Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012375.1 Corchorus olitorius cultivar O-4 contig12408, 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: 11223
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Found at i:860 original size:332 final size:332
Alignment explanation
Indices: 44--1068 Score: 1669
Period size: 333 Copynumber: 3.1 Consensus size: 332
34 TCAGGTCAGT
* *
44 TTTTAGCCGAAATCATGTACTAACCATCACAGTTTTTTTTGCTAAAAACGCGTTTCGGGGCCTCG
1 TTTTAGCCGAAATCATGTACTAACCATCAC-GGTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCG
* * *
109 ACTCAGTTTTGCATTTTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATTAAACCAAATC
65 ACTCAGTTTTGCATTGTTTTTGACATAAACACTCCTTGAAATATCTATATTCATCAAACCAAATC
* * *
174 TCAGCCATAGTAGATTTAAGGATTTGTTTTACGAGTATCTGAATCTTGTTTCGATTTAAACAAAA
130 TCAGCCATATTGGATTTAAGGATTTGTTTTACGAGCATCTGAATCTTGTTTCGATTTAAAC-AAA
239 ATAAATTCGGAAAGAAATATGAAAAACGATATTTGAAGCGTGAAAAACCCTTCAAATATTT-TGG
194 ATAAATTCGGAAAGAAATATGAAAAACGATATTTGAAGCGTGAAAAACCCTTC-AATATTTCTGG
303 CTTTGAATTATATACTTTTTTCTGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAG
258 CTTTGAATTATATAC-TTTTTCTGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAG
368 TTTTTGCAAAA
322 TTTTTGCAAAA
* *
379 TTTTTGCCGAAATCATGTACTAACCATCACGG-TTTTTGGCTAAAAACGCATTTCGGGGCCTCGA
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGA
* * * * *
443 CTCAGTTTTGTATGGTTTTTGCCATAAACACTCCTTGAAATAACTATATTCATCTAACCAAATCT
66 CTCAGTTTTGCATTGTTTTTGACATAAACACTCCTTGAAATATCTATATTCATCAAACCAAATCT
* *
508 CAGCCATATTGGAGTTAAGGATTTGTTTTGACGAGCATCTGAATCTTGTTTTGATTTAAACAAAA
131 CAGCCATATTGGATTTAAGGATTTGTTTT-ACGAGCATCTGAATCTTGTTTCGATTTAAACAAAA
* *
573 TAAATTCGGAAAGAAATATGAAAAACGATATTTGAAGCGTGAAAATCCCTTCAATTTTTCTGGCT
195 TAAATTCGGAAAGAAATATGAAAAACGATATTTGAAGCGTGAAAAACCCTTCAATATTTCTGGCT
* *
638 TTGAATTATATA-TTTTTCTGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGATCAGTTT
260 TTGAATTATATACTTTTTCTGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGTTT
702 TTGCAAAA
325 TTGCAAAA
* *
710 TTTTAGCCGAAATCATATACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCCGGGGCCTCGA
1 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGA
* * * *
775 CTCAGTTTTGCATTGTTTTTGACTTAAATACTTCTTGAAATATCTATATTCATCCAACCAAATCT
66 CTCAGTTTTGCATTGTTTTTGACATAAACACTCCTTGAAATATCTATATTCATCAAACCAAATCT
* *
840 CAGCCATATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAAATAAAA
131 CAGCCATATTGGATTTAAGGATTT-GTTTTACGAGCATCTGAATCTTGTTTCGATTTAAA-CAAA
* *
905 ATAAATTCAGAAAGAAATATGAAAAACGATATTTGAAGCGTGAAAAACCGTTCAATATTTCTGGC
194 ATAAATTCGGAAAGAAATATGAAAAACGATATTTGAAGCGTGAAAAACCCTTCAATATTTCTGGC
970 TTTGAATTATATACTTTCTTCTGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGT
259 TTTGAATTATATACTTT-TTCTGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGT
1035 TTTTGCAAAA
323 TTTTGCAAAA
*
1045 TTTTTGCCGAAATCATGTACTAAC
1 TTTTAGCCGAAATCATGTACTAAC
1069 TAGAGCCGTT
Statistics
Matches: 638, Mismatches: 45, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
331 88 0.14
332 145 0.23
333 266 0.42
334 33 0.05
335 106 0.17
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (332 bp):
TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGA
CTCAGTTTTGCATTGTTTTTGACATAAACACTCCTTGAAATATCTATATTCATCAAACCAAATCT
CAGCCATATTGGATTTAAGGATTTGTTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAT
AAATTCGGAAAGAAATATGAAAAACGATATTTGAAGCGTGAAAAACCCTTCAATATTTCTGGCTT
TGAATTATATACTTTTTCTGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGTTTT
TGCAAAA
Found at i:2248 original size:333 final size:332
Alignment explanation
Indices: 1642--2424 Score: 1205
Period size: 333 Copynumber: 2.3 Consensus size: 332
1632 ACAGGTCTAG
* *
1642 TACTAACCATCACAGTTTTTGGCTAAAAACGCATT-TCGGGGCCTCGACTCAGTTTTGCATGGTT
1 TACTAACCATCACGGTTTTTGGCTAAAAACGCATTCT-GGGGCCTCGACTCAGTTTTGCATTGTT
* * * *
1706 ATTGCCATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCATATTGGATTTA
65 TTTGACATAAAGACTCCTTGAAATATCTATATTCATCCAACCAAATCTCAGCCACATTGGATTTA
* *
1771 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTTGATTTAAACAAAAATAAATTCGGAAAGAAA
130 AGGATTTGTGTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAAA
* *
1836 TATGAAAAACGATATTTGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTTT
195 TATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTCTGGCGTTGAATTATATATTTT
*
1901 TTGAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTTTTGCAAAATTTTAA-C
260 TTCAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTT-AGGTCAGTTTTTGCAAAA-TTTAAGC
1965 CGAAATCATA
323 CGAAATCATA
*
1975 TACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCTCGACTCAGTTTTGCATTGTTT
1 TACTAACCATCACGGTTTTTGGCTAAAAACGCATTCTGGGGCCTCGACTCAGTTTTGCATTGTTT
* *
2040 TTGACTTAAAGACTCCTTGAAATATCTATATTCATCCAACCAACTCTCAGCCACATTGGATTTAA
66 TTGACATAAAGACTCCTTGAAATATCTATATTCATCCAACCAAATCTCAGCCACATTGGATTTAA
*
2105 TGATTTGTGTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAAAT
131 GGATTTGTGTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAAAT
2170 ATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTCTGGCGTTGAATTATATATTTTT
196 ATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTCTGGCGTTGAATTATATATTTTT
* * * *
2235 TCTGAGTATTGTGGCAAAAAATTGAGGGGAAACTTTTGGGTCAGTTTTTGCATAATTTAAGCCGA
261 TCAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTAGGTCAGTTTTTGCAAAATTTAAGCCGA
2300 AATCATA
326 AATCATA
* ** *
2307 TACTAACCTTCACGGTTTTTGGAAAAAAAAACGCATTCTGGGGCCCCTG-CTCAGTGTTTGCA-T
1 TACTAACCATCACGGTTTTTGG--CTAAAAACGCATTCTGGGGCCTC-GACTCAGT-TTTGCATT
* * ** * *
2370 GATTTTTGGCATAAAGACTCCTTAAAATATAAATATTCGTCGAACCAAATCTCAG
62 G-TTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCCAACCAAATCTCAG
2425 TTACATTCAA
Statistics
