Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_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: 2426039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 13
Found at i:205617 original size:20 final size:20
Alignment explanation
Indices: 205592--205745 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
205582 GCTTTAATAT
205592 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
205612 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
205634 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
205653 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
205673 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
205693 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
205713 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
205733 CGCGTTGCGATTT
1 CGCGTTGCGATTT
205746 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:205719 original size:40 final size:40
Alignment explanation
Indices: 205591--205745 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
205581 CGCTTTAATA
*
205591 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
205632 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
205672 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
205712 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
205746 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:205762 original size:21 final size:21
Alignment explanation
Indices: 205738--205788 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
205728 ATATTCGCGT
205738 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGCAA
* * ** *
205759 TGCGAATTTGTACTATCGCAT
1 TGCGATTTTGGAAAATCGCAA
205780 TGCGATTTT
1 TGCGATTTT
205789 CAGAATTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (21 bp):
TGCGATTTTGGAAAATCGCAA
Found at i:206111 original size:15 final size:16
Alignment explanation
Indices: 206056--206099 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
206046 ACAAAGCCTC
206056 TGAATCATTCAGCAAT
1 TGAATCATTCAGCAAT
*
206072 TGAATCATTCAG-TAT
1 TGAATCATTCAGCAAT
206087 TGAATCATTCAGC
1 TGAATCATTCAGC
206100 GCTTAATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (16 bp):
TGAATCATTCAGCAAT
Found at i:210214 original size:21 final size:23
Alignment explanation
Indices: 210174--210215 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
210164 GATCTCTCTG
*
210174 ATTTTCTCTCTCTATTTTCTTCT
1 ATTTTCTATCTCTATTTTCTTCT
210197 ATTTTCTATCT-T-TTTTCTT
1 ATTTTCTATCTCTATTTTCTT
210216 TTATAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (23 bp):
ATTTTCTATCTCTATTTTCTTCT
Found at i:213229 original size:29 final size:30
Alignment explanation
Indices: 213171--213240 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
213161 AACAGTCTCT
* *
213171 AAACTTTTAAAATATTTGTATTTTAGTCATC
1 AAACTTTT-AAATATTTGTATTATAATCATC
*
213202 AAACTTTTAAA-ATTTGTATTATAATCATT
1 AAACTTTTAAATATTTGTATTATAATCATC
213231 AAACTTTTAA
1 AAACTTTTAA
213241 TTTATTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 25 0.69
30 3 0.08
31 8 0.22
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (30 bp):
AAACTTTTAAATATTTGTATTATAATCATC
Found at i:213501 original size:55 final size:55
Alignment explanation
Indices: 213405--213516 Score: 143
Period size: 55 Copynumber: 2.0 Consensus size: 55
213395 AAGAAGGTTG
* * * *
213405 TAGAACGTAATCACTTATCCAAACTAAAATATTATTATAACATTGACAAACATAA
1 TAGAACCTAACCACTTATCCAAACTAAAATATTATCATAACATTGACAAAAATAA
* * * * *
213460 TAGAACCTAACCATTTATCCAAGCTAAGATGTTATCGTAACATTGACAAAAATAA
1 TAGAACCTAACCACTTATCCAAACTAAAATATTATCATAACATTGACAAAAATAA
213515 TA
1 TA
213517 TTTATATTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (55 bp):
TAGAACCTAACCACTTATCCAAACTAAAATATTATCATAACATTGACAAAAATAA
Found at i:214395 original size:24 final size:23
Alignment explanation
Indices: 214368--214419 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
214358 ACCCTAAATA
*
214368 AACACATTTATAAACATATAAACG
1 AACACATTTACAAACAT-TAAACG
* * *
214392 AACACGTTTACGAACATTAAAGG
1 AACACATTTACAAACATTAAACG
214415 AACAC
1 AACAC
214420 GTTCGTGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (23 bp):
AACACATTTACAAACATTAAACG
Found at i:214435 original size:23 final size:23
Alignment explanation
Indices: 214380--214435 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
214370 CACATTTATA
*
214380 AACATATAAACGAACACGTTTACG
1 AACA-ATAAACGAACACGTTCACG
* * **
214404 AACATTAAAGGAACACGTTCGTG
1 AACAATAAACGAACACGTTCACG
214427 AACAATAAA
1 AACAATAAA
214436 TAATCGAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (23 bp):
AACAATAAACGAACACGTTCACG
Found at i:215610 original size:19 final size:20
Alignment explanation
Indices: 215563--215610 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
215553 ATATCCGTTA
215563 ATTTAGATT-TTTTATTAAT
1 ATTTAGATTATTTTATTAAT
*
215582 ATTTATATTATTTT-TTAAT
1 ATTTAGATTATTTTATTAAT
215601 -TTGTAGATTA
1 ATT-TAGATTA
215611 AATTGTATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 19 0.76
20 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
ATTTAGATTATTTTATTAAT
Found at i:221054 original size:15 final size:15
Alignment explanation
Indices: 221034--221067 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
221024 TATTTCTAAA
* *
221034 ATTTCTCTTTTCAAT
1 ATTTCTATTTACAAT
221049 ATTTCTATTTACAAT
1 ATTTCTATTTACAAT
221064 ATTT
1 ATTT
221068 TTTGGCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTCTATTTACAAT
Found at i:223563 original size:25 final size:26
Alignment explanation
Indices: 223535--223592 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
223525 GAGCTGCTCA
*
223535 CGAGCTTCAGTTCAT-GATTTCGAGT
1 CGAGCTCCAGTTCATAGATTTCGAGT
* *
223560 CGAGCTCCATTTCATAGTTTTCGAGT
1 CGAGCTCCAGTTCATAGATTTCGAGT
223586 CGAGCTC
1 CGAGCTC
223593 AGCAATACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
CGAGCTCCAGTTCATAGATTTCGAGT
Found at i:226791 original size:16 final size:16
Alignment explanation
Indices: 226756--226793 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
226746 GTTGACCTTA
226756 AAATTTAAAGGTTGCTC
1 AAATTTAAA-GTTGCTC
226773 AAATTTAAA-TTGACTC
1 AAATTTAAAGTTG-CTC
226789 AAATT
1 AAATT
226794 GATCCGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 8 0.40
17 9 0.45
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (16 bp):
AAATTTAAAGTTGCTC
Found at i:227511 original size:77 final size:77
Alignment explanation
Indices: 227418--227585 Score: 327
Period size: 77 Copynumber: 2.2 Consensus size: 77
227408 TTAAATAAAT
227418 AATTTGTGAGCCACTAATGCTCGGGTGTTAAGTTGTCAATCTGCTTCAATTTTCTTGCAAAGACA
1 AATTTGTGAGCCACTAATGCTCGGGTGTTAAGTTGTCAATCTGCTTCAATTTTCTTGCAAAGACA
227483 ACTAAATCAACC
66 ACTAAATCAACC
*
227495 AATTTGTGAGCCACTAATGCTCGGGTGTTAAGTTGTCAATCTGCTTCAATTTTCTTGCAAAGCCA
1 AATTTGTGAGCCACTAATGCTCGGGTGTTAAGTTGTCAATCTGCTTCAATTTTCTTGCAAAGACA
227560 ACTAAATCAACC
66 ACTAAATCAACC
227572 AATTTGTGAGCCAC
1 AATTTGTGAGCCAC
227586 ATTGCTTGCT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 90 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (77 bp):
AATTTGTGAGCCACTAATGCTCGGGTGTTAAGTTGTCAATCTGCTTCAATTTTCTTGCAAAGACA
ACTAAATCAACC
Found at i:229187 original size:17 final size:17
Alignment explanation
Indices: 229167--229202 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
229157 AGGTCAACGA
*
229167 TCAACGGTCGGGTCGGG
1 TCAACGGACGGGTCGGG
229184 TCAACGGACGGGTCGGG
1 TCAACGGACGGGTCGGG
229201 TC
1 TC
229203 GGGTCAGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.25, G:0.44, T:0.17
Consensus pattern (17 bp):
TCAACGGACGGGTCGGG
Found at i:236504 original size:19 final size:19
Alignment explanation
Indices: 236480--236520 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
236470 GAGTCGGACG
*
236480 GGTC-AAACCGGTTCAGACC
1 GGTCAAAACCGG-TCAAACC
236499 GGTCAAAACCGGTCAAACC
1 GGTCAAAACCGGTCAAACC
236518 GGT
1 GGT
236521 TTTCAGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (19 bp):
GGTCAAAACCGGTCAAACC
Found at i:236509 original size:10 final size:9
Alignment explanation
Indices: 236480--236520 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
236470 GAGTCGGACG
236480 GGTCAAACC
1 GGTCAAACC
*
236489 GGTTCAGACC
1 GG-TCAAACC
236499 GGTCAAAACC
1 GGTC-AAACC
236509 GGTCAAACC
1 GGTCAAACC
236518 GGT
1 GGT
236521 TTTCAGCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:238401 original size:18 final size:18
