCCAA AGCCAA AGCCA
157864 GCCGTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.34, G:0.17, T:0.00
Consensus pattern (6 bp):
AGCCAA
Found at i:174638 original size:5 final size:5
Alignment explanation
Indices: 174603--174637 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
174593 TTAGCACTGA
*
174603 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT AAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
174638 ATAGATATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
TAAAT
Found at i:186486 original size:14 final size:15
Alignment explanation
Indices: 186464--186494 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
186454 TTTTTGTTTT
186464 TTTTGGGGGGCGGGG
1 TTTTGGGGGGCGGGG
186479 TTTTGGGGGG-GGGG
1 TTTTGGGGGGCGGGG
186493 TT
1 TT
186495 GTTCTGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.00, C:0.03, G:0.65, T:0.32
Consensus pattern (15 bp):
TTTTGGGGGGCGGGG
Found at i:187171 original size:6 final size:6
Alignment explanation
Indices: 187160--187190 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
187150 CTGCTAATGT
187160 TGATGC TGATGC TGATGC TGATGC TGATGC T
1 TGATGC TGATGC TGATGC TGATGC TGATGC T
187191 TGTTCAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.35
Consensus pattern (6 bp):
TGATGC
Found at i:188678 original size:2 final size:2
Alignment explanation
Indices: 188673--188698 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
188663 GTCTGAGAGA
188673 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
188699 GGTCCCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:191644 original size:31 final size:31
Alignment explanation
Indices: 191607--191768 Score: 193
Period size: 31 Copynumber: 5.3 Consensus size: 31
191597 ACGATGCCCG
* *
191607 ACGTGGCATGCCATGTGTACCAAAAAGCGAC
1 ACGTGGCACGCCATGTGTACCAAAAAGTGAC
* * *
191638 ATGTGGCACGCCACGTGAACCAAAAAGTGAC
1 ACGTGGCACGCCATGTGTACCAAAAAGTGAC
**
191669 ACGTGGCACGCCAATGAATA--AAAAAGTGAC
1 ACGTGGCACGCC-ATGTGTACCAAAAAGTGAC
**
191699 ACGTGGCACGCCACATGTACCAAAAAGTGAC
1 ACGTGGCACGCCATGTGTACCAAAAAGTGAC
* * *
191730 ATGTGTCAAGCCATGTGTACCAAAAAGTGAC
1 ACGTGGCACGCCATGTGTACCAAAAAGTGAC
191761 ACGTGGCA
1 ACGTGGCA
191769 TGCCTCGTGC
Statistics
Matches: 107, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
29 3 0.03
30 22 0.21
31 79 0.74
32 3 0.03
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (31 bp):
ACGTGGCACGCCATGTGTACCAAAAAGTGAC
Found at i:191678 original size:26 final size:27
Alignment explanation
Indices: 191649--191708 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 27
191639 TGTGGCACGC
*
191649 CACG-TGAACCAAAAAGTGACACGTGG
1 CACGATGAACAAAAAAGTGACACGTGG
*
191675 CACGCCAATGAATAAAAAAGTGACACGTGG
1 CACG---ATGAACAAAAAAGTGACACGTGG
191705 CACG
1 CACG
191709 CCACATGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
30 24 0.86
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (27 bp):
CACGATGAACAAAAAAGTGACACGTGG
Found at i:191705 original size:61 final size:61
Alignment explanation
Indices: 191627--191798 Score: 181
Period size: 61 Copynumber: 2.9 Consensus size: 61
191617 CCATGTGTAC
* * *
191627 CAAAAAGCGACATGTGGCACGCCACGTGAACCAAAAAGTGACACGTGGCACGCCAATGAATA
1 CAAAAAGTGACACGTGGCACGCCACGTGAACCAAAAAGTGACACGTGCCACGCC-ATGAATA
* * * * * **
191689 -AAAAAGTGACACGTGGCACGCCACATGTACCAAAAAGTGACATGTGTCAAGCCATGTGTA
1 CAAAAAGTGACACGTGGCACGCCACGTGAACCAAAAAGTGACACGTGCCACGCCATGAATA
* * *
191749 CCAAAAAGTGACACGTGGCATGCCTCGTGCA-C-AAAAG-GACACGTGCCACG
1 -CAAAAAGTGACACGTGGCACGCCACGTGAACCAAAAAGTGACACGTGCCACG
191799 TGTTATTTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
59 10 0.11
60 10 0.11
61 47 0.51
62 25 0.27
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (61 bp):
CAAAAAGTGACACGTGGCACGCCACGTGAACCAAAAAGTGACACGTGCCACGCCATGAATA
Found at i:195831 original size:3 final size:3
Alignment explanation
Indices: 195823--195861 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
195813 ACACTCACTA
195823 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
195862 GGATTATGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:200435 original size:20 final size:20
Alignment explanation
Indices: 200410--200509 Score: 148
Period size: 20 Copynumber: 5.0 Consensus size: 20
200400 ATGGGGTTAC
200410 TTTGAGGAAAGTTCAATGTG
1 TTTGAGGAAAGTTCAATGTG
200430 TTTGAGGAAAGTTCAATGTG
1 TTTGAGGAAAGTTCAATGTG
*
200450 CTTGAGGAAAGTTCAATGTG
1 TTTGAGGAAAGTTCAATGTG
* *
200470 CTCGAGGAAAGTTCAATGT-
1 TTTGAGGAAAGTTCAATGTG
*
200489 TCTTGAGGGAAGTTCAATGTG
1 T-TTGAGGAAAGTTCAATGTG
200510 AATGCGCAGC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.32
Consensus pattern (20 bp):
TTTGAGGAAAGTTCAATGTG
Found at i:201103 original size:30 final size:30
Alignment explanation
Indices: 201067--201128 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
201057 GTTAATAAGC
201067 CATTAAAATTTGAGGGTATAAGAGAAAAGT
1 CATTAAAATTTGAGGGTATAAGAGAAAAGT
*
201097 CATTAAAATTTGAGGGTATAAGAGGAAAGT
1 CATTAAAATTTGAGGGTATAAGAGAAAAGT
201127 CA
1 CA
201129 AGATAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.26
Consensus pattern (30 bp):
CATTAAAATTTGAGGGTATAAGAGAAAAGT
Found at i:203698 original size:658 final size:656
Alignment explanation
Indices: 202371--204200 Score: 2797
Period size: 658 Copynumber: 2.8 Consensus size: 656
202361 GGACGGAGGG
* *
202371 ATCAGAATCTTGTTTCGATTTTATAATAAATTAATTCAGAAAAAAATAAGAAAAACGATATTCGA
1 ATCAGAATCTTGTTTCGATTTTATTATAAATTAATTC-GAAAAAAATAGGAAAAACGATATTCGA
* * * * **
202436 AGCGTG----CCCTTTAATATTTTTAGCATTAAAATATATAATTTTTACAAGTATCATGGCCAAA
65 AGCGTGAAATCCCTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCCAAA
* * *
202497 AATAATAGAAAAATTTTTTGGGTCT-GTTTTGTAAAATTTTAGCAGAAATCGTGTACGT-CA-CA
130 AATAAAAG-AAAATTTTTCGGGT-TAGTTTTGCAAAATTTTAGCAGAAATCGTGTAC-TCCATCA
*
202559 GTTTTTGGCAAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAATACT
192 GTTTTTGGCAAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACT
202624 CCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTAC
257 CCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTAC
*
202689 GAGCATCGGAATCTTATTTCGATTTTATTATATATTAATTCGAAAAAAATAGGAAAAACGATATT
322 GAGCATCGGAATCTTGTTTCGATTTTATTATATATTAATTCGAAAAAAATAGGAAAAACGATATT
* * *
202754 CGAAGCGTGAAATGCCCTTTAATATTTTTGGCATTGAATTATATAATTTTTACAAGTATTGTGGC
387 CGAAGCGTGAAATGCCCTTTAATATTTTTAGCATTGAAATATATAATTTTTACAAGTGTTGTGGC
* * *
202819 CAAAAATAATAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTTAGCAGAAATCGTGTATTAAC
452 CAAAAATAAAAGAAAAATTTTTCGGGTCAGTTTTGCAAAA-TTTTAGCAGAAATCGTGTACTAAC
* * *
202884 CATCATAGTTTTTGGCGAAAAACGCATTTCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGC
516 CATCACAGTTTTTGGCGAAAAACGCATTCCGGAACCCCGGCTCAGTTTTGCATGATTTTTTGCGC
* * * *
202949 CAAGTCTCCTTGAAATATCTATATTCATCTAACCAAATCTGAGCCACAACCGATTTAAGGATTTG
581 CAAGACTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTG
*
203014 TTTTTACGAGT
646 TTTTTACGAGC
203025 ATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAA
1 ATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAA
* * * *
203090 GCGTGAAATTCCCTTTAATATTTTTGGTATTGAATTATATGTTTTTTACATGTATTGTGGCAAAA
66 GCGTGAAA-TCCCTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCCAAA
* *
203155 AATAAAAGAAAATTTTGTCGGGTTAGTTTTACAAAATTTTAGCAGAAATCATGTACTCCATCACG
130 AATAAAAGAAAATTTT-TCGGGTTAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTCCATCA--
* * * * * * *
203220 GTTTTTGGCTAAAAACGCATTTCGGGACCCCAGCTCAATTTTACAT-ATTTTCTGCACCCAA-AC
192 GTTTTTGGCAAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGC-GCCAAGAC
* * *** * *
203283 TCCATGAAATATCTATATTCTTCTAACCGAAA-CTCAGCCACATTGGATTTAAAGATTTCTTTTT
256 TCCTTGAAATATCTATATTCATCTAACC-AAATCTCAGCCACAACCGATTTAAGGATTTGTTTTT
** ** * * * *
203347 -CTGAGTTTTAGAAACTTGTTTCGATTTTATTATAAATTAATTC-AGAAAAAATAGGAGAAACAA