Matches: 411, Mismatches: 32, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
331 5 0.01
332 48 0.12
333 278 0.68
334 28 0.07
335 52 0.13
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (332 bp):
TACTAACCATCACGGTTTTTGGCTAAAAACGCATTCTGGGGCCTCGACTCAGTTTTGCATTGTTT
TTGACATAAAGACTCCTTGAAATATCTATATTCATCCAACCAAATCTCAGCCACATTGGATTTAA
GGATTTGTGTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAAAT
ATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTCTGGCGTTGAATTATATATTTTT
TCAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTAGGTCAGTTTTTGCAAAATTTAAGCCGA
AATCATA
Found at i:2776 original size:915 final size:910
Alignment explanation
Indices: 1640--4244 Score: 3794
Period size: 915 Copynumber: 2.9 Consensus size: 910
1630 GAACAGGTCT
* * * *
1640 AGTACTAACCATCACAGTTTTTGGCTAAAAACGCATTTCGGGGCCTCGACTCAGTTTTGCATGGT
1 AGTAATAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATTGT
* * *
1705 TATTGCCATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCATATTGGATTT
66 TTTTGACATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTT
*
1770 AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTTGATTTAAACAAAAATAAATTCGGAAAGAA
131 AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAA
*
1835 ATATGAAAAACGATATTTGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTT
196 ATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTT
* * *
1900 TTTGAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTTTTGCAAAATTTTAAC
261 TTTCAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGC
1965 CGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCTCGACTCAGTTT
326 CGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCTCGACTCAGTTT
* *
2030 TGCATTGTTTTTGACTTAAAGACTCCTTGAAATATCTATATTCATCCAACCAACTCTCAGCCACA
391 TGCATTGTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCCAACCAAATCTCAGCCACA
* *
2095 TTGGATTTAATGATTTGTGTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTC
456 TTGGATTTAACGATTTGT-TTTACGAGCATCTGAATCTTGTTTCGATTTAAATAAAAATAAATTC
2160 GGAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTCTGGCGTTGAATT
520 GGAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTCTGGCGTTGAATT
* * *
2225 ATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGGGAAACTTTT-GGGTCAGTTTTTGCATA
585 ATATATTTTTT-TGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAG-TTTTGCAAA
* *
2289 ATTTAAGCCGAAATCATATACTAACCTTCACGGTTTTTGGAAAAAAAAACGCATTCTGGGGCCCC
648 ATTTAAGCCGAAATCATATACTAACCATCACGGTTTTTGG--AAAAAAACGCATTCCGGGGCCCC
*
2354 TGCTCAGTGTTTGCATGATTTTTGGCATAAAGACTCCTTAAAATATAAATATTCGTCGAACCAAA
711 TGCTCAGTGTTTGCAT-ATTTTTGGCATAAAGACTCC-TAAAATATAAATATTCATCGAACCAAA
2419 TCTCAGTTACATTCAATTTAAAGATAATAGAAGCGTGAAAAACTCTGCAATCTTTTTGTCGTTGA
774 TCTCAGTTACATTCAATTTAAAGATAATAGAAGCGTGAAAAACTCTGCAATCTTTTTGTCGTTGA
*
2484 ATTATATATTTTTTACGAGTATTATGACGAAAAATTGAGAAAAAAATTTTCAGGTCAGTTTTTAG
839 ATTATATATTTTGTACGAGTA-TATGACGAAAAATTGAGAAAAAAATTTTCAGGTCAGTTTTTAG
2549 CAG-AA-A
903 CAGAAACA
* * * *
2555 A-TAATGTA-CATCACGGTATTTTGGCTACAAACGCGTTTCGGGGACTCGACTCAGTTTTTCATT
1 AGTAAT-AACCATCACGGT-TTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATT
* *
2618 GTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCTATCGAAATCTCAGCCACATTGGAT
64 GTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGAT
* *
2683 TTTAGGATTTGTTTTTACGATCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAG
129 TTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAG
2748 AAATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATAT
194 AAATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATAT
2813 TTTTTCAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTA
259 TTTTTCAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTA
* *
2878 GCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCATT-TCGGGGCCTCGACTCAG
324 GCCGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCT-GGGGCCTCGACTCAG
* *
2942 TTTTGCATGGTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCC
388 TTTTGCATTGTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCCAACCAAATCTCAGCC
*
3007 ACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAATAAAAATAAA
453 ACATTGGATTTAACGATTTG-TTTTACGAGCATCTGAATCTTGTTTCGATTTAAATAAAAATAAA
* *
3072 TTCGGAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAACCGTTCAATTTTTCTGGCGTTGA
517 TTCGGAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTCTGGCGTTGA
*
3137 ATTATATATTTTTTGAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTTTGCA
582 ATTATATATTTTTT-TGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTTTGCA
* ** *
3202 AAATTTTAGCCGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCATTCCGGGGCTCC
646 AAATTTAAGCCGAAATCATATACTAACCATCACGGTTTTTGGAAAAAAACGCATTCCGGGGCCCC
*
3267 TGCTCAGTGTTTGCATATTTTTGGCATAAAGACTCCTAAGATATAAATATTCATCGAACCAAATC
711 TGCTCAGTGTTTGCATATTTTTGGCATAAAGACTCCTAAAATATAAATATTCATCGAACCAAATC
*
3332 TCAGTTACATTCAATTTAACGATAATAGAAGCGTGAAAAACTCTGCAATCTTTTTGTCGTTGAAT
776 TCAGTTACATTCAATTTAAAGATAATAGAAGCGTGAAAAACTCTGCAATCTTTTTGTCGTTGAAT
* * ** *
3397 TATATATTTTGTACGAGTATGTGGCGAAAAATTGAGAAAAACTTTTTCAGGTCAGTTTTTAGCCG
841 TATATATTTTGTACGAGTATATGACGAAAAATTGAGAAAAAAATTTTCAGGTCAGTTTTTAGCAG
3462 AAATCA
906 AAA-CA
* * *
3468 AGTAATAACCATCACGGTTTTTTGGCTAAAAATGTGTTTCGAGGCCTCGACTCAGTTTTGCATTG
1 AGTAATAACCATCACGG-TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATTG
* * *
3533 TTTTTGACATAAAGACTCCATGAAATATCTTTATTCATCTAACCAAATCTCAGCCACATTGGAGT
65 TTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATT
* *
3598 TAAGGATTTGTTTTTACGAGCATCTGAATCTTGCTTCGATTTAAATAAAAATAAATTCGGAAA-A
130 TAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGA
* * * *
3662 AATATGAAAAACGATATTAGAAGCGTGAAGAACACTTCTATTTTTCTGGCGTTGAATTTTATATT