Alignment explanation
Indices: 238378--238419 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
238368 ACCCATAGTA
238378 AAAATCCCGTAAAATTTT
1 AAAATCCCGTAAAATTTT
* *
238396 AAAATCTCTTAAAATTTT
1 AAAATCCCGTAAAATTTT
238414 AAAATC
1 AAAATC
238420 TTTTAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAATCCCGTAAAATTTT
Found at i:238407 original size:10 final size:9
Alignment explanation
Indices: 238387--238428 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
238377 AAAAATCCCG
238387 TAAAAT-TT
1 TAAAATCTT
238395 TAAAATCTCT
1 TAAAATCT-T
238405 TAAAAT-TT
1 TAAAATCTT
238413 TAAAATCTTT
1 TAAAATC-TT
238423 TAAAAT
1 TAAAAT
238429 GTGTATAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 13 0.43
9 2 0.07
10 15 0.50
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (9 bp):
TAAAATCTT
Found at i:238420 original size:18 final size:18
Alignment explanation
Indices: 238387--238428 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
238377 AAAAATCCCG
238387 TAAAATTTTAAAATCTCT
1 TAAAATTTTAAAATCTCT
*
238405 TAAAATTTTAAAATCTTT
1 TAAAATTTTAAAATCTCT
238423 TAAAAT
1 TAAAAT
238429 GTGTATAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAATTTTAAAATCTCT
Found at i:240387 original size:30 final size:30
Alignment explanation
Indices: 240353--240446 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
240343 ATAGGAGAAA
* *
240353 ATGAATATGTGATATGTGAAAGTGAATTAT
1 ATGAAAATGTGATATGTGAAAGTGAACTAT
* * * * *
240383 ATGAAAATGTGTTACGTGCAAGTGAACCAC
1 ATGAAAATGTGATATGTGAAAGTGAACTAT
240413 ATGATTAAATGTGATATGTGAAAGTGAACTAT
1 ATGA--AAATGTGATATGTGAAAGTGAACTAT
240445 AT
1 AT
240447 ATATGAATAT
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 27 0.54
32 23 0.46
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.32
Consensus pattern (30 bp):
ATGAAAATGTGATATGTGAAAGTGAACTAT
Found at i:240806 original size:15 final size:15
Alignment explanation
Indices: 240786--240815 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
240776 GTGAATGATA
*
240786 TAATAAGAAGCTATG
1 TAATAAGAAGATATG
240801 TAATAAGAAGATATG
1 TAATAAGAAGATATG
240816 GTTTATGTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.20, T:0.27
Consensus pattern (15 bp):
TAATAAGAAGATATG
Found at i:241212 original size:31 final size:31
Alignment explanation
Indices: 241110--241263 Score: 127
Period size: 32 Copynumber: 4.9 Consensus size: 31
241100 GTCGAGGGTT
* * * **
241110 TACCTATGTTCTACGGAAAATATGGACAAAA
1 TACCTATGTTCTTCGGGACATATGGACATTA
*
241141 TTACCTATG-TCTTTCGGGACATATGAACA-TA
1 -TACCTATGTTC-TTCGGGACATATGGACATTA
241172 GTTACCTATG-TCTTTCGGGACATATGGACATTA
1 --TACCTATGTTC-TTCGGGACATATGGACATTA
** *
241205 TACCTATGTTCTAAGGAACATATGGACAGTT-
1 TACCTATGTTCTTCGGGACATATGGACA-TTA
* *
241236 TACCTAGGTTCTTCGGGACCTATGGACA
1 TACCTATGTTCTTCGGGACATATGGACA
241264 GTTGCCGAGG
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
31 48 0.47
32 53 0.51
33 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTTCGGGACATATGGACATTA
Found at i:241264 original size:31 final size:32
Alignment explanation
Indices: 241185--241266 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 32
241175 ACCTATGTCT
*
241185 TTCGGGACATATGGACA-TTATACCTATGTTC
1 TTCGGGACATATGGACAGTTATACCTAGGTTC
** *
241216 TAAGGAACATATGGACAGTT-TACCTAGGTTC
1 TTCGGGACATATGGACAGTTATACCTAGGTTC
*
241247 TTCGGGACCTATGGACAGTT
1 TTCGGGACATATGGACAGTT
241267 GCCGAGGTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 40 0.95
32 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (32 bp):
TTCGGGACATATGGACAGTTATACCTAGGTTC
Found at i:241286 original size:30 final size:31
Alignment explanation
Indices: 241225--241289 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
241215 CTAAGGAACA
* *
241225 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAGTTTACCGAGGTTCTTCAGGACC
* * *
241256 TATGGACAG-TTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTTACCGAGGTTCTTCAGGACC
241286 TATG
1 TATG
241290 AATAGGTCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 20 0.69
31 9 0.31
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTCAGGACC
Found at i:241956 original size:2 final size:2
Alignment explanation
Indices: 241949--241974 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
241939 GTTTTAAACG
241949 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
241975 AAATGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:244560 original size:30 final size:30
Alignment explanation
Indices: 244526--244619 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
244516 ATAGGAGAAA
* *
244526 ATGAATATGTGATATGTGAAAGTGAATTAT
1 ATGAAAATGTGATATGTGAAAGTGAACTAT
* * * * *
244556 ATGAAAATGTGTTACGTGCAAGTGAACCAC
1 ATGAAAATGTGATATGTGAAAGTGAACTAT
*
244586 ATGATTAAATGTGATATGTGAAAATGAACTAT
1 ATGA--AAATGTGATATGTGAAAGTGAACTAT
244618 AT
1 AT
244620 ATATATGAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
30 27 0.55
32 22 0.45
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.32
Consensus pattern (30 bp):
ATGAAAATGTGATATGTGAAAGTGAACTAT
Found at i:245347 original size:32 final size:32
Alignment explanation
Indices: 245306--245429 Score: 89
Period size: 32 Copynumber: 3.9 Consensus size: 32
245296 ATTCGAGGGT
245306 TTACCTATGTTCCACGGAACATATGGACATAA
1 TTACCTATGTTCCACGGAACATATGGACATAA
** *
245338 TTACCTATG-TCTTTC-GAGACAAATGGACATAA
1 TTACCTATGTTC-CACGGA-ACATATGGACATAA
* * *
245370 TTACCTATGTCTTTC-TGG-ACATATAGACAGT-A
1 TTACCTATG--TTCCACGGAACATATGGACA-TAA
* *
245402 -TACCTATGTTCTAAGGAACATATGGACA
1 TTACCTATGTTCCACGGAACATATGGACA
245430 GTTTACCTAG
Statistics
Matches: 71, Mismatches: 12, Indels: 19
0.70 0.12 0.19
Matches are distributed among these distances:
29 2 0.03
30 2 0.03
31 22 0.31
32 42 0.59
33 1 0.01
34 1 0.01
35 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (32 bp):
TTACCTATGTTCCACGGAACATATGGACATAA
Found at i:246357 original size:14 final size:14
Alignment explanation
Indices: 246324--246368 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
246314 TTACTGTTCG
*
246324 CGGTACTGTTTATA
1 CGGTACTGTTCATA
246338 --GTACTGTTCATA
1 CGGTACTGTTCATA
246350 CGGTACTGTTCATA
1 CGGTACTGTTCATA
*
246364 TGGTA
1 CGGTA
246369 TTTTAAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 11 0.41
14 16 0.59
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (14 bp):
CGGTACTGTTCATA
Found at i:249168 original size:15 final size:15
Alignment explanation
Indices: 249148--249177 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
249138 GTGAATGATA
*
249148 TAATAAGAAGCTATG
1 TAATAAGAAGATATG
249163 TAATAAGAAGATATG
1 TAATAAGAAGATATG
249178 GGTTTATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.20, T:0.27
Consensus pattern (15 bp):
TAATAAGAAGATATG
Found at i:249518 original size:32 final size:32
Alignment explanation
Indices: 249477--249581 Score: 133
Period size: 32 Copynumber: 3.3 Consensus size: 32
249467 AGTCGAGGGT
*
249477 TTACCTATGT-TCTACGGAACATATGGACAGAA
1 TTACCTATGTCT-TACGGGACATATGGACAGAA
* * *
249509 TTACCTATGTCTTTCGGGACATATGGATAAAA
1 TTACCTATGTCTTACGGGACATATGGACAGAA
* *
249541 TTACCTATGTCTTTCGGGACATATGGACAGTA
1 TTACCTATGTCTTACGGGACATATGGACAGAA
249573 -TACCTATGT
1 TTACCTATGT
249582 TCTAAGGTGT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
31 9 0.14
32 55 0.85
33 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (32 bp):
TTACCTATGTCTTACGGGACATATGGACAGAA
Found at i:250965 original size:24 final size:24
Alignment explanation
Indices: 250933--250989 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
250923 AAACCACGTA
250933 GATATGATTTATGAGAGTATAAGT
1 GATATGATTTATGAGAGTATAAGT
*
250957 GATAAGATTTATGAGAGTATAAGT
1 GATATGATTTATGAGAGTATAAGT
250981 GATATGATT
1 GATATGATT
250990 GCAAGATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.37
Consensus pattern (24 bp):
GATATGATTTATGAGAGTATAAGT
Found at i:251206 original size:18 final size:18
Alignment explanation
Indices: 251183--251256 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
251173 GTTTTTAAGG
251183 AGTGGTCCTTCGAGACAT
1 AGTGGTCCTTCGAGACAT
* * *
251201 AGTGGTCATTCGGGATAAAT
1 AGTGGTCCTTC--GAGACAT
*
251221 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGAGACAT
*
251240 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGAGACA
251257 AATATACAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
