Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005088.1 Hibiscus syriacus cultivar Beakdansim tig00011434_pilon, 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: 201410
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:230 original size:5 final size:5
Alignment explanation
Indices: 211--250 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
201 TTTTATAATC
*
211 TTTTA TCTTTA TTATA TTATTA TTTTA TTTTA TTTTA TTT
1 TTTTA T-TTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTT
251 CTTATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:237 original size:22 final size:22
Alignment explanation
Indices: 211--263 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
201 TTTTATAATC
211 TTTTATCTTTATTATA-TTATTA
1 TTTTAT-TTTATTATATTTATTA
* *
233 TTTTATTTTATTTTATTTCTTA
1 TTTTATTTTATTATATTTATTA
255 TTTTTATTT
1 -TTTTATTT
264 ATACATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 8 0.30
22 11 0.41
23 8 0.30
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTATTTTATTATATTTATTA
Found at i:343 original size:22 final size:22
Alignment explanation
Indices: 297--366 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 22
287 ATATATATTA
297 TATTTTATTT-TTTAATCATTTTAT
1 TATTTTATTTCTTT-AT--TTTTAT
321 TATTTTATTTCTTTATTTTTAT
1 TATTTTATTTCTTTATTTTTAT
*
343 TA-TTTATTTCTTTTATTTCTAT
1 TATTTTATTTC-TTTATTTTTAT
365 TA
1 TA
367 CTTTGTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
21 8 0.19
22 20 0.47
24 12 0.28
25 3 0.07
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTATTTCTTTATTTTTAT
Found at i:585 original size:20 final size:21
Alignment explanation
Indices: 552--590 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
542 TCCCTTGTTC
* *
552 TTTTTCTTTATATTTTATTAT
1 TTTTTCCTTATATTATATTAT
573 TTTTTCCTT-TATTATATT
1 TTTTTCCTTATATTATATT
591 TAGCCTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTCCTTATATTATATTAT
Found at i:6083 original size:165 final size:162
Alignment explanation
Indices: 5811--6674 Score: 932
Period size: 165 Copynumber: 5.2 Consensus size: 162
5801 TTTAAGAGAA
* * * * *
5811 CATTTACGGCATAACTTAAGTCGAGAAGGGTTATCCG-CAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTTGAGTTCGATTAC
*
5875 GCTCAGCTCCAAGGCACATCGTTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAG
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A--AAG
*
5940 ACCCCCGTTCGATTACACTCAACTTCGAGGGCATAT
127 ACCCCCGTTCGATTACACTCAGCTTCGAGGGCATAT
* *
5976 CATTTACAGCATAGCTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCG-TCTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGAT-TAC
* *
6040 GCTCAGCTCCAAGGTACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-AAAGAC
*
6105 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
129 CCCC--GTTCGATTACACTCAGCTTCGAGGGCATAT
* * * * * * * ***
6141 CATTTACGGTATAACTTAAGTCGAGAAGGGTCATCTGCCAACCAAAGACCCCCGAGTTCGATTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTTGAGTTCGATTAC
* * * * * * * * * * *
6206 ACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGT-TATAAGGGTTATATGTCACCAA
65 GCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAA-GTCGAGAAGGGCTATCTG---CCAA
** * * * *
6270 AGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACAT
125 AGACC--CCCGTTCGATTACACTCAGCTTCGAGGGCATAT
* * * * * * *
6309 CATTTGCAGCACAACTTAAGTCTAG-AGGGTTGTCTGCTAACAAAAGACCTTTGAGTTCGATTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TCACCAAAGACCTTTGAGTTCGATTAC
* * *
6373 GCTCAGCTCCAAGGCATATCATTTGTAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
** * *
6438 CTTAAGTTCGATTACACTCAGCTTCAAGGGGATAT
130 C--CCGTTCGATTACACTCAGCTTCGAGGGCATAT
* *
6473 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACA
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGATTACG
6538 CTCAGCTCCAAGGCACATCATTTGCAGC--AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
* *
6601 CCGAGTTCGATTACACTCAACTTCGAGGTCATAT
131 CC--GTTCGATTACACTCAGCTTCGAGGGCATAT
* * * * *
6635 CATTTACAACATAGCTCAAGGCAAGAAGGGCTATTTGTCA
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA
6675 ATAAAATTGT
Statistics
Matches: 587, Mismatches: 91, Indels: 45
0.81 0.13 0.06
Matches are distributed among these distances:
161 1 0.00
162 95 0.16
163 35 0.06
164 80 0.14
165 181 0.31
166 64 0.11
167 73 0.12
168 32 0.05
169 23 0.04
170 2 0.00
171 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (162 bp):
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGATTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
CCGTTCGATTACACTCAGCTTCGAGGGCATAT
Found at i:6086 original size:83 final size:83
Alignment explanation
Indices: 5811--6674 Score: 774
Period size: 83 Copynumber: 10.5 Consensus size: 83
5801 TTTAAGAGAA
* * * *
5811 CATTTACGGCATAACTTAAGTCGAGAAGGGTTATCCG-CAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGATTAC
*
5875 GCTCAGCTCCAAGGCACAT
65 ACTCAGCTCCAAGGCACAT
* * * * **
5894 CGTTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACC-AAGACC--CCCGTTCGATTAC
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGATTAC
* * * *
5956 ACTCAACTTCGAGGGCATAT
65 ACTCAGC-TCCAAGGCACAT
* * *
5976 CATTTACAGCATAGCTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCG-TCTAC
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGAT-TAC
* *
6040 GCTCAGCTCCAAGGTACAT
65 ACTCAGCTCCAAGGCACAT
* * **
6059 CATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C-CAAAAGACCCCCGAGTTCGATTACA
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACA
* *
6122 CTCAGCTTCGAGGGCACAT
66 CTCAGC-TCCAAGGCACAT
* * * * * **
6141 CATTTACGGTATAACTTAAGTCGAGAAGGGTCATCTGCCAACCAAAGACCCCCGAGTTCGATTAC
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGATTAC
* * *
6206 ACTCAGCTTCGAGGGCATAT
65 ACTCAGC-TCCAAGGCACAT
* * * * * *
6226 CATTTACAGCATAACTCAAGGT-TATAAGGGTTATATGTCACCAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAGCTTAA-GTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTAC
6290 ACTCAGCTCCAAGGCACAT
65 ACTCAGCTCCAAGGCACAT
* * * * * * * *
6309 CATTTGCAGCACAACTTAAGTCTAG-AGGGTTGTCTGCTAACAAAAGACCTTTGAGTTCGATTAC
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTG-TCACCAAAGACCTTCGAGTTCGATTAC
* *
6373 GCTCAGCTCCAAGGCATAT
65 ACTCAGCTCCAAGGCACAT
** * * *
6392 CATTTGTAGCATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAAGACCCTT-AAGTTCGATTAC
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTCACCAAAGA-CCTTCGAGTTCGATTAC
* * *
6453 ACTCAGCTTCAAGGGGATAT
65 ACTCAGCTCCAA-GGCACAT
* * * * * *
6473 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACA
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACA
6538 CTCAGCTCCAAGGCACAT
66 CTCAGCTCCAAGGCACAT
* * **
6556 CATTTGCAGC--AGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACA
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACA
* * * *
6616 CTCAACTTCGAGGTCATAT
66 CTCAGCTCCAAGG-CACAT
* * * * * *
6635 CATTTACAACATAGCTCAAGGCAAGAAGGGCTATTTGTCA
1 CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTCA
6675 ATAAAATTGT
Statistics
Matches: 638, Mismatches: 116, Indels: 53
0.79 0.14 0.07
Matches are distributed among these distances:
78 31 0.05
79 12 0.02
80 27 0.04
81 124 0.19
82 101 0.16
83 186 0.29
84 85 0.13
85 70 0.11
86 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
CATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACA
CTCAGCTCCAAGGCACAT
Found at i:6504 original size:247 final size:243
Alignment explanation
Indices: 5823--6668 Score: 1009
Period size: 247 Copynumber: 3.4 Consensus size: 243
5813 TTTACGGCAT
* * * *** *
5823 AACTTAAGTCGAGAAGGGTTATCCGCAACCAAAGACCTTTGAGTTCGATTACGCTCAGCTCCAAG
1 AACTTAAGTCGAGAAGGGCTATCTGC--CAAAAGACCCCCGAGTTCGATTACACTCAGCTCCAAG
* * * **
5888 GCACATCGTTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAGACCCCCGTTCGAT
64 GCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCTGCC-A--AAGACCCAAGTTCGAT
* *
5953 TACACTCAACTTCGAGGGCATATCATTTACAGCATAGCTCAAGGCTAGAAGGGTTATCTGTCACC
126 TACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
* * * * *
6018 AAAGACCTTCGAGTTCGTCTACGCTCAGCTCCAAGGTACATCATTTACAGCAT
191 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCAC
* * *
6071 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
1 AACTTAAGTCGAGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGC-TCCAAGG
* * * * *
6136 CACATCATTTACGGTATAACTTAAGTCGAGAAGGG-TCATCTGCCAACCAAAGACCCCCGAGTTC
65 CACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCT-ATCTG----CCAAAGA--CCCAAGTTC
* * *
6200 GATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGTTATAAGGGTTATATGTC
123 GATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
6265 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCAC
188 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCAC
* * * *** *
6321 AACTTAAGTCTAG-AGGGTTGTCTGCTAACAAAAGACCTTTGAGTTCGATTACGCTCAGCTCCAA
1 AACTTAAGTCGAGAAGGGCTATCTGC---CAAAAGACCCCCGAGTTCGATTACACTCAGCTCCAA
* **
6385 GGCATATCATTTGTAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGAT
63 GGCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCC--AAGTTCGAT
* * *
6450 TACACTCAGCTTCAAGGGGATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAAC
126 TACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
* *
6515 AAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAG--C
191 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCAC
* * * *
6566 AGCTTAAGTCGAGAAGGGCTATCTGCC-AAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGT
1 AACTTAAGTCGAGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTCCAAGG-
* * * *
6630 CATATCATTTACAACATAGCTCAAGGCAAGAAGGGCTAT
65 CACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTAT
6669 TTGTCAATAA
Statistics
Matches: 513, Mismatches: 69, Indels: 37
0.83 0.11 0.06
Matches are distributed among these distances:
242 29 0.06
243 35 0.07
245 15 0.03
246 37 0.07
247 162 0.32
248 27 0.05
249 10 0.02
250 130 0.25
251 40 0.08
252 28 0.05
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (243 bp):
AACTTAAGTCGAGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTCCAAGGC
ACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCAAGTTCGATTACAC
TCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGA
CCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCAC
Found at i:8318 original size:8 final size:8
Alignment explanation
Indices: 8307--8346 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
8297 TTTTATTATT
8307 TTTATTTC
1 TTTATTTC
8315 TTTATTT-
1 TTTATTTC
8322 TTTATTAT-
1 TTTATT-TC
8330 TTTATTTC
1 TTTATTTC
8338 TTTATTTC
1 TTTATTTC
8346 T
1 T
8347 ATTACTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTATTTC
Found at i:8325 original size:15 final size:15
Alignment explanation
Indices: 8305--8346 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
8295 CATTTTATTA
8305 TTTTTATTTCTTTAT
1 TTTTTATTTCTTTAT
8320 TTTTTATTAT-TTTAT
1 TTTTTATT-TCTTTAT
8335 TTCTTTATTTCT
1 TT-TTTATTTCT
8347 ATTACTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATTTCTTTAT
Found at i:8332 original size:23 final size:24
Alignment explanation
Indices: 8297--8344 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
8287 TTTTTAATCA
8297 TTTTATTATTTTTATTTCTTTATT
1 TTTTATTATTTTTATTTCTTTATT
8321 TTTTATTA-TTTTATTTCTTTATT
1 TTTTATTATTTTTATTTCTTTATT
8344 T
1 T
8345 CTATTACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTATTATTTTTATTTCTTTATT
Found at i:8332 original size:32 final size:32
Alignment explanation
Indices: 8283--8346 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
8273 TATATATATA
*
8283 TTATTTTTTAATCATTTTATTATTTTTATTTCT
1 TTATTTTTTAATCATTTTATT-TCTTTATTTCT
*
8316 TTATTTTTT-ATTATTTTATTTCTTTATTTCT
1 TTATTTTTTAATCATTTTATTTCTTTATTTCT
8347 ATTACTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 10 0.34
32 10 0.34
33 9 0.31
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (32 bp):
TTATTTTTTAATCATTTTATTTCTTTATTTCT
Found at i:8354 original size:14 final size:13
Alignment explanation
Indices: 8306--8354 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
8296 ATTTTATTAT
*
8306 TTTTATTTCTTTA
1 TTTTATTACTTTA
8319 TTTT-TTA--TTA
1 TTTTATTACTTTA
*
8329 TTTTATTTCTTTA
1 TTTTATTACTTTA
8342 TTTCTATTACTTT
1 TTT-TATTACTTT
8355 GTTATGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
10 7 0.24
11 2 0.07
12 2 0.07
13 10 0.34
14 8 0.28
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTACTTTA
Found at i:8368 original size:2 final size:2
Alignment explanation
Indices: 8361--8398 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8351 CTTTGTTATG
8361 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8399 ATTATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8583 original size:15 final size:16
Alignment explanation
Indices: 8563--8594 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
8553 TCTTTATATT
8563 TTTATTAT-TTTTTCC
1 TTTATTATATTTTTCC
8578 TTTATTATATTTTTCC
1 TTTATTATATTTTTCC
8594 T
1 T
8595 ATTTAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTATATTTTTCC
Found at i:8612 original size:5 final size:5
Alignment explanation
Indices: 8602--8691 Score: 62
Period size: 5 Copynumber: 18.6 Consensus size: 5
8592 CCTATTTAAC
* * * * *
8602 TTTAT TTTAT TTTAT TTTAT TTT-C TTTAT CTTAT ATTAT CTTAT CTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
* * * *
8651 TTCAT TTGTTT TTTA- ATTGT TTT-T TTTAT TTTA- TTTAT TTT
1 TTTAT TT-TAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
8692 CATTACTTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
4 13 0.19
5 51 0.76
6 3 0.04
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:8682 original size:9 final size:9
Alignment explanation
Indices: 8602--8691 Score: 55
Period size: 9 Copynumber: 9.9 Consensus size: 9
8592 CCTATTTAAC
8602 TTTATTTTA
1 TTTATTTTA
8611 TTTTATTTTA
1 -TTTATTTTA
8621 TTT-TCTTTA
1 TTTAT-TTTA
*
8630 TCTTATATTA
1 T-TTATTTTA
*
8640 TCTTATCTTA
1 T-TTATTTTA
*
8650 TTTCA-TTTG
1 TTT-ATTTTA
*
8659 TTT-TTTAA
1 TTTATTTTA
8667 TTGT-TTTT-
1 TT-TATTTTA
8675 TTTATTTTA
1 TTTATTTTA
8684 TTTATTTT
1 TTTATTTT
8692 CATTACTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
7 1 0.02
8 11 0.17
9 27 0.42
10 25 0.38
11 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:9611 original size:24 final size:25
Alignment explanation
Indices: 9553--9614 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 25
9543 TTATTAATGA
*
9553 TTTAAAAAATTTATTTAATTAATAAT
1 TTTAAAAAATTTAATTAATT-ATAAT
*
9579 TAATGAAAAAATTTAATTAATT-TAAT
1 T--TTAAAAAATTTAATTAATTATAAT
9605 TTTAAAAAAT
1 TTTAAAAAAT
9615 AGTTCGGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 8 0.26
26 6 0.19
28 17 0.55
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTAAAAAATTTAATTAATTATAAT
Found at i:12359 original size:40 final size:41
Alignment explanation
Indices: 12291--12374 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 41
12281 GCAGTCCAGT
*
12291 GAGCCCAAAGAAGTTAGAAGTCCAGTGAGAGGCAGAAGCCG
1 GAGCCCAAAGAAGTTAGAAGCCCAGTGAGAGGCAGAAGCCG
* *
12332 GAGCCC-AAGAGGTTGGAAGCCCAGTGAGAGGCAGAAGCCG
1 GAGCCCAAAGAAGTTAGAAGCCCAGTGAGAGGCAGAAGCCG
12372 GAG
1 GAG
12375 TCCATACCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 34 0.85
41 6 0.15
ACGTcount: A:0.33, C:0.20, G:0.38, T:0.08
Consensus pattern (41 bp):
GAGCCCAAAGAAGTTAGAAGCCCAGTGAGAGGCAGAAGCCG
Found at i:17380 original size:17 final size:17
Alignment explanation
Indices: 17358--17393 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
17348 TTGTTATTTT
17358 TAATCTTCTATGAATCA
1 TAATCTTCTATGAATCA
17375 TAATCTTCTATGAATCA
1 TAATCTTCTATGAATCA
17392 TA
1 TA
17394 GTGGTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (17 bp):
TAATCTTCTATGAATCA
Found at i:20630 original size:28 final size:28
Alignment explanation
Indices: 20590--20653 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
20580 GAAAGCAATA
20590 TGAGAGATGGGATTCAGGCGGGCATTTG
1 TGAGAGATGGGATTCAGGCGGGCATTTG
20618 TGAGAGATGGGATTCAGGCGGGCATTTG
1 TGAGAGATGGGATTCAGGCGGGCATTTG
20646 TGAGAGAT
1 TGAGAGAT
20654 TGAAAGAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.09, G:0.42, T:0.25
Consensus pattern (28 bp):
TGAGAGATGGGATTCAGGCGGGCATTTG
Found at i:23526 original size:40 final size:40
Alignment explanation
Indices: 23471--23550 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
23461 GTCCGATAAC
*
23471 AAACCATGTCTAACTCATCATACAAAACTAAGATCAATGT
1 AAACCATGTCTAACTCATCACACAAAACTAAGATCAATGT
23511 AAACCATGTCTAACTCATCACACAAAACTAAGATCAATGT
1 AAACCATGTCTAACTCATCACACAAAACTAAGATCAATGT
23551 CGATTACGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (40 bp):
AAACCATGTCTAACTCATCACACAAAACTAAGATCAATGT
Found at i:27725 original size:19 final size:19
Alignment explanation
Indices: 27689--27730 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27679 ACGAGAGAAT
*
27689 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
27708 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
27727 CGCA
1 CGCA
27731 TTGCGATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:27761 original size:19 final size:19
Alignment explanation
Indices: 27726--27822 Score: 133
Period size: 19 Copynumber: 5.1 Consensus size: 19
27716 GAAACCAAAA
*
27726 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
27744 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
27763 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
27782 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
27801 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
27821 TC
1 TC
27823 AACCAAAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
18 10 0.14
19 43 0.61
20 17 0.24
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:28576 original size:20 final size:20
Alignment explanation
Indices: 28551--28601 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
28541 TGTATTATCT
28551 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
28571 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
28591 CGTTGCGAAAG
1 CGTTGCGAAAG
28602 GCAATCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:28896 original size:19 final size:20
Alignment explanation
Indices: 28814--28903 Score: 146
Period size: 20 Copynumber: 4.5 Consensus size: 20
28804 ATTCATTTGA
*
28814 CTATCGCAACGCGACAATGG
1 CTATCGCAACGCGAAAATGG
28834 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
28854 CGATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
28874 CTATCGCAACGCG-AAATGC
1 CTATCGCAACGCGAAAATGG
28893 CTATCGCAACG
1 CTATCGCAACG
28904 ACAAAATCGC
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
19 16 0.24
20 50 0.76
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.14
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:28953 original size:20 final size:20
Alignment explanation
Indices: 28928--28966 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
28918 CGATTCTCTC
28928 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
28948 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
28967 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:29068 original size:14 final size:14
Alignment explanation
Indices: 29049--29085 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
29039 CATCAATTAA
29049 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
29063 ACAAATCATCTTTT
1 ACAAATCAACATTT
29077 ACAAATCAA
1 ACAAATCAA
29086 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:31021 original size:14 final size:14
Alignment explanation
Indices: 30998--31055 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
30988 TTGTGTTTCG
*
30998 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
31012 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
31028 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
31044 CGTTGCGATTTT
1 CGTTGCGATTTT
31056 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:31040 original size:32 final size:33
Alignment explanation
Indices: 30993--31071 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
30983 GCGATTTGTG
* *
30993 TTTCGCGTTGTGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
31025 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
31058 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
31072 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 25 0.57
33 19 0.43
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:31090 original size:20 final size:19
Alignment explanation
Indices: 31056--31110 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
