Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020791.1 Corchorus olitorius cultivar O-4 contig20824, 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: 205564
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2238 original size:192 final size:194
Alignment explanation
Indices: 1907--2275 Score: 546
Period size: 192 Copynumber: 1.9 Consensus size: 194
1897 AAGGGTTTTT
* * *
1907 CACGCTTCTAATTTCATTTTTCCATTTTTATTTCCGAATTTATTTCAAATTAAATTGAAACAAGA
1 CACGCTTCTAATATCATTTTTCCA--TTTATTTCCAAATTTATTTCAAATTAAATCGAAACAAGA
* * *
1972 TACAGATGCTCGTAAAAATACATCCTTAAATCCAATGTGGTTGAGATTTGGTTAGATGAATATAG
64 TACAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAG
*
2037 ATATTTCAAGGAGTCTTTTCCCCAAAAACCATGAAAAACTTAGTCGGTTTAAATTGACGGGCTTA
129 ATATTTCAAGGAGTCTTTTCCCCAAAAACCATGAAAAACTGAGTCGGTTTAAATTGACGGGCTTA
2102 C
194 C
* *
2103 CACGCTTCTAATATCGTTTTTCCA-TT-TTTCCAAATTTATTT-ATAATTATATCGAAACAAGAT
1 CACGCTTCTAATATCATTTTTCCATTTATTTCCAAATTTATTTCA-AATTAAATCGAAACAAGAT
* *
2165 TCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTGGATGAATATAGA
65 ACAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGA
** * * *
2230 TATTTCAAGGAGTCTTTTTGCCTAAAATCATGCAAAACTGAGTCGG
130 TATTTCAAGGAGTCTTTTCCCCAAAAACCATGAAAAACTGAGTCGG
2276 GGCCACGAAA
Statistics
Matches: 156, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
191 1 0.01
192 131 0.84
193 2 0.01
196 22 0.14
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (194 bp):
CACGCTTCTAATATCATTTTTCCATTTATTTCCAAATTTATTTCAAATTAAATCGAAACAAGATA
CAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGAT
ATTTCAAGGAGTCTTTTCCCCAAAAACCATGAAAAACTGAGTCGGTTTAAATTGACGGGCTTAC
Found at i:3724 original size:309 final size:312
Alignment explanation
Indices: 2087--8318 Score: 3624
Period size: 323 Copynumber: 19.6 Consensus size: 312
2077 TAGTCGGTTT
* ** *
2087 AAATTGACGGGCTTACCACGCTTCTAATATCGTTTTTCCA--TTTTTCCAAATTTATTTATAATT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAATT
2150 ATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
66 ATAT-----CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
* * * * *
2215 TTGGATGAATATAGATATTTCAAGGAGTCTTTTTGCCTAAAATCATGCAAAACTGAGTCGGGGCC
126 TTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGAGGCC
2280 ACGAAACGCGTTTTTAG-CAAAAAACC-------TT-G--ACGATTTCGGCTAAAAACTGACCCG
191 -CGAAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTAACGA-TTCGGCTAAAAACTGACCC-
* * * *
2334 AAAAATTTTTCCTCAATTTTTTGCCACAAAACTCA-TAACAAATATATAATTCAATGCCAAAA
253 AAAAATTTTTTCTCAATTTTTTGCCACAATACTAAGAAAC-AATATATAATTCAA--CCAAAA
* * *
2396 AAATTGAAGTGTTTTTCACGCTTCTAATATCGTTTTTCCA--TTTTTCCAAATTTATTTATAATT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAATT
* *
2459 ATATCGAAACAAGATTCAGATGCTCGTAAAACCAGATCCTTAAATCCAATGTGGCTGAGATTTGG
66 ATAT-----CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
* *
2524 TTGGATGAATATAGATATTCCAAGGACTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGAGGGC
126 TTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGA-GGC
* * * *
2589 CCGAAACGCGTTTTTAGCAAAAGAAACCTTGATGGTTAATACACGATTTCGGCCAAAAACTGACC
190 CCGAAACGCGTTTTTAGCCAAA-AAACCGTGATGGTTAGTA-ACGA-TTCGGCTAAAAACTGACC
* * ** * * * *
2654 CGAAAAAGTTTTCCAAAATTTTTTGCCACAAAACTCA-TAACAAATATATAATTCAATGCAAAAA
252 C-AAAAATTTTTTCTCAATTTTTTGCCACAATACTAAGAAAC-AATATATAATTCAA--C-CAAA
2718 A
312 A
* * * *
2719 AAATTGAAGTGTTTTTCACGCTTCTAATATTGTTTTTCC-TTTTTTTCCAAATTTATTTATAATC
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAAT-
* * **
2783 ATATGGAAACAAGATTCAGATGCTCGTAAAAATAAATTGTTAAATCCAATGTGGCTGAGATTTGG
65 -TAT---ATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
*
2848 TTGGATGAATATAGATCTTTCAAGGAGTCTTTCTGCCAAAAATCAA-GCAAAA-TAGAGCCCG-G
126 TTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-AATGCAAAACT-GAG-CCGAG
* *
2910 GCCCCGAAACGCGTTTTTA-CCAAAAAATCGTGATGGTTTGTACACGATTTTCGGCTAAAAACTG
188 G-CCCGAAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTA-ACGA--TTCGGCTAAAAACTG
* * * * *
2974 ACCTAAAGAATTTTTTTCTCAATTTTTTGCCTCAATATTCAGAAAAAAAAATTATATAATTCATT
249 ACCCAAA-AA-TTTTTTCTCAATTTTTTGCCACAATA--C-TAAGAAACAA-TATATAATTCA--
*
3039 GCCAAAA
306 ACCAAAA
* * * * *
3046 ATATTGAAGGGGCTTTTCACGCTTCTAATATCGTTGTTCCATTTTTTCTCCGAATTTATTTCTAA
1 AAATTG-ACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTT-TCCGAATTTATTTATAA
* * * * *
3111 TTATATCGAAAAAAGAATCACATGCTCGTAAAAACAAATCCTTAAATCCAATATCGATGAGATTT
64 TTATATC-----AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTT
* * * * ** *
3176 GATTAGATGAATATAGATATTTCAAGGAGTCTTTCTACAAAAAATCAA-GCAAAACTGAGATGGG
124 GGTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-AATGCAAAACTGAGCCGAG
* * ** * *
3240 GCACCGAAACGCATTTTTA-CCCAAATTCCGTGATGGTTAGTTTACGATTTGGCT-AAAA-TGGA
188 GC-CCGAAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAG-TAACGATTCGGCTAAAAACT-GA
* * * * * * *
3302 CCTGAAAAGATTTTTTTTTCAATTTTTTG-AAAAATATTCAGGGAA-AATATATAATTCAACGCC
250 CC-CAAAA-A-TTTTTTCTCAATTTTTTGCCACAATACT-AAGAAACAATATATAATTCAA--CC
3365 AAAA
309 AAAA
* *
3369 ATATTGACGGGTTTTTCACGCTT-TCAATATCGTTTTTTCATTTTTTTTCCCGAATTTATTTATA
1 AAATTGACGGGTTTTTCACGCTTCT-AATATCGTTTTTCCA-TTTTTTT-CCGAATTTATTTATA
* * * * * *
3433 ATTATATCAA-A-T-AGATGCTCATAAAAGCAAATACTTAAATCTAATATGGCTGAGATTTGATT
63 ATTATATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
*** * * *
3495 ATTTGAATATAGATATTTCAAGGAGTCTATCAGCCAAAAA-AATGCAGAACTGAGCCGAGGCCCG
128 GGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGAGGCCCG
* * * *
3559 AAACACATTTTTAGCTAAAAAACCGTGATGGTTAGT-AC-A-TCAGCTAAAAACTGACCCAAAGA
193 AAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTAACGATTCGGCTAAAAACTGACCCAAA-A
3621 ATTTTTTCTCAATTTTTTGCCACAATACTAAGAAACAATATATAATTCAACACAAAA
257 ATTTTTTCTCAATTTTTTGCCACAATACTAAGAAACAATATATAATTCAAC-CAAAA
** * * *
3678 ATTTTGGA-GGTTTTTTCAAGCTTCTAATATCGTTTTTCCATTTTTTTTCCGAATTTATTTCTAA
1 AAATT-GACGGGTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTTCCGAATTTATTTATAA
*
3742 TTATATCAAAACAAGATTTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTT
64 TTATAT-----CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTT
3807 GGTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAA-GCAAAACTGAGCCGGA
124 GGTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-AATGCAAAACTGAGCC-GA
* * * ** * *
3871 GTCCCAAAACGCGATTTTAGCCAAAAAAATGTGATGGTTAGTAAATGATTTCGGCTAAAAACGGA
187 GGCCCGAAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGT-AACGA-TTCGGCTAAAAACTGA
* * * * *
3936 CCCGAAAAGTTTTTCTCAATTTTTTTTTG-CAAAATATTAAGAAAAAATATATAATTCAACGCCA
250 CCCAAAAATTTTTTCTCAA---TTTTTTGCCACAATACTAAGAAACAATATATAATTCAA--CCA
4000 AAA
310 AAA
* * *
4003 AAATTGACGGGCTTTTCACGCTTCTAATATTGTTTTTCCA-TTTTTTCCGAATTTATTTCTAATT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAATT
* *
4067 ATATC--GAAT-AGATGCTCGTAAAATA-AAA--CTTAAATCCAATGTGGCAT-AGATTTGGTTA
66 ATATCAAGATTCAGATGCTCGTAAAA-ACAAATCCTTAAATCCAATGTGGC-TGAGATTTGGTTG
* *
4125 GATGAATATAGATATTTCAAGGAGTCTATCTGCCAAAAATCATGCAAAACTGAGCCG-GGCCCCG
129 GATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGAGG-CCCG
* ***** **
4189 AAACGCGTTTTTA-CC--CAAA-C-TGACCCAAAGT-ATTATT----T-----CT----C---AA
193 AAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTAACGATTCGGCTAAAAACTGACCCAAAAA
* * ** ** * * ** *** * * ** *
4232 TTTTTTGCCACAATATTCAGAAAAAAAATA-TATGATTCAACGCCAAAAAT-ATTCAAAGG
258 TTTTTT--CTCAATTTTTTG--CCACAATACTAAGAAACAA-TATATAATTCAACCAAA-A
*** * * * *** *
4291 TTTTTCAC--GTTTCAAT-ATCG-TTTTTCCAT--TTTTTCCGAATTTATTTT--TAATTATATT
1 AAATTGACGGGTTT--TTCA-CGCTTCTAATATCGTTTTTCC--ATTT-TTTTCCGAATT-TATT
* ** * **** ** * * * *
4348 GA-AACAAGATTC-AGATGCTC-GTAAAAAC--AAATCCTTAAATCC--AATGTGGC--T-TAGA
59 TATAATTATA-TCAAGAT--TCAG-ATGCTCGTAAAAAC--AAATCCTTAA-AT-CCAATGTGGC
** * * * * * * * *
4403 TTTGGTTAGATA-----AATATAGATACTTAAAGGAGTCTTTCTGCCAAAAATTATGCAATACTG
116 TGAGATTTGGTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTG
* * * *
4463 ATCCAAGGCCCCGAAACGCGTTTTTAGCC-AAAAACAGTGATGGTTGTTATTAAACGATTTCGGC
181 AGCCGAGG-CCCGAAACGCGTTTTTAGCCAAAAAACCGTGAT-G--GTTAGT-AACGA-TTCGGC
* * * * ** * *
4527 TAAAAACGGACCTGAAAAGTTTTTTCTCAATTTTTTTG-CAAAATTTTTAGGAAA-TATATATAA
240 TAAAAACTGACC-CAAAAATTTTTTCTCAA-TTTTTTGCCACAA-TACTAAGAAACAATATATAA
*
4590 TTTAATGCCAAAA
302 TTCAA--CCAAAA
** * * * * * * * *
4603 TGAGTGACGGGCTTTTCATGCTTCTAATGTCGTTTTCCCATTTTTTTTCGAATTAATTTCTAATT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAATT
* * * * * * *
4668 AAATCGAAACAAAATTCAGATTCTTGCAAAAACAAATCCTTATATCCAATGTCGCTGA-ATTTTG
66 --AT---ATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGA-TTTG
* * * * ** * * * * *
4732 ATTCGATAAATATAGATATTTCAAGTAAACTTTGT-TCAAAATATCATGTAAAATTGAGCC-AGG
125 GTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAA-ATAATGCAAAACTGAGCCGA-G
* * * *** * **
4795 GCTTCGGAATGCGTTTTTAG--AAAAACTAAAATGATAGTTAGTACACGATTTCGGCTAAAATTT
188 GC-CCGAAACGCGTTTTTAGCCAAAAA--ACCGTGATGGTTAGTA-ACGA-TTCGGCTAAAA-AC
* * * *
4858 TGCAAAAACCAACCCGGAAAGTTTTTCCTCAATTTTTTGCCACAATACTTAGAAAAAATATATAA
247 TG----ACCCAA-----AAA-TTTTTTCTCAATTTTTTGCCACAATACTAAGAAACAATATATAA
4923 TTCAATGCCAAAA
302 TTCAA--CCAAAA
* * * * * *
4936 AAATAGAAGGATTTTTCACGCTTCCAATATCGTTTTTCCATTTTCTTTACTGAATTTATTTCTAA
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTT-TTT-CCGAATTTATTTATAA
* * * * *
5001 TGAAATCGAAACAAGATTTAGATGCTCGTAAAAAGAAATCCTTAAATCCATTGTGGCTGAGATTT
64 T--TAT---ATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTT
*
5066 GGTTGGATGAATATAGACATTTCAAGGAGTCTTTCTGCCAAAAATCAA-GCAAAACTGAGCCGGA
124 GGTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-AATGCAAAACTGAGCC-GA
* * *
5130 GCCCCGAAACGCGTTTTTAGCCAAAAAAACCGTGATGGTTAGTAAACGATTTCGACTAAAAACAG
187 GGCCCGAAACGCGTTTTTAGCC-AAAAAACCGTGATGGTTAGT-AACGA-TTCGGCTAAAAACTG
** * * * * *
5195 ACCCGGAAAGTTTTTTTCTCAATTTTTT-ACAAAATATTCAA-AAAAAATCTATAATTCAACGCC
249 ACCC--AAAAATTTTTTCTCAATTTTTTGCCACAATACT-AAGAAACAATATATAATTCAA--CC
5258 AAAA
309 AAAA
* * * ** *
5262 AAATTGACGGGCTTTTCACTCTTCTATTA-CGTTTTTCCATTTTTTTCTAAATTTATTTCTAATT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAATT
* * * * * *
5326 ATATC--GAAT-AGATGCTTGT-AAAA-AAATACTTAAATCCAATGTGACAT-AGATCTGGTTAG
66 ATATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGC-TGAGATTTGGTTGG
* * * * *
5385 ATGAATATAGATATTTCAAGGAGTTTTATCTGCCAAAAATCATGCAAAACTTAGTCGGGGCCCCG
130 ATGAATATAGATATTTCAAGGAGTCTT-TCTGCCAAAAATAATGCAAAACTGAGCCGAGG-CCCG
* *
5450 AAACGCGTTTTTA-CC-CAAAACTCGTGATGGTTAATACACGATTGTCGGCTAAAAACTGACCCA
193 AAACGCGTTTTTAGCCAAAAAAC-CGTGATGGTTAGTA-ACGA-T-TCGGCTAAAAACTGACCCA
* * * *
5513 AAGAATTTTTTCTCAATTTTTTGCCACAACATTCAGAAAAAATATATAATTCAACGCCAAAA
254 AA-AATTTTTTCTCAATTTTTTGCCACAATACTAAGAAACAATATATAATTCAA--CCAAAA
* ** ** * *
