Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015216.1 Kokia drynarioides strain JFW-HI SEQ_130260, 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: 531577
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Warning! 459 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1614 original size:48 final size:48
Alignment explanation
Indices: 1562--1745 Score: 217
Period size: 48 Copynumber: 3.8 Consensus size: 48
1552 TATTTATGCT
* *
1562 TCATTAAGTGTTTT-TTCTGTTAAATGCATCTTTGTTAAAAAATCTACA
1 TCATTAAGTGTTTTGTT-TGTTAAATGCATCTTTGTTAAATAATCTGCA
* *
1610 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCA
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTAAATAATCTGCA
* * * * * * * *
1658 TTATTAACTATTTTGTTTGTTAAATTCATCCTTGTTTAGTAATATGCA
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTAAATAATCTGCA
* * *
1706 TTATTAAATGTTTTGTTTGTTAAATACATCTTTGTTAAAT
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTAAAT
1746 GTCTTGTATT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
48 117 0.98
49 2 0.02
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.51
Consensus pattern (48 bp):
TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTAAATAATCTGCA
Found at i:3886 original size:217 final size:215
Alignment explanation
Indices: 2796--5736 Score: 2966
Period size: 215 Copynumber: 13.9 Consensus size: 215
2786 AGCTCATATC
* * ** *
2796 AGTATTCAAGACAATCCATTTCATT-GAG-AAAATTTCTGAACATTCCATGCT-TGAGAAATCGC
1 AGTATTCAAGACGATCCA-TTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCAG-GAAATCGC
* * *
2858 ATCATTTGGTCCAAATAGTTTGTCA-TCTGTAAACAACTTTTTGTCTTTGAATTAAAAACCTATT
63 ATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
* * * * *
2922 TACGTGAGAATTGTTTCTCACTTTGTTCTTGGCCAAACTTTCGAACTTGTCAAAATTTTATGAGT
128 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGT
* * *
2987 TCTTTTGTAACTTCAGTTCCTTAA
193 TCTTTTATAACTT-TGTTCCCTAA
* * * * *
3011 AGTATTCAAAACGATCCATTCCTTCAAGCAA-TTTTCTAAACAATCCATGCTCAGGAAATTGCAT
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCAGGAAATCGCAT
* *
3075 CATTTGTTCCAAAT--TGTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * ** *
3138 CGTGAGAATTGTTTGTCTCCT-GTTCTTGGCTAAACTTTCGAACTTGTCAAACATTTACGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
* ** *
3202 ATGAATAACTTCGGTT-CCTAAA
195 TTTTATAACTT-TGTTCCCT-AA
** * * * *
3224 AGTATTCAAGACGATCCATTCCTTAAAGCAA-TTTTCG---------GGCTCGGGAATTTGCATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
* *
3279 ATTTAGTCTAAATAGTTT-TACATTTTGTAAACAA-TGTTTGGTCTTTGAATTAAAAACTTATTT
66 ATTTGGTCCAAATAGTTTGT-CATTTTGTAAACAACT-TTTGGTCTTTGAATTAAAAACTTATTT
* * * *
3342 ATGTGAGAATTGTTTCTTTCTTGGTTCTTGGACGAAC-TTCTGAACTTGTCAAACTTTTACGATT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTC-GAACTTGTCAAACTTTTACGAGT
* *
3406 TCTTTTATAACTTCAGTTCCTTAA
193 TCTTTTATAACTT-TGTTCCCTAA
* * * * ** * * *
3430 AGTATTCAGGATGATCCACTCCTTCGAGAAATTTCCCGAACATTCCATGTTCTGGAAATCACATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
* * *
3495 ATCT-GACCATATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAC-T-TTTAC
66 ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAC
* * *
3557 GTGAGAATTGTTTGTTTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCA
131 GTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCT
**
3622 TGAATAACTTTGATT-CCTAA
196 TTTATAACTTTG-TTCCCTAA
* * * *
3642 CAGTATTCAAGACGATCCATTCCTTCGAGCATTTTTTTCGAACATTTCATGCTCAAGAAATCGGA
1 -AGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTTTCGAACATTCCATGCTCAGGAAATCGCA
* *
3707 TCATTTGGTCCAAATATTTTTTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
64 TCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
* * * *
3772 ACATGAGAATTGTTTCTCTCTTGGTTCTTAGCTGAACTTTCAAACTTGTCAAACTTTTACGAGTT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTT
3837 CTTTTATAACTTTTGTTCCCTAA
194 CTTTTATAAC-TTTGTTCCCTAA
** * * * *
3860 AGTATTCAAGATAATCCATTCCTTCGAGCAATTTTTCGAACTTTCCATTCTCCGGAAATCACATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
3925 ATTTGGTCCAAATAGTTTGTCAATTTT-TAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
66 ATTTGGTCCAAATAGTTTGTC-ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * *
3989 CGTAAGAATTGTTTGTCTCCTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
* **
4054 ATGAATAACTTTGATT-CCTAA
195 TTTTATAACTTTG-TTCCCTAA
* * * * *
4075 TAGTATTCAAGACGATCCATTCCTTCGAGCATTTTTTTTGAACATTTCATGCTC-GAAAAATCAC
1 -AGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTTTCGAACATTCCATGCTCAG-GAAATCGC
* *
4139 ATCATTTGGTCCAAATATTTTTTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
63 ATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
* *** * *
4204 TACGTGAGAATTGTTTCTCTTTTGGTTCTTGGATAAACTTCCAAACTTGTCAAACTTTTACGAGT
128 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGT
*** **
4269 TCTTTTATAACTACACTTCTATAA
193 TCTTTTATAACT-TTGTTCCCTAA
* * * * * * *
4293 AGTATT-AAGATGATCCATTCGTTCGAGAAATTTTTTGAACATTCCATGTTCAGGGAATCGTATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
* **
4357 ATTTGGTCCATATAGTTTGTCATTTTGTAAACAACTTTTTTTCTTTGAATTAAAAAACTCT-TTT
66 ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT-AAAAACT-TATTT
* * *
4421 ACGTGAGAATTGTTTCTCTCTTGGTTCTT-ACAAGAACTTCCGAACTTGTCAAACTTTTACGAGT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGC-CGAACTTTCGAACTTGTCAAACTTTTACGAGT
4485 TCTTTTATAA---------CT--
193 TCTTTTATAACTTTGTTCCCTAA
* * * * ** * *
4497 A-T-TT-AAGACAATCCATTTCATCGAGCAAATTTTAAAAAATTCCATGCT-TGGAAAATCGCAT
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGG-AAATCGCAT
* *
4558 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTATTGATCTTTGAATTAAAAACTTATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
4623 TGTGAGAATTGTTTGTCTCTAGGTTCTTGGCCGAACTTTAGAACTCGTCAAACTTTTACGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
** * *
4688 TTGAATAACTTGGGTTCCTTAA
195 TTTTATAACTT-TGTTCCCTAA
* * * * * * * * * * *
4710 AATATTCAAAATGATTCATTCCTTTGTGTAATTTTCCGAACTTTCCATGCTTGAGAAAAT-GCAT
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC-TCAGGAAATCGCAT
* * * * *
4774 CATTTGGTCCAAATAGTTTGTCCTTTT-T-----TCTATTAGTCTTTGAATTAAAAACATATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * *
4833 CGTAAAAAATGTTTCTCTCTTGGTTGTTAGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
*
4898 TTTTATAACTTTGATTCCTTAA
195 TTTTATAACTTTG-TTCCCTAA
* * * *
4920 AGTATTCAAGACAATCCATTCCATT-GAGCAA-TTTTCAGAACATTCCATCCTCAGGAAATTGTA
1 AGTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTC-GAACATTCCATGCTCAGGAAATCGCA
* * * *
4983 CCATTTAGTCCAAATAGTTTGTCATTTTATAAACAACTTTTGGTCTTTGAATTAAAAACATATTT
64 TCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
* *
5048 AAGTGAGAATTGTTTATCTCTTGGTTCTT-G--G--C---CGAAC-T-T-----TTTTACGAGTT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTT
** *
5098 CTTGAATAACTTTGGTTCCTTAA
194 CTTTTATAACTTT-GTTCCCTAA
* * * * * *
5121 AGTATTCAAGACGATCCATTCCATCTAGCAA-TTTTCTGAA-TTTTCATGCTCGGGAAATCGTAT
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCAGGAAATCGCAT
* * * *
5184 CATTTGGTCCAAATAGTTTTTCATTTGGTAAACAACTTTTTGTCATTGAATTAAAAACTTATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * * *
5249 CGTAAGAATTGTTTGTCTCTTGGTCCTTGGTCGAACTTCCAAACTTGTCAAACTTTTACGTGTT-
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
** ** *
5313 TTAGAATAACTTCAATTCCTTAA
195 TT-TTATAACTT-TGTTCCCTAA
* * * *
5336 AGTATTCAAGACGATCCATTCCATCGAGCAAATTTTT-GAACATTCCATGCTTAAGAAATCACAT
1 AGTATTCAAGACGATCCATTCCTTCGAGC-AATTTTTCGAACATTCCATGCTCAGGAAATCGCAT
* * * **
5400 CTTTTGGTCCAAATAGTTTGTCA-TCTGTAAACAACTTTTTGTCTTTGAATTAAAAACCCATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
5464 CGTGAGAATTGTTTCTCTCTTTGTTCTTGGCCGAACATCCGAACTTATCAAACTTTTATGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
** *
5529 TTTTATAACTTCAATTCCTTAA
195 TTTTATAACTT-TGTTCCCTAA
* * ** *
5551 AGTATTCAAGATGATCCATTCCTTCGAGCAA-TTTTCTAAACAACCCATGCTC-GAGAAATTGCA
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCAG-GAAATCGCA
**
5614 TCATTTATTCCAAATAG--TGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
64 TCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
* * * ** *
5677 ACGTTAGAATTATTTGTCTCTT-GTTCTTGGCTAAACTTTCGAACTTGTCAAACATTTACG
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACG
5737 CATCATTTGG
Statistics
Matches: 2278, Mismatches: 346, Indels: 206
0.80 0.12 0.07
Matches are distributed among these distances:
200 101 0.04
201 139 0.06
202 92 0.04
203 27 0.01
204 3 0.00
205 65 0.03
206 75 0.03
207 7 0.00
208 9 0.00
209 13 0.01
210 158 0.07
211 5 0.00
212 7 0.00
213 231 0.10
214 154 0.07
215 460 0.20
216 451 0.20
217 268 0.12
218 13 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (215 bp):
AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAC
GTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCT
TTTATAACTTTGTTCCCTAA
Found at i:4015 original size:216 final size:216
Alignment explanation
Indices: 2796--5087 Score: 2418
Period size: 216 Copynumber: 10.8 Consensus size: 216
2786 AGCTCATATC
* * ** *
2796 AGTATTCAAGACAATCCATTTCATT-GAG-AAAATTTCTGAACATTCCATGCT-TGAGAAATCGC
1 AGTATTCAAGACGATCCA-TTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCAG-GAAATCGC
* * *
2858 ATCATTTGGTCCAAATAGTTTGTCA-TCTGTAAACAACTTTTTGTCTTTGAATTAAAAACCTATT
63 ATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
* * * * *
2922 TACGTGAGAATTGTTTCTCACTTTGTTCTTGGCCAAACTTTCGAACTTGTCAAAATTTTATGAGT
128 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGT
* * *
2987 TCTTTTGTAACTTCAGTTCCTTAA
193 TCTTTTATAACTTCTGTTCCCTAA
* * * * *
3011 AGTATTCAAAACGATCCATTCCTTCAAGCAA-TTTTCTAAACAATCCATGCTCAGGAAATTGCAT
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCAGGAAATCGCAT
* *
3075 CATTTGTTCCAAAT--TGTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * ** *
3138 CGTGAGAATTGTTTGTCTCCT-GTTCTTGGCTAAACTTTCGAACTTGTCAAACATTTACGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
* ** *
3202 ATGAATAACTTCGGTT-CCTAAA
195 TTTTATAACTTCTGTTCCCT-AA
** * * * *
3224 AGTATTCAAGACGATCCATTCCTTAAAGCAA-TTTTCG---------GGCTCGGGAATTTGCATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
* *
3279 ATTTAGTCTAAATAGTTT-TACATTTTGTAAACAA-TGTTTGGTCTTTGAATTAAAAACTTATTT
66 ATTTGGTCCAAATAGTTTGT-CATTTTGTAAACAACT-TTTGGTCTTTGAATTAAAAACTTATTT
* * * *
3342 ATGTGAGAATTGTTTCTTTCTTGGTTCTTGGACGAAC-TTCTGAACTTGTCAAACTTTTACGATT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTC-GAACTTGTCAAACTTTTACGAGT
* *
3406 TCTTTTATAACTTCAGTTCCTTAA
193 TCTTTTATAACTTCTGTTCCCTAA
* * * * ** * * *
3430 AGTATTCAGGATGATCCACTCCTTCGAGAAATTTCCCGAACATTCCATGTTCTGGAAATCACATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
* * *
3495 ATCT-GACCATATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAC-T-TTTAC
66 ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAC
* * *
3557 GTGAGAATTGTTTGTTTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCA
131 GTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCT
**
3622 TGAATAACTT-TGATT-CCTAA
196 TTTATAACTTCTG-TTCCCTAA
* * * *
3642 CAGTATTCAAGACGATCCATTCCTTCGAGCATTTTTTTCGAACATTTCATGCTCAAGAAATCGGA
1 -AGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTTTCGAACATTCCATGCTCAGGAAATCGCA
* *
3707 TCATTTGGTCCAAATATTTTTTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
64 TCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
* * * *
3772 ACATGAGAATTGTTTCTCTCTTGGTTCTTAGCTGAACTTTCAAACTTGTCAAACTTTTACGAGTT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTT
*
3837 CTTTTATAACTTTTGTTCCCTAA
194 CTTTTATAACTTCTGTTCCCTAA
** * * * *
3860 AGTATTCAAGATAATCCATTCCTTCGAGCAATTTTTCGAACTTTCCATTCTCCGGAAATCACATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
3925 ATTTGGTCCAAATAGTTTGTCAATTTT-TAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
66 ATTTGGTCCAAATAGTTTGTC-ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * *
3989 CGTAAGAATTGTTTGTCTCCTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
* **
4054 ATGAATAACTT-TGATT-CCTAA
195 TTTTATAACTTCTG-TTCCCTAA
* * * * *
4075 TAGTATTCAAGACGATCCATTCCTTCGAGCATTTTTTTTGAACATTTCATGCTC-GAAAAATCAC
1 -AGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTTTCGAACATTCCATGCTCAG-GAAATCGC
* *
4139 ATCATTTGGTCCAAATATTTTTTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
63 ATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
* *** * *
4204 TACGTGAGAATTGTTTCTCTTTTGGTTCTTGGATAAACTTCCAAACTTGTCAAACTTTTACGAGT
128 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGT
* ** **
4269 TCTTTTATAACTACACTTCTATAA
193 TCTTTTATAACTTCTGTTCCCTAA
* * * * * * *
4293 AGTATT-AAGATGATCCATTCGTTCGAGAAATTTTTTGAACATTCCATGTTCAGGGAATCGTATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
* **
4357 ATTTGGTCCATATAGTTTGTCATTTTGTAAACAACTTTTTTTCTTTGAATTAAAAAACTCT-TTT
66 ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT-AAAAACT-TATTT
* * *
4421 ACGTGAGAATTGTTTCTCTCTTGGTTCTT-ACAAGAACTTCCGAACTTGTCAAACTTTTACGAGT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGC-CGAACTTTCGAACTTGTCAAACTTTTACGAGT
4485 TCTTTTATAA----------CT--
193 TCTTTTATAACTTCTGTTCCCTAA
* * * * ** * *
4497 A-T-TT-AAGACAATCCATTTCATCGAGCAAATTTTAAAAAATTCCATGCT-TGGAAAATCGCAT
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGG-AAATCGCAT
* *
4558 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTATTGATCTTTGAATTAAAAACTTATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
4623 TGTGAGAATTGTTTGTCTCTAGGTTCTTGGCCGAACTTTAGAACTCGTCAAACTTTTACGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
** ** *
4688 TTGAATAACTTGGGTTCCTTAA
195 TTTTATAACTTCTGTTCCCTAA
* * * * * * * * * * *
4710 AATATTCAAAATGATTCATTCCTTTGTGTAATTTTCCGAACTTTCCATGCTTGAGAAAAT-GCAT
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC-TCAGGAAATCGCAT
* * * * *
4774 CATTTGGTCCAAATAGTTTGTCCTTTT-T-----TCTATTAGTCTTTGAATTAAAAACATATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * *
4833 CGTAAAAAATGTTTCTCTCTTGGTTGTTAGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
*
4898 TTTTATAACTT-TGATTCCTTAA
195 TTTTATAACTTCTG-TTCCCTAA
* * * *
4920 AGTATTCAAGACAATCCATTCCATT-GAGCAA-TTTTCAGAACATTCCATCCTCAGGAAATTGTA