195 AATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATT
* * * * *
3727 TTTTCTGAGTATTATGGCTAAAAATTTAGGGAAAACTTTTCGGGTCAGTTTTTGCATAATTTTAG
260 TTTTCAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAG
* * * *
3792 CCGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCTG-GTAAGT
325 CCGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCTC-GACTCAGT
* * * * ** *
3856 TTTGCA-TGATTTTTGGCGTAAAGACTCTTTAAAATATAAATATTCATCGAACCAAATCTCAGCC
389 TTTGCATTG-TTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCCAACCAAATCTCAGCC
* * * * *
3920 ACATTCGATTTAACGATTTGATTTTACGAGCATGCATCTGAATCTTGTTTCAATTCAATTAGAAA
453 ACATTGGATTTAACGATTTG-TTTTAC--G-A-GCATCTGAATCTTGTTTCGATTTAAATAAAAA
* * * * * * * * * *
3985 TTAATTCAGAAATAAAT-CGAAAAACGATAATAGAAGCGTGAAAAACTCTGCAGTCTTTTTGGCG
513 TAAATTCGGAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTCTGGCG
** * *
4049 TTGAATTATATATTTTTTTAGAGTATTGTGGCAAAAAATTGAGAAAAAATATTTTCGGGTCAG--
578 TTGAATTATATATTTTTTT-GAGTATTGTGGCAAAAAATTGAGGGAAAA-CTTTTCAGGTCAGTT
* * * ** * *
4112 TT------TTT-AGCCGAAATCGTTTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGG
641 TTGCAAAATTTAAGCCGAAATCATATACTAACCATCACGGTTTTTGGAAAAAAACGCATTCCGGG
** * * * * ** *
4170 GCGTCTACAT-AGT-TTTGCATGGTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCTA
706 GCCCCTGC-TCAGTGTTTGCAT-ATTTTTGGCATAAAGACTCC-TAAAATATAAATATTCATCGA
*
4233 ATCAAATCTCAG
768 ACCAAATCTCAG
4245 CCACATTGGA
Statistics
Matches: 1539, Mismatches: 128, Indels: 52
0.90 0.07 0.03
Matches are distributed among these distances:
907 7 0.00
908 74 0.05
909 31 0.02
910 41 0.03
911 111 0.07
912 21 0.01
913 293 0.19
914 184 0.12
915 632 0.41
916 92 0.06
917 53 0.03
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (910 bp):
AGTAATAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATTGT
TTTTGACATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTT
AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAA
ATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTT
TTTCAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGC
CGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCTCGACTCAGTTT
TGCATTGTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCCAACCAAATCTCAGCCACA
TTGGATTTAACGATTTGTTTTACGAGCATCTGAATCTTGTTTCGATTTAAATAAAAATAAATTCG
GAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTCTGGCGTTGAATTA
TATATTTTTTTGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTTTGCAAAATT
TAAGCCGAAATCATATACTAACCATCACGGTTTTTGGAAAAAAACGCATTCCGGGGCCCCTGCTC
AGTGTTTGCATATTTTTGGCATAAAGACTCCTAAAATATAAATATTCATCGAACCAAATCTCAGT
TACATTCAATTTAAAGATAATAGAAGCGTGAAAAACTCTGCAATCTTTTTGTCGTTGAATTATAT
ATTTTGTACGAGTATATGACGAAAAATTGAGAAAAAAATTTTCAGGTCAGTTTTTAGCAGAAACA
Found at i:3043 original size:333 final size:330
Alignment explanation
Indices: 2563--3335 Score: 1273
Period size: 333 Copynumber: 2.3 Consensus size: 330
2553 AAATAATGTA
* * *
2563 CATCACGGTATTTTGGCTACAAACGCGTTTCGGGGACTCGACTCAGTTTTTCATTGTTTTTGACA
1 CATCACGGT-TTTTGGCTAAAAACGCATTTCGGGG-CTCGACTCAGTTTTGCA-TGTTTTTGACA
* * *
2628 TAAAGACTCCTTGAAATATCTATATTCATCTATCGAAATCTCAGCCACATTGGATTTTAGGATTT
63 TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTT
*
2693 GTTTTTACGATCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAAATATGAAA
128 GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAAATATGAAA
2758 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTTTTTCAGAG
193 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTTTTTCAGAG
*
2823 TATTGTGGCAAAAAATTGAGGGAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATCA
258 TATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAG-TTTTGCAAAATTTTAGCCGAAATCA
*
2888 TGTACTAAC
322 TATACTAAC
2897 CATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGACAT
1 CATCACGGTTTTTGGCTAAAAACGCATTTCGGGG-CTCGACTCAGTTTTGCAT-GTTTTTGACAT
2962 AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTG
64 AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTG
*
3027 TTTTTACGAGCATCTGAATCTTGTTTCGATTTAAATAAAAATAAATTCGGAAAGAAATATGAAAA
129 TTTTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAAATATGAAAA
* *
3092 ACGATATTAGAAGCGTGAAAAACCGTTCAATTTTTCTGGCGTTGAATTATATATTTTTTGAGAGT
194 ACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTTTTTCAGAGT
3157 ATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTTTGCAAAATTTTAGCCGAAATCATA
259 ATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTTTGCAAAATTTTAGCCGAAATCATA
3222 TACTAAC
324 TACTAAC
* * *
3229 CATCACGGTTTTTGGCTAAAAACGCATTCCGGGGCTCCTG-CTCAGTGTTTGCATATTTTTGGCA
1 CATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCT-C-GACTCAGT-TTTGCATGTTTTTGACA
** *
3293 TAAAGACTCC-T-AAGATATAAATATTCATCGAACCAAATCTCAG
63 TAAAGACTCCTTGAA-ATATCTATATTCATCTAACCAAATCTCAG
3336 TTACATTCAA
Statistics
Matches: 415, Mismatches: 19, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
330 2 0.00
331 29 0.07
332 92 0.22
333 283 0.68
334 9 0.02
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (330 bp):
CATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCTCGACTCAGTTTTGCATGTTTTTGACATAA
AGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTT
TTTACGAGCATCTGAATCTTGTTTCGATTTAAACAAAAATAAATTCGGAAAGAAATATGAAAAAC
GATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTTTTTCAGAGTAT
TGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTTTGCAAAATTTTAGCCGAAATCATATA
CTAAC
Found at i:4008 original size:581 final size:579
Alignment explanation
Indices: 2873--3936 Score: 1684
Period size: 581 Copynumber: 1.8 Consensus size: 579
2863 TTTTGCAAAA
* * *
2873 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCCTCGAC
1 TTTTAGCCGAAATCAAGTAATAACCATCACGGTTTTTGGCTAAAAACGCATTTCGAGGCCTCGAC
*
2938 TCAGTTTTGCATGGTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTC
66 TCAGTTTTGCATGGTTTTTGACATAAAGACTCCATGAAATATCTATATTCATCTAACCAAATCTC
* *
3003 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAATAAAAA
131 AGCCACATTGGAGTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGCTTCGATTTAAATAAAAA
3068 TAAATTCGGAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAACCGTTCAATTTTTCTGGCG
196 TAAATTCGGAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAACCGTTCAATTTTTCTGGCG
* *
3133 TTGAATTATATATTTTTTGAGAGTATTGTGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTT
261 TTGAATTATATATTTTTTCAGAGTATTATGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTT
3198 TGCAAAATTTTAGCCGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCATTCCGGGG
326 TGCAAAATTTTAGCCGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCATTCCGGGG
* * *
3263 CTCCTGCTCAGTGTTTGCATATTTTTGGCATAAAGACTCCTAAGATATAAATATTCATCGAACCA
391 CCCCTGCTAAGTGTTTGCATATTTTTGGCATAAAGACTCCTAAAATATAAATATTCATCGAACCA
** * * *
3328 AATCTCAGTTACATTCAATTTAACGATAATAGAAGCGTGAAAAACTCTGCAATCTTTTTGTCGTT
456 AATCTCAGCCACATTCAATTTAACGATAATAGAAGCGAGAAAAACTCTGCAATCTTGTTGTCATT
* * * * * **
3393 GAATTATATATTTTGTACGAGTATGTGGCGAAAAATTGAGAAAAACTTTTTCAGGTCAGT
521 CAATTAGAAATTTTGCACGAATAAAT-GCGAAAAATTGAGAAAAACTTTTTCAGGTCAGT
* **
3453 TTTTAGCCGAAATCAAGTAATAACCATCACGGTTTTTTGGCTAAAAATGTGTTTCGAGGCCTCGA
1 TTTTAGCCGAAATCAAGTAATAACCATCACGG-TTTTTGGCTAAAAACGCATTTCGAGGCCTCGA
* *
3518 CTCAGTTTTGCATTGTTTTTGACATAAAGACTCCATGAAATATCTTTATTCATCTAACCAAATCT
65 CTCAGTTTTGCATGGTTTTTGACATAAAGACTCCATGAAATATCTATATTCATCTAACCAAATCT
3583 CAGCCACATTGGAGTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGCTTCGATTTAAATAAAA
130 CAGCCACATTGGAGTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGCTTCGATTTAAATAAAA
* *
3648 ATAAATTCGGAAA-AAATATGAAAAACGATATTAGAAGCGTGAAGAACAC-TTCTATTTTTCTGG
195 ATAAATTCGGAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAAC-CGTTCAATTTTTCTGG
* * * * *
3711 CGTTGAATTTTATATTTTTTCTGAGTATTATGGCTAAAAATTTAGGGAAAACTTTTCGGGTCAGT
259 CGTTGAATTATATATTTTTTCAGAGTATTATGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAG-
* *
3776 TTTTGCATAATTTTAGCCGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCG
323 TTTTGCAAAATTTTAGCCGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCATTCCG
* * *
3841 GGGCCCCTGGTAAGT-TTTGCATGATTTTTGGCGTAAAGACTCTTTAAAATATAAATATTCATCG
388 GGGCCCCTGCTAAGTGTTTGCAT-ATTTTTGGCATAAAGACTC-CTAAAATATAAATATTCATCG
*
3905 AACCAAATCTCAGCCACATTCGATTTAACGAT
451 AACCAAATCTCAGCCACATTCAATTTAACGAT
3937 TTGATTTTAC
Statistics
Matches: 448, Mismatches: 31, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
580 140 0.31
581 260 0.58
582 48 0.11
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (579 bp):
TTTTAGCCGAAATCAAGTAATAACCATCACGGTTTTTGGCTAAAAACGCATTTCGAGGCCTCGAC
TCAGTTTTGCATGGTTTTTGACATAAAGACTCCATGAAATATCTATATTCATCTAACCAAATCTC
AGCCACATTGGAGTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGCTTCGATTTAAATAAAAA
TAAATTCGGAAAGAAATATGAAAAACGATATTAGAAGCGTGAAAAACCGTTCAATTTTTCTGGCG
TTGAATTATATATTTTTTCAGAGTATTATGGCAAAAAATTGAGGGAAAACTTTTCAGGTCAGTTT
TGCAAAATTTTAGCCGAAATCATATACTAACCATCACGGTTTTTGGCTAAAAACGCATTCCGGGG
CCCCTGCTAAGTGTTTGCATATTTTTGGCATAAAGACTCCTAAAATATAAATATTCATCGAACCA
AATCTCAGCCACATTCAATTTAACGATAATAGAAGCGAGAAAAACTCTGCAATCTTGTTGTCATT
CAATTAGAAATTTTGCACGAATAAATGCGAAAAATTGAGAAAAACTTTTTCAGGTCAGT
Found at i:5909 original size:336 final size:332
Alignment explanation
Indices: 3349--7694 Score: 3616
Period size: 336 Copynumber: 13.3 Consensus size: 332
3339 CATTCAATTT
* * * * * *
3349 AACGATAATAGAAGCGTGAAAAACTCTGCAATCTTTTTGTCGTTGAATTATA-TATTTTGTACGA
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATATTATTTTCT--GA
* *
3413 GTA-TGTGGCGAAAAATTGAG-AAAAACTTTTTCAGGTCAG----T------TTTTAGCCGAAAT
64 GTATTGTGGCAAAAAATTGAGAAAAAAC-TTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAAT
** * * * * *
3466 CAAGTAATAACCATCACGGTTTTTTGGCTAAAAATGTGTT-TCGAGGCCTCGACTCAGTTTTGCA
128 CGTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCT-GGGGCCCCGACTCAGTTTTGCA
* * *
3530 TTG-TTTTTGACATAAAGACTCCATGAAATATCTTTATTCATCTAACCAAATCTCAGCCACATTG
192 -TGATTTTTGGC-TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTG
* * * * *
3594 GAGTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGCTTCGATTTAAATAAAAATAAATTCGG-
255 GATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGA
*
3658 AAAAAATATGAAA
320 AAAAAAAATGAAA
* * * *
3671 AACGATATTAGAAGCGTGAAGAACACTTCTATTTTTCTGGCGTTGAATTTTATATT-TTTTCTGA
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAA--TTATATTATTTTCTGA
* * * ** *
3735 GTATTATGGCTAAAAATTTAGGGAAAACTTTTCGGGTCAGTTTTTGCATAATTTTAGCCGAAATC
64 GTATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATC
* * * * *
3800 ATATACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTCCGGGGCCCCTG-GTAAGTTTTGCAT
129 GTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCCCC-GACTCAGTTTTGCAT
* * ** * *
3863 GATTTTTGGCGTAAAGACTCTTTAAAATATAAATATTCATCGAACCAAATCTCAGCCACATTCGA
193 GATTTTTGGC-TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGA
* * * *
3928 TTTAACGATTTGATTTTACGAGCATGCATCTGAATCTTGTTTCAATTCAATTAGAAATTAATTC-
257 TTTAAGGATTTGTTTTTAC--G-A-GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG
* *
3992 -AGAAATAAATCGAAA
318 GAAAAAAAAAT-GAAA
* * * * * *
4007 AACGATAATAGAAGCGTGAAAAACTCTGCAGTCTTTTTGGCGTTGAATTATA-TATTTTTTTAGA
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATATTA-TTTTCT-GA
*
4071 GTATTGTGGCAAAAAATTGAGAAAAAATATTTTCGGGTCAG----T------TTTTAGCCGAAAT
64 GTATTGTGGCAAAAAATTGAGAAAAAA-CTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAAT
* * ** *
4126 CGTTTACTAACCATCACAG-TTTTTGGCTAAAAACGCGTT-TCGGGGCGTCTACAT-AGTTTTGC
