Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 79 of 126
Found at i:16058915 original size:20 final size:20
Alignment explanation
Indices: 16058872--16058917 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16058862 GATTAATTTA
16058872 AAATA-AAATTTTATATTAT
1 AAATATAAATTTTATATTAT
*
16058891 TAATATAAATTTTAT-TTACT
1 AAATATAAATTTTATATTA-T
16058911 AAATATA
1 AAATATA
16058918 TATAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATATAAATTTTATATTAT
Found at i:16062644 original size:21 final size:20
Alignment explanation
Indices: 16062605--16062649 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
16062595 ACGTCAAATA
* * *
16062605 TAAATTTATTTTTATTTTTAT
1 TAAATTTATATATAATTTT-T
16062626 TAAATTTATATATAATTTTT
1 TAAATTTATATATAATTTTT
16062646 TAAA
1 TAAA
16062650 AAATTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAAATTTATATATAATTTTT
Found at i:16064183 original size:18 final size:16
Alignment explanation
Indices: 16064148--16064199 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 16
16064138 AAATAAAAAA
*
16064148 AATATTTTATATTTTT
1 AATATTTTATAATTTT
16064164 AATATTTATATAAATTTT
1 AATATTT-TAT-AATTTT
16064182 AATA---TATAATTTT
1 AATATTTTATAATTTT
16064195 AATAT
1 AATAT
16064200 AAAATATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
13 10 0.31
14 3 0.09
16 7 0.22
17 3 0.09
18 9 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATATTTTATAATTTT
Found at i:16064191 original size:25 final size:26
Alignment explanation
Indices: 16064163--16064219 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
16064153 TTTATATTTT
* * *
16064163 TAATATTT-ATATAAATTTTAATATA
1 TAATATTTAATATAAAATATAACATA
16064188 TAAT-TTTAATATAAAATATAACATA
1 TAATATTTAATATAAAATATAACATA
16064213 -AATATTT
1 TAATATTT
16064220 TATCTAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TAATATTTAATATAAAATATAACATA
Found at i:16064194 original size:13 final size:14
Alignment explanation
Indices: 16064170--16064204 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
16064160 TTTTAATATT
16064170 TATATAAATTTTAA
1 TATATAAATTTTAA
16064184 TATAT-AATTTTAA
1 TATATAAATTTTAA
16064197 TATA-AAAT
1 TATATAAAT
16064205 ATAACATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:16065117 original size:28 final size:27
Alignment explanation
Indices: 16065074--16065132 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
16065064 GATGAAAATC
* *
16065074 ATATTAATAAATAAATTTATAATTCAA
1 ATATTAATAAAAAAATTTAAAATTCAA
*
16065101 ATATTAAATAAAAAAATTTAAAATTTAA
1 ATATT-AATAAAAAAATTTAAAATTCAA
16065129 ATAT
1 ATAT
16065133 CACATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATTAATAAAAAAATTTAAAATTCAA
Found at i:16067292 original size:25 final size:26
Alignment explanation
Indices: 16067251--16067299 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
16067241 TAAATTTATA
*
16067251 TAAATTTTAATGGATTA-TATAATTT
1 TAAATTTTAATGAATTATTATAATTT
16067276 TAAATTTTAAAT-AATTATTATAAT
1 TAAATTTT-AATGAATTATTATAAT
16067300 ATAATAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TAAATTTTAATGAATTATTATAATTT
Found at i:16067634 original size:22 final size:22
Alignment explanation
Indices: 16067601--16067659 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
16067591 ATATATTAAT
*
16067601 TTTA-ATTAATTTAAAATAATAA
1 TTTATATT-ATTTAAAATAAAAA
16067623 TTTATATTATTT--AATAAAAA
1 TTTATATTATTTAAAATAAAAA
*
16067643 TTTAT-TTATTAAAAATA
1 TTTATATTATTTAAAATA
16067660 TATATAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 5 0.16
20 12 0.38
