Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004426.1 Kokia drynarioides strain JFW-HI SEQ_117814, 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: 23579
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:8197 original size:216 final size:216
Alignment explanation
Indices: 7910--8473 Score: 694
Period size: 216 Copynumber: 2.6 Consensus size: 216
7900 TGAAAGATCA
* * * * *
7910 TCCAAGAACTAACAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTTAATGATCAACAGTTGT
1 TCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGT
*
7975 TTACAAAATGACAAACTATTTAGACCAAATAAT-CTGATTTCCTGAGCATGGAATGTTCGAAAAA
66 TTACAAAATGACAAACTATTTAGACCAAATGATGC-GATTTCCTGAGCATGGAATGTTCGAAAAA
* *
8039 TTGCTCAAAGGAATGAATCG-CCTTGATTACTTTATA-GAAC-TAAAGTAATAAAAGAACCCCTA
130 TTGCTCAAAGGAATGAATCGTCC-TGAATACTTTA-AGGAACGT-AAGTAATAAAAGAACCCATA
* **
8101 AAAG-TTCGACAAGTTCGGAAGTTCG
192 AAAGCTT-GAAAAGCGCGGAAGTTCG
* * ***
8126 TCCAAGAACCAAGAGAGAAACAATTCTCGCGTAAATAAGTTTTTAATTCAATGACCATTGGTT-T
1 TCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGT
*
8190 ATTACAAAATGACAAACTATTTAGACCAAATGATGCGATTT-TTCGAGCATGGAATGTTCTG-AA
66 -TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTC-GAAA
* ** * * * *
8253 AATTACTCGTAGGAATGAATTGTCCTGAATGCTTTAAGGAACGTAAGTTATAAAAGAACTCATAA
128 AATTGCTCAAAGGAATGAATCGTCCTGAATACTTTAAGGAACGTAAGTAATAAAAGAACCCATAA
8318 AAGCTTGAAAAGCGCGGAAGTTCG
193 AAGCTTGAAAAGCGCGGAAGTTCG
* * * *
8342 GCCAAGAACTAAGAGAGAAACAATTCTCACATAAATTAGTTTTTAATTCAAGGACCAAAAGTTGT
1 TCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGT
** * * * *
8407 TTACAAAATGACAAACTATTTTTACCAAATGATGCGATTTCCTTAGAATGAAATTTTCGAAAAAT
66 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCGAAAAAT
8472 TG
131 TG
8474 GTTGAAGGAG
Statistics
Matches: 297, Mismatches: 40, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
215 4 0.01
216 284 0.96
217 9 0.03
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (216 bp):
TCCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGT
TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCGAAAAAT
TGCTCAAAGGAATGAATCGTCCTGAATACTTTAAGGAACGTAAGTAATAAAAGAACCCATAAAAG
CTTGAAAAGCGCGGAAGTTCG
Found at i:8946 original size:509 final size:511
Alignment explanation
Indices: 7987--8998 Score: 1222
Period size: 509 Copynumber: 2.0 Consensus size: 511
7977 ACAAAATGAC
* * *
7987 AAACTATTTAGACCAAATAATCTGATTTCCTGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAA
1 AAACTATTTAGACCAAATAATCGGACTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAA
* * * *
8052 TGAATCGCCTTGATTACTTTATAGAACTAAAGTAATAAAAGAACCCCTAAAAGTTCGACAAGTTC
66 TGAATCGCCTTGAATACTTCATAGAACCAAAGTAATAAAAGAACCCCTAAAAGTTCGAAAAGTTC
** * * *
8117 GGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCGCGTAAATAAGTTTTTAATTCAATGACC
131 AAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACC
*** ** * * *
8182 ATTGGTTTATTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTTTCGAGCATGGAATGT
196 AAAAGTTTATTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTACCGAGAACGAAATGT
* * * *
8247 TCTGAAAATTACTCGTAGGAATGAATTGTCCTGAATGCTTTAAGGAACGTAAGTTATAAAAGAAC
261 TCTGAAAATTACTAGAAGGAATGAATTGTCCTGAATACTTTAAAGAACGTAAGTTATAAAAGAAC
* * *
8312 TCATAAAAGCTTGAAAAGCGCGGAAGTTCGGCCAAGAACTAAGAGAGAAACAATTCTCACATAAA
326 TCATAAAAGCTTGAAAAGCGCGAAAGTTCGGCCAAGAACAAAGAGAGAAACAATTCTAACATAAA
* * **
8377 TTAGTTTTTAATTCAAGGACCAAAAGTTGTTTACAAAATGACAAACTATTTTTACCAAATGATGC
391 TAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
* * * *
8442 GATTTCCTTAGAAT-GAAAT-TTTCGAAAAATTGGTTGAAGGAGTGGATTGTCTTGAA
456 GATTTCCCTAGAATAG-AATGTTCCG-AAAATTGCTTGAAGGAATGGATTGTCTTGAA
*
8498 AAACTATTTAGACCAAATAAT-GGAACTTCCCGAGCATGGAATGTTCCG-AAAATTGGT-AGAAG
1 AAACTATTTAGACCAAATAATCGG-ACTTCCCGAGCATGGAATGTT-CGAAAAATTGCTCA-AAG
* * * * * * * * *
8560 GAATGGATCGTCTTGAATACTCTCA-ATAACCGAAGTTATAAAAGAACTCGTAAATGTTTGAAAA
63 GAATGAATCGCCTTGAATACT-TCATAGAACCAAAGTAATAAAAGAACCCCTAAAAGTTCGAAAA
* * *
8624 GTTCAAAAGTT-TTCCCAAGAA-CAAGAGAGAAACAATTCTCACATAAATATGTTTTTAATTTAA
127 GTTCAAAAGTTCGT-CCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAA
*
8687 AGACTAAAAGTTGT-TTACAAAATGACAAACTATTTAGACCAAATGCTATG-G-TTTACCGAGAA
191 AGACCAAAAGTT-TATTACAAAATGACAAACTATTTAGACCAAATG--ATGCGATTTACCGAGAA