128 CGTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCT-GGGGCCCCGAC-TCAGTTTTGC
* * *
4188 ATGGTTTTTGACATAAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTG
191 ATGATTTTTGGC-TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTG
* * * * * **
4253 GATTTAAGGATTTCTTTTTACGACCATCTAAATTTTGTTTCGATTTAAATA-AAAGCAGATTCGG
255 GATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA-ATTCGG
*
4317 AAAAAAAAATATTAAA
319 -AAAAAAAA-ATGAAA
* *
4333 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTTTTTCTGAG
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATAT-TATTTTCTGAG
* ** * * *
4398 TATTGTGGCAATAAATTGAGGGAAAACTTTTCGGGTCAGCTTTTGCAAAATTTTAGTCGAAATCA
65 TATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATCG
* * * * ** * * **
4463 TGTACTAATTCATAACGG-TCTTTGGCTAAAAACGCGTTCCGAAGCCCCGGCTCAATTTTATATG
130 TGTACTAA-CCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACTCAGTTTTGCATG
* * * * *
4527 ATTTTTGGCTCAAAGACTCCTTGACATATCAATATTCATCGAACCAAATCTCAGCGACATTGCAT
194 ATTTTTGGCT-AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGAT
* * * *
4592 ATAAGGATTTGTTTTTAC-AGGCATCTGAATCTTGATCCTATTTAATTAGAAATTAATTCGG---
258 TTAAGGATTTGTTTTTACGA-GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
*
4653 GAAAAATGGAAA
322 AAAAAAT-GAAA
* * * * * * * * * *
4665 AATGAAAATAGAAGCGTGAAAAGCTCATCAATCTTTTTAGCGTGGAATTATATT-TTTTCTAAGT
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATATTATTTTCTGAGT
* * * *
4729 ATTGTGGCAAAAAATTGAGAAATAACTTTTTGGGTTAGTTTTT-----A----AG-TGAAATCGT
66 ATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATCGT
* * * *
4784 GTACTAACCATCACGGTTTTTTGG-TAAAAAGGCGTT-TCGGGGCCCAGGCTAAGTTTTGCATGA
131 GTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCT-GGGGCCCCGACTCAGTTTTGCATGA
*** * * * * *
4847 TTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCAACTAATCAAATCTTAGCCACGTTGAATT
195 TTTTTGGC-TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATT
** * * * *
4912 TATTGATTTGTTTTTACGA-CATCTGAATCATGTTTCAATTTAACTAGAAATTAATTC--AGAAA
259 TAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA
*
4974 AATATGAAA
324 AAAATGAAA
* ** * * * * * *
4983 AACGATATTAAAAGCGTG-AAAAGTCTCCAAATTTTATCGCGTTGAATTATATATATATTATGAG
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATAT-TATTTTCTGAG
*** * * *
5047 TATT-TAGGTTGAAAATTGA-AGAAAAA-TAATTCGGGTCAATTTTTGTAAAATTTTAGCCGAAA
65 TATTGT-GGCAAAAAATTGAGA-AAAAACT-TTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAA
* * * *
5109 TCGTG----AACCATCACTGTTTTTTGGCTAAAAATGCGTTCCGGGGCCCC-AGGTCAGTTTTGC
127 TCGTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGA-CTCAGTTTTGC
* * **
5169 ATGATTTTTTGTGGC-AAA-ACTCCTTGAAATATCTATATTGATCTAACGAAATCTTC-GCCGTA
191 ATGA--TTTT-TGGCTAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC-TCAGCCACA
* * * *
5231 TTGGATTTAAGGATTTATTTTTACGAGCATTTGAATCATGTTTCGATTTAATTAGAAATTAATTT
252 TTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC
* *
5296 GG-AAAAAAAGTAGGAA
317 GGAAAAAAAAAT-GAAA
* * * * ** * *
5312 AACAATATTAGAAACGTGAGAAGCCCTTCAATCATTTTGGCGTTGAATTCTATATT-CTTTATGA
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAA-T-TATATTATTTTCTGA
* ** * * *
5376 TTATTGTGGCTGAAAATTGAGAAAAAAATTTT-GGGTCAATTTTTGCAAAATTTCATG-CGAAAT
64 GTATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTA-GCCGAAAT
* * ** *
5439 CGTG---T-ACCATCACGGTTTTTTGGCTAAAAACGTG-TCCGGGGCCTAGACGCAGTTTTGCAT
128 CGTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACTCAGTTTTGCAT
* * * * *
5499 GATTTTTGGCATAAAGACTCCTTGAAATACCTAAAATCATCTAACCAATTTTCAGCCACATTGGA
193 GATTTTTGGC-TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGA
* * * * *
5564 TTTAAGGATTTGTTTTTACAAGAATCTGAATCTTGTTTTGATTTAATTAAAAATAAATTCGGAAA
257 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
5629 AAAAAATGAAAA
322 AAAAAATG-AAA
* *
5641 AACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGGCATTGAATTATATTATTTTCTGAGT
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATATTATTTTCTGAGT
* * *
5706 ATTGTGGCAAAAAATTGAGGAAAAAACTTTTCGGGTCAGCTTTTGCAAAATTTTAACCGAAATTG
66 ATTGTGGCAAAAAATTGA-GAAAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATCG
* * *
5771 TGTACTAACACCATCAC-GTTTTTTGGCTAAAAACGCATTCTGGAGCCCCGACTCAATTTTGCAT
130 TGTACT-A-ACCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACTCAGTTTTGCAT
* * *
5835 GATTTTTGGCTCAAAGACTCCTTCAAATATCTTTATTCATCGAACCAAATCTCAGCCACATTGGA
193 GATTTTTGGCT-AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGA
** * * * * *
5900 TACAAGGATTTGTTTTTACGAGGATCTGAATCTTGATTCGATTAAATTAGAAATTATTTCGG-GA
257 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
5964 AAAAAATGGAAA
322 AAAAAAT-GAAA
* * * *
5976 AACGATATTAGAAGCGTGAAAAGCCCGTCAATTTTTTTTTTGCGTTGAATTATATATTTTTTCTG
1 AACGATATTAGAAGCGTGAAAAACCCTTCAA--TTTTTTTGGCGTTGAATTATAT-TATTTTCTG
* * * *
6041 AGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCAGGTAAGTTTTT-----A---T--CCGACAT
63 AGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAAT
* * * * *
6096 CGTG---T----ATCAC-GATTTATGGCTAAAAATGCGTT-TCAGGGCCCCGGCTCAGTTTTGCA
128 CGTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCT-GGGGCCCCGACTCAGTTTTGCA
* * * * * *
6152 TAATTTTTGGCAGAAAGACTCCTTGAAATATCGATATTCATCTAACCAAATCTCAGCCATAATAG
192 TGATTTTTGGC-TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGG
* * * *
6217 ATTTAAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATATAATTAGAAATAAAATCGGGA
256 ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-GGA
6282 AAAAAAATATGAAA
320 AAAAAAA-ATGAAA
* * * * * *
6296 GACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGTCGTTGAATTATATATTTTTTCTAAC
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATAT-TATTTTCTGAG
* *
6361 TATTGTGGCAAAGAATTGAAGAAAAAA-TTTTCGAGTCAGTTTTTTGCAAAATTTTAGCCGAAAT