21 4 0.12
22 8 0.25
23 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTATATTATTTAAAATAAAAA
Found at i:16067649 original size:15 final size:15
Alignment explanation
Indices: 16067629--16067658 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16067619 ATAATTTATA
16067629 TTATTTAATAAAAAT
1 TTATTTAATAAAAAT
*
16067644 TTATTTATTAAAAAT
1 TTATTTAATAAAAAT
16067659 ATATATAAAT
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:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATTTAATAAAAAT
Found at i:16068473 original size:33 final size:33
Alignment explanation
Indices: 16068436--16068516 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
16068426 GTATCCAAGT
*
16068436 TGAACCTTTAATACC-AGCGTTCAAACACATTGA
1 TGAACCTTTAATACCGA-CGTTCAAACACATGGA
* *
16068469 TGAACCTTTAATACCGACGTTCGAGCACATGGA
1 TGAACCTTTAATACCGACGTTCAAACACATGGA
16068502 TGAACCTTTAATACC
1 TGAACCTTTAATACC
16068517 TTCGATCTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 43 0.98
34 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (33 bp):
TGAACCTTTAATACCGACGTTCAAACACATGGA
Found at i:16073143 original size:2 final size:2
Alignment explanation
Indices: 16073136--16073163 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16073126 GAACTTTCTC
16073136 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16073164 GCTTGAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16075059 original size:5 final size:5
Alignment explanation
Indices: 16075049--16075101 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
16075039 TTAGTTTTTA
* * *
16075049 AATTT AATTT AATTT AATTT ATATATT ATTTT AATAT -ATTT AATTA AATTT
1 AATTT AATTT AATTT AATTT A-AT-TT AATTT AATTT AATTT AATTT AATTT
16075100 AA
1 AA
16075102 ACATAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 30 0.77
6 3 0.08
7 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:16076438 original size:20 final size:21
Alignment explanation
Indices: 16076396--16076439 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16076386 ATTTTAAACT
**
16076396 AAAAAATAAAAATTAATGTTA
1 AAAAAATAAAAATTAATCATA
16076417 AAAAAATAAAAA-TAATCATA
1 AAAAAATAAAAATTAATCATA
16076437 AAA
1 AAA
16076440 TTAATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAAATAAAAATTAATCATA
Found at i:16076770 original size:11 final size:11
Alignment explanation
Indices: 16076747--16076836 Score: 54
Period size: 11 Copynumber: 7.9 Consensus size: 11
16076737 CTAGTTATTG
*
16076747 ATAATTTAGTA
1 ATAAATTAGTA
*
16076758 ATAAATTATTA
1 ATAAATTAGTA
*
16076769 ATAACTTAGTAA
1 ATAAATTAGT-A
*
16076781 TAGTAAATTACTA
1 -A-TAAATTAGTA
* *
16076794 ATAACTTAGTT
1 ATAAATTAGTA
* *
16076805 ATAAATCAGTG
1 ATAAATTAGTA
* *
16076816 ATAATTTAATA
1 ATAAATTAGTA
*
16076827 GTAAATTAGT
1 ATAAATTAGT
16076837 TAATTATTGA
Statistics
Matches: 57, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
11 46 0.81
12 2 0.04
13 2 0.04
14 7 0.12
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (11 bp):
ATAAATTAGTA
Found at i:16076772 original size:22 final size:22
Alignment explanation
Indices: 16076741--16076810 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
16076731 TTAAAACTAG
* *
16076741 TTATTGATAATTTAGTAATAAA
1 TTATTAATAACTTAGTAATAAA
16076763 TTATTAATAACTTAGTAATAGTAAA
1 TTATTAATAACTTAGT-A-A-TAAA
* *
16076788 TTACTAATAACTTAGTTATAAA
1 TTATTAATAACTTAGTAATAAA
16076810 T
1 T
16076811 CAGTGATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 19 0.46
23 2 0.05
24 1 0.02
25 19 0.46
