Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004222.1 Hibiscus syriacus cultivar Beakdansim tig00009242_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: 72523
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4600 original size:18 final size:19
Alignment explanation
Indices: 4577--4613 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4567 CCAGTAATCA
4577 TATTCT-CTGATAATCTTT
1 TATTCTACTGATAATCTTT
4595 TATTCTCACTGATAATCTT
1 TATTCT-ACTGATAATCTT
4614 ATCTTCCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTCTACTGATAATCTTT
Found at i:7976 original size:31 final size:31
Alignment explanation
Indices: 7926--8003 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
7916 TTTTAAACAT
* *
7926 AATACTAATTTAATC-TTAAACTTTAGATAA
1 AATATTAATTTAACCTTTAAACTTTAGATAA
* * *
7956 AATATTATTTTGACCTTTAAAGTTTAGATAA
1 AATATTAATTTAACCTTTAAACTTTAGATAA
7987 AATATTAATTTAACCTT
1 AATATTAATTTAACCTT
8004 CAATAATGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 11 0.28
31 29 0.73
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (31 bp):
AATATTAATTTAACCTTTAAACTTTAGATAA
Found at i:9364 original size:14 final size:14
Alignment explanation
Indices: 9345--9372 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9335 TTCCAGGCAT
9345 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
9359 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
9373 AAGCATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:9431 original size:33 final size:33
Alignment explanation
Indices: 9375--9463 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
9365 CCATCCGAAA
* * *
9375 GCATCCGAGGCCATCCGAACGAGCTATGCGAGG
1 GCATCCGAGGGCAACCGAGCGAGCTATGCGAGG
*
9408 GCATTCGAGGGCAACCGAGCGAGCTATGCGAGG
1 GCATCCGAGGGCAACCGAGCGAGCTATGCGAGG
*
9441 GAATCCGAGGGCAACCGAGCGAG
1 GCATCCGAGGGCAACCGAGCGAG
9464 GGTAGGTCGG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.26, C:0.27, G:0.37, T:0.10
Consensus pattern (33 bp):
GCATCCGAGGGCAACCGAGCGAGCTATGCGAGG
Found at i:9532 original size:13 final size:13
Alignment explanation
Indices: 9510--9541 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9500 CCCTCGCATA
*
9510 GCTCGTTCGGATG
1 GCTCGGTCGGATG
9523 GCTCGGTCGGATG
1 GCTCGGTCGGATG
9536 GCTCGG
1 GCTCGG
9542 ATGCTCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.25, G:0.44, T:0.25
Consensus pattern (13 bp):
GCTCGGTCGGATG
Found at i:20339 original size:69 final size:69
Alignment explanation
Indices: 20182--20331 Score: 196
Period size: 69 Copynumber: 2.2 Consensus size: 69
20172 TGTTGATATT
* * *
20182 GTTTTAGTTATTTCACCGCTCATAAATTCTTAACTATCAGTATAGTTCTTATAAATGGTCTTATA
1 GTTTTAGTTATTTCACCGCTCACAAATTCTTAACTATCAGTATAATTATTATAAATGGTCTTATA
20247 ATTC
66 ATTC
* * * *
20251 GTTTTAGTTATTTTACCGCTCACAGATT-TCTAATTATGAGTATAATTATTATGAAAT-GTCTTA
1 GTTTTAGTTATTTCACCGCTCACAAATTCT-TAACTATCAGTATAATTATTAT-AAATGGTCTTA
*
20314 TAGTTC
64 TAATTC
20320 GTTTTAGTTATT
1 GTTTTAGTTATT
20332 ACCCCGCTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
68 1 0.01
69 66 0.93
70 4 0.06
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (69 bp):
GTTTTAGTTATTTCACCGCTCACAAATTCTTAACTATCAGTATAATTATTATAAATGGTCTTATA
ATTC
Found at i:25711 original size:228 final size:227
Alignment explanation
Indices: 25302--25749 Score: 781
Period size: 228 Copynumber: 2.0 Consensus size: 227
25292 GTAAATTATC
* * *
25302 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
25367 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
25432 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
25497 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
25530 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
25595 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
25659 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
25724 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
25750 GCAGTTTTAA
Statistics
Matches: 209, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
227 4 0.02
228 136 0.65
229 69 0.33
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:25838 original size:20 final size:19
Alignment explanation
Indices: 25815--25860 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
25805 CGATATACCA
25815 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
25835 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
25855 GGTAAA
1 GGTAAA
25861 TTAAAAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:26004 original size:20 final size:19
Alignment explanation
Indices: 25981--26027 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
25971 CGATATAACA
*
25981 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
26001 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
26021 GGTAAAA
1 GGTAAAA
26028 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:28366 original size:33 final size:33
Alignment explanation
Indices: 28324--28389 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
28314 AAATAGATGG
*
28324 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
28357 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
28390 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:30228 original size:19 final size:19
Alignment explanation
Indices: 30188--30227 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
30178 GTCGAGTTAA
30188 TTTGTATAAGATTTATAAT
1 TTTGTATAAGATTTATAAT
*
30207 TTTGTATACGATTTAT-AT
1 TTTGTATAAGATTTATAAT
30225 TTT
1 TTT
30228 TTTATGTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTGTATAAGATTTATAAT
Found at i:30660 original size:199 final size:199
Alignment explanation
Indices: 30310--31726 Score: 2594
Period size: 199 Copynumber: 7.1 Consensus size: 199
30300 TTAAGGGTCA
*
30310 TGTCGATACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
30374 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
30439 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
30504 AATG
196 AATG
30508 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