65 TATTGTGGCAAAAAATTG-AGAAAAAACTTTTCGGGTCAG-TTTTTGCAAAATTTTAGCCGAAAT
* * * *
6425 CGTTTACT---CATCACAG-TTTTTGGCTAAAAACGCGTTCCGGGGCCCC-TCTCAGTTTTGCAT
128 CGTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACTCAGTTTTGCAT
* * ** * * *
6485 GATTTTTGGAGTAAAGACTCCTTAAAATATAAATAATCATCTAACCAAATCCCAGCCACATTCGA
193 GATTTTTGG-CTAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGA
*
6550 TTTAACGATTTGTTTTTACAAGCATGCATCTGAATCTCTTGTTTCGATTTAATTAGAAATTAATT
257 TTTAAGGATTTGTTTTTAC--G-A-GCATCTGAA--TCTTGTTTCGATTTAATTAGAAATTAATT
* *
6615 C--AAACAAATA-GAAA
316 CGGAAAAAAAAATGAAA
* * * *
6629 AACGATATTAGAAGCGTGAAAAACTCTGCAATCTTTTTGGCATTGAATTATA-TATTTTCTATGA
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATATTATTTTC--TGA
** * * * * *
6693 GTATTGTGGTGAAAAATTGATAACAAA-TCTTTC--G--AG----T-C-AATTTTTAGTCGTAAT
64 GTATTGTGGCAAAAAATTGAGAAAAAACT-TTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAAT
* * * * *
6747 CGTG---T----AT---GG-CTTTTGGGTAAAAACGCGTT-TCGGTGCCTCGACTCAGTTTTGCT
128 CGTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCT-GGGGCCCCGACTCAGTTTTGCA
* * * *
6800 TGGTTTTAGACATAAAGACTTCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGG
192 TGATTTTTGGC-TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGG
* * * *
6865 ATTTAAGGATTTGTTTTTACGAGTATCTGAATCTTGTTTCGAGTTAATTAGAAATAAATTCGGGA
256 ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
**
6930 AAAATTATGAAA
321 AAAAAAATGAAA
* **
6942 TACGATATTAGAAGCGTGAAAAACCCTTCAATTTTACTGGCGTTGAATTATA-TATTTTTCTGAG
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATATTA-TTTTCTGAG
** * *
7006 TATTGTGGCAAAAAAAGGAGGAAAAACTTTTCGGGTCAGGGTCAGTTTTTGAAAAATTTTAGCCG
65 TATTGTGGCAAAAAATTGAGAAAAAAC-TTT----TC-GGGTCAGTTTTTGCAAAATTTTAGCCG
* * * * ** * *
7071 AAATCGTGTATTAACTATCACGGTTTTTT-GCTAAAAACGGGTTCTGGAGCTACGGCTCAATTTT
124 AAATCGTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACTCAGTTTT
* * * *
7135 GCAATTATTTTGTCGC-AAAGATTCCTTGAAATATCTATATTCAT-TGAACCAAATCTCAGCTAC
189 GC-ATGATTTT-TGGCTAAAGACTCCTTGAAATATCTATATTCATCT-AACCAAATCTCAGCCAC
* * *
7198 ATTGGATATAAGGATTTGTTTTTACGGGCATCTGAATCTTGTTTCTATTTAATTAGAAATTAATT
251 ATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT
*
7263 CGG---GAAAAATGGAAA
316 CGGAAAAAAAAAT-GAAA
* * * ** ** * *
7278 ATCGATATTAGAAGCGTGAAAAGCCCATCAATCCTTTTCACGTTAAATTATATATTTTTTCTGAG
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATAT-TATTTTCTGAG
* *
7343 TATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAG----T------TTTTAGCCAAAATAG
65 TATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATCG
* ** * * * * *
7398 TGTACGT-----T-ACAG-TTTTTAACTAAAAAAGCGTTCCGGGTCCACTG-CTCTGTTTTGCAT
130 TGTAC-TAACCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCC-CCGACTCAGTTTTGCAT
*** * ** *
7455 GATTTTTGGCGCCGAGACTCCTTGAAATATCTTTATTCATCTAATTAAA--T-AGCCACATTGAA
193 GATTTTTGGC-TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGA
* * * * * *
7517 TTTAAGAATTTGTTTTTACGTGCATCTAAATCTGGTTTCGATTTAATTAGAAATTAATT--TAGA
257 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
7580 AAAAAATGAAA
322 AAAAAATGAAA
* * ** ** *
7591 AACGATATTAAAAGCTTGAAAAGTCCTTCAATCCTTTTGGCGTTGAATTATATATATTTTATGAG
1 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATAT-TATTTTCTGAG
* * * *
7656 TATTTTTGCCAAAAATTGAGGAAAAATCTTTTCGGGTCA
65 TATTGTGGCAAAAAATTGA-GAAAAAACTTTTCGGGTCA
7695 ATAATTTTAC
Statistics
Matches: 3248, Mismatches: 572, Indels: 416
0.77 0.14 0.10
Matches are distributed among these distances:
310 28 0.01
312 37 0.01
313 192 0.06
314 35 0.01
315 37 0.01
316 139 0.04
317 31 0.01
318 260 0.08
319 159 0.05
320 59 0.02
321 21 0.01
322 67 0.02
323 52 0.02
324 20 0.01
325 37 0.01
326 173 0.05
327 202 0.06
328 168 0.05
329 162 0.05
330 122 0.04
331 25 0.01
332 253 0.08
333 133 0.04
334 9 0.00
335 106 0.03
336 428 0.13
337 91 0.03
338 191 0.06
339 10 0.00
340 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (332 bp):
AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATTATATTATTTTCTGAGT
ATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATCGT
GTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGACTCAGTTTTGCATGAT
TTTTGGCTAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTA
AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
AATGAAA
Found at i:6274 original size:654 final size:649
Alignment explanation
Indices: 3349--7694 Score: 4362
Period size: 654 Copynumber: 6.6 Consensus size: 649
3339 CATTCAATTT
* * * * *
3349 AACGATAATAGAAGCGTGAAAAACTCTGCAATCTTTTTGTCGTTGAATTATATATTTTGTAC-GA
1 AACGATATTAGAAGCGTGAAAAGCCCT-CAATCTTTTTGGCGTTGAATTATATATTTT-TTCTGA
* ** * * *
3413 GTA-TGTGGCGAAAAATTGAGAAAAACTTTTTCAGGTCAGTTTTTAGCCGAAATCAAGTAATAAC
64 GTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTAAGTTTTTAGCCGAAATC--GT-GT---
* * * * *
3477 CATCACGGTTTTTTGGCTAAAAATGTGTTTCGAGGCCTCGACTCAGTTTTGCATTG-TTTTTGAC
123 -ATCACGGATTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCA-TGATTTTTGGC
* * *
3541 ATAAAGACTCCATGAAATATCTTTATTCATCTAACCAAATCTCAGCCACATTGGAGTTAAGGATT
186 ATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATT
* * * *
3606 TGTTTTTACGAGCATCTGAATCTTGCTTCGATTTAAATAAAAATAAATTCGG-AAAAAATATGAA
251 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAATGAA
* * * *
3670 AAACGATATTAGAAGCGTGAAGAA-CACTTCTATTTTTCTGGCGTTGAATTTTATATTTTTTCTG
316 AAACGATATTAGAAGCGTGAAAAATC-CTTCAATTTTTCTGGCGTTGAATTATATATATTTTCTG
* * * * * *
3734 AGTATTATGGCTAAAAATTTAGGGAAAACTTTTCGGGTCAGTTTTTGCATAATTTTAGCCGAAAT
380 AGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAGCTTTTGCAAAATTTTAGCCGAAAT
* * * * *
3799 CATATACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCTG-GT-AAGTTTTGCA
445 CGTGTACTAACCATCACGTTTTTTGGCTAAAAACGCGTTCCGGAGCCCC-GACTCAA-TTTTGCA