31046 TTGCGATTTT
*
31056 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
31075 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
31095 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
31111 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:31612 original size:18 final size:18
Alignment explanation
Indices: 31586--31630 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
31576 GTCGATCAGA
*
31586 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
31604 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
31622 TGATGGCTC
1 TGATGGCTC
31631 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:32975 original size:20 final size:20
Alignment explanation
Indices: 32950--33023 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
32940 AATAGTTACT
*
32950 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACGC
**
32970 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACGC
** **
32990 GAATTTGACTATCGCAACGC
1 GAAAATGAAAATCGCAACGC
*
33010 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
33024 GTTGCGATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 6 0.13
20 39 0.87
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGC
Found at i:33282 original size:22 final size:22
Alignment explanation
Indices: 33255--33298 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33245 GATGGAGATA
*
33255 GACGGATTTTGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
33277 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
33299 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:33516 original size:20 final size:20
Alignment explanation
Indices: 33491--33538 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
33481 TGTATTATCG
33491 CGTTGCGAAAGTCAGAATCA
1 CGTTGCGAAAGTCAGAATCA
* *
33511 CGTTGCGAAAGTCAGTATCT
1 CGTTGCGAAAGTCAGAATCA
33531 CGTTGCGA
1 CGTTGCGA
33539 TTTTGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCA
Found at i:33572 original size:20 final size:20
Alignment explanation
Indices: 33547--33600 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
33537 GATTTTGTAT
33547 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
33567 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
33587 TATCGCATTGCGAT
1 TATCGCATTGCGAT
33601 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:33578 original size:61 final size:61
Alignment explanation
Indices: 33466--33603 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
33456 CGCTTTGAAA
* * * *
33466 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCACGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCACATTGCGAAAGTCAGT
* * * * * *
33527 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCACATTGCGAAAGTCAGT
33588 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
33604 CCCAATTCGC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCACATTGCGAAAGTCAGT
Found at i:33619 original size:61 final size:61
Alignment explanation
Indices: 33466--33621 Score: 152
Period size: 61 Copynumber: 2.6 Consensus size: 61
33456 CGCTTTGAAA
* ** * * * *
33466 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCACGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCACATTGCGAAAGTCAGT
* * ** * * * * *
33527 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCACATTGCGAAAGTCAGT
33588 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
33622 TTACTTATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
61 76 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCACATTGCGAAAGTCAGT
Found at i:33711 original size:21 final size:21
Alignment explanation
Indices: 33671--33711 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33661 ACTGTAGACC
**
33671 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
33692 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
33712 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:35063 original size:29 final size:31
Alignment explanation
Indices: 34995--35060 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 31
34985 TGTTCAAAGT
* *
34995 TTGGCCACCAACCAAGATGAAATTTCTAATAAG
1 TTGGCCACCAACCAAGATGAAATTTC--ACAAC
35028 TTGGCCACCAACCAAGATGAAATTTC-CAAC
1 TTGGCCACCAACCAAGATGAAATTTCACAAC
35058 TTG
1 TTG
35061 CCAACTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
33 26 0.84
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (31 bp):
TTGGCCACCAACCAAGATGAAATTTCACAAC
Found at i:49339 original size:59 final size:59
Alignment explanation
Indices: 49229--49349 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 59
49219 AAATGTCCGT
* * * * * *
49229 AAACTATGACATTTATTATAAATTGGTTCTAAACTTTTAAATATTCAAATTTTGTTCCC
1 AAACTATGACATTCATTATAAATTGGTCCAAAACTTTTAAATACTCAAATTTTATCCCC
* *
49288 AAACTATGACCA-TCATTCTAAATTGGTCCAAAAACTTTTAAAT-CTCTAATTTTATCCCC
1 AAACTATGA-CATTCATTATAAATTGGTCC-AAAACTTTTAAATACTCAAATTTTATCCCC
49347 AAA
1 AAA
49350 TTCATCCAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
59 38 0.73
60 14 0.27
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (59 bp):
AAACTATGACATTCATTATAAATTGGTCCAAAACTTTTAAATACTCAAATTTTATCCCC
Found at i:50378 original size:2 final size:2
Alignment explanation
Indices: 50361--50398 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
50351 ACACCTCTAC
*
50361 TA TA T- TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50399 TTAATTACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51668 original size:2 final size:2
Alignment explanation
Indices: 51657--51703 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
51647 TAAAATTTTA
51657 AT AT -T 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
51698 AT AT AT
1 AT AT AT
51704 CTTAACTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:51756 original size:31 final size:30
Alignment explanation
Indices: 51721--51874 Score: 133
Period size: 30 Copynumber: 5.2 Consensus size: 30
51711 TAAATTCACG
*
51721 TCTTAATATGAAAAAATATATTTTATTCTTA
1 TCTTAATAT-AAAAAATATATTTTATTTTTA
*
51752 TCTTAAGT-TCAAAATATATATTTTA-TTTTA
1 TCTTAA-TAT-AAAAAATATATTTTATTTTTA
* *
51782 -ATT--TA-AAAATATATATTTTATTTTTA
1 TCTTAATATAAAAAATATATTTTATTTTTA
* * * * * *
51808 TTTTATTGTAATAAATATAATTTGTTTTTA
1 TCTTAATATAAAAAATATATTTTATTTTTA
51838 TCTTAACTAT-AAAAATATATTTTATTTTTA
1 TCTTAA-TATAAAAAATATATTTTATTTTTA
51868 TCTTAAT
1 TCTTAAT
51875 TTTAAAATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
25 15 0.15
26 6 0.06
27 2 0.02
29 4 0.04
30 48 0.48
31 23 0.23
32 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TCTTAATATAAAAAATATATTTTATTTTTA
Found at i:51803 original size:25 final size:25
Alignment explanation
Indices: 51744--51810 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
51734 AAATATATTT
* * *
51744 TATTCTTATCTTAAGTTCAAAATATA
1 TATT-TTATTTTAATTTAAAAATATA
51770 TATTTTATTTTAATTTAAAAATATA
1 TATTTTATTTTAATTTAAAAATATA
*
51795 TATTTTATTTTTATTT
1 TATTTTATTTTAATTT
51811 TATTGTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (25 bp):
TATTTTATTTTAATTTAAAAATATA
Found at i:54656 original size:60 final size:60
Alignment explanation
Indices: 54520--54647 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
54510 ATAGTCGAGT
* * * * * * *
54520 GACCATTCTGTAACTTTTAATAGTCAGAGGACTCAACAAAACAACATCTTATAATTGATG
1 GACCATTTTATAACTTTTAACAGTCAAAGGACTCAACAAAACAACACCCTATAATTGAGG
* * * * *
54580 GACCATTTTATAACTTTTAACAGTTAAAGGACTGAATAAAGCAACACCCTATAGTTGAGG
1 GACCATTTTATAACTTTTAACAGTCAAAGGACTCAACAAAACAACACCCTATAATTGAGG
54640 GACCATTT
1 GACCATTT
54648 ATTTACTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAACAGTCAAAGGACTCAACAAAACAACACCCTATAATTGAGG
Found at i:58329 original size:41 final size:41
Alignment explanation
Indices: 58267--58559 Score: 232
Period size: 41 Copynumber: 7.1 Consensus size: 41
58257 CGGCGTTACG
* * *
58267 CCGCTATAGACGTGCATTTTAGTGGCGTTTTTATACAAACA
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
* * **
58308 CTGCTATAGACTTGTACTTTAGTGGCATTTTTATAC-AATG
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
** * * *
58348 CCGCTATAGACTTGTGTTTTAGTAGCGTTTTAATTACAAACG
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTTA-TACAAACA
* ** * * * *
58390 CCGCTAAAGACTAATACTTTAGCGGCTTTTTTATAAAAACG
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
* * **
58431 TCGCTATAGACTCTTGT--TTTAGTGGCATTTTTATACAAATG
1 CCGCTATAGA--CTTGTACTTTAGTGGCGTTTTTATACAAACA
* ** *
58472 CCGCTATAGACTTGTGCTTTAGTGATGTTTTTCATTACAAACG
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTT-A-TACAAACA
** ** *
58515 CCGCTATAGACACGTGTTTTAGTGGCGTTTTTGTACAAACA
1 CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
58556 CCGC
1 CCGC
58560 GAATTTACAG
Statistics
Matches: 200, Mismatches: 44, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
39 5 0.03
40 29 0.14
41 101 0.50
42 28 0.14
43 37 0.19
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (41 bp):
CCGCTATAGACTTGTACTTTAGTGGCGTTTTTATACAAACA
Found at i:58468 original size:82 final size:82
Alignment explanation
Indices: 58283--58559 Score: 299
Period size: 82 Copynumber: 3.4 Consensus size: 82
58273 TAGACGTGCA
* * * *
58283 TTTTAGTGGCGTTTTTATACAAACACTGCTATAGACTTGTACTTTAGTGGCATTTTTAT-ACAAT
1 TTTTAGTGGCGTTTTTATACAAACACCGCTATAGACTTGTACTTTAGTGGCTTTTTTATAAAAAC
58347 GCCGCTATAGACT-TGTG
66 GCCGCTATAGACTCT-TG
* * * * ** *
58364 TTTTAGTAGCGTTTTAATTACAAACGCCGCTAAAGACTAATACTTTAGCGGCTTTTTTATAAAAA
1 TTTTAGTGGCGTTTTTA-TACAAACACCGCTATAGACTTGTACTTTAGTGGCTTTTTTATAAAAA
*
58429 CGTCGCTATAGACTCTTG
65 CGCCGCTATAGACTCTTG
* ** * * *
58447 TTTTAGTGGCATTTTTATACAAATGCCGCTATAGACTTGTGCTTTAGTGATG-TTTTTCATTACA
1 TTTTAGTGGCGTTTTTATACAAACACCGCTATAGACTTGTACTTTAGTG--GCTTTTTTA-TAAA
* *
58511 AACGCCGCTATAGACACGTG
63 AACGCCGCTATAGACTCTTG
*
58531 TTTTAGTGGCGTTTTTGTACAAACACCGC
1 TTTTAGTGGCGTTTTTATACAAACACCGC
58560 GAATTTACAG
Statistics
Matches: 160, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
81 15 0.09
82 61 0.38
83 37 0.23
84 47 0.29
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (82 bp):
TTTTAGTGGCGTTTTTATACAAACACCGCTATAGACTTGTACTTTAGTGGCTTTTTTATAAAAAC
GCCGCTATAGACTCTTG
Found at i:61549 original size:31 final size:31
Alignment explanation
Indices: 61397--61535 Score: 262
Period size: 31 Copynumber: 4.5 Consensus size: 31
61387 GGGTCGAGGG