* ** * * *
8749 CGAAATGTT-TGAATATTGGTAGAAGGAATGGATTGTCTTGAATACTTTAAAGAAC-TGAAGTTT
253 CGAAATGTTCTGAAAATTACTAGAAGGAATGAATTGTCCTGAATACTTTAAAGAACGT-AAGTTA
* * * * * ** *
8812 TAAAAGAACTCGTAAATGTTTGACATGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTC
317 TAAAAGAACTCATAAAAGCTTGAAAAGCGCGAAAGTTCGGCCAAGAACAAAGAGAGAAACAATTC
* * *
8877 TAACGTAAATAAGTTTTTAATTCAAAGATCAAAAGTTGTTTACAAAATGACAAACTGTTTAGACC
382 TAACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACC
* *
8942 AAATGATGTGATTTCCCTAGCATAGAATGTTCCGAAAATTGCTTGAAGGAATGGATT
447 AAATGATGCGATTTCCCTAGAATAGAATGTTCCGAAAATTGCTTGAAGGAATGGATT
8999 CTATTGAATT
Statistics
Matches: 422, Mismatches: 68, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
508 1 0.00
509 198 0.47
510 99 0.23
511 117 0.28
512 7 0.02
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (511 bp):
AAACTATTTAGACCAAATAATCGGACTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAA
TGAATCGCCTTGAATACTTCATAGAACCAAAGTAATAAAAGAACCCCTAAAAGTTCGAAAAGTTC
AAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACC
AAAAGTTTATTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTACCGAGAACGAAATGT
TCTGAAAATTACTAGAAGGAATGAATTGTCCTGAATACTTTAAAGAACGTAAGTTATAAAAGAAC
TCATAAAAGCTTGAAAAGCGCGAAAGTTCGGCCAAGAACAAAGAGAGAAACAATTCTAACATAAA
TAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
GATTTCCCTAGAATAGAATGTTCCGAAAATTGCTTGAAGGAATGGATTGTCTTGAA
Found at i:9668 original size:216 final size:215
Alignment explanation
Indices: 8498--10699 Score: 2191
Period size: 215 Copynumber: 10.3 Consensus size: 215
8488 TTGTCTTGAA
* * ** *
8498 AAACTATTTAGACCAAAT-AATGGAACTTCCCGAGCATGGAATGTTCCG-AAAATTGGTAGAAGG
1 AAACTATTTAGACCAAATGATTCGATTTTCCCGAGCATGGAATGTT-CGAAAAATTGGTCGAAGG
* *
8561 AATGGATCGTCTTGAATACTCTCAATAACCGAAGTTATAAAAGAACTCGTAAATGTTTGAAAAGT
65 AATGGATCGTCTTGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGT
* * * * * *
8626 TCAAAAGTT-TTCCCAAGAACAAGAGAGAAACAATTCTCACATAAATATGTTTTTAATTTAAAGA
130 TCAGAAGTTCGT-CCAAGAACCA-AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
*
8690 CTAAAAGTTGTTTACAAAATGAC
193 CCAAAAGTTGTTTACAAAATGAC
* * * * * * * * *
8713 AAACTATTTAGACCAAATGCTAT-G-GTTTACCGAGAACGAAATGTTTG-AATATTGGTAGAAGG
1 AAACTATTTAGACCAAATGAT-TCGATTTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGG
* * * * * *
8775 AATGGATTGTCTTGAATACTTTAAAGAACTGAAGTTTTAAAAGAACTCGTAAATGTTTGACATGT
65 AATGGATCGTCTTGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGT
* *
8840 TC-GAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTAATTCAAAG
130 TCAG-AAGTTCGTCCAAGAAC-CA-AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
*
8904 ATCAAAAGTTGTTTACAAAATGAC
192 ACCAAAAGTTGTTTACAAAATGAC
* * * * *
8928 AAACTGTTTAGACCAAATGATGT-GA-TTTCCCTAGCATAGAATGTTCCG-AAAATTGCTTGAAG
1 AAACTATTTAGACCAAATGAT-TCGATTTTCCCGAGCATGGAATGTT-CGAAAAATTGGTCGAAG
* * * * * *
8990 GAATGGATTC-TATTGAATTCT-TTAAGGAACCAAAGTTATAAAAGAACTCATAAAAGTTTGACA
64 GAATGGA-TCGTCTTGAATACTCTCAA-GAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACA
** * * * * *
9053 AGCGCGGGAGTTCGGCCAAGAACTAAGAGAAACAATTCTAACGTAAATAAGTTTTTAATTCAAAG
127 AGTTCAGAAGTTCGTCCAAGAACCAAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
*
9118 ACCAAAAGTTGTTTGCAAAATGAC
192 ACCAAAAGTTGTTTACAAAATGAC
* ** * * * * *
9142 AAGCTATTTTTACCAAATGATGT-GA-ATTCCCTAGAATGAAATTTTCGAAAAATTGGTCGAAGG
1 AAACTATTTAGACCAAATGAT-TCGATTTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGG
* * * *
9205 AATGGATCGTCTTGAATATTCTCAAGAACCAAAGTTTTAAAAGAACTCGTAAATGCTTGACAAGT
65 AATGGATCGTCTTGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGT
* * *
9270 TCAGAAGTTCGTCCAAGATCCAAGAGAGAAACAATTCTCACGTAACTAAGTTTTTAATTCAAAAA
130 TCAGAAGTTCGTCCAAGAACC-A-AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* *
9335 CCAAAAGTTGTTTACAAGATGAA
193 CCAAAAGTTGTTTACAAAATGAC
* * * * *
9358 AAACTACTTT-GACCAAATGATGCGAATTCTCTCAAGAATGGAATGTTC-AGAAAATTGGTCGAA
1 AAACTA-TTTAGACCAAATGATTCG-ATTTTCCCGAGCATGGAATGTTCGA-AAAATTGGTCGAA
* **
9421 GGAATGGATCGTCTTGAATACTCTCAAGAATCGAAGTTATAAAAGAACTAATAAATGTTTGACAA
63 GGAATGGATCGTCTTGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAA
* * * * * *
9486 GTTCGGAAGTTCATCCATGAACCATAGAGAAACGATTCTCACATAAATAAGTTTTTATTTCAAAG