* * * *
3862 TGATTTTTGGCGT-AAAGACTCTTTAAAATATAAATATTCATCGAACCAAATCTCAGCCACATTC
508 TGATTTTTGGC-TCAAAGACTCCTTGAAATATCAATATTCATCGAACCAAATCTCAGCCACATTG
* * * * *
3926 GATTTAACGATTTGATTTTACGAGCATGCATCTGAATCTTGTTTCAATTCAATTAGAAATTAATT
572 GATATAAGGATTTGTTTTTACGAG---GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT
* * *
3991 CAGAAATAAATCGAAA
634 CGGAAAAAAATGGAAA
* * * *
4007 AACGATAATAGAAGCGTGAAAAACTCTGCAGTCTTTTTGGCGTTGAATTATATATTTTTT-TAGA
1 AACGATATTAGAAGCGTGAAAAGCCCT-CAATCTTTTTGGCGTTGAATTATATATTTTTTCT-GA
* *
4071 GTATTGTGGCAAAAAATTGAGAAAAAATATTTTCGGGTCAGTTTTTAGCCGAAATCGTTTACTAA
64 GTATTGTGGCAAAAAATTGAGAAAAAA-ATTTTCGGGTAAGTTTTTAGCCGAAATCGTGTA-T--
** * * * *
4136 CCATCACAGTTTTTGGCTAAAAACGCGTTTCGGGGCGTCTACAT-AGTTTTGCATGGTTTTTGAC
125 -CA-CGGA-TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGAC-TCAGTTTTGCATGATTTTTGGC
*
4200 ATAAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATT
186 ATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATT
* * * * * * *
4265 TCTTTTTACGACCATCTAAATTTTGTTTCGATTTAAATA-AAAGCAGATTCGGAAAAAAAAATAT
251 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA-TAAATTCGG-AAAAAAAA-AT
* * *
4329 TAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTCTGGCGTTGAATTATATATTTTTTC
313 GAAAAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTCTGGCGTTGAATTATATATATTTTC
* * *
4394 TGAGTATTGTGGCAATAAATTGAGGGAAAACTTTTCGGGTCAGCTTTTGCAAAATTTTAGTCGAA
378 TGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAGCTTTTGCAAAATTTTAGCCGAA
* * * * * * * **
4459 ATCATGTACTAATTCATAACGGTCTTTGGCTAAAAACGCGTTCCGAAGCCCCGGCTCAATTTTAT
443 ATCGTGTACTAA-CCATCACGTTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGC
* *
4524 ATGATTTTTGGCTCAAAGACTCCTTGACATATCAATATTCATCGAACCAAATCTCAGCGACATTG
507 ATGATTTTTGGCTCAAAGACTCCTTGAAATATCAATATTCATCGAACCAAATCTCAGCCACATTG
* * * *
4589 CATATAAGGATTTGTTTTTAC-AGGCATCTGAATCTTGATCCTATTTAATTAGAAATTAATTCGG
572 GATATAAGGATTTGTTTTTACGAGGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG
*
4653 -GAAAAATGGAAA
637 AAAAAAATGGAAA
* * * * * * *
4665 AATGAAAATAGAAGCGTGAAAAGCTCATCAATCTTTTTAGCGTGGAA-T-TATATTTTTTCTAAG
1 AACGATATTAGAAGCGTGAAAAGC-CCTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAG
* * * * *
4728 TATTGTGGCAAAAAATTGAGAAATAACTTTTTGGGTTAGTTTTTAAG-TGAAATCGTGTACTAAC
65 TATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTAAGTTTTT-AGCCGAAATCGTG---T---
* * * *
4792 CATCACGGTTTTTTGG-TAAAAAGGCGTTTCGGGGCC-CAGGCTAAGTTTTGCATGATTTTTGGC
123 -ATCACGGATTTTTGGCTAAAAACGCGTTTCGGGGCCTC-GACTCAGTTTTGCATGATTTTTGGC
**** * * * * * **
4855 GCCGAGACTCCTTGAAATATCTATATTCAACTAATCAAATCTTAGCCACGTTGAATTTATTGATT
186 ATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATT
* * * * * *
4920 TGTTTTTACGA-CATCTGAATCATGTTTCAATTTAACTAGAAATTAATTC--AGAAAAATATGAA
251 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAATGAA
* * * * * * * *
4982 AAACGATATTAAAAGCGTGAAAAGT-CTCCAAATTTTATCGCGTTGAATTATATATATATTATGA
316 AAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTCTGGCGTTGAATTATATATATTTTCTGA
*** * * ** *
5046 GTATT-TAGGTTGAAAATTGAAGAAAAA-TAATTCGGGTCAATTTTTGTAAAATTTTAGCCGAAA
381 GTATTGT-GGCAAAAAATTGAGGAAAAACT-TTTCGGGTCAGCTTTTGCAAAATTTTAGCCGAAA
* * * *
5109 TCGTG----AACCATCACTGTTTTTTGGCTAAAAATGCGTTCCGGGGCCCC-AGGTCAGTTTTGC
444 TCGTGTACTAACCATCAC-GTTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGA-CTCAATTTTGC
* * * * * **
5169 ATGATTTTTTGTG-GCAAA-ACTCCTTGAAATATCTATATTGATCTAACGAAATCTTC-GCCGTA
507 ATGA-TTTTTG-GCTCAAAGACTCCTTGAAATATCAATATTCATCGAACCAAATC-TCAGCCACA
* * * *
5231 TTGGATTTAAGGATTTATTTTTACGA-GCATTTGAATCATGTTTCGATTTAATTAGAAATTAATT
569 TTGGATATAAGGATTTGTTTTTACGAGGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT
*
5295 TGGAAAAAAAGTAGG-AA
634 CGGAAAAAAA-T-GGAAA
* * * * * * * *
5312 AACAATATTAGAAACGTGAGAAGCCCTTCAATCATTTTGGCGTTGAATTCTATATTCTTTATGAT
1 AACGATATTAGAAGCGTGAAAAGCCC-TCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAG
** *
5377 TATTGTGGCTGAAAATTGAGAAAAAAATTTT-GGGTCAA-TTTTTGCAAAATTTCATGCGAAATC
65 TATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGT-AAGTTTTT-----A--GC---CGAAATC
* * * * *
5440 GTGTACCATCACGGTTTTTTGGCTAAAAACGTG-TCCGGGGCCTAGACGCAGTTTTGCATGATTT
119 GTGT---ATCACGGATTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGATTT
* * * * *
5504 TTGGCATAAAGACTCCTTGAAATACCTAAAATCATCTAACCAATTTTCAGCCACATTGGATTTAA
181 TTGGCATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAA
* * * *
5569 GGATTTGTTTTTACAAGAATCTGAATCTTGTTTTGATTTAATTAAAAATAAATTCGGAAAAAAAA
246 GGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAA
* *
5634 ATGAAAAAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGGCATTGAATTATAT-TATT
311 ATG-AAAAACGATATTAGAAGCGTGAAAAATCCTTCAATTTTTCTGGCGTTGAATTATATATATT
*
5698 TTCTGAGTATTGTGGCAAAAAATTGAGGAAAAAACTTTTCGGGTCAGCTTTTGCAAAATTTTAAC
375 TTCTGAGTATTGTGGCAAAAAATTGAGG-AAAAACTTTTCGGGTCAGCTTTTGCAAAATTTTAGC
* * *
5763 CGAAATTGTGTACTAACACCATCACGTTTTTTGGCTAAAAACGCATTCTGGAGCCCCGACTCAAT
439 CGAAATCGTGTACT-A-ACCATCACGTTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAAT
* **
5828 TTTGCATGATTTTTGGCTCAAAGACTCCTTCAAATATCTTTATTCATCGAACCAAATCTCAGCCA
502 TTTGCATGATTTTTGGCTCAAAGACTCCTTGAAATATCAATATTCATCGAACCAAATCTCAGCCA
* * * *
5893 CATTGGATACAAGGATTTGTTTTTACGAGG-ATCTGAATCTTGATTCGATTAAATTAGAAATTAT
567 CATTGGATATAAGGATTTGTTTTTACGAGGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
5957 TTCGGGAAAAAAATGGAAA
632 TTC-GGAAAAAAATGGAAA
* *
5976 AACGATATTAGAAGCGTGAAAAGCCCGTCAATTTTTTTTTTGCGTTGAATTATATATTTTTTCTG
1 AACGATATTAGAAGCGTGAAAAGCCC-TCAA--TCTTTTTGGCGTTGAATTATATATTTTTTCTG
* * *
6041 AGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCAGGTAAGTTTTTATCCGACATCGTGTATCAC