5575 ATATTGA-AAGTTTTTCACGCTTCTAATATTATTTTTCCA--TTTTTCTGAATTTATTTTTAATT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAATT
* * *
5637 ATATCGAAACAAGAATCAGATGCTCGTAAAAACAAATCATTAAATCCAATGTGGCTTAGATTTGG
66 ATAT-----CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
* * * * *
5702 TTAGATGAATATAGATATTTAAAGGAGTCTTTCCGCCAAAAA-ACATGCAAAACTGATCCAAGGT
126 TTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATA-ATGCAAAACTGAGCCGAGG-
* * *
5766 CCCGAAACGCGTTTTTAGCCAAAAATA--GTGATGGTTATTAAACGATTTCGGCAAAAAATTGAC
189 CCCGAAACGCGTTTTTAGCCAAAAA-ACCGTGATGGTTAGT-AACGA-TTCGGCTAAAAACTGAC
* * * * * *
5829 CCGAAAAGTTTATTCCTCTATTTTTTG-CAAAATATTCAGAAA-AAGTATATAATTCAATGCCAA
251 CC-AAAAATTT-TTTCTCAATTTTTTGCCACAATACTAAGAAACAA-TATATAATTCAA--CCAA
5892 AA
311 AA
* * * * * * * * *
5894 AGATTTACGGGCTTTTCACCCTTCTAATATCATTTTTCCATTTTTTTCTGAATTAATTTCTAGTT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAATT
* * * *
5959 AAATCGAAACAAGATTCAGATTCTCGCAAAAACAAA-CCTTTATATCCAATGTGGCTGA-ATTTT
66 --AT---ATCAAGATTCAGATGCTCGTAAAAACAAATCC-TTAAATCCAATGTGGCTGAGA-TTT
* * * * * * ** * *
6022 GGTTCGATAAATATAGATATTTCAAGTCA-TCTTTGTTCAAAAAAATCTTGCAAAATTGAGTC-A
124 GGTTGGATGAATATAGATATTTCAAG-GAGTCTTTCTGC-CAAAAATAATGCAAAACTGAGCCGA
* * * ** * **
6085 GGGCTCCGGAATGCGTTTTTTG--AAAAACTAAAGTGATGGTTAATATACGATTTTAGCTAAAAT
187 -GGC-CCGAAACGCGTTTTTAGCCAAAAA--ACCGTGATGGTTAGTA-ACGA-TTCGGC------
* * * * * *
6148 TTTGCAAAAACTGACCCGGAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAAATTTA
240 --T--AAAAACTGACCC-AAAAATTTTTTCTCAATTTTTTGCCACAATACTAAG-AAACAATATA
*
6213 TAATTCGACGCAAAAAA
299 TAATTCAAC-C--AAAA
* * * *
6230 AAATAGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTATTTACCGAATTTATTTCTAAT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTT-TTTTCCGAATTTATTTATAAT
* * * * * *
6295 TAAATCGAAACAAGAATCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATATGGATGAGATTTG
65 T--AT---ATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTG
* * * ** * *
6360 ATTGGATGAATATAGATATTTCAAAGAGACTTTC-G---AAAACCATGCAAAATTGAGCCGGGGC
125 GTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGAGG-
* *** ** ** * * ** **
6421 CCCGAAACGCGTTTTTAGCCAAAAACTGCCACAATACTCT--TAAAAAAT---ATACAATTCAAA
189 CCCGAAACGCGTTTTTAGCCAAAAA--ACCGTGATGGT-TAGTAACGATTCGGCTA-AAAACTGA
* **** ** ** ***** * ** * *
6481 GCCAAAAATATTGAAGT--ATTTTCACGCTTCTAATA-TCATTTTTCCAATATCGTTTTTGATGG
250 CCCAAAAAT-TTTTTCTCAATTTT-TTGCCAC-AATACT-A-AGAAACAATAT-ATAATTCA--A
6543 CCAAAA
307 CCAAAA
* *** * ** *
6549 AAAAT-A-ATATTGTTT-----TTCCAAT-T--TTTTCTGAATTTATTTT--TAA-TTA--TATC
1 AAATTGACGGGTT-TTTCACGCTTCTAATATCGTTTT-TCCATTT-TTTTCCGAATTTATTTAT-
* *
6599 GA--A-A-CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATGCAATGTGGCTGAGATTTGGT
62 AATTATATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * * * * * *
6660 TAGATGAATATAGATATTTCAAGGAGACTTTCTCCCACAAATCATGCACAATTGAGCCGGGGCCT
127 TGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGAGGCC-
* * *
6725 CGAAACGTGTTTTTAGCC-AAAAACCGTGATGTTTTAGTACACGATTTCTGCTAAAAA-T-ATTC
191 CGAAACGCGTTTTTAGCCAAAAAACCGTGATG-GTTAGTA-ACGA-TTCGGCTAAAAACTGA--C
**** * * * * * *
6787 CCAAAAAAAAATTCTCTATTTTTT-CCATAATAATCAGAAAAAATATATAATTCAACGCCAAGA
251 CCAAAAATTTTTTCTCAATTTTTTGCCACAATACTAAGAAACAATATATAATTCAA--CCAAAA
* * * * * *
6850 ATATTGAAGGGTTTTTTCAAGTTTCTTATATCGTTTTTCCATTTTTATTTTCCGAATTTATTTCT
1 AAATTGACGGG-TTTTTCACGCTTCTAATATCGTTTTTCCA--TTT-TTTTCCGAATTTATTTAT
* * * *
6915 AATTATATCGAAAAAAGAATCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGATGATAT
62 AATTATATC-----AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
* * * *
6980 TTGCTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGGGCCGG
122 TTGGTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGA
* * * * *
7045 GGCCCTGAAACGTGCTTTTAGCAAAAAAAAAACCTTGATGGTTAATACACGATATCGGCTAAAAA
187 GGCCC-GAAACGCGTTTTTAGC---CAAAAAACCGTGATGGTTAGTA-ACGAT-TCGGCTAAAAA
* ** * * * * ** *
7110 CTAACCCGAAATTTTTTTCTCTCAATTGTTTACTACATTACGCAGAAAAAATATATAATTCAACG
246 CTGACCC-AAAAATTTTT-TCTCAATTTTTTGCCACAATACTAAGAAACAATATATAATTCAAC-
7175 CTAAAA
308 C-AAAA
* * * *
7181 AAATTGAAC-TGTTTTTCACACTTCTAATAGCG--TTT---TTTTTTT-CGAATTTATTTCTAAT
1 AAATTG-ACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAAT
* * *
7239 TATATCGAAACAAGATCCGGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTG
65 TATAT-----CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTG
* * *
7304 GTTGGATGAATATAGATATTTCAAGAAGTCTTTCTGCCAAAAATCAA-GCAAAATTGAGCAG-GG
125 GTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-AATGCAAAACTGAGCCGAGG
* * *
7367 CCCCGAAACGCGTTTTTA-CCCAAAAACCGTGATGGTTAGTAAACAATTTCGGCTAAAAACGGAC
189 -CCCGAAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGT-AACGA-TTCGGCTAAAAACTGAC
* * * * * * * * *
7431 CTGAAAAGTTTTTTCTCAATTTCTTG-CAAAATATTCAGAAAAAATATATATTTGAACGCCAAAA
251 C-CAAAAATTTTTTCTCAATTTTTTGCCACAATACTAAGAAACAATATATAATTCAA--CCAAAA
* * * * *
7495 AGATTGACGGGCTTTTCACGCTTCTAATATTGTTTTTCCATTTTTTTCCTTAATTTATTTTTAAT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCC-GAATTTATTTATAAT
* * *
7560 TATATC--GAAT-AGATGCTCGTAAAAACAAATCTTTAAATCCAATGTGGCTGAGATTTGGTTAG
65 TATATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTGG
* * * * *
7622 ATGAATATAGATATTTGAAGGAGTCTATCTGCAAAAAATCATGCAAAACTGAGCTG-GTGCCCCG
130 ATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGAG-G-CCCG
* *
7686 AAACGCGTTTTTAGCC-AAAAACAGTGATGGTTAGTACATGATTTCGGCTAAAAACTGACCCAAA
193 AAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTA-ACGA-TTCGGCTAAAAACTGACCCAAA
* *
7750 GAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAA
256 -AATTTTTTCTCAATTTTTTGCCACAATACTAAGAAACAATATATAATTCAA--CCAAAA
* * * * *
7810 ATATTGAAGGGATTTTCACGCTTCTAATATCGTTTTTCCATCTTTTTTCCAAATTTATTTTTAAT
1 AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCAT-TTTTTTCCGAATTTATTTATAAT
* * * * *
7875 TACATCGAAACAAGATTCAGATTCTTGTAAAAACAAATCCTTAAATCCAATATGGCTGAGATTTA
65 T--AT---ATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTG
* * * * *
7940 GTTAGATGAATATAGATATTTCAAGGAGTCTATCTGCCAAAAAT-ATGCAAAACTGGGTCG-GGG
125 GTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGAGGC
**
8003 CCGTAAAACGCGTTTTTAGCC-AAAAACCGTGATGGTTAGTACATAACTTTCGGCTAAAAACTGA
190 CCG--AAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTA-ACGA--TTCGGCTAAAAACTGA
** * * *
8067 CCCGAATTATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC-CAA
250 CCC-AAAAATTTTTTCTCAATTTTTTGCCACAATACTAAGAAACAATATATAATTCAAC-CAAAA
* * * * * *
8131 AAATATGAAAGGGGTTTTTCAAGCTTCCAATATCGTTTTTCCATTTTTTTTTTCGAAATTATTTC
1 AAAT-TG--ACGGGTTTTTCACGCTTCTAATATCGTTTTTCCA--TTTTTTTCCGAATTTATTTA
* * *
8196 TAATTATATCGAAACAAGATTTAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGTTGAGA
61 TAATTATAT-----CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGA
* *
8261 TTTGGTTGAATGAATATAAATATTTC-A--AGTCTTTCTGCCAAAAATCAA-GCAAAACTGA
121 TTTGGTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-AATGCAAAACTGA
8319 TGCAGGACTA
Statistics
Matches: 4684, Mismatches: 819, Indels: 826
0.74 0.13 0.13
Matches are distributed among these distances:
285 7 0.00
286 49 0.01
287 43 0.01
288 24 0.01
289 16 0.00
290 18 0.00
291 13 0.00
292 8 0.00
293 1 0.00
294 4 0.00
295 1 0.00
296 2 0.00
297 2 0.00
298 80 0.02
299 6 0.00
300 2 0.00
301 21 0.00
302 47 0.01
303 10 0.00
304 7 0.00
305 12 0.00
306 10 0.00
307 7 0.00
308 30 0.01
309 262 0.06
310 52 0.01
311 68 0.01
312 100 0.02
313 349 0.07
314 223 0.05
315 212 0.05
316 146 0.03
317 36 0.01
318 68 0.01
319 109 0.02
320 141 0.03
321 218 0.05
322 325 0.07
323 406 0.09
324 262 0.06
325 328 0.07
326 67 0.01
327 46 0.01
328 102 0.02
329 27 0.01
330 178 0.04
331 41 0.01
332 52 0.01
333 87 0.02
334 43 0.01
335 134 0.03
336 78 0.02
337 97 0.02
338 7 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (312 bp):
AAATTGACGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTATAATT
ATATCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTGGA
TGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGAGCCGAGGCCCGAAA
CGCGTTTTTAGCCAAAAAACCGTGATGGTTAGTAACGATTCGGCTAAAAACTGACCCAAAAATTT
TTTCTCAATTTTTTGCCACAATACTAAGAAACAATATATAATTCAACCAAAA
Found at i:5504 original size:313 final size:312
Alignment explanation
Indices: 4227--8318 Score: 2195
Period size: 325 Copynumber: 12.7 Consensus size: 312
4217 AGTATTATTT
* * * * ** *
4227 CTCAATTTTTTGCCACAATATTCAGAAAAAAAATATATGATTCAACGCCAAAAATATTCAAAGGT
1 CTCAATTTTTTGCCAAAATATTCAG--AAAAAATATATAATTCAACGCCAAAAAAATTGACGGGC
* * * * *
4292 TTTTCACGTTTC-AATATCGTTTTTCCA-TTTTTTCCGAATTTATTTTTAATTATATTGAAACAA
64 TTTTCACGCTTCTAATATCATTTTTCCATTTTTTTCTGAATTTATTTCTAA-T-TA---AATC--
* * *
4355 GATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTTAGATTTGGTTAGATAAATAT
122 GAAT-AGATGCTCGT-AAAA-AAATACTTAAATCCAATGTGGC-TAGATTTGGTTAGATGAATAT
* * * * **
4420 AGATACTTAAAGGAGTCTTTCTGCCAAAAATTATGCAATACTGA-TCCAAGGCCCCGAAACGCGT
183 AGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGT-CGGGGCCCCGAAACGCGT
* * * * * *
4484 TTTTAGCCAAAAAC-AGTGATGGTTGTTATTAAACGATTTCGGCTAAAAACGGACCTGAAAAGTT
247 TTTTA-CCCAAAACTCGTGAT-G--GTTAATAAACGATTTCGGCTAAAAACAGACCCGGAAAGTT
4548 TTTT-
308 TTTTC
* * * * * * ** *
4552 CTCAATTTTTTTG-CAAAATTTTTAGGAAATATATATAATTTAATGCCAAAATGAGTGACGGGCT
1 CTCAA-TTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGACGGGCT
* * * * *
4616 TTTCATGCTTCTAATGTCGTTTTCCCATTTTTTT-TCGAATTAATTTCTAATTAAATCGAAACAA
65 TTTCACGCTTCTAATATCATTTTTCCATTTTTTTCT-GAATTTATTTCTAATTAAATCG------
* * * * * * * * *
4680 AATTCAGATTCTTGCAAAAACAAATCCTTATATCCAATGTCGCT-GAATTTTGATTCGATAAATA
123 AA-T-AGATGCTCG-TAAAA-AAATACTTAAATCCAATGTGGCTAG-A-TTTGGTTAGATGAATA
* ** * * * * * * ** * *
4744 TAGATATTTCAAGTAAACTTTGT-TCAAAATATCATGTAAAATTGAGCCAGGGCTTCGGAATGCG
182 TAGATATTTCAAGGAGTCTTTCTGCCAAAA-ATCATGCAAAACTGAGTCGGGGCCCCGAAACGCG
** ** * * *
4808 TTTTTA-GAAAAACTAAAATGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAACCA-AC
246 TTTTTACCCAAAACT--CGTGATGGTTAATAAACGATTTCGGC--------T--AAAAA-CAGAC
4871 CCGGAAAG-TTTTTC
298 CCGGAAAGTTTTTTC
* * * * **
4885 CTCAATTTTTTGCCACAATACTT-AGAAAAAATATATAATTCAATGCCAAAAAAATAGAAGGATT
1 CTCAATTTTTTGCCAAAATA-TTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGACGGGCT
* * *
4949 TTTCACGCTTCCAATATCGTTTTTCCATTTTCTTTACTGAATTTATTTCTAATGAAATCGAAACA
65 TTTCACGCTTCTAATATCATTTTTCCATTTT-TTT-CTGAATTTATTTCTAATTAAATCG-----
* * *
5014 AGATTTAGATGCTCGTAAAAAGAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTGGATGAATA
123 A-A--TAGATGCTCGT-AAAA-AAATACTTAAATCCAATGTGGCT-AGATTTGGTTAGATGAATA
* * * *
5079 TAGACATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAGCCGGAGCCCCGAAACGCGT
182 TAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGT
* * *
5144 TTTTAGCCAAAAAAAC-CGTGATGGTTAGTAAACGATTTCGACTAAAAACAGACCCGGAAAGTTT