320 AC-GAGCATCGGAATCTTGTTTCGATTTTATTATATATTAATTCGA-AAAAAATAGGAAAAACGA
203410 TATTCGAAGCGTGAAATGCCCTTTAATATTTTTAGCATTGAAATATATAATTTTTACAAGTGTTG
383 TATTCGAAGCGTGAAATGCCCTTTAATATTTTTAGCATTGAAATATATAATTTTTACAAGTGTTG
* *
203475 TGGCCAATAATAAAAGAAAAATTTTTCGGGTCA-ATTTGCAAAATTTTAGCAGAAATCGTGTACT
448 TGGCCAAAAATAAAAGAAAAATTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACT
203539 AACCATCACAGTTTTTGGCGAAAAACGCATTCCGGAACCCCGGCTCAGTTTTGCATGATTTTTTG
513 AACCATCACAGTTTTTGGCGAAAAACGCATTCCGGAACCCCGGCTCAGTTTTGCATGATTTTTTG
203604 CGCCAAGACTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGAT
578 CGCCAAGACTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGAT
203669 TTGTTTTTACGAGC
643 TTGTTTTTACGAGC
* *
203683 ATCGGAATCTTGTTTCGATTTTATTTTAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAA
1 ATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAA
203748 GCGTGAAATGCCCTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCCAAA
66 GCGTGAAAT-CCCTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCCAAA
*
203813 AATAAAAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCA
130 AATAAAAGAAAA-TTTTTCGGGTTAGTTTTGCAAAATTTTAGCAGAAATCGTGTACT--CCATC-
* *
203878 TAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGTCAAGA
191 -AGTTTTTGGCAAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGA
203943 CTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTT
255 CTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTT
204008 ACGAGCATCGGAATCTTGTTTCGATTTTATTATATATTAATTCGAAAAAAATAGGAAAAACGATA
320 ACGAGCATCGGAATCTTGTTTCGATTTTATTATATATTAATTCGAAAAAAATAGGAAAAACGATA
* * *
204073 TTCGAAGCGTGAAATGCCCTTTAATATTTTTTGTATTGAAATATATATTTTTTACAAGTGTTGTG
385 TTCGAAGCGTGAAATGCCCTTTAATATTTTTAGCATTGAAATATATAATTTTTACAAGTGTTGTG
204138 GCCAAAAATAAAAGAAAAAATTTTT-GGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACT
450 GCCAAAAATAAAAG-AAAAATTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACT
204201 CCGGGACCCC
Statistics
Matches: 1055, Mismatches: 93, Indels: 48
0.88 0.08 0.04
Matches are distributed among these distances:
653 32 0.03
654 36 0.03
657 11 0.01
658 414 0.39
659 17 0.02
660 257 0.24
661 245 0.23
662 43 0.04
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (656 bp):
ATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAA
GCGTGAAATCCCTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCCAAAA
ATAAAAGAAAATTTTTCGGGTTAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTCCATCAGTTT
TTGGCAAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTT
GAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGC
ATCGGAATCTTGTTTCGATTTTATTATATATTAATTCGAAAAAAATAGGAAAAACGATATTCGAA
GCGTGAAATGCCCTTTAATATTTTTAGCATTGAAATATATAATTTTTACAAGTGTTGTGGCCAAA
AATAAAAGAAAAATTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCA
CAGTTTTTGGCGAAAAACGCATTCCGGAACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGA
CTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTGTTTTT
ACGAGC
Found at i:203979 original size:331 final size:331
Alignment explanation
Indices: 202375--204200 Score: 2765
Period size: 331 Copynumber: 5.6 Consensus size: 331
202365 GGAGGGATCA
* *
202375 GAATCTTGTTTCGATTTTATAATAAATTAATTCAGAAAAAAATAAGAAAAACGATATTCGAAGC-
1 GAATCTTGTTTCGATTTTATTATAAATTAATTC-GAAAAAAATAGGAAAAACGATATTCGAAGCG
* * **
202439 -G---TGCCCTTTAATATTTTTAGCATTAAAATATATAATTTTTACAAGTATCATGGCCAAAAAT
65 TGAAATGCCCTTTAATATTTTTGGCATTGAAATATATAATTTTTACAAGTATTGTGGCCAAAAAT
* * * *
202500 AATAGAAAAATTTTTT-GGGTCTGTTTTGTAAAATTTTAGCAGAAATCGTG---T-A-CGTCACA
130 AAAAG-AAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCACA
* *
202559 GTTTTTGGCAAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAATACT
194 GTTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACT
202624 CCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTAC
259 CCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTAC
202689 GAGCATCG
324 GAGCATCG
* *
202697 GAATCTTATTTCGATTTTATTATATATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGT
1 GAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGT
*
202762 GAAATGCCCTTTAATATTTTTGGCATTGAATTATATAATTTTTACAAGTATTGTGGCCAAAAATA
66 GAAATGCCCTTTAATATTTTTGGCATTGAAATATATAATTTTTACAAGTATTGTGGCCAAAAATA
* * *
202827 ATAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTTAGCAGAAATCGTGTATTAACCATCATAG
131 AAAGAAAATTTTTTCGGGTCAGTTTTGCAAAA-TTTTAGCAGAAATCGTGTACTAACCATCACAG
* *
202892 TTTTTGGCGAAAAACGCATTTCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGTCTC
195 TTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTC
*
202957 CTTGAAATATCTATATTCATCTAACCAAATCTGAGCCACAACCGATTTAAGGATTTGTTTTTACG
260 CTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACG
* *
203022 AGTATCA
325 AGCATCG
203029 GAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGT
1 GAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGT
* * * ** * *
203094 GAAATTCCCTTTAATATTTTTGGTATTGAATTATATGTTTTTTACATGTATTGTGGCAAAAAATA
66 GAAATGCCCTTTAATATTTTTGGCATTGAAATATATAATTTTTACAAGTATTGTGGCCAAAAATA
* * * * *
203159 AAAGAAAATTTTGTCGGGTTAGTTTTACAAAATTTTAGCAGAAATCATGTACT--CCATCACGGT
131 AAAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCACAGT
* * * * * * *
203222 TTTTGGCTAAAAACGCATTTCGGGACCCCAGCTCAATTTTACAT-ATTTTCTGCACCCAA-ACTC
196 TTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGC-GCCAAGACTC
* * *** * *
203285 CATGAAATATCTATATTCTTCTAACCGAAA-CTCAGCCACATTGGATTTAAAGATTTCTTTTT-C
260 CTTGAAATATCTATATTCATCTAACC-AAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTAC
** **
203348 TGAGTTTTA
324 -GAGCATCG
* * *
203357 GAAACTTGTTTCGATTTTATTATAAATTAATTC-AGAAAAAATAGGAGAAACAATATTCGAAGCG
1 GAATCTTGTTTCGATTTTATTATAAATTAATTCGA-AAAAAATAGGAAAAACGATATTCGAAGCG
* * *
203421 TGAAATGCCCTTTAATATTTTTAGCATTGAAATATATAATTTTTACAAGTGTTGTGGCCAATAAT
65 TGAAATGCCCTTTAATATTTTTGGCATTGAAATATATAATTTTTACAAGTATTGTGGCCAAAAAT
* *
203486 AAAAGAAAAATTTTTCGGGTCA-ATTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCACAG
130 AAAAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCACAG
*
203550 TTTTTGGCGAAAAACGCATTCCGGAACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTC
195 TTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTC
* *
203615 CTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTGTTTTTACG
260 CTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACG
203680 AGCATCG
325 AGCATCG
*
203687 GAATCTTGTTTCGATTTTATTTTAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGT
1 GAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGT
* *
203752 GAAATGCCCTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCCAAAAATA
66 GAAATGCCCTTTAATATTTTTGGCATTGAAATATATAATTTTTACAAGTATTGTGGCCAAAAATA
*
203817 AAAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCATAGT
131 AAAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCACAGT
*
203882 TTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGTCAAGACTCC
196 TTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCC
203947 TTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGA
261 TTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGA
204012 GCATCG
326 GCATCG
*
204018 GAATCTTGTTTCGATTTTATTATATATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGT
1 GAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGT
* * * *
204083 GAAATGCCCTTTAATATTTTTTGTATTGAAATATATATTTTTTACAAGTGTTGTGGCCAAAAATA
66 GAAATGCCCTTTAATATTTTTGGCATTGAAATATATAATTTTTACAAGTATTGTGGCCAAAAATA
*
204148 AAAGAAAAAATTTTT-GGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACT
131 AAAG-AAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACT
204201 CCGGGACCCC
Statistics
Matches: 1362, Mismatches: 117, Indels: 41
0.90 0.08 0.03
Matches are distributed among these distances:
321 29 0.02
322 30 0.02