18 27 0.59
19 4 0.09
20 5 0.11
21 10 0.22
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGAGACAT
Found at i:251239 original size:39 final size:39
Alignment explanation
Indices: 251183--251259 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
251173 GTTTTTAAGG
*
251183 AGTGGTCCTTCGAGACATAGTGGTCATTCGGGATAAATC
1 AGTGGTCCTTCGAGACATAGTGGTCATTCGGGACAAATC
* *
251222 AGTGGTCCTTCGGGACATAGTGGTCCTTCGGGACAAAT
1 AGTGGTCCTTCGAGACATAGTGGTCATTCGGGACAAAT
251260 ATACAGTGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (39 bp):
AGTGGTCCTTCGAGACATAGTGGTCATTCGGGACAAATC
Found at i:256430 original size:12 final size:12
Alignment explanation
Indices: 256413--256448 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
256403 AATGTGCATC
256413 GATGCATTAAGG
1 GATGCATTAAGG
256425 GATGCATTAAGG
1 GATGCATTAAGG
*
256437 GAAGCATTAAGG
1 GATGCATTAAGG
256449 AAATTAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.33, T:0.22
Consensus pattern (12 bp):
GATGCATTAAGG
Found at i:256732 original size:25 final size:23
Alignment explanation
Indices: 256678--256735 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 23
256668 ATAAGTCTAG
256678 ATTCAATATTTGATACATGATGAC
1 ATTC-ATATTTGATACATGATGAC
256702 ATTTCATATTATGATACATGACATGA-
1 A-TTCATATT-TGATACATG--ATGAC
256728 ATTCATAT
1 ATTCATAT
256736 CATATGCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 6 0.20
25 19 0.63
26 1 0.03
27 4 0.13
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (23 bp):
ATTCATATTTGATACATGATGAC
Found at i:263816 original size:25 final size:24
Alignment explanation
Indices: 263761--263819 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 24
263751 ATAAGTCTAG
*
263761 ATTCAATATTTTGATACATGATGAC
1 ATTC-ATATTATGATACATGATGAC
263786 ATTTCATATTATGATACATGACATGA-
1 A-TTCATATTATGATACATG--ATGAC
263812 ATTCATAT
1 ATTCATAT
263820 CATATGCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 22 0.73
26 4 0.13
27 4 0.13
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (24 bp):
ATTCATATTATGATACATGATGAC
Found at i:264048 original size:21 final size:21
Alignment explanation
Indices: 264014--264063 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
264004 ATTCTACGTG
* * *
264014 GTCTTTCGGGACATATATGTA
1 GTCTTTTGGAACATATATGAA
* *
264035 TTCTTTTGGAACATGTATGAA
1 GTCTTTTGGAACATATATGAA
264056 GTCTTTTG
1 GTCTTTTG
264064 AGACACCTAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (21 bp):
GTCTTTTGGAACATATATGAA
Found at i:264166 original size:23 final size:23
Alignment explanation
Indices: 264140--264224 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
264130 CATATTATAC
*
264140 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGT
* * *
264163 GGCACTTTGGTGCATTTCTACGC
1 GGCACTTCGGTGCAATTCTACGT
*
264186 GGTC-CTTCGG-GACAAATTCTATGT
1 GG-CACTTCGGTG-C-AATTCTACGT
264210 GGCACTTCGGTGCAA
1 GGCACTTCGGTGCAA
264225 ATTTATACGA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 1 0.02
23 30 0.61
24 17 0.35
25 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGT
Found at i:274972 original size:13 final size:13
Alignment explanation
Indices: 274941--274979 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
274931 AATACGACGA
274941 TTTTATT-TTTAT
1 TTTTATTATTTAT
274953 TTTTATTATTT-T
1 TTTTATTATTTAT
274965 TCTTTATTATTTAT
1 T-TTTATTATTTAT
274979 T
1 T
274980 AAGATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.38
13 13 0.54
14 2 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:278090 original size:15 final size:15
Alignment explanation
Indices: 278058--278105 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
278048 GTATTTAGTA
*
278058 GGCAGGCGGATGTGG
1 GGCAGGCGGATGCGG
* *
278073 GGCATGCGGATGCAG
1 GGCAGGCGGATGCGG
*
278088 GGCGGGCGGATGCGG
1 GGCAGGCGGATGCGG
278103 GGC
1 GGC
278106 GAGTAAGGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.12, C:0.19, G:0.58, T:0.10
Consensus pattern (15 bp):
GGCAGGCGGATGCGG
Found at i:279143 original size:3 final size:3
Alignment explanation
Indices: 279135--279206 Score: 101
Period size: 3 Copynumber: 23.7 Consensus size: 3
279125 GTAATTTTTG
**
279135 TAA TAA TAAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTG TAA
1 TAA TAA T-AA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
279182 T-A TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
279207 TATAGTCTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.03
3 54 0.87
4 6 0.10
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:287798 original size:38 final size:38
Alignment explanation
Indices: 287717--287798 Score: 87
Period size: 38 Copynumber: 2.1 Consensus size: 38
287707 GTGGCGTTTT
* **
287717 TTTTATAAACGCCGCAAAATATGTGATGTAGTGGCCTTT
1 TTTT-TAAACGCCGCAAAATATGTAATGTAGTGGCCTCA
*
287756 TTTTTAAACGCCGCAAAATGT-TAAATGTA-TGGTCCTCA
1 TTTTTAAACGCCGCAAAATATGT-AATGTAGTGG-CCTCA
287794 TTTTT
1 TTTTT
287799 CTCCTACCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
37 4 0.11
38 29 0.78
39 4 0.11
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (38 bp):
TTTTTAAACGCCGCAAAATATGTAATGTAGTGGCCTCA
Found at i:292541 original size:21 final size:21
Alignment explanation
Indices: 292515--292565 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
292505 CTTGCCCTTT
292515 CGGCGTTTGTACAAAATTTAG
1 CGGCGTTTGTACAAAATTTAG
292536 CGGCGTTTGTACAAAATTTAG
1 CGGCGTTTGTACAAAATTTAG
292557 CGGCGTTTG
1 CGGCGTTTG
292566 ATCTTATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (21 bp):
CGGCGTTTGTACAAAATTTAG
Found at i:298488 original size:44 final size:44
Alignment explanation
Indices: 298401--298514 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 44
298391 ATTCTGTGTT
*
298401 ATTTAGCGGCGTTTGTA-A--AAAAACACTGCAATATACCATAC
1 ATTTAGCGGCGTTTGTATACTAAAAACGCTGCAATATACCATAC
* * *
298442 ATTTAGCGGCGTTTGTATACTAGAAACGTTGCAATATACTATAC
1 ATTTAGCGGCGTTTGTATACTAAAAACGCTGCAATATACCATAC
* * *
298486 ATTAAGCGGCGTTTTTATACTATAAACGC
1 ATTTAGCGGCGTTTGTATACTAAAAACGC
298515 CGATAATTCT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 17 0.27
42 1 0.02
44 44 0.71
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (44 bp):
ATTTAGCGGCGTTTGTATACTAAAAACGCTGCAATATACCATAC
Found at i:298725 original size:42 final size:44
Alignment explanation
Indices: 298679--298786 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 44
298669 GTTTTTAAGT
298679 AAAACGCCGCTAAATC-TCAACACCTACTGC-G-GTATTTTCCT-A
1 AAAACGCCGCTAAATCATCAACACCTACTGCGGCGTA-TTT-CTGA
*
298721 AAAACGCCGCTAAA-CATCAACACCTATTGCGGCGTATTTCTGA
1 AAAACGCCGCTAAATCATCAACACCTACTGCGGCGTATTTCTGA
* *
298764 CAAACGCCGCTAAAT-AACAACAC
1 AAAACGCCGCTAAATCATCAACAC
298787 TTATTGGCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
41 1 0.02
42 29 0.50
43 25 0.43
44 3 0.05
ACGTcount: A:0.35, C:0.31, G:0.13, T:0.21
Consensus pattern (44 bp):
AAAACGCCGCTAAATCATCAACACCTACTGCGGCGTATTTCTGA
Found at i:298785 original size:43 final size:42
Alignment explanation
Indices: 298593--298792 Score: 149
Period size: 43 Copynumber: 4.7 Consensus size: 42
298583 CGCTTTTGGG
* * **
298593 GAAAACGCCGCTAAA-AACATCACCTATTGCGGCGT-TTGTGG
1 GAAAACGCCGCTAAATATCAACACCTATTGCGGCGTATT-TCT
* * * * * **
298634 GAAAATCGTCGCAAAATATCAAAACCTATTG-TGCTGTTTTTAA
1 GAAAA-CGCCGCTAAATATCAACACCTATTGCGGC-GTATTTCT
* *
298677 GTAAAACGCCGCTAAATCTCAACACCTACTGC-G-GTATTTTCCT
1 G-AAAACGCCGCTAAATATCAACACCTATTGCGGCGTA-TTT-CT
* *
298720 AAAAACGCCGCTAAACATCAACACCTATTGCGGCGTATTTCT
1 GAAAACGCCGCTAAATATCAACACCTATTGCGGCGTATTTCT
* *
298762 GACAAACGCCGCTAAATAACAACACTTATTG
1 GA-AAACGCCGCTAAATATCAACACCTATTG
298793 GCAAACGCTG
Statistics
Matches: 124, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
41 7 0.06
42 43 0.35
43 65 0.52
44 9 0.07
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
GAAAACGCCGCTAAATATCAACACCTATTGCGGCGTATTTCT
Found at i:299405 original size:32 final size:32
Alignment explanation
Indices: 299336--299407 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
299326 TTTTATGTGA
* * *
299336 TAAATGTTTTTAATTATTCGATAATAAATGCT
1 TAAATATTTTTAATTATTCAATAATAAACGCT
*
299368 TAAATATTTTTAATTATTTAATAATAAACG-T
1 TAAATATTTTTAATTATTCAATAATAAACGCT
299399 TCAAATATT
1 T-AAATATT
299408 CTTACAGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (32 bp):
TAAATATTTTTAATTATTCAATAATAAACGCT
Found at i:309431 original size:6 final size:6
Alignment explanation