30573 AATAAAGTGTCTATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
30638 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
30703 AATG
196 AATG
*
30707 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCA-C
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
30771 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
30836 GTAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
30900 TAATG
195 TAATG
*
30905 TGTCGACACTAATATAGTTTGTGTCAATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
30969 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
31034 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
31099 AATG
196 AATG
31103 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
31168 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
31233 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
31298 AATG
196 AATG
* * *
31302 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
31367 CATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
31430 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
31495 AATG
196 AATG
* *
31499 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
* *
31564 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
31629 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
31694 AATG
196 AATG
*
31698 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
31727 CTAATTTAAA
Statistics
Matches: 1190, Mismatches: 22, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
197 283 0.24
198 233 0.20
199 674 0.57
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:31085 original size:396 final size:397
Alignment explanation
Indices: 30310--31726 Score: 2610
Period size: 396 Copynumber: 3.6 Consensus size: 397
30300 TTAAGGGTCA
*
30310 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCATC
30374 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
30439 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
30504 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
196 AATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTG
*
30569 CATCAATAAAGTGTCTATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
260 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
30634 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
325 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
30699 AAATAATG
390 AAATAATG
30707 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCA-C
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCATC
*
30771 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
30836 GTAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
*
30900 TAATGTGTCGACACTAATATAGTTTGTGTCAATATTTTTTTCCAGAATGAATTAAAAACAAGGTG
195 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTG
30965 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
260 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
*
31030 AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
325 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
31095 AAATAATG
390 AAATAATG
*
31103 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCATC
31168 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
31233 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
*
31298 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAGGTG
196 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTG
* *
31363 CACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
260 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
*
31426 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
325 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
31491 AAATAATG
390 AAATAATG
*
31499 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCATC
* *
31564 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* * *
31629 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
*
31694 AATGTGTCGACACTAATATATTTTGTGTCGATA
196 AATGTGTCGACACTAATATAGTTTGTGTCGATA
31727 CTAATTTAAA
Statistics
Matches: 992, Mismatches: 23, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
396 615 0.62
397 257 0.26
398 120 0.12
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (397 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCATC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGC
ATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
AATAATG
Found at i:31542 original size:595 final size:594
Alignment explanation
Indices: 30310--31726 Score: 2658
Period size: 595 Copynumber: 2.4 Consensus size: 594
30300 TTAAGGGTCA
*
30310 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
30375 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
30440 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
30505 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
*
30570 ATCAATAAAGTGTCTATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
261 ATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
*
30635 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
326 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCTA
*
30700 AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAG
391 AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAG
30765 GTGCACCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG
456 GTGCACCATAAAGTGTCGATCCA-ATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG
30830 TATAATGTAATATGTAATTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
520 TATAATGTAATATGTAATTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
30895 CTAAATAATG
585 CTAAATAATG
*
30905 TGTCGACACTAATATAGTTTGTGTCAATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
30970 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
31035 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
31100 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
31165 ATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
261 ATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
*
31230 ATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCTA
326 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCTA
31295 AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAG
391 AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAG
31360 GTGCACCCATAAAGTGTCGATCC-ATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG
456 GTGCA-CCATAAAGTGTCGATCCAATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG
*
31423 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
520 TATAATGTAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAG
31488 TCTAAATAATG
584 TCTAAATAATG
*
31499 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCATC
* *
31564 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* * *
31629 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
130 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
*
31694 AATGTGTCGACACTAATATATTTTGTGTCGATA
195 AATGTGTCGACACTAATATAGTTTGTGTCGATA
31727 CTAATTTAAA
Statistics
Matches: 804, Mismatches: 15, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
593 58 0.07
594 91 0.11
595 638 0.79
596 17 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (594 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
ATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCTA
AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAG
GTGCACCATAAAGTGTCGATCCAATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
ATAATGTAATATGTAATTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
TAAATAATG
Found at i:33212 original size:6 final size:6
Alignment explanation
Indices: 33188--33285 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
33178 ATCGGTCGCA
* * * * * *
33188 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
33236 GAAGTT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
33284 GA
1 GA
33286 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.06, G:0.35, T:0.22
Consensus pattern (6 bp):
GAAGAT
Found at i:33223 original size:3 final size:3
Alignment explanation
Indices: 33203--33289 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
33193 TGAAGCTGAC
* * * * * ** *
33203 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GTT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
33251 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
33290 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:33238 original size:42 final size:42
Alignment explanation
Indices: 33191--33281 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
33181 GGTCGCAGAA
*
33191 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * * *
33233 GATGAAGTTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
33275 GATGAAG
1 GATGAAG
33282 ATGATGATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.23
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:33286 original size:12 final size:12
Alignment explanation
Indices: 33191--33289 Score: 81
Period size: 12 Copynumber: 8.2 Consensus size: 12
33181 GGTCGCAGAA
* *
33191 GATGAAGCTGAC
1 GATGAAGATGAT
*
33203 GATGAAGATGAC
1 GATGAAGATGAT
*
33215 GATGATGATGAT
1 GATGAAGATGAT
* *
33227 GATGACGATGAA
1 GATGAAGATGAT
* ** *
33239 GTTGGCGATGAA
1 GATGAAGATGAT
* *
33251 GATGATGACGAT
1 GATGAAGATGAT
*
33263 GATGATGATGAT
1 GATGAAGATGAT
33275 GATGAAGATGAT
1 GATGAAGATGAT
33287 GAT
1 GAT
33290 CCAAACAAGT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 73 1.00
ACGTcount: A:0.35, C:0.06, G:0.34, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:33289 original size:18 final size:18
Alignment explanation
Indices: 33188--33285 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
33178 ATCGGTCGCA
* *
33188 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
33206 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
33224 GATGATGACGATGAAGTT
1 GAAGATGAAGATGATGAT
** *
33242 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
33260 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
33278 GAAGATGA
1 GAAGATGA
33286 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.06, G:0.35, T:0.22
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:34344 original size:365 final size:368
Alignment explanation
Indices: 33520--34554 Score: 1972
Period size: 365 Copynumber: 2.8 Consensus size: 368
33510 CTTTCAACAT
**
33520 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
33585 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
33649 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
33714 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
33779 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
33844 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
33887 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
33952 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
34016 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
34081 ATAGATAATTTTGTAATATAACCGGTAT-AATATACCGGTCTTATGCGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
34145 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AAAATGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
34209 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
326 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
34252 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
34317 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
34382 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
* * *
34446 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
*
34511 TATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
34555 CCATTTAAAA
Statistics
Matches: 657, Mismatches: 8, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
365 257 0.39
366 182 0.28
367 179 0.27
368 39 0.06
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (368 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:34417 original size:183 final size:184
Alignment explanation
Indices: 33520--34554 Score: 1963
Period size: 183 Copynumber: 5.7 Consensus size: 184
33510 CTTTCAACAT
**
33520 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