247 TTTTA-CC--CAAAACTCGTGATGGTTAATAAACGATTTCGGCTAAAAACAGACCCGGAAAGTTT
*
5208 TTTT
309 TTTC
* * *
5212 CTCAATTTTTT-ACAAAATATTCAAAAAAAATCTATAATTCAACGCCAAAAAAATTGACGGGCTT
1 CTCAATTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGACGGGCTT
* * * * *
5276 TTCACTCTTCTATTA-CGTTTTTCCATTTTTTTCTAAATTTATTTCTAATTATATCGAATAGATG
66 TTCACGCTTCTAATATCATTTTTCCATTTTTTTCTGAATTTATTTCTAATTAAATCGAATAGATG
* * *
5340 CTTGTAAAAAAATACTTAAATCCAATGTGACATAGATCTGGTTAGATGAATATAGATATTTCAAG
131 CTCGTAAAAAAATACTTAAATCCAATGTGGC-TAGATTTGGTTAGATGAATATAGATATTTCAAG
* *
5405 GAGTTTTATCTGCCAAAAATCATGCAAAACTTAGTCGGGGCCCCGAAACGCGTTTTTACCCAAAA
195 GAGTCTT-TCTGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGTTTTTACCCAAAA
* *
5470 CTCGTGATGGTTAATACACGATTGTCGGCTAAAAACTGACCC--AAAGAATTTTTT-
259 CTCGTGATGGTTAATAAACGATT-TCGGCTAAAAACAGACCCGGAAAG--TTTTTTC
* * * ** *
5524 CTCAATTTTTTGCCACAACATTCAGAAAAAATATATAATTCAACGCCAAAAATATTGA-AAGTTT
1 CTCAATTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGACGGGCTT
* * *
5588 TTCACGCTTCTAATATTATTTTTCCA--TTTTTCTGAATTTATTTTTAATTATATCGAAACAAGA
66 TTCACGCTTCTAATATCATTTTTCCATTTTTTTCTGAATTTATTTCTAA-T-TA---AATC--GA
5651 ATCAGATGCTCGTAAAAACAA-ATCATTAAATCCAATGTGGCTTAGATTTGGTTAGATGAATATA
124 AT-AGATGCTCGTAAAAA-AATA-C-TTAAATCCAATGTGGC-TAGATTTGGTTAGATGAATATA
* * * ** *
5715 GATATTTAAAGGAGTCTTTCCGCCAAAAAACATGCAAAACTGA-TCCAAGGTCCCGAAACGCGTT
184 GATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGT-CGGGGCCCCGAAACGCGTT
* * * * * ** * *
5779 TTTAGCCAAAAATAGTGATGGTTATTAAACGATTTCGGCAAAAAATTGACCCGAAAAGTTTATTC
248 TTTACCCAAAACTCGTGATGGTTAATAAACGATTTCGGCTAAAAACAGACCCGGAAAGTTTTTTC
* * * * *
5844 CTCTATTTTTTG-CAAAATATTCAGAAAAAGTATATAATTCAATGCCAAAAAGATTTACGGGCTT
1 CTCAATTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGACGGGCTT
* * *
5908 TTCACCCTTCTAATATCATTTTTCCATTTTTTTCTGAATTAATTTCTAGTTAAATCGAAACAAGA
66 TTCACGCTTCTAATATCATTTTTCCATTTTTTTCTGAATTTATTTCTAATTAAATCG-----A-A
* * * * *
5973 TTCAGATTCTCGCAAAAACAA-ACCTTTATATCCAATGTGGCT-GAATTTTGGTTCGATAAATAT
125 -T-AGATGCTCGTAAAAA-AATA-C-TTAAATCCAATGTGGCTAG-A-TTTGGTTAGATGAATAT
* * * * * * * * * *
6036 AGATATTTCAAGTCA-TCTTTGTTCAAAAAAATCTTGCAAAATTGAGTCAGGGCTCCGGAATGCG
183 AGATATTTCAAG-GAGTCTTTCTGC-CAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCG
*** * * ** *
6100 TTTTT-TGAAAAACTAAAGTGATGGTTAATATACGATTTTAGCTAAAATTTTGCAAAAACTGACC
246 TTTTTACCCAAAACT--CGTGATGGTTAATAAACGATTTCGGC--------T--AAAAACAGACC
6164 CGGAAAG-TTTTTC
299 CGGAAAGTTTTTTC
* * * * * * * *
6177 CTCAATTTTTTGCCACAATACTCAGAAAAAAATTTATAATTCGACGCAAAAAAAAATAGAAGGGT
1 CTCAATTTTTTGCCAAAATATTCAG-AAAAAATATATAATTCAACGC-CAAAAAAATTGACGGGC
* * *
6242 TTTTCACGCTTCTAATATCGTTTTTCCATTTATTTACCGAATTTATTTCTAATTAAATCGAAACA
64 TTTTCACGCTTCTAATATCATTTTTCCATTT-TTTTCTGAATTTATTTCTAATTAAAT-----C-
* * * *
6307 AGAATCAGATGCTCGTAAAAAGAA-ATCTTTAAATCCAATATGGATGAGATTTGATTGGATGAAT
122 -GAAT-AGATGCTCGTAAAAA-AATA-C-TTAAATCCAATGTGGCT-AGATTTGGTTAGATGAAT
* * * * *
6371 ATAGATATTTCAAAGAGACTTTC-G---AAAACCATGCAAAATTGAGCCGGGGCCCCGAAACGCG
181 ATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCG
* *** ** * * * * * *
6432 TTTTTAGCCAAAAACTGCCACAATACTCTTAAAAAATATAC-AATTCAAAGC-CAAAA-ATA--T
246 TTTTTA-CCCAAAACT--CGTGAT--GGTT----AATAAACGATTTC--GGCTAAAAACAGACCC
* *
6492 TG-AAGTATTTTCAC
300 GGAAAGT-TTTT-TC
* * ** * *
6506 GCTTCTAATATCATTTTTCC--AATA-TC-G------T-T-T--TTGATGGCCAAAAAAAATAAT
1 -C-TC-AAT-T--TTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGA-
*** * ** ** * * * *
6557 ATTGTTTTTC-CAATT-TTTTCTGAATTTATT---TT------T-AA-TTATATCGAA--ACAA-
59 CGGGCTTTTCACGCTTCTAATAT-CATTT-TTCCATTTTTTTCTGAATTTATTTCTAATTA-AAT
* * *
6606 -GATTCAGATGCTCGTAAAAACAAATCCTTAAATGCAATGTGGCTGAGATTTGGTTAGATGAATA
121 CGAAT-AGATGCTCGT-AAAA-AAATACTTAAATCCAATGTGGCT-AGATTTGGTTAGATGAATA
* * * * * * * *
6670 TAGATATTTCAAGGAGACTTTCTCCCACAAATCATGCACAATTGAGCCGGGGCCTCGAAACGTGT
182 TAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGT
* * * * * * ** * *****
6735 TTTTAGCCAAAAAC-CGTGATGTTTTAGTACACGATTTCTGCTAAAAATATTCCC-AAAAAAAAA
247 TTTTA-CCCAAAACTCGTGATG-GTTAATAAACGATTTCGGCTAAAAACAGACCCGGAAAGTTTT
6798 TT-
310 TTC
* * * * * * *
6800 CTCTATTTTTT-CCATAATAATCAGAAAAAATATATAATTCAACGCCAAGAATATTGAAGGGTTT
1 CTCAATTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGACGGG-CT
* * * * * *
6864 TTTCAAGTTTCTTATATCGTTTTTCCATTTTTATTTTCCGAATTTATTTCTAATTATATCGAAAA
65 TTTCACGCTTCTAATATCATTTTTCCA--TTT-TTTTCTGAATTTATTTCTAATTAAATC-----
* * * * *
6929 AAGAATCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGATGATATTTGCTTAGATGAAT
122 --GAAT-AGATGCTCGT-AAAA-AAATACTTAAATCCAATGTGGCT-AGATTTGGTTAGATGAAT
* * * * *
6994 ATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGGGCCGGGGCCCTGAAACGTG
181 ATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCG
* ** * * *
7059 CTTTTAGCAAAAAAAAAAC-CTTGATGGTTAATACACGATATCGGCTAAAAACTA-ACCC-GAAA
246 TTTTTA-C----CCAAAACTCGTGATGGTTAATAAACGATTTCGGCTAAAAAC-AGACCCGGAAA
*
7121 TTTTTTTC
305 GTTTTTTC
* * * * * ** * * *
7129 TCTCAATTGTTTACTACATTACGCAGAAAAAATATATAATTCAACGCTAAAAAAATTGAAC-TGT
1 -CTCAATTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTG-ACGGGC
* * * *
7193 TTTTCACACTTCTAATAGC--GTTT---TTTTTTTC-GAATTTATTTCTAATTATATCGAAACAA
64 TTTTCACGCTTCTAATATCATTTTTCCATTTTTTTCTGAATTTATTTCTAATTAAATCG-----A
* * * *
7252 GATCCGGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTGGATGAATAT
124 -AT--AGATGCTCGT-AAAA-AAATACTTAAATCCAATGTGGCT-AGATTTGGTTAGATGAATAT
* * * *
7317 AGATATTTCAAGAAGTCTTTCTGCCAAAAATCAAGCAAAATTGAG-CAGGGCCCCGAAACGCGTT
183 AGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGTT
* * * * *
7381 TTTACCCAAAAAC-CGTGATGGTTAGTAAACAATTTCGGCTAAAAACGGACCTGAAAAGTTTTTT
248 TTTACCC-AAAACTCGTGATGGTTAATAAACGATTTCGGCTAAAAACAGACCCGGAAAGTTTTTT
7445 -
312 C
* * * *
7445 CTCAATTTCTTG-CAAAATATTCAGAAAAAATATATATTTGAACGCCAAAAAGATTGACGGGCTT
1 CTCAATTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGACGGGCTT
** * * *
7509 TTCACGCTTCTAATATTGTTTTTCCATTTTTTTCCTTAATTTATTTTTAATTATATCGAATAGAT
66 TTCACGCTTCTAATATCATTTTTCCATTTTTTT-CTGAATTTATTTCTAATTAAATCGAATAGAT
7574 GCTCGTAAAAACAA-ATCTTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTT
130 GCTCGTAAAAA-AATA-C-TTAAATCCAATGTGGCT-AGATTTGGTTAGATGAATATAGATATTT
* * * *
7638 GAAGGAGTCTATCTGCAAAAAATCATGCAAAACTGAG-CTGGTGCCCCGAAACGCGTTTTTAGCC
191 CAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTC-GGGGCCCCGAAACGCGTTTTTA-CC
* * * * * *
7702 AAAAAC-AGTGATGGTTAGTACATGATTTCGGCTAAAAACTGACCC--AAAGAATTTTTT-
254 CAAAACTCGTGATGGTTAATAAACGATTTCGGCTAAAAACAGACCCGGAAAG--TTTTTTC
* * * * *
7759 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGATT
1 CTCAATTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGACGGGCTT
* ** * *
7824 TTCACGCTTCTAATATCGTTTTTCCATCTTTTTTCCAAATTTATTTTTAATTACATCGAAACAAG
66 TTCACGCTTCTAATATCATTTTTCCAT-TTTTTTCTGAATTTATTTCTAATTAAATCG-----A-
* * * * *
7889 ATTCAGATTCTTGTAAAAACAAATCCTTAAATCCAATATGGCTGAGATTTAGTTAGATGAATATA
124 A-T-AGATGCTCGT-AAAA-AAATACTTAAATCCAATGTGGCT-AGATTTGGTTAGATGAATATA
* * ***
7954 GATATTTCAAGGAGTCTATCTGCCAAAAAT-ATGCAAAACTGGGTCGGGGCCGTAAAACGCGTTT
184 GATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGTTT
* * * ** *
8018 TTAGCCAAAAAC-CGTGATGGTTAGTACATAACTTTCGGCTAAAAACTGACCC-GAATTA-TTTT
249 TTA-CCCAAAACTCGTGATGGTTAATAAACGA-TTTCGGCTAAAAACAGACCCGGAA--AGTTTT
8080 TT-
310 TTC
* * * * *
8082 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATA-TGAAAGGGGT
1 CTCAATTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTG--ACGGGC
* * * * * *
8146 TTTTCAAGCTTCCAATATCGTTTTTCCATTTTTTTTTTCGAAATTATTTCTAATTATATCGAAAC
64 TTTTCACGCTTCTAATATCATTTTTCCA-TTTTTTTCT-GAATTTATTTCTAATTAAATCG----
* * *
8211 AAGATTTAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGTTGAGATTTGGTT-GAATGAA
123 -A-A--TAGATGCTCGT-AAAA-AAATACTTAAATCCAATGTGGCT-AGATTTGGTTAG-ATGAA
* *
8275 TATAAATATTTC-A--AGTCTTTCTGCCAAAAATCAAGCAAAACTGA
180 TATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGA
8319 TGCAGGACTA
Statistics
Matches: 2998, Mismatches: 518, Indels: 504
0.75 0.13 0.13
Matches are distributed among these distances:
287 2 0.00
288 4 0.00
289 4 0.00
290 3 0.00
291 3 0.00
292 2 0.00
293 3 0.00
294 9 0.00
295 6 0.00
296 1 0.00
297 3 0.00
298 70 0.02
299 11 0.00
300 3 0.00
301 21 0.01
302 52 0.02
303 4 0.00
306 3 0.00
307 2 0.00
308 8 0.00
309 2 0.00
311 29 0.01
312 58 0.02
313 215 0.07
314 181 0.06
315 124 0.04
316 49 0.02
317 16 0.01
318 9 0.00
319 99 0.03
320 152 0.05
321 196 0.07
322 172 0.06
323 285 0.10
324 96 0.03
325 354 0.12
326 86 0.03
327 17 0.01
328 37 0.01
329 15 0.01
330 29 0.01
331 42 0.01
332 53 0.02
333 102 0.03
334 45 0.02
335 137 0.05
336 73 0.02
337 86 0.03
338 2 0.00
339 11 0.00
340 7 0.00
341 3 0.00
342 1 0.00
344 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (312 bp):
CTCAATTTTTTGCCAAAATATTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGACGGGCTT
TTCACGCTTCTAATATCATTTTTCCATTTTTTTCTGAATTTATTTCTAATTAAATCGAATAGATG
CTCGTAAAAAAATACTTAAATCCAATGTGGCTAGATTTGGTTAGATGAATATAGATATTTCAAGG
AGTCTTTCTGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGAAACGCGTTTTTACCCAAAACT
CGTGATGGTTAATAAACGATTTCGGCTAAAAACAGACCCGGAAAGTTTTTTC
Found at i:6620 original size:957 final size:934
Alignment explanation
Indices: 4205--8288 Score: 2897
Period size: 957 Copynumber: 4.2 Consensus size: 934
4195 GTTTTTACCC
* * *
4205 AAACTGACCC-AAAGTATTATTTCTCAATTTTTTGCCACAATATTCAGAAAAAAAATATATGATT
1 AAACTGACCCGAAA-T-TT-TTCCTCAATTTTTTGCCACAATACTCAG--AAAAAATATATAATT
* * * * *
4269 CAACGCCAAAAATATTCAAAGGTTTTTCACGTTTC-AATATCGTTTTTCCATTTTTTCCGAATTT
61 CAACG-CAAAAAAAATGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTT-CGAATTT
* * * * *
4333 ATTTTTAATTATATTGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGC
124 ATTTCTAATTATATCGAAACAAGAATCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGA
* * * * * * ** * * *
4398 TTAGATTTGGTTAGATAAATATAGATACTT-AAAGGAGTCTTTCTGCCAAAAATTATGCAATACT
189 TGAGATTTGGTTGGATGAATATAGATATTTCAAAGAAGACTTTCTG-C-AAAACCAAGCAAAATT
* * * ** * * * *
4462 GATCCAAGGCCCCGAAACGCGTTTTTAGCCAAAAA-CAGTGATGGTTGTTATTAAACGATTTCGG
252 GA-GCAGGGCCCCGAAACGCGTTTTTACCCAAAAACCA-CAAT-G--CTTAATAAACAATTTCAG
* * * * * * * *
4526 CTAAAAACGGACCTGAAAAGTTTTTTCTCAATTTTTTTGCAAAATTTTTAGGAAATATATATAAT
312 CCAAAAAC-GACCTG-AAAGTATTTTCACAA-CTTCTT-CAAAA-TATTAGAAAAAATATAT-AT
* * ** * * *
4591 TT-AATGCCAAAATGAGTGACGGGCTTTTCATGCTTCTAATGTCGTTTTCCCATTTTTTTTCGAA
371 TTGAACGCCAAAA--A--GA--------T-ATACTAATATTGT--TTTTCCAATTTTTTCT-GAA
* * * * * * * * *
4655 TTAATTTCTAATTAAATCGAAACAAAATTCAGATTCTTGCAAAAACAAATCCTTATATCCAATGT
420 TTTATTTTTAATTATATCGAAACAAGA-TCAGATGCTCGTAAAAACAAATCATTAAATCCAATGT
* * * * * * ** * * *
4720 CGCTGA-ATTTTGATTCGATAAATATAGATATTTCAAGTAAACTTT--GTTCAAAATATCATGTA