Indices: 309420--309495 Score: 125
Period size: 6 Copynumber: 12.7 Consensus size: 6
309410 ATATTTGGTA
* * *
309420 ATATGT ATATGT ATGTAT ATATAT ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
309468 ATATAT ATATAT ATATAT ATATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATAT
309496 GGAGTGAAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:309434 original size:10 final size:10
Alignment explanation
Indices: 309420--309495 Score: 125
Period size: 10 Copynumber: 7.6 Consensus size: 10
309410 ATATTTGGTA
*
309420 ATATGTATAT
1 ATATATATAT
* *
309430 GTATGTATAT
1 ATATATATAT
309440 ATATATATAT
1 ATATATATAT
309450 ATATATATAT
1 ATATATATAT
309460 ATATATATAT
1 ATATATATAT
309470 ATATATATAT
1 ATATATATAT
309480 ATATATATAT
1 ATATATATAT
309490 ATATAT
1 ATATAT
309496 GGAGTGAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 63 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (10 bp):
ATATATATAT
Found at i:309442 original size:4 final size:4
Alignment explanation
Indices: 309420--309495 Score: 125
Period size: 4 Copynumber: 19.0 Consensus size: 4
309410 ATATTTGGTA
* * *
309420 ATAT GTAT ATGT ATGT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
309468 ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT
309496 GGAGTGAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 68 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:314948 original size:42 final size:42
Alignment explanation
Indices: 314901--315016 Score: 205
Period size: 42 Copynumber: 2.8 Consensus size: 42
314891 TTTCCCTGAA
* *
314901 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAACATT
*
314943 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAACATT
314985 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCC
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCC
315017 AGAATGTAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.47
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAACATT
Found at i:315252 original size:17 final size:17
Alignment explanation
Indices: 315230--315304 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 17
315220 ATATATTTAT
*
315230 TAATATTTATAATAATA
1 TAATATATATAATAATA
**
315247 TAATATATATTTTAATA
1 TAATATATATAATAATA
*
315264 T--TATATAAAATAATCA
1 TAATATATATAATAAT-A
*
315280 -ATTATATTATAATAATA
1 TAATATA-TATAATAATA
*
315297 TAAGATAT
1 TAATATAT
315305 TATATTTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
15 10 0.23
16 1 0.02
17 21 0.48
18 12 0.27
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
TAATATATATAATAATA
Found at i:315261 original size:29 final size:29
Alignment explanation
Indices: 315198--315384 Score: 91
Period size: 31 Copynumber: 6.7 Consensus size: 29
315188 CAACAAAATA
* *
315198 TTAATTATTTA-AATAATTTAAAATATATTT
1 TTAA-TATTTATAATAATATAATATATA-TT
315228 ATTAATATTTATAATAATATAATATATATT
1 -TTAATATTTATAATAATATAATATATATT
* *
315258 TTAATA-TTAT-ATAAAATAAT-CA-A--
1 TTAATATTTATAATAATATAATATATATT
315281 TT-ATA-TTATAATAATATAAGATATTATATT
1 TTAATATTTATAATAATAT-A-ATA-TATATT
* * *
315311 TTTAT-TTTAATAAT-ATATAAT-TTTTTT
1 TTAATATTT-ATAATAATATAATATATATT
*
315338 TTATATATTTAATAATGA-ATAATAT-TA-T
1 TTA-ATATTT-ATAATAATATAATATATATT
*
315366 TTATATATTT-CAATAATAT
1 TTA-ATATTTATAATAATAT
315385 TTTAGTAAAG
Statistics
Matches: 127, Mismatches: 12, Indels: 38
0.72 0.07 0.21
Matches are distributed among these distances:
22 7 0.06
23 8 0.06
24 1 0.01
25 3 0.02
26 5 0.04
27 18 0.14
28 18 0.14
29 23 0.18
30 13 0.10
31 26 0.20
32 5 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (29 bp):
TTAATATTTATAATAATATAATATATATT
Found at i:315286 original size:32 final size:31
Alignment explanation
Indices: 315196--315297 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 31
315186 TTCAACAAAA
* *
315196 TATTAATTATTTA-AATAATTTAAAATATATT
1 TATTAA-TATTTATAATAATATAATATATATT
315227 TATTAATATTTATAATAATATAATATATA-T
1 TATTAATATTTATAATAATATAATATATATT
315257 T-TTAATATTATATAA-AATAATCAAT-TATATT
1 TATTAATATT-TATAATAAT-AT-AATATATATT
*
315288 ATAATAATAT
1 -TATTAATAT
315298 AAGATATTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
29 11 0.18
30 19 0.31
31 24 0.39
32 1 0.02
33 6 0.10
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
TATTAATATTTATAATAATATAATATATATT
Found at i:315328 original size:24 final size:21
Alignment explanation
Indices: 315296--315340 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 21
315286 TTATAATAAT
315296 ATAAGATATTATATTTTTATTTTA
1 ATAAGATA-TA-ATTTTT-TTTTA
*
315320 ATAATATATAATTTTTTTTTA
1 ATAAGATATAATTTTTTTTTA
315341 TATATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 6 0.30
23 2 0.10
24 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATAAGATATAATTTTTTTTTA
Found at i:315576 original size:20 final size:20
Alignment explanation
Indices: 315551--315617 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
315541 TTCCAGATGG
315551 TTTCCAGAAATGTAATTCAT
1 TTTCCAGAAATGTAATTCAT
315571 TTTCCAGAAATGTAATTCAT
1 TTTCCAGAAATGTAATTCAT
*
315591 TTTACAGAAATGTAATTCAT
1 TTTCCAGAAATGTAATTCAT
315611 TTTCCAG
1 TTTCCAG
315618 TAATTCATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTCCAGAAATGTAATTCAT
Found at i:315622 original size:15 final size:15
Alignment explanation
Indices: 315602--315674 Score: 110
Period size: 15 Copynumber: 4.9 Consensus size: 15
315592 TTACAGAAAT
315602 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
315617 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
315632 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
**
315647 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
315662 GTAATTCATTTTC
1 GTAATTCATTTTC
315675 TGGAAAACCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 54 1.00
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:318183 original size:18 final size:18
Alignment explanation
Indices: 318130--318184 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
318120 TTGAAATATT
* *
318130 TATGAATGAATTAAAATA
1 TATGAATGAATTGAAATC
*
318148 TATGAAAT-AATTGGAATC
1 TATG-AATGAATTGAAATC
*
318166 TATGAATGAATCGAAATC
1 TATGAATGAATTGAAATC
318184 T
1 T
318185 GAAGGAATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.10
18 24 0.80
19 3 0.10
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (18 bp):
TATGAATGAATTGAAATC
Found at i:318907 original size:24 final size:24
Alignment explanation
Indices: 318879--318935 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
318869 TCATGTTATG
318879 GATGAAATTTACTTTCCCTCCCTT
1 GATGAAATTTACTTTCCCTCCCTT
* *
318903 GATGAAATTTATTTTCCCTCCTTT
1 GATGAAATTTACTTTCCCTCCCTT
318927 GATGAAATT
1 GATGAAATT
318936 GGATTTCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.44
Consensus pattern (24 bp):
GATGAAATTTACTTTCCCTCCCTT
Found at i:319868 original size:29 final size:29
Alignment explanation
Indices: 319830--319886 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
319820 TCTCTTGATC
*
319830 TTTAAATTTGGATGAGTGTAGTAATCTTT
1 TTTAAATTTGGATGAGTGTAATAATCTTT
*
319859 TTTAAGTTTGGATGAGTGTAATAATCTT
1 TTTAAATTTGGATGAGTGTAATAATCTT
319887 CTTCAAGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (29 bp):
TTTAAATTTGGATGAGTGTAATAATCTTT
Found at i:319894 original size:29 final size:29
Alignment explanation
Indices: 319836--319894 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
319826 GATCTTTAAA
* * *
319836 TTTGGATGAGTGTAGTAATCTTTTTTAAG
1 TTTGGATGAGTGTAATAATCTTCTTCAAG
319865 TTTGGATGAGTGTAATAATCTTCTTCAAG
1 TTTGGATGAGTGTAATAATCTTCTTCAAG
319894 T
1 T
319895 GCTTTTGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (29 bp):
TTTGGATGAGTGTAATAATCTTCTTCAAG
Found at i:320124 original size:25 final size:24
Alignment explanation
Indices: 320088--320137 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
320078 TGATTGATCC
*
320088 TTTTTTACAAGAGATCTATCCTTT
1 TTTTTTAAAAGAGATCTATCCTTT
* *
320112 TTTTTTATAAAGAGATTTGTCCTTT
1 TTTTTTA-AAAGAGATCTATCCTTT
320137 T
1 T
320138 GAGAAAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (24 bp):
TTTTTTAAAAGAGATCTATCCTTT
Found at i:322889 original size:52 final size:52
Alignment explanation
Indices: 322827--322937 Score: 222
Period size: 52 Copynumber: 2.1 Consensus size: 52
322817 TTTCATGCAT
322827 AAATTTAACTTAATGAAATGTATAATTCTTTTTTATTTCATGGGATTTTAAA
1 AAATTTAACTTAATGAAATGTATAATTCTTTTTTATTTCATGGGATTTTAAA