33585 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
33649 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
33703 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
33768 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
33833 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
33887 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
33952 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
34016 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
34070 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT-AATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
34134 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
34198 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
34252 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
34317 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
34382 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* * *
34435 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
34500 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
34555 CCATTTAAAA
Statistics
Matches: 841, Mismatches: 8, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
182 182 0.22
183 418 0.50
184 241 0.29
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:37135 original size:23 final size:22
Alignment explanation
Indices: 37104--37165 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
37094 ATAGGTAAAC
*
37104 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTA-CCCTT
* *
37127 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTACCCTT
37149 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
37166 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (22 bp):
ATATAATGTAATAGGTACCCTT
Found at i:37153 original size:22 final size:22
Alignment explanation
Indices: 37104--37175 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
37094 ATAGGTAAAC
* * *
37104 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTA-TCGTT
37127 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTATCGTT
*
37149 ATATAATGTAATAGGTAATGGTT
1 ATATAATGTAATAGGT-ATCGTT
37172 ATAT
1 ATAT
37176 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.43
23 25 0.57
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGGTATCGTT
Found at i:37363 original size:29 final size:30
Alignment explanation
Indices: 37320--37386 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
37310 GTTACGGTAT
* *
37320 ATATTATTATTAAAT-TAAAA-ATTCTAAATA
1 ATATT-TTATAAAATATAAAACAATC-AAATA
37350 ATATTTTATAAAATATAAAACAATCAAATA
1 ATATTTTATAAAATATAAAACAATCAAATA
*
37380 ATTTTTT
1 ATATTTT
37387 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATTTTATAAAATATAAAACAATCAAATA
Found at i:37563 original size:23 final size:23
Alignment explanation
Indices: 37532--37594 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
37522 ATAGGTAAAC
*
37532 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
37555 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
37578 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
37595 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:37602 original size:23 final size:23
Alignment explanation
Indices: 37532--37604 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
37522 ATAGGTAAAC
* * **
37532 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
37555 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
37578 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
37601 ATAT
1 ATAT
37605 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:37966 original size:426 final size:428
Alignment explanation
Indices: 37007--38020 Score: 1952
Period size: 426 Copynumber: 2.4 Consensus size: 428
36997 AATTCGCAGT
37007 ACACTGTT-AAAAAATTGAAACATAAATTACAT-AGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
37070 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
37135 TAATAGGTATCG-TTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
37199 AAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
196 AAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
37264 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG-ATATATTATTA
37329 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAA
325 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAA
37394 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
37433 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
37498 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
37563 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
37628 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
37693 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGG-TATA-TATTA
260 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGATATATTATTA
37755 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
325 TTAAATTAAAAATTCTAAATAATATTTTATAAAATAT-AAAACAATCAAATAATTTTTTGTGCAA
37820 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
389 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
37860 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
37924 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
37989 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
38021 TCTATCTCGC
Statistics
Matches: 583, Mismatches: 0, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
426 171 0.29
427 135 0.23
428 108 0.19
429 80 0.14
430 89 0.15
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (428 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGATATATTATTAT
TAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAAT
GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:38021 original size:23 final size:23
Alignment explanation
Indices: 37958--38022 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
37948 ATAGGTAAAC
* *
37958 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
37981 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
38004 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