61397 TTACCTATGTTCTTCGGGAC-TATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
61427 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
61458 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
61489 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
61520 TTACCTAGGTTCTTCG
1 TTACCTATGTTCTTCG
61536 AAATCTATGG
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
30 20 0.19
31 87 0.81
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:63653 original size:42 final size:42
Alignment explanation
Indices: 63582--63741 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 42
63572 AAGGTAATTA
* *
63582 GCGGCGTTTGTATCCAAAAACATCACTATAGATATGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGTCGCTATAGATATGACCTTTT
* * *
63625 GTGGCGTTTGTTCCAAAAATGTCGCTATAGATCTTGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGTCGCTATAGAT-ATGACCTTTT
* * *
63668 GCAGCGTTTG-TCCAAAAACGCCGCTATAGATATCGATCTTTT
1 GCGGCGTTTGTTCCAAAAACGTCGCTATAGATAT-GACCTTTT
63710 GCGGCGTTTGTTCCAAAAACG-CTGCTATAGAT
1 GCGGCGTTTGTTCCAAAAACGTC-GCTATAGAT
63742 CTGGATCTAT
Statistics
Matches: 101, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 54 0.53
43 46 0.46
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGTCGCTATAGATATGACCTTTT
Found at i:63663 original size:43 final size:43
Alignment explanation
Indices: 63582--63757 Score: 196
Period size: 43 Copynumber: 4.1 Consensus size: 43
63572 AAGGTAATTA
* * *
63582 GCGGCGTTTGTATCCAAAAACATCACTATAGAT-ATGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGTCGCTATAGATCTTGACCTTTT
* *
63625 GTGGCGTTTGTTCCAAAAATGTCGCTATAGATCTTGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGTCGCTATAGATCTTGACCTTTT
* * * * *
63668 GCAGCGTTTG-TCCAAAAACGCCGCTATAGATATCGATCTTTT
1 GCGGCGTTTGTTCCAAAAACGTCGCTATAGATCTTGACCTTTT
* * *
63710 GCGGCGTTTGTTCCAAAAACG-CTGCTATAGATCTGGATCTATT
1 GCGGCGTTTGTTCCAAAAACGTC-GCTATAGATCTTGACCTTTT
63753 GCGGC
1 GCGGC
63758 ATTTTTTGTT
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 55 0.48
43 59 0.52
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTTCCAAAAACGTCGCTATAGATCTTGACCTTTT
Found at i:64321 original size:11 final size:10
Alignment explanation
Indices: 64294--64329 Score: 58
Period size: 9 Copynumber: 3.8 Consensus size: 10
64284 TAATAAATCA
64294 AATATTATAT
1 AATATTATAT
64304 AA-ATTATAT
1 AATATTATAT
64313 AATATT-TAT
1 AATATTATAT
64322 AATATTAT
1 AATATTAT
64330 TTTTAAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATATTATAT
Found at i:69741 original size:17 final size:17
Alignment explanation
Indices: 69719--69753 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69709 TTGAAGCTCG
69719 ATTCAAGGTCGAACTCA
1 ATTCAAGGTCGAACTCA
69736 ATTCAAGGTCGAACTCA
1 ATTCAAGGTCGAACTCA
69753 A
1 A
69754 ACTCGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (17 bp):
ATTCAAGGTCGAACTCA
Found at i:69863 original size:26 final size:25
Alignment explanation
Indices: 69807--69863 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
69797 TATATTTTTA
69807 AATTTTTTATAATTATCAATAATAT
1 AATTTTTTATAATTATCAATAATAT
* * *
69832 ATTTTTTTAATACATT-TTAATAATGT
1 AATTTTTT-ATA-ATTATCAATAATAT
69858 AATTTT
1 AATTTT
69864 AAAAAATCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.27
26 16 0.62
27 3 0.12
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTTTTTATAATTATCAATAATAT
Found at i:75106 original size:20 final size:20
Alignment explanation
Indices: 75061--75153 Score: 141
Period size: 20 Copynumber: 4.6 Consensus size: 20
75051 AATATAAAAA
* *
75061 TCGCAACGCGATCTTCCAGAT
1 TCGCAACGCGAT-TTTCAGTT
*
75082 TCGCAACGCGATTTTCAGCT
1 TCGCAACGCGATTTTCAGTT
75102 TCGCAACGCGATTTTCAGTT
1 TCGCAACGCGATTTTCAGTT
75122 TCGCAACGCGATTTTCAGTT
1 TCGCAACGCGATTTTCAGTT
*
75142 TCGTAACGCGAT
1 TCGCAACGCGAT
75154 CGTCCAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
20 56 0.82
21 12 0.18
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (20 bp):
TCGCAACGCGATTTTCAGTT
Found at i:75133 original size:40 final size:41
Alignment explanation
Indices: 75061--75173 Score: 156
Period size: 40 Copynumber: 2.8 Consensus size: 41
75051 AATATAAAAA
75061 TCGCAACGCGATCTTCCAGATTCGCAACGCGATTTTCAGCT
1 TCGCAACGCGATCTTCCAGATTCGCAACGCGATTTTCAGCT
* * *
75102 TCGCAACGCGAT-TTTCAGTTTCGCAACGCGATTTTCAGTT
1 TCGCAACGCGATCTTCCAGATTCGCAACGCGATTTTCAGCT
* * * *
75142 TCGTAACGCGATCGTCCAAAATCGCAACGCGA
1 TCGCAACGCGATCTTCCAGATTCGCAACGCGA
75174 CTGATGGTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 36 0.58
41 26 0.42
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (41 bp):
TCGCAACGCGATCTTCCAGATTCGCAACGCGATTTTCAGCT
Found at i:84497 original size:29 final size:28
Alignment explanation
Indices: 84448--84506 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
84438 GGGAGTTTTT
84448 AATGAGACCTCCAACTTCTATCAAAAAAA
1 AATGAGACCTCCAACTTCTAT-AAAAAAA
* *
84477 AATGAGGCCTTCAA-TTCCTATAAAAAAA
1 AATGAGACCTCCAACTT-CTATAAAAAAA
84505 AA
1 AA
84507 CTCCATGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.22
Consensus pattern (28 bp):
AATGAGACCTCCAACTTCTATAAAAAAA
Found at i:85531 original size:20 final size:20
Alignment explanation
Indices: 85506--85544 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
85496 TAAATTAAAT
85506 ATTAGATAGAATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
85526 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
85545 TATTCTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:85583 original size:20 final size:21
Alignment explanation
Indices: 85558--85597 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
85548 TCTATTAGTT
*
85558 ATTAGATAGGATC-ATTTTTA
1 ATTAGATAGAATCAATTTTTA
85578 ATTAGATAGAATCAATTTTT
1 ATTAGATAGAATCAATTTTT
85598 TATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (21 bp):
ATTAGATAGAATCAATTTTTA
Found at i:85618 original size:53 final size:52
Alignment explanation
Indices: 85505--85654 Score: 257
Period size: 53 Copynumber: 2.9 Consensus size: 52
85495 CTAAATTAAA
* * *
85505 TATTAGATAGAATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCATTTTTTATTCTATTAGT
85557 TATTAGATAGGATCATTTTTAATTAGATAGAATCAATTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATC-ATTTTTTATTCTATTAGT
85610 TATTAGATAGGATCATTTTTAATTAGATAGAATC-TTTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCATTTTTTATTCT
85655 GTTGCTAATT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 11 0.12
52 32 0.34
53 51 0.54
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCATTTTTTATTCTATTAGT
Found at i:85636 original size:20 final size:20
Alignment explanation
Indices: 85611--85650 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
85601 TCTATTAGTT
*
85611 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
*
85631 ATTAGATAGAATCTTTTTTA
1 ATTAGATAGAATCATTTTTA
85651 TTCTGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:88927 original size:20 final size:20
Alignment explanation
Indices: 88902--89012 Score: 94
Period size: 20 Copynumber: 6.0 Consensus size: 20
88892 TAAATTAAAT
88902 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGGATCAGTTTTA
* *
88922 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGGATCAGTTTTA
* *
88942 ATT--CT---ATTAG--TT-
1 ATTAGATAGGATCAGTTTTA
*
88954 ATTAGATAGGATCATTTTTA
1 ATTAGATAGGATCAGTTTTA
* *
88974 ATTAGATAGGATCATTTTTC
1 ATTAGATAGGATCAGTTTTA
*
88994 ATTAGATAGAATCAGTTTT
1 ATTAGATAGGATCAGTTTT
89013 TTATTCTATT
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
12 3 0.04
13 2 0.03
14 1 0.01
15 4 0.05
17 3 0.04
18 1 0.01
19 2 0.03
20 57 0.78
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGGATCAGTTTTA
Found at i:89052 original size:20 final size:20
Alignment explanation
Indices: 89027--89066 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
89017 TCTATTAGTT
*
89027 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
*
89047 ATTAGATAGAATCTTTTTTA
1 ATTAGATAGAATCATTTTTA
89067 TTCTGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:89064 original size:72 final size:72
Alignment explanation
Indices: 88902--89066 Score: 285
Period size: 73 Copynumber: 2.3 Consensus size: 72
88892 TAAATTAAAT
*
88902 ATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATC
1 ATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATC
88967 ATTTTTA
66 ATTTTTA
*
88974 ATTAGATAGGATCATTTTTCATTAGATAGAATCAGTTTTTTATTCTATTAGTTATTAGATAGGAT
1 ATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGTTATTAGATAGGAT
89039 CATTTTTA
65 CATTTTTA
* *
89047 ATTAGATAGAATCTTTTTTA
1 ATTAGATAGGATCATTTTTA
89067 TTCTGTTGCT
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 33 0.38
73 54 0.62
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (72 bp):
ATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATC
ATTTTTA
Found at i:109279 original size:17 final size:18
Alignment explanation
Indices: 109259--109295 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
109249 TTAAATATTA
*
109259 TTTTA-AATAATTACATT
1 TTTTACAATAATAACATT
109276 TTTTACAATAATAACATT
1 TTTTACAATAATAACATT
109294 TT
1 TT
109296 CATCTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTACAATAATAACATT
Found at i:110634 original size:32 final size:29
Alignment explanation
Indices: 110570--111322 Score: 261
Period size: 22 Copynumber: 28.3 Consensus size: 29
110560 TATTAAAATA
*
110570 ATTTTAAATAATTTAATAAGG-TT-ATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
110597 ATTTTAAATAATTTATTAGTATGGATTGATTT
1 ATTTTAAATAATTTA--A-TATGGATTGATTT
110629 A-TTT---TAA---AATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
*
110651 ATTTTAAATAATTTATTAGTATGTATTGATTT
1 ATTTTAAATAATTTA--A-TATGGATTGATTT
110683 A-TTT---TAA---AATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
110705 ATTTTAAATAATTTATTAGTATGGATTGATTT
1 ATTTTAAATAATTTA--A-TATGGATTGATTT
110737 A-TTT---TAA---AATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
* *
110759 ATTATT--GTAGTTGT-ATA--GATTGATTT
1 ATT-TTAAATAATT-TAATATGGATTGATTT
* * * *
110785 ATTTTAAATAATTTATTA-GTATGGATTG
1 ATTTTAAATAATTTAATATGGATTGATTT
*
110813 A-TTT--AT--TTAAATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
110837 ATTTTAAATAATTTATTAGTATGGATTGA-TT
1 ATTTTAAATAATTTA--A-TATGGATTGATTT