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (22 bp):
TTATTAATAACTTAGTAATAAA
Found at i:16076953 original size:22 final size:22
Alignment explanation
Indices: 16076846--16077016 Score: 107
Period size: 22 Copynumber: 7.8 Consensus size: 22
16076836 TTAATTATTG
* *
16076846 ATAATTTTGAAGTAAATCATCT-
1 ATAATTTAGTAGTAAATCAT-TA
* *
16076868 ATAAATTAGTAGTAAATAAGTT-
1 ATAATTTAGTAGTAAATCA-TTA
* * **
16076890 ATAATTTTA-TAATAAATTACCA
1 ATAA-TTTAGTAGTAAATCATTA
* *
16076912 ATAACTTAGTAGTAAGTCATTA
1 ATAATTTAGTAGTAAATCATTA
* * *
16076934 ACAATTTAGTATTAAATCATTC
1 ATAATTTAGTAGTAAATCATTA
* *
16076956 ATAAATTAGTAGTAAATCAATA
1 ATAATTTAGTAGTAAATCATTA
* *
16076978 ATAATTTAGTAGTTAAT-ATTG
1 ATAATTTAGTAGTAAATCATTA
** *
16076999 ATAGCTTAATAGTAAATC
1 ATAATTTAGTAGTAAATC
16077017 TCAGATAACA
Statistics
Matches: 111, Mismatches: 33, Indels: 10
0.72 0.21 0.06
Matches are distributed among these distances:
21 18 0.16
22 89 0.80
23 4 0.04
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATCATTA
Found at i:16077446 original size:21 final size:20
Alignment explanation
Indices: 16077426--16077492 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
16077416 TGAAGATTAT
*
16077426 CAAAATTATATTAAAAGTTA
1 CAAAATTTTATTAAAAGTTA
* *
16077446 TGAAAATTTTATTAAAGGTTA
1 -CAAAATTTTATTAAAAGTTA
*
16077467 CAAAACTTTTAATAAAAGTTA
1 CAAAA-TTTTATTAAAAGTTA
16077488 CAAAA
1 CAAAA
16077493 ACAAAAAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.10
21 35 0.90
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.34
Consensus pattern (20 bp):
CAAAATTTTATTAAAAGTTA
Found at i:16077747 original size:30 final size:31
Alignment explanation
Indices: 16077693--16077753 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
16077683 AATTTTACTC
* **
16077693 TCATACTTTTATTTTAAATTAAATTT-ATTA
1 TCATACTTTTAATTTAAAGCAAATTTGATTA
*
16077723 TCATACTTTTAATTTAGAGCAAATTTGATTA
1 TCATACTTTTAATTTAAAGCAAATTTGATTA
16077754 AGATATATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (31 bp):
TCATACTTTTAATTTAAAGCAAATTTGATTA
Found at i:16080539 original size:209 final size:217
Alignment explanation
Indices: 16080206--16080639 Score: 580
Period size: 209 Copynumber: 2.0 Consensus size: 217
16080196 AACATCAATT
*
16080206 AATGTAATTATTATTTCATATAATAATTAACATTCTTCTTTATATACATATATATATATATATAT
1 AATGTAATTATTATTTCATATAATAATTAACATTCTTC--TATATA-ATATACATATATATATAT
16080271 ATACACATTAGGTAGTATCCCACGTATCACTGCAATTCAATAATAACAACAATTAAAAACACTAA
63 ATA-ACATTAGGTAGTATCCCACGTATCACTGCAATTCAATAATAACAACAATTAAAAACACTAA
*
16080336 AATATATTTGTACATA-CTATTTTTATTAACCTGTGAAGTATTAAGTTTTTTAAAAATAAATATG
127 AATATATTTGTACATACCT-TTTTTATTAACCTGTGAAGTATTAAGTTTTCTAAAAATAAATATG
*
16080400 AGAATCTGTCATGAA-CG-AAAAAATA
191 AGAATCTATCATGAATCGAAAAAAATA
* * *
16080425 AATGTAATTATTATTTCATATAATAATTAGCGTTCTTC-AT-T-ATGTACATATATAT-T-TAT-
1 AATGTAATTATTATTTCATATAATAATTAACATTCTTCTATATAATATACATATATATATATATA
* * * ** * * *
16080484 ACATTAGGTAGTATCTCGCGTGTTGCTGTAGTTCAATAATAACAATAATTAAAAACACTAAAATA
66 ACATTAGGTAGTATCCCACGTATCACTGCAATTCAATAATAACAACAATTAAAAACACTAAAATA
* * * *
16080549 TATTTGTACATACCTTTTTTTTTAACTTGTGAAGTATTAAGTTTTCTAAAAATAAATGTGAGGAT
131 TATTTGTACATACCTTTTTTATTAACCTGTGAAGTATTAAGTTTTCTAAAAATAAATATGAGAAT
* *
16080614 TTATCATGAATGGAAAAAAATA
196 CTATCATGAATCGAAAAAAATA
16080636 AATG
1 AATG
16080640 GGTTAAGAAT
Statistics
Matches: 192, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
209 122 0.64
210 3 0.02
211 15 0.08
212 1 0.01
213 12 0.06
215 1 0.01
216 2 0.01
219 36 0.19
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.39