322879 AAATTTAACTTAATGAAATGTATAATTCTTTTTTATTTCATGGGATTTTAAA
1 AAATTTAACTTAATGAAATGTATAATTCTTTTTTATTTCATGGGATTTTAAA
322931 AAATTTA
1 AAATTTA
322938 TTTGTTCTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (52 bp):
AAATTTAACTTAATGAAATGTATAATTCTTTTTTATTTCATGGGATTTTAAA
Found at i:323586 original size:16 final size:16
Alignment explanation
Indices: 323565--323596 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
323555 ATTTTATAAC
323565 TTTTAATAGTCAATAT
1 TTTTAATAGTCAATAT
323581 TTTTAATAGTCAATAT
1 TTTTAATAGTCAATAT
323597 ACTCAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TTTTAATAGTCAATAT
Found at i:323976 original size:12 final size:12
Alignment explanation
Indices: 323959--323985 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
323949 TTTAAAGAGG
323959 TTTTATATTTTA
1 TTTTATATTTTA
323971 TTTTATATTTTA
1 TTTTATATTTTA
323983 TTT
1 TTT
323986 GATTTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTATATTTTA
Found at i:323990 original size:17 final size:18
Alignment explanation
Indices: 323964--323997 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
323954 AGAGGTTTTA
*
323964 TATTTTATTTT-ATATTT
1 TATTTGATTTTAATATTT
323981 TATTTGATTTTAATATT
1 TATTTGATTTTAATATT
323998 AATTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TATTTGATTTTAATATTT
Found at i:324002 original size:12 final size:12
Alignment explanation
Indices: 323987--324094 Score: 89
Period size: 12 Copynumber: 8.8 Consensus size: 12
323977 ATTTTATTTG
323987 ATTTTAATATTA
1 ATTTTAATATTA
323999 ATTTTTAA-A-TA
1 A-TTTTAATATTA
* *
324010 AATTAAATATTA
1 ATTTTAATATTA
324022 ATTTTTTAATATTA
1 A--TTTTAATATTA
*
324036 TATTATAGATATTA
1 -ATTTTA-ATATTA
324050 ATTTTAATATTA
1 ATTTTAATATTA
324062 ATTTTTAA-A-TA
1 A-TTTTAATATTA
* *
324073 AATTAAATATTA
1 ATTTTAATATTA
324085 ATTTTAATAT
1 ATTTTAATAT
324095 ATATATAGAT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
10 8 0.11
11 8 0.11
12 23 0.30
13 21 0.28
14 15 0.20
15 1 0.01
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (12 bp):
ATTTTAATATTA
Found at i:324056 original size:63 final size:60
Alignment explanation
Indices: 323981--324115 Score: 218
Period size: 63 Copynumber: 2.2 Consensus size: 60
323971 TTTTATATTT
*
323981 TATTTGATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGA
1 TATTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAA--TTTTAATA-TATA-TATAGA
324045 TA-TTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTAATATATATATAGA
1 TATTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTAATATATATATAGA
324104 TATTTAATTTTA
1 TATTTAATTTTA
324116 TATCATATAA
Statistics
Matches: 69, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
59 8 0.12
60 13 0.19
61 8 0.12
63 38 0.55
64 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (60 bp):
TATTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTAATATATATATAGA
Found at i:324170 original size:20 final size:20
Alignment explanation
Indices: 324126--324177 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
324116 TATCATATAA
324126 ATTATTTTATA--TATTATT
1 ATTATTTTATATTTATTATT
** *
324144 AAAATTTTATATTTATTTTT
1 ATTATTTTATATTTATTATT
324164 ATTATTTT-TATTTA
1 ATTATTTTATATTTA
324178 AGTTTAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 9 0.33
19 6 0.22
20 12 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTATTTTATATTTATTATT
Found at i:324671 original size:31 final size:31
Alignment explanation
Indices: 324634--324693 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
324624 TAGTTGTATG
*
324634 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGTAAAACTAA
324665 AATTATTTAAATCTCAGTATTGTAAAACT
1 AATTATTTAAATCTCAGTATTGTAAAACT
324694 CTTTTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGTAAAACTAA
Found at i:326505 original size:21 final size:20
Alignment explanation
Indices: 326481--326522 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
326471 GTTATACAAC
*
326481 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
326502 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
326522 T
1 T
326523 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:331113 original size:17 final size:18
Alignment explanation
Indices: 331079--331114 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
331069 AAAATAGTAG
331079 TGACTAAAATGCAAACAGA
1 TGACTAAAAT-CAAACAGA
331098 TGACTAAAAT-AAACAGA
1 TGACTAAAATCAAACAGA
331115 AATTCGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.17
Consensus pattern (18 bp):
TGACTAAAATCAAACAGA
Found at i:331336 original size:29 final size:30
Alignment explanation
Indices: 331273--331373 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 30
331263 TTTAATGATC
*
331273 AAAATAGATAAAACAGAAACTTACATGG-CT
1 AAAATAGATAAAACAGAAACTTA-AAGGACT
*
331303 AAAATA-ATAAAACAGAAAGTTAAAGGACT
1 AAAATAGATAAAACAGAAACTTAAAGGACT
* * *
331332 GAAATAGCAT-AAACATG-AATTTACAGGACT
1 AAAATAG-ATAAAACA-GAAACTTAAAGGACT
331362 AAAATA-ATAAAA
1 AAAATAGATAAAA
331374 ATAGACATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
28 5 0.08
29 25 0.42
30 27 0.45
31 3 0.05
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (30 bp):
AAAATAGATAAAACAGAAACTTAAAGGACT
Found at i:332825 original size:3 final size:3
Alignment explanation
Indices: 332817--332872 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
332807 TATTTTAGGT
* **
332817 TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA -AA TAA CGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
332864 TAA TAA TAA
1 TAA TAA TAA
332873 CATAACGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:332857 original size:26 final size:26
Alignment explanation
Indices: 332828--332883 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
332818 AATAATAATA
332828 ATAATAATAAAAATAATAAAATAACG
1 ATAATAATAAAAATAATAAAATAACG
* *
332854 ATAATAATAATAATAATAACATAACG
1 ATAATAATAAAAATAATAAAATAACG
332880 ATAA
1 ATAA
332884 AAAAACCCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.25
Consensus pattern (26 bp):
ATAATAATAAAAATAATAAAATAACG
Found at i:333339 original size:28 final size:28
Alignment explanation
Indices: 333299--333379 Score: 112
Period size: 28 Copynumber: 2.9 Consensus size: 28
333289 GGAGTGGTGA
* *
333299 TTTCAAGAAAAACCGATTCAAAGATTTG
1 TTTCAAGAAAAACAGACTCAAAGATTTG
333327 TTTCAA-AAGAAACAGACTCAAAGATTTG
1 TTTCAAGAA-AAACAGACTCAAAGATTTG
333355 TTTCAAGAAAAACA-AGCTCAAAGAT
1 TTTCAAGAAAAACAGA-CTCAAAGAT
333380 AATGTGTTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
27 3 0.06
28 43 0.90
29 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.25
Consensus pattern (28 bp):
TTTCAAGAAAAACAGACTCAAAGATTTG
Found at i:333391 original size:31 final size:28
Alignment explanation
Indices: 333299--333394 Score: 99
Period size: 28 Copynumber: 3.3 Consensus size: 28
333289 GGAGTGGTGA
* *
333299 TTTCAAGAA-AAACCGATTCAAAGATTTG
1 TTTCAA-AAGAAACAGACTCAAAGATTTG
333327 TTTCAAAAGAAACAGACTCAAAGATTTG
1 TTTCAAAAGAAACAGACTCAAAGATTTG
333355 TTTCAAGAA-AAACA-AGCTCAAAGATAATGTG
1 TTTCAA-AAGAAACAGA-CTCAAAGAT--T-TG
333386 TTTCAAAAG
1 TTTCAAAAG
333395 CAACTGTCTC
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.05
28 43 0.73
29 2 0.03
30 3 0.05
31 8 0.14
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.26
Consensus pattern (28 bp):
TTTCAAAAGAAACAGACTCAAAGATTTG
Found at i:333585 original size:66 final size:63
Alignment explanation
Indices: 333396--333578 Score: 161
Period size: 66 Copynumber: 2.8 Consensus size: 63
333386 TTTCAAAAGC
* * * *
333396 AACTGTCTCGAAAGAGACAAAATTCGTTTCAAATGAAAC-AACTCAAAAGATGACGTTTAAAGGG
1 AACTGTCTC-AAAGAGACAAAATTCATTTCAAAGGAAACGATCTC-AAAGATGATGTTTAAAGGG
* * ** * * * * * * *
333460 AATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAAATATCGGTGTTTCATGG
1 AACTGTCTCAA-AGAGACAAAA-TTCATTTCAAAGGAAACGATCTCAAAGAT-GATGTTTAAAGG
333525 G
63 G
333526 AAACTGTCTCAAATGAGACAAAATTCATTTCAAAGGAAACGATCTCAAAGATG
1 -AACTGTCTCAAA-GAGACAAAATTCATTTCAAAGGAAACGATCTCAAAGATG
333579 TTTGTTTGTT
Statistics
Matches: 91, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
63 2 0.02
64 17 0.19
65 18 0.20
66 35 0.38
67 19 0.21
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (63 bp):
AACTGTCTCAAAGAGACAAAATTCATTTCAAAGGAAACGATCTCAAAGATGATGTTTAAAGGG
Found at i:333984 original size:31 final size:31
Alignment explanation