323 1 0.00
325 10 0.01
326 75 0.06
327 47 0.03
328 200 0.15
329 109 0.08
330 205 0.15
331 361 0.27
332 295 0.22
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (331 bp):
GAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGT
GAAATGCCCTTTAATATTTTTGGCATTGAAATATATAATTTTTACAAGTATTGTGGCCAAAAATA
AAAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCACAGT
TTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCC
TTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGA
GCATCG
Found at i:205753 original size:330 final size:330
Alignment explanation
Indices: 204398--206838 Score: 4101
Period size: 330 Copynumber: 7.4 Consensus size: 330
204388 GCCTTTTAAT
* *
204398 ATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCGAAAAAACGCATTCCGGAACCCCG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCG-AAAAACGCATTCCGGGACCCCG
* *
204463 GCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAGTATCTATATTCATCTAAACAAATC
65 GCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
* * * *
204528 TCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCAGAATATTGTTTCGATTTTGTTATA
130 TCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATA
* * *
204593 AATTAATTCGAAATAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCTTTTAAAATTTTTGGC
195 AATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGC
* * * *
204658 ATTGAATTATATATTTTTTACAAGTGTTGTGGCCAATAATAAAAGAAAAATTTTTCGGGACAGTT
260 ATTGAATTATATATTTTTT-CAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTT
204723 TTGCAAA
324 TTGCAAA
* *
204730 ATTTTAGCAGAAAT--T-T--T-AGCATCACAGTTTTTGGCGATAAACGCATTCCGGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
* * *
204789 CTCAGTTTTGCATGATTTTTTGCGCCAAGACACCTTGAAATATATAAATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
*
204854 CAGCCACAACCGATTTATGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
*
204919 ATTAATTCGAAAAAAATAGGAAAAACGATATTTGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
196 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
* * *
204984 TTGAATTATATATTTTTTCAAAGTATTGTGGCAAAAAATAAAAGAAAATTTTTTTGGGTCAGATT
261 TTGAATTATATATTTTTTC-AAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTT
205049 TGCAAA
325 TGCAAA
* * *
205055 ATTTTAGCA-AAA------A-T---CGTCACAGTTTTTGGCGAAAATCGCATTCCAGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
205109 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
*
205174 CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
205239 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
196 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
*
205304 TTGAATTATATATTTTTTACAAGTATTGTGGCCAAAAATAATAGAAAATTTTTTCGGGTCAGTTT
261 TTGAATTATATATTTTTT-CAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTT
205369 TGCAAA
325 TGCAAA
*
205375 ATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
205440 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
*
205505 CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
205570 ATTAATTCG-AAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
196 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
* *
205634 TTGAATTATATATTTTTCTCAAGTGTTTTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTT
261 TTGAATTATATATTTTT-TCAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTT
205699 TGCAAA
325 TGCAAA
205705 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
* *
205770 CTCAGTTTTACATGATTTTTTGCGCCAAGACTCCTTGAAATATATATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
*
205835 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCAGCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
* * * *
205900 ATTAATTTGAAAAAAAAAATAGGAAAAATGATATTTGAAGCGTGAAATGCCCTTTAATATTTTTA
196 ATTAATTCG---AAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTG
* * * *
205965 GCATTGAATTATATATTTTTTAAATGTATTGTAGCCAAAAATAAAAGAAAAATTTTCCGGGTCAG
258 GCATTGAATTATATATTTTTTCAA-GTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAG
206030 TTTTGCAAA
322 TTTTGCAAA
*
206039 ATTTTAGCAGAAATCGTTTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
* *
206104 CTTATTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
*
206169 CAGCCATAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
*
206234 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGAGTGAAATGCCCTTTAATATTTTTGGCA
196 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
206299 TTGAATTATATATTTTTAATACAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGT
261 TTGAATTATATATTTTT--T-CAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGT
206364 TTTGCAAA
323 TTTGCAAA
206372 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
206437 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
206502 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
*
206567 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTAGCA
196 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
* *
206632 TTGAATTATATAATTTTTACAAGTATTGTGGCCAAAAATAATAGAAAATTTTTTCGGGTCAGTTT
261 TTGAATTATAT-ATTTTTTCAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTT
*
206697 TCCAAA
325 TGCAAA
* *
206703 ATTTTAGCAGAAAT-GTGTACTAACCATCACAGTTTTTGGCGATAAACGCATTCCAGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
* * *
206767 CTTAGTTTTGCATGATTTTTTGCGCCAAGACTCTTTGAAATATCTATATTAATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
206832 CAGCCAC
131 CAGCCAC
206839 CATCACAGTT
Statistics
Matches: 1994, Mismatches: 91, Indels: 50
0.93 0.04 0.02
Matches are distributed among these distances:
320 299 0.15
321 4 0.00
322 1 0.00
324 4 0.00
325 273 0.14
326 17 0.01
327 2 0.00
328 1 0.00
329 1 0.00
330 437 0.22
331 309 0.15
332 14 0.01
333 315 0.16
334 317 0.16
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (330 bp):
ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
TTGAATTATATATTTTTTCAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTTT
GCAAA
Found at i:206119 original size:664 final size:660
Alignment explanation
Indices: 204398--206838 Score: 4126
Period size: 664 Copynumber: 3.7 Consensus size: 660
204388 GCCTTTTAAT
* *
204398 ATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCGAAAAAACGCATTCCGGAACCCCG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCG-AAAAACGCATTCCGGGACCCCG
* *
204463 GCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAGTATCTATATTCATCTAAACAAATC
65 GCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
* * *
204528 TCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCAGAATATTGTTTCGATTTTGTTATA
130 TCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATA
* * * *
204593 AATTAATTCGAAATAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCTTTTAAAATTTTTGGC
195 AATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTAGC
* * *
204658 ATTGAATTATATATTTTTTACAAGTGTTGTGGCCAATAATAAAAGAAAAATTTTTCGGGACAGTT
260 ATTGAATTATATATTTTTTACAAGTATTGTGGCCAAAAATAAAAGAAAAATTTTTCGGGTCAGTT
* *
204723 TTGCAAAATTTTAGCAGAAAT-T-T--T-AGCATCACAGTTTTTGGCGATAAACGCATTCCGGGA
325 TTGCAAAATTTTAGCAGAAATGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGA
* * *
204783 CCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACACCTTGAAATATATAAATTCATCTAACC
390 CCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACC
*
204848 AAATCTCAGCCACAACCGATTTATGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTA
455 AAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTA
*
204913 TTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTTGAAGCGTGAAATGCCCTTTAATATTT
520 TTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTT
* *
204978 TTGGCATTGAATTATATATTTTTTCAAAGTATTGTGGCAAAAAATAAAAGAAAATTTTTTTGGGT
585 TTGGCATTGAATTATATATTTTTTC-AAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGT
*
205043 CAGATTTGCAAA
649 CAGTTTTGCAAA
* * *