128 GTTCAGAAGTTCGTCCAAGAACCA-AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* *
9551 ACCAAAAGTTGTTTACAGAATAAC
192 ACCAAAAGTTGTTTACAAAATGAC
** * * * *
9575 AAACTATTTTTACCAAATGATTCCATTTTACCGAGAATAGAATGTTCGAAAAATTGGTCGAAGGA
1 AAACTATTTAGACCAAATGATTCGATTTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGA
* * * * *
9640 ATGGATCGTCTTGAATACTCTCAAGAATCAAAGTTATAAAAGAACTCATAAATG--TGAGAGGTT
66 ATGGATCGTCTTGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
* * * * * *
9703 TAGAAGTTCGTCTAAGAACCAAATGAGAAATAATTATCATGTAAATAAGTTTTTAAATTCAAACA
131 CAGAAGTTCGTCCAAGAACC-AA-GAGAAACAATTCTCACGTAAATAAGTTTTT-AATTCAAAGA
*
9768 CCACAAGTTGTTTACAAAATGAC
193 CCAAAAGTTGTTTACAAAATGAC
* * * * *
9791 AAACTTTTTAGACCAAATGATGCGA-TTTCCTGAGCATGGAATGTTCGAAAAATTAGAT-GAAAG
1 AAACTATTTAGACCAAATGATTCGATTTTCCCGAGCATGGAATGTTCGAAAAATT-GGTCGAAGG
* * * ** *
9854 AATGGTTCGTCTTGAATGCT-TTAAGGAACCGAAGTTATAAAAGAACTCAAAAATGTTTGACATG
65 AATGGATCGTCTTGAATACTCTCAA-GAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAG
* * * * *
9918 TTCAGAAGTTTGTCCAAGAACCAACAATGAAACAATTCTCTCGTAAAAAAGTTTTTAATTCAAAA
129 TTCAGAAGTTCGTCCAAGAACCAA-GA-GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * * *
9983 ACCAAAAGTTGTTTTCATAACGAT
192 ACCAAAAGTTGTTTACAAAATGAC
* * ** * ** *
10007 AAACTTTTTAGACCAGATGAAGCGA--TTCTCGAGCATGGAATGTTC-AAAAATTTTATTGAAGG
1 AAACTATTTAGACCAAATGATTCGATTTTCCCGAGCATGGAATGTTCGAAAAA-TTGGTCGAAGG
* * * *
10069 AATGAATCGTCTTGAATACTCTCAAGAATCGAAGTTATAAAAGAACTTGTAAATGTTTGACAAAT
65 AATGGATCGTCTTGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGT
* *
10134 TCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATCCTCACGTAAATAA----TTAATTCAAAGA
130 TCAGAAGTTCGTCCAAGAACC-A-AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
10195 CCAAAAGTTGTTTACAAAATGAC
193 CCAAAAGTTGTTTACAAAATGAC
* * ** * * * *
10218 AAACTATTTAGACCAAAT-AATGGAACTTCCCGAGCGTGAAATGTTCGGAAAATTGGTAGAAGGA
1 AAACTATTTAGACCAAATGATTCGATTTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGA
* * *
10282 ATGGATCGTCTTGAATACTCTCAATATCCGAAGTTATAAAAGAACTCGTAAATGTTTGAAAAGTT
66 ATGGATCGTCTTGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
* * * * *
10347 TAGAAGTT-TTCCCAAGAA-CAAGAGAAACAATTCTCAC----ATAAATTTTTAATTTAAAGACT
131 CAGAAGTTCGT-CCAAGAACCAAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
10406 AAAAGTTGTTTACAAAATGAC
195 AAAAGTTGTTTACAAAATGAC
* * * * * * * *
10427 AAACTATTTAGACCAAATGCTAT-G-GTTTACCAAGAATGAAATGTTCG-AAAATTGGTTGAAAG
1 AAACTATTTAGACCAAATGAT-TCGATTTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGG
* * * * *
10489 AATGGATTGTCTTGAATACTTTAAAGAACCGAAGTTTTAAAAGAACTCGTAAATGTTTGACATGT
65 AATGGATCGTCTTGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGT
* * *
10554 TCA-AAG---GTTC-AG-----AGAGAAACAATTCTAACGTAAATAAGTTTTTAATTCAAAGATC
130 TCAGAAGTTCGTCCAAGAACCAAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
*
10609 AAAATTTGTTTACAAAATGAC
195 AAAAGTTGTTTACAAAATGAC
* * * * * * *
10630 AAATTGTTTAGACCAAATGATAT--AATTTCCCTAGCATAGAATGTTCGAAAAATTGCTCAAAGG
1 AAACTATTTAGACCAAATGAT-TCGATTTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGG
10693 AATGGAT
65 AATGGAT
10700 TCTTGCCTAA
Statistics
Matches: 1666, Mismatches: 270, Indels: 113
0.81 0.13 0.06
Matches are distributed among these distances:
199 16 0.01
203 77 0.05
204 19 0.01
205 5 0.00
207 3 0.00
208 72 0.04
209 84 0.05
210 6 0.00
211 49 0.03
212 98 0.06
213 8 0.00
214 295 0.18
215 351 0.21
216 348 0.21
217 130 0.08
218 105 0.06
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (215 bp):
AAACTATTTAGACCAAATGATTCGATTTTCCCGAGCATGGAATGTTCGAAAAATTGGTCGAAGGA
ATGGATCGTCTTGAATACTCTCAAGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTT
CAGAAGTTCGTCCAAGAACCAAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA
AAAGTTGTTTACAAAATGAC
Found at i:15361 original size:32 final size:32
Alignment explanation
Indices: 15325--15387 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
15315 AGCTGAAATT
* * * *
15325 AATTAGTTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATATATTTCAAGTACATGC
15357 AATTAGCTGATTAATATATTTCAAGTACATG
1 AATTAGCTGATTAATATATTTCAAGTACATG
15388 TATGGATGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (32 bp):