Indices: 333934--333994 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 31
333924 AAGGGAAACG
333934 ACTCAAAGATGGTTTTATTT-TAAGAGAAACAA
1 ACTCAAAGAT-GTTTTATTTCT-AGAGAAACAA
333966 ACTCAAAGAT-TTTGTATTTCTAGAGAAAC
1 ACTCAAAGATGTTT-TATTTCTAGAGAAAC
333995 TGCCTCAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 3 0.11
31 13 0.48
32 11 0.41
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (31 bp):
ACTCAAAGATGTTTTATTTCTAGAGAAACAA
Found at i:334050 original size:97 final size:95
Alignment explanation
Indices: 333859--334051 Score: 203
Period size: 97 Copynumber: 2.0 Consensus size: 95
333849 CCTTGTTTCT
**
333859 AGAGAAACAAACTCAAAGATGATCTTGTTTTAAGAGAAAATGTTTCAAGAGACAAAATTCGTTTC
1 AGAGAAACAAACTCAAAGAT-ATCTTGTTTTAAGAGAAAATGCCTCAAGAGACAAAATTCGTTTC
* *
333924 AAGGGAAACGACTCAAAGATGGTTTTATTTTA
65 AAGAGAAACGACTCAAAGATGG-TGTATTTTA
* * * *
333956 AGAGAAACAAACTCAAAGAT-T-TTGTATTTCTAGAGAAACTGCCTCAAGGAAGTCAAAATTTGT
1 AGAGAAACAAACTCAAAGATATCTTGT-TTT-AAGAGAAAATGCCTCAA-G-AGACAAAATTCGT
* * *
334019 TTTAATAGAAACGATCTCAAAGGTGG-GTATTTT
62 TTCAAGAGAAACGA-CTCAAAGATGGTGTATTTT
334052 CAAAAGAAGT
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
94 4 0.05
95 4 0.05
96 13 0.16
97 27 0.34
98 22 0.28
99 10 0.12
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (95 bp):
AGAGAAACAAACTCAAAGATATCTTGTTTTAAGAGAAAATGCCTCAAGAGACAAAATTCGTTTCA
AGAGAAACGACTCAAAGATGGTGTATTTTA
Found at i:334152 original size:68 final size:68
Alignment explanation
Indices: 334051--334180 Score: 201
Period size: 68 Copynumber: 1.9 Consensus size: 68
334041 GTGGGTATTT
* *
334051 TCAAAAGAAGTTGTCTCGAGAGATAAAATTTTGTTT-CAAAGGAAACAAACTCAAAGATTTTTTT
1 TCAAAAGAAATTGTCTCAAGAGATAAAATTTTGTTTCCAAA-GAAACAAACTCAAAGATTTTTTT
334115 TTTC
65 TTTC
*
334119 TCAAAAGAAATTGTCTTTAAGAGATAAAA-TTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 TCAAAAGAAATTGTC-TCAAGAGATAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
334181 GTTTCAAAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
68 42 0.74
69 15 0.26
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (68 bp):
TCAAAAGAAATTGTCTCAAGAGATAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTTT
TTC
Found at i:334182 original size:30 final size:30
Alignment explanation
Indices: 334148--334218 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
334138 AGAGATAAAA
*
334148 TTTGTTTCCAAAGAAACAAACTCAAAGATT
1 TTTGTTTCAAAAGAAACAAACTCAAAGATT
*
334178 TTTGTTTCAAAAGAAACAATCTCAAAGATT
1 TTTGTTTCAAAAGAAACAAACTCAAAGATT
*
334208 TTT-TTACAAAA
1 TTTGTTTCAAAA
334219 TTGTCTCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 7 0.18
30 31 0.82
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (30 bp):
TTTGTTTCAAAAGAAACAAACTCAAAGATT
Found at i:334275 original size:52 final size:53
Alignment explanation
Indices: 334198--334300 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 53
334188 AAGAAACAAT
*
334198 CTCAAAGATTTTTTTACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
*
334251 CTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
334301 AAATAAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 40 0.83
53 8 0.17
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:334379 original size:29 final size:29
Alignment explanation
Indices: 334311--334415 Score: 160
Period size: 29 Copynumber: 3.7 Consensus size: 29
334301 AAATAAATAG
**
334311 ACTCAAAGATTTTT-TTCAAAATAAAC-A
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
334338 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
334367 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
334396 ACTCAAAGATTTTTTTTCAA
1 ACTCAAAGATTTTTATTCAA
334416 GAGAAACTGT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 14 0.20
28 10 0.14
29 47 0.66
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (29 bp):
ACTCAAAGATTTTTATTCAAAAGGAACAA
Found at i:334430 original size:29 final size:29
Alignment explanation
Indices: 334297--334422 Score: 157
Period size: 29 Copynumber: 4.4 Consensus size: 29
334287 AAAACTTTGT
* * *
334297 TTCAAAATAAATAGACTCAAAGATTTTT-
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
334325 TTCAAAATAAAC-AACTCAAAGATTTTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
* *
334353 TTCAAAAGGAACAAACTCCAAGATTTTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
* *
334382 TTCAAAAGGAACAAACTCAAAGATTTTTT
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
334411 TTCAAGAGAAAC
1 TTCAAAAGAAAC
334423 TGTCTCAAGA
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
27 14 0.16
28 21 0.24
29 52 0.60
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (29 bp):
TTCAAAAGAAACAAACTCAAAGATTTTTA
Found at i:334745 original size:36 final size:36
Alignment explanation
Indices: 334661--334764 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 36
334651 GAGAAAATGA
* * *
334661 TGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
334695 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
334731 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
334765 ACGATCTCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 19 0.33
35 10 0.17
36 29 0.50
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:334792 original size:36 final size:36
Alignment explanation
Indices: 334662--334780 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
334652 AGAAAATGAT
* * * *
334662 GTCTCAAGCGAGACGAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AAAC
* **
334696 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
334732 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
334767 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
334781 TCAACTTTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 19 0.28
35 12 0.17
36 38 0.55
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:334911 original size:105 final size:100
Alignment explanation
Indices: 334732--334964 Score: 272
Period size: 105 Copynumber: 2.2 Consensus size: 100
334722 TAGAGAAATT
* *
334732 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATG
1 GTCTCAAGCGAGACGAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATG
* *
334797 TGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
64 TGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
334834 GTCTCAAGCGAGACGAATTTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAA-TTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
334898 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
59 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
334939 GTCTCAAACGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACG-AATTTGTTTT
334965 AAAATTTTCA
Statistics
Matches: 113, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 5 0.04
102 20 0.18
103 2 0.02
104 4 0.04
105 75 0.66
106 7 0.06
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (100 bp):
GTCTCAAGCGAGACGAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGTG
AAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:335427 original size:4 final size:4
Alignment explanation
Indices: 335418--336697 Score: 2504
Period size: 4 Copynumber: 322.0 Consensus size: 4
335408 TTTATGTATC
335418 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335466 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335514 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335562 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335610 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335658 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335706 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335754 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335802 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335850 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335898 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335946 ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
335992 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336040 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336088 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336136 ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336183 ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336230 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336278 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336325 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336372 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336420 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336468 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336516 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336564 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336610 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336658 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
