Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017755.1 Corchorus olitorius cultivar O-4 contig17788, 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: 123730
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:982 original size:334 final size:334
Alignment explanation
Indices: 68--6273 Score: 6387
Period size: 334 Copynumber: 18.4 Consensus size: 334
58 AAAAACTGAA
* * *
68 CGGGGCCATAAATCATTAAAAACTGAGCCGAGGCCCCATAACGTGTTTTTAGCCAAAAAACCGTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
* **
133 ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCC-AAAATGTTTTTCCATTATT
66 ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGT-TTTTTCCACAATT
* *
197 TTTGGCCAAGACACTTAAAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGC
130 TTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGC
* *
262 ATCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCCGATTAAATCGAAACATGATTCTGA
195 TTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGA
* * *
327 TGCTCGTAAAATCAAATCCTTAAATCCAACTTGACTGAGATTTGGTTAAATGAATTTAGATATGT
260 TGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGT
392 CAAGGAGAT-T
325 CAAGGAG-TCT
* *
402 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCATATCGCGTTTTTAGCCAAAAAAAACCG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCC--AAAAAACCG
* *
467 TGATAGTTAGTACACGATTTCGGC-AACAATTTTGCAAAAATTGATCCGAAAGTTTTTTCCACAA
64 TGATGGTTAGTACACGATTTCGGCTAA-AATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAA
* *
531 TTTTTGGCCAAAACACTTATAGAATATATATAATTCAACGCTAAAAAGATTGAAGGGTTTTTAAC
128 TTTTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCAC
*
596 GCTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCCGATTAAATCGAAACATGATTCT
193 GCTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCT
* * * *
661 GATGCTCGTAAAATAAAATCCTTAAATCGAACTTGGCTGAGAATTGGTTAGATGAATTTAGATAT
258 GATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATAT
*
726 GTCAAGGAGACT
323 GTCAAGGAGTCT
* * *
738 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGACCCATATCGCGTTTTTAGCCAAAAAACCGTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
*
803 ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCATAATTT
66 ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATTT
* *
868 TTGGCCAAAACACTTATAGAATTTATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCAGGCT
131 TTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCT
*
933 TCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCCGATTAAATCGAAACATGATTCTGAT
196 TCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGAT
* *
998 GCTCGTAAAATAAAATCCTTAAATCCAACTTGGCTGAGATTTGCTTAGATGAATATAGATATGTC
261 GCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTC
*
1063 AAGGAGACT
326 AAGGAGTCT
* * *
1072 CGGGGCCAAAAATCATTAAAAACTAAGCCGAGGCCCCATATCGCGTTTTTAGCCAAAAAACCGTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
* * * ** ** * * * * ** **
1137 ATGGTTAG---ATGATCT-GCCTACTTCCCATCGTG-AATACTGTAGAGCATCGGGAAGCCTGCT
66 ATGGTTAGTACACGATTTCGGCTA----AAATTTTGCAAAAAT-T-GA-C--CCGAAAGTTTTTT
* **** * * * * ** ** ** * * * *** *
1197 CCTC--GGGCTGTCCGATAC-TTTATATGCTTGCCGCGGATA-AAGACTACTTTCCTATTCGCTT
122 CCACAATTTTTGGCCAAAACACTTATA-GAAT-----ATATATAATTCAAC--GCCAAAAAGATT
** * * * ** * * * * * **** * * ** *
1258 GCCTGCGCTCCTCTACTCATGCACCCCGGAGAGAATGGAAGTGTCGCCGCCTCATGT-GGCTTAC
179 G-AAG-GGT--T-T-TTCA--CGCTTC-TA-A-TATCG-ATTTTC-CTATATCTTTTCGAATTAA
*** * * * * ** ** * ** ** * * * *
1322 CGGCTTGCCTCGAGAATGGACTAGTTGA-AGTGAGGCTTCGCTAGCATCGGA--ATT-GA-CGAG
231 TTTC-TG-AT-TA-AATCGA-AACATGATTCTGATGC-TCG-TAAAATCAAATCCTTAAATCCAA
* * * * * * * * *
1382 CTTGCCT-AGCATTCAGG-TA-TTTAAT-CAG-TCTTGCGTTATTAGCATTGACT
289 CTTGGCTGAG-ATT-TGGTTAGATGAATATAGAT-AT--GTCA--AGGA--GTCT
** * * * * * * ** * * * * *
1432 C-TTG-CGAAGA--A--AGAACCTCAGGTC-AGG-AAC-GAATTG-GATTTAAACC-AAAATCC-
1 CGGGGCCAAAAATCATTAAAAACTGA-GCCGAGGCCCCAGAA-CGCGTTTTTAGCCAAAAAACCG
** * *
1485 ------CCA-TACACGAATTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCCATAA
64 TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTT-CCACAA
*
1543 TTTTTGGTCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCAC
128 TTTTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCAC
1608 GCTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCT
193 GCTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCT
* * * * *
1673 GATGCTCGTAAAATCAAATACTTAAATCCAACATGGCCGAGATTTGATTAGACGAATATAGATAT
258 GATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATAT
**
1738 -TCCAAGGACACT
323 GT-CAAGGAGTCT
** * * *
1750 CAAGGCCAAAAATCATTAAAAACTGTGCCGGGGCCCCAGAACGCATTTTTAGCCAAAAAACCGTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
* * * * *
1815 ATGGTCAATACACGATTTCGGCTAAAATTTTGCAGAAATTGACCCGAAAGTTTTTTCCAAAATCT
66 ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATTT
* *
1880 TTGGCCAAAACACTTATAGAATATATATATAATTCAATGCGAAAAAGATTGAAGGGTTTTTCACG
131 TTGGCCAAAACACTTATAG-A-ATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACG
1945 CTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGA-TAAATCGAAACATGATTCTG
194 CTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTG
* *
2009 ATGCTCGTAAAATCAAATCCTTAAATCCAACATGGCTGAGATTTGATTAGATGAATATAGATATG
259 ATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATG
*
2074 TCAAGGACTCT
324 TCAAGGAGTCT
* * * *
2085 CAGGGCCAAAAATCATTAAAAACTGAACTGGGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
* * * *
2150 ATGGTTATTATACGATTTCGGCTAAAATATTGCAAAAATTGACTCGAAAGATTTTTTCCACAATT
66 ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAG-TTTTTTCCACAATT
* *
2215 TACT-GCCAAAACACTTATAGAATTTATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACG
130 T-TTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACG
* * *
2279 CTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCCGATTAAATCGAAATATGATTTTG
194 CTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTG
* *
2344 ATGCTCGTAAAATCAAATCCTTAAATCCAACATGGCTGAGATTTGATTAGATGAATATAGATATG
259 ATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATG
*
2409 TCAAGGACTCT
324 TCAAGGAGTCT
* * *
2420 CAGGGCCAAAAATCATTAAAAACTGAGCCG-GGGCCCAGAACGCGGTTTTAGCCAAAAAAACCGT
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCC-AAAAAACCGT
* * * *
2484 GA---TAATTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCTAAAGTTTTTTTCACAATT
65 GATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATT
*
2546 TTTTGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGC
130 TTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGC
2611 TTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGA
195 TTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGA
* * * *
2676 TGCTCGTAAAATGAAATCCTTAAATCCAAATTGGCTGAGATTTAGTTAGATGAATATATATATGT
260 TGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGT
2741 CAAGGAGTCT
325 CAAGGAGTCT
* * * * *
2751 CGAGGCCAAAAATCATTAAAAACTGAGCCGGGGCCTCAGAACGCGTTTTTGGCCAAAAAAATCGT
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCC-AAAAAACCGT
* * *
2816 AATGGTTAGTACACGATTTCGGCTAAAAATTTGCAAAAATTGACCCGAAATTTTTTTCTCCACAA
65 GATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAA-GTTTTT-TCCACAA
* * * *
2881 TCTTTGGCGAAAACACTTATAGAATATATATAATTCGATGCCAAAAAGATTGAAGGGTTTTTCAC
128 TTTTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCAC
* * *
2946 GCTTCTAATATCGAATTTCCCATATCATTTCGAATTAATTTCTGATTAAATCGAAACATGATTCT
193 GCTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCT
* ** *
3011 GATGCTCGTAAAGTCAAATAATTAAATCCAACTTGGCTAAGATTTGGTTAGATGAATATAGATAT
258 GATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATAT
*
3076 CTCAAGGAGTCT
323 GTCAAGGAGTCT
* * * * * *
3088 CGGGGCTAAAAATCATTGAAAACTGAGTCG-GGCCCCAGAACACGTTTTTGGCCAAAAAAATCGT
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCC-AAAAAACCGT
* * *
3152 AATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAAAAGTTTTTTCCACAATC
65 GATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATT
* * * * * *
3217 TTTGTCCAAAAAACTTATAGAATATATCTAATTTAATGCCAAAAAGATTGAAGGGTTTTTCACAC
130 TTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGC
* * *
3282 TTCTAATATCGATTTTCCTATAT-GTTTCTGAATTAAATTCTGATTAAATTGAAACATGATTCTG
195 TTCTAATATCGATTTTCCTATATCTTTTC-GAATTAATTTCTGATTAAATCGAAACATGATTCTG
* * * *
3346 ATGCTCGTAAAATCAAATCCTTAAATCCAATTTGGCTGAGATTTGGTCAGATGAATATAGATTTT
259 ATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATG
3411 TCAAGGAG-CAT
324 TCAAGGAGTC-T
* * * * * * * * *
3422 CAGGGACAAAAATCATTGAAAACTAAGCTGTGGCCCCGGAACGTGTTTTTAGCC-AAAATCCGTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
* **
3486 ATATAACGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCCTAAGATTTTTTCCAC
66 --AT--GGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAG-TTTTTTCCAC
* *
3551 AATTTTTGGCCAAAACACTTATAGAATATGTATAATTCAACGCTAAAAAGATTGAAGGGTTTTTC
126 AATTTTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTC
* *
3616 ACGCTTCTTATATCAATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATT
191 ACGCTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGA-T
* *
3681 TATGATGCTCGTAAAATCAAATCCCTAAATCCAACTTGGCTGAGATTCT-GTTAGATGAATATAG
255 TCTGATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATT-TGGTTAGATGAATATAG
* *
3745 ATATGTTAAGGATTCT
319 ATATGTCAAGGAGTCT
* * * * * * *
3761 TGGAGCCAAAAATCATTAAAAACTTAGCTGGGGCGCCAGAACGCGTTTTTAGCCAAAAAAAACTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCC--AAAAAACCG
* * *
3826 TGATGGTTAATACACGATTTCGGCTAAAAATTTGCAAAAATTGACTCGAAAG-TTTTTCCACAAT
64 TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAAT
* * *
3890 CTTTGGTCAAAACACTTATAGAATATATATAATTCAACGCTAAAAAGATTGAAGGGTTTTTCACG
129 TTTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACG
* * *
3955 CTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTTTGATAAAACCGAAACATGATTCTG
194 CTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTG
* * *
4020 ATGCTCGTAAAATCAAATCCTTAAATCGAATTTGGCTGAGATTTGGTTAGATGAATATAAATATG
259 ATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATG
*
4085 TCAAGGTGTCT
324 TCAAGGAGTCT
* * * * * * *
4096 CGGGGCCAGAAATAATTGAAAACTGAGCCGTGGACCCGGAACGCATTTTTAGCCAAAAAACCGTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
* * * * *
4161 ATTG-TAGGTACACGATTTCGGCTAAAATTTTACAAAAATTGACCCAAAATTTTTTTCCACAATC
66 ATGGTTA-GTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATT
* *
4225 TTTGGCGAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGC
130 TTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGC
* * * * *
4290 TTCTAATATGAGATTTTTCTATATCTTTTCAAATTAATTTCTGATTAAATCGAAACATAATTCTA
195 TTCTAATAT-CGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTG
* * * *
4355 ATGCTACGTAAAATCAAATCCTAAAATCTAACTCGGCTGAGATTTGGTTAGATTAATATAGATAT
259 ATGCT-CGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATAT
4420 GTCAAGGAGTCT
323 GTCAAGGAGTCT
* *
4432 CGGGGCCAAAAATCATTAAAAACTGAGTC-AGGGCCCCAGAACGCGTTTTTAGCCAAAAAAAATC
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGA-GGCCCCAGAACGCGTTTTTAGCC--AAAAAACC
* * * * *
4496 GTGATTGCTGGTACACGATTTCGGATAAAATTTTGCAAAAATTTTA-CCGAAAGTTTTTTCCACA
63 GTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA-TTGACCCGAAAGTTTTTTCCACA
* *
4560 ATCTTTT-GCCAAAACACTTATAGAATATATATAATTCGACGCCAAAAAGATTGAAGGATTTTTC
127 AT-TTTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTC
*
4624 ACGCTTCTAATATCGATTTTCCTATATCATTTCGAATTAATTTCTGATTAAATCGAAACATGATT
191 ACGCTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATT
*
4689 CTGATGCTCGTAAAATCAAATCCTTTAAATCCAACCTGGCTGAGATTTGGTTAGATGAATATAGA
256 CTGATGCTCGTAAAATCAAATCC-TTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGA
4754 TATGTCAAGGAGTCT
320 TATGTCAAGGAGTCT
* * * * **
4769 CGGGGCCAAAAATCATTAAAAACTGAGTCGGGGCCCCAGAACGCATTGTTAGCCAAAAAAAGGGT
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCC-AAAAAACCGT
* * * * *
4834 GAT-GTAACATACACGATTTCGGCTAAAATTTTACAGAAATTGACCCAAAAG-TTTTTCCACAAT
65 GATGGTTA-GTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAAT
* * * * *
4897 CTTTGGCCAAAACACTTATAGAATATATCTAATTAAACGCCAAAAACATTGAAGGGTTTTTCACA
129 TTTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACG
* * *
4962 CTTCTAAAATCGATTTTCCTTTATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTTAT
194 CTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGA-TTCT
* * * * *
5027 GATGCTCGTAAAATCAAATCCTTAAATCCAATTTGGCTGAGATTTGGTCAGTTGAATATTGATTT
258 GATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATAT
* * *
5092 TTCAAAGAGTAT
323 GTCAAGGAGTCT
* * * * * **
5104 CGGGGCCAAAAATCATTAAAAACTGAGTCGGGGCCCCAGAACGCATTTTTTCGACATAAAAAATT
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGC-GTTTTTAG-C-CAAAAAACC
* * * *
5169 GTGATGGTTAGTACACGATTTTGGTTAAAATTTTGGAAAAATTGACCCGAAAATTTTTTCCACAA
63 GTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAA
* * * * *
5234 TCTTTT-GCCAAAACACTAATAGAATATACATAATTCAATGCCTAAAAGATTGAAGGTTTTTTCA
128 T-TTTTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCA
* * * * * *
5298 CGCTTCTAAAATTGATTTTCCTATATGTTTCCGAATTAATTTTTGATTAATTCGAAACATGATTC
192 CGCTTCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTC
* *
5363 TGATGCTCGTAAAATCAAGTCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATAAATATAGATA
257 TGATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATA
*
5428 TGTGAAGGAGTCT
322 TGTCAAGGAGTCT
* * * ** * * * *
5441 CGAGGCCAAAAATTATTAAAAACGGAGCCGAACCCCCGGAACGCGTTTTTGGAC-AAAAACCTTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
* * **** * * * * * *
5505 ATGGTTAGTAAACGATTTCAGCTAAGCCCAAAAAAAAAGTAAACGATT-TCAGCTAAAATTTTGC
66 ATGGTTAGTACACGATTTC-G----G--CTAAAATTTTGCAAA-AATTGAC-CCGAAAGTTTT--
* * ** * * * * * **
5569 AAAAATTGAACCAAAAGATTTTTTCCACAA-TCTT-TGGCCAAAACACTTATAGAATAT-ATATA
120 -----TT---CCACAA-TTTTTGGCCAAAACACTTATAG--AAT--A--TATATAAT-TCA-ACG
* ** * ** ** * ** * * * *
5631 ACTCAATGA-CAAAAAG-ATTGAAGGATTTTCACGCGTCTAATATCGATTTTCCTATATGTTTCC
168 CCAAAAAGATTGAAGGGTTTTTCACG--CTT-------CTAATATCGATTTTCCTATATCTTTTC
* *
5694 GAATTAATTTCTAATTAAATCGAAACATGATTCTGATGCTCGTAAAATGAAATCCTTAAATCCAA
224 GAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTAAAATCAAATCCTTAAATCCAA
* *
5759 TTTGGCTGAGATTTGGTTAGATGAATATAGATTTGTCAAGGAGTCT
289 CTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAGTCT
* * * *
5805 CGGGGCCAAAAATCATTGAAAACTGAGCTG-GGACCCCGGAACGCGTTTTTAGCC-AACAACCGT
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGG-CCCCAGAACGCGTTTTTAGCCAAAAAACCGT
* * * * * * *
5868 GTTGGTTAGTACACGATTTCTGTTAAAATTTTGCAAAATTTGACCCAAAAGATTTTTTTCTCAAT
65 GATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAG-TTTTTTCCACAAT
* * ** ** * * * * * * *
5933 TTTTGGACACAATTCTCGTAAAAGAATATATAATTCAATGCCGAAATGAGTGAAGGGCTTTTCAC
129 TTTTGGCCAAAACACTTATAGAA-TATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCAC
* * * * * * *
5998 GCTTCTTAGATCGATTTTCCCAT-T-TTTTCTGAATTAATCTCTAATGAAATCGAAA-ATGGTTT
193 GCTTCTAATATCGATTTTCCTATATCTTTTC-GAATTAATTTCTGATTAAATCGAAACAT-GATT
* * * * ** * ** *
6060 CTGATGCTTGTAAAAACAAGTCCTTAAAACCAAGGTGGTTGAGATTTCATTAGATGAATGTAGAT
256 CTGATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGAT
* **
6125 ATTTCAATAAGTCT
321 ATGTCAAGGAGTCT
* * *** * * * * *
6139 TGGGGCAAAAAATCACGCAAAACTGAGTCGGGGCCTCGGAACACGTTTTTAG-CAAAAAACCGTG
1 CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
* * *
6203 A---TAACGTACACGATTTCAGCTAAAATTTTGCAAAAATTGACCCGGAAGATTTCTTT-CACAA
66 ATGGTTA-GTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAG-TTT-TTTCCACAA
*
6264 TTTTTTGCCA
128 TTTTTGGCCA
6274 CAATACTCGT
Statistics
Matches: 4928, Mismatches: 744, Indels: 402
0.81 0.12 0.07
Matches are distributed among these distances:
318 10 0.00
319 8 0.00
320 19 0.00
321 4 0.00
322 14 0.00
323 14 0.00
324 19 0.00
325 6 0.00
326 10 0.00
327 7 0.00
328 3 0.00
330 8 0.00
331 240 0.05
332 128 0.03
333 100 0.02
334 965 0.20
335 856 0.17
336 858 0.17
337 582 0.12
338 423 0.09
339 134 0.03
340 20 0.00
341 16 0.00
342 36 0.01
343 22 0.00
344 11 0.00
345 1 0.00
346 16 0.00
347 12 0.00
348 6 0.00
350 6 0.00
351 18 0.00
352 16 0.00
353 6 0.00
354 22 0.00
355 18 0.00
356 33 0.01
357 27 0.01
358 19 0.00
359 9 0.00
360 10 0.00
364 196 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (334 bp):
CGGGGCCAAAAATCATTAAAAACTGAGCCGAGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTG
ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATTT
TTGGCCAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCT
TCTAATATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGAT
GCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTC
AAGGAGTCT
Found at i:2097 original size:335 final size:334
Alignment explanation
Indices: 1488--6273 Score: 5680
Period size: 335 Copynumber: 14.2 Consensus size: 334
1478 AAAATCCCCA
* * * *
1488 TACACGAATTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCCATAATTTTTGGTCA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTT-CCACAATCTTTGGCCA
1553 AAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATA
65 AAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATA
1618 TCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTA
130 TCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTA
* * * * * *
1683 AAATCAAATACTTAAATCCAACATGGCCGAGATTTGATTAGACGAATATAGATAT-TCCAAGGAC
195 AAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGT-CAAGGAG
* ** * *
1747 ACTCAAGGCCAAAAATCATTAAAAACTGTGCCGGGGCCCCAGAACGCATTTTTAGCCAAAAAACC
259 TCTCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCCAAAAAACC
* *
1812 GTGATGGTCAA
324 GTGATGGTTAG
* *
1823 TACACGATTTCGGCTAAAATTTTGCAGAAATTGACCCGAAAGTTTTTTCCAAAATCTTTGGCCAA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATCTTTGGCCAA
* *
1888 AACACTTATAGAATATATATATAATTCAATGCGAAAAAGATTGAAGGGTTTTTCACGCTTCTAAT
66 AACACTTATAG-A-ATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAAT
1953 ATCGATTTTCCTATATCTTTTCGAATTAATTTCTGA-TAAATCGAAACATGATTCTGATGCTCGT
129 ATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGT
* * *
2017 AAAATCAAATCCTTAAATCCAACATGGCTGAGATTTGATTAGATGAATATAGATATGTCAAGGAC
194 AAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAG
* * *
2082 TCTCAGGGCCAAAAATCATTAAAAACTGAACTGGGGCCCCAGAACGCGTTTTTAGCCAAAAAACC
259 TCTCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCCAAAAAACC
*
2147 GTGATGGTTAT
324 GTGATGGTTAG
* * *
2158 TATACGATTTCGGCTAAAATATTGCAAAAATTGACTCGAAAGATTTTTTCCACAAT-TTACT-GC
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAG-TTTTTTCCACAATCTT--TGGC
*
2221 CAAAACACTTATAGAATTTATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAA
63 CAAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAA
* * *
2286 TATCGATTTTCCTATATCTTTTCGAATTAATTTCCGATTAAATCGAAATATGATTTTGATGCTCG
128 TATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCG
* *
2351 TAAAATCAAATCCTTAAATCCAACATGGCTGAGATTTGATTAGATGAATATAGATATGTCAAGGA
193 TAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGA
* * *
2416 CTCTCAGGGCCAAAAATCATTAAAAACTGAGCCGGGG-CCCAGAACGCGGTTTTAGCCAAAAAAA
258 GTCTCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCC-AAAAAA
* *
2480 CCGTGA---TAAT
322 CCGTGATGGTTAG
* * * *
2490 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCTAAAGTTTTTTTCACAATTTTTTGCCAA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATCTTTGGCCAA
2555 AACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATAT
66 AACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATAT
2620 CGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTAA
131 CGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTAA
* * * *
2685 AATGAAATCCTTAAATCCAAATTGGCTGAGATTTAGTTAGATGAATATATATATGTCAAGGAGTC
196 AATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAGTC
* * * *
2750 TCGAGGCCAAAAATCATTAAAAACTGAGCCGGGGCCTCAGAACGCGTTTTTGGCCAAAAAAATCG
261 TCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCC-AAAAAACCG
*
2815 TAATGGTTAG
325 TGATGGTTAG
* * *
2825 TACACGATTTCGGCTAAAAATTTGCAAAAATTGACCCGAAATTTTTTTCTCCACAATCTTTGGCG
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAA-GTTTTT-TCCACAATCTTTGGCC
* *
2890 AAAACACTTATAGAATATATATAATTCGATGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAAT
64 AAAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAAT
* * *
2955 ATCGAATTTCCCATATCATTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGT
129 ATCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGT
* ** * *
3020 AAAGTCAAATAATTAAATCCAACTTGGCTAAGATTTGGTTAGATGAATATAGATATCTCAAGGAG
194 AAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAG
* * * * * *
3085 TCTCGGGGCTAAAAATCATTGAAAACTGAGTC-GGGCCCCAGAACACGTTTTTGGCCAAAAAAAT
259 TCTCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCC-AAAAAAC
*
3149 CGTAATGGTTAG
323 CGTGATGGTTAG
* *
3161 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAAAAGTTTTTTCCACAATCTTTGTCCAA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATCTTTGGCCAA
* * * * *
3226 AAAACTTATAGAATATATCTAATTTAATGCCAAAAAGATTGAAGGGTTTTTCACACTTCTAATAT
66 AACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATAT
* * *
3291 CGATTTTCCTATAT-GTTTCTGAATTAAATTCTGATTAAATTGAAACATGATTCTGATGCTCGTA
131 CGATTTTCCTATATCTTTTC-GAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTA
* * * *
3355 AAATCAAATCCTTAAATCCAATTTGGCTGAGATTTGGTCAGATGAATATAGATTTTTCAAGGAG-
195 AAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAGT
* * * * * * * * *
3419 CATCAGGGACAAAAATCATTGAAAACTAAGCTGTGGCCCCGGAACGTGTTTTTAGCC-AAAATCC
260 C-TCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCCAAAAAACC
*
3483 GTGATATAACGTTAG
324 GTG--AT--GGTTAG
** *
3498 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCCTAAGATTTTTTCCACAATTTTTGGCCA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAG-TTTTTTCCACAATCTTTGGCCA
* * *
3563 AAACACTTATAGAATATGTATAATTCAACGCTAAAAAGATTGAAGGGTTTTTCACGCTTCTTATA
65 AAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATA
* *
3628 TCAATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTTATGATGCTCGT
130 TCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGA-TTCTGATGCTCGT
* *
3693 AAAATCAAATCCCTAAATCCAACTTGGCTGAGATTCT-GTTAGATGAATATAGATATGTTAAGGA
194 AAAATCAAATCCTTAAATCCAACTTGGCTGAGATT-TGGTTAGATGAATATAGATATGTCAAGGA
* * * * * *
3757 TTCTTGGAGCCAAAAATCATTAAAAACTTAGCTGGGGCGCCAGAACGCGTTTTTAGCCAAAAAAA
258 GTCTCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCC--AAAAA
* *
3822 ACTGTGATGGTTAA
321 ACCGTGATGGTTAG
* * *
3836 TACACGATTTCGGCTAAAAATTTGCAAAAATTGACTCGAAAG-TTTTTCCACAATCTTTGGTCAA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATCTTTGGCCAA
*
3900 AACACTTATAGAATATATATAATTCAACGCTAAAAAGATTGAAGGGTTTTTCACGCTTCTAATAT
66 AACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATAT
* * *
3965 CGATTTTCCTATATCTTTTCGAATTAATTTTTGATAAAACCGAAACATGATTCTGATGCTCGTAA
131 CGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTAA
* * * *
4030 AATCAAATCCTTAAATCGAATTTGGCTGAGATTTGGTTAGATGAATATAAATATGTCAAGGTGTC
196 AATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAGTC
* * * * * * *
4095 TCGGGGCCAGAAATAATTGAAAACTGAGCCGTGGACCCGGAACGCATTTTTAGCCAAAAAACCGT
261 TCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGT
*
4160 GATTG-TAGG
326 GATGGTTA-G
* * * *
4169 TACACGATTTCGGCTAAAATTTTACAAAAATTGACCCAAAATTTTTTTCCACAATCTTTGGCGAA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATCTTTGGCCAA
*
4234 AACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATAT
66 AACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATAT
* * * * *
4299 GAGATTTTTCTATATCTTTTCAAATTAATTTCTGATTAAATCGAAACATAATTCTAATGCTACGT
131 -CGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCT-CGT
* * * *
4364 AAAATCAAATCCTAAAATCTAACTCGGCTGAGATTTGGTTAGATTAATATAGATATGTCAAGGAG
194 AAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAG
* *
4429 TCTCGGGGCCAAAAATCATTAAAAACTGAGTCAGGGCCCCAGAACGCGTTTTTAGCCAAAAAAAA
259 TCTCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCC--AAAAAA
* * * *
4494 TCGTGATTGCTGG
322 CCGTGATGGTTAG
* * *
4507 TACACGATTTCGGATAAAATTTTGCAAAAATTTTA-CCGAAAGTTTTTTCCACAATCTTTTGCCA
1 TACACGATTTCGGCTAAAATTTTGCAAAAA-TTGACCCGAAAGTTTTTTCCACAATCTTTGGCCA
* *
4571 AAACACTTATAGAATATATATAATTCGACGCCAAAAAGATTGAAGGATTTTTCACGCTTCTAATA
65 AAACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATA
*
4636 TCGATTTTCCTATATCATTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTA
130 TCGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTA
*
4701 AAATCAAATCCTTTAAATCCAACCTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAG
195 AAATCAAATCC-TTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAG
* * * *
4766 TCTCGGGGCCAAAAATCATTAAAAACTGAGTCGGGGCCCCAGAACGCATTGTTAGCCAAAAAAAG
259 TCTCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCC-AAAAAAC
* * *
4831 GGTGAT-GTAACA
323 CGTGATGGTTA-G
* * *
4843 TACACGATTTCGGCTAAAATTTTACAGAAATTGACCCAAAAG-TTTTTCCACAATCTTTGGCCAA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATCTTTGGCCAA
* * * * *
4907 AACACTTATAGAATATATCTAATTAAACGCCAAAAACATTGAAGGGTTTTTCACACTTCTAAAAT
66 AACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATAT
* *
4972 CGATTTTCCTTTATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTTATGATGCTCGTA
131 CGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGA-TTCTGATGCTCGTA
* * * * * * *
5037 AAATCAAATCCTTAAATCCAATTTGGCTGAGATTTGGTCAGTTGAATATTGATTTTTCAAAGAGT
195 AAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAGT
* * * * *
5102 ATCGGGGCCAAAAATCATTAAAAACTGAGTCGGGGCCCCAGAACGCATTTTTTCGACATAAAAAA
260 CTCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGC-GTTTTTAG-C-CAAAAAA
**
5167 TTGTGATGGTTAG
322 CCGTGATGGTTAG
* * * * *
5180 TACACGATTTTGGTTAAAATTTTGGAAAAATTGACCCGAAAATTTTTTCCACAATCTTTTGCCAA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATCTTTGGCCAA
* * * * * *
5245 AACACTAATAGAATATACATAATTCAATGCCTAAAAGATTGAAGGTTTTTTCACGCTTCTAAAAT
66 AACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATAT
* * * * *
5310 TGATTTTCCTATATGTTTCCGAATTAATTTTTGATTAATTCGAAACATGATTCTGATGCTCGTAA
131 CGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTAA
* * *
5375 AATCAAGTCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATAAATATAGATATGTGAAGGAGTC
196 AATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAGTC
* * * *** * * * *
5440 TCGAGGCCAAAAATTATTAAAAACGGAGCCGAACCCCCGGAACGCGTTTTTGGAC-AAAAACCTT
261 TCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGT
5504 GATGGTTAG
326 GATGGTTAG
* * **** * * * * * *
5513 TAAACGATTTCAGCTAAGCCCAAAAAAAAAGTAAACGATT-TCAGCTAAAATTTTGCAAAAATTG
1 TACACGATTTC-G----G--CTAAAATTTTGCAAA-AATTGAC-CCGAAAGTTTT-------TT-
* ** ** * * * * * *** ** *
5577 AACCAAAAGATTTTTTCCACAA-TCTT-TGGCCAAAACACTTATAGAATAT-ATATAACTCAATG
49 --CCACAA-TCTTTGGCCAAAACACTTATAG--AAT--A--TATATAAT-TCA-ACGCCAAAAAG
** ** * ** * * * *
5639 A-CAAAAAG-ATTGAAGGATTTTCACGCGTCTAATATCGATTTTCCTATATGTTTCCGAATTAAT
103 ATTGAAGGGTTTTTCACG--CTT-------CTAATATCGATTTTCCTATATCTTTTCGAATTAAT
* * *
5702 TTCTAATTAAATCGAAACATGATTCTGATGCTCGTAAAATGAAATCCTTAAATCCAATTTGGCTG
159 TTCTGATTAAATCGAAACATGATTCTGATGCTCGTAAAATCAAATCCTTAAATCCAACTTGGCTG
* *
5767 AGATTTGGTTAGATGAATATAGATTTGTCAAGGAGTCTCGGGGCCAAAAATCATTGAAAACTGAG
224 AGATTTGGTTAGATGAATATAGATATGTCAAGGAGTCTCGGGGCCAAAAATCATTAAAAACTGAG
* * * * *
5832 CTGGGACCCCGGAACGCGTTTTTAGCC-AACAACCGTGTTGGTTAG
289 CCGGGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGTGATGGTTAG
* * * * * * * *
5877 TACACGATTTCTGTTAAAATTTTGCAAAATTTGACCCAAAAGATTTTTTTCTCAATTTTTGGACA
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAG-TTTTTTCCACAATCTTTGGCCA
* ** ** * * * * * * * * *
5942 CAATTCTCGTAAAAGAATATATAATTCAATGCCGAAATGAGTGAAGGGCTTTTCACGCTTCTTAG
65 AAACACTTATAGAA-TATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAAT
* * * * * *
6007 ATCGATTTTCCCAT-T-TTTTCTGAATTAATCTCTAATGAAATCGAAA-ATGGTTTCTGATGCTT
129 ATCGATTTTCCTATATCTTTTC-GAATTAATTTCTGATTAAATCGAAACAT-GATTCTGATGCTC
* * * ** * ** * * **
6069 GTAAAAACAAGTCCTTAAAACCAAGGTGGTTGAGATTTCATTAGATGAATGTAGATATTTCAATA
192 GTAAAATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGG
* * *** * * * *
6134 AGTCTTGGGGCAAAAAATCACGCAAAACTGAGTCGGGGCCTCGGAACACGTTTTTAG-CAAAAAA
257 AGTCTCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCCAAAAAA
*
6198 CCGTGA---TAACG
322 CCGTGATGGTTA-G
* * * *
6209 TACACGATTTCAGCTAAAATTTTGCAAAAATTGACCCGGAAGATTTCTTT-CACAATTTTTTGCC