Consensus pattern (217 bp):
AATGTAATTATTATTTCATATAATAATTAACATTCTTCTATATAATATACATATATATATATATA
ACATTAGGTAGTATCCCACGTATCACTGCAATTCAATAATAACAACAATTAAAAACACTAAAATA
TATTTGTACATACCTTTTTTATTAACCTGTGAAGTATTAAGTTTTCTAAAAATAAATATGAGAAT
CTATCATGAATCGAAAAAAATA
Found at i:16081712 original size:42 final size:42
Alignment explanation
Indices: 16081648--16081731 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
16081638 CAAATTCATG
*
16081648 ATCATATTCTTTCAATACCTTTCGAATTTATAAACTAAGTCT
1 ATCAGATTCTTTCAATACCTTTCGAATTTATAAACTAAGTCT
16081690 ATCAGATTCTTTCAATACCTTTCGAATTTATAAACTAAGTCT
1 ATCAGATTCTTTCAATACCTTTCGAATTTATAAACTAAGTCT
16081732 CTTAACTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (42 bp):
ATCAGATTCTTTCAATACCTTTCGAATTTATAAACTAAGTCT
Found at i:16082393 original size:18 final size:18
Alignment explanation
Indices: 16082370--16082404 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16082360 AAACATTTAG
*
16082370 AAAAAACTAATGACATTA
1 AAAAAAATAATGACATTA
*
16082388 AAAAAAATAATTACATT
1 AAAAAAATAATGACATT
16082405 TTTTATCTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAAAATAATGACATTA
Found at i:16083279 original size:18 final size:20
Alignment explanation
Indices: 16083248--16083285 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
16083238 AATTAGGCAA
16083248 AAAAAATTATTTTTTAAAAT
1 AAAAAATTATTTTTTAAAAT
16083268 AAAAAA-TA-TTTTTAAAAT
1 AAAAAATTATTTTTTAAAAT
16083286 GTCACCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAAATTATTTTTTAAAAT
Found at i:16083801 original size:24 final size:24
Alignment explanation
Indices: 16083774--16083822 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16083764 AGAAAATAGT
* * *
16083774 TTTAATTTACAGCTATAAATTATA
1 TTTAATCTACAGCCATAAACTATA
*
16083798 TTTAATCTATAGCCATAAACTATA
1 TTTAATCTACAGCCATAAACTATA
16083822 T
1 T
16083823 GCTCTAAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (24 bp):
TTTAATCTACAGCCATAAACTATA
Found at i:16087389 original size:29 final size:29
Alignment explanation
Indices: 16087349--16087436 Score: 108
Period size: 29 Copynumber: 3.0 Consensus size: 29
16087339 ATTACTTATG
16087349 TATTTATTTTTTATTACTTTAATATAATA
1 TATTTATTTTTTATTACTTTAATATAATA
* * * *
16087378 TGTTTATTTTTTA-TGCTTAAATTACTTATA
1 TATTTATTTTTTATTACTTTAA-TA-TAATA
16087408 TATTTA-TTTTTATTACTTTAATATAATA
1 TATTTATTTTTTATTACTTTAATATAATA
16087436 T
1 T
16087437 TGTTATGAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
28 11 0.23
29 22 0.46
30 15 0.31
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TATTTATTTTTTATTACTTTAATATAATA
Found at i:16087450 original size:58 final size:59
Alignment explanation
Indices: 16087337--16087450 Score: 169
Period size: 58 Copynumber: 1.9 Consensus size: 59
16087327 GCTATGGAAG
* ***
16087337 AAATTACTTATGTATTTATTTTTTATTACTTTAATATAATATGTTTATTTTTTATGCTT
1 AAATTACTTATATATTTATTTTTTATTACTTTAATATAATATGTTTATGAATTATGCTT
16087396 AAATTACTTATATATTTA-TTTTTATTACTTTAATATAATAT-TGTTATGAATTATG
1 AAATTACTTATATATTTATTTTTTATTACTTTAATATAATATGT-TTATGAATTATG
16087451 TTTAGGTACT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 1 0.02
58 32 0.64
59 17 0.34
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.58
Consensus pattern (59 bp):
AAATTACTTATATATTTATTTTTTATTACTTTAATATAATATGTTTATGAATTATGCTT
Found at i:16088721 original size:18 final size:18
Alignment explanation
Indices: 16088696--16088743 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
16088686 TATTATCTAT
16088696 CACAAATGTATC-TTTCAC