63 AGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTAAGTTTTTAGCCGAAATCGTGTATCAC
* * * * * * *
6106 -GATTTATGGCTAAAAATGCGTTTCAGGGCCCCGGCTCAGTTTTGCATAATTTTTGGCAGAAAGA
128 GGATTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGA
* * * *
6170 CTCCTTGAAATATCGATATTCATCTAACCAAATCTCAGCCATAATAGATTTAAGGATTTGTTTTT
193 CTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTT
* * * *
6235 ACGAGCATTTGAATCTTGTTTCGATATAATTAGAAATAAAATCGGGAAAAAAAATATGAAAGACG
258 ACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTC-GGAAAAAAAA-ATGAAAAACG
* * * * *
6300 ATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTGTCGTTGAATTATATATTTTTTCTAACTATT
321 ATATTAGAAGCGTGAAAAATCCTTCAATTTTTCTGGCGTTGAATTATATATATTTTCTGAGTATT
* * * * * *
6365 GTGGCAAAGAATTGAAGAAAAAATTTTCGAGTCAGTTTTTTGCAAAATTTTAGCCGAAATCGTTT
386 GTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAG-CTTTTGCAAAATTTTAGCCGAAATCGTGT
* * *
6430 ACT---CATCACAG-TTTTTGGCTAAAAACGCGTTCCGGGGCCCC-TCTCAGTTTTGCATGATTT
450 ACTAACCATCAC-GTTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTT
* * * * * * * *
6490 TTGGAGT-AAAGACTCCTTAAAATATAAATAATCATCTAACCAAATCCCAGCCACATTCGATTTA
514 TTGG-CTCAAAGACTCCTTGAAATATCAATATTCATCGAACCAAATCTCAGCCACATTGGATATA
* *
6554 ACGATTTGTTTTTACAAGCATGCATCTGAATCTCTTGTTTCGATTTAATTAGAAATTAATTC--A
578 AGGATTTGTTTTTAC--G-AGGCATCTGAA--TCTTGTTTCGATTTAATTAGAAATTAATTCGGA
* *
6617 AACAAATAGAAA
638 AAAAAATGGAAA
* * * * *
6629 AACGATATTAGAAGCGTGAAAAACTCTGCAATCTTTTTGGCATTGAATTATATATTTTCTATGAG
1 AACGATATTAGAAGCGTGAAAAGCCCT-CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAG
** * * * * *
6694 TATTGTGGTGAAAAATTGA-TAACAAATCTTTCGAGTCAA-TTTTTAGTCGTAATCGTGTAT---
65 TATTGTGGCAAAAAATTGAGAAAAAAAT-TTTCGGGT-AAGTTTTTAGCCGAAATCGTGTATCAC
* * * * * * *
6754 GG-CTTTTGGGTAAAAACGCGTTTCGGTGCCTCGACTCAGTTTTGCTTGGTTTTAGACATAAAGA
128 GGATTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGA
*
6818 CTTCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTT
193 CTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTT
* * * ** *
6883 ACGAGTATCTGAATCTTGTTTCGAGTTAATTAGAAATAAATTCGGGAAAAATTATGAAATACGAT
258 ACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAATGAAAAACGAT
* *
6948 ATTAGAAGCGTGAAAAACCCTTCAATTTTACTGGCGTTGAATTATATAT-TTTTCTGAGTATTGT
323 ATTAGAAGCGTGAAAAATCCTTCAATTTTTCTGGCGTTGAATTATATATATTTTCTGAGTATTGT
** *
7012 GGCAAAAAAAGGAGGAAAAACTTTTCGGGTCAGGGTCAGTTTTTGAAAAATTTTAGCCGAAATCG
388 GGCAAAAAATTGAGGAAAAACTTTTCGGGTCA--G-C---TTTTGCAAAATTTTAGCCGAAATCG
* * * * ** * *
7077 TGTATTAACTATCACGGTTTTTT-GCTAAAAACGGGTTCTGGAGCTACGGCTCAATTTTGCAATT
447 TGTACTAACCATCAC-GTTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGC-ATG
* * * * * *
7141 A-TTTTGTCGCAAAGATTCCTTGAAATATCTATATTCATTGAACCAAATCTCAGCTACATTGGAT
510 ATTTTTGGCTCAAAGACTCCTTGAAATATCAATATTCATCGAACCAAATCTCAGCCACATTGGAT
* *
7205 ATAAGGATTTGTTTTTACG-GGCATCTGAATCTTGTTTCTATTTAATTAGAAATTAATTCGG-GA
575 ATAAGGATTTGTTTTTACGAGGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
7268 AAAATGGAAA
640 AAAATGGAAA
* * ** *
7278 ATCGATATTAGAAGCGTGAAAAGCCCATCAATCCTTTTCACGTTAAATTATATATTTTTTCTGAG
1 AACGATATTAGAAGCGTGAAAAGCCC-TCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAG
* * * * *
7343 TATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTAGCCAAAATAGTGTACGTTAC
65 TATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTAAGTTTTTAGCCGAAATCGTGTA--TCAC
* ** * * * * * ****
7408 AG-TTTTTAACTAAAAAAGCGTTCCGGGTCCACTG-CTCTGTTTTGCATGATTTTTGGCGCCGAG
128 GGATTTTTGGCTAAAAACGCGTTTCGGGGCCTC-GACTCAGTTTTGCATGATTTTTGGCATAAAG
* ** * *
7471 ACTCCTTGAAATATCTTTATTCATCTAATTAAA--T-AGCCACATTGAATTTAAGAATTTGTTTT
192 ACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTT
* * * * * *
7533 TACGTGCATCTAAATCTGGTTTCGATTTAATTAGAAATTAATT--TAGAAAAAAATGAAAAACGA
257 TACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAATGAAAAACGA
* * * * *
7596 TATTAAAAGCTTGAAAAGTCCTTCAATCCTTT-TGGCGTTGAATTATATATATTTTATGAGTATT
322 TATTAGAAGCGTGAAAAATCCTTCAAT-TTTTCTGGCGTTGAATTATATATATTTTCTGAGTATT
* * *
7660 TTTGCCAAAAATTGAGGAAAAATCTTTTCGGGTCA
386 GTGGCAAAAAATTGAGGAAAAA-CTTTTCGGGTCA
7695 ATAATTTTAC
Statistics
Matches: 3057, Mismatches: 502, Indels: 265
0.80 0.13 0.07
Matches are distributed among these distances:
644 5 0.00
645 168 0.05
646 75 0.02
647 48 0.02
648 190 0.06
649 281 0.09
650 188 0.06
651 185 0.06
652 9 0.00
653 82 0.03
654 426 0.14
655 251 0.08
656 131 0.04
657 26 0.01
658 176 0.06
659 267 0.09
660 30 0.01
661 7 0.00
662 137 0.04
663 128 0.04
664 162 0.05
665 19 0.01
666 58 0.02
667 8 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (649 bp):
AACGATATTAGAAGCGTGAAAAGCCCTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGT
ATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTAAGTTTTTAGCCGAAATCGTGTATCACGGA
TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCATAAAGACTC
CTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACG
AGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAATGAAAAACGATATT
AGAAGCGTGAAAAATCCTTCAATTTTTCTGGCGTTGAATTATATATATTTTCTGAGTATTGTGGC
AAAAAATTGAGGAAAAACTTTTCGGGTCAGCTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAC
CATCACGTTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCTC
AAAGACTCCTTGAAATATCAATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTG
TTTTTACGAGGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATGGAAA
Found at i:9260 original size:20 final size:21
Alignment explanation
Indices: 9216--9258 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
9206 ATATTACGAG
*
9216 TTTA-GGGGCAAAAGGTCAAT
1 TTTAGGGGGCAAAAAGTCAAT
*
9236 TTTAGGGGGCAAAAAGTGAAT
1 TTTAGGGGGCAAAAAGTCAAT
9257 TT
1 TT
9259 AGTCATTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (21 bp):
TTTAGGGGGCAAAAAGTCAAT
Done.