1 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAG-TTT-TTTCCACAATCTTTGGCC
6273 A
64 A
6274 CAATACTCGT
Statistics
Matches: 3864, Mismatches: 488, Indels: 201
0.85 0.11 0.04
Matches are distributed among these distances:
330 1 0.00
331 235 0.06
332 127 0.03
333 96 0.02
334 564 0.15
335 851 0.22
336 533 0.14
337 575 0.15
338 417 0.11
339 121 0.03
340 13 0.00
341 12 0.00
342 19 0.00
343 11 0.00
344 4 0.00
345 1 0.00
346 11 0.00
347 7 0.00
348 3 0.00
350 4 0.00
351 7 0.00
352 11 0.00
354 1 0.00
355 4 0.00
356 15 0.00
357 24 0.01
359 1 0.00
364 196 0.05
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (334 bp):
TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGTTTTTTCCACAATCTTTGGCCAA
AACACTTATAGAATATATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATAT
CGATTTTCCTATATCTTTTCGAATTAATTTCTGATTAAATCGAAACATGATTCTGATGCTCGTAA
AATCAAATCCTTAAATCCAACTTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAAGGAGTC
TCGGGGCCAAAAATCATTAAAAACTGAGCCGGGGCCCCAGAACGCGTTTTTAGCCAAAAAACCGT
GATGGTTAG
Found at i:6361 original size:84 final size:84
Alignment explanation
Indices: 6212--6367 Score: 199
Period size: 84 Copynumber: 1.9 Consensus size: 84
6202 GATAACGTAC
* ** * *
6212 ACGATTTCAGCTAAAATTTTGCAAAAATTGACCCGGAAGATTTCTTTCACAATTTTTTGCCACAA
1 ACGATTTCAGCTAAAATTTTCCAAAAATTGACCCAAAAGATTTCTTTCACAATTTTTGGACACAA
6277 TACTCGTGCTGGTTAGTAA
66 TACTCGTGCTGGTTAGTAA
* ** *
6296 ACGATTTCTGCTAATTTTTTCCAAAAATTGACCCAAAAGATTT-TTTC-CTTAATTTTTGGATAC
1 ACGATTTCAGCTAAAATTTTCCAAAAATTGACCCAAAAGATTTCTTTCAC--AATTTTTGGACAC
6359 AATACTCGT
64 AATACTCGT
6368 AAAAAATATA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
82 1 0.02
83 4 0.07
84 56 0.92
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (84 bp):
ACGATTTCAGCTAAAATTTTCCAAAAATTGACCCAAAAGATTTCTTTCACAATTTTTGGACACAA
TACTCGTGCTGGTTAGTAA
Found at i:6628 original size:81 final size:81
Alignment explanation
Indices: 6537--6701 Score: 294
Period size: 81 Copynumber: 2.0 Consensus size: 81
6527 GATGAATATA
*
6537 AATATCTTAAAAAATCTCGACGCAAAAAATCAAACAAAATTAATCCAACGACTCATGAATTATGA
1 AATATCTTAAAAAATCTCGACGCAAAAAAACAAACAAAATTAATCCAACGACTCATGAATTATGA
6602 AAGGAAGAGTTTACAT
66 AAGGAAGAGTTTACAT
* * *
6618 AATATTTTAAAAAGTCTCGACGCAAAAAAACACACAAAATTAATCCAACGACTCATGAATTATGA
1 AATATCTTAAAAAATCTCGACGCAAAAAAACAAACAAAATTAATCCAACGACTCATGAATTATGA
6683 AAGGAAGAGTTTACAT
66 AAGGAAGAGTTTACAT
6699 AAT
1 AAT
6702 CCATTGGCAA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.24
Consensus pattern (81 bp):
AATATCTTAAAAAATCTCGACGCAAAAAAACAAACAAAATTAATCCAACGACTCATGAATTATGA
AAGGAAGAGTTTACAT
Found at i:42017 original size:38 final size:38
Alignment explanation
Indices: 41960--42035 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
41950 TCTTTTCTTT
* * *
41960 ATTTTTCCGGATTAGTCAGGCGGAAGCCCTGGATACCG
1 ATTTTTCCGAATTAATCAGGCGGAAGCCCTGCATACCG
41998 ATTTTTCCGAATTAATCAGGCGGAAGCCCTGCATACCG
1 ATTTTTCCGAATTAATCAGGCGGAAGCCCTGCATACCG
42036 GATGGGATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (38 bp):
ATTTTTCCGAATTAATCAGGCGGAAGCCCTGCATACCG
Found at i:58767 original size:63 final size:63
Alignment explanation
Indices: 58695--58827 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 63
58685 CATTTCCTGG
* * * * *
58695 AGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA-TTTCTCAATGCTTGCATGTTTTTCGAGC
1 AGAGCAGTGAACTCAAGTCCTCTATCCGCCAA-CATTTTCTCAATGCTTCCATGTTTTTCGAGC
* ** *
58758 AGAGCAGTGAACTCAAGTCCTCTATCTGCCAACATTTTCTCTGTGCTTCCATGTTTTTCGTGC
1 AGAGCAGTGAACTCAAGTCCTCTATCCGCCAACATTTTCTCAATGCTTCCATGTTTTTCGAGC
58821 AGAGCAG
1 AGAGCAG
58828 CTAGTCTTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
62 1 0.02
63 59 0.98
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (63 bp):
AGAGCAGTGAACTCAAGTCCTCTATCCGCCAACATTTTCTCAATGCTTCCATGTTTTTCGAGC
Found at i:59095 original size:63 final size:63
Alignment explanation
Indices: 58992--59126 Score: 180
Period size: 63 Copynumber: 2.1 Consensus size: 63
58982 TATTTCCTGG
* * * **
58992 AGAGCAGTGAACTCGAGTGCTTTTTCCGCCAATGACTTCTCAATGCTTGCATGTTTTTCGAGC
1 AGAGCAGTGAACTCAAGTCCTCTTTCCGCCAACAACTTCTCAATGCTTGCATGTTTTTCGAGC
* * ** *
59055 AGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACAATTTCTCTGTGCTTGCATGTTTTTCGTGC
1 AGAGCAGTGAACTCAAGTCCTCTTTCCGCCAACAACTTCTCAATGCTTGCATGTTTTTCGAGC
59118 AGAGCAGTG
1 AGAGCAGTG
59127 TGTCTTTCTG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (63 bp):
AGAGCAGTGAACTCAAGTCCTCTTTCCGCCAACAACTTCTCAATGCTTGCATGTTTTTCGAGC
Found at i:59334 original size:296 final size:297
Alignment explanation
Indices: 58535--59719 Score: 1960
Period size: 297 Copynumber: 4.0 Consensus size: 297
58525 TTTCTGTCCA
*
58535 TCTTTCTGATGATTCTTGTCTCTCTTTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
1 TCTTTCTGATGATTCTTGTCTCTCTCTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
* *
58600 AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGCGCTGTTAACTTGGATGAAGTT
66 AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGTGCTGTTAACTTGGAAGAAGTT
*
58665 TCATTCTCTGTGTTTGAATGCATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
131 TCATTCTCTGTGTTTGAATGTATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
* *
58730 TTTCTCAATGCTTGCATGTTTTTCGAGCAGAGCAGTGAACTCAAGTCCTCTATCTGCCAACATTT
196 TTTCTCAATGCTTGCATGTTTTTCCAGCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACATTT
* *
58795 TCTCTGTGCTTCCATGTTTTTCGTGCAGAGCAGCT-AG
261 TCTCTGTGCTTGCATGTTTTTCGTGCAGAGCAG-TGTG
*
58832 TCTTTCTGATGATTCTTGTCTCTCTCTGTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
1 TCTTTCTGATGATTCTTGTCTCTCTCTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
* * * * *