38023 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:38247 original size:18 final size:18
Alignment explanation
Indices: 38226--38262 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38216 GTAATTGGAG
38226 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
38244 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
38262 T
1 T
38263 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:38270 original size:24 final size:24
Alignment explanation
Indices: 38218--38264 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
38208 TTTCATATGT
* *
38218 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
38242 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
38265 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:40318 original size:53 final size:53
Alignment explanation
Indices: 40260--40366 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
40250 ATCTTGTGAC
* * *
40260 AATTAAATAATGTCATTCATTATTGTTTTTTGTTAATTTAGGTAGAGATAGTA
1 AATTAAATAATGTCATTCATTATAGTTTTTGGTTAATTTAGGTAAAGATAGTA
*
40313 AATTAAATAATGTCATTCATTATAGTTTTTGGTTAGTTTAGGTAAAGATAGTA
1 AATTAAATAATGTCATTCATTATAGTTTTTGGTTAATTTAGGTAAAGATAGTA
40366 A
1 A
40367 TGAGGTGGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.45
Consensus pattern (53 bp):
AATTAAATAATGTCATTCATTATAGTTTTTGGTTAATTTAGGTAAAGATAGTA
Found at i:47337 original size:15 final size:15
Alignment explanation
Indices: 47317--47366 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
47307 TCAAAAAATA
47317 AATTACTGGAATTTG
1 AATTACTGGAATTTG
* *
47332 AATTACTGAAATTTA
1 AATTACTGGAATTTG
**
47347 AATT-CTGGAAAATG
1 AATTACTGGAATTTG
47361 AATTAC
1 AATTAC
47367 ATTTCTGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (15 bp):
AATTACTGGAATTTG
Found at i:47620 original size:49 final size:50
Alignment explanation
Indices: 47523--47638 Score: 116
Period size: 49 Copynumber: 2.4 Consensus size: 50
47513 TACAAATATT
*
47523 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
47573 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
**
47622 TTA-ATAA-AAATAATATT
1 AAATATAATAAATAATATT
47639 TTTGTATATT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
48 19 0.35
49 28 0.51
50 8 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:47660 original size:32 final size:29
Alignment explanation
Indices: 47600--47662 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
47590 ATTTATTATT
* *
47600 AAATATTATTTTTATAATTTTATTAATAA
1 AAATAATATTTTTATAATTTTATAAATAA
*
47629 AAATAATATTTTTGTATATTTTAGTGAAATAA
1 AAATAATATTTTTATA-ATTTTA-T-AAATAA
47661 AA
1 AA
47663 TATTATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 14 0.50
30 6 0.21
31 1 0.04
32 7 0.25
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (29 bp):
AAATAATATTTTTATAATTTTATAAATAA
Found at i:47758 original size:23 final size:23
Alignment explanation
Indices: 47709--47771 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
47699 GTATTATATT
* **
47709 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
47732 ATATTTTAAATATTTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
47755 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
47772 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 10 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:47852 original size:24 final size:24
Alignment explanation
Indices: 47812--47903 Score: 75
Period size: 24 Copynumber: 3.8 Consensus size: 24
47802 AAAATTTTAT
*
47812 TATA-TATTATTAAAATAAAAATA
1 TATATTATTATTATAATAAAAATA
* *
47835 TATATTATTATTATAATATAACTGA
1 TATATTATTATTATAATAAAAAT-A
*
47860 T-TATT-TTATATAATATTAAAAATA
1 TATATTATTAT-T-ATAATAAAAATA
*
47884 TAATATTA-TATTATTATAAA
1 T-ATATTATTATTATAATAAA
47904 TATTAATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
23 8 0.15
24 28 0.52
25 11 0.20
26 7 0.13
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (24 bp):
TATATTATTATTATAATAAAAATA
Found at i:47884 original size:31 final size:32
Alignment explanation
Indices: 47861--47919 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
47851 TATAACTGAT
47861 TATT-TTATATAATATTAA-AAATATAATATTA
1 TATTATTATA-AATATTAATAAATATAATATTA
47892 TATTATTATAAATATTAATAAATA-AATA
1 TATTATTATAAATATTAATAAATATAATA
47920 AATAATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
TATTATTATAAATATTAATAAATATAATATTA
Found at i:47893 original size:22 final size:23
Alignment explanation
Indices: 47868--47911 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
47858 GATTATTTTA
47868 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
47890 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
47912 AATAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:54443 original size:33 final size:33
Alignment explanation
Indices: 54398--54473 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
54388 AAACCTGAAC
* *
54398 CCGACCCAAATATCACACTTAAAAAAAATCGA-
1 CCGACCCGAATATCACACTTAAAAAAAACCGAT
54430 CCTGACCCGAATATCACACTTAAAAAAAACCGAT
1 CC-GACCCGAATATCACACTTAAAAAAAACCGAT
54464 CCGACCCGAA
1 CCGACCCGAA
54474 CCCGAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 2 0.05
33 36 0.90
34 2 0.05
ACGTcount: A:0.45, C:0.32, G:0.09, T:0.14
Consensus pattern (33 bp):
CCGACCCGAATATCACACTTAAAAAAAACCGAT
Found at i:55048 original size:22 final size:21
Alignment explanation
Indices: 55014--55055 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
55004 ATAATTATTT
*
55014 AAAAAATTAAATACAAATACC
1 AAAAAATTAAATAAAAATACC
*
55035 AAAAATATTTAATAAAAATAC
1 AAAAA-ATTAAATAAAAATAC
55056 TTTTTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACC
Found at i:57862 original size:12 final size:12
Alignment explanation
Indices: 57845--57873 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
57835 CCAGAACCAT
57845 ACACCCACCTAC
1 ACACCCACCTAC
57857 ACACCCACCTAC
1 ACACCCACCTAC
57869 ACACC
1 ACACC
57874 AAGTAAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.59, G:0.00, T:0.07
Consensus pattern (12 bp):
ACACCCACCTAC
Done.