Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011934.1 Kokia drynarioides strain JFW-HI SEQ_126932, 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: 193694
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 36 characters in sequence are not A, C, G, or T
Found at i:2939 original size:216 final size:212
Alignment explanation
Indices: 1605--6805 Score: 5243
Period size: 208 Copynumber: 24.6 Consensus size: 212
1595 ACTCGTATCA
* * **
1605 TTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTT-GAAGCTATTTTTCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCG-AGCAATTTCCCGAACAT
* * * *
1669 TCCATGCTCGAGAAATTGCATCATTTGGTCCAAATAGTTTGCCATTTTGTAAACAACTCTTGGTC
65 TCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* ** ** * * * * * * *
1734 CTCAAATTAAATCCTTATTAACATGATAATTGTATTTCTCCTCGTTCTTGGACGAACTTCCAAAC
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACG-A--T-CGAAC
* *
1799 TTTTCAAATTTTTACGAGTTCTT
191 TTGTCAAACTTTTACGAGTTC-T
* * * * * *
1822 TTTATAACTTCTGTTCCTTATAGCATTTAAGACGATCCATTCCTTCAAG-ACATTTCTCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* * *
1886 TCTATGCAT-GGGAAATCGTATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTTGT
65 TCCATGC-TCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * **
1950 CTTTGAGTTAAAAACTTATTTATGTGAAAATTGTATCTTTAATGGTTCTTGGAC-A---AACTTG
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGATCGAACTTG
* * *
2011 TCAAACTTTAATGACTTCT
194 TCAAACTTTTACGAGTTCT
* * * * * * * *
2030 TTTATAACTTCTGTTGCTTAAAGTATTCAACACGATCCTTTCCTTCG-GGACATTTCTCAAAAAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
** * * * * *
2094 TCGTTGCACAGAAAATCGCTTCATTTTGGTCCAACTAGTTTGTCATTTTGTAAACAACTTTTGGT
65 TCCATGCTCGGGAAATCGCATCA-TTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * *
2159 CTTTGAATTAAAAACTTTTTTACGTGAGAATTGTATTTTTCATGGTTCTT-G--GA-CGAACTTG
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGATCGAACTTG
* *
2220 TCAAACTTTTACAAGTACT
194 TCAAACTTTTACGAGTTCT
** * * **
2239 TTTATAACTTTTGTTCCTTAAAGTATTCAACACGATCCTTTCCTTCGAG-ACATTTCTAGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* * * * *
2303 TCCATGCAT-AGAAAATCACTTCATTTGGTCCAAATAGTTTGTTATTTTGTAAACAACTTTTGGT
65 TCCATGC-TCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
** * * ** *
2367 CAATGAATTAAAAACTTATTTTCGTGAGAATTGTATCTCTCCTCATTCTTGGACGAACATTCAAA
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACG---A-TCGAA
*
2432 CTCGTCAAACTTTTACGAGTTCT
190 CTTGTCAAACTTTTACGAGTTCT
* * * * * *
2455 TTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCATTCCATCGAGCTATTTACTGAGCATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACATT
* * * * * *
2520 -GATGCTCGAGAAATCGCATCATTTGGACCAAATAGTTTGTCATTTT-TAACCAGCTTTTGGTCG
66 CCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* *
2583 TTGAATT-AAAACTAATTTACATGAGAATTGTATCTCTCCTT-GTTCTT-G--GAT-GAACTTGT
131 TTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCT-CTTGGTTCTTGGACGATCGAACTTGT
* *
2642 CAAACTTTTATGACTTCT
195 CAAACTTTTACGAGTTCT
* * * * * * * * **
2660 TTTATAATTTCGCTTTCTTAAAGTATTCATGACGATTCATTGCTTCAAGCTATTTTTCGAACATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACATT
*
2725 CCATGCTCGGGAAATCACATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
66 CCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* ** * * *
2790 TCGAATTAAATCCTTATTTGCGTGAGAATTGTATCTCTCTTCGTTCTTGGACAGACTTCCAAACT
131 TTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGAC-GA--T-CGAACT
*
2855 TGTCAAATTTTTACGAGTTCT
192 TGTCAAACTTTTACGAGTTCT
* **
2876 TTTATAACCTCGGTTCCTTAAAGTATTCAAGACGATCGTTTCCTTCGAGCAATTTCCCGAACATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACATT
** ** *
2941 CCATGCTCTTGAAATCATATTATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTTGGTC
66 CCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAAC-TTTTGGTC
* * * *
3006 TTTGAGTTAAAAAGTTATTTATGTGAGAATTGTATCTCTCATGGTT-TTCGGACG-T---ACTTG
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTT-GGACGATCGAACTTG
*
3066 TCAAACTTTTACGAGTTCA
194 TCAAACTTTTACGAGTTCT
* * * * * * *
3085 TTTATAACTTTGGTTCCTTCAAGCATTCAATACAATCCTTTCCTTCGAG-ACATTTCCCAAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* * * *
3149 TCTATGCACGGGAAATCGCTTCATTTGGTCCAAATAGTTTGTCATTTTGTAAATAACTTTTGGTC
65 TCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* * * * *
3214 ATTGAATTAAAAACTTATTTACATGAGAACTGTATCTCTCTTGGTTCTTGAACGAACTTTGGAAC
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACG-A---TCGAAC
3279 TTGTCAAACTTTTACGAGTTCT
191 TTGTCAAACTTTTACGAGTTCT
** * * **
3301 TTTATAACTTCAATTCCTTAAAGTATTCAACACGATCCATTCCTT-GAAGCTATTTTTCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCG-AGCAATTTCCCGAACAT
* *
3365 TCCATGCTCGAGTAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
65 TCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* ** *
3430 TTCGAATTAAATCCTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGAACTTCCAAAC
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACG-A--T-CGAAC
* *
3495 TTTTCAAATTTTTACGAGTTCT
191 TTGTCAAACTTTTACGAGTTCT
* * * * * * **
3517 TTTATAACTTTGATTCCTTATAGTATTCATGATGATTCATTCCTTCGAG-ACATTTCTTGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
*
3581 TCCATGCAT-GAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
65 TCCATGC-TCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * *
3645 CATTAAATTAAAAACTT-TATTACGTGAGAATTGTATTTGTCATGGTTCTT-G--GAT-GAACTT
129 CTTTGAATTAAAAACTTAT-TTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGATCGAACTT
*
3705 GTCAAACTTTTATGAGTTCT
193 GTCAAACTTTTACGAGTTCT
** * * *
3725 TTTATAACTTATGTTCCTTAAAGTATTCAACACGATCCTTTGCTTCGAG-ACATTTCCCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* *
3789 TCCATGCAT-GGGAAATCGCATCATTTGGTCCAAATAGTTTGTTATTTTGTAAACAACTTTTTGT
65 TCCATGC-TCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * **
3853 CTTTGAATTAAAAACATATTTACGTGAAAATTGTATCTCTAATGGTTCTT-G--GA-CGAACTTG
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGATCGAACTTG
3914 TCAAACTTTTACGAGTTCT
194 TCAAACTTTTACGAGTTCT
** * * * *
3933 TTTATAACTTCTATTTCTTAAAGTATTCAACACTATCCTTTCCTTCGAG-ACATTTCCCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* * * * *
3997 TCCATGGAT-AGAAAATCGCTTCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAAATTTTGGT
65 TCCAT-GCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * *
4061 CTTTCAATTAAAAACTTATTTACGTGAGAATTGTATCTGTCATGGTTCAT-G--GA-CGAACATG
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGATCGAACTTG
*
4122 TCAAACTTTTACGACTTCT
194 TCAAACTTTTACGAGTTCT
* * * * *
4141 TTTATAACTTCTGTTCCGTAAAGTATTCAACACGATCCTTTCCTTTGAG-ACATTTCCCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* * * * * * * *
4205 TCTATGCACAGAAAATCGCTTCATTTGTTCCAAATAGTTTGTCATTTTATAAACAAATTTTGGTC
65 TCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
** * * * * *
4270 ACTGAATTAAAAACTT-TTTTCCTTAGAATTGTATCTCTCCTCGTTCTTGGACGAACATTCGAAC
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACG---A-TCGAAC
**
4334 CAGTCAAACTTTTACGAGTTCT
191 TTGTCAAACTTTTACGAGTTCT
* * * * * *
4356 TTTATAACTTCGATTCCTTAAAGTATTCAAGACAATCCATTCCATCGAGCTATTTACCGAGCATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACATT
* * * * *
4421 CCATGCTCGAGAAATCGCATCATTTGGACCAAATAGTTTGTCA-TTT-TAACCAGCTTTTGGTCG
66 CCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * *
4484 TTGAATTAAAAACTAATTTACATGAGAATTGTATCTCTCCTT-GTTCTT---TGAT-GAACTTGT
131 TTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCT-CTTGGTTCTTGGACGATCGAACTTGT
*
4544 CAAACTTTTACGACTTCTT
195 CAAACTTTTACGAGTTC-T
* * * * * ***
4563 TTTATAATTTC-GTTCCCTTAAAGTATTCACGACGATTCATTCCTTTGA-CTTATTTTTTGAACA
1 TTTATAACTTCGGTT-CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC-AATTTCCCGAACA
* *
4626 TTCCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTCGTAAACAACTTTTGGT
64 TTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* ** * * *
4691 CTTCGAATTAAATCCTTATTTGCGTGAGAATTGTATCTCTCTTCGTTCTTGGACGAACTTCCAAA
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACG-A--T-CGAA
* * *
4756 CTTTTCAAATTTTTACTAGTT-T
190 CTTGTCAAACTTTTACGAGTTCT
* * ** * * *
4778 TTTCACAACTCCGGTTCCTTAAAGTATTCAAGACGATCGTTTCGTTTGAGTAATTTCCCGAACAT
1 TTT-ATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACAT
* * * * **
4843 TCCATGCTCTGGAAATTGTATTATTTGGTCTGAATAGTTTGTCATTTTGTAAACAACTTTTTGGT
65 TCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAAC-TTTTGGT
* * * * *
4908 CTTTGAGTTAAGAACTTATTAACGTGAGAATTGTATCACTCATGGTTCTTGGAC-AT---ACTTG
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGATCGAACTTG
*
4969 TCAAACTTTTACGAGTTCA
194 TCAAACTTTTACGAGTTCT
* * * * *
4988 TTTATAACTTCGGTTCCTTCAAGTATTCAACATGATCCTTTCCTTCGAG-ACATTTCCCAAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* * * *
5052 TCCATGCAT-GGGAAATCACTTCATTTGGTCCAAATAGTTTATCATTTTGTAAACAACTTTTGTT
65 TCCATGC-TCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * * *
5116 CATTGAATTAAAAACTTATTTACATGAGAATTGTATCTATCCTAGTTCTTGGACAACTTTCGAAC
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGA---TCGAAC
* *
5181 TTGTAAAACTTTTATGAGTTCT
191 TTGTCAAACTTTTACGAGTTCT
* * * *
5203 TTTATAACTTCGGTTCCTTAAAGTATTAAAGACGATCCATTCCTTCGAGCAATTTTCAGAGCATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACATT
* **** * * *
5268 CCAGGCTTAAAAAATCGCATCATTTGGTCCAAATAGGTTGTCA-TTTGTAACCAGCTTTTGGTCT
66 CCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * ** * * *
5332 TTGAATTAAAAAGTTATTTACATGAGAATTGTATCTCTCTTGGTTCTTAAACAAACTTTGGAACC
131 TTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGAC-GA---TCGAACT
*
5397 TGTCAAACTTTTACGAGATCT
192 TGTCAAACTTTTACGAGTTCT
* * *** *
5418 TTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCATTCGAGCAATTTTTAGAGCATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACATT
* *** * * * * *
5483 CCAGGCTTAAGAAATTGCATCATTTGATCCAAATAGGTTGTCA-TTTGTAACCAGCTTTTGGTCT
66 CCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * * * * *
5547 TTGAATTAAAAAGTTATTTACATGAGAATTGTATCTCTCTTGGTTCGTGAACAAACTTTGGAACT
131 TTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGAC-GA---TCGAACT
*
5612 TGTCAAACTTTTACGACTTCT
192 TGTCAAACTTTTACGAGTTCT
* ** * ** *
5633 TTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTAAGCTATTTTTCAAACATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACATT
* * **
5698 TCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTAACATTTTGTAAACAACTTTTGGTCT
66 CCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
*** * * * *
5763 TCT-AATTAAGTCCTTATTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGAACAAACTTCCAAAC
131 T-TGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGAC-GA--T-CGAAC
* *
5827 TTTTCAAATTTTTACGAGTTCT
191 TTGTCAAACTTTTACGAGTTCT
* * *
5849 TTTATAACTTCGGTTCCTTATAGTATTCAAGACGATCCATTCCTTCGAG-ACATTTCTCAAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* * * *
5913 TCCATGCAT-GGGAAATCGTATCACTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGC
65 TCCATGC-TCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * **
5977 CTTTGAATTAAAAACTTATTTGCGTGAAAAATCGTATCTCTAATGGTTCTTGGAC-A---AACTT
129 CTTTGAATTAAAAACTTATTTACGTG-AGAATTGTATCTCTCTTGGTTCTTGGACGATCGAACTT
*
6038 GTCAAACTTTTACAAGTTCT
193 GTCAAACTTTTACGAGTTCT
** * * *
6058 TTTATAACTTTTGTTGCTTAAAGTATTCAACACGATCCTTTCCTTCGAG-ACATTTCCCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* * * * * *
6122 TCCATGCACAGAAAATCGCTTCATTTGGTCCAAATAGTTTGTTATTTTGTAAACAACTTTTGTTC
65 TCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* * * *
6187 TTTGAATTTAAAACTTATTTACATGAGAATTGTA-CTTGTCATGGTTCTT-G--GA-CGAACTTG
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATC-TCTCTTGGTTCTTGGACGATCGAACTTG
6247 TCAAACTTTTACGAGTTCT
194 TCAAACTTTTACGAGTTCT
* * * *
6266 TTTATAACTTCTGTTCCTTAAAGTATTCAACAAGATCCTTTCCTTCGAG-ACATTTCCCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTCCCGAACAT
* * * * *
6330 TCCATGCACAGAAAATCGCTTCATTTGGTCCAAATAGTTTATCATTTTGTAAACAACTTTTGGTC
65 TCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* * * * *
6395 ATTAAATTAAAAACTTATTTTCGTGAAAATTGTATCTCTCTTCGTTCTTGGACGAACATTCGAAC
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACG---A-TCGAAC
*
6460 TCGTCAAACTTTTACGAGTTCT
191 TTGTCAAACTTTTACGAGTTCT
* * * * *
6482 TTTATAACTTCGGTTGCTTAAAGTATTCAAGACGATCCATTCCATCGAGCTATTTACCGAGCATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACATT
* * * * *
6547 CCATGCTCGAGAAATCGCATCATTTGGACCAAATAGTTTGTCATTTT-TAACCAGCTTTTGGTCA
66 CCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* *
6611 TTGAATTAAAAACTAATTTACATGAGAATTGTATCTCTCCTT-GTTCTT-G--GA-CGAACTTGT
131 TTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCT-CTTGGTTCTTGGACGATCGAACTTGT
*
6671 CAAACTTTTACGACTTCT
195 CAAACTTTTACGAGTTCT
* * * * **