484 GGCTGAGA-TTTGGTTAGATGAATATAGATATTTAAAGGAGTCTTTCCG-CCAAAA-AACATGCA
* * * * * * *
4782 AAATTGAGCCAGGGCTTCGGAATGCGTTTTTAG--AAAAACTAAAATGATAGTTAGTACACGATT
546 AAACTGA-CCAGGTC-CCGAAACGCGTTTTTAGCCAAAAAC---AGTGATGGTTAGTACACGATT
** * * * * *
4845 TCGGCTAAAATTTTGCAAAAACCAACCCGGAAAGTTT-TTCCTCAATTTTTTGCCACAATACTTA
606 TCGGC-AAAAAATTG----ACCCAA-----AAA-TTTATT-CTCTATTTTTTG-CAAAATAATCA
* * * *
4909 GAAAAAATATATAATTCAATGCCAAAAAAATAGAA-GGATTTTTCACGCTTCCAATATCGTTTTT
658 GAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGA-TTTTCACGCTTCTAATATCGTTTTT
* * * * *
4973 CCATTTTCTTTACTGAATTTATTTCTAATGAAATCGAAACAAGATTTAGATGCTCGTAAAAAGAA
722 CCATTTT-TTT-CCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATTCTCGTAAAAACAA
* * * *
5038 ATCCTTAAATCCATTGTGGCTGAGA-TTTGGTTGGATGAATATAGACATTTCAAGGAGTCTTTCT
785 ATCCTTAAATCCAATATGGCTGA-ATTTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCT
* * * * *
5102 GCCAAAAATCAAGCAAAACTGAGCCGGAGCCCCGAAACGCGTTTTTAGCCAAAAA-AACCGTGAT
849 GCCAAAAAT-ATGCAAAACTGGGTCGG-G-CCCGGAA-GCGTTTTTAG-CAAAAACAA-AGTGAT
* * *
5166 GGTTAGTAAACGATTTCGAC---T--AA
908 GGTTAATATACGATTTAG-CTTTTGCAA
* * * * * * *
5189 AAACAGACCCGGAAAGTTTTTTTCTCAATTTTTT-ACAAAATATTCAAAAAAAATCTATAATTCA
1 AAACTGACCC-GAAA--TTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCA
* * * * * *
5253 ACGCCAAAAAAATTGACGGGCTTTTCACTCTTCTATTA-CGTTTTTCCATTTTTTTCTAAATTTA
63 ACG-CAAAAAAAATGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTC-GAATTTA
* * * *
5317 TTTCTAATTATAT-----C--GAAT-AGATGCTTGT-AAAA-AAATACTTAAATCCAATGTGACA
125 TTTCTAATTATATCGAAACAAGAATCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATG-GA
* * * ** * *
5372 T-AGATCTGGTTAGATGAATATAGATATTTC-AAGGAGTTTTATCTGCCAAAAATCATGCAAAAC
189 TGAGATTTGGTTGGATGAATATAGATATTTCAAAGAAGACTT-TCTG-C-AAAACCAAGCAAAA-
* *** * * * *
5435 TT-AGTCGGGGCCCCGAAACGCGTTTTTACCC-AAAACTCGTGATGGTTAATACACGATTGTCGG
250 TTGAG-CAGGGCCCCGAAACGCGTTTTTACCCAAAAAC-CACAATGCTTAATAAACAATT-TCAG
* * * * * * * * *
5498 CTAAAAACTGACC-CAAAGAATTTTTTCTCAATTTTTTGCCACAACATTCAGAAAAAATATATAA
312 CCAAAAAC-GACCTGAAAG--TATTTTCACAACTTCTT--CAAAATATT-AGAAAAAATATATAT
* * *
5562 TTCAACGCCAAAAATATTGAAAGTTTTTCACGCTTCTAATATTATTTTTCC-A-TTTTTCTGAAT
371 TTGAACGCC-AAAA-A--G--A-----T-A---TACTAATATTGTTTTTCCAATTTTTTCTGAAT
5625 TTATTTTTAATTATATCGAAACAAGAATCAGATGCTCGTAAAAACAAATCATTAAATCCAATGTG
421 TTATTTTTAATTATATCGAAACAAG-ATCAGATGCTCGTAAAAACAAATCATTAAATCCAATGTG
*
5690 GCTTAGATTTGGTTAGATGAATATAGATATTTAAAGGAGTCTTTCCGCCAAAAAACATGCAAAAC
485 GCTGAGATTTGGTTAGATGAATATAGATATTTAAAGGAGTCTTTCCGCCAAAAAACATGCAAAAC
* * *
5755 TGATCCAAGGTCCCGAAACGCGTTTTTAGCCAAAAATAGTGATGGTTATTAAACGATTTCGGCAA
550 TGA-CC-AGGTCCCGAAACGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACACGATTTCGGCAA
* * *
5820 AAAATTGACCCGAAAAGTTTATTCCTCTATTTTTTGCAAAATATTCAGAAAAAGTATATAATTCA
613 AAAATTGACCC-AAAAATTTATT-CTCTATTTTTTGCAAAATAATCAGAAAAAATATATAATTCA
* * * * * * * * *
5885 ATGCCAAAAAGATTTACGGGCTTTTCACCCTTCTAATATCATTTTTCCATTTTTTTCTGAATTAA
676 ACGCCAAAAATATTGAAGGGATTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTA
* * * *
5950 TTTCTAGTTAAATCGAAACAAGATTCAGATTCTCGCAAAAACAAA-CCTTTATATCCAATGTGGC
741 TTTCTAATTAAATCGAAACAAGATTCAGATTCTCGTAAAAACAAATCC-TTAAATCCAATATGGC
* * * * * * * *
6014 TGAATTTTGGTTCGATAAATATAGATATTTCAAGTCA-TCTTTGTTCAAAAAAATCTTGCAAAAT
805 TGAATTTTGGTTAGATGAATATAGATATTTCAAG-GAGTCTTTCTGC-CAAAAAT-ATGCAAAAC
* *
6078 TGAGTCAGGGCTCCGGAATGCGTTTTTTG-AAAAACTAAAGTGATGGTTAATATACGATTTTAGC
867 TGGGTC-GGGC-CCGGAA-GCGTTTTTAGCAAAAAC-AAAGTGATGGTTAATATACGA-TTTAGC
6142 TAAAATTTTGCAA
927 -----TTTTGCAA
* *
6155 AAACTGACCCGGAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAAATTTATAATTCG
1 AAACTGACCC-GAAA-TTTTTCCTCAATTTTTTGCCACAATACTCAG-AAAAAATATATAATTCA
6220 ACGCAAAAAAAAATAGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTATTTACCGAATT
63 ACGC-AAAAAAAAT-GAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTT-TTT--CGAATT
* * *
6285 TATTTCTAATTAAATCGAAACAAGAATCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATATGG
123 TATTTCTAATTATATCGAAACAAGAATCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGG
* *
6350 ATGAGATTTGATTGGATGAATATAGATATTTCAAAG-AGACTTTC-G-AAAACCATGCAAAATTG
188 ATGAGATTTGGTTGGATGAATATAGATATTTCAAAGAAGACTTTCTGCAAAACCAAGCAAAATTG
* * * *
6412 AGCCGGGGCCCCGAAACGCGTTTTTAGCCAAAAACTGCCACAATACTCTTAAAAAATATACAA-T
253 AG-CAGGGCCCCGAAACGCGTTTTTACCCAAAAA---CCACAAT--GCTT----AATAAACAATT
* * * * ***** *
6476 TCAAAGCCAAAAA-TA-TTG-AAGTATTTTCAC-GCTTC-T-AATATCATT-TTTCCAATATCGT
308 TC--AGCCAAAAACGACCTGAAAGTATTTTCACAACTTCTTCAAAAT-ATTAGAAAAAATAT-AT
* **
6534 TTTTGATGGCCAAAAA-A-A-A-TAATATTGTTTTTCCAATTTTTTCTGAATTTATTTTTAATTA
369 ATTTGAACGCCAAAAAGATATACTAATATTGTTTTTCCAATTTTTTCTGAATTTATTTTTAATTA
* *
6595 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATGCAATGTGGCTGAGATTTGGT
434 TATCGAAACAAGA-TCAGATGCTCGTAAAAACAAATCATTAAATCCAATGTGGCTGAGATTTGGT
* * * * * * * *
6660 TAGATGAATATAGATATTTCAAGGAGACTTTCTC-CCACAAATCATGCACAATTGAGCCGGGGCC
498 TAGATGAATATAGATATTTAAAGGAGTCTTTC-CGCCAAAAAACATGCAAAACTGA-CCAGGTCC
* * * *
6724 TCGAAACGTGTTTTTAGCCAAAAACCGTGATGTTTTAGTACACGATTTCTGCTAAAAATATT--C
561 -CGAAACGCGTTTTTAGCCAAAAACAGTGATG-GTTAGTACACGATTTCGGC-AAAAA-ATTGAC
*** * * *
6787 CCAAAAAAAAATTCTCTATTTTTTCCATAATAATCAGAAAAAATATATAATTCAACGCCAAGAAT
622 CCAAAAATTTATTCTCTATTTTTTGCAAAATAATCAGAAAAAATATATAATTCAACGCCAAAAAT
* * * *
6852 ATTGAAGGGTTTTTTCAAGTTTCTTATATCGTTTTTCCATTTTTATTTTCCGAATTTATTTCTAA
687 ATTGAAGGG-ATTTTCACGCTTCTAATATCGTTTTTCCA--TTT-TTTTCCGAATTTATTTCTAA
* * * * *
6917 TTATATCGAAAAAAGAATCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGATG-ATATT
748 TTAAATCGAAACAAGATTCAGATTCTCGTAAAAACAAATCCTTAAATCCAATATGGCTGAAT-TT
* *
6981 TGCTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTGGGCCGGG
812 TGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-ATGCAAAACTGGGTC-GG
* * * * * **
7046 GCCCTGAAACGTGCTTTTAGCAAAAAAAAAACCTTGATGGTTAATACACGA--TA---TCGGCTA
875 GCCCGGAAGCGT--TTTTAGC-AAAAACAAA--GTGATGGTTAATATACGATTTAGCTTTTGC-A
7106 A
934 A
* * * * * *
7107 AAACTAACCCGAAATTTTTTTCTCTCAATTGTTTACTACATTACGCAGAAAAAATATATAATTCA
1 AAACTGACCCGAAA--TTTTTC-CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCA
* ** * *
7172 ACGCTAAAAAAATTGAACTGTTTTTCACACTTCTAATAGCG-TTTT---TTTTTTCGAATTTATT
63 ACGC-AAAAAAAATGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCGAATTTATT
* * * *
7233 TCTAATTATATCGAAACAAG-ATCCGGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTG
127 TCTAATTATATCGAAACAAGAAT-CAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGATG
* *
7297 AGATTTGGTTGGATGAATATAGATATTTC-AAGAAGTCTTTCTGCCAAAAATCAAGCAAAATTGA
191 AGATTTGGTTGGATGAATATAGATATTTCAAAGAAGACTTTCTG-C-AAAACCAAGCAAAATTGA
*** * * * *
7361 GCAGGGCCCCGAAACGCGTTTTTACCCAAAAACCGTGATGGTTAGTAAACAATTTCGGCTAAAAA
254 GCAGGGCCCCGAAACGCGTTTTTACCCAAAAACCACAATGCTTAATAAACAATTTCAGCCAAAAA
* * *
7426 CGGACCTGAAAAGTTTTTTCTCAATTTCTTGCAAAATATTCAGAAAAAATATATATTTGAACGCC
319 C-GACCTG-AAAGTATTTTCACAACTTCTT-CAAAATATT-AGAAAAAATATATATTTGAACGCC
* *
7491 AAAAAGATTGACGGGCTTTTCACGCTTCTAATATTGTTTTTCCATTTTTTTCCTTAATTTATTTT
380 AAAAAGA-T-A--------T-A-----CTAATATTGTTTTTCCAATTTTTT-CTGAATTTATTTT
*
7556 TAATTATATCG-----A-AT-AGATGCTCGTAAAAACAAATCTTTAAATCCAATGTGGCTGAGAT
428 TAATTATATCGAAACAAGATCAGATGCTCGTAAAAACAAATCATTAAATCCAATGTGGCTGAGAT
* * * * *
7614 TTGGTTAGATGAATATAGATATTTGAAGGAGTCTATCTG-CAAAAAATCATGCAAAACTGAGCTG
493 TTGGTTAGATGAATATAGATATTTAAAGGAGTCTTTCCGCCAAAAAA-CATGCAAAACTGACCAG
* * *
7678 GTGCCCCGAAACGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACATGATTTCGGCTAAAAACTG
557 GT--CCCGAAACGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACACGATTTCGGCAAAAAATTG
* * * *
7743 ACCCAAAGAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAA
620 ACCCAAA-AATTTATTCTCTATTTTTTG-CAAAATAATCAGAAAAAATATATAATTCAACGCCAA
* *
7808 AAATATTGAAGGGATTTTCACGCTTCTAATATCGTTTTTCCATCTTTTTTCCAAATTTATTTTTA
683 AAATATTGAAGGGATTTTCACGCTTCTAATATCGTTTTTCCAT-TTTTTTCCGAATTTATTTCTA
* *
7873 ATTACATCGAAACAAGATTCAGATTCTTGTAAAAACAAATCCTTAAATCCAATATGGCTGAGA-T
747 ATTAAATCGAAACAAGATTCAGATTCTCGTAAAAACAAATCCTTAAATCCAATATGGCTGA-ATT
* *
7937 TTAGTTAGATGAATATAGATATTTCAAGGAGTCTATCTGCCAAAAATATGCAAAACTGGGTCGGG
811 TTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATATGCAAAACTGGGTCGGG
* * * * * *
8002 GCCGTAAAACGCGTTTTTAGCCAAAAAC--CGTGATGGTT-A-GTAC-A--TAACTTTCGGCTAA
876 CCCG--GAA-GCGTTTTTAG-CAAAAACAAAGTGATGGTTAATATACGATTTAGCTTT-TGC-AA
*
8060 AAACTGACCCGAATTATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAA
1 AAACTGACCCGAA--ATTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAA
* * * * *
8125 CGCCAAAAATATGAAAGGGGTTTTTCAAGCTTCCAATATCGTTTTTCCATTTTTTTTTTCGAAAT
64 CGCAAAAAAAATG-AA-GGGTTTTTCACGCTTCTAATATCGTTTTTCCA----TTTTTTCGAATT
* *
8190 TATTTCTAATTATATCGAAACAAGATTTAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGG
123 TATTTCTAATTATATCGAAACAAGAATCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGG
* * *
8255 TTGAGATTTGGTTGAATGAATATAAATATTTCAA
188 ATGAGATTTGGTTGGATGAATATAGATATTTCAA
8289 GTCTTTCTGC
Statistics
Matches: 2516, Mismatches: 398, Indels: 394
0.76 0.12 0.12
Matches are distributed among these distances:
937 7 0.00
938 7 0.00
939 4 0.00
940 2 0.00
942 12 0.00
943 8 0.00
944 104 0.04
945 4 0.00
946 21 0.01
947 38 0.02
948 17 0.01
949 3 0.00
950 7 0.00
951 38 0.02
952 96 0.04
953 61 0.02
954 4 0.00
955 28 0.01
956 200 0.08
957 361 0.14
958 131 0.05
959 213 0.08
960 155 0.06
961 106 0.04
962 19 0.01
963 3 0.00
964 3 0.00
965 16 0.01
966 48 0.02
967 57 0.02
968 45 0.02
969 132 0.05
970 39 0.02
971 38 0.02
972 57 0.02
973 71 0.03
974 71 0.03
975 55 0.02
976 7 0.00
977 5 0.00
978 16 0.01
979 16 0.01
980 49 0.02
981 6 0.00
982 55 0.02
983 28 0.01
984 33 0.01
985 14 0.01
986 5 0.00
987 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (934 bp):
AAACTGACCCGAAATTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
CAAAAAAAATGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCGAATTTATTTCTA
ATTATATCGAAACAAGAATCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGATGAGATT
TGGTTGGATGAATATAGATATTTCAAAGAAGACTTTCTGCAAAACCAAGCAAAATTGAGCAGGGC
CCCGAAACGCGTTTTTACCCAAAAACCACAATGCTTAATAAACAATTTCAGCCAAAAACGACCTG
AAAGTATTTTCACAACTTCTTCAAAATATTAGAAAAAATATATATTTGAACGCCAAAAAGATATA
CTAATATTGTTTTTCCAATTTTTTCTGAATTTATTTTTAATTATATCGAAACAAGATCAGATGCT
CGTAAAAACAAATCATTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTAAAG
GAGTCTTTCCGCCAAAAAACATGCAAAACTGACCAGGTCCCGAAACGCGTTTTTAGCCAAAAACA
GTGATGGTTAGTACACGATTTCGGCAAAAAATTGACCCAAAAATTTATTCTCTATTTTTTGCAAA
ATAATCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGATTTTCACGCTTCTAATATC
GTTTTTCCATTTTTTTCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATTCTCGTAAAA
ACAAATCCTTAAATCCAATATGGCTGAATTTTGGTTAGATGAATATAGATATTTCAAGGAGTCTT
TCTGCCAAAAATATGCAAAACTGGGTCGGGCCCGGAAGCGTTTTTAGCAAAAACAAAGTGATGGT
TAATATACGATTTAGCTTTTGCAA
Found at i:10501 original size:12 final size:12
Alignment explanation
Indices: 10484--10508 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10474 AAACGAAACA
10484 TTCAAATTGAGC
1 TTCAAATTGAGC
10496 TTCAAATTGAGC
1 TTCAAATTGAGC
10508 T
1 T
10509 ACTCAATCTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TTCAAATTGAGC
Found at i:10689 original size:21 final size:21
Alignment explanation
Indices: 10665--10730 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 21
10655 GCCATTACAA
10665 AATATAGTAGATTACCCTGCT
1 AATATAGTAGATTACCCTGCT
*
10686 AATATAGTAAATCTACTATACTCTGCT
1 AATATAGTAGAT-TAC----C-CTGCT
10713 AATATAGTAGATTACCCT
1 AATATAGTAGATTACCCT
10731 TTAGCGCAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
21 13 0.35
22 4 0.11
26 4 0.11
27 16 0.43
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
AATATAGTAGATTACCCTGCT
Found at i:11616 original size:30 final size:30
Alignment explanation
Indices: 11544--11644 Score: 118
Period size: 36 Copynumber: 3.3 Consensus size: 30
11534 GGAATATTTT
11544 TCTCCTTGCAATCGTCGGGGTAGTACCCGATCCCG
1 TCTCCTTGCAATCGTCGGGGTAGTACCCG-----G
11579 TTCTCCTTGCAATCGTCGGGGTAGTACCCGG
1 -TCTCCTTGCAATCGTCGGGGTAGTACCCGG
*
11610 TCTCCTTGCAA---TCGGGGCAGTACCCGG
1 TCTCCTTGCAATCGTCGGGGTAGTACCCGG
11637 TCTCCTTG
1 TCTCCTTG
11645 TATTCGTAGC
Statistics
Matches: 64, Mismatches: 1, Indels: 9
0.86 0.01 0.12
Matches are distributed among these distances:
27 23 0.36
30 11 0.17
31 1 0.02
36 29 0.45
ACGTcount: A:0.13, C:0.33, G:0.27, T:0.28
Consensus pattern (30 bp):
TCTCCTTGCAATCGTCGGGGTAGTACCCGG
Found at i:11632 original size:27 final size:28
Alignment explanation
Indices: 11575--11644 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
11565 AGTACCCGAT
* *
11575 CCCGTTCTCCTTGCAATCGTCGGGGTAGTA
1 CCCGGTCTCCTTGCAA-C-TCGGGGCAGTA
11605 CCCGGTCTCCTTGCAA-TCGGGGCAGTA
1 CCCGGTCTCCTTGCAACTCGGGGCAGTA
11632 CCCGGTCTCCTTG
1 CCCGGTCTCCTTG
11645 TATTCGTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 23 0.61
30 15 0.39
ACGTcount: A:0.11, C:0.34, G:0.27, T:0.27
Consensus pattern (28 bp):
CCCGGTCTCCTTGCAACTCGGGGCAGTA
Found at i:12033 original size:1 final size:1
Alignment explanation
Indices: 12027--12061 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
12017 CAATTGAGAT
12027 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12062 CTAAATCCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:28902 original size:4 final size:4
Alignment explanation
Indices: 28893--28917 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
28883 AAGGCAACCT
28893 ACAA ACAA ACAA ACAA ACAA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA A
28918 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:31111 original size:22 final size:21
Alignment explanation
Indices: 31082--31122 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
31072 ATGACGAGAG
*
31082 GATGAAAATCAATCAATCAAA
1 GATGAAAAGCAATCAATCAAA
*
31103 GATGTAAAAGCATTCAATCA
1 GATG-AAAAGCAATCAATCA
31123 TGGTAAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (21 bp):
GATGAAAAGCAATCAATCAAA
Found at i:34820 original size:134 final size:134
Alignment explanation
Indices: 34577--35107 Score: 579
Period size: 136 Copynumber: 4.0 Consensus size: 134
34567 ATCTGAGGAG
* * *
34577 ATATTTCGTATCTTACAAGATTTGTGCATTAAATATTCATATTATTGAAGACAATCTTTTAATAT
1 ATATTTCGTATCTTACAAGATTCGTGCATT-AATATTC--ATTATTGAAGACGATCTTTTAATGT
* * * * * *
34642 ACGTTACTTTCTATAACTCGCAATCATATCGAACATCAACTAGTACGAAACT-GAGCCGTACTGG
63 AC-TTACTTTCTATATCTCACAATCATATTGAGCATCAACTAGTACGAAAGTCGAGTCGTACTGG
34706 ATTCGAAA
127 ATTCGAAA
* * **
34714 ATATTTCGTATCTTACAAGATTCGAGCACTAATATTCATTATCAAAGACGATCTTTTAATGTACT
1 ATATTTCGTATCTTACAAGATTCGTGCATTAATATTCATTATTGAAGACGATCTTTTAATGTACT
* *
34779 TCACTTTCTGTATCTCATAATCATATTGAGCATCAACTAGTAC-AAAGTCGAGTCGTACTGGATT
66 T-ACTTTCTATATCTCACAATCATATTGAGCATCAACTAGTACGAAAGTCGAGTCGTACTGGATT
34843 CGAAA
130 CGAAA
* * * *
34848 ATATTTCGTATCTTACAAGATTCGTGAATTAATATTTATATTATTGAAGATGATCTCTTAATGTA
1 ATATTTCGTATCTTACAAGATTCGTGCATTAATA-TT-CATTATTGAAGACGATCTTTTAATGTA
* *
34913 TGTTACTTTCTATATCTCACAATCATATTGAGCATCAACTAGTACG-AAGTCGAGATC-TATTGG
64 -CTTACTTTCTATATCTCACAATCATATTGAGCATCAACTAGTACGAAAGTCGAG-TCGTACTGG
34976 ATTCGAAA
127 ATTCGAAA
*
34984 ATATTTTGTATCTTACAAGATTCGTGC------A-TCATTA---AAGACGATCTTTTAATGTACG
1 ATATTTCGTATCTTACAAGATTCGTGCATTAATATTCATTATTGAAGACGATCTTTTAATGTAC-
** * * * * * * * *
35039 TTACTTTCTATGCCTGACAATCATATTGAACATTAACTAGTTCG-AAGCCGAGCCATACTGAATT
65 TTACTTTCTATATCTCACAATCATATTGAGCATCAACTAGTACGAAAGTCGAGTCGTACTGGATT
35103 CGAAA
130 CGAAA
35108 CGGAAAAAAC
Statistics
Matches: 342, Mismatches: 43, Indels: 31
0.82 0.10 0.07
Matches are distributed among these distances:
123 1 0.00
124 74 0.22
127 4 0.01
128 1 0.00
130 1 0.00
133 6 0.02
134 108 0.32
135 2 0.01
136 114 0.33
137 31 0.09
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (134 bp):
ATATTTCGTATCTTACAAGATTCGTGCATTAATATTCATTATTGAAGACGATCTTTTAATGTACT
TACTTTCTATATCTCACAATCATATTGAGCATCAACTAGTACGAAAGTCGAGTCGTACTGGATTC
GAAA
Found at i:42633 original size:19 final size:19
Alignment explanation
Indices: 42598--42634 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42588 TGTATCTGTA
* *
42598 ACCGTTTCATCAGCATTTG
1 ACCGTTTCAACACCATTTG
42617 ACCGTTTCAACACCATTT
1 ACCGTTTCAACACCATTT
42635 TGGGTCTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.30, G:0.11, T:0.35
Consensus pattern (19 bp):
ACCGTTTCAACACCATTTG
Found at i:42698 original size:21 final size:22
Alignment explanation
Indices: 42672--42718 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
42662 ATCGCTGCTC
*
42672 TACAGTAC-CTAATCTAATTTG
1 TACAGTACTCTAATCTAATCTG
* *
42693 TACAGTACTGTAATCTCATCTG
1 TACAGTACTCTAATCTAATCTG
42715 TACA
1 TACA
42719 ATTGCTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (22 bp):
TACAGTACTCTAATCTAATCTG
Found at i:51246 original size:30 final size:30
Alignment explanation
Indices: 51212--51273 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
51202 ATTTTTATCT
*
51212 TGACTTTCCTCTTATACCCTCTAATTTTAA
1 TGACTTTCCTCTTATACCCTCAAATTTTAA
**
51242 TGACTTTTTTCTTATACCCTCAAATTTTAA
1 TGACTTTCCTCTTATACCCTCAAATTTTAA
51272 TG
1 TG
51274 GTTTATTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.23, G:0.05, T:0.48
Consensus pattern (30 bp):
TGACTTTCCTCTTATACCCTCAAATTTTAA
Found at i:51437 original size:17 final size:18
Alignment explanation
Indices: 51415--51456 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
51405 AATGTATACT
51415 TTCCCACTA-AAATAACA
1 TTCCCACTAGAAATAACA
* * *
51432 TTCCCAATAGGAATGACA
1 TTCCCACTAGAAATAACA
51450 TTCCCAC
1 TTCCCAC
51457 ATGATATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.38, C:0.31, G:0.07, T:0.24
Consensus pattern (18 bp):
TTCCCACTAGAAATAACA
Found at i:52498 original size:63 final size:63
Alignment explanation
Indices: 52421--52544 Score: 248
Period size: 63 Copynumber: 2.0 Consensus size: 63
52411 ACTTGTTAGT
52421 TCATGTGAGCCTGCATGCATTGCTTTATATATATAATTATCAGCTAATTGCTCAAATAAGAGC
1 TCATGTGAGCCTGCATGCATTGCTTTATATATATAATTATCAGCTAATTGCTCAAATAAGAGC
52484 TCATGTGAGCCTGCATGCATTGCTTTATATATATAATTATCAGCTAATTGCTCAAATAAGA
1 TCATGTGAGCCTGCATGCATTGCTTTATATATATAATTATCAGCTAATTGCTCAAATAAGA
52545 ACCTAACGTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (63 bp):
TCATGTGAGCCTGCATGCATTGCTTTATATATATAATTATCAGCTAATTGCTCAAATAAGAGC
Found at i:53864 original size:19 final size:19
Alignment explanation
Indices: 53840--53898 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
53830 CTGTTTAGAA
53840 ACTGTACAGATTAGATTAT
1 ACTGTACAGATTAGATTAT
53859 ACTGTACAGATTAGATTAGGT
1 ACTGTACAGATTAGATTA--T
* *
53880 ACTGTATAGATGAGATTAT
1 ACTGTACAGATTAGATTAT
53899 TAGAGCAGCG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 19 0.53
21 17 0.47
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (19 bp):
ACTGTACAGATTAGATTAT
Found at i:55854 original size:226 final size:226
Alignment explanation
Indices: 55453--55871 Score: 669
Period size: 226 Copynumber: 1.9 Consensus size: 226
55443 AATAAAGAAT
* * * * * *
55453 GGCAAATCATATAATACATCGTCAGTGGAGTTTAGCATACTACACAAGCAGGTTCTTAAGGGTGA
1 GGCAAATCATACAATACACCGGCAGTGGAGTTTAGCAGACTACACAAGCAGGTCCTGAAGGGTGA
*
55518 CATGTGTCTTCTAAGGACTAGATTGAAATATTTAAAACTTAATTAATTAAAAAATTGGACATATA
66 CATGTGTCCTCTAAGGACTAGATTGAAATATTTAAAACTTAATTAATTAAAAAATTGGACATATA
* *
55583 TCAACTCCATAACCCGCTTGTGGAGTCCAAAATTTACATCGCCGGTGTATCAAATAATTACCCAT
131 TCAACTCCACAACCCGCTTGTGGAGTCCAAAATTTACACCGCCGGTGTATCAAATAATTACCCAT
55648 AAAGAATAGTAGTATATTTGATTAATTTATA
196 AAAGAATAGTAGTATATTTGATTAATTTATA
* * *
55679 GGCAAATTATACAATACACCGGCGGTGGAGTTTAGCAGACTACACAAGCGGGTCCTGAAGGGTGA
1 GGCAAATCATACAATACACCGGCAGTGGAGTTTAGCAGACTACACAAGCAGGTCCTGAAGGGTGA
* * *
55744 CATGTGTCCTCTAGGGACTAGATTGAAATATTTAAAACTTAATTAATTCAACAAA-TGGACATGT
66 CATGTGTCCTCTAAGGACTAGATTGAAATATTTAAAACTTAATTAATT-AAAAAATTGGACATAT
* *
55808 GTCAACTCCACAACTCGCTTGTGGAGTCCAAAATTTACACCGCCGGTGTATCAAATAATTACCC
130 ATCAACTCCACAACCCGCTTGTGGAGTCCAAAATTTACACCGCCGGTGTATCAAATAATTACCC
55872 TAATTTATAA
Statistics
Matches: 175, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
226 170 0.97
227 5 0.03
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (226 bp):
GGCAAATCATACAATACACCGGCAGTGGAGTTTAGCAGACTACACAAGCAGGTCCTGAAGGGTGA
CATGTGTCCTCTAAGGACTAGATTGAAATATTTAAAACTTAATTAATTAAAAAATTGGACATATA
TCAACTCCACAACCCGCTTGTGGAGTCCAAAATTTACACCGCCGGTGTATCAAATAATTACCCAT
AAAGAATAGTAGTATATTTGATTAATTTATA
Found at i:65493 original size:2 final size:2
Alignment explanation
Indices: 65486--65519 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
65476 GTTATCACTT
65486 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
65520 GGACTTGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:66552 original size:11 final size:11
Alignment explanation
Indices: 66536--66574 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
66526 AAATTGAAAG
66536 CTTTTTCTTTT
1 CTTTTTCTTTT
66547 CTTTTTCTTTT
1 CTTTTTCTTTT
**
66558 -TTTTTAATTT
1 CTTTTTCTTTT
66568 CTTTTTC
1 CTTTTTC
66575 AGTTTTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:69241 original size:2 final size:2
Alignment explanation
Indices: 69234--69261 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
69224 TTTATTTGCC
69234 AT 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 AT
69262 TAGCTTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76170 original size:2 final size:2
Alignment explanation
Indices: 76163--76187 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