1 AGTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTC-GAACATTCCATGCTCAGGAAATCGCA
* * * *
4983 CCATTTAGTCCAAATAGTTTGTCATTTTATAAACAACTTTTGGTCTTTGAATTAAAAACATATTT
64 TCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
* *
5048 AAGTGAGAATTGTTTATCTCTTGGTTCTTGGCCGAACTTT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
5088 TTTACGAGTT
Statistics
Matches: 1734, Mismatches: 268, Indels: 149
0.81 0.12 0.07
Matches are distributed among these distances:
200 1 0.00
201 74 0.04
202 91 0.05
203 26 0.01
204 3 0.00
205 64 0.04
206 74 0.04
207 6 0.00
209 12 0.01
210 157 0.09
211 4 0.00
212 7 0.00
213 190 0.11
214 95 0.05
215 232 0.13
216 421 0.24
217 266 0.15
218 11 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (216 bp):
AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCAGGAAATCGCATC
ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAC
GTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCT
TTTATAACTTCTGTTCCCTAA
Found at i:4145 original size:433 final size:431
Alignment explanation
Indices: 2796--5736 Score: 3217
Period size: 433 Copynumber: 6.9 Consensus size: 431
2786 AGCTCATATC
* * * * * * *
2796 AGTATTCAAGACAATCCATTTCATT-GAGAAAATTTCTGAACATTCCATGCTTGAGAAATCGCAT
1 AGTATTCAAGACGATCCA-TTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGAAAAATCGCAT
* * *
2860 CATTTGGTCCAAATAGTTTGTCA-TCTGTAAACAACTTTTTGTCTTTGAATTAAAAACCTATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
2924 CGTGAGAATTGTTTCTCACTTTGTTCTTGGCCAAACTTTCGAACTTGTCAAAATTTTATGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
* * * * *
2989 TTTTGTAACTTCAGTTCCTTAAAGTATTCAAAACGATCCATTCCTTCAAGCAA-TTTTCTAAACA
195 TTTTATAACTTCAGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTC-GAACA
* * * *
3053 ATCCATGCTCAGGAAATTGCATCATTTGTTCCAAAT--TGTGTCATTTTGTAAACAACTTTTGGT
259 TTCCATGCTCAGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * **
3116 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTGTCTCCT-GTTCTTGGCTAAACTTTCGAA
324 CTTTGAATTAAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGCCGAACTTTCGAA
* * *
3180 CTTGTCAAACATTTACGAGTTCATGAATAACTTCGGTTCCTAAA
389 CTTGTCAAACTTTTACGAGTTCATGAATAACTTTGATTCCT-AA
** ** ** * *
3224 AGTATTCAAGACGATCCATTCCTTAAAGCAA----TT-----TT-CGGGCTCGGGAATTTGCATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGAAAAATCGCATC
* *
3279 ATTTAGTCTAAATAGTTT-TACATTTTGTAAACAA-TGTTTGGTCTTTGAATTAAAAACTTATTT
66 ATTTGGTCCAAATAGTTTGT-CATTTTGTAAACAACT-TTTGGTCTTTGAATTAAAAACTTATTT
* * * *
3342 ATGTGAGAATTGTTTCTTTCTTGGTTCTTGGACGAAC-TTCTGAACTTGTCAAACTTTTACGATT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTC-GAACTTGTCAAACTTTTACGAGT
* * * **
3406 TCTTTTATAACTTCAGTTCCTTAAAGTATTCAGGATGATCCACTCCTTCGAGAAATTTCCCGAAC
193 TCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAAC
* * * * * *
3471 ATTCCATGTTCTGGAAATCACATCATCT-GACCATATAGTTTGTCATTTTGTAAACAACTTTTGG
258 ATTCCATGCTCAGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* *
3535 TCTTTGAATTAAAAAC-T-TTTACGTGAGAATTGTTTGTTTCTTGGTTCTTGGCCGAACTTTCGA
323 TCTTTGAATTAAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGCCGAACTTTCGA
3598 ACTTGTCAAACTTTTACGAGTTCATGAATAACTTTGATTCCTAA
388 ACTTGTCAAACTTTTACGAGTTCATGAATAACTTTGATTCCTAA
* * *
3642 CAGTATTCAAGACGATCCATTCCTTCGAGCATTTTTTTCGAACATTTCATGCTC-AAGAAATCGG
1 -AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTT-GAACATTCCATGCTCGAA-AAATCGC
* *
3706 ATCATTTGGTCCAAATATTTTTTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
63 ATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
* * * *
3771 TACATGAGAATTGTTTCTCTCTTGGTTCTTAGCTGAACTTTCAAACTTGTCAAACTTTTACGAGT
128 TACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGT
** * *
3836 TCTTTTATAACTTTTGTTCCCTAAAGTATTCAAGATAATCCATTCCTTCGAGCAATTTTTCGAAC
193 TCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAAC
* * * *
3901 TTTCCATTCTCCGGAAATCACATCATTTGGTCCAAATAGTTTGTCAATTTT-TAAACAACTTTTG
258 ATTCCATGCTCAGGAAATCGCATCATTTGGTCCAAATAGTTTGTC-ATTTTGTAAACAACTTTTG
*
3965 GTCTTTGAATTAAAAACTTATTTACGTAAGAATTGTTTGTCTCCTGGTTCTTGGCCGAACTTTCG
322 GTCTTTGAATTAAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGCCGAACTTTCG
4030 AACTTGTCAAACTTTTACGAGTTCATGAATAACTTTGATTCCTAA
387 AACTTGTCAAACTTTTACGAGTTCATGAATAACTTTGATTCCTAA
* * *
4075 TAGTATTCAAGACGATCCATTCCTTCGAGCATTTTTTTTGAACATTTCATGCTCGAAAAATCACA
1 -AGTATTCAAGACGATCCATTCCTTCGAGCA-ATTTTTTGAACATTCCATGCTCGAAAAATCGCA
* *
4140 TCATTTGGTCCAAATATTTTTTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
64 TCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
* *** * *
4205 ACGTGAGAATTGTTTCTCTTTTGGTTCTTGGATAAACTTCCAAACTTGTCAAACTTTTACGAGTT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTT
* * * * *
4270 CTTTTATAACTACACTT-CTATAAAGTATT-AAGATGATCCATTCGTTCGAGAAATTTTTTGAAC
194 CTTTTATAACTTCAGTTCCT-TAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAAC
* * * * **
4333 ATTCCATGTTCAGGGAATCGTATCATTTGGTCCATATAGTTTGTCATTTTGTAAACAACTTTTTT
258 ATTCCATGCTCAGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* * * * *
4398 TCTTTGAATTAAAAAACTCT-TTTACGTGAGAATTGTTTCTCTCTTGGTTCTT-ACAAGAACTTC
323 TCTTTGAATT-AAAAACT-TATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGC-CGAACTTT
4461 CGAACTTGTCAAACTTTTACGAGTTC-----T---TTT-A----T-A
385 CGAACTTGTCAAACTTTTACGAGTTCATGAATAACTTTGATTCCTAA
* * * * * * ** * * *
4494 ACTATTTAAGACAATCCATTTCATCGAGCAAATTTTAAAAAATTCCATGCTTGGAAAATCGCATC
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGAAAAATCGCATC
* * *
4559 ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTATTGATCTTTGAATTAAAAACTTATTTAT
66 ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAC
* * * *
4624 GTGAGAATTGTTTGTCTCTAGGTTCTTGGCCGAACTTTAGAACTCGTCAAACTTTTACGAGTTCT
131 GTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCT
** ** * * * * * * * *
4689 TGAATAACTTGGGTTCCTTAAAATATTCAAAATGATTCATTCCTTTGTGTAATTTTCCGAACTTT
196 TTTATAACTTCAGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAACATT
* * * * * *
4754 CCATGCTTGAGAAAAT-GCATCATTTGGTCCAAATAGTTTGTCCTTTT-T-----TCTATTAGTC
261 CCATGC-TCAGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* * * * * * *
4812 TTTGAATTAAAAACATATTTACGTAAAAAATGTTTCTCTCTTGGTTGTTAGACGAACTTTCGAAC
325 TTTGAATTAAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGCCGAACTTTCGAAC
* **
4877 TTGTCAAACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAA
390 TTGTCAAACTTTTACGAGTTCATGAATAACTTTGATTCC-TAA
* ** * * * *
4920 AGTATTCAAGACAATCCATTCCATT-GAGCAATTTTCAGAACATTCCATCCTC-AGGAAATTGTA
1 AGTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTTGAACATTCCATGCTCGA-AAAATCGCA
* * * *
4983 CCATTTAGTCCAAATAGTTTGTCATTTTATAAACAACTTTTGGTCTTTGAATTAAAAACATATTT
64 TCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
* *
5048 AAGTGAGAATTGTTTATCTCTTGGTTCTT-G--G--C---CGAAC-T-T-----TTTTACGAGTT
129 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTT
** ** * * *
5098 CTTGAATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCATCTAGCAA-TTTTCTGAA-
194 CTTTTATAACTTCAGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTC-GAAC
* * * * * * *
5161 TTTTCATGCTCGGGAAATCGTATCATTTGGTCCAAATAGTTTTTCATTTGGTAAACAACTTTTTG
258 ATTCCATGCTCAGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* * * * *
5226 TCATTGAATTAAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTCCTTGGTCGAACTTCCAA
323 TCTTTGAATTAAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGCCGAACTTTCGA
* * **
5291 ACTTGTCAAACTTTTACGTGTT-TTAGAATAACTTCAATTCCTTAA
388 ACTTGTCAAACTTTTACGAGTTCAT-GAATAACTTTGATTCC-TAA
* * * *
5336 AGTATTCAAGACGATCCATTCCATCGAGCAAATTTTTGAACATTCCATGCT-TAAGAAATCACAT
1 AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGAA-AAATCGCAT
* * * **
5400 CTTTTGGTCCAAATAGTTTGTCA-TCTGTAAACAACTTTTTGTCTTTGAATTAAAAACCCATTTA
65 CATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
5464 CGTGAGAATTGTTTCTCTCTTTGTTCTTGGCCGAACATCCGAACTTATCAAACTTTTATGAGTTC
130 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC
* *
5529 TTTTATAACTTCAATTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAA-TTTTCTAAACA
195 TTTTATAACTTCAGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTC-GAACA
** * **
5593 ACCCATGCTC-GAGAAATTGCATCATTTATTCCAAATAG--TGTCATTTTGTAAACAACTTTTGG
259 TTCCATGCTCAG-GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* * **
5655 TCTTTGAATTAAAAACTTATTTACGTTAGAATTATTTGTCTCTT-GTTCTTGGCTAAACTTTCGA
323 TCTTTGAATTAAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGCCGAACTTTCGA
*
5719 ACTTGTCAAACATTTACG
388 ACTTGTCAAACTTTTACG
5737 CATCATTTGG
Statistics
Matches: 2120, Mismatches: 306, Indels: 174
0.82 0.12 0.07
Matches are distributed among these distances:
409 6 0.00
410 40 0.02
411 125 0.06
412 14 0.01
415 64 0.03
416 169 0.08
417 160 0.08
418 159 0.08
419 257 0.12
420 47 0.02
421 1 0.00
423 8 0.00
424 3 0.00
425 6 0.00
426 132 0.06
427 6 0.00
428 53 0.03
429 64 0.03
430 264 0.12
431 83 0.04
432 97 0.05
433 352 0.17
434 10 0.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (431 bp):
AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGAAAAATCGCATC
ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAC
GTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCT
TTTATAACTTCAGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAACATT
CCATGCTCAGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
TTGAATTAAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGCCGAACTTTCGAACT
TGTCAAACTTTTACGAGTTCATGAATAACTTTGATTCCTAA
Found at i:4908 original size:210 final size:211
Alignment explanation
Indices: 4504--5087 Score: 629
Period size: 210 Copynumber: 2.7 Consensus size: 211
4494 ACTATTTAAG
* * * *
4504 ACAATCCATTTCATCGAGCAAATTTT-AAAAAATTCCATGCTTG-GAAAATCGCATCATTTGGTC
1 ACAATCCATTCCATTGAGC-AATTTTCAGAACATTCCATGCTTGAGAAAAT-GCATCATTTGGTC
* * *
4567 CAAATAGTTTGTCATTTTGTAAACAACTATTGATCTTTGAATTAAAAACTTATTTATGTGAGAAT
64 CAAATAGTTTGTCA-TTT-T--ATAACTATTG-TCTTTGAATTAAAAACATATTTAAGTGAGAAT
* *
4632 TGTTTGTCTCTAGGTTCTTGGCCGAACTTTAGAACTCGTCAAACTTTTACGAGTTCTTGAATAAC
124 TGTTTATCTCTTGGTTCTTGGCCGAACTTTAGAACTCGTCAAACTTTTACGAGTTCTTGAATAAC
*
4697 TTGGGTTCCTTAAAATATTCAAA
189 TTGGATTCCTTAAAATATTCAAA
** * * * * * *
4720 ATGATTCATTCCTTTGTGTAATTTTCCGAACTTTCCATGCTTGAGAAAATGCATCATTTGGTCCA
1 ACAATCCATTCCATTGAGCAATTTTCAGAACATTCCATGCTTGAGAAAATGCATCATTTGGTCCA
* * * * * * *
4785 AATAGTTTGTCCTTTT-T-TCTATTAGTCTTTGAATTAAAAACATATTTACGTAAAAAATGTTTC
66 AATAGTTTGTCATTTTATAACTATT-GTCTTTGAATTAAAAACATATTTAAGTGAGAATTGTTTA
* * * * * ** *
4848 TCTCTTGGTTGTTAGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGAT
130 TCTCTTGGTTCTTGGCCGAACTTTAGAACTCGTCAAACTTTTACGAGTTCTTGAATAACTTGGAT
* *
4913 TCCTTAAAGTATTCAAG
195 TCCTTAAAATATTCAAA
* * * * * *
4930 ACAATCCATTCCATTGAGCAATTTTCAGAACATTCCAT-CCTCAGGAAATTGTACCATTTAGTCC
1 ACAATCCATTCCATTGAGCAATTTTCAGAACATTCCATGCTTGA-GAAAATGCATCATTTGGTCC
*
4994 AAATAGTTTGTCATTTTATAAACAACTTTTGGTCTTTGAATTAAAAACATATTTAAGTGAGAATT
65 AAATAGTTTGTCATTTTAT----AACTATT-GTCTTTGAATTAAAAACATATTTAAGTGAGAATT
5059 GTTTATCTCTTGGTTCTTGGCCGAACTTT
125 GTTTATCTCTTGGTTCTTGGCCGAACTTT
5088 TTTACGAGTT
Statistics
Matches: 299, Mismatches: 59, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
209 3 0.01
210 169 0.57
211 2 0.01
214 1 0.00
215 9 0.03
216 109 0.36
217 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (211 bp):
ACAATCCATTCCATTGAGCAATTTTCAGAACATTCCATGCTTGAGAAAATGCATCATTTGGTCCA
AATAGTTTGTCATTTTATAACTATTGTCTTTGAATTAAAAACATATTTAAGTGAGAATTGTTTAT
CTCTTGGTTCTTGGCCGAACTTTAGAACTCGTCAAACTTTTACGAGTTCTTGAATAACTTGGATT
CCTTAAAATATTCAAA
Found at i:5782 original size:127 final size:128
Alignment explanation
Indices: 5635--5864 Score: 349
Period size: 127 Copynumber: 1.8 Consensus size: 128
5625 AAATAGTGTC
* *
5635 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTTAGAATTATTTGTCTCTT-
1 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTTG
*
5699 GTTCTTGG-CTAAACTTTCGAACTTGTCAAACATTTACGCATCATTTGGTCTAAATAGTTTTTG
66 GTTCTTGGAC-AAACTTTCGAACTTATCAAACATTTACGCATCATTTGGTCTAAATAGTTTTTG
* * *
5762 ATTTTGTAAACAA-TGTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTTTCTT
1 ATTTTGTAAACAACT-TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTT
* *
5826 GGTTCTTGGACGAACTTTCGAACTTATCAAACTTTTACG
65 GGTTCTTGGACAAACTTTCGAACTTATCAAACATTTACG
5865 AGTTCTTTTA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
126 1 0.01
127 57 0.62
128 33 0.36
129 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (128 bp):
ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTTG
GTTCTTGGACAAACTTTCGAACTTATCAAACATTTACGCATCATTTGGTCTAAATAGTTTTTG
Found at i:8924 original size:11 final size:10
Alignment explanation
Indices: 8887--8927 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
8877 ACACACAATT
8887 TTTTCATCTCA
1 TTTTC-TCTCA
8898 TTTTCT-TC-
1 TTTTCTCTCA
8906 TTTTCTCTCA
1 TTTTCTCTCA
8916 TTCTTCTCTCA
1 TT-TTCTCTCA
8927 T
1 T
8928 GTTTTTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 6 0.22
9 4 0.15
10 3 0.11
11 14 0.52
ACGTcount: A:0.10, C:0.29, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTCTCTCA
Found at i:20291 original size:42 final size:43
Alignment explanation
Indices: 20215--20298 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
20205 ATTCAGAAAT
*
20215 AGTGCAAACTTCTATCGATACCTATCATAGTTCTACCGATACA
1 AGTGCAAACTTCTATCGATAACTATCATAGTTCTACCGATACA
*
20258 AGTG-AAACTTCTATCGA-AACTAGTCAT-GCTTCTACCTATAC
1 AGTGCAAACTTCTATCGATAACTA-TCATAG-TTCTACCGATAC
20299 TAAAAACTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 5 0.14
42 28 0.76
43 4 0.11
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (43 bp):
AGTGCAAACTTCTATCGATAACTATCATAGTTCTACCGATACA
Found at i:23842 original size:18 final size:17
Alignment explanation
Indices: 23795--23843 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
23785 CCACGAACTA
23795 TTTTTT-TATTTTTTCT
1 TTTTTTGTATTTTTTCT
*
23811 TTTTCTCGTA-TTTTTCT
1 TTTT-TTGTATTTTTTCT
23828 TTTTTTGTACTTTTTT
1 TTTTTTGTA-TTTTTT
23844 TTATCACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 8 0.30
17 12 0.44
18 7 0.26
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTTTGTATTTTTTCT
Found at i:26662 original size:48 final size:48
Alignment explanation
Indices: 26602--26739 Score: 213
Period size: 48 Copynumber: 2.9 Consensus size: 48
26592 GTTGTTTATT
* * * *
26602 TATGCTTCATTAAGTGTTTTTTTTGTTAAACGCATCTTTGTTTAATAA
1 TATGCATCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTCAATAA
* *
26650 TATTCATCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTCAGTAA
1 TATGCATCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTCAATAA
*
26698 TATGCATCATTAACTGTTTTGTTTGTTAAATGCATCTTTGTT
1 TATGCATCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTT
26740 AAATGCCTTG
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (48 bp):
TATGCATCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTCAATAA
Found at i:27912 original size:14 final size:14
Alignment explanation
Indices: 27893--27927 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27883 AATGTTAAAA
*
27893 TTTTATACCCAAAT
1 TTTTATAACCAAAT
*
27907 TTTTATAACCAACT
1 TTTTATAACCAAAT
27921 TTTTATA
1 TTTTATA
27928 GGATGCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTTATAACCAAAT
Found at i:39753 original size:13 final size:13
Alignment explanation
Indices: 39735--39767 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
39725 CACTTCAATT
*
39735 GAAAGAGAGGAGA
1 GAAAGAGAGAAGA
39748 GAAAGAGAGAAGA
1 GAAAGAGAGAAGA
39761 -AAAGAGA
1 GAAAGAGA
39768 ATAAAATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (13 bp):
GAAAGAGAGAAGA
Found at i:40378 original size:15 final size:15
Alignment explanation
Indices: 40358--40387 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40348 CTAAATTAAT
*
40358 TTAATTAATTAAAAA
1 TTAATTAACTAAAAA
40373 TTAATTAACTAAAAA
1 TTAATTAACTAAAAA
40388 ATGGAATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAATTAACTAAAAA
Found at i:41430 original size:19 final size:19
Alignment explanation
Indices: 41408--41456 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
41398 ACATTAACCG
*
41408 TTGACCTTGATCGTTGACT
1 TTGACCTTGAACGTTGACT
** *
41427 TTGACAATGAACTTTGACT
1 TTGACCTTGAACGTTGACT
41446 TTGACCGTTGA
1 TTGACC-TTGA
41457 CTTTTTTACC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (19 bp):
TTGACCTTGAACGTTGACT
Found at i:45043 original size:22 final size:21
Alignment explanation
Indices: 45018--45060 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45008 TTATTAAAAC
45018 AATGTATTTTGCCTTTTAACTT
1 AATG-ATTTTGCCTTTTAACTT
* *
45040 AATGGTTTTGGCTTTTAACTT
1 AATGATTTTGCCTTTTAACTT
45061 TATAAAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.53
Consensus pattern (21 bp):
AATGATTTTGCCTTTTAACTT
Found at i:45625 original size:21 final size:20
Alignment explanation
Indices: 45586--45626 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45576 TAAACAAGTA
* *
45586 ACTTTTGAAAGAAATTTTTT
1 ACTTTTCAAAAAAATTTTTT
45606 ACTTTTCAAAAAATATTTTTT
1 ACTTTTCAAAAAA-ATTTTTT
45627 CCAAATGACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (20 bp):
ACTTTTCAAAAAAATTTTTT
Found at i:46801 original size:25 final size:23
Alignment explanation
Indices: 46773--46818 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
46763 GTTGGATCCA
46773 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
46798 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
46819 CTCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:48892 original size:23 final size:23
Alignment explanation
Indices: 48860--48915 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
48850 TAGTGCATAA
48860 TAAAA-TAAAATGAAACTAAAAC
1 TAAAACTAAAATGAAACTAAAAC
*
48882 TAAAACTAAAATTAAACTAAAAC
1 TAAAACTAAAATGAAACTAAAAC
48905 TAAAACTAAAA
1 TAAAACTAAAA
48916 ATAAAAATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 5 0.16
23 27 0.84
ACGTcount: A:0.68, C:0.11, G:0.02, T:0.20
Consensus pattern (23 bp):
TAAAACTAAAATGAAACTAAAAC
Found at i:48898 original size:17 final size:17
Alignment explanation
Indices: 48872--48914 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
48862 AAATAAAATG
48872 AAACTAAAACTAAAACTA
1 AAACT-AAACTAAAACTA
*
48890 AAATTAAACTAAAACTA
1 AAACTAAACTAAAACTA
48907 AAACTAAA
1 AAACTAAA
48915 AATAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (17 bp):
AAACTAAACTAAAACTA
Found at i:48922 original size:7 final size:6
Alignment explanation
Indices: 48861--48973 Score: 77
Period size: 6 Copynumber: 18.3 Consensus size: 6
48851 AGTGCATAAT
* * * * * * *
48861 AAAAT- AAAATG AAACTA AAACTA AAACT- AAAATT AAACTA AAACTA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
48907 AAACTA AAAATA AAAATG AAAATGA AAAATGA AAAATGA AAAATAAA AAAATG
1 AAAATA AAAATA AAAATA AAAAT-A AAAAT-A AAAAT-A AAAAT--A AAAATA
48960 AAAATA AAAATA AA
1 AAAATA AAAATA AA
48974 TGTACTAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
5 9 0.10
6 59 0.63
7 19 0.20
8 6 0.06
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:48942 original size:14 final size:14
Alignment explanation
Indices: 48912--48963 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
48902 AACTAAAACT
48912 AAAAAT-AAAAATG
1 AAAAATGAAAAATG
48925 -AAAATGAAAAATG
1 AAAAATGAAAAATG
*
48938 AAAAATGAAAAATAA
1 AAAAATGAAAAAT-G
48953 AAAAATGAAAA
1 AAAAATGAAAA
48964 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
12 5 0.14
13 7 0.20
14 12 0.34
15 11 0.31
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:48956 original size:15 final size:15
Alignment explanation
Indices: 48925--48969 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 15
48915 AATAAAAATG
*
48925 AAAATGAAAAAT-GA
1 AAAATGAAAAATAAA
48939 AAAATGAAAAATAAA
1 AAAATGAAAAATAAA
48954 AAAATG-AAAATAAA
1 AAAATGAAAAATAAA
48968 AA
1 AA
48970 TAAATGTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 22 0.76
15 7 0.24
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (15 bp):
AAAATGAAAAATAAA
Found at i:48968 original size:20 final size:20
Alignment explanation
Indices: 48912--48973 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
48902 AACTAAAACT
* * *
48912 AAAAATAAAAATGAAAAT-G
1 AAAAATGAAAATAAAAATAA
48931 AAAAATGAAAAATGAAAAATAA
1 AAAAATG-AAAAT-AAAAATAA
48953 AAAAATGAAAATAAAAATAA
1 AAAAATGAAAATAAAAATAA
48973 A
1 A
48974 TGTACTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.16
20 14 0.38
21 10 0.27
22 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (20 bp):
AAAAATGAAAATAAAAATAA
Found at i:49032 original size:11 final size:10
Alignment explanation
Indices: 48979--49029 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
48969 ATAAATGTAC
48979 TAATTTTTGTT
1 TAATTTTT-TT
*
48990 TAA-ATTTTT
1 TAATTTTTTT
*
48999 TACTTTTTTT
1 TAATTTTTTT
49009 TAATTTTTTT
1 TAATTTTTTT
49019 TAATTTTTTT
1 TAATTTTTTT
49029 T
1 T
49030 TAAAAATAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 4 0.11
10 28 0.80
11 3 0.09
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (10 bp):
TAATTTTTTT
Found at i:49091 original size:32 final size:32
Alignment explanation
Indices: 49048--49111 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
49038 ACATGAAAGT
*
49048 AAAATAGATAATTAAAAATAAAAACACTCGGG
1 AAAATAAATAATTAAAAATAAAAACACTCGGG
49080 AAAATAAATAATTAAAAATAAAAACACTCGGG
1 AAAATAAATAATTAAAAATAAAAACACTCGGG
49112 TTGCCTCCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (32 bp):
AAAATAAATAATTAAAAATAAAAACACTCGGG
Found at i:51293 original size:21 final size:21
Alignment explanation
Indices: 51249--51297 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
51239 CCCAAGAAAA
* *
51249 TTCTACCAATATAAGTGAGAC
1 TTCTACCAAAATAAGTCAGAC
51270 TTCTACCAAAATAAGTCATG-C
1 TTCTACCAAAATAAGTCA-GAC
51291 TTCTACC
1 TTCTACC
51298 GATACTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (21 bp):
TTCTACCAAAATAAGTCAGAC
Found at i:51457 original size:21 final size:21
Alignment explanation
Indices: 51433--51472 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51423 TACCCTGTAC
* *
51433 TTCTACCGATACATGTATGAG
1 TTCTACCGAAACAAGTATGAG
51454 TTCTACCGAAACAAGTATG
1 TTCTACCGAAACAAGTATG
51473 CAGAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (21 bp):
TTCTACCGAAACAAGTATGAG
Found at i:55008 original size:18 final size:19
Alignment explanation
Indices: 54976--55011 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
54966 AAACAAAGTA
54976 GAGAAAAAAAGAAAAATAC
1 GAGAAAAAAAGAAAAATAC
*
54995 GAGAAAAATA-AAAAATA
1 GAGAAAAAAAGAAAAATA
55012 AAAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.75, C:0.03, G:0.14, T:0.08
Consensus pattern (19 bp):
GAGAAAAAAAGAAAAATAC
Found at i:56638 original size:12 final size:12
Alignment explanation
Indices: 56623--56663 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
56613 TCTCAAGAGA
56623 AAAAAGAAAATG
1 AAAAAGAAAATG
*
56635 AAAAACAAGAA-G
1 AAAAAGAA-AATG
56647 AAAAAGAAAATG
1 AAAAAGAAAATG
56659 AAAAA
1 AAAAA
56664 CAAGAAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:56643 original size:24 final size:24
Alignment explanation
Indices: 56623--56671 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
56613 TCTCAAGAGA
56623 AAAAAGAAAATGAAAAACAAGAAG
1 AAAAAGAAAATGAAAAACAAGAAG
56647 AAAAAGAAAATGAAAAACAAGAAG
1 AAAAAGAAAATGAAAAACAAGAAG
56671 A
1 A
56672 TGTCCATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAATGAAAAACAAGAAG
Found at i:60965 original size:17 final size:17
Alignment explanation
Indices: 60945--60979 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
60935 GTGGACATTT
60945 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
60962 TAAATTTAAATTTGAAA
1 TAAATTTAAATTTAAAA
60979 T
1 T
60980 TATTTGGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:60979 original size:7 final size:6
Alignment explanation
Indices: 60943--60980 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
60933 TTGTGGACAT
*
60943 TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTGAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TT
60981 ATTTGGGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 4 0.14
6 19 0.68
7 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:61773 original size:39 final size:39
Alignment explanation
Indices: 61676--61942 Score: 206
Period size: 39 Copynumber: 6.8 Consensus size: 39
61666 AGACTGGTTG
* *
61676 ATGGTGATCTGCCCTAGGCTTGGGGTAAGAGATTCGA-TA
1 ATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATT-GACTA
* * * * * *
61715 GTTGTAATCTGCTCTAGGCTCGGGGTAAGAGATTGACCA
1 ATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATTGACTA
* * * *
61754 ATGGTGATTTGCCCCAGGCTCGAGGTAAAAGA-T--CGA
1 ATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATTGACTA
*
61790 ATGGCTGCAATCTGTCCCAGGCTCGGGGTAAGAGATTGACTA
1 ATGG-TG--ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTA
* * * **
61832 ATGGTGATCTACCCCAGGCTCGGAGTAAAAGA-T--CGG
1 ATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATTGACTA
* * *
61868 ATGGTTGCAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTG
1 ATGG-TG--ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTA
* * *
61910 ATGGTGATCTGCCTCAAGCTCGGGGTAAAAGAT
1 ATGGTGATCTGCCCCAGGCTCGGGGTAAGAGAT
61943 CGAATGGTCG
Statistics
Matches: 182, Mismatches: 33, Indels: 26
0.76 0.14 0.11
Matches are distributed among these distances:
36 11 0.06
37 4 0.02
38 4 0.02
39 145 0.80
40 2 0.01
41 4 0.02
42 12 0.07
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (39 bp):
ATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATTGACTA
Found at i:61798 original size:156 final size:156
Alignment explanation
Indices: 61597--61976 Score: 442
Period size: 156 Copynumber: 2.4 Consensus size: 156
61587 TTAAAGCTCG
* * * * *
61597 AATGGTGATCTACCCCAAGCTCGAGGTAAAAGATCGGACGACTGCAATCTTCCCCAAGCTCAAGG
1 AATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGGCTGCAATCTTCCCCAAGCTCGAGG
** * * * * * * * *
61662 TAAGAGACTGGTTGATGGTGATCTGCCCTAGGCTTGGGGTAAGAGATTC-GATAGTTGTAATCTG
66 TAAGAGACTGACTAATGGTGATCTACCCCAGGCTCGGAGTAAAAGA-TCGGATAGTTGCAATCTA
* *
61726 CTCTAGGCTCGGGGTAAGAGATTGACC
130 CCCCAGGCTCGGGGTAAGAGATTGACC
* * * *
61753 AATGGTGATTTGCCCCAGGCTCGAGGTAAAAGATCGAATGGCTGCAATCTGT-CCCAGGCTCGGG
1 AATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGGCTGCAATCT-TCCCCAAGCTCGAG
* *
61817 GTAAGAGATTGACTAATGGTGATCTACCCCAGGCTCGGAGTAAAAGATCGGATGGTTGCAATCTA
65 GTAAGAGACTGACTAATGGTGATCTACCCCAGGCTCGGAGTAAAAGATCGGATAGTTGCAATCTA
* *
61882 CCCCAGGCTCGGGGTAAGAGATTGGCT
130 CCCCAGGCTCGGGGTAAGAGATTGACC
* * * * *
61909 GATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGAATGG-TCGTAATCTACCCCAAGCTCGAG
1 AATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGGCT-GCAATCTTCCCCAAGCTCGAG
61973 GTAA
65 GTAA
61977 AAGATCAGAT
Statistics
Matches: 186, Mismatches: 34, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
155 3 0.02
156 182 0.98
157 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (156 bp):
AATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGGCTGCAATCTTCCCCAAGCTCGAGG
TAAGAGACTGACTAATGGTGATCTACCCCAGGCTCGGAGTAAAAGATCGGATAGTTGCAATCTAC
CCCAGGCTCGGGGTAAGAGATTGACC
Found at i:61886 original size:117 final size:113
Alignment explanation
Indices: 61765--62097 Score: 312
Period size: 117 Copynumber: 2.8 Consensus size: 113
61755 TGGTGATTTG
* * *
61765 CCCCAGGCTCGAGGTAAAAGATCGAATGGCTGCAATCTGTCC-CAGGCTCGGGGTAAGAGATTGA
1 CCCCAGGCTCGAGGTAAAAGATCG-ATGG-TG--ATCTG-CCTCAAGCTCGGGGTAAAAGATCGA
* * * * *
61829 CTAATGGTGATCTACCCCAGGCTCG-GAGTAAAAGATCGGATGGTTGCAATCTA
61 ATAATCGTAATCTACCCCAAGCTCGAG-GTAAAAGATCAGATGGTTGCAATCTA
* *
61882 CCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGAA
1 CCCCAGGCTCGAGGTAAAAGA-T--C-GATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGAA
** *
61947 TGGTCGTAATCTACCCCAAGCTCGAGGTAAAAGATCAGATGGTTGCAATCTG
62 TAATCGTAATCTACCCCAAGCTCGAGGTAAAAGATCAGATGGTTGCAATCTA
* * * *
61999 CCCCAAGCTC-AGGGTAAAAGATCGCTGACGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGAA
1 CCCCAGGCTCGA-GGTAAAAGAT--C-GATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGAA
** * * * *
62063 TGGTTGCAATCTGCCTCAAGCTCGAGGTAAAAGAT
62 TAATCGTAATCTACCCCAAGCTCGAGGTAAAAGAT
62098 TGGAATCTTC
Statistics
Matches: 185, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