6689 TTTATAATTTCGCTTCCTTAAAGTATTCATA-ACGATCCATTCCTTCAAGCTATTTTTCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCA-AGACGATCCATTCCTTCGAGCAATTTCCCGAACAT
* * *
6753 TTCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTATAAA
65 TCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAA
6806 TAAACGTTGA
Statistics
Matches: 4231, Mismatches: 629, Indels: 257
0.83 0.12 0.05
Matches are distributed among these distances:
205 74 0.02
206 69 0.02
207 272 0.06
208 1019 0.24
209 652 0.15
210 8 0.00
211 3 0.00
212 7 0.00
213 64 0.02
214 119 0.03
215 651 0.15
216 995 0.24
217 297 0.07
218 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (212 bp):
TTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTCCCGAACATT
CCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
TTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGATCGAACTTGTC
AAACTTTTACGAGTTCT
Found at i:3209 original size:425 final size:418
Alignment explanation
Indices: 1605--6805 Score: 5255
Period size: 425 Copynumber: 12.3 Consensus size: 418
1595 ACTCGTATCA
* * * *
1605 TTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTT-GAAGCTATTTTTCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCG-AGCAATTTCTCGAACAT
* * *
1669 TCCATGCTCGAGAAATTGCATCATTTGGTCCAAATAGTTTGCCATTTTGTAAACAACTCTTGGTC
65 TCCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* ** ** * * * * * *
1734 CTCAAATTAAATCCTTATTAACATGATAATTGTATTTCTCCTCGTTCTTGGACGAACTTCCAAAC
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGGACG--------AAC
* * * * *
1799 TTTTCAAATTTTTACGAGTTCTTTTTATAACTTCT-GTTCCTTATAGCATTTAAGACGATCCATT
187 TTGTCAAACTTTTACGAGTTC-TTTTATAACTT-TGGTTCCTTAAAGTATTCAAGACGATCCATT
* * * * *
1863 CCTTCAAGACATTTCTCGAACATTCTATGCATGGGAAATCGTATCATTTGGTCCAAATAGTTTGT
250 CCTTCGAGACATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGT
* * * * * * **
1928 CATTTTGTAAACAACTTTTTGTCTTTGAGTTAAAAACTTATTTATGTGAAAATTGTATCTTTAAT
315 CATTTTGTAAACAACTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTT
* * *
1993 GGTTCTTGGAC-A-AACTTGTCAAACTTTAATGACTTCT
380 GGTTCTTGGACGATAACTTGTCAAACTTTTACGAGTTCT
* * * * * *
2030 TTTATAACTTCTGTTGCTTAAAGTATTCAACACGATCCTTTCCTTCG-GGACATTTCTCAAAAAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCA-ATTTCTCGAACAT
** * * *
2094 TCGTTGCAC-AGAAAATCGCTTCATTTTGGTCCAACTAGTTTGTCATTTTGTAAACAACTTTTGG
65 TCCATGCTCGAG-AAATCGCATCA-TTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* * *
2158 TCTTTGAATTAAAAACTTTTTTACGTGAGAATTGTATTTTTCATGGTTCTTGGACGAACTTGTCA
128 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGGACGAACTTGTCA
* * * * *
2223 AACTTTTACAAGTACTTTTATAACTTTTGTTCCTTAAAGTATTCAACACGATCCTTTCCTTCGAG
193 AACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAG
** ** * * * *
2288 ACATTTCTAGAACATTCCATGCATAGAAAATCACTTCATTTGGTCCAAATAGTTTGTTATTTTGT
258 ACATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGT
* * * **
2353 AAACAACTTTTGGTCAATGAATTAAAAACTTATTTTCGTGAGAATTGTATCTCTCCTCATTCTTG
323 AAACAACTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTG
*
2418 GACGAACATTCAAACTCGTCAAACTTTTACGAGTTCT
388 GACG---A-T--AACTTGTCAAACTTTTACGAGTTCT
* * * * *
2455 TTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCATTCCATCGAGCTATTTACT-GAGCAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCAATTT-CTCGAACAT
* * * *
2519 T-GATGCTCGAGAAATCGCATCATTTGGACCAAATAGTTTGTCATTTT-TAACCAGCTTTTGGTC
65 TCCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* * * * * *
2582 GTTGAATT-AAAACTAATTTACATGAGAATTGTATCTCTCCTTGTTCTTGGATGAACTTGTCAAA
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGGACGAACTTGTCAAA
* * * * * * * *
2646 CTTTTATGACTTCTTTTATAA-TTTCGCTTTCTTAAAGTATTCATGACGATTCATTGCTTCAAG-
195 CTTTTACGAGTTCTTTTATAACTTT-GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGA
** * *
2709 CTATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCCAAATAGTTTGTCATTTTGT
259 C-ATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGT
** * *
2774 AAACAACTTTTGGTC-TTCGAATTAAATCCTTATTTGCGTGAGAATTGTATCTCTCTTCGTTCTT
323 AAACAACTTTTGGTCATT-GAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTT
*
2838 GGACAGACTTCCAAACTTGTCAAATTTTTACGAGTTCT
387 GGAC-GA--T---AACTTGTCAAACTTTTACGAGTTCT
* * ** *
2876 TTTATAACCTCGGTTCCTTAAAGTATTCAAGACGATCGTTTCCTTCGAGCAATTTCCCGAACATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCAATTTCTCGAACATT
** ** *
2941 CCATGCTCTTGAAATCATATTATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTTGGTC
66 CCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAAC-TTTTGGTC
* * * *
3006 TTTGAGTTAAAAAGTTATTTATGTGAGAATTGTATCTCTCATGGTT-TTCGGACGTACTTGTCAA
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTT-GGACGAACTTGTCAA
* * * * * *
3070 ACTTTTACGAGTTCATTTATAACTTTGGTTCCTTCAAGCATTCAATACAATCCTTTCCTTCGAGA
194 ACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGA
* * *
3135 CATTTCCCAAACATTCTATGCACGGGAAATCGCTTCATTTGGTCCAAATAGTTTGTCATTTTGTA
259 CATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTA
* * * *
3200 AATAACTTTTGGTCATTGAATTAAAAACTTATTTACATGAGAACTGTATCTCTCTTGGTTCTTGA
324 AACAACTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGG
3265 ACGAACTTTGGAACTTGTCAAACTTTTACGAGTTCT
389 ACG-A---T--AACTTGTCAAACTTTTACGAGTTCT
** * *
3301 TTTATAACTTCAATTCCTTAAAGTATTCAACACGATCCATTCCTT-GAAGCTATTTTTCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCG-AGCAATTTCTCGAACAT
*
3365 TCCATGCTCGAGTAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
65 TCCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* ** *
3430 TTCGAATTAAATCCTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGACGAACTTCCAAAC
130 TTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGGACG--------AAC
* * * * * * *
3495 TTTTCAAATTTTTACGAGTTCTTTTATAACTTTGATTCCTTATAGTATTCATGATGATTCATTCC
187 TTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCC
** * *
3560 TTCGAGACATTTCTTGAACATTCCATGCATGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
252 TTCGAGACATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * * *
3625 TTTTGTAAACAACTTTTGGTCATTAAATTAAAAACTT-TATTACGTGAGAATTGTATTTGTCATG
317 TTTTGTAAACAACTTTTGGTCATTGAATTAAAAACTTAT-TTACGTGAGAATTGTATCTCTCTTG
* *
3689 GTTCTTGGATG--AACTTGTCAAACTTTTATGAGTTCT
381 GTTCTTGGACGATAACTTGTCAAACTTTTACGAGTTCT
** * * *
3725 TTTATAACTTATGTTCCTTAAAGTATTCAACACGATCCTTTGCTTCGAG-ACATTTCCCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCA-ATTTCTCGAACAT
* * *
3789 TCCATGCAT-GGGAAATCGCATCATTTGGTCCAAATAGTTTGTTATTTTGTAAACAACTTTTTGT