76153 ACATATAGTG
76163 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
76188 TAACATGAAC
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77997 original size:2 final size:2
Alignment explanation
Indices: 77990--78017 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
77980 AACCGTAACA
77990 AT 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 AT
78018 TCGTGGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80201 original size:24 final size:26
Alignment explanation
Indices: 80168--80221 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
80158 TGAAAACCAT
80168 TATTTATTA-TTTATC-ATAATCAAA
1 TATTTATTATTTTATCAATAATCAAA
* *
80192 TATTTTTTATTTTTTCAAATAATCAAA
1 TATTTATTATTTTATC-AATAATCAAA
80219 TAT
1 TAT
80222 AGATTCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 5 0.20
27 12 0.48
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTATTATTTTATCAATAATCAAA
Found at i:108662 original size:42 final size:42
Alignment explanation
Indices: 108600--108686 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
108590 TTGACGCTGG
*
108600 GAAATTAATTCAAAAGGTGAACCAAGAGTAAGAACTTGCTCA
1 GAAATTAATTCAAAACGTGAACCAAGAGTAAGAACTTGCTCA
*
108642 GAAATTTATTCAAAACGTGAACCAAGAGTAAGAACTTGCTCA
1 GAAATTAATTCAAAACGTGAACCAAGAGTAAGAACTTGCTCA
108684 GAA
1 GAA
108687 GAAATATTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (42 bp):
GAAATTAATTCAAAACGTGAACCAAGAGTAAGAACTTGCTCA
Found at i:109025 original size:29 final size:29
Alignment explanation
Indices: 108983--109048 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 29
108973 AGCCTCAAAC
108983 AAGAAAATAATCATTCATTAAGACATGAA
1 AAGAAAATAATCATTCATTAAGACATGAA
*
109012 AAGAAAATAATCATTTATTAAGACATGAA
1 AAGAAAATAATCATTCATTAAGACATGAA
109041 AATGAAAA
1 AA-GAAAA
109049 AACTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 30 0.86
30 5 0.14
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (29 bp):
AAGAAAATAATCATTCATTAAGACATGAA
Found at i:127836 original size:2 final size:2
Alignment explanation
Indices: 127829--127853 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
127819 TTTCCCTAAA
127829 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
127854 ATAACATCTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:128463 original size:2 final size:2
Alignment explanation
Indices: 128456--128495 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
128446 GAGAAGTTGG
128456 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
128496 GTGTGTCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130017 original size:32 final size:32
Alignment explanation
Indices: 129926--130024 Score: 96
Period size: 32 Copynumber: 3.1 Consensus size: 32
129916 ATCGACTTTA
129926 ATTAATATAAGTAATTGCCCTACTTTAAAATG
1 ATTAATATAAGTAATTGCCCTACTTTAAAATG
* * * * **
129958 ATTTTTAGATCAAG-AAATG--ATTTTTTAAAATG
1 A--TTAATAT-AAGTAATTGCCCTACTTTAAAATG
129990 ATTAATATAAGTAATTGCCCTACTTTAAAATG
1 ATTAATATAAGTAATTGCCCTACTTTAAAATG
130022 ATT
1 ATT
130025 TTTTCCAGGT
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
29 3 0.06
30 9 0.18
32 25 0.51
34 9 0.18
35 3 0.06
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (32 bp):
ATTAATATAAGTAATTGCCCTACTTTAAAATG
Found at i:133712 original size:16 final size:16
Alignment explanation
Indices: 133658--133713 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
133648 CATCCGAGTC
* *
133658 CGAACCCGAAATTATT
1 CGAACCCGAAAATACT
*
133674 CG-ACCCG-AAATCACC
1 CGAACCCGAAAAT-ACT
*
133689 CGAGCCCGAAAATACT
1 CGAACCCGAAAATACT
133705 CGAACCCGA
1 CGAACCCGA
133714 GACAACCCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 3 0.10
15 8 0.26
16 16 0.52
17 4 0.13
ACGTcount: A:0.36, C:0.36, G:0.16, T:0.12
Consensus pattern (16 bp):
CGAACCCGAAAATACT
Found at i:133728 original size:31 final size:30
Alignment explanation
Indices: 133661--133728 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
133651 CCGAGTCCGA
* *
133661 ACCCGAAATTATTCGACCCGAAATCACCCG
1 ACCCGAAAATACTCGACCCGAAATCACCCG
*
133691 AGCCCGAAAATACTCGAACCCGAGA-CAACCCG
1 A-CCCGAAAATACTCG-ACCCGAAATC-ACCCG
133723 ACCCGA
1 ACCCGA
133729 GACCGAGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 1 0.03
31 18 0.56
32 13 0.41
ACGTcount: A:0.35, C:0.38, G:0.16, T:0.10
Consensus pattern (30 bp):
ACCCGAAAATACTCGACCCGAAATCACCCG
Found at i:148132 original size:19 final size:20
Alignment explanation
Indices: 148087--148144 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
148077 GCTGCTCTAA
*
148087 TAATCTCATCTGTACAGTACT
1 TAATCTCATCTGTACAGTA-G
*
148108 TAATCTAATCTGTACAGT-G
1 TAATCTCATCTGTACAGTAG
*
148127 TAATCTCGTCTGTACAGT
1 TAATCTCATCTGTACAGT
148145 TGCTAAACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.48
21 17 0.52
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATCTCATCTGTACAGTAG
Found at i:152804 original size:4 final size:4
Alignment explanation
Indices: 152788--152819 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
152778 CCCTCAAAAA
*
152788 AATT AACT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
152820 TAATATGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:153102 original size:35 final size:35
Alignment explanation
Indices: 153062--153136 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
153052 AGTTCGTTTA
153062 TGTTCACGAACAGACTCGTTTATTGTTCATTTAAG
1 TGTTCACGAACAGACTCGTTTATTGTTCATTTAAG
153097 TGTTCACGAACAGACTCGTTTATTGTTCATTTAAG
1 TGTTCACGAACAGACTCGTTTATTGTTCATTTAAG
153132 TGTTC
1 TGTTC
153137 GTTTATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (35 bp):
TGTTCACGAACAGACTCGTTTATTGTTCATTTAAG
Found at i:153199 original size:16 final size:16
Alignment explanation
Indices: 153178--153209 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
153168 TATAATTATT
153178 TATATATTAATAATAA
1 TATATATTAATAATAA
*
153194 TATATATTATTAATAA
1 TATATATTAATAATAA
153210 AAATTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATATTAATAATAA
Found at i:153204 original size:19 final size:19
Alignment explanation
Indices: 153162--153209 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
153152 GAACGTTCAT
* *
153162 TTATTATATAATTATTTATA
1 TTATTA-ATAATAATATATA
153182 -TATTAATAATAATATATA
1 TTATTAATAATAATATATA
153200 TTATTAATAA
1 TTATTAATAA
153210 AAATTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTAATAATAATATATA
Found at i:153364 original size:18 final size:18
Alignment explanation
Indices: 153337--153371 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
153327 AATTATTACA
153337 TTGTTCATGAACAATTTT
1 TTGTTCATGAACAATTTT
*
153355 TTGTTTATGAACAATTT
1 TTGTTCATGAACAATTT
153372 CAATTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (18 bp):
TTGTTCATGAACAATTTT
Found at i:162345 original size:21 final size:21
Alignment explanation
Indices: 162307--162346 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
162297 TTTCTCGTTA
*
162307 ATTTCGATTGAACATTTTTTT
1 ATTTCGACTGAACATTTTTTT
*
162328 ATTTCGACTGGAC-TTTTTT
1 ATTTCGACTGAACATTTTTT
162347 GTTCGTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (21 bp):
ATTTCGACTGAACATTTTTTT
Found at i:176856 original size:38 final size:38
Alignment explanation
Indices: 176813--176888 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
176803 CACATTGTAA
176813 CCAATGAGCTTACAACTTAAAAACATTTTGAAATATGT
1 CCAATGAGCTTACAACTTAAAAACATTTTGAAATATGT
176851 CCAATGAGCTTACAACTTAAAAACATTTTGAAATATGT
1 CCAATGAGCTTACAACTTAAAAACATTTTGAAATATGT
176889 TTAATTCAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (38 bp):
CCAATGAGCTTACAACTTAAAAACATTTTGAAATATGT
Found at i:177641 original size:31 final size:31
Alignment explanation
Indices: 177603--177725 Score: 201
Period size: 31 Copynumber: 4.0 Consensus size: 31
177593 CATGCAGCAA
*
177603 AATACCTCGAAAGCTGCGCCAATAATGTGAG
1 AATACCTCGAAAGCTGCACCAATAATGTGAG
*
177634 AATACCTCGAAAGCTGCACCAGTAATGTGAG
1 AATACCTCGAAAGCTGCACCAATAATGTGAG
*
177665 AATACCTCGAAAGCTGCACCAGTAATGTGAG
1 AATACCTCGAAAGCTGCACCAATAATGTGAG
* *
177696 AATACCTCAAAAGCTGCGCCAATAATGTGA
1 AATACCTCGAAAGCTGCACCAATAATGTGA
177726 ACGCCCAGTG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 87 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (31 bp):
AATACCTCGAAAGCTGCACCAATAATGTGAG
Found at i:178226 original size:25 final size:27
Alignment explanation
Indices: 178183--178232 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
178173 AAAAATCAAC
178183 ACTTTCTCTCTCTTCTCAATTTTTGTT
1 ACTTTCTCTCTCTTCTCAATTTTTGTT
178210 ACTTTCTCTCT-TT-TCAATTTTTG
1 ACTTTCTCTCTCTTCTCAATTTTTG
178233 ATTGTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.43
26 2 0.09
27 11 0.48
ACGTcount: A:0.12, C:0.24, G:0.04, T:0.60
Consensus pattern (27 bp):
ACTTTCTCTCTCTTCTCAATTTTTGTT
Found at i:183281 original size:30 final size:30
Alignment explanation
Indices: 183247--183308 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
183237 ATTTTTATCT
183247 TGACTTTCCTCTTATACCCTCAAATTTTAA
1 TGACTTTCCTCTTATACCCTCAAATTTTAA
*
183277 TGACTTTTCTCTTATACCCTCAAATTTTAA
1 TGACTTTCCTCTTATACCCTCAAATTTTAA
183307 TG
1 TG
183309 GCTTATTAAC
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:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (30 bp):
TGACTTTCCTCTTATACCCTCAAATTTTAA
Found at i:199356 original size:6 final size:6
Alignment explanation
Indices: 199345--199369 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
199335 CTAAAATACA
199345 AGCTCG AGCTCG AGCTCG AGCTCG A
1 AGCTCG AGCTCG AGCTCG AGCTCG A
199370 CAGGTATATA
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:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (6 bp):
AGCTCG
Found at i:199477 original size:6 final size:6
Alignment explanation
Indices: 199466--199519 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
199456 AAGCATCATT
* *
199466 GAGCTC GAGCTC GAGCTC G-GCTC GA-TTC GATACTC GAGCTC GAGCTC
1 GAGCTC GAGCTC GAGCTC GAGCTC GAGCTC GA-GCTC GAGCTC GAGCTC
199513 G-GCTC GA
1 GAGCTC GA
199520 CAATGACCGA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
5 14 0.34
6 23 0.56
7 4 0.10
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.20
Consensus pattern (6 bp):
GAGCTC
Found at i:201438 original size:320 final size:322
Alignment explanation
Indices: 200382--201837 Score: 1934
Period size: 321 Copynumber: 4.5 Consensus size: 322
200372 ATTTGGAGGA
* * * *
200382 CTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTTTCTGAATTAATTTCTAATTAAATCGAAA
1 CTTTTCACGCTTCTAATATCGTTTTTC-CA-TTTTTTTCCGAATTAATTTTTAATTAAATCGAAA
* * * * *
200447 CAAGATTCTGATGCACGTAAAAACAAATCCTTAAATCCAATGTGGCCTAGA-TTTTA-TTAGACT
64 CAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGG-CT-GACATTTAGTTCGA-T
* * * * ** * * * *
200510 -AATAAAGAAATTTCAAGGAGTCTTAGCACC-AAAATCCATGCAAAACAGAGCCGTGACCCCGGA