205055 ATTTTAGCA-AAA------A-T---CGTCACAGTTTTTGGCGAAAATCGCATTCCAGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
205109 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
205174 CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
*
205239 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
196 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTAGCA
* *
205304 TTGAATTATATATTTTTTACAAGTATTGTGGCCAAAAATAATAGAAAATTTTTTCGGGTCAGTTT
261 TTGAATTATATATTTTTTACAAGTATTGTGGCCAAAAATAAAAGAAAAATTTTTCGGGTCAGTTT
*
205369 TGCAAAATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCGAAAAACGCATTCCGGGA
326 TGCAAAATTTTAGCAGAAAT-GTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGA
205434 CCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACC
390 CCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACC
*
205499 AAATCTCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTA
455 AAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTA
205564 TTATAAATTAATTCG-AAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTT
520 TTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTT
* *
205628 TTGGCATTGAATTATATATTTTTCTCAAGTGTTTTGGCCAAAAATAAAAGAAAATTTTTTCGGGT
585 TTGGCATTGAATTATATATTTTT-TCAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGT
205693 CAGTTTTGCAAA
649 CAGTTTTGCAAA
205705 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
* *
205770 CTCAGTTTTACATGATTTTTTGCGCCAAGACTCCTTGAAATATATATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
* *
205835 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCAGCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
* * *
205900 ATTAATTTGAAAAAAAAAATAGGAAAAATGATATTTGAAGCGTGAAATGCCCTTTAATATTTTTA
196 ATTAATTCG---AAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTA
* *
205965 GCATTGAATTATATATTTTTTA-AATGTATTGTAGCCAAAAATAAAAGAAAAATTTTCCGGGTCA
258 GCATTGAATTATATATTTTTTACAA-GTATTGTGGCCAAAAATAAAAGAAAAATTTTTCGGGTCA
*
206029 GTTTTGCAAAATTTTAGCAGAAATCGTTTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCC
322 GTTTTGCAAAATTTTAGCAGAAAT-GTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCC
* *
206094 GGGACCCCGGCTTATTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCT
386 GGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCT
*
206159 AACCAAATCTCAGCCATAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGAT
451 AACCAAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGAT
*
206224 TTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGAGTGAAATGCCCTTTAAT
516 TTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAAT
206289 ATTTTTGGCATTGAATTATATATTTTTAATACAAGTATTGTGGCCAAAAATAAAAGAAAATTTTT
581 ATTTTTGGCATTGAATTATATATTTTT--T-CAAGTATTGTGGCCAAAAATAAAAGAAAATTTTT
206354 TCGGGTCAGTTTTGCAAA
643 TCGGGTCAGTTTTGCAAA
206372 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
206437 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
*
206502 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
206567 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTAGCA
196 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTAGCA
* * *
206632 TTGAATTATATAATTTTTACAAGTATTGTGGCCAAAAATAATAGAAAATTTTTTCGGGTCAGTTT
261 TTGAATTATATATTTTTTACAAGTATTGTGGCCAAAAATAAAAGAAAAATTTTTCGGGTCAGTTT
* * *
206697 TCCAAAATTTTAGCAGAAATGTGTACTAACCATCACAGTTTTTGGCGATAAACGCATTCCAGGAC
326 TGCAAAATTTTAGCAGAAATGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGAC
* * *
206762 CCCGGCTTAGTTTTGCATGATTTTTTGCGCCAAGACTCTTTGAAATATCTATATTAATCTAACCA
391 CCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCA
206827 AATCTCAGCCAC
456 AATCTCAGCCAC
206839 CATCACAGTT
Statistics
Matches: 1682, Mismatches: 76, Indels: 46
0.93 0.04 0.03
Matches are distributed among these distances:
645 287 0.17
646 15 0.01
647 1 0.00
648 1 0.00
649 1 0.00
650 128 0.08
651 178 0.11
656 3 0.00
657 10 0.01
658 1 0.00
661 171 0.10
663 117 0.07
664 445 0.26
665 73 0.04
666 1 0.00
667 250 0.15
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (660 bp):
ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTAGCA
TTGAATTATATATTTTTTACAAGTATTGTGGCCAAAAATAAAAGAAAAATTTTTCGGGTCAGTTT
TGCAAAATTTTAGCAGAAATGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGAC
CCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCA
AATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTAT
TATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTT
TGGCATTGAATTATATATTTTTTCAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCA
GTTTTGCAAA
Found at i:206556 original size:997 final size:979
Alignment explanation
Indices: 204398--206838 Score: 4183
Period size: 997 Copynumber: 2.5 Consensus size: 979
204388 GCCTTTTAAT
*
204398 ATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCGAAAAAACGCATTCCGGAACCCCG
1 ATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCG-AAAAACGCATTCCGGGACCCCG
* *
204463 GCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAGTATCTATATTCATCTAAACAAATC
65 GCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
* * *
204528 TCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCAGAATATTGTTTCGATTTTGTTATA
130 TCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATA
* *
204593 AATTAATTCGAAATAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCTTTTAAAATTTTTGGC
195 AATTAATTCGAAA-AAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGC
* * *
204658 ATTGAATTATATATTTTTTACAAGTGTTGTGGCCAATAATAAAAGAAAAATTTTTCGGGACAGTT
259 ATTGAATTATATATTTTTT-CAAGTGTTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTT
*
204723 TTGCAAAATTTTAGCAGAAAT-T-T--T-AGCATCACAGTTTTTGGCGATAAACGCATTCCGGGA
323 TTGCAAAATTTTAGCAGAAATGTGTACTAACCATCACAGTTTTTGGCGATAAACGCATTCCGGGA
* *
204783 CCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACACCTTGAAATATATAAATTCATCTAACC
388 CCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATATATATTCATCTAACC
* *
204848 AAATCTCAGCCACAACCGATTTATGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTA
453 AAATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCAGCGGAATCTTGTTTCGATTTTA
204913 TTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTTGAAGCGTGAAATGCCCTTTAATATTT
518 TTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTTGAAGCGTGAAATGCCCTTTAATATTT
* * * **
204978 TTGGCATTGAATTATATATTTTTTCAAAGTATTGTGGCAAAAAATAAAAGAAAATTTTTTTGGGT
583 TTAGCATTGAATTATATATTTTTTCAAAGTATTGTAGCAAAAAATAAAAGAAAAATTTTCCGGGT
* *
205043 CAGATTTGCAAAATTTTAGCAAAAATCGTCACAGTTTTTGGCGAAAATCGCATTCCAGGACCCCG
648 CAGATTTGCAAAATTTTAGCAAAAATCATCACAGTTTTTGGCGAAAAACGCATTCCAGGACCCCG
205108 GCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
713 GCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
205173 TCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATA
778 TCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATA
*
205238 AATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGC
843 AATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGAGTGAAATGCCCTTTAATATTTTTGGC
*
205303 ATTGAATTATATATTTTTTACAAGTATTGTGGCCAAAAATAATAGAAAATTTTTTCGGGTCAGTT
908 ATTGAATTATATATTTTTTACAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTT
205368 TTGCAAA
973 TTGCAAA
205375 ATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
205440 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
205505 CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
205570 ATTAATTCGAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCAT
196 ATTAATTCGAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCAT
*
205635 TGAATTATATATTTTTCTCAAGTGTTTTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTTT
261 TGAATTATATATTTTT-TCAAGTGTTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTTT
*
205700 GCAAAATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGAC
325 GCAAAATTTTAGCAGAAAT-GTGTACTAACCATCACAGTTTTTGGCGATAAACGCATTCCGGGAC