58897 AACAGTCCAACTCCTGCTGCAAATTATTGACTTGCTCGACTAGAGCTGTTAACTTGGAAGAAGTT
66 AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGTGCTGTTAACTTGGAAGAAGTT
* *
58962 TCATTCTGTGTGTTTGAATGTATTTCCTGGAGAGCAGTGAACTCGAGTGCTTTTTCCGCCAATGA
131 TCATTCTCTGTGTTTGAATGTATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
* * *
59027 CTTCTCAATGCTTGCATGTTTTTCGAGCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACAATT
196 TTTCTCAATGCTTGCATGTTTTTCCAGCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACATTT
59092 TCTCTGTGCTTGCATGTTTTTCGTGCAGAGCAGTGTG
261 TCTCTGTGCTTGCATGTTTTTCGTGCAGAGCAGTGTG
*
59129 TCTTTCTGATGATTCTTGTCTTTCTCTCTCAAGCTGCAATTCCAGTTC-TTTTTCTGAGTCTGTA
1 TCTTTCTGATGATTCTTGTCTCTCTCTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
*
59193 AAGAATCCAATTCCTGCTGCAAACTATTGACCTGCTCGACTAGTGCTGTTAACTTGGAAGAAGTT
66 AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGTGCTGTTAACTTGGAAGAAGTT
* * *
59258 TCATTCTGTGTGTTTAAATGTATTTCCTGGAGAGCAGTGAACTCGAGTGCTTTTTCCGCCAATGA
131 TCATTCTCTGTGTTTGAATGTATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
* * *
59323 TTTTTCAATGCTTGCATGTCTTTCCTGCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACATTT
196 TTTCTCAATGCTTGCATGTTTTTCCAGCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACATTT
*
59388 TCTCTGTGCTCGCATGTTTTTCGTGCAGAGCAGTGTG
261 TCTCTGTGCTTGCATGTTTTTCGTGCAGAGCAGTGTG
* * *
59425 TCTTTCTGATGATTCTTGTCTTTCTCTCTCAAGCTGCAATTCCAGTTCCTGTTTCTGAGTCTGTA
1 TCTTTCTGATGATTCTTGTCTCTCTCTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
* *
59490 AAGAATCCAACTCCTGCTGCAAATTATTGACCTGCTCGACTAGTGCTGTTAATTTGGAAGAAGTT
66 AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGTGCTGTTAACTTGGAAGAAGTT
* * * * * *
59555 TCATTCTCTGTGTTTGAATGTTTTTCCTGGAGAGCAATCAACTCAAGTTCTTTTTCTGTCAATGA
131 TCATTCTCTGTGTTTGAATGTATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
* * *
59620 TTTCTCAATGCTTGCATGTTTCTCCAGCAGAGCAGTGATCTCAAGTGCTCTTTCTGCCAACATTT
196 TTTCTCAATGCTTGCATGTTTTTCCAGCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACATTT
*
59685 TCTCTGTGCTTGCATGTTTTTCGAGCAGAGCAGTG
261 TCTCTGTGCTTGCATGTTTTTCGTGCAGAGCAGTG
59720 ATTTCAAGCT
Statistics
Matches: 833, Mismatches: 53, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
296 283 0.34
297 550 0.66
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (297 bp):
TCTTTCTGATGATTCTTGTCTCTCTCTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGTGCTGTTAACTTGGAAGAAGTT
TCATTCTCTGTGTTTGAATGTATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
TTTCTCAATGCTTGCATGTTTTTCCAGCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACATTT
TCTCTGTGCTTGCATGTTTTTCGTGCAGAGCAGTGTG
Found at i:59382 original size:63 final size:63
Alignment explanation
Indices: 59275--59422 Score: 172
Period size: 63 Copynumber: 2.3 Consensus size: 63
59265 GTGTGTTTAA
* * * * * *
59275 ATGTATTTCCTGGAGAGCAGTGAACTCGAGTGCTTTTTCCGCCAATGATTTT-TCAATGCTTGC
1 ATGTATTTCCTGCAGAGCAGTGAACTCAAGTCCTCTTTCCGCCAA-CATTTTCTCAATGCTCGC
* * **
59338 ATGTCTTTCCTGCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACATTTTCTCTGTGCTCGC
1 ATGTATTTCCTGCAGAGCAGTGAACTCAAGTCCTCTTTCCGCCAACATTTTCTCAATGCTCGC
* *
59401 ATGTTTTTCGTGCAGAGCAGTG
1 ATGTATTTCCTGCAGAGCAGTG
59423 TGTCTTTCTG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 5 0.07
63 67 0.93
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (63 bp):
ATGTATTTCCTGCAGAGCAGTGAACTCAAGTCCTCTTTCCGCCAACATTTTCTCAATGCTCGC
Found at i:59663 original size:63 final size:63
Alignment explanation
Indices: 59596--59741 Score: 186
Period size: 63 Copynumber: 2.3 Consensus size: 63
59586 GAGCAATCAA
* * *
59596 CTCAAGTTCTTTTTCTGTCAATGA-TTTCTCAATGCTTGCATGTTTCTCCAGCAGAGCAGTGAT
1 CTCAAGTTCTCTTTCTGCCAA-CATTTTCTCAATGCTTGCATGTTTCTCCAGCAGAGCAGTGAT
* ** * *
59659 CTCAAGTGCTCTTTCTGCCAACATTTTCTCTGTGCTTGCATGTTTTTCGAGCAGAGCAGTGAT
1 CTCAAGTTCTCTTTCTGCCAACATTTTCTCAATGCTTGCATGTTTCTCCAGCAGAGCAGTGAT
* *
59722 TTCAAGCTCTCTTTCTGCCA
1 CTCAAGTTCTCTTTCTGCCA
59742 GTGTCTTCTC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
62 1 0.01
63 70 0.99
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (63 bp):
CTCAAGTTCTCTTTCTGCCAACATTTTCTCAATGCTTGCATGTTTCTCCAGCAGAGCAGTGAT
Found at i:59715 original size:593 final size:594
Alignment explanation
Indices: 58535--59719 Score: 1980
Period size: 593 Copynumber: 2.0 Consensus size: 594
58525 TTTCTGTCCA
*
58535 TCTTTCTGATGATTCTTGTCTCTCTTTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
1 TCTTTCTGATGATTCTTGTCTCTCTCTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
*
58600 AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGCGCTGTTAACTTGGATGAAGTT
66 AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGCGCTGTTAACTTGGAAGAAGTT
*
58665 TCATTCTCTGTGTTTGAATGCATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
131 TCATTCTCTGTGTTTAAATGCATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
* *
58730 TTTCTCAATGCTTGCATGTTTTTCGAGCAGAGCAGTGAACTCAAGTCCTCTATCTGCCAACATTT
196 TTTCTCAATGCTTGCATGTCTTTCCAGCAGAGCAGTGAACTCAAGTCCTCTATCTGCCAACATTT
*
58795 TCTCTGTGCTTCCATGTTTTTCGTGCAGAGCAGCTAGTCTTTCTGATGATTCTTGTCTCTCTCTG
261 TCTCTGTGCTTCCATGTTTTTCGTGCAGAGCAGCTAGTCTTTCTGATGATTCTTGTCTCTCTCTC
* * *
58860 TCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTAAACAGTCCAACTCCTGCTGCAAATTATT
326 TCAAGCTGCAATTCCAGTTCCTGTTTCTGAGTCTGTAAACAATCCAACTCCTGCTGCAAATTATT
* *
58925 GACTTGCTCGACTAGAGCTGTTAACTTGGAAGAAGTTTCATTCTGTGTGTTTGAATGTATTTCCT
391 GACCTGCTCGACTAGAGCTGTTAACTTGGAAGAAGTTTCATTCTCTGTGTTTGAATGTATTTCCT
* * * * *
58990 GGAGAGCAGTGAACTCGAGTGCTTTTTCCGCCAATGACTTCTCAATGCTTGCATGTTTTTCGAGC
456 GGAGAGCAATCAACTCAAGTGCTTTTTCCGCCAATGACTTCTCAATGCTTGCATGTTTCTCCAGC
*