116 72 0.39
117 103 0.56
118 2 0.01
119 2 0.01
120 5 0.03
121 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (113 bp):
CCCCAGGCTCGAGGTAAAAGATCGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGAATAAT
CGTAATCTACCCCAAGCTCGAGGTAAAAGATCAGATGGTTGCAATCTA
Found at i:61958 original size:78 final size:78
Alignment explanation
Indices: 61598--62022 Score: 367
Period size: 78 Copynumber: 5.4 Consensus size: 78
61588 TAAAGCTCGA
* * * * * * * **
61598 ATGGTGATCTACCCCAAGCTCGAGGTAAAAGATCGGA-CGACTGCAATCTTCCCCAAGCTCAAGG
1 ATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTC-GCAATCTACCCCAGGCTCGGGG
* **
61662 TAAGAGACTGGTTG
65 TAAGAGATTGACTG
* * * * * * * * * *
61676 ATGGTGATCTGCCCTAGGCTTGGGGTAAGAGATTCG-ATAGTTGTAATCTGCTCTAGGCTCGGGG
1 ATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA-TCGAATGGTCGCAATCTACCCCAGGCTCGGGG
**
61740 TAAGAGATTGACCA
65 TAAGAGATTGACTG
* * * **
61754 ATGGTGATTTGCCCCAGGCTCGAGGTAAAAGATCGAATGG-CTGCAATCTGTCCCAGGCTCGGGG
1 ATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTC-GCAATCTACCCCAGGCTCGGGG
*
61818 TAAGAGATTGACTA
65 TAAGAGATTGACTG
* * * * *
61832 ATGGTGATCTACCCCAGGCTCGGAGTAAAAGATCGGATGGTTGCAATCTACCCCAGGCTCGGGGT
1 ATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTCGCAATCTACCCCAGGCTCGGGGT
*
61897 AAGAGATTGGCTG
66 AAGAGATTGACTG
* * * *
61910 ATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGAATGGTCGTAATCTACCCCAAGCTCGAGGT
1 ATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTCGCAATCTACCCCAGGCTCGGGGT
* *
61975 AAAAGA-T--CAG
66 AAGAGATTGACTG
*
61985 ATGGTTGCAATCTGCCCCAAGCTCAGGGTAAAAGATCG
1 ATGG-TG--ATCTGCCCCAAGCTCGGGGTAAAAGATCG
62023 CTGACGGTGA
Statistics
Matches: 283, Mismatches: 56, Indels: 16
0.80 0.16 0.05
Matches are distributed among these distances:
75 6 0.02
76 2 0.01
77 4 0.01
78 267 0.94
79 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (78 bp):
ATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTCGCAATCTACCCCAGGCTCGGGGT
AAGAGATTGACTG
Found at i:61967 original size:39 final size:39
Alignment explanation
Indices: 61763--62097 Score: 245
Period size: 39 Copynumber: 8.6 Consensus size: 39
61753 AATGGTGATT
*
61763 TGCCCCAGGCTCGAGGTAAAAGATCGAATGG-CTGCAATC
1 TGCCCCAGGCTCGGGGTAAAAGATCGAATGGTC-GCAATC
* * *
61802 TGTCCCAGGCTCGGGGTAAGAGATTGACTAATGGT-G--ATC
1 TGCCCCAGGCTCGGGGTAAAAGA-T--CGAATGGTCGCAATC
* * * *
61841 TACCCCAGGCTCGGAGTAAAAGATCGGATGGTTGCAATC
1 TGCCCCAGGCTCGGGGTAAAAGATCGAATGGTCGCAATC
* * * ** * * **
61880 TACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATC
1 TGCCCCAGGCTCGGGGTAAAAGATCGAATGGTCGCAATC
* * *
61919 TGCCTCAAGCTCGGGGTAAAAGATCGAATGGTCGTAATC
1 TGCCCCAGGCTCGGGGTAAAAGATCGAATGGTCGCAATC
* * * *
61958 TACCCCAAGCTCGAGGTAAAAGATC-AGATGGTTGCAATC
1 TGCCCCAGGCTCGGGGTAAAAGATCGA-ATGGTCGCAATC
* * * *
61997 TGCCCCAAGCTCAGGGTAAAAGATCGCTGACGGT-G--ATC
1 TGCCCCAGGCTCGGGGTAAAAGATCG--AATGGTCGCAATC
* * *
62035 TGCCTCAGGCTCGAGGTAAAAGATCGAATGGTTGCAATC
1 TGCCCCAGGCTCGGGGTAAAAGATCGAATGGTCGCAATC
* * *
62074 TGCCTCAAGCTCGAGGTAAAAGAT
1 TGCCCCAGGCTCGGGGTAAAAGAT
62098 TGGAATCTTC
Statistics
Matches: 237, Mismatches: 45, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
36 10 0.04
37 2 0.01
38 27 0.11
39 185 0.78
40 2 0.01
41 5 0.02
42 6 0.03
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.21
Consensus pattern (39 bp):
TGCCCCAGGCTCGGGGTAAAAGATCGAATGGTCGCAATC
Found at i:62083 original size:116 final size:117
Alignment explanation
Indices: 61838--62097 Score: 371
Period size: 116 Copynumber: 2.2 Consensus size: 117
61828 ACTAATGGTG
* * * * *
61838 ATCTACCCCAGGCTCG-GAGTAAAAGATCGGATGGTTGCAATCTACCCCAGGCTCGGGGTAAGAG
1 ATCTACCCCAAGCTCGAG-GTAAAAGATCAGATGGTTGCAATCTACCCCAAGCTCAGGGTAAAAG
* * * *
61902 ATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCGAATGGTCGTA
65 ATTCGCTGACGGTGATCTGCCTCAAGCTCGAGGTAAAAGATCGAATGGTCGCA
*
61955 ATCTACCCCAAGCTCGAGGTAAAAGATCAGATGGTTGCAATCTGCCCCAAGCTCAGGGTAAAAGA
1 ATCTACCCCAAGCTCGAGGTAAAAGATCAGATGGTTGCAATCTACCCCAAGCTCAGGGTAAAAGA
* *
62020 -TCGCTGACGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGAATGGTTGCA
66 TTCGCTGACGGTGATCTGCCTCAAGCTCGAGGTAAAAGATCGAATGGTCGCA
* *
62071 ATCTGCCTCAAGCTCGAGGTAAAAGAT
1 ATCTACCCCAAGCTCGAGGTAAAAGAT
62098 TGGAATCTTC
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
116 70 0.55
117 57 0.45
118 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (117 bp):
ATCTACCCCAAGCTCGAGGTAAAAGATCAGATGGTTGCAATCTACCCCAAGCTCAGGGTAAAAGA
TTCGCTGACGGTGATCTGCCTCAAGCTCGAGGTAAAAGATCGAATGGTCGCA
Found at i:62113 original size:77 final size:77
Alignment explanation
Indices: 61916--62113 Score: 201
Period size: 77 Copynumber: 2.6 Consensus size: 77
61906 GCTGATGGTG
* * * *
61916 ATCTGCCTCAAGCTCGGGGTAAAAGA-TCGAATGGTCGTAATCTACCCCAAGCTCGAGGTAAAAG
1 ATCTGCCTCAAGCTCGAGGTAAAAGATTGGAATCGTC--AATCTGCCCCAAGCTCGAGGTAAAAG
61980 ATCAGATGGTTGCA
64 ATCAGATGGTTGCA
* * * * *
61994 ATCTGCCCCAAGCTC-AGGGTAAAAGATCGCTG-A-CGGT-GATCTGCCTCAGGCTCGAGGTAAA
1 ATCTGCCTCAAGCTCGA-GGTAAAAGATTG--GAATC-GTCAATCTGCCCCAAGCTCGAGGTAAA
62055 AGATC-GAATGGTTGCA
62 AGATCAG-ATGGTTGCA
*
62071 ATCTGCCTCAAGCTCGAGGTAAAAGATTGGAATCTTCAATCTG
1 ATCTGCCTCAAGCTCGAGGTAAAAGATTGGAATCGTCAATCTG
62114 TCCTTCTTGA
Statistics
Matches: 97, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
75 1 0.01
76 3 0.03
77 65 0.67
78 24 0.25
80 3 0.03
81 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (77 bp):
ATCTGCCTCAAGCTCGAGGTAAAAGATTGGAATCGTCAATCTGCCCCAAGCTCGAGGTAAAAGAT
CAGATGGTTGCA
Found at i:79227 original size:37 final size:37
Alignment explanation
Indices: 79148--79270 Score: 108
Period size: 37 Copynumber: 3.3 Consensus size: 37
79138 AGCACCTCTA
* * *
79148 AATTGCGCCCAAAACTATCACTGTATTAAA-A--CTTC
1 AATTGCACCCAAAACTATCGCTGCA-TAAATATTCTTC
79183 TAGATTGCACCCAAAACTATCGCTGCATAAATATTCTTC
1 -A-ATTGCACCCAAAACTATCGCTGCATAAATATTCTTC
* * ** * *
79222 AATTGCATCTAGGATTATCGCTGCATAAGTATTCTTC
1 AATTGCACCCAAAACTATCGCTGCATAAATATTCTTC
*
79259 AACTGCACCCAA
1 AATTGCACCCAA
79271 GAATGTCGTT
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
36 5 0.07
37 60 0.86
38 1 0.01
39 4 0.06
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (37 bp):
AATTGCACCCAAAACTATCGCTGCATAAATATTCTTC
Found at i:79284 original size:37 final size:37
Alignment explanation
Indices: 79188--79284 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 37
79178 ACTTCTAGAT
*
79188 TGCACCCAA-AACTATCGCTGCATAAATATTCTTCAAT
1 TGCACCCAAGAA-TATCGCTGCATAAATATTCTTCAAC
* * * * *
79225 TGCATCTAGGATTATCGCTGCATAAGTATTCTTCAAC
1 TGCACCCAAGAATATCGCTGCATAAATATTCTTCAAC
* *
79262 TGCACCCAAGAATGTCGTTGCAT
1 TGCACCCAAGAATATCGCTGCAT
79285 GAACATGTCT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
37 46 0.98
38 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (37 bp):
TGCACCCAAGAATATCGCTGCATAAATATTCTTCAAC
Found at i:79310 original size:26 final size:25
Alignment explanation
Indices: 79280--79331 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
79270 AGAATGTCGT
*
79280 TGCATGAACATGTCTAGAATTGACAC
1 TGCATGAACATGTCCAGAATTG-CAC
*
79306 TGCATGAACGTGTCCAGAATTGCAC
1 TGCATGAACATGTCCAGAATTGCAC
79331 T
1 T
79332 CAGAATTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
TGCATGAACATGTCCAGAATTGCAC
Found at i:81964 original size:17 final size:17
Alignment explanation
Indices: 81942--81978 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
81932 TTGCAGTATA
*
81942 ATTGTCCCTATATTTTT
1 ATTGTCACTATATTTTT
*
81959 ATTGTCACTGTATTTTT
1 ATTGTCACTATATTTTT
81976 ATT
1 ATT
81979 ACTGTTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.08, T:0.59
Consensus pattern (17 bp):
ATTGTCACTATATTTTT
Found at i:83231 original size:37 final size:37
Alignment explanation
Indices: 83135--83231 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
83125 ATTTCCGAAA
* *
83135 TGCACCCAAGACTGTCGCTACATAAATATTCTTCAAT
1 TGCACCCAAGACTGTCACTGCATAAATATTCTTCAAT
* * * *
83172 TGCATCCAAGACTATCATTGCATAAGTATTCTTCAAT
1 TGCACCCAAGACTGTCACTGCATAAATATTCTTCAAT
* * *
83209 TTCACCCAGGAATGTCACTGCAT
1 TGCACCCAAGACTGTCACTGCAT
83232 GAACATATCC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (37 bp):
TGCACCCAAGACTGTCACTGCATAAATATTCTTCAAT
Found at i:83250 original size:26 final size:26
Alignment explanation
Indices: 83221--83273 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
83211 CACCCAGGAA
83221 TGTCACTGCATGAACATATCCAGAAT
1 TGTCACTGCATGAACATATCCAGAAT
* * *
83247 TGTCATTGCATGAACGTGTCCAGAAT
1 TGTCACTGCATGAACATATCCAGAAT
83273 T
1 T
83274 ATGCCAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (26 bp):
TGTCACTGCATGAACATATCCAGAAT
Found at i:88166 original size:19 final size:20
Alignment explanation
Indices: 88142--88186 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
88132 AAAAATTATA
*
88142 AAAAATA-TTAATTTTTAAT
1 AAAAATATTTAAATTTTAAT
*
88161 AAAAATATTTAAATTTTATT
1 AAAAATATTTAAATTTTAAT
88181 AAAAAT
1 AAAAAT
88187 TAGTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATATTTAAATTTTAAT
Found at i:88219 original size:17 final size:18
Alignment explanation
Indices: 88193--88230 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
88183 AAATTAGTAA
88193 AAAAATTATAAATATTGT
1 AAAAATTATAAATATTGT
*
88211 AAAAA-TATAAATATTTT
1 AAAAATTATAAATATTGT
88228 AAA
1 AAA
88231 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAAATTATAAATATTGT
Found at i:88272 original size:57 final size:56
Alignment explanation
Indices: 88158--88272 Score: 128
Period size: 57 Copynumber: 2.0 Consensus size: 56
88148 ATTAATTTTT
* ***
88158 AATAAAAATATTTAAATTTTATTAAAAATTAGTAAAAAAATTATAAATATTGTAAA
1 AATAAAAATATTTAAATTTTATTAAAAATCAGTAAAAAAATTATAAATATCAAAAA
*
88214 AATATAAATATTTTAAATTTTATT-AAAATCA-TAAAAAAA-TATAAAATGCATCAAAAA
1 AATAAAAATA-TTTAAATTTTATTAAAAATCAGTAAAAAAATTAT-AAAT--ATCAAAAA
88271 AA
1 AA
88273 CTTTTAACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 3 0.06
55 12 0.24
56 15 0.30
57 20 0.40
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (56 bp):
AATAAAAATATTTAAATTTTATTAAAAATCAGTAAAAAAATTATAAATATCAAAAA
Found at i:94919 original size:216 final size:216
Alignment explanation
Indices: 94535--94927 Score: 662
Period size: 216 Copynumber: 1.8 Consensus size: 216
94525 TTCGATAGAA
*
94535 ACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGCAATTTT
1 ACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTACTTAGAGCAATTTT
* * *
94600 GTGAACATTCCATGCTCGGGAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAAG
66 GTGAACATTCCATGCTCGGGAAATCACAACATTTAGCCTAAATAGTTTGTCATTTTGTAAACAAG
* * * *
94665 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTTTGTTCTTGCATGAAC
131 TTTTAGTCATTGAATTAAAAACTTATTTACGAGAGAATTGTATCTCTTTTTGTTCTTGCATGAAC
94730 TTTCAAACTTGTCAAACTTTT
196 TTTCAAACTTGTCAAACTTTT
*
94751 ACGAGTTATTTTTTAACTTCGGTTCCTTAAAGTATTCAACAAGATCCATTACTTAGAGCAATTTT
1 ACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTACTTAGAGCAATTTT
* *
94816 -TCGAACATTCCATGCTTGGGAAATCACAACATTTAGTCTAAATAGTTTGTCATTTTGTAAACAA
66 GT-GAACATTCCATGCTCGGGAAATCACAACATTTAGCCTAAATAGTTTGTCATTTTGTAAACAA
*
94880 GTTTTAGTCATTGAATTAAAAACTTGTTTACGAGAGAATTGTATCTCT
130 GTTTTAGTCATTGAATTAAAAACTTATTTACGAGAGAATTGTATCTCT
94928 CTTGGTTCAT
Statistics
Matches: 164, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
215 1 0.01
216 163 0.99
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (216 bp):
ACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTACTTAGAGCAATTTT
GTGAACATTCCATGCTCGGGAAATCACAACATTTAGCCTAAATAGTTTGTCATTTTGTAAACAAG
TTTTAGTCATTGAATTAAAAACTTATTTACGAGAGAATTGTATCTCTTTTTGTTCTTGCATGAAC
TTTCAAACTTGTCAAACTTTT
Found at i:95033 original size:115 final size:115
Alignment explanation
Indices: 94831--95055 Score: 333
Period size: 115 Copynumber: 2.0 Consensus size: 115
94821 CATTCCATGC
94831 TTGGGAAATCACAACATTTAGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCATTGAAT
1 TTGGGAAATCACAACATTTAGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCATTGAAT
*
94896 TAAAAACTTGTTTACGAGAGAATTGTATCTCTCTTGGTTCATGGACGATT
66 TAAAAACTTATTTACGAGAGAATTGTATCTCTCTTGGTTCATGGACGATT
** * * * * *
94946 TTGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTATACAAGTTTTGGTCTTTGAAT
1 TTGGGAAATCACAACATTTAGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCATTGAAT
* * * * *
95011 TAAAATCTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGA
66 TAAAAACTTATTTACGAGAGAATTGTATCTCTCTTGGTTCATGGA
95056 TGAACTTTCG
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
115 97 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.43
Consensus pattern (115 bp):
TTGGGAAATCACAACATTTAGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCATTGAAT
TAAAAACTTATTTACGAGAGAATTGTATCTCTCTTGGTTCATGGACGATT
Found at i:95227 original size:331 final size:331
Alignment explanation
Indices: 94617--95274 Score: 1066
Period size: 331 Copynumber: 2.0 Consensus size: 331
94607 TTCCATGCTC
94617 GGGAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
*
94682 AAAACTTATTTACGTGAGAATTGTTTCTCTTTTTGTTCTTGCATGAACTTTCAAACTTGTCAAAC
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGCATGAACTTTCAAACTTGTCAAAC
* *
94747 TTTTACGAGTTATTTTTTAACTTCGGTTCCTTAAAGTATTCAACAAGATCCATTACTTAGAGCAA
131 TTTTACGAGTTATTTTTTAACTTCGATTCCCTAAAGTATTCAACAAGATCCATTACTTAGAGCAA
* *
94812 TTTTTCGAACATTCCATGCTTGGGAAATCACAACATTTAGTCTAAATAGTTTGTCATTTTGTAAA
196 TTTTTCGAACATTCCATGCTCGAGAAATCACAACATTTAGTCTAAATAGTTTGTCATTTTGTAAA
*
94877 CAAGTTTTAGTCATTGAATTAAAAACTTGTTTACGAGAGAATTGTATCTCTCTTGGTTCATGGAC
261 CAAGTTTTAGTCATTGAATTAAAAACTTATTTACGAGAGAATTGTATCTCTCTTGGTTCATGGAC
94942 GATTTT
326 GATTTT
* * *
94948 GGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTATACAAGTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * *
95013 AAATCTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGATGAACTTTCGAACTTGTCAAAC
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGCATGAACTTTCAAACTTGTCAAAC
* * *
95078 TTTTTCGAGTTATTTTTTAACTTCGATTCCCTAAAGTATTCAACAAGATTCATTCCTTAGAGCAA
131 TTTTACGAGTTATTTTTTAACTTCGATTCCCTAAAGTATTCAACAAGATCCATTACTTAGAGCAA
* * * *
95143 TTTTGT-GAACATTTCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