126 AAATATAGATATTTCAAGGAGTCTTTGCGCCAAAAAT-CATGCAAAATTGAGTCGGGGCTCCGGA
* * * * * * *
200573 AGGTGTTTTTAGTCAAAATCCGTGATGGTTAGTATACGATTTCGGCTGAAAACTGACCCG-AAAG
190 ACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGATCCGAAAAG
* * * *
200637 -TTTCTCTCAATTTTTTACCACAATACTTAGAAAAAATATATAATTCAACT-CCAAAAAGATTAA
255 TTTTATCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAA-TGCCAAAAAGATTGA
*
200700 TGGG
319 CGGG
* * * *
200704 CTTTTCACGCTTCTAATATCGTTTTTTCATTTTTTTTCCAAATTAATTTCTAATTAAATCGAAAT
1 CTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTTCCGAATTAATTTTTAATTAAATCGAAAC
* * *
200769 AAGATTCAGATGCTCGTAAAAACAAATCCTCATATCCAATGTGGCTGACATTTGGTTCGATGAAT
65 AAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTAGTTCGATAAAT
** * *
200834 ATAGATAAGTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTC-GGGCTCCGAAACACG
130 ATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCG
* * * * *
200898 TTTTTAGCCAAAAACCGTGATAGTTAGTACACGATTTTGGCTAAAAACCGATCCAAAAATTTTTA
195 TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGATCCGAAAAGTTTTA
* * * *
200963 TCTCAATTTTTTGCCACAATACTTAGAAAAAATATATAATTCAACG-CAAAAAAATTGATGGG
260 TCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGG
* *
201025 ATTTTCACACTTCTAATATCGTTTTTCC-TTTCTTTTCCAGAATTAATTTTTAATTAAATCGAAA
1 CTTTTCACGCTTCTAATATCGTTTTTCCATTT-TTTTCC-GAATTAATTTTTAATTAAATCGAAA
* *
201089 CAAGATTCAGATGCTCGTAAAATCAAATCCTTATATCCAATGTGGCTGACATTTAGTTTGATAAA
64 CAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTAGTTCGATAAA
* * * *
201154 TATGGATATTTCAAGGAGTCTTTGCGCTAAAAATCATGCAAAATTGAGTCGGGGCTCGGGAATGC
129 TATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGC
*
201219 GTTTTTAGCCAAAAACCGTGATGG-T-GTACACGATTTCGGCTAAAAACTGATCGGAAAAGTTTT
194 GTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGATCCGAAAAGTTTT
*
201282 ATCTCAATTTTTTGCCACAATACTCAGAAAAAATATATATTTCAATGCCAAAAAGATTGACGGG
259 ATCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGG
* *
201346 CTTTTCATGCTTCTAATATCGTTTTTCCATTTTTTTCTGAATTAATTTTTAATTAAATCGAAACA
1 CTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTTTAATTAAATCGAAACA
* * *
201411 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATA
66 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTAGTTCGATAAATA
* *
201476 TAGATATTTCAAGGAGTCTTTGTGCCAAAAA-CATGCAAAATTGAGTCGGGGCTCGGGAACGCGT
131 TAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGT
* * * *
201540 TTTTAGACAAAAACCGTGATGGTTTGTACATGATTTCGGCTAAAAACTGATCGGAAAAGTTCTT-
196 TTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGATCCGAAAAGTT-TTA
*
201604 TCTCAATTTTTAGCCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGG
260 TCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGG
*
201667 CTTTTCACGCTTCTAATATCGTTTTTCCATATTTTTTCCGAATTAATTTTTAATTAAATTGAAAC
1 CTTTTCACGCTTCTAATATCGTTTTTCCAT-TTTTTTCCGAATTAATTTTTAATTAAATCGAAAC
* * * * ** *
201732 AAGATTCAGATGCTCGTAAAAACAAATACTTAAATCGAACGTGGCTGGGATTTCGTTCGATAAAT
65 AAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTAGTTCGATAAAT
* * * *
201797 ATAGATATTTCAAGGAGTGTTTACGTC-AAAGTCATGCAAAA
130 ATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAA
201838 AACAAAAAAA
Statistics
Matches: 1011, Mismatches: 106, Indels: 34
0.88 0.09 0.03
Matches are distributed among these distances:
319 58 0.06
320 261 0.26
321 458 0.45
322 234 0.23
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (322 bp):
CTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTTTAATTAAATCGAAACA
AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTAGTTCGATAAATA
TAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGT
TTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGATCCGAAAAGTTTTAT
CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAAGATTGACGGG
Found at i:202979 original size:323 final size:322
Alignment explanation
Indices: 201896--203364 Score: 1759
Period size: 323 Copynumber: 4.5 Consensus size: 322
201886 TTGAAATTTT
* * * * * *
201896 TTTTCTCGCTTTAAATATCAGTTTT-CAATTCTTTTCCGAATTTATTTCTAATTAAATTGAAACA
1 TTTTCACGCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * * ** *
201960 ATATTCAGATGCTTGTAAAAACAAATCCTTAAATCTGATGTGGCTGAGAGCCTGAGATTT-GTTA
66 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCT--GA--C----ATTTGGTTT
*
202024 GATGAATATAGATATTTCAAGGAGTCTTT-CTGCCAAAGATCATGCAAAACTGAGCCGGGGCCCC
123 GATGAATATAGATATTTCAAGGAGTCTTTGC-GCCAAAAATCATGCAAAACTGAGCC-GGGCCCC
* * *
202088 TGAAACGCATTTTTAGCCC-AAAACCATGATGGTTAGTACACGATTTTCGGCTAAAAACTGA-CC
186 GGAAACGCGTTTTTAGCCCAAAAACCATGA--GTTAGTACACGA-TTTCGGCTAAAAACTGATCG
* * *
202151 CGATAT-TTTTTTCCTGAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATACCAAAA
248 C-AAATGTTTTTT-CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAA
202215 AGATTGATGGTC
311 AGATTGATGGTC
* *
202227 TTTTCACGCTTTTAGTATCAATTTTCCAATTTTTTTTTCCGAATTAATTTCTAATTAAATCG-AA
1 TTTTCACGCTTTTAATATCATTTTTCCAA--TTTTTTTCCGAATTAATTTCTAATTAAATCGAAA
* * * *
202291 CAAGATTCAGATGCTCGTAAAATCAAATCCTTATATCCAATGTGGTTGACATCTGGTTGGATGAA
64 CAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAA
* ** * * * *
202356 TATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTTGGGGCTCGGGAATGC
129 TATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTGAGCCGGGCCCCGGAAACGC
* * * * * *
202421 GTATTTA-CCAAAAAACCGTGATGGTTAGTACACGATTTCGACTAAAAACTGATCGGAAAAGGTT
194 GTTTTTAGCCCAAAAACCATGA--GTTAGTACACGATTTCGGCTAAAAACTGATC-GCAAATGTT
* *
202485 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATGATTCAACACCAAAAAGATTGACAG
256 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGA-TG
202550 GT-
320 GTC
* *
202552 TTTTCACGCTTCTAATATCGTTTTTCC-A-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
1 TTTTCACGCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* *
202615 AGATTCAGATACTCGTAAAAACAAATCCTTATATCCAATGTGGCTAACATTTGGTTTGATGAATA
66 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATA
* *
202680 TGGATATTTCAAGGAGTCTTT-CTGCCAAAAATCATGCAAAACTGAGCCGGAGCCCCCGAAACGC
131 TAGATATTTCAAGGAGTCTTTGC-GCCAAAAATCATGCAAAACTGAGCCGG-GCCCCGGAAACGC
* * * * *
202744 TTTTTTAGCCCAAAAACCATGA-TAACGTACACGATTTTCGGCTAGAAACTGATC-CAATTTTTT
194 GTTTTTAGCCCAAAAACCATGAGTTA-GTACACGA-TTTCGGCTAAAAACTGATCGCAAATGTTT
* * *
202807 TTTATGAATTTTTTGCCACAATACTCAGAAAAAATATATAATTGAACACCAAAAAGATTGATGGT
257 TTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGATGGT
202872 C
322 C
*
202873 TTTTCACGCTTTTAATATCATTTTTCCAATTTTTTTCTGAATTAATTTCTAATTAAATCGAAACA
1 TTTTCACGCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
*
202938 AGATTCAGATGCTCGTAAAATCAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATA
66 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATA
* * * * *
203003 TAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCGGGAACGCGT
131 TAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTGAGCCGGGCCCCGGAAACGCGT
* * * *
203068 TTTTAG-CCAAAAACCGTGATTGTTAGTACACGATTTCGGCTAAAAACTGATCGGAAAAGTTTTC
196 TTTTAGCCCAAAAACCATGA--GTTAGTACACGATTTCGGCTAAAAACTGATCGCAAATGTTTTT
* ** *
203132 TCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAAGAGTGATAGG-C
259 TCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGAT-GGTC
* * * * * * *
203196 TTTTCACACTTTTAATATCGTTTTTTC-A-TTTTTTCTGAATTATTTTTTAATTAAATTGAAACA
1 TTTTCACGCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * * * * ** * * *
203259 AGATTCAGAAGCTCGTAAAAACAAATACTTAAATCGAACGTGGCTGGGATTTTGTTCGATAAATA
66 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATA
* * *
203324 TAGATATTTCAAGGAGTGTTTACGTCAAAAATCATGCAAAA
131 TAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAA
203365 ACAAAGAAAA
Statistics
Matches: 991, Mismatches: 122, Indels: 60
0.84 0.10 0.05
Matches are distributed among these distances:
320 3 0.00
321 256 0.26
322 151 0.15
323 263 0.27
324 36 0.04
325 122 0.12
326 62 0.06
327 1 0.00
329 1 0.00
331 23 0.02
332 3 0.00
333 42 0.04
334 28 0.03
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (322 bp):
TTTTCACGCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATA
TAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTGAGCCGGGCCCCGGAAACGCGT
TTTTAGCCCAAAAACCATGAGTTAGTACACGATTTCGGCTAAAAACTGATCGCAAATGTTTTTTC
TCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGATGGTC
Found at i:204155 original size:321 final size:319
Alignment explanation
Indices: 203426--204888 Score: 1712
Period size: 321 Copynumber: 4.5 Consensus size: 319
203416 ATTGAAATTT
* * * *
203426 TTTTCTCGCTT-TAAATATCAGTTTTCTAT-TTTTTCCGAATTTATTTCTAATTAAATCGAAACA
1 TTTTCACGCTTCT-AATATCATTTTTCCATATTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * * * ** *
203489 ATATTCAGATGCTCGTCAAAACAAATCCTTAAATCTAATGTGGCTGAGAGCATGAGATTTGTTAC
65 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCT--GA-CATTTGGTTTG--A-
* *
203554 GTGAATATAGATATTTTAAGGAGTCTTTCTGCCAAAGATCATGCAAAACTGAGCCGGGGC-CGCC
124 -TGAATATAGATATTTCAAGGAGTCTTTC-GCCAAAAATCATGCAAAACTGAGCCGGGGCTCG--
* * * *
203618 GAAACGCGTCTTTAGCCCAAAACCATGATGGTTAGTACACGATTTTGAGCTAGAAACTGATCCGA
185 GAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCG-GCTAAAAACTGAT-CGA
** * * * ** *
203683 ATTTATTTTTCTAAATTCTTTGCCGCAATTGTAAGAAAAAATATATAATTCAACACCAAAAAGAT
248 AAGT-TTTTTCTCAATTTTTTGCCACAATACTAAGAAAAAATATATAATTCAACAGCAAAAAGAT
**
203748 TGATGGTA
312 TGATGGGC
* * * *
203756 TTTTCACGCTTTTAATATCATTTTTACA-ATTTTTTCCCGTATTAATTTCTTATTAAATCGAAAC
1 TTTTCACGCTTCTAATATCATTTTTCCATA-TTTTT-CCGAATTAATTTCTAATTAAATCGAAAC
* * *
203820 AAGATTCGGATGCTCGTGAAATCAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAAT
64 AAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAAT
* * * *
203885 ATAGATAATTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCGGGAACGCG
129 ATAGATATTTCAAGGAGTCTTT-CGCCAAAAATCATGCAAAACTGAGCCGGGGCTCGGAAACGCG
* *
203950 TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGTTCAGAAAAGTTTTT
193 TTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAAACTGATC-G-AAAGTTTTT
* * *
204015 TCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAACAGCAAAAATATTGACGGGC
256 TCTCAATTTTTTGCCACAATACTAAGAAAAAATATATAATTCAACAGCAAAAAGATTGATGGGC
* *
204078 TTTTCACGCTTCTAATATCGTTTTTCCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAA
1 TTTTCACGCTTCTAATATCATTTTTCCATATTTTTCCGAATTAATTTCTAATTAAATCGAAACAA
204143 GATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATAT
66 GATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATAT
* * *
204208 AGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGAGCCCCCGAAACGCGT
131 AGATATTTCAAGGAGTCTTTC-GCCAAAAATCATGCAAAACTGAGCCGG-GGCTCGGAAACGCGT
* * ** *
204273 TTTTAGCCCAAAAACCATGA---TAACGTACACGATTTTCGGCTAGAAACTGATC-CTATTTTTT
194 TTTTAG-CCAAAAACCATGATGGTTA-GTACACGA-TTTCGGCTAAAAACTGATCGAAAGTTTTT
* *