59055 AGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACAATTTCTCTGTGCTTGCATGTTTTTCGTGCAG
521 AGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACAATTTCTCTGTGCTTGCATGTTTTTCGAGCAG
59120 AGCAGTGTG
586 AGCAGTGTG
*
59129 TCTTTCTGATGATTCTTGTCTTTCTCTCTCAAGCTGCAATTCCAGTTC-TTTTTCTGAGTCTGTA
1 TCTTTCTGATGATTCTTGTCTCTCTCTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
* *
59193 AAGAATCCAATTCCTGCTGCAAACTATTGACCTGCTCGACTAGTGCTGTTAACTTGGAAGAAGTT
66 AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGCGCTGTTAACTTGGAAGAAGTT
* * *
59258 TCATTCTGTGTGTTTAAATGTATTTCCTGGAGAGCAGTGAACTCGAGTGCTTTTTCCGCCAATGA
131 TCATTCTCTGTGTTTAAATGCATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
* * *
59323 TTTTTCAATGCTTGCATGTCTTTCCTGCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACATTT
196 TTTCTCAATGCTTGCATGTCTTTCCAGCAGAGCAGTGAACTCAAGTCCTCTATCTGCCAACATTT
* *
59388 TCTCTGTGC-TCGCATGTTTTTCGTGCAGAGCAG-TGTGTCTTTCTGATGATTCTTGTCTTTCTC
261 TCTCTGTGCTTC-CATGTTTTTCGTGCAGAGCAGCT-AGTCTTTCTGATGATTCTTGTCTCTCTC
*
59451 TCTCAAGCTGCAATTCCAGTTCCTGTTTCTGAGTCTGTAAAGAATCCAACTCCTGCTGCAAATTA
324 TCTCAAGCTGCAATTCCAGTTCCTGTTTCTGAGTCTGTAAACAATCCAACTCCTGCTGCAAATTA
* * *
59516 TTGACCTGCTCGACTAGTGCTGTTAATTTGGAAGAAGTTTCATTCTCTGTGTTTGAATGTTTTTC
389 TTGACCTGCTCGACTAGAGCTGTTAACTTGGAAGAAGTTTCATTCTCTGTGTTTGAATGTATTTC
* * * *
59581 CTGGAGAGCAATCAACTCAAGTTCTTTTTCTGTCAATGATTTCTCAATGCTTGCATGTTTCTCCA
454 CTGGAGAGCAATCAACTCAAGTGCTTTTTCCGCCAATGACTTCTCAATGCTTGCATGTTTCTCCA
* * *
59646 GCAGAGCAGTGATCTCAAGTGCTCTTTCTGCCAACATTTTCTCTGTGCTTGCATGTTTTTCGAGC
519 GCAGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACAATTTCTCTGTGCTTGCATGTTTTTCGAGC
59711 AGAGCAGTG
584 AGAGCAGTG
59720 ATTTCAAGCT
Statistics
Matches: 550, Mismatches: 39, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
592 3 0.01
593 501 0.91
594 46 0.08
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (594 bp):
TCTTTCTGATGATTCTTGTCTCTCTCTCTCAAGCTGCAATTCCAGTTCTTTTTTCTGAGTCTGTA
AAGAATCCAACTCCTGCTGCAAACTATTGACCTGCTCGACTAGCGCTGTTAACTTGGAAGAAGTT
TCATTCTCTGTGTTTAAATGCATTTCCTGGAGAGCAGTGAACTCAAGTGCTTTTTCCGCCAATGA
TTTCTCAATGCTTGCATGTCTTTCCAGCAGAGCAGTGAACTCAAGTCCTCTATCTGCCAACATTT
TCTCTGTGCTTCCATGTTTTTCGTGCAGAGCAGCTAGTCTTTCTGATGATTCTTGTCTCTCTCTC
TCAAGCTGCAATTCCAGTTCCTGTTTCTGAGTCTGTAAACAATCCAACTCCTGCTGCAAATTATT
GACCTGCTCGACTAGAGCTGTTAACTTGGAAGAAGTTTCATTCTCTGTGTTTGAATGTATTTCCT
GGAGAGCAATCAACTCAAGTGCTTTTTCCGCCAATGACTTCTCAATGCTTGCATGTTTCTCCAGC
AGAGCAGTGAACTCAAGTCCTCTTTCTGCCAACAATTTCTCTGTGCTTGCATGTTTTTCGAGCAG
AGCAGTGTG
Found at i:62672 original size:13 final size:13
Alignment explanation
Indices: 62654--62681 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62644 GAATCCATGT
62654 AACTACACCTAGA
1 AACTACACCTAGA
62667 AACTACACCTAGA
1 AACTACACCTAGA
62680 AA
1 AA
62682 GGAAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (13 bp):
AACTACACCTAGA
Found at i:65307 original size:288 final size:288
Alignment explanation
Indices: 64788--65320 Score: 782
Period size: 288 Copynumber: 1.9 Consensus size: 288
64778 GCGGTGATAG
* *
64788 TCAATCAGGAGGCAGAGTTGCCTTATGGCTTCCCTCTTCTCTTCATGAAGACTCAATAATGTCTC
1 TCAATCAGGAGGCAGAGCTGCCTTATGGCTTCCCTCTTCTCTTCATGAAGACTCAACAATGTCTC
*
64853 ATCTTTTTCTGTCTTAATCATCTCCAATTCTCCCACTCTTTTCTCAACCTCATTCACTAGTTCAA
66 ATCTTTTTCTGTCATAATCATCTCCAATTCTCCCACTCTTTTCTCAACCTCATTCACTAGTTCAA
* * * *
64918 TAAGTCTAAGTTTTTCCTCTCCTTCCTCACTGAGCTTAGATTTCGAATCCGAGACCTTCTTGCTT
131 TAAGTCTAAGCTTTTCCTCTCCTTCCTCACTGAGCTTACATTTCCAATCCGAAACCTTCTTGCTT
** ** *
64983 AACAATTTCTCGTTTTGTTTATCCAATTTGGCTACTACTAAACCCACATTGCCATTCAGCTGTTT
196 AACAATGCCTCGTTTTGTTTATCCAATTCAGCTACTACGAAACCCACATTGCCATTCAGCTGTTT
65048 TATATCGCCTTCCGGTGCTGTCTTGCAA
261 TATATCGCCTTCCGGTGCTGTCTTGCAA
* *
65076 TCAATCAGGAGGCAGAGCTGCCTTATGGCTTCCCTCTTCTCTTCTTGAAGACTGAACAATGTCTC
1 TCAATCAGGAGGCAGAGCTGCCTTATGGCTTCCCTCTTCTCTTCATGAAGACTCAACAATGTCTC
* * * * * * * *
65141 ATCTTTTTCTTTCATAATCTTGTCCAGTTTTCCCATTCTTTTCTCAACTTCATTCACT-GCTTTA
66 ATCTTTTTCTGTCATAATCATCTCCAATTCTCCCACTCTTTTCTCAACCTCATTCACTAG-TTCA
* ** * *
65205 ATCAGTCTCCGCTTTTCCTCTCCTTCCTCACTGAGCTTACA-TTCCAACTCCGAAATCTTCTTGT
130 ATAAGTCTAAGCTTTTCCTCTCCTTCCTCACTGAGCTTACATTTCCAA-TCCGAAACCTTCTTGC
*
65269 TTAACAATGCCTCGTTTTGTTTATCCAATTCAGCTACTAGGAAACCCACATT
194 TTAACAATGCCTCGTTTTGTTTATCCAATTCAGCTACTACGAAACCCACATT
65321 ATTACTATTC
Statistics
Matches: 215, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
287 6 0.03
288 209 0.97
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.39
Consensus pattern (288 bp):
TCAATCAGGAGGCAGAGCTGCCTTATGGCTTCCCTCTTCTCTTCATGAAGACTCAACAATGTCTC
ATCTTTTTCTGTCATAATCATCTCCAATTCTCCCACTCTTTTCTCAACCTCATTCACTAGTTCAA
TAAGTCTAAGCTTTTCCTCTCCTTCCTCACTGAGCTTACATTTCCAATCCGAAACCTTCTTGCTT
AACAATGCCTCGTTTTGTTTATCCAATTCAGCTACTACGAAACCCACATTGCCATTCAGCTGTTT
TATATCGCCTTCCGGTGCTGTCTTGCAA
Found at i:93437 original size:21 final size:21
Alignment explanation
Indices: 93411--93463 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
93401 TGTTGGAATT
*
93411 TCTGAACACACTGACCTCATA
1 TCTGAACAAACTGACCTCATA
* *
93432 TCTGAACAAACTGACTTGATA
1 TCTGAACAAACTGACCTCATA
93453 TCTGAACAAAC
1 TCTGAACAAAC
93464 CGATTTCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (21 bp):
TCTGAACAAACTGACCTCATA
Found at i:114004 original size:19 final size:19
Alignment explanation
Indices: 113982--114023 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
113972 CGGGTCCTGA
*
113982 AGGGTGACATGTGTCCTCT
1 AGGGTGACATATGTCCTCT
114001 AGGGTGACATATGTCCTCT
1 AGGGTGACATATGTCCTCT
114020 AGGG
1 AGGG
114024 ACTAGATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (19 bp):
AGGGTGACATATGTCCTCT
Done.