196 TTTT-TCGAACATTCCATGCTCGAGAAATCACAACATTTAGTCTAAATAGTTTGTCATTTTGTAA
* * * * * * *
95207 ACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTTTCTTTGTTCTTGGA
260 ACAAGTTTTAGTCATTGAATTAAAAACTTATTTACGAGAGAATTGTATCTCTCTTGGTTCATGGA
95272 CGA
325 CGA
95275 ATTTCCGAAC
Statistics
Matches: 300, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
331 299 1.00
332 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (331 bp):
GGGAAATCGCATCATTTGGCCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGCATGAACTTTCAAACTTGTCAAAC
TTTTACGAGTTATTTTTTAACTTCGATTCCCTAAAGTATTCAACAAGATCCATTACTTAGAGCAA
TTTTTCGAACATTCCATGCTCGAGAAATCACAACATTTAGTCTAAATAGTTTGTCATTTTGTAAA
CAAGTTTTAGTCATTGAATTAAAAACTTATTTACGAGAGAATTGTATCTCTCTTGGTTCATGGAC
GATTTT
Found at i:95331 original size:216 final size:215
Alignment explanation
Indices: 94948--96597 Score: 2227
Period size: 216 Copynumber: 7.7 Consensus size: 215
94938 GGACGATTTT
* *
94948 GGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTATACAAGTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* *
95013 AAATCTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGATGAACTTTCGAACTTGTCAAAC
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
* *
95078 TTTTTCGAGTTATTTTTTAACTTC-GATTCCCTAAAGTATTCAACAAGATTCATTCCTTAGAGCA
131 TTTTACGAGTTATTTTTTAACTTCGGA-TCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGCA
*
95142 ATTTTGTGAACATTTCATGCTC
195 ATTTT-TGAACATTCCATGCTC
*
95164 GAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
*
95229 AAAACTTATTTACGTGAGAATTGTTTCTTTCTTTGTTCTTGGACGAA-TTTCCGAACTTGTCAAA
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTT-CGAACTTGTCAAA
* * * * * * * *
95293 CTTTTACTAGTTCTTTTCTAACTTTGGATCCTTAAAGTATTCAAGAAGAT-CTTTCCTTTCGAGC
130 CTTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAACAAGATCCATTCC-TTAGAGC
*
95357 AATTTTCTGAACATTCCATGCTT
194 AATTTT-TGAACATTCCATGCTC
* * *
95380 GGGAAATCGCATCATTTGGTCTATATAATTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* *
95445 AAAA-TTA-TTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACAAACGTTCGAACTTGTCAAAC
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
** **
95508 TTTTACGAGTTA-TTTTTAACTTCGTTTCCCTAAAGTATTCAACAAGATCCATTTTTTAGAGCAA
131 TTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGC-A
*** * *
95572 ATTTCCAAACATTCCATCCTT
195 ATTTTTGAACATTCCATGCTC
* *
95593 GGGAAATCTCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTC
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
*
95658 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAAC
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
* * * * * * **
95723 TTTCACTAGTTCTTTTATAACTTCGGATCCTTAAAGTATTCAATACA-ATCCATTCCTTTTAGCA
131 TTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAACA-AGATCCATTCCTTAGAGCA
* *
95787 ATTTTTCGAATATTTCATGCTC
195 ATTTTT-GAACATTCCATGCTC
** * * * * * *
95809 GACAAATCACATCATTAGGTCTAAATAATTTGTAATTTTGCAAACAAGTTTTGGTCATTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * *
95874 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCAAACTTGTCCAAC
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
* *
95939 TTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAAATCCATTCCTTAGAGCAA
131 TTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGCAA
* *
96004 TTTTCCGAACATTCAATGCT-
196 TTTT-TGAACATTCCATGCTC
* * *
96024 ---AAATCCCATCATTTGATCTAAATA---TGTCATTTTGTAAACAAGTTTTGATCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * * *
96083 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTATTCTTGGACGAACTTCCGAGCTTGTCAAAT
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
* * * ** * * * *
96148 TTTTACTAATTCTTTGATAACTTCGGATCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA
131 TTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGCAA
96213 TTTTTCGAACATTCCATGCTC
196 TTTTT-GAACATTCCATGCTC
* * *
96234 GGGAAATCGCATCGTTTGGTTTAAATAGTTTGTCATTTTGTAAACAAGTTTTGATCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * *
96299 AAAACTTATTTACGTGAGAATTATTTCTCTCTTTG-TCTTTGTACGAACTTTTGAACTTGTCAAA
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTC-TTGGACGAACTTTCGAACTTGTCAAA
* *
96363 CTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGAT-CAGTTCCTTAGAGT
130 CTTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAACAAGATCCA-TTCCTTAGAGC
96427 AATTTTTCGAACATTCCATGCTC
194 AATTTTT-GAACATTCCATGCTC
* * * * *
96450 GGGAAATCACATCATTTGGTCTAAATAATCTGTCATTTTGCAAACAAGTTTTGCTCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * * *
96515 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTTTTCTTGAACAAACTTTTGAACTTGTCAAA-
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
96579 TTTTACGAGTTATTTTTTA
131 TTTTACGAGTTATTTTTTA
96598 CCTCGCCCTT
Statistics
Matches: 1260, Mismatches: 150, Indels: 49
0.86 0.10 0.03
Matches are distributed among these distances:
209 162 0.13
212 21 0.02
213 133 0.11
214 71 0.06
215 104 0.08
216 764 0.61
217 5 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (215 bp):
GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
TTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGCAA
TTTTTGAACATTCCATGCTC
Found at i:96405 original size:641 final size:641
Alignment explanation
Indices: 94948--96597 Score: 2339
Period size: 645 Copynumber: 2.6 Consensus size: 641
94938 GGACGATTTT
* *
94948 GGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTATACAAGTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* *
95013 AAATCTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGATGAACTTTCGAACTTGTCAAAC
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
* *
95078 TTTTTCGAGTTATTTTTTAACTTCGATTCCCTAAAGTATTCAACAAGATTCATTCCTTAGAGCAA
131 TTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGA-TCATTCCTTAGAGCAA
* * *
95143 TTTTGT-GAACATTTCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
195 TTTT-TCGAACATTTCATGCTCGAGAAATCACATCATTTGGTCTAAATAATTTGTCATTTTGCAA
*
95207 ACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTTTCTTTGTTCTTGGA
259 ACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGA
* * * * * * *
95272 CGAATTTCCGAACTTGTCAAACTTTTACTAGTTCTTTTCTAACTTTGGATCCTTAAAGTATTCAA
324 CGAACTTCCGAACTTGTCCAACTTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAA
* * * * * * * *
95337 GAAGATCTTTCCTTTCGAGCAATTTTCTGAACATTCCATGCTTGGGAAATCGCATCATTTGGTCT
389 CAAAATCATTCCTTTAGAGCAATTTTCCGAACATTCAATGCTT--GAAATCCCATCATTTGATC-
* *
95402 ATATAATTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAATTATTACGTGAGAATTGT
451 ATATAATATGTCATTTTGCAAACAAGTTTTGATCTTTGAATTAAAAATTATTACGTGAGAATTGT
* * *
95467 TTCTCTCTTTGTTCTTGGACAAACGTTCGAACTTGTCAAACTTTTACGAGTTATTTTTAACTTCG
516 TTCTCTCTTTATTCTTGGACAAACGTTCGAACTTGTCAAACTTTTACGAATTATTTATAACTTCG
** ** *
95532 TTTCCCTAAAGTATTCAACAAGATCCATTTTTTAGAGCAAATTTCCAAACATTCCATCCTT
581 GATCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGCAAATTTCCAAACATTCCATCCTC
* *
95593 GGGAAATCTCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTC
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
*
95658 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAAC
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
* * * * * * * **
95723 TTTCACTAGTTCTTTTATAACTTCGGATCCTTAAAGTATTCAATACA-ATCCATTCCTTTTAGCA
131 TTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACA-AGAT-CATTCCTTAGAGCA
* * * *
95787 ATTTTTCGAATATTTCATGCTCGACAAATCACATCATTAGGTCTAAATAATTTGTAATTTTGCAA
194 ATTTTTCGAACATTTCATGCTCGAGAAATCACATCATTTGGTCTAAATAATTTGTCATTTTGCAA
*
95852 ACAAGTTTTGGTCATTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGA
259 ACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGA
* *
95917 CGAACTTCCAAACTTGTCCAACTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAA
324 CGAACTTCCGAACTTGTCCAACTTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAA
95982 CAAAATCCATTCC-TTAGAGCAATTTTCCGAACATTCAATGC-T-AAATCCCATCATTTGATC-T
389 CAAAAT-CATTCCTTTAGAGCAATTTTCCGAACATTCAATGCTTGAAATCCCATCATTTGATCAT
*
96043 A-AATATGTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
453 ATAATATGTCATTTTGCAAACAAGTTTTGATCTTTGAATTAAAAA-TTA-TTACGTGAGAATTGT
* * * * *
96107 TTCTCTCTTTATTCTTGGACGAAC-TTCCGAGCTTGTCAAATTTTTACTAATTCTTTGATAACTT
516 TTCTCTCTTTATTCTTGGACAAACGTT-CGAACTTGTCAAACTTTTACGAATTATTT-ATAACTT
* * * * * * * *
96171 CGGATCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC
579 CGGATCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGCAAATTTCCAAACATTCCATCCTC
* * *
96234 GGGAAATCGCATCGTTTGGTTTAAATAGTTTGTCATTTTGTAAACAAGTTTTGATCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
* * *
96299 AAAACTTATTTACGTGAGAATTATTTCTCTCTTTG-TCTTTGTACGAACTTTTGAACTTGTCAAA
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTC-TTGGACGAACTTTCGAACTTGTCAAA
*
96363 CTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCAGTTCCTTAGAGTA
130 CTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCA-TTCCTTAGAGCA
* * *
96428 ATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAATCTGTCATTTTGCAA
194 ATTTTTCGAACATTTCATGCTCGAGAAATCACATCATTTGGTCTAAATAATTTGTCATTTTGCAA
* * *
96493 ACAAGTTTTGCTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTTTTCTTGAA
259 ACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGA
* ** *
96558 CAAACTTTTGAACTTGT-CAAATTTTACGAGTTATTTTTTA
324 CGAACTTCCGAACTTGTCCAACTTTTACGAGTTATTTTTTA
96598 CCTCGCCCTT
Statistics
Matches: 891, Mismatches: 103, Indels: 27
0.87 0.10 0.03
Matches are distributed among these distances:
638 40 0.04
639 7 0.01
640 88 0.10
641 371 0.42
644 3 0.00
645 376 0.42
646 6 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (641 bp):
GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
TTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCATTCCTTAGAGCAAT
TTTTCGAACATTTCATGCTCGAGAAATCACATCATTTGGTCTAAATAATTTGTCATTTTGCAAAC
AAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACG
AACTTCCGAACTTGTCCAACTTTTACGAGTTATTTTTTAACTTCGGATCCCTAAAGTATTCAACA
AAATCATTCCTTTAGAGCAATTTTCCGAACATTCAATGCTTGAAATCCCATCATTTGATCATATA
ATATGTCATTTTGCAAACAAGTTTTGATCTTTGAATTAAAAATTATTACGTGAGAATTGTTTCTC
TCTTTATTCTTGGACAAACGTTCGAACTTGTCAAACTTTTACGAATTATTTATAACTTCGGATCC
CTAAAGTATTCAACAAGATCCATTCCTTAGAGCAAATTTCCAAACATTCCATCCTC
Found at i:99655 original size:216 final size:216
Alignment explanation
Indices: 99272--99779 Score: 696
Period size: 216 Copynumber: 2.4 Consensus size: 216
99262 GCGATTTCCC
* * * * * * * * * *
99272 AAAGTTTGACATGTTCGGGAGTTCGTCCATGAACCAAGAGAGATACAATTCTCTCCTAAACAAGT
1 AAAGTTTGACAAGTTTGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGT
* *
99337 TTTTAATTCAATGACGAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACAATTT
66 TTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACAATTT
* * * * * * *
99402 CCCAAGCATGGAATGTTTGGAAAATTTCTCTAAGGAATGGATCTT-GTCGAATACTTTAGGGAAC
131 CCCAAGCATGGAATATTCGGAAAATTGCTCAAAGGAATGGATCTTCAT-GAATACTGTAAGGAAC
*
99466 AGAAGTTAAAAAATAACT-CGTA
195 AGAAGTTAAAAAAGAACTAC-TA
*
99488 AAAGTTTGACAAGTTTGAAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGT
1 AAAGTTTGACAAGTTTGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGT
* *
99553 TTTTAATTCAAAGACCAAAACTTGTTTGCAAAATGACAAACTATTTAGACCAAATGATACGATTT
66 TTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACAATTT
* * * * *
99618 GCCGAGCATGGAATATTCGGAAAATTGCTGAAAGGAATGGATCTTCATGAATACTGTAAGGATCC
131 CCCAAGCATGGAATATTCGGAAAATTGCTCAAAGGAATGGATCTTCATGAATACTGTAAGGAACA
* *
99683 GTAGTTATAAAAGAACTACTA
196 GAAGTTAAAAAAGAACTACTA
*
99704 AAAGTTTGACAAGTTTGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGT
1 AAAGTTTGACAAGTTTGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGT
*
99769 TTTGAATTCAA
66 TTTTAATTCAA
99780 NNNNNNNNNN
Statistics
Matches: 257, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
216 255 0.99
217 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (216 bp):
AAAGTTTGACAAGTTTGGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGT
TTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACAATTT
CCCAAGCATGGAATATTCGGAAAATTGCTCAAAGGAATGGATCTTCATGAATACTGTAAGGAACA
GAAGTTAAAAAAGAACTACTA
Found at i:104583 original size:23 final size:25
Alignment explanation
Indices: 104537--104583 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
104527 TAACATGAAA
104537 AATTAAAATATATATTTATATTTAT
1 AATTAAAATATATATTTATATTTAT
*
104562 AATTTAAATATAT-TTTAT-TTTA
1 AATTAAAATATATATTTATATTTA
104584 AAATATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 5 0.24
25 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AATTAAAATATATATTTATATTTAT
Found at i:104589 original size:15 final size:17
Alignment explanation
Indices: 104553--104589 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
104543 AATATATATT
104553 TATATTTATAATTTAAA
1 TATATTTATAATTTAAA
*
104570 TATATTT-TATTTTAAA
1 TATATTTATAATTTAAA
104586 -ATAT
1 TATAT
104590 GAATTCAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 8 0.42
17 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTATAATTTAAA
Found at i:109705 original size:7 final size:7
Alignment explanation
Indices: 109693--109722 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
109683 AGGGGGTTAG
109693 TACCATA
1 TACCATA
109700 TACCATA
1 TACCATA
109707 TACCATA
1 TACCATA
*
109714 CACCATA
1 TACCATA
109721 TA
1 TA
109723 TCACAAGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (7 bp):
TACCATA
Found at i:112288 original size:14 final size:14
Alignment explanation
Indices: 112265--112297 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
112255 ATTATGTATC
112265 TATTTATTTTTAAT
1 TATTTATTTTTAAT
*
112279 TATTTGTTTTTAAT
1 TATTTATTTTTAAT
112293 T-TTTA
1 TATTTA
112298 AATTCACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TATTTATTTTTAAT
Found at i:114963 original size:29 final size:30
Alignment explanation
Indices: 114906--114997 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 30
114896 AAATAGAATC
114906 AAATCAAAATTTCATATATAAAATAATATA
1 AAATCAAAATTTCATATATAAAATAATATA
* *
114936 AAATCAAAATTT-ATATATGATAATATATATT
1 AAATCAAAATTTCATATAT-AAAATA-ATATA
* * *
114967 AAATTAAAA-TTCACATATAAATTTAATATA