AATTAGCTGATTAATATATTTCAAGTACATGC
Found at i:15693 original size:10 final size:10
Alignment explanation
Indices: 15680--15712 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
15670 TCTAGCCTAG
15680 TCCATTCAGC
1 TCCATTCAGC
*
15690 TCCATTCAAC
1 TCCATTCAGC
15700 TCCATTCAGC
1 TCCATTCAGC
15710 TCC
1 TCC
15713 TTACTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.42, G:0.06, T:0.30
Consensus pattern (10 bp):
TCCATTCAGC
Found at i:19614 original size:216 final size:215
Alignment explanation
Indices: 18968--19706 Score: 801
Period size: 216 Copynumber: 3.4 Consensus size: 215
18958 GAATATTCTC
** * * *
18968 AAGAACTCGTAAAAGTTTGACAAGTTCAAAAGTCCGTCCAAGAACTAATAGAGAAACAATTCTC-
1 AAGAACTCGTAAAAGTTTGACAAGTTCAAAAGTTAGTCCAAGAACAAAGAGAGATACAATTCTCA
* * **
19032 TCGTAAATAAGTTTTTAATTCAAAAACCAAAAGTTGTTTACAAAATGAAAAACTATTTTCACCAA
66 T-GTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAA
* * *
19097 ATGATGCGTTTTC-CTGAGCATGGAAGGTTAGGAAAATTGATCGAAGGAATGGATCGTCTTGAAT
130 ATGATGCGATTTCTC-GAGCATGGAATGTTA-AAAAATTGATCGAAGGAATGGATCGTCTTGAAT
* *
19161 ATTCAAAGGAATCGAAGTTATAA
193 ATTCTAAGGAACCGAAGTTATAA
* * * * * * *
19184 AAGAACTTGTAAATGATTGACAAGTTCAGAAGTTTGTCCAAGAACAAAGAGAGATATAATTCCCA
1 AAGAACTCGTAAAAGTTTGACAAGTTCAAAAGTTAGTCCAAGAACAAAGAGAGATACAATTCTCA
* * * *
19249 TGTAAAAAAAGTTTTTAATTCACAGACCAAAAGATT-TTTATAAACTGACAAACTATTTAGACCA
66 TGT-AAATAAGTTTTTAATTCAAAGACCAAAAG-TTGTTTACAAAATGACAAACTATTTAGACCA
* ** * * *
19313 ATTGATGTAATTTCTCGAGTATGGAATGTTTAAAAAATTGGTCCG-AGGAATGGATTGTCTTGAA
129 AATGATGCGATTTCTCGAGCATGGAATG-TTAAAAAATTGAT-CGAAGGAATGGATCGTCTTGAA
* *
19377 TATTCTTAGGATCCGAAGTTATAA
192 TATTCTAAGGAACCGAAGTTATAA
* * *** * * *
19401 AAGAGCTCGTAAATGTTTGACAAGTTTGGAAGTTGGTCAAAGAACCAAGAGAGATACAATTCTCA
1 AAGAACTCGTAAAAGTTTGACAAGTTCAAAAGTTAGTCCAAGAACAAAGAGAGATACAATTCTCA
* * * *
19466 TGTAGATAAGTTTTTAATTCAAAGAGCAAATGTTGTTTACAAAATGACAGA-TAATTTAGACCAA
66 TGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACT-ATTTAGACCAA
* * * *
19530 ATGATGCGATTTCTCGAGCATGCAATGTTCAAAAAATTGCTCGAAGGAATAGATCGTCCTGAATA
130 ATGATGCGATTTCTCGAGCATGGAATGTT-AAAAAATTGATCGAAGGAATGGATCGTCTTGAATA
* *
19595 CTT-TAAGCAACCAAAGTTATAA
194 -TTCTAAGGAACCGAAGTTATAA
* * * * *
19617 AAGAACTCGTAAAAGTTTGGCAAGTTCGAAAGATAATCCAAGAA-AAAGAGAGA-AAACATTCTC
1 AAGAACTCGTAAAAGTTTGACAAGTTCAAAAGTTAGTCCAAGAACAAAGAGAGATACA-ATTCTC
* *
19680 ACGTAAATAAGTTTGTAATTCAAAGAC
65 ATGTAAATAAGTTTTTAATTCAAAGAC
19707 AAATTTTTTT
Statistics
Matches: 433, Mismatches: 78, Indels: 25
0.81 0.15 0.05
Matches are distributed among these distances:
214 2 0.00
215 44 0.10
216 203 0.47
217 176 0.41
218 8 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (215 bp):
AAGAACTCGTAAAAGTTTGACAAGTTCAAAAGTTAGTCCAAGAACAAAGAGAGATACAATTCTCA
TGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAA
TGATGCGATTTCTCGAGCATGGAATGTTAAAAAATTGATCGAAGGAATGGATCGTCTTGAATATT
CTAAGGAACCGAAGTTATAA
Found at i:20571 original size:217 final size:215
Alignment explanation
Indices: 19728--21995 Score: 1882
Period size: 216 Copynumber: 10.5 Consensus size: 215
19718 TACAATTGTG
* * * * * * *
19728 TTGAATACTCTCAA-GAACCGAACTTATGAAAGAACTCTTAAATGTTTTAGAAGATCGAAAGTTC
1 TTGAATA-T-TCAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTC
* * * * * *
19792 ATCCAAGACCCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCATAA-ATCAAAAGTT
64 GTCCAAGAACAAAGAGAGAAACAATTCTCACTTAAATAAGTTTTTAATTCA-AAGACCAAAAGTT
* * * * * * * * * * *
19856 GTTAAGAAAATGAAAAACTATTTTGACCAAATTATGTGATTTCCCGAGAATAGAAGGTT-TAGAA
128 GTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCGA-AA
*
19920 AATTGATCGAAGGAATGG-TAC-TC
192 AATTGGTCGAAGGAATGGAT-CGTC
* * * * **
19943 ---AA-ATT-----AACCAAAGTTATAAAAGAACTCGTAAATATTTGACAAGCTCGAAAGTTAAT
1 TTGAATATTCAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCGT
* * * * *
19999 CCAAGAAAAAAGAAAG-ATCAATTCCCA-TGTAAAAAAGTTTTTAATTCAAAGACCAAAAGATT-
66 CCAAGAACAAAGAGAGAAACAATTCTCACT-TAAATAAGTTTTTAATTCAAAGACCAAAAG-TTG
* * ** * *
20061 TTTATAAAATGATAAACGGTTTAGACCAAATGATGCAATTT-TTCGAGCATGGAATGTTCGAAAA
129 TTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCGAAAA
* * *
20125 ATTGATCAAAGGAATGGATAGTC
193 ATTGGTCGAAGGAATGGATCGTC
* * * * * * *** *
20148 TTGCATATTCTCAGGAAACAAAGTTATAAAAGAATTCGTAAATGTTTGTCAA-TTAAAAAGTTCA