110868 A-TTT---TAA---AATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
* * *
110890 ATTATT--GTAA-TT-GTATGAATTGATTT
1 ATT-TTAAATAATTTAATATGGATTGATTT
* *
110916 ATTTTAAAT-ATTTAGTATGAATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
110944 A-TTT---TAA---AATAT-GATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
110965 ATTTTAAATAATTTATTAGTATGGATTGATTT
1 ATTTTAAATAATTTA--A-TATGGATTGATTT
110997 A-TTT---TAA---AATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
*
111019 ATTTTAAATAATTTATTAGTATGAATTGA-TT
1 ATTTTAAATAATTTA--A-TATGGATTGATTT
111050 A-TTT---TAA---AATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
* * * *
111072 ATTATT--GT-AGTT-GTATGAATTGATTT
1 ATT-TTAAATAATTTAATATGGATTGATTT
*
111098 ATTTT-AATAATTTATTAGTATGAATTGATTT
1 ATTTTAAATAATTTA--A-TATGGATTGATTT
111129 A-TTT---TAA---AATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
*
111151 ATTTTAAATAATTTATTAGTATAGATTGATTT
1 ATTTTAAATAATTTA--A-TATGGATTGATTT
111183 A-TTT---TAA---AATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
111205 ATTTTAAATAATTTATTAGTATGGATTGATTT
1 ATTTTAAATAATTTA--A-TATGGATTGATTT
111237 A-TTT---TAA---AATATGGATTGATTT
1 ATTTTAAATAATTTAATATGGATTGATTT
* * * *
111259 ATTATT--GT-AGTT-GTATGAATTGA-TT
1 ATT-TTAAATAATTTAATATGGATTGATTT
*
111284 ATTTTAAAT-ATTATAATATGAATTGATTT
1 ATTTTAAATAATT-TAATATGGATTGATTT
111313 ATTTTAAATA
1 ATTTTAAATA
111323 TGGATTGATT
Statistics
Matches: 568, Mismatches: 36, Indels: 241
0.67 0.04 0.29
Matches are distributed among these distances:
21 28 0.05
22 110 0.19
23 31 0.05
24 23 0.04
25 34 0.06
26 72 0.13
27 42 0.07
28 57 0.10
29 20 0.04
30 14 0.02
31 49 0.09
32 88 0.15
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (29 bp):
ATTTTAAATAATTTAATATGGATTGATTT
Found at i:110654 original size:54 final size:54
Alignment explanation
Indices: 110593--111074 Score: 490
Period size: 54 Copynumber: 9.1 Consensus size: 54
110583 TAATAAGGTT
110593 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
110647 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
110701 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
110755 ATTTA--TT--AT--TGTAGTT-GTATAGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *
110799 ATTAGTATGGATTGATTTATTTA--AATATGGATTGATTTATTTT-AAATA---ATTT
1 ATT--TAT--TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * ** *
110851 ATTAGTATGGATTGATTATTTTA-AAATATGGATTGATTTATTATTGTAATTGTATGAATTG
1 ATT--TAT--TTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TAA-AATATGGATTG
*
110912 ATTTATTTTAAAT-A--T-TTAGTATGAATTGATTTATTTTAAAATAT-GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
110961 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
111015 ATTTATTTTAAATAATTTATTAGTATGAATTGA-TTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
111068 ATTTATT
1 ATTTATT
111075 ATTGTAGTTG
Statistics
Matches: 375, Mismatches: 26, Indels: 55
0.82 0.06 0.12
Matches are distributed among these distances:
44 6 0.02
46 2 0.01
47 5 0.01
48 21 0.06
49 19 0.05
50 8 0.02
51 3 0.01
52 53 0.14
53 72 0.19
54 167 0.45
55 2 0.01
56 1 0.00
57 5 0.01
58 2 0.01
59 3 0.01
61 6 0.02
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:110960 original size:75 final size:78
Alignment explanation
Indices: 110824--110967 Score: 224
Period size: 75 Copynumber: 1.9 Consensus size: 78
110814 TTTATTTAAA
* *
110824 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTATTTTAAAATATGGATTGATT
1 TATGAATTGATTTATTTTAAATAA-TTATTAGTATGAATTGATTATTTTAAAATATGGATTGATT
110889 TATTATTGTAATTG
65 TATTATTGTAATTG
110903 TATGAATTGATTTATTTTAAAT-A-T-TTAGTATGAATTGATTTATTTTAAAATAT-GATTGATT
1 TATGAATTGATTTATTTTAAATAATTATTAGTATGAATTGA-TTATTTTAAAATATGGATTGATT
110964 TATT
65 TATT
110968 TTAAATAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
75 25 0.40
76 15 0.24
78 1 0.02
79 21 0.34
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (78 bp):
TATGAATTGATTTATTTTAAATAATTATTAGTATGAATTGATTATTTTAAAATATGGATTGATTT
ATTATTGTAATTG
Found at i:110961 original size:21 final size:21
Alignment explanation
Indices: 110860--110972 Score: 84
Period size: 21 Copynumber: 4.8 Consensus size: 21
110850 TATTAGTATG
110860 GATTGA-TTATTTTAAAATAT
1 GATTGATTTATTTTAAAATAT
**
110880 GGATTGATTTATTATTGTAATTGTAT
1 -GATTGATTTA-T-TT-TAA-AATAT
110906 GAATTGATTTATTTTAAATATTTAGTAT
1 G-ATTGATTTATTTT-AA-A---A-TAT
110934 GAATTGATTTATTTTAAAATAT
1 G-ATTGATTTATTTTAAAATAT
110956 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
110973 TAATTTATTA
Statistics
Matches: 77, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
21 22 0.29
22 7 0.09
23 3 0.04
24 7 0.09
25 5 0.06
26 13 0.17
27 2 0.03
28 18 0.23
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (21 bp):
GATTGATTTATTTTAAAATAT
Found at i:110998 original size:53 final size:54
Alignment explanation
Indices: 110903--111074 Score: 284
Period size: 53 Copynumber: 3.3 Consensus size: 54
110893 ATTGTAATTG
*
110903 TATGAATTGATTTATTTTAAAT-A--T-TTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
*
110953 TAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
111006 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGA-TTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
111059 TATGGATTGATTTATT
1 TATGGATTGATTTATT
111075 ATTGTAGTTG
Statistics
Matches: 114, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
49 17 0.15
50 4 0.04
52 1 0.01
53 55 0.48
54 37 0.32
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
Found at i:111166 original size:54 final size:54
Alignment explanation
Indices: 111085--111261 Score: 313
Period size: 54 Copynumber: 3.3 Consensus size: 54
111075 ATTGTAGTTG
*
111085 TATGAATTGATTTATTTT-AATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
111138 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAAA
*
111192 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
111246 TATGGATTGATTTATT
1 TATGGATTGATTTATT
111262 ATTGTAGTTG
Statistics
Matches: 119, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
53 18 0.15
54 101 0.85
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
Found at i:111322 original size:21 final size:21
Alignment explanation
Indices: 111298--111367 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
111288 TAAATATTAT
*
111298 AATATGAATTGATTTATTTTA
1 AATATGGATTGATTTATTTTA
111319 AATATGGATTGATTT-TTATTGA
1 AATATGGATTGATTTATT-TT-A
*
111341 AGTGTATGGATTGA-TTATTTTA
1 A--ATATGGATTGATTTATTTTA
111363 AATAT
1 AATAT
111368 TTATTACTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
20 5 0.12
21 16 0.39
22 4 0.10
23 4 0.10
24 12 0.29
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (21 bp):
AATATGGATTGATTTATTTTA
Found at i:111400 original size:22 final size:22
Alignment explanation
Indices: 111375--111417 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
111365 TATTTATTAC
111375 TATGAATTGATTCATTTTAAAA
1 TATGAATTGATTCATTTTAAAA
* *
111397 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTCATTTTAAA
111418 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (22 bp):
TATGAATTGATTCATTTTAAAA
Found at i:111477 original size:31 final size:31
Alignment explanation
Indices: 111442--111500 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
111432 AGTTGTATGG
* *
111442 ATTATTTAAATTTCAATATTGTAAAACTAAA
1 ATTATTTAAATCTCAATATTGCAAAACTAAA
*
111473 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAATATTGCAAAACT
111501 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAATATTGCAAAACTAAA
Found at i:118524 original size:3 final size:3
Alignment explanation
Indices: 118516--118550 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
118506 ATCATGACAA
118516 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
118551 CCTAAGGACA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:120259 original size:53 final size:53
Alignment explanation
Indices: 120170--120321 Score: 153
Period size: 53 Copynumber: 2.8 Consensus size: 53
120160 TCTTCAAATG
* * * * *
120170 ACGGGTCCACTCCCTATTTCTT-AGGGATTAAGGAACTCAAACAATCATCTAAAA
1 ACGGGTTCGCTCCCTATTGCTTCAGGGAGT-A-GAACTCGAACAATCATCTAAAA
* * * ****
120224 ATGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTT
1 ACGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAACAATCATCTAAAA
* *
120277 ACGGGTTCGCTCCCTCTTGCTTCAGGGGGTAGAACTCGAACAATC
1 ACGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAACAATC
120322 TTCTGGTGTA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
53 56 0.69
54 19 0.23
55 6 0.07
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (53 bp):
ACGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAACAATCATCTAAAA
Found at i:120322 original size:53 final size:53
Alignment explanation
Indices: 120226--120326 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
120216 ATCTAAAAAT
*
120226 GGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTTAC
1 GGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTAC
* *
120279 GGGTTCGCTCCCTCTTGCTTCAGGGGGTAGAACTCGAACAATCTTCTG
1 GGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
120327 GTGTAATTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.31
Consensus pattern (53 bp):
GGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTAC
Found at i:120875 original size:93 final size:93
Alignment explanation
Indices: 120767--120992 Score: 407
Period size: 93 Copynumber: 2.4 Consensus size: 93
120757 TGGATGGCCT
* *
120767 GAAGGATTTCATCATCATGCTCGAAAGACTTATTGATGGCACTTACTGATGGATTTGCTTCACTA
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTA
*
120832 CTCTTCCGTGAAGGCTTACAAATTACCC
66 CTCTTCAGTGAAGGCTTACAAATTACCC
*
120860 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCACTA
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTA
*
120925 CTCTTCAGTGAAGGCTTACAAATTACCT
66 CTCTTCAGTGAAGGCTTACAAATTACCC
120953 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC
120993 CTGAAGGATT
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (93 bp):
GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTA
CTCTTCAGTGAAGGCTTACAAATTACCC
Found at i:120905 original size:13 final size:13
Alignment explanation
Indices: 120887--120911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120877 TGCTCGAAAG