1 AAATCAAAATTTCATATATAAA-ATAATATA
114997 A
1 A
114998 CAATTTCTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
29 6 0.12
30 26 0.51
31 19 0.37
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATAATATA
Found at i:117802 original size:13 final size:13
Alignment explanation
Indices: 117784--117808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117774 TTTTTCAAAA
117784 AAAGTCAACGGTC
1 AAAGTCAACGGTC
117797 AAAGTCAACGGT
1 AAAGTCAACGGT
117809 AAATTGTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (13 bp):
AAAGTCAACGGTC
Found at i:117838 original size:21 final size:21
Alignment explanation
Indices: 117794--117840 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
117784 AAAGTCAACG
* *
117794 GTCAA-AGTCAACGGTAAATT
1 GTCAACAGTCAACGATAAATA
*
117814 GTCAACAGTCAACGATCAATA
1 GTCAACAGTCAACGATAAATA
117835 GTCAAC
1 GTCAAC
117841 GGTCGATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (21 bp):
GTCAACAGTCAACGATAAATA
Found at i:124909 original size:7 final size:7
Alignment explanation
Indices: 124893--124935 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
124883 TTCGAAAAAA
124893 GTCAACG
1 GTCAACG
*
124900 GTCAATG
1 GTCAACG
124907 GTCAACG
1 GTCAACG
124914 GTCAACG
1 GTCAACG
**
124921 GTCAATA
1 GTCAACG
124928 GTCAACG
1 GTCAACG
124935 G
1 G
124936 CTGGTCAACG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:124919 original size:21 final size:21
Alignment explanation
Indices: 124893--124935 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
124883 TTCGAAAAAA
*
124893 GTCAACGGTCAATGGTCAACG
1 GTCAACGGTCAATAGTCAACG
124914 GTCAACGGTCAATAGTCAACG
1 GTCAACGGTCAATAGTCAACG
124935 G
1 G
124936 CTGGTCAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (21 bp):
GTCAACGGTCAATAGTCAACG
Found at i:131131 original size:10 final size:12
Alignment explanation
Indices: 131097--131129 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
131087 GAAATCGATC
131097 TCTCCCTCTCTT
1 TCTCCCTCTCTT
131109 TCTCCCTCTCTT
1 TCTCCCTCTCTT
131121 TCTCCCTCT
1 TCTCCCTCT
131130 TTGTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
TCTCCCTCTCTT
Found at i:134166 original size:43 final size:43
Alignment explanation
Indices: 134119--134314 Score: 162
Period size: 43 Copynumber: 4.5 Consensus size: 43
134109 AAAATGCCAC
* ** * *
134119 TAAAGACCATGTTTTTTAGCGGTGTTTGCGGGAAAAGTGTCGT
1 TAAAGACCATGTTCTTTAGCGGCATTTGTGGGAAAAGCGTCGT
* * * *
134162 TAAAGATCATGGTCTTTAGCGGCATTTGTGGGAAAAACATCGT
1 TAAAGACCATGTTCTTTAGCGGCATTTGTGGGAAAAGCGTCGT
* * * * *
134205 TAAAGGCCATGGCGTTTTTTAGCGGCATTTGTTGGAAAAGCGCCGC
1 TAAAGACCAT---GTTCTTTAGCGGCATTTGTGGGAAAAGCGTCGT
* * *
134251 TAAATACCATGTTCTTTAGCGGCGTTTGTGGGATAAGCG-C-T
1 TAAAGACCATGTTCTTTAGCGGCATTTGTGGGAAAAGCGTCGT
* *
134292 ACTAAAAACCATGTTCTATAGCG
1 --TAAAGACCATGTTCTTTAGCG
134315 ACTTTTTTTC
Statistics
Matches: 121, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.01
43 86 0.71
46 34 0.28
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TAAAGACCATGTTCTTTAGCGGCATTTGTGGGAAAAGCGTCGT
Found at i:134261 original size:46 final size:44
Alignment explanation
Indices: 134091--134314 Score: 132
Period size: 43 Copynumber: 5.1 Consensus size: 44
134081 TTTGTTAATA
* * * ** * * *
134091 TTAGTGGCGTTTGTGAGAAAAATGCCACTAAAGACCAT-GTTTT
1 TTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAACCATGGTTCT
** * * * * * *
134134 TTAGCGGTGTTTGCGGGAAAAGTGTCGTTAAAGATCATGG-TCT
1 TTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAACCATGGTTCT
* ** * ** *
134177 TTAGCGGCATTTGTGGGAAAAACATCGTTAAAGGCCATGGCGTTTT
1 TTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAACCAT-G-GTTCT
* *
134223 TTAGCGGCATTTGTTGGAAAAGCGCCGCTAAATACCAT-GTTCT
1 TTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAACCATGGTTCT
* * **
134266 TTAGCGGCGTTTGTGGGATAAGCGCTACTAAAAACCAT-GTTCT
1 TTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAACCATGGTTCT
*
134309 ATAGCG
1 TTAGCG
134315 ACTTTTTTTC
Statistics
Matches: 143, Mismatches: 34, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
43 107 0.75
44 2 0.01
45 1 0.01
46 33 0.23
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (44 bp):
TTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAACCATGGTTCT
Found at i:135007 original size:6 final size:6
Alignment explanation
Indices: 134972--135005 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
134962 AAATTCTTTC
134972 AAAAAT AAAAAT AAAAAT AAAAAT GAAATAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAA-AAT AA
135006 TAGAGGGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.69
7 5 0.19
8 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:137852 original size:23 final size:23
Alignment explanation
Indices: 137820--137903 Score: 71
Period size: 26 Copynumber: 3.4 Consensus size: 23
137810 ACACTAGCGC
*
137820 GCTCTTTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTCT-GT
*
137843 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTCTGT
* *
137868 GCTCTCTGTTACCCAGCACTGTGTGT
1 GCTCTCTGTT---TAGCACTGTCTGT
137894 GCTCTCTGTT
1 GCTCTCTGTT
137904 AGTACTTTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
23 8 0.15
24 2 0.04
25 17 0.33
26 25 0.48
ACGTcount: A:0.10, C:0.26, G:0.23, T:0.42
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTCTGT
Found at i:137857 original size:25 final size:26
Alignment explanation
Indices: 137841--137904 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
137831 AGCACGTCTC
137841 GTGCTCTCTGTTA-TTAGCACTGTGT
1 GTGCTCTCTGTTACTTAGCACTGTGT
**
137866 GTGCTCTCTGTTACCCAGCACTGTGT
1 GTGCTCTCTGTTACTTAGCACTGTGT
137892 GTGCTCTCTGTTA
1 GTGCTCTCTGTTA
137905 GTACTTTGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 13 0.36
26 23 0.64
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (26 bp):
GTGCTCTCTGTTACTTAGCACTGTGT
Found at i:139078 original size:7 final size:7
Alignment explanation
Indices: 139066--139109 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
139056 AGGGGATGAT
139066 GGCAATG
1 GGCAATG
139073 GGCAATG
1 GGCAATG
139080 GGCAATG
1 GGCAATG
139087 GGCAATG
1 GGCAATG
139094 GGCAATG
1 GGCAATG
139101 GGCAATG
1 GGCAATG
139108 GG
1 GG
139110 AGGATTCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.45, T:0.14
Consensus pattern (7 bp):
GGCAATG
Found at i:139902 original size:45 final size:45
Alignment explanation
Indices: 139852--139941 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
139842 ACAAATCTGT
139852 CTCAAAGCTTGAATCTTTGAAACCCATTAACCCAAAAAAACTTAA
1 CTCAAAGCTTGAATCTTTGAAACCCATTAACCCAAAAAAACTTAA
* *
139897 CTCAAAGCTTGAATCTTTGAAATCCATTAACCCAAAGAAACTTAA
1 CTCAAAGCTTGAATCTTTGAAACCCATTAACCCAAAAAAACTTAA
139942 TGGGAAGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (45 bp):
CTCAAAGCTTGAATCTTTGAAACCCATTAACCCAAAAAAACTTAA
Found at i:144524 original size:30 final size:27
Alignment explanation
Indices: 144477--144538 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 27
144467 CGTTAAGAAT
144477 TTTAAAATTTTTGTTCATGTTCGTTTA
1 TTTAAAATTTTTGTTCATGTTCGTTTA
*
144504 TTTAAAATTATGTGTGTTCATGTTCGTTTG
1 TTTAAAATT-T-T-TGTTCATGTTCGTTTA
144534 TTTAA
1 TTTAA
144539 TGTTCACGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 9 0.29
28 1 0.03
29 1 0.03
30 20 0.65
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.56
Consensus pattern (27 bp):
TTTAAAATTTTTGTTCATGTTCGTTTA
Found at i:144589 original size:23 final size:23
Alignment explanation
Indices: 144563--144627 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
144553 TTCATTTAAT
144563 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* * * *
144586 TTAAACGAATATGTTCATGGACA
1 TTAATCGAACATGTTCACGAACA
*
144609 TATAATTGAACATGTTCAC
1 T-TAATCGAACATGTTCAC
144628 AAATAATGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 20 0.61
24 13 0.39
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:145851 original size:3 final size:3
Alignment explanation
Indices: 145843--145877 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
145833 GTATTAATAT
145843 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
145878 GAGGTCGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:147674 original size:36 final size:36
Alignment explanation
Indices: 147634--147702 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
147624 ATGATGACGA
* * *
147634 AGAAGATATTGGTGATGATGACGATGAAGAAGAATT
1 AGAAGATAATGATGATGACGACGATGAAGAAGAATT
* *
147670 AGAAGATAATGATGATGACGATGATGGAGAAGA
1 AGAAGATAATGATGATGACGACGATGAAGAAGA
147703 TGAAGATGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.43, C:0.03, G:0.32, T:0.22
Consensus pattern (36 bp):
AGAAGATAATGATGATGACGACGATGAAGAAGAATT
Found at i:153418 original size:77 final size:77
Alignment explanation
Indices: 153325--153478 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
153315 TAGTTTTACA
153325 TGTATGTGTATATGGAGTAATATGAATATTCCTTATAGATTGGAGCTTCTCTTTCTGTAAATACT
1 TGTATGTGTATATGGAGTAATATGAATATTCCTTATAGATTGGAGCTTCTCTTTCTGTAAATACT
153390 GTTAGAAATGGT
66 GTTAGAAATGGT
153402 TGTATGTGTATATGGAGTAATATGAATATTCCTTATAGATTGGAGCTTCTCTTTCTGTAAATACT
1 TGTATGTGTATATGGAGTAATATGAATATTCCTTATAGATTGGAGCTTCTCTTTCTGTAAATACT
153467 GTTAGAAATGGT
66 GTTAGAAATGGT
153479 GGAAGTAATA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (77 bp):
TGTATGTGTATATGGAGTAATATGAATATTCCTTATAGATTGGAGCTTCTCTTTCTGTAAATACT
GTTAGAAATGGT
Found at i:155768 original size:2 final size:2
Alignment explanation
Indices: 155761--155802 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
155751 CCTTCAGCTA
155761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
155803 CAAGTTTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:159044 original size:17 final size:17
Alignment explanation
Indices: 159014--159047 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
159004 TTAAAAACTA
159014 TAAAAAATATAAATTAT
1 TAAAAAATATAAATTAT
159031 TAAAATAATA-AAATTAT
1 TAAAA-AATATAAATTAT
159048 AATTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAAATATAAATTAT
Found at i:159530 original size:30 final size:30
Alignment explanation
Indices: 159489--159547 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
159479 CTTAACAAAT
* *
159489 AAATGTCTCTAAAATAGTAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
159519 AAATATCTCTAAAATAATAACAAAATTAA
1 AAATATCTCTAAAATAATAACAAAATTAA
159548 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAATTAAC
Found at i:160070 original size:6 final size:6
Alignment explanation
Indices: 160059--160135 Score: 51
Period size: 6 Copynumber: 13.7 Consensus size: 6
160049 TCGGGCTCAA
* * * *
160059 TAAATT TAAATT T-ATTT TAAAAT TAAGTT T--ATT ATAAATT TAAATC
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT -TAAATT TAAATT
160105 T--ATT TAAATT T--ATT ATAAATT TAAATT TAAA
1 TAAATT TAAATT TAAATT -TAAATT TAAATT TAAA
160136 ATTCATTTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
4 8 0.15
5 6 0.11
6 34 0.63
7 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
TAAATT
Found at i:160133 original size:17 final size:17
Alignment explanation
Indices: 160058--160116 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
160048 ATCGGGCTCA
160058 ATAAATTTAAATTTATT
1 ATAAATTTAAATTTATT
* * *
160075 TTAAAATTAAGTTTATT
1 ATAAATTTAAATTTATT
*
160092 ATAAATTTAAATCTATT
1 ATAAATTTAAATTTATT
160109 -TAAATTTA
1 ATAAATTTA
160117 TTATAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
16 8 0.23
17 27 0.77
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
ATAAATTTAAATTTATT
Found at i:160143 original size:17 final size:17
Alignment explanation
Indices: 160093--160147 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
160083 AAGTTTATTA
160093 TAAATTT-AAA-TCTATT
1 TAAATTTAAAATTC-ATT
** **
160109 TAAATTTATTATAAATT
1 TAAATTTAAAATTCATT
160126 TAAATTTAAAATTCATT
1 TAAATTTAAAATTCATT
160143 TAAAT
1 TAAAT
160148 AATGTCCAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATTTAAAATTCATT
Found at i:160144 original size:44 final size:44
Alignment explanation
Indices: 160062--160147 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
160052 GGCTCAATAA
* * **
160062 ATTTAAATTTATTTTAAAATTAAGTTTATTATAAATTTAAATCT
1 ATTTAAATTTATTATAAAATTAAATTTAAAATAAATTTAAATCT
* **
160106 ATTTAAATTTATTATAAATTTAAATTTAAAATTCATTTAAAT
1 ATTTAAATTTATTATAAAATTAAATTTAAAATAAATTTAAAT
160148 AATGTCCAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (44 bp):
ATTTAAATTTATTATAAAATTAAATTTAAAATAAATTTAAATCT
Found at i:162061 original size:30 final size:29
Alignment explanation
Indices: 161989--162257 Score: 113
Period size: 29 Copynumber: 9.5 Consensus size: 29
161979 GGAGGTCTCT
*
161989 AAACTGTCCAAAAATTCC-ATTTTTACCCCC
1 AAACT-TCCAAAAA-TCCAATTTTTACCCCA
* * * * *
162019 GAACTTCTAAAAATGCTATTTTTGACCCTA
1 AAACTTCCAAAAATCCAATTTTT-ACCCCA
162049 AAACTTCCAAAAATCCAATTTTTAACCCCA
1 AAACTTCCAAAAATCCAATTTTT-ACCCCA
*
162079 AAA-TT-------TCC-ATTTTTAGCCTC-
1 AAACTTCCAAAAATCCAATTTTTA-CCCCA
* * **
162099 GAACTTTCAAAAATTCC-ATTTTTAACCCTG
1 AAACTTCCAAAAA-TCCAATTTTT-ACCCCA
* * * *
162129 AAACCTCCAAAATTAC-A-TTTTACCCCT
1 AAACTTCCAAAAATCCAATTTTTACCCCA
* *
162156 AAACTTTCAAAAATTCC-ATTTCTACCCTC-
1 AAACTTCCAAAAA-TCCAATTTTTACCC-CA
** *
162185 AAACTTTTAAAAATCTC-ATTTTTAACCCCT
1 AAACTTCCAAAAATC-CAATTTTT-ACCCCA
* * *
162215 AAACTTCCAAAAATTCTATTTTTACCCCC
1 AAACTTCCAAAAATCCAATTTTTACCCCA
162244 AAACTTCCAAAAAT
1 AAACTTCCAAAAAT
162258 GTCATTTTTG
Statistics
Matches: 185, Mismatches: 33, Indels: 43
0.71 0.13 0.16
Matches are distributed among these distances:
20 3 0.02
21 11 0.06
22 3 0.02
27 14 0.08
28 11 0.06
29 75 0.41
30 68 0.37
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATCCAATTTTTACCCCA
Found at i:162197 original size:86 final size:88
Alignment explanation
Indices: 162076--162257 Score: 230
Period size: 86 Copynumber: 2.1 Consensus size: 88
162066 ATTTTTAACC
* * * *
162076 CCAAAATTTCCATTTTTAGCCTCGAACTTTCAAAAAT-TCCATTTTTAA-CCCTGAAACCTCC-A
1 CCAAAAATTCCATTTCTACCCTCAAACTTTCAAAAATCT-CATTTTTAACCCCT-AAACCTCCAA
*
162138 AAATTAC-A-TTTTACCCCTAAACTT
64 AAATT-CTATTTTTACCCCCAAACTT
* * *
162162 TCAAAAATTCCATTTCTACCCTCAAACTTTTAAAAATCTCATTTTTAACCCCTAAACTTCCAAAA