1 CACAAATGTATCATTT-AC
*
16088714 CTCAAATGTATCATTTAC
1 CACAAATGTATCATTTAC
16088732 CACAAATGTATC
1 CACAAATGTATC
16088744 CCCCACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (18 bp):
CACAAATGTATCATTTAC
Found at i:16097597 original size:21 final size:21
Alignment explanation
Indices: 16097551--16097597 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
16097541 AAAATTTTAA
16097551 ATTATATCATTTTTGTATATT
1 ATTATATCATTTTTGTATATT
* * *
16097572 TTTATATTATTTTTGTATCTT
1 ATTATATCATTTTTGTATATT
16097593 ATTAT
1 ATTAT
16097598 TATATCGTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (21 bp):
ATTATATCATTTTTGTATATT
Found at i:16104025 original size:13 final size:13
Alignment explanation
Indices: 16104009--16104035 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16103999 TATTCTTATA
16104009 TAATTTTAATTTT
1 TAATTTTAATTTT
16104022 TAATTTTAATTTT
1 TAATTTTAATTTT
16104035 T
1 T
16104036 GTATATACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TAATTTTAATTTT
Found at i:16104336 original size:30 final size:30
Alignment explanation
Indices: 16104280--16104369 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
16104270 CATTTTATTA
* * *
16104280 CAATCAATCAAA-TCTTGAATTTTCTA-TTT
1 CAATCAATTAAACTCTT-AAATATCTATTTT
*
16104309 CTAATCAATTGAACTCTTAAATATCTATTTT
1 C-AATCAATTAAACTCTTAAATATCTATTTT
* * *
16104340 CACTTAATTAAACTTTTAAATATCTATTTT
1 CAATCAATTAAACTCTTAAATATCTATTTT
16104370 TACCTTAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.82
31 8 0.16
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.47
Consensus pattern (30 bp):
CAATCAATTAAACTCTTAAATATCTATTTT
Found at i:16108226 original size:16 final size:17
Alignment explanation
Indices: 16108197--16108228 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16108187 TTTAATAAAA
16108197 AATATAACTATTTTAAC
1 AATATAACTATTTTAAC
16108214 AATATAA-TATTTTAA
1 AATATAACTATTTTAA
16108229 AATGTCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATAACTATTTTAAC
Found at i:16108415 original size:24 final size:22
Alignment explanation
Indices: 16108370--16108430 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 22
16108360 CATTAAGAAG
*
16108370 ATAGAAATATTTTAATATTTTA
1 ATAGAAATATTTTAATACTTTA
16108392 ATAGTAAATATTTTCAATACTTTA
1 ATAG-AAATATTTT-AATACTTTA
*
16108416 ATTAGAAATTTTTTA
1 A-TAGAAATATTTTA
16108431 TGATAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 4 0.12
23 10 0.29
24 17 0.50
25 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (22 bp):
ATAGAAATATTTTAATACTTTA
Found at i:16112095 original size:2 final size:2
Alignment explanation
Indices: 16112088--16112122 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
16112078 CCATTAACAA
16112088 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16112123 TGTTATCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16112109 original size:17 final size:17
Alignment explanation
Indices: 16112087--16112121 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16112077 GCCATTAACA
16112087 AATATATATATATATAT
1 AATATATATATATATAT
16112104 AATATATATATATATAT
1 AATATATATATATATAT
16112121 A
1 A
16112122 TTGTTATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATATATATATATAT
Found at i:16112110 original size:15 final size:15
Alignment explanation
Indices: 16112090--16112119 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16112080 ATTAACAAAT
16112090 ATATATATATATATA
1 ATATATATATATATA
16112105 ATATATATATATATA
1 ATATATATATATATA