1 TTGAATATTC-AAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCG
* * * *
20212 TCCAAGAACCAAGAGAGAAACAATTCTCTCGTAAATAAGTTTTTAATTCAAAGATCAAAAGTTGT
65 TCCAAGAACAAAGAGAGAAACAATTCTCACTTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
* * * *** * * * *
20277 TAACAAAATGAAAAACTATTTTGACCAAATGATTTTATTTCC-CAGGAATGAAAGGTTCGAAAAA
130 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGA-GCATGGAATGTTCGAAAAA
* * *
20341 TTAGTAGAAGGAATGGGTCGTC
194 TTGGTCGAAGGAATGGATCGTC
* * * *
20363 TTGGATATTCAAAGGAACTGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCAGAAGTTTG
1 TTGAATATTC-AAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCG
* * * *** * *
20428 TTCAAGAACAAAGAGAGATACAATTCCCACTTAAATTTTTTTTTAATTTAAAGACAAAAAAGATT
65 TCCAAGAACAAAGAGAGAAACAATTCTCACTTAAATAAGTTTTTAATTCAAAGAC-CAAAAG-TT
* * * * *
20493 -TTTATAAAATGACAAACTATTTAGACCAAATAATGTGATTTCCTGAGCATGGAATGTTTGGAAA
128 GTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCGAAAA
20557 ATTGGTCGAAGGAATGGATCGTC
193 ATTGGTCGAAGGAATGGATCGTC
* * * * * *
20580 TTGAATATTCTTAA-TAACCGAAGTTATAAAAGAATTCATAAATGTCTAACAAATT-GGAAAGTT
1 TTGAATATTC--AAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGG-AAGTT
* ** *
20643 CGTCCATGAATGAAGAGAGAAACAACTCTCA-TGTAAATAAGTTTTTAATTCAAAGACCAAAAGT
63 CGTCCAAGAACAAAGAGAGAAACAATTCTCACT-TAAATAAGTTTTTAATTCAAAGACCAAAAGT
* * * * * * *
20707 TGTTAACAAAATGAAAAACTATTTTGACCAAAATGATGTGATTTCCCGAGAATGGAAGGTTTC-A
127 TGTTTACAAAATGACAAACTATTTAGACC-AAATGATGCGATTTCCTGAGCATGGAATG-TTCGA
* *
20771 AAAATTGGTCGAAGGAATGGGTCATC
190 AAAATTGGTCGAAGGAATGGATCGTC
*
20797 TTGAATATTCAAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTTG
1 TTGAATATTC-AAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCG
* * * * *
20862 TCCAAGAACAAAGAGAGATACAATTCCCACGTAAA-AATGTTTTTAATTTAAAGATCAAAAGATT
65 TCCAAGAACAAAGAGAGAAACAATTCTCACTTAAATAA-GTTTTTAATTCAAAGACCAAAAG-TT
* * * * ** *
20926 -TTTATAAAACGACAAAGTATTTAGACCAAATGATGTGATTTCCCAAGCATGGAATCTTC-AAAA
128 GTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCGAAAA
* **
20989 ACTTGGTCGAAGGAATGGATTGGG
193 A-TTGGTCGAAGGAATGGATCGTC
* * * * * **
21013 TTGAATACTCTCAA-GAACTGAAATTATAAAAGAAATCGTAAATGTTTAACAAGATCAAAAGTTC
1 TTGAATA-T-TCAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTC
* * * * * *
21077 ATCGAAGAACCAAGAGAGAAATAATTCTCA-TGTAAATAAGTTTTTAATTCATAGACTAAAAGTT
64 GTCCAAGAACAAAGAGAGAAACAATTCTCACT-TAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * * * * *
21141 GTTGAAAAAATTACAAACTTTTTAGACCAAATGATGCGATTTCCTAAGCATGAAATGGTCGAAAA
128 GTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCGAAAA
* * * *
21206 ATTGCTCGAATGAATGAATCATC
193 ATTGGTCGAAGGAATGGATCGTC
* *
21229 TTGAATACTCTCAA-G-ACCTGAAGTTAT-AAAGAACTCTTAAAATATTTGACAAGTTCGGAAGT
1 TTGAATA-T-TCAAGGAACC-GAAGTTATAAAAGAACTCGT-AAATGTTTGACAAGTTCGGAAGT
* * * * * * * *
21291 TCGACCAAGAACCAAGATAGAAACAATTCTCTCATAAATAAGTTTTTAACTAAAAGTCCAAAAGT
62 TCGTCCAAGAACAAAGAGAGAAACAATTCTCACTTAAATAAGTTTTTAATTCAAAGACCAAAAGT
* ** * * * *
21356 TGTTTACAAAATAACAAACTATTTTCACAAAATGATGCGATTTCTTAAGCATGGAATGTTCAAAA
127 TGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCGAAA
** * *
21421 AATTGGTTAAAAGAACGGATCGTC
192 AATTGGTCGAAGGAATGGATCGTC
* * *
21445 TTGAATACTCTCTA--AACTGAAGTTTTAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTC
1 TTGAATA-T-TCAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTC
* * * *
21508 GTCCAAGAACGAAGAGAGAAACTATTCTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGTTG
64 GTCCAAGAACAAAGAGAGAAACAATTCTCACTTAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
* * * * * *
21573 TTAACAAAATGAAAAACTATTTTGGCCAGATGATGCGATTT-CTCGAGAATGGAA-GATTCGAAA
129 TTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATG-TTCGAAA
* * *
21636 AATTGGTCGGAGGAAGGGATCATC
192 AATTGGTCGAAGGAATGGATCGTC
** * ** * *
21660 TCAAATATTCAAAGGAACCAAAGTTATAAAAGAACTTATAAATATTTGACTAGTTCGGAAGTTCG
1 TTGAATATTC-AAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCG
* * * * * **
21725 TCCACGAACAAAAAGAGAAACAATTC-CTACGTAAAAAAGTTTTTAATTTAAAGACTGAAAGATT
65 TCCAAGAACAAAGAGAGAAACAATTCTC-ACTTAAATAAGTTTTTAATTCAAAGACCAAAAG-TT
** * * * * * * *
21789 -TTTTTAAAATGACAAACTATTTAAACCAAATGCTGCCATTTTCCCGATCATAGAATGTTCAAAA