*
205765 CCCGGCTCAGTTTTACATGATTTTTTGCGCCAAGACTCCTTGAAATATATATATTCATCTAACCA
389 CCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATATATATTCATCTAACCA
205830 AATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCAGCGGAATCTTGTTTCGATTTTAT
454 AATCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCAGCGGAATCTTGTTTCGATTTTAT
* *
205895 TATAAATTAATTTGAAAAAAAAAATAGGAAAAATGATATTTGAAGCGTGAAATGCCCTTTAATAT
519 TATAAATTAATTCG---AAAAAAATAGGAAAAACGATATTTGAAGCGTGAAATGCCCTTTAATAT
*
205960 TTTTAGCATTGAATTATATATTTTTT-AAATGTATTGTAGCCAAAAATAAAAGAAAAATTTTCCG
581 TTTTAGCATTGAATTATATATTTTTTCAAA-GTATTGTAGCAAAAAATAAAAGAAAAATTTTCCG
*
206024 GGTCAGTTTTGCAAAATTTTAGCAGAAATCGTTTACTAACCATCACAGTTTTTGGCGAAAAACGC
645 GGTCAGATTTGCAAAATTTTAGCA-AAA------A-T---CATCACAGTTTTTGGCGAAAAACGC
* * *
206089 ATTCCGGGACCCCGGCTTATTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATT
699 ATTCCAGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATT
* *
206154 CATCTAACCAAATCTCAGCCATAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTT
764 CATCTAACCAAATCTCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTT
206219 TCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGAGTGAAATGCCCT
829 TCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGAGTGAAATGCCCT
206284 TTAATATTTTTGGCATTGAATTATATATTTTTAATACAAGTATTGTGGCCAAAAATAAAAGAAAA
894 TTAATATTTTTGGCATTGAATTATATATTTTT--TACAAGTATTGTGGCCAAAAATAAAAGAAAA
206349 TTTTTTCGGGTCAGTTTTGCAAA
957 TTTTTTCGGGTCAGTTTTGCAAA
*
206372 ATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
1 ATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
206437 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
*
206502 CAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
131 CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
*
206567 ATTAATTCGAAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTAGCA
196 ATTAATTCG-AAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCA
* * *
206632 TTGAATTATATAATTTTTACAAGTATTGTGGCCAAAAATAATAGAAAATTTTTTCGGGTCAGTTT
260 TTGAATTATAT-ATTTTTTCAAGTGTTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTT
* *
206697 TCCAAAATTTTAGCAGAAATGTGTACTAACCATCACAGTTTTTGGCGATAAACGCATTCCAGGAC
324 TGCAAAATTTTAGCAGAAATGTGTACTAACCATCACAGTTTTTGGCGATAAACGCATTCCGGGAC
* * * *
206762 CCCGGCTTAGTTTTGCATGATTTTTTGCGCCAAGACTCTTTGAAATATCTATATTAATCTAACCA
389 CCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATATATATTCATCTAACCA
206827 AATCTCAGCCAC
454 AATCTCAGCCAC
206839 CATCACAGTT
Statistics
Matches: 1386, Mismatches: 52, Indels: 32
0.94 0.04 0.02
Matches are distributed among these distances:
975 129 0.09
976 160 0.12
977 43 0.03
978 1 0.00
980 1 0.00
981 173 0.12
983 3 0.00
984 124 0.09
985 3 0.00
991 1 0.00
992 1 0.00
995 244 0.18
997 370 0.27
998 127 0.09
999 6 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (979 bp):
ATTTTAGCAGAAATCGTGTACTAACCATCATAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGG
CTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
CAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAA
ATTAATTCGAAAAAATAGGAAAAACGATATTCGAAGCGTGAAATGCCCTTTAATATTTTTGGCAT
TGAATTATATATTTTTTCAAGTGTTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTTTG
CAAAATTTTAGCAGAAATGTGTACTAACCATCACAGTTTTTGGCGATAAACGCATTCCGGGACCC
CGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATATATATTCATCTAACCAAA
TCTCAGCCACAACCGATTTAAGGATTTGTTTTTACGAGCAGCGGAATCTTGTTTCGATTTTATTA
TAAATTAATTCGAAAAAAATAGGAAAAACGATATTTGAAGCGTGAAATGCCCTTTAATATTTTTA
GCATTGAATTATATATTTTTTCAAAGTATTGTAGCAAAAAATAAAAGAAAAATTTTCCGGGTCAG
ATTTGCAAAATTTTAGCAAAAATCATCACAGTTTTTGGCGAAAAACGCATTCCAGGACCCCGGCT
CAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCA
GCCACAACCGACTTAAGGATTTGTTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAAAT
TAATTCGAAAAAAATAGGAAAAACGATATTCGAAGAGTGAAATGCCCTTTAATATTTTTGGCATT
GAATTATATATTTTTTACAAGTATTGTGGCCAAAAATAAAAGAAAATTTTTTCGGGTCAGTTTTG
CAAA
Found at i:206922 original size:112 final size:112
Alignment explanation
Indices: 206725--207062 Score: 606
Period size: 112 Copynumber: 3.0 Consensus size: 112
206715 ATGTGTACTA
*
206725 ACCATCACAGTTTTTGGCGATAAACGCATTCCAGGACCCCGGCTTAGTTTTGCATGATTTTTTGC
1 ACCATCACAGTTTTTGGCGAAAAACGCATTCCAGGACCCCGGCTTAGTTTTGCATGATTTTTTGC
206790 GCCAAGACTCTTTGAAATATCTATATTAATCTAACCAAATCTCAGCC
66 GCCAAGACTCTTTGAAATATCTATATTAATCTAACCAAATCTCAGCC
206837 ACCATCACAGTTTTTGGCGAAAAACGCATTCCAGGACCCCGGCTTAGTTTTGCATGATTTTTTGC
1 ACCATCACAGTTTTTGGCGAAAAACGCATTCCAGGACCCCGGCTTAGTTTTGCATGATTTTTTGC
206902 GCCAAGACTCTTTGAAATATCTATATTAATCTAACCAAATCTCAGCC
66 GCCAAGACTCTTTGAAATATCTATATTAATCTAACCAAATCTCAGCC
* * *
206949 ACCATCACAGTTTTTGGCGAAAAACGCATTTCGGGACCCCGGCTAAGTTTTGCATGATTTTTTGC
1 ACCATCACAGTTTTTGGCGAAAAACGCATTCCAGGACCCCGGCTTAGTTTTGCATGATTTTTTGC
* *
207014 GCCAAGACT-TCTTGAAATATCTATATTCATCTAACCAAATCTCAACC
66 GCCAAGACTCT-TTGAAATATCTATATTAATCTAACCAAATCTCAGCC
207061 AC
1 AC
207063 AACCGATTTA
Statistics
Matches: 219, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
111 1 0.00
112 218 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (112 bp):
ACCATCACAGTTTTTGGCGAAAAACGCATTCCAGGACCCCGGCTTAGTTTTGCATGATTTTTTGC
GCCAAGACTCTTTGAAATATCTATATTAATCTAACCAAATCTCAGCC
Found at i:208373 original size:331 final size:331
Alignment explanation
Indices: 207253--208482 Score: 1957
Period size: 331 Copynumber: 3.7 Consensus size: 331
207243 AGTTTTACCA
* *
207253 ATCACAATTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCACGATTTTTTGCGCC
1 ATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCC
* * * * *
207318 AAGAATCCTTGAAATATATATATTCATCTAACCAAATCTCAGCCACAACCGATTTAAAGATTTGT
66 AAGACTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTGT
*
207383 TTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCG-AAAAAATAGGAAAAAT
131 TTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAAC
* * * *
207447 GATATTCGTAGCGTGAAATGACC-CTTAATCTTTTTGGCATTGAATTATATATTTTTTAAAAGTG
196 GATATTCGAAGCGTGAAATG-CCTTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTG
* * * * *
207511 TTTTGGCTAAAAACAAAGGAAATTTTTTTTTCGGTTCAGTTTTGCAAAATTTTAGCAGAAATCGT
260 TTTTGGCAAAAAATAAAAGAAA--ATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGT
* *
207576 GTAAGTTA-C
323 GT-ACTAACC
207585 ATCACAGTTTTTGGCGAAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGC
1 ATCACAGTTTTTGGCG-AAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGC
* * *
207650 CAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTGAGCCACAACCGATTTAAGGATTTG
65 CAAGACTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTG
*
207715 TTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAT
130 TTTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAA
*
207780 CGATATTCGAAGCGTGAAATGCCTTTTAATATTTTTGGCATTGAATTATATATTTTTTTCAAGTG
195 CGATATTCGAAGCGTGAAATGCCTTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTG
* * * *
207845 TTTTGGCCAATAATAAAAAAAAATTTTTT-GGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTCT
260 TTTTGGCAAAAAATAAAAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGT
*
207909 ACAAACC
325 ACTAACC
*
207916 ATCACAGTTTTTGGCGAAAAACGCATTCCGGAACCCCGGCTCAGTTTTGCATGATTTTTTGCGCC
1 ATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCC
* * * *
207981 ATGACTCCTAGAAGTATCTATATTCATCTAAAAAAATCTCAGCCACAACCGACTTAAGGATTTGT
66 AAGACTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTGT
* *
208046 TTTTTCGAGCATCGGAATCTTGTTTCGATTTTATTATAAATTACTTCGAAAAAAATAGGAAAAAC
131 TTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAAC
*
208111 GATATTCGAAGCGTGAAATGCCTTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTAT
196 GATATTCGAAGCGTGAAATGCCTTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTGT
* *
208176 TGTGGCAAAAAATAAAAGAAAATTTTTTCGGGTCAGATTTGCAAAATTTTAGCAGAAATCGTGTA
261 TTTGGCAAAAAATAAAAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTA
208241 CTAACC
326 CTAACC
* * * *
208247 ATCACAGTTTTTGGCGAAAATCGCATTCCAGGACCCCGGCTCAGTATTGCATGATTTTTTGCGTC
1 ATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCC
208312 AAGACTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTGT
66 AAGACTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTGT
208377 TTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAAC
131 TTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAAC
* * *
208442 GATATTC-ATAGCGTGAAATTCCCTTTAATATTTTTAGCATT
196 GATATTCGA-AGCGTGAAATGCCTTTTAATATTTTTGGCATT
208483 AAAAATTTTT
Statistics
Matches: 834, Mismatches: 58, Indels: 13
0.92 0.06 0.01
Matches are distributed among these distances:
330 258 0.31
331 309 0.37
332 21 0.03
333 159 0.19
334 87 0.10
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (331 bp):
ATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCC
AAGACTCCTTGAAATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTGT
TTTTACGAGCATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAAC
GATATTCGAAGCGTGAAATGCCTTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTGT
TTTGGCAAAAAATAAAAGAAAATTTTTTCGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTA
CTAACC
Found at i:208732 original size:289 final size:290
Alignment explanation
Indices: 208194--208771 Score: 957
Period size: 289 Copynumber: 2.0 Consensus size: 290
208184 AAAATAAAAG
*
208194 AAAATTTTTTCGGGTCAGATTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCACAGTTTTT
1 AAAATTTTTTCGGGTCAGATTTGCAAAATTTTAGCAGAAATCGTGTACAAACCATCACAGTTTTT
* * *
208259 GGCGAAAATCGCATTCCAGGACCCCGGCTCAGTATTGCATGATTTTTTGCGTCAAGACTCCTTGA
66 GGCGAAAAACGCATTCCAGGACCCCGGCTCAGTATTGCATGATTGTTTGCGCCAAGACTCCTTGA
*
208324 AATATCTATATTCATCTAAACAAATCTCAGCCACAACCGACTTAAGGATTTGTTTTTACGAGCAT
131 AATATCTATATTCATCTAAACAAATCTCAGACACAACCGACTTAAGGATTTGTTTTTACGAGCAT
*
208389 CGGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAATAGGAAAAACGATATTC-ATAG
196 CGGAATCTTGTTTCGATTTTATTATAAATTAATTCAAAAAAAATAGGAAAAACGATATTCGA-AG
* *
208453 CGTGAAATTCCCTTTAATATTTTTAGCATTA
260 CGCGAAATGCCCTTTAATATTTTTAGCATTA
208484 AAAATTTTTT-GGGTCA-ATTTTGCAAAATTTTAGCAGAAATCGTGTACAAACCATCACAGTTTT
1 AAAATTTTTTCGGGTCAGA-TTTGCAAAATTTTAGCAGAAATCGTGTACAAACCATCACAGTTTT
* * *
208547 TGGCGAAAAACGCATTCC-GGTAGCCTGGCTCAGTTTTGCATGATTGTTTGCGCCAAGACTCCTT
65 TGGCGAAAAACGCATTCCAGG-ACCCCGGCTCAGTATTGCATGATTGTTTGCGCCAAGACTCCTT
* * *
208611 GAAGTATCTATATTCATCTAACCAAATCTCAGACACAACCGACTTAAGGATTTGTTTTTTCGAGC
129 GAAATATCTATATTCATCTAAACAAATCTCAGACACAACCGACTTAAGGATTTGTTTTTACGAGC
208676 ATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCAAAAAAAATAGGAAAAACGATATTCGAA
194 ATCGGAATCTTGTTTCGATTTTATTATAAATTAATTCAAAAAAAATAGGAAAAACGATATTCGAA
* *
208741 GCGCGAAATGCCTTTTAATATTTTTGGCATT
259 GCGCGAAATGCCCTTTAATATTTTTAGCATT
208772 GAATTATATA
Statistics
Matches: 269, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
288 3 0.01
289 255 0.95
290 11 0.04
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (290 bp):
AAAATTTTTTCGGGTCAGATTTGCAAAATTTTAGCAGAAATCGTGTACAAACCATCACAGTTTTT
GGCGAAAAACGCATTCCAGGACCCCGGCTCAGTATTGCATGATTGTTTGCGCCAAGACTCCTTGA
AATATCTATATTCATCTAAACAAATCTCAGACACAACCGACTTAAGGATTTGTTTTTACGAGCAT
CGGAATCTTGTTTCGATTTTATTATAAATTAATTCAAAAAAAATAGGAAAAACGATATTCGAAGC
GCGAAATGCCCTTTAATATTTTTAGCATTA
Found at i:209339 original size:331 final size:329
Alignment explanation
Indices: 208484--211373 Score: 2624
Period size: 330 Copynumber: 8.7 Consensus size: 329
208474 TTTAGCATTA
* *
208484 AAAATTTTTT-GGGTCAATTTTGCAAAATTTTAGCAGAAATCGTGTACAAACCATCACAGTTTTT
1 AAAATTTTTTCGGGTCAATTTTGCAAAATTTTAGCAGAAATCGTGTACTAA-CATCACGGTTTTT
* * * * * *
208548 GGCGAAAAACGCATTCCGGTAGCCTGGCTCAGTTTTGCATGATTGTTTGCGCCAAGACTCCTTGA
65 GGCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGA
* * * *** * *
208613 AGTATCTATATTCATCTAACCAAATCTCAGACACAACCGACTTAAGGATTTGTTTTTTCGAGCAT
130 AATATCTATATTCTTCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCAT
* * *
208678 CGGAATCTTGTTTCGATTTTATTATAAATTAATTCAAAAAAAATAGGAAAAACGATATTCGAAGC
195 CAGAATCTTGTTTCGATTTTATTATAAATTAATTC-GAAAAAATAGGAAAAACAATATTCGAAGC
* * * * *
208743 GCGAAATG-CCTTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTGTTGTGGCCAATA
259 GTGAAATGACC-TTTAATCTTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCAAAAA
*
208807 ATAAAAGA
323 AT-AAAGG
* *
208815 AAAATTTTTT-GGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCAATCGTCACAGT
1 AAAATTTTTTCGGGTCAATTTTGCAAAATTTTAGCAGAAATCGTGTACTAA-C-A---TCACGGT
* * **
208879 TTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCAACAAGACTCC
61 TTTTGGCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCC
* * ****
208944 TTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAACCAATTTAAGGATTTGTTTTTACGA
126 TTGAAATATCTATATTCTTCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGA
* * *
209009 GCATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGGAAAAATAGGAAAAACTATATTCGT
191 GCATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAATAGGAAAAACAATATTCGA
* *
209074 AGCGTGAGATGACCTTTAATCTTTTTGGCATTGAATTATATATTTTTTACAAGTGTTGTGGCAAA
256 AGCGTGAAATGACCTTTAATCTTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCAAA
*
209139 AAACAAAGG
321 AAATAAAGG
* * * * * *
209148 AAATTTTTTTTCGGGACAGTTTTTCAAAATTTTAGCAGAAATCATGTATTAATCATCACGGTTTT
1 AAA-ATTTTTTCGGGTCAATTTTGCAAAATTTTAGCAGAAATCGTGTACTAA-CATCACGGTTTT
* * * * *
209213 TGGCTAAAAACGCGTTTCAGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAGGATTCCATG
64 TGGCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTG
* * * *
209278 AAATATCTATATTCTTCTAAATCAAA-CGT-GGTCACATTGGATTTAATGATTTGTTTTTACGAG
129 AAATATCTATATTCTTCT-AACCAAATC-TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAG
* * * *
209341 TATCAGAATCTTGTTTCTATTTTATTATAAATTAATTAAGAAAAAATA-GAAAAACAATATTCGT
192 CATCAGAATCTTGTTTCGATTTTATTATAAATTAATT-CGAAAAAATAGGAAAAACAATATTCGA
* *
209405 AGCGTGAAATGACCTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCCAA
256 AGCGTGAAATGACCTTTAATCTTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCAAA
*
209470 AAATAAAAG
321 AAATAAAGG
* * **
209479 AAAATTTTTTCGGATCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACTATCATAGTTTTT
1 AAAATTTTTTCGGGTCAATTTTGCAAAATTTTAGCAGAAATCGTGTACTAAC-ATCACGGTTTTT
* * * ** * *
209544 GGCGAAAAACGCATTCCGGGACCCCAGCTCAGTTTTTTATGATTTTTTGTGCCATA-ACTCCTTC
65 GGCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCA-AGACTCCTTG
* * *
209608 AAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTATGGATTTGTTTTTACGAGTA
129 AAATATCTATATTCTTCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA
* **
209673 TC-GAAATCTTGTTTCGATTTTATTATAAATTAATTCAAAAATAAAATAGGAAAAATTATATTCG
194 TCAG-AATCTTGTTTCGATTTTATTATAAATTAATTC--GAA-AAAATAGGAAAAACAATATTCG
* * *
209737 AAGCGTGAAATGCCCTTTAATCTTTTTGGCATTTAATTATATATTTTTTGCAAGTATTGTGGCAA
255 AAGCGTGAAATGACCTTTAATCTTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCAA
*
209802 AAATTAAAGG
320 AAAATAAAGG
** * * * *
209812 AAAATTTTTTCGAATCAGTCTTGCAAAGTTTTAGCAGAAATCGTGTACTAACCATCACGGGTTTT
1 AAAATTTTTTCGGGTCAATTTTGCAAAATTTTAGCAGAAATCGTGTACTAA-CATCACGGTTTTT
* * ** * * *
209877 GGCGAAAAACGAGTTCCGGGACCTTGGGTCAGTTTTGCATGATTTTTTGCACCAGGACTCCTTGA
65 GGCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGA
* * * * *
209942 AATATCTAT-TTTTATCTAACCAAATCTGATCCACATTGTATTTAAAGATTTTGTTTTTACGAGC
130 AATATCTATATTCT-TCTAACCAAATCTCAGCCACATTGGATTTAAGGA-TTTGTTTTTACGAGC
* * ** * * * * *
210006 AACAGAAACCGGTTTCGATTTAATTAGAAATTAATTCG--------GAAAAAACGATATTAGAAG
193 ATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAATAGGAAAAACAATATTCGAAG
* * * * * *** *
210063 CGTGAAAAG-CTCTTCAATATTTTT-G-ATGAAGAATAATATATTTTTTATGTGTAATGTGG-AG