204334 TCTGAATTTTTTGCCACAATACTAAGAAAAAATATATAATTCAACA-CTAAAAAGATTGATGGTC
256 TCTCAATTTTTTGCCACAATACTAAGAAAAAATATATAATTCAACAGC-AAAAAGATTGATGGGC
* * * * *
204398 TTATCACGCTTTTAATATCATTTTTCCAATTTTTTTCTGAATTAATTTCTAATTAAATCGAAATA
1 TTTTCACGCTTCTAATATCATTTTTCC-ATATTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * *
204463 AGATTCGGATGCTCGTAAAATCAAATCCTTATATCCAATGTGGCTGA-AATTGGTTTGATGAATA
65 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATA
* * * * *
204527 TAGATATTTCAAGGAGTGTTTGCGCCAAAAATCATGCAAAACTAAGTCGGGGCTCGGGAACACGT
130 TAGATATTTCAAGGAGTCTTT-CGCCAAAAATCATGCAAAACTGAGCCGGGGCTCGGAAACGCGT
* * *
204592 TTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCAGCTAAAACCTGATCGGGAAAGGTTTTT
194 TTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAAACTGATC--GAAAGTTTTTT
* * * *
204657 CTCAATTTTTTGCCACAATAGTCAGAAAAAATATATAATTCAAC-GCCAAAAGATTGATAGGC
257 CTCAATTTTTTGCCACAATACTAAGAAAAAATATATAATTCAACAGCAAAAAGATTGATGGGC
* *
204719 TTTTCACGCTTCTAATGA-CATTTTTCCATTTTTTTCCGAATTAATCTT-TAATTAAATTGAAAC
1 TTTTCACGCTTCTAAT-ATCATTTTTCCATATTTTTCCGAATTAAT-TTCTAATTAAATCGAAAC
* * ** * * * ** * * *
204782 AAAATTCAGATTCTCGTAAAAACAAATATTTAAATCGAACGTGGCTGGGATTTTGTTCGATAAAT
64 AAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAAT
* * *
204847 ATAGATATTTCAAGGACTGTTTACGTCAAAAATCATGCAAAA
129 ATAGATATTTCAAGGAGTCTTT-CGCCAAAAATCATGCAAAA
204889 ACAAAGAAAA
Statistics
Matches: 984, Mismatches: 121, Indels: 65
0.84 0.10 0.06
Matches are distributed among these distances:
318 13 0.01
319 63 0.06
320 196 0.20
321 313 0.32
322 146 0.15
323 49 0.05
324 45 0.05
325 52 0.05
326 3 0.00
327 1 0.00
329 8 0.01
330 24 0.02
331 6 0.01
332 65 0.07
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (319 bp):
TTTTCACGCTTCTAATATCATTTTTCCATATTTTTCCGAATTAATTTCTAATTAAATCGAAACAA
GATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATAT
AGATATTTCAAGGAGTCTTTCGCCAAAAATCATGCAAAACTGAGCCGGGGCTCGGAAACGCGTTT
TTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAAACTGATCGAAAGTTTTTTCTCA
ATTTTTTGCCACAATACTAAGAAAAAATATATAATTCAACAGCAAAAAGATTGATGGGC
Found at i:204729 original size:641 final size:643
Alignment explanation
Indices: 203426--204888 Score: 2059
Period size: 641 Copynumber: 2.3 Consensus size: 643
203416 ATTGAAATTT
* * *
203426 TTTTCTCGCTT-TAAATATCAG-TTTTCTATTTTTTCCGAATTTATTTCTAATTAAATCGAAACA
1 TTTTCACGCTTCT-AATATC-GTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * * ** *
203489 ATATTCAGATGCTCGTCAAAACAAATCCTTAAATCTAATGTGGCTGAGAGCATGAGATTTGTTAC
64 AAATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT--GA-CATTTGGTTTG--A-
* * * *
203554 GTGAATATAGATATTTTAAGGAGTCTTTCTGCCAAAGATCATGCAAAACTGAGCCGGGGCCGCCG
123 -TGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGAGCCCCCG
*
203619 AAACGCGTCTTTAGCCCAAAACCATGATGGTTAGTACACGATTTTGAGCTAGAAACTGATCCGAA
187 AAACGCGTCTTTAGCCCAAAACCATGA--GTAAGTACACGATTTTGAGCTAGAAACTGATCCGAA
* **
203684 TTTATTTTTCTAAATTCTTTGCCGCAATTGTAAGAAAAAATATATAATTCAACACCAAAAAGATT
250 TTTATTTTTCTAAATTCTTTGCCACAATACTAAGAAAAAATATATAATTCAACACCAAAAAGATT
* * *
203749 GATGGTATTTTCACGCTTTTAATATCATTTTTACAATTTTTTCCCGTATTAATTTCTTATTAAAT
315 GATGGTATTATCACGCTTTTAATATCATTTTTACAATTTTTTCCCGAATTAATTTCTAATTAAAT
* *
203814 CGAAACAAGATTCGGATGCTCGTGAAATCAAATCCTTATATCCAATGTGGCTGACATTTGGTTTG
380 CGAAACAAGATTCGGATGCTCGTAAAATCAAATCCTTATATCCAATGTGGCTGACAATTGGTTTG
* *
203879 ATGAATATAGATAATTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCGGG
445 ATGAATATAGATAATTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTAAGTCGGGGCTCGGG
* * * *
203944 AACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGTTCAGAAAA
510 AACACGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCAGCTAAAAACTGATCAGAAAA
* *
204009 GTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAATATATAATTCAACAGCAAAAATATTGAC
575 GGTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAATATATAATTCAACAGCAAAAAGATTGAC
*
204074 GGGC
640 AGGC
*
204078 TTTTCACGCTTCTAATATCGTTTTTCCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAA
1 TTTTCACGCTTCTAATATCGTTTTTCCAT-TTTTTCCGAATTAATTTCTAATTAAATCGAAACAA
* *
204143 GATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATAT
65 AATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGACATTTGGTTTGATGAATAT
204208 AGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGAGCCCCCGAAACGCGT
130 AGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGAGCCCCCGAAACGCGT
* *
204273 TTTTAGCCCAAAAACCATGA-TAACGTACACGATTTTCG-GCTAGAAACTGATCC-TA-TT-TTT
195 CTTTAGCCC-AAAACCATGAGTAA-GTACACGATTTT-GAGCTAGAAACTGATCCGAATTTATTT
* * * *
204333 TTCTGAATTTTTTGCCACAATACTAAGAAAAAATATATAATTCAACACTAAAAAGATTGATGGTC
257 TTCTAAATTCTTTGCCACAATACTAAGAAAAAATATATAATTCAACACCAAAAAGATTGATGGTA
* * * *
204398 TTATCACGCTTTTAATATCATTTTTCCAATTTTTTTCTGAATTAATTTCTAATTAAATCGAAATA
322 TTATCACGCTTTTAATATCATTTTTACAATTTTTTCCCGAATTAATTTCTAATTAAATCGAAACA
204463 AGATTCGGATGCTCGTAAAATCAAATCCTTATATCCAATGTGGCTGA-AATTGGTTTGATGAATA
387 AGATTCGGATGCTCGTAAAATCAAATCCTTATATCCAATGTGGCTGACAATTGGTTTGATGAATA
* *
204527 TAGATATTTCAAGGAGTGTTTGCGCCAAAAATCATGCAAAACTAAGTCGGGGCTCGGGAACACGT
452 TAGATAATTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTAAGTCGGGGCTCGGGAACACGT
* * *
204592 TTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCAGCTAAAACCTGATCGGGAAAGGTTTTT
517 TTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCAGCTAAAAACTGATCAGAAAAGGTTTTT
* * *
204657 CTCAATTTTTTGCCACAATAGTCAGAAAAAATATATAATTCAAC-GCCAAAAGATTGATAGGC
582 CTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAACAGCAAAAAGATTGACAGGC
* *
204719 TTTTCACGCTTCTAATGA-CATTTTTCCATTTTTTTCCGAATTAATCTT-TAATTAAATTGAAAC
1 TTTTCACGCTTCTAAT-ATCGTTTTTCCA-TTTTTTCCGAATTAAT-TTCTAATTAAATCGAAAC
* ** * * ** * * *
204782 AAAATTCAGATTCTCGTAAAAACAAATATTTAAATCGAACGTGGCTGGGATTTTGTTCGATAAAT
63 AAAATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGACATTTGGTTTGATGAAT
* * *
204847 ATAGATATTTCAAGGACTGTTTAC-GTCAAAAATCATGCAAAA
128 ATAGATATTTCAAGGAGTCTTT-CTGCCAAAAATCATGCAAAA
204889 ACAAAGAAAA
Statistics
Matches: 731, Mismatches: 69, Indels: 33
0.88 0.08 0.04
Matches are distributed among these distances:
641 315 0.43
642 188 0.26
643 2 0.00
644 3 0.00
645 27 0.04
646 77 0.11
647 10 0.01
648 1 0.00
650 8 0.01
651 3 0.00
652 23 0.03
653 74 0.10
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (643 bp):
TTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAA
ATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGACATTTGGTTTGATGAATATA
GATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGAGCCCCCGAAACGCGTC
TTTAGCCCAAAACCATGAGTAAGTACACGATTTTGAGCTAGAAACTGATCCGAATTTATTTTTCT
AAATTCTTTGCCACAATACTAAGAAAAAATATATAATTCAACACCAAAAAGATTGATGGTATTAT
CACGCTTTTAATATCATTTTTACAATTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGAT
TCGGATGCTCGTAAAATCAAATCCTTATATCCAATGTGGCTGACAATTGGTTTGATGAATATAGA
TAATTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTAAGTCGGGGCTCGGGAACACGTTTTT
AGCCAAAAACCATGATGGTTAGTACACGATTTCAGCTAAAAACTGATCAGAAAAGGTTTTTCTCA
ATTTTTTGCCACAATACTCAGAAAAATATATAATTCAACAGCAAAAAGATTGACAGGC
Found at i:205433 original size:554 final size:547
Alignment explanation
Indices: 204405--205442 Score: 1251
Period size: 554 Copynumber: 1.9 Consensus size: 547
204395 GTCTTATCAC
* * * *
204405 GCTTTTAATATCATTTTTCCAATTTTTTTCTGAATTAATTTCTAATTAAATCGAAATAAGATTCG
1 GCTTTTAATATCAGTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCA
* * **
204470 GATGCTCGTAAAATCAAATCCTTATATCCAATGTGGCTGAAATTGGTTTGATGAATATAGATATT
66 GATGCTCGTAAAAACAAATCCTTATAACCAATGTGGCTGAAATTGGTTAAATGAATATAGATATT
* * * **
204535 TCAAGGAGTGTTTGCGCCAAAAATCATGCAAAACTAAGTCGGGGCTCGGGAACACGTTTTTAGCC
131 TCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTAAGCCGGGGCCCCCGAACACGTTTTTAGCC
* *
204600 AAAAACCATGATGGTTAGTACACGATTTCAGCTAAAACCTGATCGGGAAAGGTTTTTCTCAATTT
196 AAAAACCA-GA----TAGTACACGATTTCAGCTAAAACCTGATCGCGAAAGGTTTTTCTAAATTT
* * * *
204665 TTTGCCACAATAGTCAGAAAAAATATATAATTCAACGCCAAAAGATTGATAGGCTTTTCACGCTT
256 TTTGCCACAATACTAAGAAAAAATATATAATTCAACACCAAAAGATTGATAGGATTTTCACGCTT
* *
204730 CTAATGACATTTTTCCATTTTTTTCCGAATTAATCTTTAATTAAATTGAAACAAAATTCAGATTC
321 CTAATGACATTTTTCCATTTTTTTCCGAATTAATCTTTAATTAAATCGAAACAAAATTCAGATGC
** * ** ** *
204795 TCGTAAAAACAAATATTTAAATCGAACGTGGCTGGGATTTTGTTCGATAAATATAGATATTTCAA
386 TCGTAAAAACAAATACATAAATCCAACGTGGCTGACATTCGGTTCGATAAATATAGATAATTCAA
* *
204860 GGACTGTTTACGTCAAAAATCATGCAAAAACAAAGAAAAATATTTTTAGCAAAAAATACACAATT
451 GGACTGTTTACGCCAAAAATAATGCAAAAACAAAGAAAAATATTTTTAGCAAAAAATACACAATT
204925 CAACGCAGAAAAAAAATTGAAAATTTTTTCTT
516 CAACGCAGAAAAAAAATTGAAAATTTTTTCTT
* * *
204957 GCTTTTAATGTCAGTTTT-CTA-TTTTTTCCGAATCT-ATTTCTAATTAAATCGAAACAATATTC
1 GCTTTTAATATCAGTTTTCCAATTTTTTTCCGAAT-TAATTTCTAATTAAATCGAAACAAGATTC
* *
205019 AGATGCTCGTAAAAACGAATCCTTA-AACCTAATGTGGCTGAGAGTCTGAGATTGGTTAAATGAC
65 AGATGCTCGTAAAAACAAATCCTTATAACC-AATGTGGCT--GA-----A-ATTGGTTAAATGAA
*
205083 TATAGATATTTCAAGGAGTCTTT-CTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCCGAA-A
121 TATAGATATTTCAAGGAGTCTTTGC-GCCAAAAATCATGCAAAACTAAGCCGGGGCCCCCGAACA
* * ***
205146 TGCGTTTTTAGCCCAAAAA-CA-A-CGTACACGATTTTGAGCTAGAAA-CTGATC-CGAATTTTT
185 --CGTTTTTAG-CCAAAAACCAGATAGTACACGA-TTTCAGCTA-AAACCTGATCGCGAAAGGTT
205206 TTTCTAAATTTTTTGCCACAATACTAAGAAAAAATATATAATTCAACACCAAAAAGATTGAT-GG
245 TTTCTAAATTTTTTGCCACAATACTAAGAAAAAATATATAATTCAACACC-AAAAGATTGATAGG
*
205270 TATTTTCACGCTTTTAAT-ATCATTTTTCCAATTTTTTTCC-AATTTAAT-TTCTAATTAAATCG
309 -ATTTTCACGCTTCTAATGA-CATTTTTCC-ATTTTTTTCCGAA-TTAATCTT-TAATTAAATCG
* * * * * *
205332 AAACAAGATTCAGATGCTCGTAAAATCAAATCCATATATCCAATGTGGCTGACATTCGGTTTGAT
369 AAACAAAATTCAGATGCTCGTAAAAACAAATACATAAATCCAACGTGGCTGACATTCGGTTCGAT
* * * *
205397 GAATATAGATAATTCAAGGAGTTTTTGCGCCAAAAATAATGCAAAA
434 AAATATAGATAATTCAAGGACTGTTTACGCCAAAAATAATGCAAAA
205443 TTGAGTCGGG
Statistics
Matches: 411, Mismatches: 53, Indels: 42
0.81 0.10 0.08
Matches are distributed among these distances:
549 3 0.01
550 67 0.16
551 3 0.01
552 80 0.19
553 53 0.13
554 118 0.29
557 4 0.01
558 65 0.16
559 11 0.03
560 7 0.02
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (547 bp):
GCTTTTAATATCAGTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCA
GATGCTCGTAAAAACAAATCCTTATAACCAATGTGGCTGAAATTGGTTAAATGAATATAGATATT
TCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTAAGCCGGGGCCCCCGAACACGTTTTTAGCC
AAAAACCAGATAGTACACGATTTCAGCTAAAACCTGATCGCGAAAGGTTTTTCTAAATTTTTTGC
CACAATACTAAGAAAAAATATATAATTCAACACCAAAAGATTGATAGGATTTTCACGCTTCTAAT
GACATTTTTCCATTTTTTTCCGAATTAATCTTTAATTAAATCGAAACAAAATTCAGATGCTCGTA
AAAACAAATACATAAATCCAACGTGGCTGACATTCGGTTCGATAAATATAGATAATTCAAGGACT
GTTTACGCCAAAAATAATGCAAAAACAAAGAAAAATATTTTTAGCAAAAAATACACAATTCAACG
CAGAAAAAAAATTGAAAATTTTTTCTT
Done.