336698 TTTTCTCGAT
Statistics
Matches: 1268, Mismatches: 0, Indels: 16
0.99 0.00 0.01
Matches are distributed among these distances:
2 4 0.00
3 12 0.01
4 1252 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:337863 original size:11 final size:11
Alignment explanation
Indices: 337838--337878 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
337828 CTTATCCTCT
* *
337838 TTTTTCTTCGC
1 TTTTTCTTTGA
337849 TTTTTCTTTGA
1 TTTTTCTTTGA
337860 TTTTTGCTTTGA
1 TTTTT-CTTTGA
337872 TTTTTCT
1 TTTTTCT
337879 CTTTGCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.05, C:0.15, G:0.10, T:0.71
Consensus pattern (11 bp):
TTTTTCTTTGA
Found at i:337882 original size:13 final size:12
Alignment explanation
Indices: 337849--337883 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
337839 TTTTCTTCGC
337849 TTTTTCTTTGAT
1 TTTTTCTTTGAT
*
337861 TTTTGCTTTGAT
1 TTTTTCTTTGAT
337873 TTTTCTCTTTG
1 TTTT-TCTTTG
337884 CTCTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTGAT
Found at i:337905 original size:15 final size:15
Alignment explanation
Indices: 337878--337920 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
337868 TTGATTTTTC
* *
337878 TCTTTGCTCTTTGTT
1 TCTTTTCTCTTTGCT
* *
337893 TTTTTTTTCTTTGCT
1 TCTTTTCTCTTTGCT
337908 TCTTTTCTCTTTG
1 TCTTTTCTCTTTG
337921 GTTTGATCTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.09, T:0.72
Consensus pattern (15 bp):
TCTTTTCTCTTTGCT
Found at i:338528 original size:20 final size:20
Alignment explanation
Indices: 338489--338529 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
338479 GGATAAATGC
*
338489 AATGTTTCAAGGTGTCAAAG
1 AATGTTTCAAGGTCTCAAAG
*
338509 AATGTTTCAAGGTCTTAAAG
1 AATGTTTCAAGGTCTCAAAG
338529 A
1 A
338530 GAGGGAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (20 bp):
AATGTTTCAAGGTCTCAAAG
Found at i:341960 original size:29 final size:30
Alignment explanation
Indices: 341897--341997 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 30
341887 TTTAATGATC
*
341897 AAAATAGATAAAACAGAAACTTACATGG-CT
1 AAAATAGATAAAACAGAAACTTA-AAGGACT
*
341927 AAAATA-ATAAAACAGAAAGTTAAAGGACT
1 AAAATAGATAAAACAGAAACTTAAAGGACT
* * *
341956 GAAATAGCAT-AAACATG-AATTTACAGGACT
1 AAAATAG-ATAAAACA-GAAACTTAAAGGACT
341986 AAAATA-ATAAAA
1 AAAATAGATAAAA
341998 ATAGACATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
28 5 0.08
29 25 0.42
30 27 0.45
31 3 0.05
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (30 bp):
AAAATAGATAAAACAGAAACTTAAAGGACT
Found at i:343450 original size:3 final size:3
Alignment explanation
Indices: 343442--343497 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
343432 TATTTTAGGT
* **
343442 TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA -AA TAA CGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
343489 TAA TAA TAA
1 TAA TAA TAA
343498 CATAACGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:343482 original size:26 final size:26
Alignment explanation
Indices: 343453--343514 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
343443 AATAATAATA
343453 ATAATAATAAAAATAATAAAATAACG
1 ATAATAATAAAAATAATAAAATAACG
* *
343479 ATAATAATAATAATAATAACATAACG
1 ATAATAATAAAAATAATAAAATAACG
343505 ATAA-AATAAA
1 ATAATAATAAA
343515 CCCGGACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (26 bp):
ATAATAATAAAAATAATAAAATAACG
Found at i:348861 original size:15 final size:14
Alignment explanation
Indices: 348836--348865 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
348826 TGTAGCAATT
348836 TGCAATTAATTTAA
1 TGCAATTAATTTAA
348850 TGCAAGTTAATTTAA
1 TGCAA-TTAATTTAA
348865 T
1 T
348866 CCTCTGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (14 bp):
TGCAATTAATTTAA
Found at i:350995 original size:24 final size:24
Alignment explanation
Indices: 350968--351023 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
350958 CGTTCATTTA
350968 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * *
350992 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
351016 CGTTCGGT
1 CGTTCGGT
351024 TATGTTCGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.46
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:350997 original size:14 final size:14
Alignment explanation
Indices: 350978--351033 Score: 84
Period size: 14 Copynumber: 4.3 Consensus size: 14
350968 CGTTCGTGAA
350978 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
350992 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
351006 CG-T---TTATGTT
1 CGTTCGGTTATGTT
351016 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
351030 CGTT
1 CGTT
351034 TATTTATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.07, C:0.14, G:0.27, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:351024 original size:24 final size:24
Alignment explanation
Indices: 350979--351036 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
350969 GTTCGTGAAC
*
350979 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
351003 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
351027 GTTCGTTTAT
1 GTTCGTTTAT
351037 TTATGTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.09, C:0.12, G:0.26, T:0.53
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTTAT
Found at i:351866 original size:11 final size:11
Alignment explanation
Indices: 351846--351894 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
351836 GGCAATGTTA
*
351846 AGCTTGAATCG
1 AGCTTCAATCG
351857 AGCTTCAATCG
1 AGCTTCAATCG
351868 AGC-TCAGAATCG
1 AGCTTC--AATCG
351880 AGCTTCAATCG
1 AGCTTCAATCG
351891 AGCT
1 AGCT
351895 CGAGTCTCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 2 0.06
11 22 0.65
12 8 0.24
13 2 0.06
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (11 bp):
AGCTTCAATCG
Found at i:351877 original size:23 final size:24
Alignment explanation
Indices: 351851--351919 Score: 95
Period size: 23 Copynumber: 2.9 Consensus size: 24
351841 TGTTAAGCTT
351851 GAATCGAGCTTCAATCGAGCTC-A
1 GAATCGAGCTTCAATCGAGCTCGA
351874 GAATCGAGCTTCAATCGAGCTCGA
1 GAATCGAGCTTCAATCGAGCTCGA
** * *
351898 GTCTCGAGTTTTAATCGAGCTC
1 GAATCGAGCTTCAATCGAGCTC
351920 TTAATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 22 0.54
24 19 0.46
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (24 bp):
GAATCGAGCTTCAATCGAGCTCGA
Found at i:352141 original size:16 final size:16
Alignment explanation
Indices: 352120--352186 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 16
352110 GTCTCCAACG
*
352120 TTTATGTTCGTGTTTA
1 TTTATGTTCGTGTTCA
* *
352136 TTTATGTTCTTGTTCG
1 TTTATGTTCGTGTTCA
** *
352152 TTTATGTTCGTGCGCG
1 TTTATGTTCGTGTTCA
352168 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
352182 TTTAT
1 TTTAT
352187 TAAATGAACG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 5 0.12
16 37 0.88
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:352270 original size:16 final size:16
Alignment explanation
Indices: 352249--352279 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
352239 AAAAAAAATT
352249 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
352265 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
352280 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:352859 original size:174 final size:175
Alignment explanation
Indices: 352570--352918 Score: 659
Period size: 174 Copynumber: 2.0 Consensus size: 175
352560 AAAAGTTGAC
352570 AACAACCAACTTTGACAAAATTATATTCATTTAAGGATGACTTTATCAAACAGTATAGAATTTGA
1 AACAACCAACTTTGACAAAATTATATTCATTTAAGGATGACTTTATCAAACAGTATAGAATTTGA
352635 TGTGTTCCCTCAAATAATATTCTTGCATCTTTTTTTTCATTTTCATTTCTTTAAATTTGATTCAG
66 TGTGTTCCCTCAAATAATATTCTTGCATCTTTTTTTTCATTTTCATTTCTTTAAATTTGATTCAG
352700 ATAATTTTAAGTGTA-TTT-TATATATTTAAAAAATTATTTTTTT
131 ATAATTTTAAGTGTATTTTATATATATTTAAAAAATTATTTTTTT
352743 AACAACCAACTTTGACAAAATTATATTTCATTTAAGGATGACTTTATCAAACAGTATAGAATTTG
1 AACAACCAACTTTGACAAAATTATA-TTCATTTAAGGATGACTTTATCAAACAGTATAGAATTTG