258 CGTGAAATGAC-CTTTAATCTTTTTGGCAT--TGAATTATATATTTTTTACAAGTATTGTGGCA-
* *
210124 AAAAATTATGG
319 AAAAATAAAGG
**** * * * * *
210135 AAAAACCATTCGGGTTAATTCTTGCAAAATTTTAGCCGAAATCGTATACTATCTATTACGGTTTT
1 AAAATTTTTTCGGGTCAATT-TTGCAAAATTTTAGCAGAAATCGTGTACTAAC-ATCACGGTTTT
** ** * * * *
210200 TGGCTAAAAATACGTTCCAAGACCCCGGCTCAGTTTTGCATGATTTTTAGTGCCAAGAATTCTTG
64 TGGCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTG
* * * * * *
210265 AAATATCTATATT-TATCTAACTAAATCTCAGCAAAATTGAATTTAAGGATTTATTTTTATGAGC
129 AAATATCTATATTCT-TCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * * * * * *
210329 ATCTGAATTTTATTTCGA--TT-TTAGAAATTAAATTGGAAAAAATAGGAAAAAGAATATTTGAA
193 ATCAGAATCTTGTTTCGATTTTATTATAAATT-AATTCGAAAAAATAGGAAAAACAATATTCGAA
** * * ** ** *
210391 GCGCAAAAAGACCTTCAATCTTTTTGGTGTTGAATTATATATTTTTTTATGAGTATTGTGGCCAA
257 GCGTGAAATGACCTTTAATCTTTTTGGCATTGAATTATATA-TTTTTTACAAGTATTGTGGCAAA
**
210456 AAATTGAGG
321 AAATAAAGG
* * * * * * **
210465 AAAACTATTTCAGATCAATTTTTACAAAATTTTAGCCGAAATCGTGTAC--A-AT-ACGAATTTT
1 AAAATTTTTTCGGGTCAA-TTTTGCAAAATTTTAGCAGAAATCGTGTACTAACATCACGGTTTTT
* * ** * * * *
210526 GGCTCAATACGCGTTCCGAAACCCCGACTCGGTTTTGGATGATTTTTGGCGCCAAGACTCCTTGA
65 GGCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGA
*
210591 AATATCTATATT-TATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA
130 AATATCTATATTCT-TCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA
* ** * *
210655 TCAAAATCTTGTTTCGATTTTATTGGAAATTAATTCTGAAAAAATAAATTGGAAAAGCAATATTA
194 TCAGAATCTTGTTTCGATTTTATTATAAATTAATTC-GAAAAAAT--A--GGAAAAACAATATTC
* * * ** *
210720 GAAGCATGAAATGCCCTTCAATCTTTTTGGCATTGAATTATATATTTTAAAC-AGTATTGTGGCC
254 GAAGCGTGAAATGACCTTTAATCTTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCA
**
210784 AAAAATTGAGG
319 AAAAATAAAGG
* * * * * * *
210795 AAAATCTTTTCTGGTCATTTTTGCACAGTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTT
1 AAAATTTTTTCGGGTCAATTTTGCAAAATTTTAGCAGAAATCGTGTACTAA-CATCACGG-TTTT
* * * ** * * * *
210860 TGCCTAAAAACGCTTTCTGGG-CCATGACTCAGTTTTGTC-TGATTTTTGGCACCTAGACTCCTT
64 TGGCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTG-CATGATTTTTTGCGCCAAGACTCCTT
* ** * * *
210923 GAAATATCTATTTTCTTCCCACCAAATCTCAGCCACGTTGGATTTAAAGATTTTTTTTTACGAGC
128 GAAATATCTATATTCTTCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * ** * * * * *
210988 ATCTGAAACCGGATTT-GATCTTATTAGAAATTAATTCTGAAAAAAAATAGGAAAACCAGTATTA
193 ATCAGAATCTTG-TTTCGATTTTATTATAAATTAATTC-G--AAAAAATAGGAAAAACAATATTC
* * * * * ** * **
211052 GATGCGTGAAAAGCCCCTTAATTTTTTTTTAAACGA-TGAATTCTATATTTTTTATGAGTATTGT
254 GAAGCGTGAAATGACCTTTAA--TCTTTTT-GGC-ATTGAATTATATATTTTTTACAAGTATTGT
**
211116 GGCAAAAAATTGAGG
315 GGCAAAAAATAAAGG
** * * ****
211131 AAAAATCATTT-GGGTCAATTTTTGCAAAATTTTAGCCGAAATC--CTA-T-AC-T-GTTTTTTT
1 -AAAATTTTTTCGGGTCAA-TTTTGCAAAATTTTAGCAGAAATCGTGTACTAACATCACGGTTTT
*** * * * * ** *
211189 TTTATAAAAACGCATTACGGGACCCCGACTTAGTTTTGCATGATTTTAGGCACCAAGACTCCTTG
64 TGGCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTG
* * * * * *
211254 AAATATCTATATTCATCTAACCAAATCTTAGCCAAATTGAATTTAAAGATTTGTTTTTTCGAGCA
129 AAATATCTATATTCTTCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA
* *
211319 TCTGAATCTTGTTTCAATTTTATTATAAATTAATTCGGAAATAAATAGGAAAAAC
194 TCAGAATCTTGTTTCGATTTTATTATAAATTAATTC-GAAA-AAATAGGAAAAAC
211374 GAAGATAATG
Statistics
Matches: 2127, Mismatches: 356, Indels: 154
0.81 0.14 0.06
Matches are distributed among these distances:
320 9 0.00
321 8 0.00
322 3 0.00
323 100 0.05
324 125 0.06
325 131 0.06
326 2 0.00
327 6 0.00
328 19 0.01
329 113 0.05
330 404 0.19
331 294 0.14
332 103 0.05
333 237 0.11
334 264 0.12
335 243 0.11
336 35 0.02
337 31 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (329 bp):
AAAATTTTTTCGGGTCAATTTTGCAAAATTTTAGCAGAAATCGTGTACTAACATCACGGTTTTTG
GCTAAAAACGCGTTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAA
ATATCTATATTCTTCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATC
AGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAATAGGAAAAACAATATTCGAAGCGT
GAAATGACCTTTAATCTTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGCAAAAAATA
AAGG
Found at i:211309 original size:664 final size:665
Alignment explanation
Indices: 208483--211373 Score: 2615
Period size: 664 Copynumber: 4.4 Consensus size: 665
208473 TTTTAGCATT
* * * *
208483 AAAAATT-TTTTGGGTCAA-TTTTGCAAAATTTTAGCAGAAATCGTGTACAAACCATCACAGTTT
1 AAAAATTATTTCGGATCAATTTTTGCAAAATTTTAGCAGAAATC-TGTACTAACCATCACGGTTT
* * * * * *
208546 TTGGCGAAAAACGCATTCCGGTAGCCTGGCTCAGTTTTGCATGATTGTTTGCGCCAAGACTCCTT
65 TTGGCTAAAAACGCATTCCGGGACCCCGACTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTT
* * *** * * *
208611 GAAGTATCTATATTCATCTAACCAAATCTCAGACACAACCGACTTAAGGATTTGTTTTTTCGAGC
130 GAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGC
* * *
208676 ATCGGAATCTTGTTTCGATTTTATTATAAATTAATTC--AAAAAAAATAGGAAAAACGATATTCG
195 ATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAAAAT-GGAAAAACAATATTAG
* * * * *
208739 AAGCGCGAAATGCCTTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTGTTGTGGCCA
259 AAGCGTGAAATGCCCTTCAATATTTTTGGCATTGAATTATATATTTTTAACAAGTATTGTGGCCA
* * *
208804 ATAATAAAAGAAAAAT-TTTT-TGGGTCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACC
324 AAAAT-AAAGGAAAATCTTTTCTGGATCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACC
* *
208867 AATCGTCACAGTTTTTGGCGAAAAACGCATTCCGGGACCCCGGCTCAGTTTTGCATGATTTTTTG
388 -A---TCACAGTTTTTGGCGAAAAACGCATTCCGGGACCACGGCTCAGTTTTGCATGATTTTTGG
* * ***
208932 CAACAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAACCAATTTAAGGAT
449 CACCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAATTTAAGGAT
* * * *
208997 TTGTTTTTACGAGCATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCG-GAAAAATAGGAA
514 TTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTTATTAGAAATTAATTCGAAAAAAATAGGAA
* * * * *
209061 AAACTATATTCGTAGCGTGAGATGACCTTTAATCTTTTTGGCATTGAATTATATATTTTTTACAA
579 AAACTATATTCGAAGCGTGAAAAGCCCCTTAATCTTTTTGGCATTGAATTATATATTTTTTACAA
* **
209126 GTGTTGTGGCAAAAAACAAAGG
644 GTATTGTGGCAAAAAATTAAGG
** * * * *
209148 AAATTTTTTTTCGGGA-CAGTTTTT-CAAAATTTTAGCAGAAATCATGTATTAATCATCACGGTT
1 AAAAATTATTTC-GGATCAATTTTTGCAAAATTTTAGCAGAAATC-TGTACTAACCATCACGGTT
* * * * * * *
209211 TTTGGCTAAAAACGCGTTTCAGGACCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAGGATTCCA
64 TTTGGCTAAAAACGCATTCCGGGACCCCGACTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCT
* * * * *
209276 TGAAATATCTATATTCTTCTAAATCAAA-CGT-GGTCACATTGGATTTAATGATTTGTTTTTACG
129 TGAAATATCTATATTCATCT-AACCAAATC-TCAGCCACATTGGATTTAAAGATTTGTTTTTACG
* * * *
209339 AGTATCAGAATCTTGTTTCTATTTTATTATAAATTAATT--AAGAAAAAATAGAAAAACAATATT
192 AGCATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAAAATGGAAAAACAATATT
* * * * *
209402 CGTAGCGTGAAATGACCTTTAATATTTTTGGCATTGAATTATATATTTTTTACAAGTATTGTGGC
257 AGAAGCGTGAAATGCCCTTCAATATTTTTGGCATTGAATTATATATTTTTAACAAGTATTGTGGC
* *
209467 CAAAAATAAAAGAAAATTTTTTC-GGATCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAAC
322 CAAAAATAAAGGAAAATCTTTTCTGGATCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAAC
* * * * ** * **
209531 TATCATAGTTTTTGGCGAAAAACGCATTCCGGGACCCCAGCTCAGTTTTTTATGATTTTTTGTGC
387 CATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCACGGCTCAGTTTTGCATGATTTTTGGCAC
* * *
209596 CATA-ACTCCTTCAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTATGGATTT
452 CA-AGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTT
* * *
209660 GTTTTTACGAGTATC-GAAATCTTGTTTCGATTTTATTATAAATTAATTCAAAAATAAAATAGGA
516 GTTTTTACGAGCATCTGAAA-CTTGTTTCGATTTTATTAGAAATTAATTC-GAAA-AAAATAGGA
* * * * *
209724 AAAATTATATTCGAAGCGTGAAATGCCCTTTAATCTTTTTGGCATTTAATTATATATTTTTTGCA
578 AAAACTATATTCGAAGCGTGAAAAGCCCCTTAATCTTTTTGGCATTGAATTATATATTTTTTACA