1 CCAAAAATTCCATTTCTACCCTCAAACTTTCAAAAATCTCATTTTTAACCCCTAAACCTCCAAAA
162227 ATTCTATTTTTACCCCCAAACTT
66 ATTCTATTTTTACCCCCAAACTT
162250 CCAAAAAT
1 CCAAAAAT
162258 GTCATTTTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
86 48 0.59
87 12 0.15
88 22 0.27
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.35
Consensus pattern (88 bp):
CCAAAAATTCCATTTCTACCCTCAAACTTTCAAAAATCTCATTTTTAACCCCTAAACCTCCAAAA
ATTCTATTTTTACCCCCAAACTT
Found at i:162241 original size:59 final size:58
Alignment explanation
Indices: 162100--162302 Score: 205
Period size: 59 Copynumber: 3.5 Consensus size: 58
162090 TTTAGCCTCG
* * *
162100 AACTTTCAAAAATTCCATTTTTAACCCTGAAACCTCC-AAAAT-TACA-TTTTACCCCTA
1 AACTTCCAAAAATTCCATTTTT-ACCCTCAAACTTCCAAAAATCT-CATTTTTACCCCTA
* * **
162157 AACTTTCAAAAATTCCATTTCTACCCTCAAACTTTTAAAAATCTCATTTTTAACCCCTA
1 AACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCTCATTTTT-ACCCCTA
* * * ** *
162216 AACTTCCAAAAATTCTATTTTTACCCCCAAACTTCCAAAAATGTCATTTTTGGTCCCGA
1 AACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCTCATTTTT-ACCCCTA
* * *
162275 AATTTCCAAAATTTCCATTTTTGCCCTC
1 AACTTCCAAAAATTCCATTTTTACCCTC
162303 GAATGTCTAA
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
56 10 0.08
57 28 0.23
58 5 0.04
59 78 0.64
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (58 bp):
AACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCTCATTTTTACCCCTA
Found at i:162264 original size:29 final size:29
Alignment explanation
Indices: 162076--162355 Score: 183
Period size: 29 Copynumber: 9.6 Consensus size: 29
162066 ATTTTTAACC
* * * *
162076 CCAAAATTTCCATTTTTAGCCTCGAACTT
1 CCAAAAATTCCATTTTTACCCCCAAACTT
* ** *
162105 TCAAAAATTCCATTTTTAACCCTGAAACCT
1 CCAAAAATTCCATTTTT-ACCCCCAAACTT
* *
162135 CC-AAAATTACA-TTTTACCCCTAAACTT
1 CCAAAAATTCCATTTTTACCCCCAAACTT
* * *
162162 TCAAAAATTCCATTTCTACCCTCAAACTT
1 CCAAAAATTCCATTTTTACCCCCAAACTT
** *
162191 TTAAAAA-TCTCATTTTTAACCCCTAAACTT
1 CCAAAAATTC-CATTTTT-ACCCCCAAACTT
*
162221 CCAAAAATTCTATTTTTACCCCCAAACTT
1 CCAAAAATTCCATTTTTACCCCCAAACTT
** * *
162250 CCAAAAATGT-CATTTTTGGTCCCGAAATTT
1 CCAAAAAT-TCCATTTTT-ACCCCCAAACTT
* * * *
162280 CCAAAATTTCCATTTTTGCCCTCGAA-TGT
1 CCAAAAATTCCATTTTTACCCCCAAACT-T
* * * *
162309 CTAAGAATTCCATTTTTAAACCCCAAATTT
1 CCAAAAATTCCATTTTT-ACCCCCAAACTT
*
162339 CCCAAAATTACCATTTT
1 CCAAAAATT-CCATTTT
162356 GCCCCCCGGG
Statistics
Matches: 194, Mismatches: 44, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
27 10 0.05
28 15 0.08
29 94 0.48
30 65 0.34
31 10 0.05
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (29 bp):
CCAAAAATTCCATTTTTACCCCCAAACTT
Found at i:163951 original size:21 final size:22
Alignment explanation
Indices: 163916--163959 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
163906 GAAGGGATAA
163916 AATGTTTTTCCTATAAAAACCC
1 AATGTTTTTCCTATAAAAACCC
* *
163938 AATG-TTTTCTTATAAAGACCC
1 AATGTTTTTCCTATAAAAACCC
163959 A
1 A
163960 TGAAATTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (22 bp):
AATGTTTTTCCTATAAAAACCC
Found at i:171235 original size:35 final size:34
Alignment explanation
Indices: 171194--171303 Score: 125
Period size: 35 Copynumber: 3.2 Consensus size: 34
171184 CCAAACTCAT
* **
171194 TTTAAATTAATTTTAAGA-TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAA-ATTTAAATTTAATTT-AAA
*
171229 TTTAAATTTATTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
*
171263 TTTAAATTTATTTTTAAATTTAAAATT-ATTATAAA
1 TTTAAATTTA-TTTTAAATTTAAATTTAATT-TAAA
171298 TTTAAA
1 TTTAAA
171304 ATAAATAAAG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
34 16 0.24
35 50 0.76
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
Found at i:171237 original size:6 final size:6
Alignment explanation
Indices: 171226--171303 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
171216 ATTTGTTTTA
* *
171226 AAATTT AAATTT -ATTTT AAATTT AAATTT -AATTT AAGTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
** *
171272 ATTTTT AAATTT AAAATT --ATTAT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATT-T AAATTT AAA
171304 ATAAATAAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
4 2 0.04
5 10 0.18
6 42 0.74
7 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (6 bp):
AAATTT
Found at i:171250 original size:52 final size:52
Alignment explanation
Indices: 171194--171303 Score: 159
Period size: 52 Copynumber: 2.1 Consensus size: 52
171184 CCAAACTCAT
* * *
171194 TTTAAA-TTAATTTTAAGATTAAATTTGTTTTAAAATTTAAATTTATTTTAAA
1 TTTAAATTTAA-TTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
* *
171246 TTTAAATTTAATTTAAGTTTAAATTTATTTTTAAATTTAAAATTATTATAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
171298 TTTAAA
1 TTTAAA
171304 ATAAATAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
52 48 0.92
53 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (52 bp):
TTTAAATTTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
Found at i:171305 original size:17 final size:17
Alignment explanation
Indices: 171194--171303 Score: 132
Period size: 17 Copynumber: 6.4 Consensus size: 17
171184 CCAAACTCAT
*
171194 TTTAAATTAATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
171212 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
171229 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
171246 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
171263 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
171281 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
171298 TTTAAA
1 TTTAAA
171304 ATAAATAAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
17 52 0.65
18 28 0.35
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:171926 original size:13 final size:13
Alignment explanation
Indices: 171908--171932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171898 GCTCCATCTG
171908 TTTCCATTTATTA
1 TTTCCATTTATTA
171921 TTTCCATTTATT
1 TTTCCATTTATT
171933 TTCAATATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTCCATTTATTA
Found at i:179828 original size:35 final size:34
Alignment explanation
Indices: 179787--179896 Score: 125
Period size: 35 Copynumber: 3.2 Consensus size: 34
179777 CCAAACTCAT
* **
179787 TTTAAATTAATTTTAAGA-TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAA-ATTTAAATTTAATTT-AAA
*
179822 TTTAAATTTATTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
*
179856 TTTAAATTTATTTTTAAATTTAAAATT-ATTATAAA
1 TTTAAATTTA-TTTTAAATTTAAATTTAATT-TAAA
179891 TTTAAA
1 TTTAAA
179897 ATAAATAAAG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
34 16 0.24
35 50 0.76
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
Found at i:179830 original size:6 final size:6
Alignment explanation
Indices: 179819--179896 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
179809 ATTTGTTTTA
* *
179819 AAATTT AAATTT -ATTTT AAATTT AAATTT -AATTT AAGTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
** *
179865 ATTTTT AAATTT AAAATT --ATTAT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATT-T AAATTT AAA
179897 ATAAATAAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
4 2 0.04
5 10 0.18
6 42 0.74
7 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (6 bp):
AAATTT
Found at i:179843 original size:52 final size:52
Alignment explanation
Indices: 179787--179896 Score: 159
Period size: 52 Copynumber: 2.1 Consensus size: 52
179777 CCAAACTCAT
* * *
179787 TTTAAA-TTAATTTTAAGATTAAATTTGTTTTAAAATTTAAATTTATTTTAAA
1 TTTAAATTTAA-TTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
* *
179839 TTTAAATTTAATTTAAGTTTAAATTTATTTTTAAATTTAAAATTATTATAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
179891 TTTAAA
1 TTTAAA
179897 ATAAATAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
52 48 0.92
53 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (52 bp):
TTTAAATTTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
Found at i:179898 original size:17 final size:17
Alignment explanation
Indices: 179787--179896 Score: 132
Period size: 17 Copynumber: 6.4 Consensus size: 17
179777 CCAAACTCAT
*
179787 TTTAAATTAATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
179805 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
179822 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
179839 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
179856 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
179874 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
179891 TTTAAA
1 TTTAAA
179897 ATAAATAAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
17 52 0.65
18 28 0.35
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:180519 original size:13 final size:13
Alignment explanation
Indices: 180501--180525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180491 GCTCCATCTG
180501 TTTCCATTTATTA
1 TTTCCATTTATTA
180514 TTTCCATTTATT
1 TTTCCATTTATT
180526 TTCAATATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTCCATTTATTA
Found at i:181704 original size:29 final size:28
Alignment explanation
Indices: 181667--182100 Score: 260
Period size: 29 Copynumber: 15.0 Consensus size: 28
181657 GAGGTCCCTA
181667 AACTATCCAAAAATTCCATTTTTACCCTCG
1 AACT-TCCAAAAATTCCATTTTTACCC-CG
*
181697 AACTTCCAAAAA-TCTAATTTTTAACCCCG
1 AACTTCCAAAAATTC-CATTTTT-ACCCCG
*
181726 AAACTTCTAAAAATTCCATTTTTACCCTCG
1 -AACTTCCAAAAATTCCATTTTTACCC-CG
* *
181756 AACTTCCAAAAA-TCTCATTTTGACCCCAA
1 AACTTCCAAAAATTC-CATTTTTACCCC-G
*** *
181785 AACTTTTGAAAATTCCATTTTTACCCTTG
1 AACTTCCAAAAATTCCATTTTTACCC-CG
* * *
181814 AAATTTCAAAAA-TCTCATTTTCGACCCCG
1 AACTTCCAAAAATTC-CATTTT-TACCCCG
*** *
181843 AAACTTTTGAAAATTCCATTTTTACCCTCT
1 -AACTTCCAAAAATTCCATTTTTACCC-CG
* * *
181873 AACTT-CAAAAAATCTCATTTTGACCCCAA
1 AACTTCCAAAAATTC-CATTTTTACCCC-G
* * *
181902 AACTTCAAAAAAATT-TATTTTTACCATCG
1 AACTTC-CAAAAATTCCATTTTTACC-CCG
* *
181931 AACTTCCAAAAATTCCATTTTGATCCCG
1 AACTTCCAAAAATTCCATTTTTACCCCG
181959 AAAC-TCTC-AAAATTCCATTTTTACCCCCG
1 -AACTTC-CAAAAATTCCATTTTTA-CCCCG
* *
181988 ATCTTCCAAAAATTTCATTTTTACCCCG
1 AACTTCCAAAAATTCCATTTTTACCCCG
* * *
182016 AA-TGTCTAAAAATTACATCTTTTAACCTCG
1 AACT-TCCAAAAATTCCAT-TTTT-ACCCCG
** *
182046 AACTTCCCCGAAATTACCA-TCTTACCCCG
1 AACTT-CCAAAAATT-CCATTTTTACCCCG
**
182075 AAAGTCC-AAAATTACCA-TTTTACCCC
1 AACTTCCAAAAATT-CCATTTTTACCCC
182101 CGGGTATCCG
Statistics
Matches: 317, Mismatches: 56, Indels: 65
0.72 0.13 0.15
Matches are distributed among these distances:
27 18 0.06
28 62 0.20
29 157 0.50
30 61 0.19
31 17 0.05
32 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (28 bp):
AACTTCCAAAAATTCCATTTTTACCCCG
Found at i:181767 original size:59 final size:58
Alignment explanation
Indices: 181666--182052 Score: 451
Period size: 58 Copynumber: 6.6 Consensus size: 58
181656 TGAGGTCCCT
* * *
181666 AAACTATCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTAATTTTTAACCCCG
1 AAACT-TCTAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCA-TTTTGACCCCG
*
181726 AAACTTCTAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCA
1 AAACTTCTAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCG
* * * * *
181784 AAACTTTTGAAAATTCCATTTTTACCCTTGAAATTTCAAAAATCTCATTTTCGACCCCG
1 AAACTTCTAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTT-GACCCCG
* * * * *
181843 AAACTTTTGAAAATTCCATTTTTACCCTCTAACTTCAAAAAATCTCATTTTGACCCCA
1 AAACTTCTAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCG
* * * *
181901 AAACTTCAAAAAAATT-TATTTTTACCATCGAACTTCCAAAAAT-TCCATTTTGATCCCG
1 AAACTTC-TAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCT-CATTTTGACCCCG
* * * * *
181959 AAAC-TCTCAAAATTCCATTTTTACCCCCGATCTTCCAAAAATTTCATTTTTACCCCG
1 AAACTTCTAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCG
* *
182016 -AA-TGTCTAAAAATTACATCTTTTAACCTCGAACTTCC
1 AAACT-TCTAAAAATTCCAT-TTTTACCCTCGAACTTCC
182053 CCGAAATTAC
Statistics
Matches: 281, Mismatches: 38, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
56 8 0.03
57 49 0.17
58 121 0.43
59 98 0.35
60 5 0.02
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (58 bp):
AAACTTCTAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCG
Found at i:181884 original size:117 final size:117
Alignment explanation
Indices: 181675--182052 Score: 446
Period size: 117 Copynumber: 3.2 Consensus size: 117
181665 TAAACTATCC
* *
181675 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTAATTTTTAACCCCGAAACTTCTAAAAAT
1 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCA-TTTTGACCCCGAAACTTCTAAAAAT
**
181740 TCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCAAAACTT-TT
65 TCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCAAAACTTCAA
* * * * * *
181792 GAAAATTCCATTTTTACCCTTGAAATTTCAAAAATCTCATTTTCGACCCCGAAACTTTTGAAAAT
1 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTT-GACCCCGAAACTTCTAAAAAT
* *
181857 TCCATTTTTACCCTCTAACTTCAAAAAATCTCATTTTGACCCCAAAACTTCAA
65 TCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCAAAACTTCAA
* * * *
181910 AAAAATT-TATTTTTACCATCGAACTTCCAAAAAT-TCCATTTTGATCCCGAAAC-TCTCAAAAT
1 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCT-CATTTTGACCCCGAAACTTCTAAAAAT
* * * * * *
181972 TCCATTTTTACCCCCGATCTTCCAAAAATTTCATTTTTACCCC-GAA-TGTC-T
65 TCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCAAAACT-TCAA
* *
182023 AAAAATTACATCTTTTAACCTCGAACTTCC
1 AAAAATTCCAT-TTTTACCCTCGAACTTCC
182053 CCGAAATTAC
Statistics
Matches: 223, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
113 8 0.04
114 6 0.03
115 60 0.27
116 15 0.07
117 128 0.57
118 6 0.03
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.35
Consensus pattern (117 bp):
AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCGAAACTTCTAAAAATT
CCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTGACCCCAAAACTTCAA
Found at i:182482 original size:97 final size:97
Alignment explanation
Indices: 182349--182524 Score: 248
Period size: 97 Copynumber: 1.8 Consensus size: 97
182339 GTAATATTCT
* **
182349 TTTATTTCGAGTTTCGAAAATTTGTGCCTTAACTTACTAGGTGCAATTTTTCTTCAAATCGAAAT
1 TTTATTTCGAGTTTCGAAAATTTGCGCCTTAACTTACTAGGTGCAACCTTTCTTCAAATCGAAAT
182414 AATCGAATACCCTTAATCGAGGCAATTTTTTC