352808 ATGTGTTCCCTCAAATAATATTCTT-CATCTTTTTTTTCATTTTTCATTTCTTTAAATTTGATTC
65 ATGTGTTCCCTCAAATAATATTCTTGCATCTTTTTTTTCA-TTTTCATTTCTTTAAATTTGATTC
352872 AGATAATTTTAAGTGTATTTTATATATATTTAAAAAATTATTTTTTT
129 AGATAATTTTAAGTGTATTTTATATATATTTAAAAAATTATTTTTTT
352919 GGGTATAATT
Statistics
Matches: 172, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
173 39 0.23
174 105 0.61
175 3 0.02
176 25 0.15
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (175 bp):
AACAACCAACTTTGACAAAATTATATTCATTTAAGGATGACTTTATCAAACAGTATAGAATTTGA
TGTGTTCCCTCAAATAATATTCTTGCATCTTTTTTTTCATTTTCATTTCTTTAAATTTGATTCAG
ATAATTTTAAGTGTATTTTATATATATTTAAAAAATTATTTTTTT
Found at i:363671 original size:21 final size:21
Alignment explanation
Indices: 363645--363701 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
363635 ATATATAGAA
363645 AAAAATAAATATAAAAATACT
1 AAAAATAAATATAAAAATACT
* * *
363666 AAAAATAAAAATCAAATTACT
1 AAAAATAAATATAAAAATACT
363687 AAATAATTAAATATA
1 AAA-AA-TAAATATA
363702 TATATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 21 0.72
22 2 0.07
23 6 0.21
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATAAATATAAAAATACT
Found at i:364122 original size:28 final size:27
Alignment explanation
Indices: 364086--364140 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
364076 TAAATAATTC
364086 CTTTAACTTA-AAAAAACTCAATTTAAT
1 CTTTAACTTACAAAAAA-TCAATTTAAT
364113 CTTTGAACTTATCAAAAAATCAATTTAA
1 CTTT-AACTTA-CAAAAAATCAATTTAA
364141 CTCATTTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 4 0.16
28 6 0.24
29 9 0.36
30 6 0.24
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (27 bp):
CTTTAACTTACAAAAAATCAATTTAAT
Found at i:364630 original size:71 final size:71
Alignment explanation
Indices: 364555--364693 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 71
364545 CCACTACTTT
* * *
364555 AATTATTACATTTAATCGATAAATATAATATAATATCAAAATGAGTAAATATAATTATTTAAATT
1 AATTATTACATTTAATCGATAAATAGAATATAACATCAAAATGAATAAATATAATTATTTAAATT
364620 TCTTAG
66 TCTTAG
* * *
364626 AATTATTATATTTAATCGATAAATAGAATATAACATCTAACTGAATAAATATAATTATTTAAATT
1 AATTATTACATTTAATCGATAAATAGAATATAACATCAAAATGAATAAATATAATTATTTAAATT
364691 TCT
66 TCT
364694 CTAGCTTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (71 bp):
AATTATTACATTTAATCGATAAATAGAATATAACATCAAAATGAATAAATATAATTATTTAAATT
TCTTAG
Found at i:366134 original size:15 final size:16
Alignment explanation
Indices: 366114--366149 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
366104 AACGTCTTTT
366114 AAAAAT-AATTTTAAG
1 AAAAATCAATTTTAAG
*
366129 AAAAATCATTTTTAAG
1 AAAAATCAATTTTAAG
366145 AAAAA
1 AAAAA
366150 AGTTGGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAAATCAATTTTAAG
Found at i:367659 original size:14 final size:15
Alignment explanation
Indices: 367610--367664 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 15
367600 TTAAATTAAA
*
367610 ATAT-AAAATAAAGG
1 ATATCAAAATAAAAG
367624 AT-T-AAAATAAAAG
1 ATATCAAAATAAAAG
367637 ATATCAAAATATAAA-
1 ATATCAAAATA-AAAG
367652 AT-TCAAAATAAAA
1 ATATCAAAATAAAA
367665 TAGTTTAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 15 0.41
14 11 0.30
15 8 0.22
16 3 0.08
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (15 bp):
ATATCAAAATAAAAG
Found at i:368990 original size:3 final size:3
Alignment explanation
Indices: 368982--369031 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
368972 AATATTGTAA
* * *
368982 AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT ACT -AT AGT ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
369027 AAT AA
1 AAT AA
369032 ATATAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 36 0.92
4 2 0.05
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:369037 original size:12 final size:13
Alignment explanation
Indices: 368982--369039 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 13
368972 AATATTGTAA
368982 AATAATAAT-AAT
1 AATAATAATAAAT
368994 AATAATAAT-AAT
1 AATAATAATAAAT
* * *
369006 AATCATACTATAGT
1 AATAATAATA-AAT
369020 ATATAATAATAAAT
1 A-ATAATAATAAAT
369034 -ATAATA
1 AATAATA
369040 TATATATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 25 0.68
14 5 0.14
15 7 0.19
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:388472 original size:28 final size:27
Alignment explanation
Indices: 388419--388476 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
388409 TATTATTTCC
388419 ATTTAGTAATGTTATTATCAAAATTAAT
1 ATTTAGTAATGTTATTATCAAAATT-AT
*
388447 ATTTAGTAATGTTATT-TCATATATTAT
1 ATTTAGTAATGTTATTATCA-AAATTAT
388474 ATT
1 ATT
388477 AAGCAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (27 bp):
ATTTAGTAATGTTATTATCAAAATTAT
Found at i:388882 original size:3 final size:3
Alignment explanation
Indices: 388876--388925 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
388866 AATACTACTT
* *
388876 TAA TAA TAA TAA TCA TCA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
388924 TA
1 TA
388926 GCATTGAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:389289 original size:35 final size:35
Alignment explanation
Indices: 389248--389340 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
389238 AACACAGTCA
*
389248 TCAATTACATTTTAAACCCCAAAATCCAAAATACT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
* * * *
389283 TCAATTATATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
*
389318 TCAATTACATAC-ACAACCCCAAA
1 TCAATTACATTCTA-AACCCCAAA
389341 TTCATAATCC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 1 0.02
35 48 0.98
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAAATCCAAAATACT
Found at i:389800 original size:153 final size:148
Alignment explanation
Indices: 389509--389803 Score: 441
Period size: 153 Copynumber: 2.0 Consensus size: 148
389499 TACTCAATTA
* *
389509 AGTTTATAAAATAGTTTACTCGATTTTTTTTTGATTTGAGATTATAAAATTTAAATCAAGTCGAA
1 AGTTTATAAAATAGTTGACTCGAATTTTTTTTGATTTGAGATTATAAAATTTAAATCAAGTCGAA
* * * *
389574 TTGAATTGAATTTTTGAGCTTTTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTAC
66 TTGAATTGAATTTTCGAGCTTTTATTTAAATTTAATTATAAATATTTATAATACTATAATATTAC
389639 TTGATTCTAATTCAGTTC
131 TTGATTCTAATTCAGTTC
*
389657 AGTTTATAAAATAGTTGACTCGAAATTTTTTTT-ATTTGAGTTTATAAAATTTAAATCAAGTCTA
1 AGTTTATAAAATAGTTGACTCG-AATTTTTTTTGATTTGAGATTATAAAATTTAAATCAAGTC--
389721 ATTGAATTGAATTGAATTTTCGAG-TTTCTATTTAAATTTAATTATAAATATTTATAATACTATA
63 ---GAATTGAATTGAATTTTCGAGCTTT-TATTTAAATTTAATTATAAATATTTATAATACTATA
*
389785 ATATTATTTGATTCTAATT
124 ATATTACTTGATTCTAATT
389804 TAAATAGTTT
Statistics
Matches: 132, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
148 49 0.37
149 9 0.07
152 3 0.02
153 71 0.54
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (148 bp):
AGTTTATAAAATAGTTGACTCGAATTTTTTTTGATTTGAGATTATAAAATTTAAATCAAGTCGAA
TTGAATTGAATTTTCGAGCTTTTATTTAAATTTAATTATAAATATTTATAATACTATAATATTAC
TTGATTCTAATTCAGTTC
Found at i:390623 original size:35 final size:35
Alignment explanation
Indices: 390566--390650 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 35
390556 TTGGGCATGC
390566 AATTGAAGTATTTTTGGAATTTGAGATTTAGAATAT
1 AATTGAAGTA-TTTTGGAATTTGAGATTTAGAATAT
* * *
390602 AATTGAAGTATTTTGGAATTTGGGGTTTAGAATGT
1 AATTGAAGTATTTTGGAATTTGAGATTTAGAATAT
*
390637 AATTGATG-ATTTTG
1 AATTGAAGTATTTTG
390651 TTGCAAGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 6 0.13
35 29 0.64
36 10 0.22
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.45
Consensus pattern (35 bp):
AATTGAAGTATTTTGGAATTTGAGATTTAGAATAT
Found at i:391466 original size:24 final size:22
Alignment explanation
Indices: 391415--391467 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 22
391405 ATTTAGTCCA
391415 TTATTTATTATTATTTTTAATT
1 TTATTTATTATTATTTTTAATT
*
391437 TAATTTATT-TTATTATTATACATT
1 TTATTTATTATTATT-TT-TA-ATT
391461 TTATTTA
1 TTATTTA
391468 CACTTTCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 5 0.19
22 10 0.38
23 2 0.08
24 9 0.35
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTTATTATTATTTTTAATT
Found at i:392394 original size:20 final size:20
Alignment explanation
Indices: 392369--392412 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
392359 GATAAAATTG
392369 TTTAAAT-TTTTTAATACTTT
1 TTTAAATATTTTTAA-ACTTT
*
392389 TTTAAATATTTTTTAACTTT
1 TTTAAATATTTTTAAACTTT
392409 TTTA
1 TTTA
392413 TTTTAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTAAATATTTTTAAACTTT
Done.