209789 AGTATTGTGGC-AAAAATTAAAGG
643 AGTATTGTGGCAAAAAATT-AAGG
* * * * * *
209812 -AAAATTTTTTCGAATC-AGTCTTGCAAAGTTTTAGCAGAAATCGTGTACTAACCATCACGGGTT
1 AAAAATTATTTCGGATCAATTTTTGCAAAATTTTAGCAGAAATC-TGTACTAACCATCACGGTTT
* ** ** * *
209875 TTGGCGAAAAACG-AGTTCCGGGACCTTGGGTCAGTTTTGCATGATTTTTTGCACCAGGACTCCT
65 TTGGCTAAAAACGCA-TTCCGGGACCCCGACTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCT
* * * * *
209939 TGAAATATCTATTTTTATCTAACCAAATCTGATCCACATTGTATTTAAAGATTTTGTTTTTACGA
129 TGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAAGA-TTTGTTTTTACGA
* * ** * * * *
210004 GCAACAGAAACCGGTTTCGATTTAATTAGAAATTAATTCG----------GAAAAAACGATATTA
193 GCATCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAAAATGGAAAAACAATATTA
* * * * * *** *
210059 GAAGCGTGAAAAGCTCTTCAATATTTTT-G-ATGAAGAATAATATATTTTTTATGTGTAATGTGG
258 GAAGCGTGAAATGCCCTTCAATATTTTTGGCAT--TGAATTATATATTTTTAACAAGTATTGTGG
** * * * ** * * * * *
210122 AGAAAAATTATGGAAAAACCATTC-GGGTTAATTCTTGCAAAATTTTAGCCGAAATCGTATACTA
321 CCAAAAATAAAGGAAAATCTTTTCTGGATCAGTT-TTGCAAAATTTTAGCAGAAATCGTGTACTA
* * * * * ** * ** * * *
210186 TCTATTACGGTTTTTGGCTAAAAATACGTTCCAAGACCCCGGCTCAGTTTTGCATGATTTTTAGT
385 ACCATCACAGTTTTTGGCGAAAAACGCATTCCGGGACCACGGCTCAGTTTTGCATGATTTTTGGC
* * * * * * *
210251 GCCAAGAATTCTTGAAATATCTATATTTATCTAACTAAATCTCAGCAAAATTGAATTTAAGGATT
450 ACCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATT
* * ** * *
210316 TATTTTTATGAGCATCTGAATTTTATTTCGA--TT-TTAGAAATTAAATT-GGAAAAAATAGGAA
515 TGTTTTTACGAGCATCTGAAACTTGTTTCGATTTTATTAGAAATT-AATTCGAAAAAAATAGGAA
** * ** * ** *
210377 AAAGAATATTTGAAGCGCAAAAAG-ACCTTCAATCTTTTTGGTGTTGAATTATATATTTTTTTAT
579 AAACTATATTCGAAGCGTGAAAAGCCCCTT-AATCTTTTTGGCATTGAATTATATA-TTTTTTAC
* * *
210441 GAGTATTGTGGCCAAAAATTGAGG
642 AAGTATTGTGGCAAAAAATTAAGG
* * * * **
210465 -AAAACTATTTCAGATCAATTTTTACAAAATTTTAGCCGAAATCGTGTAC--A--AT-ACGAATT
1 AAAAATTATTTCGGATCAATTTTTGCAAAATTTTAGCAGAAATC-TGTACTAACCATCACGGTTT
* * * ** * * *
210524 TTGGCTCAATACGCGTTCCGAAACCCCGACTCGGTTTTGGATGATTTTTGGCGCCAAGACTCCTT
65 TTGGCTAAAAACGCATTCCGGGACCCCGACTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTT
* * *
210589 GAAATATCTATATTTATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGC
130 GAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGC
* ** *
210654 ATCAAAATCTTGTTTCGATTTTATTGGAAATTAATTCTGAAAAAATAAATTGGAAAAGCAATATT
195 ATCAGAATCTTGTTTCGATTTTATTATAAATTAATTC-GAAAAAA-AAA-TGGAAAAACAATATT
* * *
210719 AGAAGCATGAAATGCCCTTCAATCTTTTTGGCATTGAATTATATATTTTAAAC-AGTATTGTGGC
257 AGAAGCGTGAAATGCCCTTCAATATTTTTGGCATTGAATTATATATTTTTAACAAGTATTGTGGC
** * * * * *
210783 CAAAAATTGAGGAAAATCTTTTCTGG-TCATTTTTGCACAGTTTTAGCCGAAATCATGTACTAAC
322 CAAAAATAAAGGAAAATCTTTTCTGGATCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAAC
* * * * * * *
210847 CATCACGGTTTTTTGCCTAAAAACGCTTTCTGGG-CCATGACTCAGTTTTGTC-TGATTTTTGGC
387 CATCACAG-TTTTTGGCGAAAAACGCATTCCGGGACCACGGCTCAGTTTTG-CATGATTTTTGGC
* * * ** * * *
210910 ACCTAGACTCCTTGAAATATCTATTTTCTTCCCACCAAATCTCAGCCACGTTGGATTTAAAGATT
450 ACCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATT
* ** *
210975 TTTTTTTACGAGCATCTGAAACCGGATTT-GATCTTATTAGAAATTAATTCTGAAAAAAAATAGG
515 TGTTTTTACGAGCATCTGAAACTTG-TTTCGATTTTATTAGAAATTAATTC-G-AAAAAAATAGG
* * * * ** *
211039 -AAAACCAGTATTAGATGCGTGAAAAGCCCCTTAATTTTTTTTTAAACGA-TGAATTCTATATTT
577 AAAAACTA-TATTCGAAGCGTGAAAAGCCCCTTAA--TCTTTTT-GGC-ATTGAATTATATATTT
** *
211102 TTTATGAGTATTGTGGCAAAAAATTGAGG
637 TTTACAAGTATTGTGGCAAAAAATTAAGG
* * * * ****
211131 AAAAATCATTT-GGGTCAATTTTTGCAAAATTTTAGCCGAAATC-CTA-T-A-C-T-GTTTTTTT
1 AAAAATTATTTCGGATCAATTTTTGCAAAATTTTAGCAGAAATCTGTACTAACCATCACGGTTTT
*** * * ** *
211189 TTTATAAAAACGCATTACGGGACCCCGACTTAGTTTTGCATGATTTTAGGCACCAAGACTCCTTG
66 TGGCTAAAAACGCATTCCGGGACCCCGACTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTG
* * * *
211254 AAATATCTATATTCATCTAACCAAATCTTAGCCAAATTGAATTTAAAGATTTGTTTTTTCGAGCA
131 AAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCA
* * * *
211319 TCTGAATCTTGTTTCAATTTTATTATAAATTAATTCG-GAAATAAATAGGAAAAAC
196 TCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAAAAT-GGAAAAAC
211374 GAAGATAATG
Statistics
Matches: 1811, Mismatches: 347, Indels: 140
0.79 0.15 0.06
Matches are distributed among these distances:
648 45 0.02
649 99 0.05
650 2 0.00
651 3 0.00
652 51 0.03
653 34 0.02
654 44 0.02
655 7 0.00
656 80 0.04
657 154 0.09
658 3 0.00
659 125 0.07
660 55 0.03
661 222 0.12
662 26 0.01
663 146 0.08
664 307 0.17
665 131 0.07
666 246 0.14
667 31 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (665 bp):
AAAAATTATTTCGGATCAATTTTTGCAAAATTTTAGCAGAAATCTGTACTAACCATCACGGTTTT
TGGCTAAAAACGCATTCCGGGACCCCGACTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTG
AAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCA
TCAGAATCTTGTTTCGATTTTATTATAAATTAATTCGAAAAAAAAATGGAAAAACAATATTAGAA
GCGTGAAATGCCCTTCAATATTTTTGGCATTGAATTATATATTTTTAACAAGTATTGTGGCCAAA
AATAAAGGAAAATCTTTTCTGGATCAGTTTTGCAAAATTTTAGCAGAAATCGTGTACTAACCATC
ACAGTTTTTGGCGAAAAACGCATTCCGGGACCACGGCTCAGTTTTGCATGATTTTTGGCACCAAG
ACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTT
TACGAGCATCTGAAACTTGTTTCGATTTTATTAGAAATTAATTCGAAAAAAATAGGAAAAACTAT
ATTCGAAGCGTGAAAAGCCCCTTAATCTTTTTGGCATTGAATTATATATTTTTTACAAGTATTGT
GGCAAAAAATTAAGG
Found at i:218671 original size:32 final size:32
Alignment explanation
Indices: 218633--218732 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 32
218623 TCCTTTTACC
218633 ACATTTTTTTACAACAATACCAAACATTATTT
1 ACATTTTTTTACAACAATACCAAACATTATTT
* ** *** *
218665 ACATTTTTCTACTGCAATTTGAAA-A--A-GT
1 ACATTTTTTTACAACAATACCAAACATTATTT
*
218693 ACTTTTTTTTACAACAATACCAAACATTATTT
1 ACATTTTTTTACAACAATACCAAACATTATTT
218725 ACATTTTT
1 ACATTTTT
218733 CTACTGCAAT
Statistics
Matches: 48, Mismatches: 16, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
28 18 0.38
29 2 0.04
31 2 0.04
32 26 0.54
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (32 bp):
ACATTTTTTTACAACAATACCAAACATTATTT
Found at i:218700 original size:28 final size:28
Alignment explanation
Indices: 218668--218758 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
218658 ATTATTTACA
218668 TTTTTCTACTGCAATTTGAAAAAGTACT
1 TTTTTCTACTGCAATTTGAAAAAGTACT
* ** *** * *
218696 TTTTTTTACAACAATACCAAACATTATTTACA
1 TTTTTCTACTGCAATTTGAAA-A--A-GTACT
218728 TTTTTCTACTGCAATTTGAAAAAGTACT
1 TTTTTCTACTGCAATTTGAAAAAGTACT
218756 TTT
1 TTT
218759 GAAAGTAGTT
Statistics
Matches: 43, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
28 21 0.49
29 2 0.05
31 2 0.05
32 18 0.42
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTTTCTACTGCAATTTGAAAAAGTACT
Found at i:218701 original size:60 final size:60
Alignment explanation
Indices: 218636--218758 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
218626 TTTTACCACA
218636 TTTTTTTACAACAATACCAAACATTATTTACATTTTTCTACTGCAATTTGAAAAAGTACT
1 TTTTTTTACAACAATACCAAACATTATTTACATTTTTCTACTGCAATTTGAAAAAGTACT
218696 TTTTTTTACAACAATACCAAACATTATTTACATTTTTCTACTGCAATTTGAAAAAGTACT
1 TTTTTTTACAACAATACCAAACATTATTTACATTTTTCTACTGCAATTTGAAAAAGTACT
218756 TTT
1 TTT
218759 GAAAGTAGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (60 bp):
TTTTTTTACAACAATACCAAACATTATTTACATTTTTCTACTGCAATTTGAAAAAGTACT
Found at i:235392 original size:25 final size:24
Alignment explanation
Indices: 235364--235425 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 24
235354 GTGGATTGTA
*
235364 AAATAAATTGAATAATTAAGACATT
1 AAATAAATTGAAGAATTAA-ACATT
*
235389 AAATAAATTTAAGAATTAAACATT
1 AAATAAATTGAAGAATTAAACATT
*
235413 AAA-AAATTCAAGA
1 AAATAAATTGAAGA
235426 CTGACCCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 9 0.26
24 8 0.24
25 17 0.50
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (24 bp):
AAATAAATTGAAGAATTAAACATT
Done.