128 GTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA-TTTCCTGAGCATGGAATGTTCGAAA
* * *
21853 AATTGCTCGAACGAATAGATCGTC
192 AATTGGTCGAAGGAATGGATCGTC
* * * * *
21877 TTGAATACTTTAAGCAGCCGAAGTTATAAAAGAACTCGAAAATGTTTGACAAGTTTC-GAAGTTT
1 TTGAATA-TTCAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAG-TTCGGAAGTTC
** * * * *
21941 GTCCACA-AACCTAGAGGGACACAATTCTCACGTAAATAAGTTTGTAATTCAAAGA
64 GTCCA-AGAACAAAGAGAGAAACAATTCTCACTTAAATAAGTTTTTAATTCAAAGA
21996 TAGAAGTTTT
Statistics
Matches: 1641, Mismatches: 349, Indels: 124
0.78 0.17 0.06
Matches are distributed among these distances:
203 2 0.00
204 95 0.06
205 60 0.04
208 1 0.00
209 4 0.00
210 1 0.00
211 1 0.00
212 2 0.00
213 2 0.00
214 29 0.02
215 359 0.22
216 596 0.36
217 468 0.29
218 21 0.01
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (215 bp):
TTGAATATTCAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCGT
CCAAGAACAAAGAGAGAAACAATTCTCACTTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTT
TACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCGAAAAATT
GGTCGAAGGAATGGATCGTC
Found at i:21420 original size:432 final size:428
Alignment explanation
Indices: 19728--22003 Score: 2230
Period size: 432 Copynumber: 5.3 Consensus size: 428
19718 TACAATTGTG
* * * * *
19728 TTGAATACTCTCAAGAACCGAACTTATGAAAGAACTCTTAAATGTTTTAGAAGATCGAAAGTTCA
1 TTGAATACTCTCAAGAACCGAAATTATAAAAGAACTCGTAAATGTTTAACAAGATCGAAAGTTCA
* *
19793 TCCAAGACCCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCATAA-A-TCAAAAGTT
66 TCCAAGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATTCA-AAGACT-AAAAGTT
* * **
19856 GTTAAGAAAATGAAAAACTATTTTGACCAAATTATGTGATTTCCCGAGAAT-AGAAGGTTTAGAA
129 GTTAACAAAATGAAAAACTATTTTGACCAAATGATGTGATTTCCCGAGAATGA-AAGGTCGA-AA
* * *
19920 AATTGATCGAAGGAAT-GGT-A-C-TCAA-ATT---A--ACCAAAGTTATAAAAGAACTCGTAAA
192 AATTGGTCGAAGGAATGGGTCATCTTGAATATTCAAAGGACCGAAGTTATAAAAGAACTCGTAAA
* * ** * * *
19975 TATTTGACAAGCTCGAAAGTTAATCCAAGAAAAAAGAAAG-ATCAATTCC-CATGTAAAAAAGTT
257 TATTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCCACA--TAAAAAAGTT
* * ** *
20038 TTTAATTCAAAGACCAAAAGATTTTTATAAAATGATAAACGGTTTAGACCAAATGATGCAATTT-
320 TTTAATTTAAAGACCAAAAGATTTTTATAAAATGACAAACTATTTAGACCAAATGATGCGATTTC
* * * *
20102 TTCGAGCATGGAATGTTCGAAAAATTGATCAAAGGAATGGATAGTC
385 CT-AAGCATGGAATGTTC-AAAAATTGGTCAAAGGAATGGATCGTC
* * * * * ** * **
20148 TTGCATATTCTCAGGAAAC-AAAGTTATAAAAGAATTCGTAAATGTTTGTCAA-TTAAAAAGTTC
1 TTGAATACTCTCAAGAACCGAAA-TTATAAAAGAACTCGTAAATGTTTAACAAGATCGAAAGTTC
*
20211 ATCCAAGAACCAAGAGAGAAACAATTCTC-TCGTAAATAAGTTTTTAATTCAAAGA-TCAAAAGT
65 ATCCAAGAACCAAGAGAGAAATAATTCTCAT-GTAAATAAGTTTTTAATTCAAAGACT-AAAAGT
* *
20274 TGTTAACAAAATGAAAAACTATTTTGACCAAATGATTTTATTTCCC-AGGAATGAAAGGTTCGAA
128 TGTTAACAAAATGAAAAACTATTTTGACCAAATGATGTGATTTCCCGA-GAATGAAAGG-TCGAA
* * * * *
20338 AAATTAGTAGAAGGAATGGGTCGTCTTGGATATTCAAAGGAACTGAAGTTATAAAAGAACTCGTA
191 AAATTGGTCGAAGGAATGGGTCATCTTGAATATTCAAAGG-ACCGAAGTTATAAAAGAACTCGTA
* * * * * * ****
20403 AATGTTTGACAAGTTCAGAAGTTTGTTCAAGAACAAAGAGAGATACAATTCCCACTTAAATTTTT
255 AATATTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATT-CCACATAAAAAAGT
* * *
20468 TTTTAATTTAAAGACAAAAAAGATTTTTATAAAATGACAAACTATTTAGACCAAATAATGTGATT
319 TTTTAATTTAAAGAC-CAAAAGATTTTTATAAAATGACAAACTATTTAGACCAAATGATGCGATT
* ** *
20533 TCCTGAGCATGGAATGTTTGGAAAATTGGTCGAAGGAATGGATCGTC
383 TCCTAAGCATGGAATG-TTCAAAAATTGGTCAAAGGAATGGATCGTC
* * * * * * * *
20580 TTGAATATTCTTAATAACCGAAGTTATAAAAGAATTCATAAATGTCTAACAA-ATTGGAAAGTTC
1 TTGAATACTCTCAAGAACCGAAATTATAAAAGAACTCGTAAATGTTTAACAAGA-TCGAAAGTTC
* * ** * * *
20644 GTCCATGAATGAAGAGAGAAACAACTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
65 ATCCAAGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATTCAAAGACTAAAAGTTG
*
20709 TTAACAAAATGAAAAACTATTTTGACCAAAATGATGTGATTTCCCGAGAATGGAAGGTTTC-AAA
130 TTAACAAAATGAAAAACTATTTTGACC-AAATGATGTGATTTCCCGAGAATGAAAGG--TCGAAA
20773 AATTGGTCGAAGGAATGGGTCATCTTGAATATTCAAAGGAACCGAAGTTATAAAAGAACTCGTAA
192 AATTGGTCGAAGGAATGGGTCATCTTGAATATTCAAAGG-ACCGAAGTTATAAAAGAACTCGTAA
* * * * *
20838 ATGTTTGACAAGTTCGGAAGTTTGTCCAAGAACAAAGAGAGATACAATTCCCACGTAAAAATGTT
256 ATATTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATT-CCACATAAAAAAGTT