65 TCCATGC-TCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * *
3853 CTTTGAATTAAAAACATATTTACGTGAAAATTGTATCTCTAATGGTTCTTGGACGAACTTGTCAA
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGGACGAACTTGTCAA
* * * * *
3918 ACTTTTACGAGTTCTTTTATAACTTCT-ATTTCTTAAAGTATTCAACACTATCCTTTCCTTCGAG
194 ACTTTTACGAGTTCTTTTATAACTT-TGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAG
* ** * *
3982 ACATTTCCCGAACATTCCATGGATAGAAAATCGCTTCATTTGGTCCAAATAGTTTGTCATTTTGT
258 ACATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGT
* * * * * *
4047 AAACAAATTTTGGTCTTTCAATTAAAAACTTATTTACGTGAGAATTGTATCTGTCATGGTTCATG
323 AAACAACTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTG
* *
4112 GACG--AACATGTCAAACTTTTACGACTTCT
388 GACGATAACTTGTCAAACTTTTACGAGTTCT
* * * * *
4141 TTTATAACTTCTGTTCCGTAAAGTATTCAACACGATCCTTTCCTTTGAG-ACATTTCCCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCA-ATTTCTCGAACAT
* * * * * *
4205 TCTATGCAC-AGAAAATCGCTTCATTTGTTCCAAATAGTTTGTCATTTTATAAACAAATTTTGGT
65 TCCATGCTCGAG-AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
** * * * * *
4269 CACTGAATTAAAAACTT-TTTTCCTTAGAATTGTATCTCTCCTCGTTCTTGGACGAACATTCGAA
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGGACGAAC-TT----
* * *
4333 CCAGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACAATCCATTC
189 ---GTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * * * * *
4398 CATCGAG-CTATTTACCGAGCATTCCATGCTCGAGAAATCGCATCATTTGGACCAAATAGTTTGT
251 CTTCGAGAC-ATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGT
* * * * *
4462 CA-TTT-TAACCAGCTTTTGGTCGTTGAATTAAAAACTAATTTACATGAGAATTGTATCTCTCCT
315 CATTTTGTAAACAACTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCT-CT
* * *
4525 T-GTTCTTTGATG--AACTTGTCAAACTTTTACGACTTCTT
379 TGGTTCTTGGACGATAACTTGTCAAACTTTTACGAGTTC-T
* * * * * *
4563 TTTATAATTTC-GTTCCCTTAAAGTATTC-ACGACGATTCATTCCTTTGA-CTTATTTTTTGAAC
1 TTTATAACTTCGGTT-CCTTAAAGTATTCAAC-ACGATCCATTCCTTCGAGC-AATTTCTCGAAC
*
4625 ATTCCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTCGTAAACAACTTTTGG
63 ATTCCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* ** * * *
4690 TCTTCGAATTAAATCCTTATTTGCGTGAGAATTGTATCTCTCTTCGTTCTTGGACGAACTTCCAA
128 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGGACG--------A
* * * * ** **
4755 ACTTTTCAAATTTTTACTAGTT-TTTTCACAACTCCGGTTCCTTAAAGTATTCAAGACGATCGTT
185 ACTTGTCAAACTTTTACGAGTTCTTTT-ATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * * * * * **
4819 TCGTTTGAGTA-ATTTCCCGAACATTCCATGCTCTGGAAATTGTATTATTTGGTCTGAATAGTTT
249 TCCTTCGAG-ACATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTT
* * * * *
4883 GTCATTTTGTAAACAACTTTTTGGTCTTTGAGTTAAGAACTTATTAACGTGAGAATTGTATCACT
313 GTCATTTTGTAAACAAC-TTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCT
* *
4948 CATGGTTCTTGGAC-AT-ACTTGTCAAACTTTTACGAGTTCA
377 CTTGGTTCTTGGACGATAACTTGTCAAACTTTTACGAGTTCT
* * * * *
4988 TTTATAACTTCGGTTCCTTCAAGTATTCAACATGATCCTTTCCTTCGAG-ACATTTCCCAAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCA-ATTTCTCGAACAT
* * * * *
5052 TCCATGCAT-GGGAAATCACTTCATTTGGTCCAAATAGTTTATCATTTTGTAAACAACTTTTGTT
65 TCCATGC-TCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * *
5116 CATTGAATTAAAAACTTATTTACATGAGAATTGTATCTATCCTAGTTCTTGGACAACTTTCGAAC
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGG---A----CGAAC
* * * *
5181 TTGTAAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGACGATCCATTCC
187 TTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * ***** *
5246 TTCGAG-CAATTTTCAGAGCATTCCAGGCTTAAAAAATCGCATCATTTGGTCCAAATAGGTTGTC
252 TTCGAGAC-ATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * * * *
5310 A-TTTGTAACCAGCTTTTGGTCTTTGAATTAAAAAGTTATTTACATGAGAATTGTATCTCTCTTG
316 ATTTTGTAAACAACTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTG
** * * *
5374 GTTCTTAAACAAACTTTGGAACCTGTCAAACTTTTACGAGATCT
381 GTTCTTGGAC-GA---T--AACTTGTCAAACTTTTACGAGTTCT
* * * * * *
5418 TTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCATTCGAGCAATTTTTAGAGCATT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCAATTTCTCGAACATT
* ** * * * * *
5483 CCAGGCTTAAGAAATTGCATCATTTGATCCAAATAGGTTGTCA-TTTGTAACCAGCTTTTGGTCT
66 CCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * * * *
5547 TTGAATTAAAAAGTTATTTACATGAGAATTGTATCTCTCTTGGTTCGTGAACAAACTTTGGAACT
131 TTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTG----GAC----GAACT
* **
5612 TGTCAAACTTTTACGACTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCT
188 TGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
** ** * * * * **
5677 TTAAG-CTATTTTTCAAACATTTCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTAACA
253 TCGAGAC-ATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* *** *
5741 TTTTGTAAACAACTTTTGGTC-TTCTAATTAAGTCCTTATTTACGTGAGAATTGTGTCTCTCTTG
317 TTTTGTAAACAACTTTTGGTCATT-GAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTG
* * * *
5805 GTTCTTGAACAAACTTCCAAACTTTTCAAATTTTTACGAGTTCT
381 GTTCTTGGAC-GA--T---AACTTGTCAAACTTTTACGAGTTCT
* * *
5849 TTTATAACTTCGGTTCCTTATAGTATTCAAGACGATCCATTCCTTCGAG-ACATTTCTCAAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCA-ATTTCTCGAACAT
* * * * *
5913 TCCATGCAT-GGGAAATCGTATCACTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGC
65 TCCATGC-TCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * *
5977 CTTTGAATTAAAAACTTATTTGCGTGAAAAATCGTATCTCTAATGGTTCTTGGACAAACTTGTCA
129 CTTTGAATTAAAAACTTATTTACGTG-AGAATTGTATCTCTCATGGTTCTTGGACGAACTTGTCA
* * * * *
6042 AACTTTTACAAGTTCTTTTATAACTTTTGTTGCTTAAAGTATTCAACACGATCCTTTCCTTCGAG
193 AACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAG
* * * *
6107 ACATTTCCCGAACATTCCATGCACAGAAAATCGCTTCATTTGGTCCAAATAGTTTGTTATTTTGT
258 ACATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGT
* * * * * *
6172 AAACAACTTTTGTTCTTTGAATTTAAAACTTATTTACATGAGAATTGTA-CTTGTCATGGTTCTT
323 AAACAACTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATC-TCTCTTGGTTCTT
6236 GGACG--AACTTGTCAAACTTTTACGAGTTCT
387 GGACGATAACTTGTCAAACTTTTACGAGTTCT
* * * *
6266 TTTATAACTTCTGTTCCTTAAAGTATTCAACAAGATCCTTTCCTTCGAG-ACATTTCCCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCA-ATTTCTCGAACAT
* * *
6330 TCCATGCAC-AGAAAATCGCTTCATTTGGTCCAAATAGTTTATCATTTTGTAAACAACTTTTGGT
65 TCCATGCTCGAG-AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * * *
6394 CATTAAATTAAAAACTTATTTTCGTGAAAATTGTATCTCTCTTCGTTCTTGGACGAACATTCGAA