16112120 TATTGTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:16115949 original size:17 final size:17
Alignment explanation
Indices: 16115927--16115965 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
16115917 TGTTTTCGAG
*
16115927 TTTTTTCGAATTT-AAA
1 TTTTTTTGAATTTGAAA
16115943 TTTTTTTGAATTTGAAA
1 TTTTTTTGAATTTGAAA
16115960 TTTTTT
1 TTTTTT
16115966 AATTTTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (17 bp):
TTTTTTTGAATTTGAAA
Found at i:16115979 original size:16 final size:16
Alignment explanation
Indices: 16115927--16115980 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
16115917 TGTTTTCGAG
16115927 TTTTTTCGAA-TTTAAA
1 TTTTTT-GAATTTTAAA
*
16115943 TTTTTTTGAATTTGAAA
1 -TTTTTTGAATTTTAAA
16115960 TTTTTT-AATTTTAAA
1 TTTTTTGAATTTTAAA
16115975 GTTTTT
1 -TTTTT
16115981 CAAATCGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 8 0.24
16 14 0.42
17 11 0.33
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (16 bp):
TTTTTTGAATTTTAAA
Found at i:16117697 original size:24 final size:23
Alignment explanation
Indices: 16117653--16117705 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
16117643 TTAGTCAATC
* *
16117653 ATTTTTAATGTTTTTAGAATTAAA
1 ATTTTAAATGTTTTAAGAATT-AA
*
16117677 ATTTTAAAT-TTTTAAGTAATTTA
1 ATTTTAAATGTTTTAAG-AATTAA
16117700 ATTTTA
1 ATTTTA
16117706 TATAATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
ATTTTAAATGTTTTAAGAATTAA
Found at i:16118115 original size:2 final size:2
Alignment explanation
Indices: 16118099--16118141 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
16118089 CAAGTAAAAT
* * *
16118099 TA TA TA AA TA AA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16118141 T
1 T
16118142 TCCATGACAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:16124971 original size:38 final size:38
Alignment explanation
Indices: 16124929--16125005 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
16124919 TCTACACTTC
*
16124929 ACATCCAAATCCTTATTACTACAATGTCTACCTTCCAT
1 ACATCCAAATCCTTATTACTACAACGTCTACCTTCCAT
* *
16124967 ACATCCAAGTCCTTATTACTACGACGTCTACCTTCCAT
1 ACATCCAAATCCTTATTACTACAACGTCTACCTTCCAT
16125005 A
1 A
16125006 TTATCACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.32, G:0.05, T:0.32
Consensus pattern (38 bp):
ACATCCAAATCCTTATTACTACAACGTCTACCTTCCAT
Found at i:16127855 original size:2 final size:2
Alignment explanation
Indices: 16127844--16127874 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16127834 AGTGTCAACT
16127844 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16127875 ATTGTCAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16137069 original size:16 final size:16
Alignment explanation
Indices: 16137035--16137070 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16137025 GAATGAAATT
* *
16137035 ATTTTAAAAAATTATA
1 ATTTTAAAAAAATAAA
16137051 ATTTTAAAAAAATAAA
1 ATTTTAAAAAAATAAA
16137067 ATTT
1 ATTT
16137071 AGATATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTTAAAAAAATAAA
Found at i:16137465 original size:20 final size:21
Alignment explanation
Indices: 16137413--16137465 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
16137403 CAAAAAGTTA
*
16137413 AATATTATAAATAGTTTTAAAT
1 AATATT-TAAATAGTTTAAAAT
* * *
16137435 TATAATAAAATA-TTTAAAAT
1 AATATTTAAATAGTTTAAAAT
16137455 AATATTTAAAT
1 AATATTTAAAT
16137466 TAAAAATTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 15 0.62
21 5 0.21
22 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AATATTTAAATAGTTTAAAAT
Found at i:16139244 original size:21 final size:21