* * * *
20903 TTTAATTTAAAGATCAAAAGATTTTTATAAAACGACAAAGTATTTAGACCAAATGATGTGATTTC
320 TTTAATTTAAAGACCAAAAGATTTTTATAAAATGACAAACTATTTAGACCAAATGATGCGATTTC
* * * * **
20968 CCAAGCATGGAATCTTCAAAAACTTGGTCGAAGGAATGGATTGGG
385 CTAAGCATGGAATGTTCAAAAA-TTGGTCAAAGGAATGGATCGTC
* * *
21013 TTGAATACTCTCAAGAACTGAAATTATAAAAGAAATCGTAAATGTTTAACAAGATCAAAAGTTCA
1 TTGAATACTCTCAAGAACCGAAATTATAAAAGAACTCGTAAATGTTTAACAAGATCGAAAGTTCA
* *
21078 TCGAAGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATTCATAGACTAAAAGTTGT
66 TCCAAGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATTCAAAGACTAAAAGTTGT
* * * ** *
21143 TGAA-AAAATTACAAACT-TTTTAGACCAAATGATGCGATTTCCTAAGCATGAAATGGTCGAAAA
131 T-AACAAAATGAAAAACTATTTT-GACCAAATGATGTGATTTCCCGAGAATGAAA-GGTCGAAAA
* * ** *
21206 ATTGCTCGAATGAATGAATCATCTTGAATACTCTC-AA-GACCTGAAGTTAT-AAAGAACTCTTA
193 ATTGGTCGAAGGAATGGGTCATCTTGAATA-T-TCAAAGGACC-GAAGTTATAAAAGAACTCGT-
* * * * *
21268 AAATATTTGACAAGTTCGGAAGTTCGACCAAGAACCAAGATAGAAACAATTCTCTCATAAATAAG
254 AAATATTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTC-CACATAAAAAAG
* * * * * ** *
21333 TTTTTAACTAAAAGTCCAAAAG-TTGTTTACAAAATAACAAACTATTTTCACAAAATGATGCGAT
318 TTTTTAATTTAAAGACCAAAAGATT-TTTATAAAATGACAAACTATTTAGACCAAATGATGCGAT
* * * *
21397 TTCTTAAGCATGGAATGTTCAAAAAATTGGTTAAAAGAACGGATCGTC
382 TTCCTAAGCATGGAATGTTC-AAAAATTGGTCAAAGGAATGGATCGTC
* * * * * * * *
21445 TTGAATACTCTCTA-AACTGAAGTTTTAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCG
1 TTGAATACTCTCAAGAACCGAAATTATAAAAGAACTCGTAAATGTTTAACAAGATCGAAAGTTCA
* ** *
21509 TCCAAGAACGAAGAGAGAAACT-ATTCTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGTTG
66 TCCAAGAACCAAGAGAGAAA-TAATTCTCATGTAAATAAGTTTTTAATTCAAAGACTAAAAGTTG
* * * * * *
21573 TTAACAAAATGAAAAACTATTTTGGCCAGATGATGCGATTTCTCGAGAATGGAAGATTCGAAAAA
130 TTAACAAAATGAAAAACTATTTTGACCAAATGATGTGATTTCCCGAGAATGAAAG-GTCGAAAAA
* ** * **
21638 TTGGTCGGAGGAA-GGGATCATCTCAAATATTCAAAGGAACCAAAGTTATAAAAGAACTTATAAA
194 TTGGTCGAAGGAATGGG-TCATCTTGAATATTCAAAGG-ACCGAAGTTATAAAAGAACTCGTAAA
* * * *
21702 TATTTGACTAGTTCGGAAGTTCGTCCACGAACAAAAAGAGAAACAATTCCTACGTAAAAAAGTTT
257 TATTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCC-ACATAAAAAAGTTT
** * * * *
21767 TTAATTTAAAGACTGAAAGATTTTTTTAAAATGACAAACTATTTAAACCAAATGCTGCCATTTTC
321 TTAATTTAAAGACCAAAAGATTTTTATAAAATGACAAACTATTTAGACCAAATGATGCGA-TTTC
** * * * * * *
21832 CCGATCATAGAATGTTCAAAAAATTGCTCGAACGAATAGATCGTC
385 CTAAGCATGGAATGTTC-AAAAATTGGTCAAAGGAATGGATCGTC
* * * * * *
21877 TTGAATACT-TTAAGCAGCCGAAGTTATAAAAGAACTCGAAAATGTTTGACAAGTTTCG-AAGTT
1 TTGAATACTCTCAAG-AACCGAAATTATAAAAGAACTCGTAAATGTTTAACAAG-ATCGAAAGTT
** * * * * * * *
21940 TGTCCACA-AACCTAGAGGGACACAATTCTCACGTAAATAAGTTTGTAATTCAAAGA-TAGAAGT
64 CATCCA-AGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATTCAAAGACTAAAAGT
22003 T
128 T
22004 TTTTTTTTAC
Statistics
Matches: 1542, Mismatches: 254, Indels: 108
0.81 0.13 0.06
Matches are distributed among these distances:
418 3 0.00
419 131 0.08
420 44 0.03
422 1 0.00
423 2 0.00
424 3 0.00
427 1 0.00
429 2 0.00
430 63 0.04
431 316 0.20
432 409 0.27
433 393 0.25
434 170 0.11
435 4 0.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (428 bp):
TTGAATACTCTCAAGAACCGAAATTATAAAAGAACTCGTAAATGTTTAACAAGATCGAAAGTTCA
TCCAAGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATTCAAAGACTAAAAGTTGT
TAACAAAATGAAAAACTATTTTGACCAAATGATGTGATTTCCCGAGAATGAAAGGTCGAAAAATT
GGTCGAAGGAATGGGTCATCTTGAATATTCAAAGGACCGAAGTTATAAAAGAACTCGTAAATATT
TGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCCACATAAAAAAGTTTTTAAT
TTAAAGACCAAAAGATTTTTATAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCTAAGC
ATGGAATGTTCAAAAATTGGTCAAAGGAATGGATCGTC
Found at i:22396 original size:216 final size:215
Alignment explanation
Indices: 22041--23579 Score: 1356
Period size: 216 Copynumber: 7.2 Consensus size: 215
22031 TCAAGAACGG
* * * * *
22041 AAGTTATGAAAA-AACTCGTAAATGTTTGAGAAGATCAAAAGTTCGTCCAAGATTC-AAGAGATA
1 AAGTTAT-AAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGA-ACAAAGAGAGA
* * * * *
22104 AATAATACTCACGTAAATAAGTTTTTAATTCATAA-ACCAAAAGTTATTAAGAAAATGA-AAATC
64 AACAATTCTCACGTAAATAAGTTTTTAATTCA-AAGACCAAAAGTTTTTTACAAAATGACAAA-C
* * * * * * *