66 AATCGAATACCCTTAATCGAGGCAATTTTTTC
* * *
182446 TTTATCTTCGA-TTTTG-AAATATTGCGCCTTAACTTACTAGGTGGAACCTTTCTTCAAATCGAG
1 TTTAT-TTCGAGTTTCGAAAAT-TTGCGCCTTAACTTACTAGGTGCAACCTTTCTTCAAATCGAA
* *
182509 ATAATTGAATATCCTT
64 ATAATCGAATACCCTT
182525 TTCCCAATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
96 4 0.06
97 60 0.87
98 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (97 bp):
TTTATTTCGAGTTTCGAAAATTTGCGCCTTAACTTACTAGGTGCAACCTTTCTTCAAATCGAAAT
AATCGAATACCCTTAATCGAGGCAATTTTTTC
Found at i:194552 original size:205 final size:204
Alignment explanation
Indices: 193960--194840 Score: 1334
Period size: 205 Copynumber: 4.3 Consensus size: 204
193950 CTCAAACTCC
* *
193960 AGCTTCCTGACGAGATACTGAGAAGTGAACCAAATTCGTTTTCCTGATGAGGTACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTTTTCCTGATGAGGTACAGAGAAGCGG
* * *
194025 ATTGAAACAAAAGACGCAGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAGTCAAGCCCAC
66 ATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAGTCAAACCCA-
* * * * * *
194090 ACTCGATGTGAGTAAGTCTTTGAACCCCAACTTCTTGATGAGATACCGAGAAGCATGTCGAAGCA
130 ACTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCGAAGCA
*
194155 ATAAAATGTT
195 ATAAAAGGTT
* * *
194165 ATCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTTTTCCTGATAAGGTACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTTTTCCTGATGAGGTACAGAGAAGCGG
* * * * *
194230 ATTGAAAC-AATGATGCAGTTATCTTCCTGATGAGATAATGAGAAGAAGACCAAGTCAAACCCCC
66 ATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAGTCAAA-CCCA
194294 ACTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCGAAGCA
130 ACTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCGAAGCA
194359 ATAAAAGGTT
195 ATAAAAGGTT
* * *
194369 AGCTTCCTGACGAGATACTGAGAAGTGGACCAAATTCGTTTTCCTGATGAGGTACTGGGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTTTTCCTGATGAGGTACAGAGAAGCGG
*
194434 ATTGAAACAAACGACGC-GATCATCTTCCTGATAAGATACTGAGAAGAAGACCAAGTCAAACCCA
66 ATTGAAACAAACGACGCAG-TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAGTCAAACCCA
* *
194498 AGCTCGATATGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACCGAGAAGCAGGTCGAAGC
130 A-CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCGAAGC
194563 AATAAAAGGTT
194 AATAAAAGGTT
* *
194574 AGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTTGTTTTCCTGATGAGGTACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTTTTCCTGATGAGGTACAGAGAAGCGG
* * *
194639 ATTGAAACAAACGACGCGGTCATCTTTCTGATGAGATACTGAGAAAAAGACCAAGTCAAACCCAT
66 ATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAGTCAAACCCA-
* * * *
194704 GCTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGACACTGAGAAGCAGGTCGAAGCA
130 ACTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCGAAGCA
*
194769 ATAAAAAGTT
195 ATAAAAGGTT
* * * * *
194779 AGCTTCCTGATGAGATACGGAGAAGTGGATCAAATTCGTCTTCCTGATGAGATACTGAGAAG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTTTTCCTGATGAGGTACAGAGAAG
194841 AAGGCCTAGT
Statistics
Matches: 615, Mismatches: 55, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
204 185 0.30
205 429 0.70
206 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (204 bp):
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTTTTCCTGATGAGGTACAGAGAAGCGG
ATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAGTCAAACCCAA
CTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACCGAGAAGCAGGTCGAAGCAA
TAAAAGGTT
Found at i:195218 original size:6 final size:6
Alignment explanation
Indices: 195197--195270 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 6
195187 TTTTTAAAAA
* * * *
195197 TTAAAT TT-ATT TTAAAT TTAAAT TT-ATT TTAAGT TTAAAT TT-ATT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
195242 TTCAAAT TTAAAA TT--AT TATAAAT TTAAA
1 TT-AAAT TTAAAT TTAAAT T-TAAAT TTAAA
195271 ATAAATAAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
4 2 0.04
5 13 0.25
6 30 0.58
7 7 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:195235 original size:34 final size:34
Alignment explanation
Indices: 195163--195270 Score: 123
Period size: 35 Copynumber: 3.2 Consensus size: 34
195153 CTAAACTCAT
*
195163 TTTAAATTAATTTTAAGA-TT-AATTT-TTTTAAAA
1 TTTAAATTTATTTTAA-ATTTAAATTTATTTT-AAA
* *
195196 ATTAAATTTATTTTAAATTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTATTTTAAA
* *
195230 TTTAAATTTATTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTTATTTT-AAATTTAAATTTATTTTAAA
195265 TTTAAA
1 TTTAAA
195271 ATAAATAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 1 0.02
33 16 0.25
34 20 0.31
35 27 0.42
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTATTTTAAA
Found at i:195249 original size:35 final size:34
Alignment explanation
Indices: 195163--195270 Score: 112
Period size: 33 Copynumber: 3.2 Consensus size: 34
195153 CTAAACTCAT
* ** *
195163 TTTAAATTAATTTTAAGA-TTAATTTTTTTA-AAA
1 TTTAAATTTATTTTAA-ATTTAAAATTATTATAAA
* * * *
195196 ATTAAATTTATTTTAAATTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAATTTAAAATTATTATAAA
195230 TTTAAATTTATTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTTATTTT-AAATTTAAAATTATTATAAA
195265 TTTAAA
1 TTTAAA
195271 ATAAATAAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
32 1 0.02
33 23 0.37
34 15 0.24
35 23 0.37
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAAATTATTATAAA
Found at i:195272 original size:17 final size:17
Alignment explanation
Indices: 195163--195270 Score: 123
Period size: 17 Copynumber: 6.4 Consensus size: 17
195153 CTAAACTCAT
*
195163 TTTAAATTAATTTTAAGA
1 TTTAAATTTATTTTAA-A
195181 -TT-AATTT-TTTTAAAA
1 TTTAAATTTATTTT-AAA
*
195196 ATTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
195213 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
195230 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
* *
195248 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
195265 TTTAAA
1 TTTAAA
195271 ATAAATAAAG
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
15 5 0.06
16 8 0.10
17 48 0.61
18 18 0.23
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:195906 original size:13 final size:13
Alignment explanation
Indices: 195888--195914 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
195878 GTGCTCAATC
195888 TATTTCCATTTAT
1 TATTTCCATTTAT
195901 TATTTCCATTTAT
1 TATTTCCATTTAT
195914 T
1 T
195915 TACAATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTCCATTTAT
Found at i:197120 original size:30 final size:29
Alignment explanation
Indices: 197065--197368 Score: 248
Period size: 29 Copynumber: 10.3 Consensus size: 29
197055 AAACTGTTCG
* **
197065 AAAATTTCATTTTTACCCCTCAACTTCTA
1 AAAATTCCATTTTTACCCCGAAACTTCTA
* * *
197094 AAAATCCCATTTTTAACCCCAAAACTTCCA
1 AAAATTCCATTTTT-ACCCCGAAACTTCTA
**
197124 AAAATTCCATTTTTACCCTTAAACTTCTA
1 AAAATTCCATTTTTACCCCGAAACTTCTA
197153 AAAA-TCTCATTTTTTGACCCCGAAACTT-TCA
1 AAAATTC-CA-TTTTT-ACCCCGAAACTTCT-A
* *
197184 AAAATTCCAATTTTACCCCG-AACTTCCA
1 AAAATTCCATTTTTACCCCGAAACTTCTA
*
197212 AAAATTCCATTTTTAACCCCGAAACTTC-C
1 AAAATTCCATTTTT-ACCCCGAAACTTCTA
*
197241 AAAATTCCATTTTTACCCTCG-ATCTTCTA
1 AAAATTCCATTTTTACCC-CGAAACTTCTA
* * ** * *
197270 AAAATTCTATTTTCGACCTTGAAAC-CCCA
1 AAAATTCCATTTT-TACCCCGAAACTTCTA
197299 AAAATTCCATTTTTACCCCG-AA-TGTCTA
1 AAAATTCCATTTTTACCCCGAAACT-TCTA
**
197327 AAAATTCCATCTTTTAACCTTG-AACTTCTCA
1 AAAATTCCAT-TTTT-ACCCCGAAACTTCT-A
197358 AAAATTACCAT
1 AAAATT-CCAT
197369 CTTGCCCCGA
Statistics
Matches: 223, Mismatches: 32, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
27 2 0.01
28 46 0.21
29 89 0.40
30 55 0.25
31 25 0.11
32 6 0.03
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCCGAAACTTCTA
Found at i:197244 original size:58 final size:58
Alignment explanation
Indices: 197065--197368 Score: 321
Period size: 58 Copynumber: 5.2 Consensus size: 58
197055 AAACTGTTCG
* * * *
197065 AAAATTTCATTTTTACCCCTCAACTTCTAAAAATCCCATTTTTAACCCCAAAACTTCCA
1 AAAATTCCATTTTTACCCC-GAACTTCTAAAAATTCCATTTTTAACCCCGAAACTTCCA
** * *
197124 AAAATTCCATTTTTACCCTTAAACTTCTAAAAA-TCTCATTTTTTGACCCCGAAACTTTCA
1 AAAATTCCATTTTTACCC-CGAACTTCTAAAAATTC-CA-TTTTTAACCCCGAAACTTCCA
* *
197184 AAAATTCCAATTTTACCCCGAACTTCCAAAAATTCCATTTTTAACCCCGAAACTTCC-
1 AAAATTCCATTTTTACCCCGAACTTCTAAAAATTCCATTTTTAACCCCGAAACTTCCA
* * ** ** *
197241 AAAATTCCATTTTTACCCTCGATCTTCTAAAAATTCTATTTTCGACCTTGAAAC-CCCA
1 AAAATTCCATTTTTACCC-CGAACTTCTAAAAATTCCATTTTTAACCCCGAAACTTCCA
**
197299 AAAATTCCATTTTTACCCCGAA-TGTCTAAAAATTCCATCTTTTAACCTTG-AACTTCTCA
1 AAAATTCCATTTTTACCCCGAACT-TCTAAAAATTCCAT-TTTTAACCCCGAAACTTC-CA
197358 AAAATTACCAT
1 AAAATT-CCAT
197369 CTTGCCCCGA
Statistics
Matches: 207, Mismatches: 27, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
56 1 0.00
57 38 0.18
58 75 0.36
59 52 0.25
60 41 0.20
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (58 bp):
AAAATTCCATTTTTACCCCGAACTTCTAAAAATTCCATTTTTAACCCCGAAACTTCCA
Found at i:197387 original size:87 final size:85
Alignment explanation
Indices: 197065--197402 Score: 264
Period size: 87 Copynumber: 3.9 Consensus size: 85
197055 AAACTGTTCG
* * * * *
197065 AAAATTTCATTTTTACCCCTC-AACTTCT-AAAAATCCCATTTTTAACCCCAAAACTTCCAAAAA
1 AAAATTCCATTTTTA-ACCTCGAACTTCTCAAAAATTCCA-TTTT-GCCCCGAAAC-TCCAAAAA
**
197128 TTCCATTTTTACCCTTAAACTTCTA
62 TTCCATTTTTACCC-CGAACTTCTA
* * *
197153 AAAA-TCTCATTTTTTGACCCCGAAACTT-TCAAAAATTCCAATTTTACCCCG-AACTTCCAAAA
1 AAAATTC-CA-TTTTTAACCTCG-AACTTCTCAAAAATTCC-ATTTTGCCCCGAAAC-TCCAAAA
*
197215 ATTCCATTTTTAACCCCGAAACTTC-C
61 ATTCCATTTTT-ACCCCG-AACTTCTA
* * * ** *
197241 AAAATTCCATTTTTACCCTCGATCTTCT-AAAAATTCTATTTTCGACCTTGAAACCCCAAAAATT
1 AAAATTCCATTTTTAACCTCGAACTTCTCAAAAATTCCATTTT-G-CCCCGAAACTCCAAAAATT
197305 CCATTTTTACCCCGAA-TGTCTA
64 CCATTTTTACCCCGAACT-TCTA
* * *
197327 AAAATTCCATCTTTTAACCTTGAACTTCTCAAAAATTACCATCTTGCCCCGAAAGTCC-AAAATT
1 AAAATTCCAT-TTTTAACCTCGAACTTCTCAAAAATT-CCATTTTGCCCCGAAACTCCAAAAATT
197391 ACCA-TTTTACCC
64 -CCATTTTTACCC
197403 TCCGGGTATC
Statistics
Matches: 203, Mismatches: 28, Indels: 40
0.75 0.10 0.15
Matches are distributed among these distances:
84 1 0.00
85 9 0.04
86 42 0.21
87 57 0.28
88 48 0.24
89 28 0.14
90 17 0.08
91 1 0.00
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (85 bp):
AAAATTCCATTTTTAACCTCGAACTTCTCAAAAATTCCATTTTGCCCCGAAACTCCAAAAATTCC
ATTTTTACCCCGAACTTCTA
Found at i:202218 original size:31 final size:32
Alignment explanation
Indices: 202180--202239 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
202170 ATAATGTAAT
*
202180 TTTATA-TTTTTATTTAATCTTATTTTTTGAG
1 TTTATATTTTTTATTAAATCTTATTTTTTGAG
* *
202211 TTTATATTTTTTATTAAATTTTTTTTTTT
1 TTTATATTTTTTATTAAATCTTATTTTTT
202240 TCGACGAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (32 bp):
TTTATATTTTTTATTAAATCTTATTTTTTGAG
Found at i:203776 original size:22 final size:22
Alignment explanation
Indices: 203728--203778 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
203718 TACTAACAAC
* * *
203728 AAAATAATAGTAACATAATAGT
1 AAAATAATAGTAAAACAATAAT
* *
203750 GAAATGATAGTAAAACAATAAT
1 AAAATAATAGTAAAACAATAAT
203772 AAAATAA
1 AAAATAA
203779 CAAATTTTTT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.24
Consensus pattern (22 bp):
AAAATAATAGTAAAACAATAAT
Found at i:208433 original size:29 final size:28
Alignment explanation
Indices: 208344--208434 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 28
208334 TTTTTATTAT
*
208344 AATACAGAGATTAAACTTTCGAAATTGAAA
1 AATACAGAGATTAAAATTT-GAAATT-AAA
*
208374 AAT--AGAGACTAAAATCTTGAAATTAGAAA
1 AATACAGAGATTAAAAT-TTGAAATT--AAA
*
208403 AATAGAGAGATTAAAATTTGGAAATTTAAA
1 AATACAGAGATTAAAATTT-GAAA-TTAAA
208433 AA
1 AA
208435 GCATAAGGAG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
28 16 0.31
29 9 0.17
30 10 0.19
31 15 0.29
32 2 0.04
ACGTcount: A:0.54, C:0.05, G:0.14, T:0.26
Consensus pattern (28 bp):
AATACAGAGATTAAAATTTGAAATTAAA
Found at i:214771 original size:6 final size:6
Alignment explanation
Indices: 214762--214798 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
214752 TCCTCCCTCT
* *
214762 CTCCAC CTCCAC CTCCAA CTCCAC CTCCAA CTCCAC C
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC C
214799 GTTACCCTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.22, C:0.62, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCCAC
Found at i:214777 original size:12 final size:12
Alignment explanation
Indices: 214762--214798 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
214752 TCCTCCCTCT
*
214762 CTCCACCTCCAC
1 CTCCAACTCCAC
214774 CTCCAACTCCAC
1 CTCCAACTCCAC
214786 CTCCAACTCCAC
1 CTCCAACTCCAC
214798 C
1 C
214799 GTTACCCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.22, C:0.62, G:0.00, T:0.16
Consensus pattern (12 bp):
CTCCAACTCCAC
Found at i:229808 original size:6 final size:6
Alignment explanation
Indices: 229794--229825 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
229784 ATTTTCGATA
*
229794 ATATAT ATATGT ATATGT ATATGT ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT AT
229826 GTATGATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:231394 original size:4 final size:4
Alignment explanation
Indices: 231385--231415 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
231375 GCTTACCTAC
231385 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
231416 CTCCAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:240083 original size:23 final size:22
Alignment explanation
Indices: 240034--240083 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
240024 AAATAAAATC
* * *
240034 TTAAAATAATTAATTTTTTTAA
1 TTAAAATAATAAAATTTCTTAA
*
240056 CTAAAATAAATAAAATTTCTTAA
1 TTAAAAT-AATAAAATTTCTTAA
240079 TTAAA
1 TTAAA
240084 TTACAAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAATAATAAAATTTCTTAA
Found at i:241559 original size:21 final size:21
Alignment explanation
Indices: 241521--241560 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
241511 CTTAAATTTT
* **
241521 GAACCCTAAATCTTAACTCTC
1 GAACCCTAAACCCAAACTCTC
241542 GAACCCTAAACCCAAACTC
1 GAACCCTAAACCCAAACTC
241561 GAAACCCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.38, G:0.05, T:0.20
Consensus pattern (21 bp):
GAACCCTAAACCCAAACTCTC
Done.