120887 ACTTACTGATGGC
1 ACTTACTGATGGC
120900 ACTTACTGATGG
1 ACTTACTGATGG
120912 GTTTGCTTCA
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:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:120998 original size:42 final size:42
Alignment explanation
Indices: 120950--121042 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
120940 TTACAAATTA
*
120950 CCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
*
120992 CCTGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGG
1 CCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
*
121034 CCCGAAGGA
1 CCTGAAGGA
121043 CTTACTAAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (42 bp):
CCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
Found at i:121226 original size:42 final size:41
Alignment explanation
Indices: 121162--121262 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
121152 AGGTTTTATG
* * * *
121162 GATGGCCCGAATGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
* * *
121203 GATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTTACA
121245 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
121263 AATTATTTAC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 15 0.30
42 35 0.70
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:129233 original size:3 final size:3
Alignment explanation
Indices: 129225--129280 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
129215 ATCATGACAA
129225 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
129273 AAT AAT AA
1 AAT AAT AA
129281 CCTAAGGACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:131514 original size:21 final size:21
Alignment explanation
Indices: 131490--131529 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
131480 TTTCAAAGAA
131490 TTCCTCTGTATTTCCTTCCCC
1 TTCCTCTGTATTTCCTTCCCC
131511 TTCCTCTGTATTTCCTTCC
1 TTCCTCTGTATTTCCTTCC
131530 TCAAGTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.40, G:0.05, T:0.50
Consensus pattern (21 bp):
TTCCTCTGTATTTCCTTCCCC
Found at i:140667 original size:64 final size:63
Alignment explanation
Indices: 140569--140729 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
140559 TAATGAAGGT
* * *
140569 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAAT--
*
140632 AG
62 AC
*
140634 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
* *
140698 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
140730 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
63 1 0.01
64 57 0.67
65 24 0.28
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
Found at i:143259 original size:2 final size:2
Alignment explanation
Indices: 143252--143343 Score: 184
Period size: 2 Copynumber: 46.0 Consensus size: 2
143242 AAACCAATGA
143252 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
143294 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
143336 AT AT AT AT
1 AT AT AT AT
143344 TAAATTAAGA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 90 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:143615 original size:2 final size:2
Alignment explanation
Indices: 143608--143665 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
143598 CCAATTAATG
143608 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
143650 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
143666 CACTCAATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:148036 original size:28 final size:27
Alignment explanation
Indices: 147984--148036 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
147974 GATTATATAT
*
147984 TATTTAAAAAATATTATTAATTTTTTA
1 TATTTAAAAAATATTATTAAATTTTTA
*
148011 TATTTAAATAGATA-TATTTAAATTTT
1 TATTTAAA-AAATATTA-TTAAATTTT
148037 GATAAATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTTAAAAAATATTATTAAATTTTTA
Found at i:149900 original size:36 final size:36
Alignment explanation
Indices: 149848--149986 Score: 217
Period size: 36 Copynumber: 3.9 Consensus size: 36
149838 ACGAAAGAAA
*
149848 GCATC-GCACTTCCGATTCAAATAGAACGGAAGGAG
1 GCATCGGCACTTCCGATTCAAATCGAACGGAAGGAG
* * *
149883 GCATCGGCACTTCCGATTCAAATTGAATGGAAGTAG
1 GCATCGGCACTTCCGATTCAAATCGAACGGAAGGAG
*
149919 GCATCGGCACTTCCGATTCAAATCGAACGGAAGGAA
1 GCATCGGCACTTCCGATTCAAATCGAACGGAAGGAG
*
149955 GCATCGGCACTTCCGATTCTAATCGAACGGAA
1 GCATCGGCACTTCCGATTCAAATCGAACGGAA
149987 AGATGTATTG
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
35 5 0.05
36 90 0.95
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (36 bp):
GCATCGGCACTTCCGATTCAAATCGAACGGAAGGAG
Found at i:154330 original size:30 final size:30
Alignment explanation
Indices: 154296--154356 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
154286 TTATATTCTT
154296 ATTAA-AATTAAAATTAAATAATAATAAAGG
1 ATTAATAATT-AAATTAAATAATAATAAAGG
*
154326 ATTAATGATTAAATTAAATAATAATAAAGG
1 ATTAATAATTAAATTAAATAATAATAAAGG
154356 A
1 A
154357 GTTAGTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (30 bp):
ATTAATAATTAAATTAAATAATAATAAAGG
Found at i:155211 original size:2 final size:2
Alignment explanation
Indices: 155204--155240 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
155194 CTTTTGTAAT
155204 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
155241 CAGTTTAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:159682 original size:42 final size:43
Alignment explanation
Indices: 159601--159683 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 43
159591 GCGCCACAAA
** *
159601 TTGATACTTTAGCGGCGTTTGATGTAAAAACGCTATAATAGAT
1 TTGATACTTTAGCGGCGTTTGATACAAAAACGCCATAATAGAT
* *
159644 TTGATA-TTTAGCGGCGTTT-TTACAAAAACCGCCGTAATAG
1 TTGATACTTTAGCGGCGTTTGATACAAAAA-CGCCATAATAG
159684 GATGGTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
41 6 0.18
42 22 0.65
43 6 0.18
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (43 bp):
TTGATACTTTAGCGGCGTTTGATACAAAAACGCCATAATAGAT
Found at i:159757 original size:42 final size:40
Alignment explanation
Indices: 159651--159849 Score: 174
Period size: 41 Copynumber: 4.8 Consensus size: 40
159641 GATTTGATAT
* * * **
159651 TTAGCGGCGTTTTTACAAAAACCGCCGTAATAGGATGGTTTA
1 TTAGCGGCGTTTATACCAAAA-CGCCGCAATA-GATGGTAAA
* * *
159693 TT-GCGCCGTTTGTTA-AAAAACGCCGCAATAGAGTGGTAAA
1 TTAGCGGCGTTT-ATACCAAAACGCCGCAATAGA-TGGTAAA
* *
159733 TTAGCGGTGTTTATACCACAAACGCCGTAATAGAT--TAACA
1 TTAGCGGCGTTTATACCA-AAACGCCGCAATAGATGGTAA-A
*
159773 TATAGTGGCGTTT-TAGCCAAAACGCCGCAATAGATCGGTAAA
1 T-TAGCGGCGTTTATA-CCAAAACGCCGCAATAGAT-GGTAAA
159815 TTAGCGGCGTTTATACCAAAAACGCCGCAATAGAT
1 TTAGCGGCGTTTATACC-AAAACGCCGCAATAGAT
159850 AACTCATATA
Statistics
Matches: 131, Mismatches: 13, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
39 5 0.04
40 37 0.28
41 46 0.35
42 40 0.31
43 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCGGCGTTTATACCAAAACGCCGCAATAGATGGTAAA
Found at i:159785 original size:82 final size:83
Alignment explanation
Indices: 159699--159971 Score: 276
Period size: 82 Copynumber: 3.3 Consensus size: 83
159689 TTTATTGCGC
* *
159699 CGTTTGTTA-AAAAACGCCGCAATAGAGTGGTAAATTAGCGGTGTTTATACCACAAACGCCGTAA
1 CGTTT-TTAGAAAAACGCCGCAATAGAGTGGTAAATTAGCGGCGTTTATACCAAAAACGCCGTAA
159763 TAGATTAA-CATATAGTGG
65 TAGATTAATCATATAGTGG
* *
159781 CG-TTTTAGCCAAAACGCCGCAATAGA-TCGGTAAATTAGCGGCGTTTATACCAAAAACGCCGCA
1 CGTTTTTAG-AAAAACGCCGCAATAGAGT-GGTAAATTAGCGGCGTTTATACCAAAAACGCCGTA
159844 ATAGA-TAACTCATATAGTGG
64 ATAGATTAA-TCATATAGTGG
* *** * ** * * *
159864 CATTTATTCTTAAAACGCCGCAATAGTGATAATAAA-TAGTGACGTTTTTA--AATAAACGCCGT
1 CGTTT-TTAGAAAAACGCCGCAATAGAG-TGGTAAATTAGCGGCGTTTATACCAA-AAACGCCGT
159926 AATAGTATTAATCA-ATAGTGG
63 AATAG-ATTAATCATATAGTGG
*
159947 CGTTTTTAGAAAAACACCGCAATAG
1 CGTTTTTAGAAAAACGCCGCAATAG
159972 TTTTAATCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
80 3 0.02
81 6 0.04
82 73 0.46
83 35 0.22
84 32 0.20
85 9 0.06
86 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (83 bp):
CGTTTTTAGAAAAACGCCGCAATAGAGTGGTAAATTAGCGGCGTTTATACCAAAAACGCCGTAAT
AGATTAATCATATAGTGG
Found at i:159870 original size:42 final size:41
Alignment explanation
Indices: 159741--159992 Score: 164
Period size: 41 Copynumber: 6.1 Consensus size: 41
159731 AATTAGCGGT
* *
159741 GTTTATACCACAAACGCCGTAATAGATTAA-CATATAGTGGC
1 GTTTATACCAAAAACGCCGCAATAGA-TAATCATATAGTGGC
** * *
159782 GTTT-TAGCC-AAAACGCCGCAATAGATCGGT-AAATTAGCGGC
1 GTTTATA-CCAAAAACGCCGCAATAGAT-AATCATA-TAGTGGC
159823 GTTTATACCAAAAACGCCGCAATAGATAACTCATATAGTGGC
1 GTTTATACCAAAAACGCCGCAATAGATAA-TCATATAGTGGC
* * ** * *
159865 ATTTATTCTTAAAACGCCGCAATAGTGATAAT-AAATAGTGAC
1 GTTTATACCAAAAACGCCGCAATA--GATAATCATATAGTGGC
* *
159907 GTTTTTA--AATAAACGCCGTAATAGTATTAATCA-ATAGTGGC
1 GTTTATACCAA-AAACGCCGCAATAG-A-TAATCATATAGTGGC
* * * *
159948 GTTTTTA-GAAAAACACCGCAATAGTTTTAATCA-ATAGTGGC
1 GTTTATACCAAAAACGCCGCAATAG--ATAATCATATAGTGGC
159989 GTTT
1 GTTT
159993 TTTAACAAAC
Statistics
Matches: 170, Mismatches: 25, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
39 2 0.01
40 20 0.12
41 78 0.46
42 62 0.36
43 3 0.02
44 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (41 bp):
GTTTATACCAAAAACGCCGCAATAGATAATCATATAGTGGC
Found at i:159931 original size:41 final size:40
Alignment explanation
Indices: 159832--160034 Score: 180
Period size: 41 Copynumber: 5.0 Consensus size: 40
159822 CGTTTATACC
* * *
159832 AAAAACGCCGCAATA--GATAACTCATATAGTGGCATTTATTCT
1 AAAAACGCCGCAATAGTGATAA-TCA-ATAGTGACGTTT-TT-A
* *
159874 TAAAACGCCGCAATAGTGATAATAAATAGTGACGTTTTTA
1 AAAAACGCCGCAATAGTGATAATCAATAGTGACGTTTTTA
* *
159914 AATAAACGCCGTAATAGT-ATTAATCAATAGTGGCGTTTTTA
1 AA-AAACGCCGCAATAGTGA-TAATCAATAGTGACGTTTTTA
* ** *
159955 GAAAAACACCGCAATAGTTTTAATCAATAGTGGCGTTTTTTA
1 -AAAAACGCCGCAATAGTGATAATCAATAGTGACG-TTTTTA
* * *
159997 ACAAACGCCACAATAGTG-TAATCAATAGTGACATTTTT
1 AAAAACGCCGCAATAGTGATAATCAATAGTGACGTTTTT
160035 TTGTATAAAC
Statistics
Matches: 136, Mismatches: 18, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
39 5 0.04
40 15 0.11
41 77 0.57
42 32 0.24
43 2 0.01
44 5 0.04
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (40 bp):
AAAAACGCCGCAATAGTGATAATCAATAGTGACGTTTTTA
Found at i:160035 original size:82 final size:82
Alignment explanation
Indices: 159875--160034 Score: 205
Period size: 82 Copynumber: 2.0 Consensus size: 82