22167 TATTTTTACCAAATGATGTGATTTCCCGAGAACGAAAGGTTCGAAAAGTTGCTCAAAGGAATGGA
127 TATTTTGACCAAATGATGTGATTTCCCGAGCATGGAAGGTTCGAAAAATTGGTCGAAGGAATGGA
22232 TCGTCTTGAATATTCGAAGGAACCA
192 TCGTCTTGAATATTC-AAGGAACCA
* * * *
22257 AAGTTATAAAAGAACTCGTAAATGTTTTACAGGTTCGAAAGTTCGTCCAAGAAAAAAGAGAGACA
1 AAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAA
* * *
22322 CAATTCCCACGTAAAAAAGTTTTTAATTCAAAGACCAAAA-TATTTTTATAAAATGACAAACTAT
66 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGT-TTTTTACAAAATGACAAACTAT
* ** * * * *
22386 TTAGACCAAATGATGCAATTTCTCGAGCATGGAATGCTCGAAAAATTGGTCGAAGGAATAGATCG
130 TTTGACCAAATGATGTGATTTCCCGAGCATGGAAGGTTCGAAAAATTGGTCGAAGGAATGGATCG
* * *
22451 TCTTTAACATTCTCAGGAA-C-
195 TCTTGAATATTC-AAGGAACCA
* * * * * *
22471 ------T----G---TCGTAAATGTCTAACAAATTGGAAAGTTCGTCCATGAACAAAGAGATAAA
1 AAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAA
* * *
22523 CAATTTTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTAATTTCAAAATGAAAAACT
66 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-TT--TTACAAAATGACAAACT
* *
22588 ATTTTGACCAAATGATGTGATTTCCC-ATGAATGGAAGGTTCAAAAAACTT-GTCGAAGGAATGG
128 ATTTTGACCAAATGATGTGATTTCCCGA-GCATGGAAGGTTCGAAAAA-TTGGTCGAAGGAATGG
* * * *
22651 GTCGTCATGAATATTCAAAGGGACCG
191 ATCGTCTTGAATATTC-AAGGAACCA
** * * *
22677 TCGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGGGAAGTTTGTCCAAGAAGAAAGAGAGA
1 AAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTC--GAAAGTTCGTCCAAGAACAAAGAGAGA
* * * ** * * * * * ** * * *
22742 TATAATTCCCACAAAAAAAAGTTTTCAATTTAAACACCAAAAGATTTTTGTAAAACGACGAAGTA
64 AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTACAAAATGACAAACTA
* * * * * * ** *
22807 TTTAGACCAAAAGATGTGATTTTCGGAGCGTGGAATGTTCGGTAAATTGGTCGAAGGAATGGATT
129 TTTTGACCAAATGATGTGATTTCCCGAGCATGGAAGGTTCGAAAAATTGGTCGAAGGAATGGATC
* **
22872 GTGTTGAATACTCTCAA-GAACTG
194 GTCTTGAATA-T-TCAAGGAACCA
* * * * * *
22895 AAGTTATAAAAGAACTCGTAAATGTTTAACGAGATCAAAAGTTCATCCAAGAACCAAGAGAGAAA
1 AAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAA
* * *
22960 TAATTCTCACGTAAATAAGTTTTTAATTCATAGACCAAAAGTTGTTTACAAAATGACAAACT-TT
66 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTACAAAATGACAAACTATT
* ** * * * *
23024 TTAGACCAAATGATGCGATTTCCTAAGCATGAAATGG-TCGAAAAATTGCTCGAATGAATGAATC
131 TT-GACCAAATGATGTGATTTCCCGAGCATGGAA-GGTTCGAAAAATTGGTCGAAGGAATGGATC
*
23088 GTCTTGAACACTCTCAA-G-ACCTA
194 GTCTTGAATA-T-TCAAGGAACC-A
* * * * *
23111 AAGTTATAAAAGAGCTCTTAAAATATTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAA
1 AAGTTATAAAAGAACTCGT-AAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAA
* * * * * * *
23176 ACAATTCTCTCATAAATAAGTTTTTAACTAAAAGTCCAAAAGTTGTTTACAAAATAACAAACTAT
65 ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTACAAAATGACAAACTAT
* * *** * * *
23241 TTTCACAAAATGATGTGATTTCTTAAGCATGGAATGTTCAAAAAATTGGTCG-AGAGAACGGATC
130 TTTGACCAAATGATGTGATTTCCCGAGCATGGAAGGTTCGAAAAATTGGTCGAAG-GAATGGATC
* * *
23305 GTCTTGAATACTCTCTA--AATCG
194 GTCTTGAATA-T-TCAAGGAACCA
* * *
23327 AAGTTTTAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACGAAGAGAGAAA
1 AAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAA
* ** * * *
23392 CTATTCTCACGTAAATAAGTTTTTAATTCAAAGAAAAAAAGTTGTTAACAAAATGAAAAACTATT
66 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTACAAAATGACAAACTATT
* * * * * * * *
23457 TTGACCAGATGATGCGATTTTCCGAGAATGGAAGATTCGAAAAATTGGTCGGAGGAAGGGATCAT
131 TTGACCAAATGATGTGATTTCCCGAGCATGGAAGGTTCGAAAAATTGGTCGAAGGAATGGATCGT
*
23522 CTCGAATATTCAAAGGAACCA
196 CTTGAATATTC-AAGGAACCA
* *
23543 AAGTTATAAAAGAACTCATAAATGTTTGACTAGTTCG
1 AAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCG
Statistics
Matches: 1057, Mismatches: 222, Indels: 88
0.77 0.16 0.06
Matches are distributed among these distances:
201 79 0.07
202 3 0.00
203 1 0.00
204 80 0.08
205 3 0.00
208 1 0.00
212 1 0.00
213 2 0.00
214 2 0.00
215 166 0.16
216 369 0.35
217 162 0.15
218 107 0.10
219 21 0.02
220 4 0.00
221 56 0.05
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (215 bp):
AAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAA
CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTACAAAATGACAAACTATT
TTGACCAAATGATGTGATTTCCCGAGCATGGAAGGTTCGAAAAATTGGTCGAAGGAATGGATCGT
CTTGAATATTCAAGGAACCA
Done.