129 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGGACGAAC--T----
* *
6459 CTCGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTGCTTAAAGTATTCAAGACGATCCATTC
188 -T-GTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * * * * *
6524 CATCGAG-CTATTTACCGAGCATTCCATGCTCGAGAAATCGCATCATTTGGACCAAATAGTTTGT
251 CTTCGAGAC-ATTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGT
* * * *
6588 CATTTT-TAACCAGCTTTTGGTCATTGAATTAAAAACTAATTTACATGAGAATTGTATCTCTCCT
315 CATTTTGTAAACAACTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCT-CT
*
6652 T-GTTCTTGGACG--AACTTGTCAAACTTTTACGACTTCT
379 TGGTTCTTGGACGATAACTTGTCAAACTTTTACGAGTTCT
* * * * *
6689 TTTATAATTTCGCTTCCTTAAAGTATTCATA-ACGATCCATTCCTTCAAGCTATTTTTCGAACAT
1 TTTATAACTTCGGTTCCTTAAAGTATTCA-ACACGATCCATTCCTTCGAGCAATTTCTCGAACAT
* *
6753 TTCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTATAAA
65 TCCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAA
6806 TAAACGTTGA
Statistics
Matches: 3984, Mismatches: 647, Indels: 292
0.81 0.13 0.06
Matches are distributed among these distances:
415 34 0.01
416 360 0.09
417 313 0.08
418 21 0.01
419 1 0.00
420 8 0.00
421 373 0.09
422 237 0.06
423 462 0.12
424 497 0.12
425 797 0.20
426 173 0.04
427 1 0.00
428 1 0.00
429 64 0.02
430 227 0.06
431 177 0.04
432 218 0.05
433 20 0.01
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (418 bp):
TTTATAACTTCGGTTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCAATTTCTCGAACATT
CCATGCTCGAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
TTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCATGGTTCTTGGACGAACTTGTCAAAC
TTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGACA
TTTCCCGAACATTCCATGCACGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAA
CAACTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTATCTCTCTTGGTTCTTGGAC
GATAACTTGTCAAACTTTTACGAGTTCT
Found at i:14577 original size:122 final size:123
Alignment explanation
Indices: 14405--14651 Score: 433
Period size: 122 Copynumber: 2.0 Consensus size: 123
14395 TAATGTAACA
* *
14405 GTAAAAAAACAATTTCCCCACGAAGTATGAAAACGAGTAGCAGGGGCAGTTAAGAGGTTATTTAA
1 GTAAAAAAACAATTTACCCACGAAGTATGAAAACGAGTAGCAGGGGCAGTTAAGAGGTTATTCAA
14470 GTATTTAACACAAGTTATTTTTCACTCTAGTTGGCATCCTGTGGAATTAAATGAAATG
66 GTATTTAACACAAGTTATTTTTCACTCTAGTTGGCATCCTGTGGAATTAAATGAAATG
* *
14528 GTAAAAAAACAATTTACCCGCGAAGTATG-AAACGAGTAGCAGGGGCAGTTATGAGGTTATTCAA
1 GTAAAAAAACAATTTACCCACGAAGTATGAAAACGAGTAGCAGGGGCAGTTAAGAGGTTATTCAA
* *
14592 GTATTTAACACAAGTTGTTTTTCACTCTAGTTGGCATCTTGTGGAATTAAATGAAATG
66 GTATTTAACACAAGTTATTTTTCACTCTAGTTGGCATCCTGTGGAATTAAATGAAATG
14650 GT
1 GT
14652 TGGCACTTCC
Statistics
Matches: 118, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
122 91 0.77
123 27 0.23
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (123 bp):
GTAAAAAAACAATTTACCCACGAAGTATGAAAACGAGTAGCAGGGGCAGTTAAGAGGTTATTCAA
GTATTTAACACAAGTTATTTTTCACTCTAGTTGGCATCCTGTGGAATTAAATGAAATG
Found at i:23598 original size:243 final size:243
Alignment explanation
Indices: 23170--23656 Score: 929
Period size: 243 Copynumber: 2.0 Consensus size: 243
23160 TTTGGGCCCA
* *
23170 CTCACATTAACACTTTTTTCTTAATATGTCGATTATCGGCCTTCCTAATTTTGGTCTCTTTACCC
1 CTCACATTAACACTTTTTTCTTAATATGTCGATTATCGGCCTTCCTAACTTTAGTCTCTTTACCC
*
23235 AACATTTGGAACCCTATTGCACCGCCACGATCTTCTTTATTCAGAGCAGTGTCTACTTCTTCAAT
66 AACATTTGGAACCCTATTGCACCGCCACGATCTTCTTTATTCAAAGCAGTGTCTACTTCTTCAAT
23300 CCTTCCTTCTTCAAAGCCATGTTTTCCGTCGTTATCCCCTCCTTCCATATCCATCAACACCAAAA
131 CCTTCCTTCTTCAAAGCCATGTTTTCCGTCGTTATCCCCTCCTTCCATATCCATCAACACCAAAA
23365 ATCGAGACCCAATAGGAGGACCTCCACCAGATCCACCGCTTTTGTTCT
196 ATCGAGACCCAATAGGAGGACCTCCACCAGATCCACCGCTTTTGTTCT
23413 CTCACATTAACACTTTTTTCTTAATATGTCGATTATCGGCCTTCCTAACTTTAGTCTCTTTACCC
1 CTCACATTAACACTTTTTTCTTAATATGTCGATTATCGGCCTTCCTAACTTTAGTCTCTTTACCC
23478 AACATTTGGAACCCTATTGCACCGCCACGATCTTCTTTATTCAAAGCAGTGTCTACTTCTTCAAT
66 AACATTTGGAACCCTATTGCACCGCCACGATCTTCTTTATTCAAAGCAGTGTCTACTTCTTCAAT
*
23543 CCTTCCTTCTTCAAAGCCATGTTTTCTGTCGTTATCCCCTCCTTCCATATCCATCAACACCAAAA
131 CCTTCCTTCTTCAAAGCCATGTTTTCCGTCGTTATCCCCTCCTTCCATATCCATCAACACCAAAA
*
23608 ATCGAGACCCAATAGGAGGACCTCCACCAGATCCATCGCTTTTGTTCT
196 ATCGAGACCCAATAGGAGGACCTCCACCAGATCCACCGCTTTTGTTCT
23656 C
1 C
23657 ACCAGTAACA
Statistics
Matches: 239, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 239 1.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.34
Consensus pattern (243 bp):
CTCACATTAACACTTTTTTCTTAATATGTCGATTATCGGCCTTCCTAACTTTAGTCTCTTTACCC
AACATTTGGAACCCTATTGCACCGCCACGATCTTCTTTATTCAAAGCAGTGTCTACTTCTTCAAT
CCTTCCTTCTTCAAAGCCATGTTTTCCGTCGTTATCCCCTCCTTCCATATCCATCAACACCAAAA
ATCGAGACCCAATAGGAGGACCTCCACCAGATCCACCGCTTTTGTTCT
Found at i:27003 original size:24 final size:24
Alignment explanation
Indices: 26976--27025 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
26966 CCGTCTTGTG
*
26976 GAAAATGCTAAAAACTCTTTATGC
1 GAAAAGGCTAAAAACTCTTTATGC
*
27000 GAAAAGGCTAGAAACTCTTTATGC
1 GAAAAGGCTAAAAACTCTTTATGC
27024 GA
1 GA
27026 CTAAGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (24 bp):
GAAAAGGCTAAAAACTCTTTATGC
Found at i:29076 original size:21 final size:21
Alignment explanation
Indices: 29052--29091 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
29042 TGATCAAAAT
29052 CATAAAATCAAAAATAATCAC
1 CATAAAATCAAAAATAATCAC
29073 CATAAAATCAAAAATAATC
1 CATAAAATCAAAAATAATC
29092 TCACTTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.20
Consensus pattern (21 bp):
CATAAAATCAAAAATAATCAC
Found at i:30269 original size:30 final size:32
Alignment explanation
Indices: 30235--30300 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 32
30225 ACATTATTAG
30235 AAAATAATGAAATGAA-ATAAA-TATTATAA-A
1 AAAATAATGAAAT-AATATAAATTATTATAATA
* *
30265 AAAATATTTAAATAATATAAATTATTATAATA
1 AAAATAATGAAATAATATAAATTATTATAATA
30297 AAAA
1 AAAA
30301 AGAAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.06
30 16 0.52
31 8 0.26
32 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAATAATGAAATAATATAAATTATTATAATA
Found at i:54750 original size:20 final size:20
Alignment explanation
Indices: 54709--54747 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54699 TTTCATGTCA
* *
54709 TTCTCTTCTTCTTTTTCTTC
1 TTCTCTTCCTCTTCTTCTTC
54729 TTCTCTTCCTCTTCCTTCT
1 TTCTCTTCCTCTT-CTTCT
54748 CTTTTATCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTCTTCCTCTTCTTCTTC
Found at i:56651 original size:15 final size:14
Alignment explanation
Indices: 56625--56663 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
56615 GCAAAGAAAT
*
56625 TAAAACAAAACAAG
1 TAAAATAAAACAAG
*
56639 TAAAAGTAAAACAAT
1 TAAAA-TAAAACAAG
56654 TAAAATAAAA
1 TAAAATAAAA
56664 ATTGAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (14 bp):
TAAAATAAAACAAG
Found at i:56664 original size:15 final size:14
Alignment explanation
Indices: 56622--56663 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
56612 CCTGCAAAGA
*
56622 AATTAAAACAAAAC
1 AATTAAAATAAAAC
*
56636 AAGTAAAAGTAAAAC
1 AATTAAAA-TAAAAC
56651 AATTAAAATAAAA
1 AATTAAAATAAAA
56664 ATTGAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (14 bp):
AATTAAAATAAAAC
Found at i:80701 original size:20 final size:20
Alignment explanation
Indices: 80676--80719 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
80666 AAAGAAGCTC
80676 TTACTTTGAAGATGAAACCA
1 TTACTTTGAAGATGAAACCA
80696 TTACTTTGAAGATGAAACCA
1 TTACTTTGAAGATGAAACCA
80716 TTAC
1 TTAC
80720 CAACCCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (20 bp):
TTACTTTGAAGATGAAACCA
Found at i:97230 original size:21 final size:21
Alignment explanation
Indices: 97188--97230 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
97178 TAATTTTATG
**
97188 TTTAGTTTTCTCTAGCTTTTC
1 TTTAGTTTTCTCTAGCACTTC
97209 TTTAGTTTTTCTCT-GCACTTC
1 TTTAG-TTTTCTCTAGCACTTC
97230 T
1 T
97231 CTATGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.09, C:0.21, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTAGTTTTCTCTAGCACTTC
Found at i:100373 original size:13 final size:13
Alignment explanation
Indices: 100355--100385 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
100345 ATAAATATAC
100355 ATTTCATATAACT
1 ATTTCATATAACT
*
100368 ATTTCATATATCT
1 ATTTCATATAACT
100381 ATTTC
1 ATTTC
100386 CAATTAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTCATATAACT
Found at i:100809 original size:20 final size:20
Alignment explanation
Indices: 100782--100941 Score: 92
Period size: 20 Copynumber: 8.0 Consensus size: 20
100772 TGAAGATGCG
*
100782 TAACAGAGGCAACGAAGTGC
1 TAACAGAGGCACCGAAGTGC
100802 -AGACAGAGGCACCGAAGTGC
1 TA-ACAGAGGCACCGAAGTGC
*
100822 TAATAGAGGCACCGAAGTG-
1 TAACAGAGGCACCGAAGTGC
* * *
100841 AAAGCAAAGGCACTGAAGTGC
1 TAA-CAGAGGCACCGAAGTGC
* * * * *
100862 AAATATAGGCACTGAAGTGA
1 TAACAGAGGCACCGAAGTGC
* * * *
100882 AAATAGAAGAACCGAAGTGC
1 TAACAGAGGCACCGAAGTGC
* * * *
100902 AAATAGAGGCTCTGAAGTG-
1 TAACAGAGGCACCGAAGTGC
* *
100921 TAAATAGAGGCACTGAAGTGC
1 T-AACAGAGGCACCGAAGTGC
100942 AATCTCATAC
Statistics
Matches: 114, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
19 3 0.03
20 107 0.94
21 4 0.04
ACGTcount: A:0.41, C:0.16, G:0.29, T:0.14
Consensus pattern (20 bp):
TAACAGAGGCACCGAAGTGC
Found at i:100830 original size:40 final size:39
Alignment explanation
Indices: 100786--100943 Score: 140
Period size: 40 Copynumber: 3.9 Consensus size: 39
100776 GATGCGTAAC
* *
100786 AGAGGCAACGAAGTGCAGACAGAGGCACCGAAGTGCTAAT
1 AGAGGCAACGAAGTG-AAACAGAGGCACCGAAGTGCAAAT
* * *
100826 AGAGGCACCGAAGTGAAAGCAAAGGCACTGAAGTGCAAAT
1 AGAGGCAACGAAGTGAAA-CAGAGGCACCGAAGTGCAAAT
* * * *
100866 ATAGGC-ACTGAAGTGAAAATAGAAGAACCGAAGTGCAAAT
1 AGAGGCAAC-GAAGTG-AAACAGAGGCACCGAAGTGCAAAT
* * *
100906 AGAGGC-TCTGAAGTGTAAATAGAGGCACTGAAGTGCAA
1 AGAGGCAAC-GAAGTG-AAACAGAGGCACCGAAGTGCAA
100944 TCTCATACAA
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 91 0.94
41 3 0.03
ACGTcount: A:0.41, C:0.16, G:0.30, T:0.13
Consensus pattern (39 bp):
AGAGGCAACGAAGTGAAACAGAGGCACCGAAGTGCAAAT
Found at i:100887 original size:60 final size:60
Alignment explanation
Indices: 100795--100940 Score: 168
Period size: 60 Copynumber: 2.4 Consensus size: 60
100785 CAGAGGCAAC
* * * ** * *
100795 GAAGTGCAGACAGAGGCACCGAAGTGCTAATAGAGGCACCGAAGTG-AAAGCAAAGGCACT
1 GAAGTGCAAATAGAGGCACTGAAGTGAAAATAGAAGAACCGAAGTGCAAA-CAAAGGCACT
* * * *
100855 GAAGTGCAAATATAGGCACTGAAGTGAAAATAGAAGAACCGAAGTGCAAATAGAGGCTCT
1 GAAGTGCAAATAGAGGCACTGAAGTGAAAATAGAAGAACCGAAGTGCAAACAAAGGCACT
*
100915 GAAGTGTAAATAGAGGCACTGAAGTG
1 GAAGTGCAAATAGAGGCACTGAAGTG
100941 CAATCTCATA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
60 69 0.96
61 3 0.04
ACGTcount: A:0.40, C:0.15, G:0.30, T:0.14
Consensus pattern (60 bp):
GAAGTGCAAATAGAGGCACTGAAGTGAAAATAGAAGAACCGAAGTGCAAACAAAGGCACT
Found at i:102108 original size:10 final size:10
Alignment explanation
Indices: 102095--102119 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
102085 ATTTACAACC
102095 TTTAACAATA
1 TTTAACAATA
102105 TTTAACAATA
1 TTTAACAATA
102115 TTTAA
1 TTTAA
102120 TTATTCTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAACAATA
Found at i:109596 original size:4 final size:4
Alignment explanation
Indices: 109578--109610 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
109568 TGGTTCTTTG
*
109578 AATT -ATT AGTT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AATT AA
109611 GTTTGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:111442 original size:19 final size:19
Alignment explanation
Indices: 111418--111486 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
111408 AAAAGGCACG
* * *
111418 CATTTTACCTGGGTTGAGA
1 CATTTTACCTGGCTTCACA
111437 CATTTTACCTGGCTTCACA
1 CATTTTACCTGGCTTCACA
* *
111456 CAATTTACCTGGCTCCACA
1 CATTTTACCTGGCTTCACA
111475 CATTTTACCTGG
1 CATTTTACCTGG
111487 GTTTACAGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.35
Consensus pattern (19 bp):
CATTTTACCTGGCTTCACA
Found at i:127147 original size:16 final size:16
Alignment explanation
Indices: 127126--127157 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
127116 ACAAGAATTT
127126 GACATTGAGATTAAGG
1 GACATTGAGATTAAGG
127142 GACATTGAGATTAAGG
1 GACATTGAGATTAAGG
127158 ATCGCAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
GACATTGAGATTAAGG
Found at i:131225 original size:17 final size:18
Alignment explanation
Indices: 131199--131233 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
131189 CTCAGTCACA
131199 TATAAAAAATA-TATGTT
1 TATAAAAAATACTATGTT
*
131216 TATAATAAATACTATGTT
1 TATAAAAAATACTATGTT
131234 GGTAGAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (18 bp):
TATAAAAAATACTATGTT
Found at i:134065 original size:17 final size:17
Alignment explanation
Indices: 134039--134072 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