Alignment explanation
Indices: 16139179--16139257 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
16139169 TTGAATTCAA
16139179 ATTTTAAATTAATTAAA-TAT
1 ATTTTAAATTAATTAAATTAT
*
16139199 AATTTTTAAA--AAAT-AATTAT
1 -A-TTTTAAATTAATTAAATTAT
16139219 A---TAAATTAATTAAATTAT
1 ATTTTAAATTAATTAAATTAT
* *
16139237 ATTTTAAATTTATTCAATTAT
1 ATTTTAAATTAATTAAATTAT
16139258 TAATTTGACT
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
15 4 0.09
17 3 0.07
18 7 0.15
19 3 0.07
20 6 0.13
21 16 0.35
22 7 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTAAATTAATTAAATTAT
Found at i:16139871 original size:61 final size:63
Alignment explanation
Indices: 16139754--16139887 Score: 148
Period size: 62 Copynumber: 2.2 Consensus size: 63
16139744 TTAGAAGAAG
**
16139754 ATTATTTAAGGTATTTTTTATCTAAAAATGCTTTAAATAATCCCTTAAAAAATTTTA-AATGC
1 ATTATTTAAGGTATTTTTTATCTAAAAATGCTTTAAATAATAACTTAAAAAATTTTAGAATGC
* * ** ** * *
16139816 ATTATTTAATGTATTTTTTATC-AAAAAT-ATCTTAAATAATAACTTTCAATTTTTTAGATTGT
1 ATTATTTAAGGTATTTTTTATCTAAAAATGCT-TTAAATAATAACTTAAAAAATTTTAGAATGC
16139878 ATTATTTAAG
1 ATTATTTAAG
16139888 CTTAAATAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 1 0.02
61 25 0.42
62 33 0.56
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (63 bp):
ATTATTTAAGGTATTTTTTATCTAAAAATGCTTTAAATAATAACTTAAAAAATTTTAGAATGC
Found at i:16142577 original size:70 final size:69
Alignment explanation
Indices: 16142428--16143010 Score: 400
Period size: 70 Copynumber: 8.2 Consensus size: 69
16142418 ATAAGTATTG
* * *
16142428 CATTTTTAAGATAAAAAAACATAATTA-ATGTTGAAACTATATTTTTGAAAA-TTTAAAATTTTA
1 CATTTTTAAGAT--AAAAA-AT-ATTAGATGTTAAAACTATA-TTTTCAAAATTTTGAAA-TTTA
16142491 ACAAAAATCA
60 ACAAAAATCA
* * * *
16142501 CATTTTTACGATAAAAAATATTAGATGTTGAAATTTTATTTTCAAAATTTTGAAATTTAACAAAA
1 CATTTTTAAGATAAAAAATATTAGATGTTAAAACTATATTTTCAAAATTTTGAAATTTAACAAAA
*
16142566 ATCG
66 ATCA
* * * * * * * *
16142570 CATTTTTTAGATAAAAACATAGTGGATATTGAAACTATATTTTCATAATTCTAT-AATTTTAATA
1 CATTTTTAAGATAAAAA-ATATTAGATGTTAAAACTATATTTTCAAAATT-T-TGAAATTTAACA
*
16142634 AAGACTACA
63 AA-AAT-CA
* * * * * * *
16142643 TATTTTTTAGATAAAAAACCTAATGGATGTTAAAACTTTATTTTCAAAATTCT-AAA---ATCAA
1 CATTTTTAAGATAAAAAA--TATTAGATGTTAAAACTATATTTTCAAAATTTTGAAATTTAACAA
16142704 AAAT-A
64 AAATCA
* * * * * * * * *
16142709 CATTTTAAAGATAAAAACGTAATGGATATTGAAACTATATTTTCAAAATTCTGAATTTTAATAAA
1 CATTTTTAAGATAAAAA-ATATTAGATGTTAAAACTATATTTTCAAAATTTTGAAATTTAACAAA
* **
16142774 GATTG
65 AATCA
* *
16142779 TATTTTTAAGATAAAAAAT-GTAGTGAATGTTAAAACTATATTTTCAAAATTTTGAAATTTAACA
1 CATTTTTAAGATAAAAAATATTA--G-ATGTTAAAACTATATTTTCAAAATTTTGAAATTTAACA
16142843 AAAATCA
63 AAAATCA
* * * *
16142850 CGTTTTCAAAAT-AAAAATGTGATAGATGTTAAAACTATATTTTCAAAATTTTGAAACTTTAACA
1 CATTTTTAAGATAAAAAATAT--TAGATGTTAAAACTATATTTTCAAAATTTTGAAA-TTTAACA
*
16142914 AAGA-CA
63 AAAATCA
* * *
16142920 GCATGTTTAAGATAAAACAAAATATT-GAATGTTAAAACTTTATTTTCAAAATTATGAAATTTTA
1 -CATTTTTAAGAT--AA-AAAATATTAG-ATGTTAAAACTATATTTTCAAAATTTTGAAA-TTTA
* *
16142984 GCAAAAATTA
60 ACAAAAATCA
16142994 CA-TTTTATAGATAAAAA
1 CATTTTTA-AGATAAAAA
16143011 TTTAGTCTTT
Statistics
Matches: 408, Mismatches: 72, Indels: 63
0.75 0.13 0.12
Matches are distributed among these distances:
65 30 0.07
66 17 0.04
68 3 0.01
69 51 0.12
70 104 0.25
71 82 0.20
72 12 0.03
73 75 0.18
74 28 0.07
75 6 0.01
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (69 bp):
CATTTTTAAGATAAAAAATATTAGATGTTAAAACTATATTTTCAAAATTTTGAAATTTAACAAAA
ATCA
Found at i:16143094 original size:37 final size:37