159865 ATTTATTCTT
* * ** *
159875 AAAACGCCGCAATAGTGATAATAAATAGTGACGTTTTTAAATAAACGCCGTAATAGTATTAATCA
1 AAAACACCGCAATAGTGATAATAAATAGTGACGTTTTTAAACAAACGCCACAATAGTAGTAATCA
*
159940 ATAGTGGCGTTTTTAGA
66 ATAGTGACGTTTTTAGA
** * * *
159957 AAAACACCGCAATAGTTTTAATCAATAGTGGCGTTTTTTAACAAACGCCACAATAGT-GTAATCA
1 AAAACACCGCAATAGTGATAATAAATAGTGACGTTTTTAAACAAACGCCACAATAGTAGTAATCA
*
160021 ATAGTGACATTTTT
66 ATAGTGACGTTTTT
160035 TTGTATAAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (82 bp):
AAAACACCGCAATAGTGATAATAAATAGTGACGTTTTTAAACAAACGCCACAATAGTAGTAATCA
ATAGTGACGTTTTTAGA
Found at i:160773 original size:83 final size:81
Alignment explanation
Indices: 160593--160837 Score: 303
Period size: 83 Copynumber: 3.0 Consensus size: 81
160583 TTATAGGTAC
* * * *
160593 GTACTTTAGTGGCGTTTTTATATAAACGCCGCTATAGAATCGTACGTTAGTGGAGTTTCTATACA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACCTTAGTGGCGTTT-TATACA
*
160658 AACGCCGCTATATACTA
65 AACGCCGCTATAGACTA
* * * * *
160675 GTACTTTAGTGGCGTTTCTATACAAATGCCGCTATATACTCATACTTTAGTGGCGTTTTGA-ATC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACCTTAGTGGCGTTTT-ATA-C
160739 TAAACGCCGCTATAGACTA
64 -AAACGCCGCTATAGACTA
* * *
160758 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACCCTTAGTGGCATTTTTAGAT
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTA-CCTTAGTGGC-GTTTTATAC
*
160823 AAACGCCGCAATAGA
64 AAACGCCGCTATAGA
160838 TATAATATTT
Statistics
Matches: 140, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
81 2 0.01
82 52 0.37
83 71 0.51
84 10 0.07
85 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (81 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACCTTAGTGGCGTTTTATACAA
ACGCCGCTATAGACTA
Found at i:160827 original size:42 final size:41
Alignment explanation
Indices: 160592--160837 Score: 296
Period size: 41 Copynumber: 6.0 Consensus size: 41
160582 GTTATAGGTA
* *
160592 CGTACTTTAGTGGCGTTTTTATATAAACGCCGCTATAGAAT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
* * * *
160633 CGTACGTTAGTGGAGTTTCTATACAAACGCCGCTATATACT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
* * * *
160674 AGTACTTTAGTGGCGTTTCTATACAAATGCCGCTATATACT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
* *
160715 CATACTTTAGTGGCGTTTTGA-ATCTAAACGCCGCTATAGACT
1 CGTACTTTAGTGGCGTTTTTATA-C-AAACGCCGCTATAGACT
*
160757 AGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
* * * * *
160798 CGTACCCTTAGTGGCATTTTTAGATAAACGCCGCAATAGA
1 CGTA-CTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA
160838 TATAATATTT
Statistics
Matches: 176, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
40 1 0.01
41 110 0.62
42 64 0.36
43 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (41 bp):
CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
Found at i:160865 original size:42 final size:42
Alignment explanation
Indices: 160808--160902 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
160798 CGTACCCTTA
*
160808 GTGGCATTTTT-AGATAAACGCCGCAATAGATATAATATTTT
1 GTGGCATTTTTAAGATAAACACCGCAATAGATATAATATTTT
160849 GTGGCATTTTTAAGATAAACACCGCAATAGATATAATATTTT
1 GTGGCATTTTTAAGATAAACACCGCAATAGATATAATATTTT
* *
160891 GCGGCGTTTTTA
1 GTGGCATTTTTA
160903 TAGGGCAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
41 11 0.22
42 39 0.78
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.37
Consensus pattern (42 bp):
GTGGCATTTTTAAGATAAACACCGCAATAGATATAATATTTT
Found at i:170107 original size:43 final size:42
Alignment explanation
Indices: 170060--170415 Score: 223
Period size: 43 Copynumber: 8.2 Consensus size: 42
170050 CCAGTACCGG
* *
170060 CGTTTTTAGCAGAAACGCCGCAAAACATCAACACCTACTGCGA
1 CGTTTTTAG-AGAAACGCCGCTAAACATCAACACCTATTGCGA
* * * * * * *
170103 CGTTTTAACAAAAAATGCCACTAAACATCATA-ACATATTGCGG
1 CGTTTTTA-GAGAAACGCCGCTAAACATCA-ACACCTATTGCGA
* * * *
170146 CGTTTGTCT-GAGAAACGCTGCTAAATATTAACACCTATTGCGG
1 CGTTT-T-TAGAGAAACGCCGCTAAACATCAACACCTATTGCGA
* *
170189 CGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTGCGA
1 CGTTTTTA-GAGAAACGCCGCTAAACATCAACACCTATTGCGA
* * * * * *
170232 CGTTTTTATAAAAAAAAAACGCTGCTAAATATCAATACATATTGC-A
1 CG-TTTT-T---AGAGAAACGCCGCTAAACATCAACACCTATTGCGA
* * *
170278 GCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTGCGG
1 -CGTTTTTA-GAGAAACGCCGCTAAACATCAACACCTATTGCGA
* * * * *
170322 CGTTTTTATAACAAACGCCACTAAATATCAACACCTATTGTGA
1 CGTTTTTA-GAGAAACGCCGCTAAACATCAACACCTATTGCGA
* * * * * * *
170365 CGTTTTTGCACACAAACGCCACTAAATATCAATACTTATTGCGG
1 CGTTTTT--AGAGAAACGCCGCTAAACATCAACACCTATTGCGA
170409 CGTTTTT
1 CGTTTTT
170416 TCAAAAAACG
Statistics
Matches: 254, Mismatches: 42, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 170 0.67
44 42 0.17
45 3 0.01
46 5 0.02
47 29 0.11
48 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (42 bp):
CGTTTTTAGAGAAACGCCGCTAAACATCAACACCTATTGCGA
Found at i:170282 original size:90 final size:90
Alignment explanation
Indices: 170158--170423 Score: 312
Period size: 90 Copynumber: 3.0 Consensus size: 90
170148 TTTGTCTGAG
* * *
170158 AAACGCTGCTAAATATTAACACCTATTGCGGCGTTTTTATGACAAACGCCGCTAAATATCAACAC
1 AAACGCTGCTAAATATCAACACATATTGCAGCGTTTTTATGACAAACGCCGCTAAATATCAACAC
170223 CTATTGCGACGTTTTTATAAAAAAA
66 CTATTGCGACGTTTTTATAAAAAAA
*
170248 AAACGCTGCTAAATATCAATACATATTGCAGCGTTTTTATGACAAACGCCGCTAAATATCAACAC
1 AAACGCTGCTAAATATCAACACATATTGCAGCGTTTTTATGACAAACGCCGCTAAATATCAACAC
* *
170313 CTATTGCGGCGTTTTTAT----AAC
66 CTATTGCGACGTTTTTATAAAAAAA
** * * * *
170334 AAACGCCACTAAATATCAACACCTATTG-TGACGTTTTTGCA-CACAAACGCCACTAAATATCAA
1 AAACGCTGCTAAATATCAACACATATTGCAG-CGTTTTT--ATGACAAACGCCGCTAAATATCAA
* * * *
170397 TACTTATTGCGGCGTTTTT-TCAAAAAA
63 CACCTATTGCGACGTTTTTATAAAAAAA
170424 CGCCACAAAC
Statistics
Matches: 153, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
85 1 0.01
86 34 0.22
87 37 0.24
88 1 0.01
90 80 0.52
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (90 bp):
AAACGCTGCTAAATATCAACACATATTGCAGCGTTTTTATGACAAACGCCGCTAAATATCAACAC
CTATTGCGACGTTTTTATAAAAAAA
Found at i:170314 original size:133 final size:131
Alignment explanation
Indices: 170057--170371 Score: 404
Period size: 133 Copynumber: 2.4 Consensus size: 131
170047 AGACCAGTAC
* * * * * *
170057 CGGCGTTTTTA-GCAGAAACGCCGCAAAACATCAACACCTACTGCGACG--TTTTAACAAAAAAT
1 CGGCGTTTTTATG-ACAAACGCCGCTAAATATCAACACCTATTGCGACGTTTTTTAAAAAAAAAC
* * * * *
170119 GCCACTAAACATCATAACATATTGCGGCGTTTGTCTGAGAAACGCTGCTAAATATTAACACCTAT
65 GCCACTAAACATCATAACATATTGCAGCGTTTGTATGACAAACGCCGCTAAATATCAACACCTAT
170184 TG
130 TG
170186 CGGCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTGCGACGTTTTTATAAAAAAAAAA
1 CGGCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTGCGACGTTTTT-T-AAAAAAAAA
** * *
170251 CGCTGCTAAATATCA-ATACATATTGCAGCGTTTTTATGACAAACGCCGCTAAATATCAACACCT
64 CGCCACTAAACATCATA-ACATATTGCAGCGTTTGTATGACAAACGCCGCTAAATATCAACACCT
170315 ATTG
128 ATTG
* * *
170319 CGGCGTTTTTATAACAAACGCCACTAAATATCAACACCTATTGTGACGTTTTT
1 CGGCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTGCGACGTTTTT
170372 GCACACAAAC
Statistics
Matches: 162, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
129 42 0.26
130 1 0.01
131 3 0.02
132 2 0.01
133 114 0.70
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (131 bp):
CGGCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTGCGACGTTTTTTAAAAAAAAACG
CCACTAAACATCATAACATATTGCAGCGTTTGTATGACAAACGCCGCTAAATATCAACACCTATT
G
Found at i:177318 original size:7 final size:7
Alignment explanation
Indices: 177276--177316 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
177266 TTAAACGAAA
177276 TTAAATT
1 TTAAATT
177283 TTAAATT
1 TTAAATT
177290 TTAAATT
1 TTAAATT
177297 TTAAATT
1 TTAAATT
*
177304 TTAAATA
1 TTAAATT
177311 TTAAAT
1 TTAAAT
177317 ATATTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:177691 original size:181 final size:180
Alignment explanation
Indices: 177310--177677 Score: 551
Period size: 181 Copynumber: 2.0 Consensus size: 180
177300 AATTTTAAAT
* * * *
177310 ATTAAATATATTATATATAATATATAGG-TTCAGCCCAAACCATTTAAAACTTAATTAATAATTT
1 ATTAAA-ATATTATATATAACATAT-GGACTAAGCCCAAACCATTTAAAACCTAATTAATAATTT
* *
177374 AAGATTCAATAACTTTTAAACCTAAATCAATATTAATTAATTAGAAAATTATATAAAATTTTATT
64 AAGATTAAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTATT
* *
177439 TTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTAATTAAAAAT
129 TTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAAC
*
177491 ATTAAAAATATTATATATAACATATGGACTAAGCCTAAACCATTTAAAACCTAATTAATAATTTA
1 ATT-AAAATATTATATATAACATATGGACTAAGCCCAAACCATTTAAAACCTAATTAATAATTTA
* **
177556 AGATTAAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGAATTTTTTAT
65 AGATTAAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAA-TTATAT-AAAATTTTAT
177621 TTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAAAAAC
128 TTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT-AATT-AAAAAC
177675 ATT
1 ATT
177678 TAATTTTTAT
Statistics
Matches: 169, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
180 2 0.01
181 98 0.58
182 14 0.08
183 47 0.28
184 8 0.05
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.43
Consensus pattern (180 bp):
ATTAAAATATTATATATAACATATGGACTAAGCCCAAACCATTTAAAACCTAATTAATAATTTAA
GATTAAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTATTTT
ATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAAC
Found at i:178053 original size:37 final size:37
Alignment explanation
Indices: 178012--178085 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
178002 AATAAAATTT
* * *
178012 TTTATCTTTTTCGTATTTTATAAATTATTGTTCTTAA
1 TTTATCTTTTTCATATTTTATAAATTATCGTTATTAA
*
178049 TTTATCTTTTTCATGTTTTATAAATTATCGTTATTAA
1 TTTATCTTTTTCATATTTTATAAATTATCGTTATTAA
178086 ATAAAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (37 bp):
TTTATCTTTTTCATATTTTATAAATTATCGTTATTAA
Found at i:178458 original size:20 final size:19
Alignment explanation
Indices: 178433--178485 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
178423 GCGAAATAAA
178433 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
178453 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
178473 AATCGCAACGCGA
1 AATCGCAACGCGA
178486 ATATGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.04