134029 GACAATCCTT
*
134039 TTTACAATTTTATTGCA
1 TTTACAATTTCATTGCA
*
134056 TTTACTATTTCATTGCA
1 TTTACAATTTCATTGCA
134073 CCAACAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTACAATTTCATTGCA
Found at i:135549 original size:17 final size:17
Alignment explanation
Indices: 135527--135559 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
135517 GTTAGTAAGC
135527 ATTGTCATTGCATTTTT
1 ATTGTCATTGCATTTTT
*
135544 ATTGTCATTTCATTTT
1 ATTGTCATTGCATTTT
135560 AGTGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.61
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:139243 original size:61 final size:61
Alignment explanation
Indices: 139148--139269 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
139138 ATCTCTAAAG
*
139148 ATCTAATGGTTTTTAACCGATTTTTAGCTTGAAAATGGTAAATTTCGTATTATTAAGCTAA
1 ATCTAATGGTTTTTAACCGATTTTTAGCTTGAAAATGGTAAATCTCGTATTATTAAGCTAA
*
139209 ATCTAATGTTTTTTAACCGATTTTTAGCTTGAAAATGGTAAATCTCGTATTATTAAGCTAA
1 ATCTAATGGTTTTTAACCGATTTTTAGCTTGAAAATGGTAAATCTCGTATTATTAAGCTAA
139270 GATTATGTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.43
Consensus pattern (61 bp):
ATCTAATGGTTTTTAACCGATTTTTAGCTTGAAAATGGTAAATCTCGTATTATTAAGCTAA
Found at i:145537 original size:39 final size:39
Alignment explanation
Indices: 145417--145566 Score: 147
Period size: 39 Copynumber: 3.8 Consensus size: 39
145407 TTATCAACAC
* *
145417 ACTGAACCAGCAATGACACTGTAAACACTACATTACAGT
1 ACTGAACCAGCAGTGACACTGTAAACACTACATTACAAT
* ** * * * *
145456 ACCGAACCAATAGTGACAATGTAAAACACTGCAATACGAT
1 ACTGAACCAGCAGTGACACTGT-AAACACTACATTACAAT
* * *
145496 ACTGAACCGGCAGTGACACTATAAACATTACATTACAAT
1 ACTGAACCAGCAGTGACACTGTAAACACTACATTACAAT
* * * *
145535 ACTGAACTAGCAGTGATAGTGTAAACTCTACA
1 ACTGAACCAGCAGTGACACTGTAAACACTACA
145567 AAGAAATATG
Statistics
Matches: 84, Mismatches: 26, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
39 55 0.65
40 29 0.35
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (39 bp):
ACTGAACCAGCAGTGACACTGTAAACACTACATTACAAT
Found at i:151628 original size:27 final size:27
Alignment explanation
Indices: 151590--151643 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
151580 AATGTGTTAG
151590 CAACGTAGTTTGTTTTACGTTTCAACC
1 CAACGTAGTTTGTTTTACGTTTCAACC
151617 CAACGTAGTTTGTTTTACGTTTCAACC
1 CAACGTAGTTTGTTTTACGTTTCAACC
151644 TATCGACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (27 bp):
CAACGTAGTTTGTTTTACGTTTCAACC
Found at i:155634 original size:39 final size:39
Alignment explanation
Indices: 155591--155689 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
155581 TTAATTTGTC
* * *
155591 TCAAACTTAGACACCTTAAAAACAATTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
* * *
155630 TCAAAATAAGACAAATTAAAAATAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
*
155669 TCAAACTAAGACACACTAAAA
1 TCAAACTAAGACACATTAAAA
155690 CCCTATTTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (39 bp):
TCAAACTAAGACACATTAAAAACAACTATTAAATATGTA
Found at i:158851 original size:13 final size:14
Alignment explanation
Indices: 158817--158855 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
158807 TATCTCTTTT
*
158817 TCTTCCTTTTCATC
1 TCTTTCTTTTCATC
*
158831 TTTTTCTTTTC-TC
1 TCTTTCTTTTCATC
158844 TCTTTCTTTTCA
1 TCTTTCTTTTCA
158856 CTTTTTTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (14 bp):
TCTTTCTTTTCATC
Found at i:158904 original size:18 final size:19
Alignment explanation
Indices: 158877--158913 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
158867 CTTTTCTCTC
*
158877 ATTTTCCTTTTTTTTTTCA
1 ATTTTCCTTTTCTTTTTCA
158896 ATTTT-CTTTTCTTTTTCA
1 ATTTTCCTTTTCTTTTTCA
158914 TTCTCACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTTCCTTTTCTTTTTCA
Found at i:162179 original size:38 final size:38
Alignment explanation
Indices: 162137--162235 Score: 153
Period size: 39 Copynumber: 2.6 Consensus size: 38
162127 GTAATTTGTC
* *
162137 TCAAACTTAGACACCTTAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAACAACTATTAAATATGTA
*
162175 TCAAAATAAGACACATTAAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATT-AAAACAACTATTAAATATGTA
*
162214 TCAAACTAAGACACGTTAAAAC
1 TCAAACTAAGACACATTAAAAC
162236 CCTATTTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 19 0.35
39 36 0.65
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.25
Consensus pattern (38 bp):
TCAAACTAAGACACATTAAAACAACTATTAAATATGTA
Found at i:170140 original size:17 final size:18
Alignment explanation
Indices: 170118--170158 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
170108 TTAGTTTTCA
170118 TACATTCTT-ATTGT-GCT
1 TACATTCTTAATTGTCG-T
170135 TACATT-TTAATTGTCGT
1 TACATTCTTAATTGTCGT
170152 TACATTC
1 TACATTC
170159 ATTTTAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.10
17 18 0.86
18 1 0.05
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.51
Consensus pattern (18 bp):
TACATTCTTAATTGTCGT
Found at i:172940 original size:15 final size:15
Alignment explanation
Indices: 172897--172949 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
172887 CCTCAACTAA
* *
172897 TTCTTTCTCAGCATT
1 TTCTTCCTCAACATT
* *
172912 TTTTTTCTCAACATT
1 TTCTTCCTCAACATT
* *
172927 TTCTTCCTCGACATC
1 TTCTTCCTCAACATT
172942 TTCTTCCT
1 TTCTTCCT
172950 TCTCATTCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.13, C:0.30, G:0.04, T:0.53
Consensus pattern (15 bp):
TTCTTCCTCAACATT
Found at i:174719 original size:16 final size:17
Alignment explanation
Indices: 174683--174723 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
174673 CTTATTCTAC
174683 AAAAACAAATTAGAAGT
1 AAAAACAAATTAGAAGT
174700 -AAAACAAACTT-GAA-T
1 AAAAACAAA-TTAGAAGT
174715 AAAAACAAA
1 AAAAACAAA
174724 AATAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 19 0.86
17 2 0.09
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (17 bp):
AAAAACAAATTAGAAGT
Found at i:180332 original size:17 final size:17
Alignment explanation
Indices: 180310--180359 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
180300 AACTAAATTA
180310 ACAAAAAAAATGCAATG
1 ACAAAAAAAATGCAATG
*
180327 ACAAAATAAAAATGTAATG
1 AC-AAA-AAAAATGCAATG
* *
180346 ACAATAAAGATGCA
1 ACAAAAAAAATGCA
180360 TGCAAACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 9 0.33
18 5 0.19
19 13 0.48
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.16
Consensus pattern (17 bp):
ACAAAAAAAATGCAATG
Found at i:185449 original size:33 final size:33