20 22 0.85
21 3 0.12
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:178496 original size:20 final size:20
Alignment explanation
Indices: 178473--178666 Score: 138
Period size: 20 Copynumber: 9.7 Consensus size: 20
178463 CAGTTCCCAG
*
178473 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGTA
* *
178493 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATATGTA
* *
178513 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGAATATGTA
* * *
178532 CTATCGCAACGAGAATACGTA
1 -AATCGCAACGCGAATATGTA
* * * *
178553 AATCGTAACGAGTATCTGTA
1 AATCGCAACGCGAATATGTA
* *
178573 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATATGTA
* * **
178593 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATATGTA
* * **
178613 AATCGCAACACCAATACATAA
1 AATCGCAACGCGAATATGT-A
* **
178634 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATATGTA
178654 AATCGCAACGCGA
1 AATCGCAACGCGA
178667 TCTCCGGTAT
Statistics
Matches: 134, Mismatches: 37, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
19 1 0.01
20 117 0.87
21 16 0.12
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATATGTA
Found at i:178517 original size:40 final size:40
Alignment explanation
Indices: 178473--178666 Score: 176
Period size: 40 Copynumber: 4.8 Consensus size: 40
178463 CAGTTCCCAG
* * * *
178473 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGTATCTGTAAATCGCAACGCGAACACATA
* * * *
178513 AATCGCAACGCG-ATTCTG-ACTATCGCAACGAGAATACGTA
1 AATCGCAACGCGTA-TCTGTA-AATCGCAACGCGAACACATA
* * * * *
178553 AATCGTAACGAGTATCTGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCTGTAAATCGCAACGCGAACACATA
* * * * *
178593 AATCGCAATGCGTATCCGTAAATCGCAACACCAATACATAA
1 AATCGCAACGCGTATCTGTAAATCGCAACGCGAACACAT-A
*
178634 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCTGTAAATCGCAACGCGA
178667 TCTCCGGTAT
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
39 2 0.02
40 94 0.73
41 33 0.26
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGTATCTGTAAATCGCAACGCGAACACATA
Found at i:178745 original size:21 final size:21
Alignment explanation
Indices: 178716--178762 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
178706 ATTCTAACTA
178716 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
178737 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
178758 TCGCA
1 TCGCA
178763 ATGCAAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:178783 original size:20 final size:20
Alignment explanation
Indices: 178758--178820 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
178748 TTTTCCTAAT
178758 TCGCAATGCAAATACGTAAA
1 TCGCAATGCAAATACGTAAA
* * *
178778 TCGCAACGCGATTACGTAAA
1 TCGCAATGCAAATACGTAAA
178798 TCGCAATGCAAAT-CTGTAAA
1 TCGCAATGCAAATAC-GTAAA
178818 TCG
1 TCG
178821 TAACGAGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
19 1 0.03
20 35 0.97
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (20 bp):
TCGCAATGCAAATACGTAAA
Found at i:179711 original size:24 final size:24
Alignment explanation
Indices: 179684--179737 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
179674 GTATTCGAAA
179684 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
179708 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
179732 TTTGAT
1 TTTGAT
179738 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:182194 original size:33 final size:34
Alignment explanation
Indices: 182152--182227 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 34
182142 TATCGCAACT
182152 ATCGCAACGA-TAGAATCACAATGCG-AAATGAAA
1 ATCGCAACGAGT-GAATCACAATGCGAAAATGAAA
*
182185 ATCGCAACGAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGAGTGAATCACAATGCGAAAATGAAA
182219 ATCGCAACG
1 ATCGCAACG
182228 CGAAATTTCG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
33 22 0.55
34 18 0.45
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGTGAATCACAATGCGAAAATGAAA
Found at i:182295 original size:33 final size:33
Alignment explanation
Indices: 182238--182322 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
182228 CGAAATTTCG
182238 CGTTGCGATTTTCATTTTCGCATTGCAATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCAATTCACT
* *
182272 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCAATTCACT
**
182305 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
182323 CGCGTTGCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 33 0.70
34 14 0.30
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCAATTCACT
Found at i:182454 original size:14 final size:14
Alignment explanation
Indices: 182435--182471 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
182425 CATCAATTAA
182435 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
182449 ACAAATCATCTTTT
1 ACAAATCAACATTT
182463 ACAAATCAA
1 ACAAATCAA
182472 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:183935 original size:42 final size:42
Alignment explanation
Indices: 183828--183937 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
183818 TCTAGAATGT
* * *
183828 TGGGAG-GGATCTCTTCAACGATGACAATGGCCTCTTGAACGG
1 TGGGAGAGGA-CTCTTGAACGATGACAAGGGCCTCTTGAACGA
* ** * *
183870 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGACTCTTGAACGATGACAAGGGCCTCTTGAACGA
*
183912 TAGGG-GAGGCCTCTTGAACGATGACA
1 T-GGGAGAGGACTCTTGAACGATGACA
183938 GGTGAGTCGG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 48 0.89
43 6 0.11
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
TGGGAGAGGACTCTTGAACGATGACAAGGGCCTCTTGAACGA
Found at i:184450 original size:20 final size:20
Alignment explanation
Indices: 184427--184465 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
184417 AAATCACAAC
184427 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
184447 GCGAAAATGACTATCGCAA
1 GCGAAAATGACTATCGCAA
184466 CGAGAGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:184522 original size:19 final size:19
Alignment explanation
Indices: 184500--184601 Score: 98
Period size: 19 Copynumber: 5.2 Consensus size: 19
184490 AAATCGTAAC
184500 GCGATTATT-GTTTCGCGTT
1 GCGATT-TTAGTTTCGCGTT
*
184519 GCGATTTTGGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
184538 GCGATTTTGGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* * * *
184557 GCGATAGTCATTTTTCACGTT
1 GCGAT-TTTA-GTTTCGCGTT
*
184578 GCGATTTTAAGTTTCGTGTT
1 GCGATTTT-AGTTTCGCGTT
184598 GCGA
1 GCGA
184602 AAGTAAACTA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.03
19 40 0.58
20 13 0.19
21 14 0.20
ACGTcount: A:0.12, C:0.16, G:0.27, T:0.45
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:184795 original size:94 final size:94
Alignment explanation
Indices: 184657--185028 Score: 629
Period size: 94 Copynumber: 4.0 Consensus size: 94
184647 CATTGCTTCT
* * * * *
184657 ACCAGAAGACAAAACAAAGACAAATACTAACTTTAGAGTATTAAAGAATACACAGTTTAGTAGAA
1 ACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAA
184722 TTGGCAGCAACCGAACAAATTTACTTTCA
66 TTGGCAGCAACCGAACAAATTTACTTTCA
184751 ACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAA
1 ACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAA
184816 TTGGCAGCAACCGAACAAATTTACTTTCA
66 TTGGCAGCAACCGAACAAATTTACTTTCA
184845 ACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAA
1 ACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAA
* *
184910 TTGACAGCAACCGAATAAATTTAC-TTCA
66 TTGGCAGCAACCGAACAAATTTACTTTCA
* * *
184938 ACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAATTTAGCAGT
1 ACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGA
*
185003 ATTGGCAGCAACCGAATAAATTTACT
65 ATTGGCAGCAACCGAACAAATTTACT
185029 AAGCAATCTA
Statistics
Matches: 265, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
93 19 0.07
94 246 0.93
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.21
Consensus pattern (94 bp):
ACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAA
TTGGCAGCAACCGAACAAATTTACTTTCA
Found at i:186708 original size:19 final size:19
Alignment explanation
Indices: 186684--186791 Score: 91
Period size: 19 Copynumber: 5.8 Consensus size: 19
186674 TAACACTGTT
*
186684 TTGCGATTTTGATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
186703 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
*
186717 TTACGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
186736 TTGCGATTTTCATTTCTCTTG
1 TTGCGATTTTCATTTCGC--G
** *
186757 TTGCGATAGTCATTTTCGTG
1 TTGCGATTTTCA-TTTCGCG
186777 TTGCGATTTTCATTT
1 TTGCGATTTTCATTT
186792 TTATGTTGCG
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
14 9 0.13
16 3 0.04
17 2 0.03
19 29 0.42
20 11 0.16
21 11 0.16
22 4 0.06
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:186780 original size:20 final size:20
Alignment explanation
Indices: 186720--186806 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
186710 TCTCTCGTTA
*
186720 CGATTTTCA-TTTCGCGTTG
1 CGATTTTCATTTTCGTGTTG
*
186739 CGATTTTCATTTCTCTTGTTG
1 CGATTTTCATTT-TCGTGTTG
**
186760 CGATAGTCATTTTCGTGTTG
1 CGATTTTCATTTTCGTGTTG
**
186780 CGATTTTCATTTTTATGTTG
1 CGATTTTCATTTTCGTGTTG
186800 CGATTTT
1 CGATTTT
186807 AAGTTTAGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 9 0.16
20 32 0.56
21 16 0.28
ACGTcount: A:0.13, C:0.16, G:0.18, T:0.53
Consensus pattern (20 bp):
CGATTTTCATTTTCGTGTTG
Found at i:187390 original size:20 final size:20
Alignment explanation
Indices: 187365--187557 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
187355 CTTTAAAAAT
187365 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
187385 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
187405 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
187425 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* *
187446 CG-GATTGCGATTTACGTATT
1 CGCG-TTGCGATTTACGGATA
* *
187466 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* *
187486 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
187506 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
187526 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
187547 CTCGTTGCGAT
1 CGCGTTGCGAT
187558 AGTCAGAATC
Statistics
Matches: 148, Mismatches: 19, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
19 1 0.01
20 110 0.74
21 37 0.25
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Done.