Alignment explanation
Indices: 185403--185487 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
185393 AGAAAATCTG
** *
185403 CCAAACAAAAGAAAATATTTTACATAGATTCAT
1 CCAAACACCAGAAAATATTTTACACAGATTCAT
185436 CCAAACACCAGAAAATATTTTACACAGATTCAT
1 CCAAACACCAGAAAATATTTTACACAGATTCAT
185469 CCAAACACCAGAAAATATT
1 CCAAACACCAGAAAATATT
185488 AACTTTTCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.49, C:0.21, G:0.06, T:0.24
Consensus pattern (33 bp):
CCAAACACCAGAAAATATTTTACACAGATTCAT
Found at i:185528 original size:14 final size:14
Alignment explanation
Indices: 185505--185543 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
185495 CTAGAAAAGT
185505 AAACCATTTTCCAG
1 AAACCATTTTCCAG
* *
185519 AAATCATTTTCCGG
1 AAACCATTTTCCAG
185533 AAACCATTTTC
1 AAACCATTTTC
185544 AGTCAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (14 bp):
AAACCATTTTCCAG
Found at i:188348 original size:17 final size:17
Alignment explanation
Indices: 188326--188358 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
188316 AATTTCTTTT
188326 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTATC
*
188343 TTAAATTTATATTTAT
1 TTAAATTTAAATTTAT
188359 ATTTAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATTTAAATTTATC
Found at i:188406 original size:20 final size:19
Alignment explanation
Indices: 188381--188424 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
188371 TTGAATGGAT
* *
188381 TTAAAAACTTAATATTAAAA
1 TTAAAAACTCAA-ATAAAAA
*
188401 TTAAAAGCTCAAATAAAAA
1 TTAAAAACTCAAATAAAAA
188420 TTAAA
1 TTAAA
188425 GTCCAATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (19 bp):
TTAAAAACTCAAATAAAAA
Found at i:189068 original size:3 final size:3
Alignment explanation
Indices: 189060--189114 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
189050 GCTCATAAGT
* * * * *
189060 ATA ATA ATA ATA ATA ATG ATA ATAA ATA ATA ATT GTT TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
189106 ATA ATA ATA
1 ATA ATA ATA
189115 TTAAATATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:190075 original size:29 final size:29
Alignment explanation
Indices: 190034--190466 Score: 339
Period size: 29 Copynumber: 14.7 Consensus size: 29
190024 GAGGTCCCTA
* *
190034 AACTATCCGAAAATTACATTTTTACCCTCG
1 AACT-TCCAAAAATTCCATTTTTACCCTCG
* *
190064 AACTTCCAAAAATTCCATTTTCGA-CCTCAA
1 AACTTCCAAAAATTCCATTTT-TACCCTC-G
* * *
190094 AATTTCCAAAAATTCCATTTTTACCCCCT
1 AACTTCCAAAAATTCCATTTTTACCCTCG
* *
190123 AACTTCCAAAAATTCCATTTTGACCCCCG
1 AACTTCCAAAAATTCCATTTTTACCCTCG
* **
190152 AACTTCCAAAAAATCCATTTTTGACACC-AA
1 AACTTCCAAAAATTCCATTTTT-AC-CCTCG
** * *
190182 AACTTTTAAAAAATCTATTTTTACGCC-CG
1 AACTTCCAAAAATTCCATTTTTAC-CCTCG
*
190211 AACTTCCAAAAATTCCATTTTTGACCC-CAA
1 AACTTCCAAAAATTCCATTTTT-ACCCTC-G
* *
190241 AACTTTCAAAAAATCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTACCCTCG
* *
190270 AACTTCCAAAAATTCCATTGTTAACCTCG
1 AACTTCCAAAAATTCCATTTTTACCCTCG
** * *
190299 AAACTTTTAAAAATTCCATTTTTACTCTCA
1 -AACTTCCAAAAATTCCATTTTTACCCTCG
190329 AACTTCCAAAAATTCCATTTTTGACCC-CG
1 AACTTCCAAAAATTCCATTTTT-ACCCTCG
* *
190358 AAACTTTCAAAAATT-CATTTTTACCCCCG
1 -AACTTCCAAAAATTCCATTTTTACCCTCG
*
190387 AA-TGTCTAAAAATT-CACTTTTTAACCC-CG
1 AACT-TCCAAAAATTCCA-TTTTT-ACCCTCG
* * *
190416 AATTTTCCCAAAATTACCA-TTTTGCCCTCG
1 AA-CTTCCAAAAATT-CCATTTTTACCCTCG
**
190446 AAAATCC-AAAATTACCATTTT
1 AACTTCCAAAAATT-CCATTTT
190467 ACCACCCCCG
Statistics
Matches: 331, Mismatches: 51, Indels: 43
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.00
28 26 0.08
29 168 0.51
30 131 0.40
31 3 0.01
32 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:190135 original size:59 final size:58
Alignment explanation
Indices: 190034--190466 Score: 351
Period size: 59 Copynumber: 7.4 Consensus size: 58
190024 GAGGTCCCTA
* * * * *
190034 AACTATCCGAAAATTACATTTTT-ACCCTC-GAACTTCCAAAAATTCCATTTTCGACCTCAA
1 AACT-TCCAAAAATTCCATTTTTGACCC-CAAAACTTTCAAAAATTCCATTTT-GACCTC-G
* ** * *
190094 AATTTCCAAAAATTCCATTTTT-ACCCCCTAACTTCCAAAAATTCCATTTTGACCCCCG
1 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTGA-CCTCG
* * * * * * *
190152 AACTTCCAAAAAATCCATTTTTGACACCAAAACTTTTAAAAAATCTATTTTTACGCCCG
1 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTGAC-CTCG
* *
190211 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAAATCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTGA-CCTCG
* * * * * * *
190270 AACTTCCAAAAATTCCATTGTTAACCTCGAAACTTTTAAAAATTCCATTTTTACTCTCA
1 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTGAC-CTCG
* * *
190329 AACTTCCAAAAATTCCATTTTTGACCCCGAAACTTTCAAAAATT-CATTTTTACCCCCG
1 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTGA-CCTCG
* * * * * *
190387 AA-TGTCTAAAAATT-CACTTTTTAACCCC-GAATTTTCCCAAAATTACCATTTTGCCCTCG
1 AACT-TCCAAAAATTCCA-TTTTTGACCCCAAAACTTT-CAAAAATT-CCATTTTGACCTCG
**
190446 AAAATCC-AAAATTACCATTTT
1 AACTTCCAAAAATT-CCATTTT
190467 ACCACCCCCG
Statistics
Matches: 314, Mismatches: 44, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
57 8 0.03
58 69 0.22
59 225 0.72
60 12 0.04
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (58 bp):
AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTGACCTCG
Found at i:190251 original size:118 final size:118
Alignment explanation
Indices: 190097--190388 Score: 410
Period size: 118 Copynumber: 2.5 Consensus size: 118
190087 ACCTCAAAAT
** * *
190097 TTCCAAAAATTCCATTTTT-ACCCCCTAACTTCCAAAAATTCCATTTTGACCCCCGAACTTCCAA
1 TTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTTACCCCCGAACTTCCAA
* * * *
190161 AAAATCCATTTTTGACAC-CAAAACTTTTAAAAAATCTATTTTTACGCCCGAAC
66 AAAATCCATTGTTAAC-CTCAAAACTTTTAAAAAATCCATTTTTACGCCCAAAC
* *
190214 TTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAAATCCATTTTTACCCTCGAACTTCCAA
1 TTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTTACCCCCGAACTTCCAA
* * * * *
190279 AAATTCCATTGTTAACCTCGAAACTTTTAAAAATTCCATTTTTACTCTCAAAC
66 AAAATCCATTGTTAACCTCAAAACTTTTAAAAAATCCATTTTTACGCCCAAAC
*
190332 TTCCAAAAATTCCATTTTTGACCCCGAAACTTTCAAAAATT-CATTTTTACCCCCGAA
1 TTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTTACCCCCGAA
190389 TGTCTAAAAA
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
117 35 0.23
118 120 0.77
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (118 bp):
TTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTTACCCCCGAACTTCCAA
AAAATCCATTGTTAACCTCAAAACTTTTAAAAAATCCATTTTTACGCCCAAAC
Done.