Alignment explanation
Indices: 16143045--16143121 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
16143035 CAAAATTAAA
* ** *
16143045 ATAAAATTTAAAATATTTTTACTTAATATTATTACAT
1 ATAAAATATAAAATACATTTACTAAATATTATTACAT
* *
16143082 ATAAAATATAAAATACATTTGCTAAATATTATTATAT
1 ATAAAATATAAAATACATTTACTAAATATTATTACAT
16143119 ATA
1 ATA
16143122 TAATTTGTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (37 bp):
ATAAAATATAAAATACATTTACTAAATATTATTACAT
Found at i:16143267 original size:37 final size:37
Alignment explanation
Indices: 16143224--16143304 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
16143214 GAAAATTAAA
* *
16143224 ATAAAATGTAAAATATCTTTACTTAATATTATTACAT
1 ATAAAATATAAAATATATTTACTTAATATTATTACAT
*
16143261 ATAAAATATAAAATATATTTACTTAATATTATTATAT
1 ATAAAATATAAAATATATTTACTTAATATTATTACAT
16143298 ATAAAAT
1 ATAAAAT
16143305 TTGTTCCAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (37 bp):
ATAAAATATAAAATATATTTACTTAATATTATTACAT
Found at i:16144427 original size:2 final size:2
Alignment explanation
Indices: 16144420--16144451 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16144410 TTTGATGGAA
*
16144420 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16144452 GGATTTGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16146549 original size:62 final size:59
Alignment explanation
Indices: 16146460--16146687 Score: 188
Period size: 62 Copynumber: 3.7 Consensus size: 59
16146450 TTTTTGGAAG
* * ** **
16146460 ATTATTTGAAGCATTTTTTACCAAAAAACACCTTAAATAATGTTGATTAATTTTTTGTGAGA
1 ATTATTT-AAGCA-TTTTTAGCTAAAAATGCCTTAAATAATCATG-TTAATTTTTTGTGAGA
* * * *
16146522 ATTATTTAAGGCATTTTCTAGCTAAAAATGTCTTAACTAATCATGGTCAATTTTTTGTAAGA
1 ATTATTTAA-GCATTTT-TAGCTAAAAATGCCTTAAATAATCAT-GTTAATTTTTTGTGAGA
* * *
16146584 GATTATTTTAAGCATTTTTTGTCTAAAAATGCCTTAAATAATCATGTTCAATTTTTT-AGAGG
1 -ATTA-TTTAAGCATTTTTAG-CTAAAAATGCCTTAAATAATCATGTT-AATTTTTTGTGAGA
* * * *
16146646 ATTATTTAAGATATTTTTGGTCAAAAAATGACTTAAATAATC
1 ATTATTTAAG-CATTTTTAG-CTAAAAATGCCTTAAATAATC
16146688 CCCTAAAAAA
Statistics
Matches: 137, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
60 6 0.04
61 37 0.27
62 48 0.35
63 41 0.30
64 5 0.04
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (59 bp):
ATTATTTAAGCATTTTTAGCTAAAAATGCCTTAAATAATCATGTTAATTTTTTGTGAGA
Found at i:16146599 original size:63 final size:62
Alignment explanation
Indices: 16146490--16146687 Score: 197
Period size: 63 Copynumber: 3.2 Consensus size: 62
16146480 CCAAAAAACA
** * * *
16146490 CCTTAAATAATGTTGATTAATTTTTTGTGAGAATTATTTAAGGCATTTTCTAG-CTAAAAATG
1 CCTTAAATAATCATGGTCAATTTTTTGTAAGAATTATTTAAGGCATTTT-TAGTCTAAAAATG
* * *
16146552 TCTTAACTAATCATGGTCAATTTTTTGTAAGAGATTATTTTAA-GCATTTTTTGTCTAAAAATG
1 CCTTAAATAATCATGGTCAATTTTTTGTAAGA-ATTA-TTTAAGGCATTTTTAGTCTAAAAATG
* * ** * *
16146615 CCTTAAATAATCATGTTCAA-TTTTT-TAGAGGATTATTTAAGATATTTTTGGTCAAAAAATG
1 CCTTAAATAATCATGGTCAATTTTTTGTA-AGAATTATTTAAGGCATTTTTAGTCTAAAAATG
*
16146676 ACTTAAATAATC
1 CCTTAAATAATC
16146688 CCCTAAAAAA
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
60 5 0.04
61 33 0.29
62 34 0.30
63 37 0.32
64 5 0.04
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (62 bp):
CCTTAAATAATCATGGTCAATTTTTTGTAAGAATTATTTAAGGCATTTTTAGTCTAAAAATG
Found at i:16146681 original size:61 final size:62
Alignment explanation
Indices: 16146449--16146687 Score: 190
Period size: 63 Copynumber: 3.9 Consensus size: 62
16146439 CTTATAAGAT
* * ** * ** * *
16146449 TTTTTTGGA-AGATTATTTGAAGCATTTTTTACCAAAAAA-CACCTTAAATAATGTTGATTAA
1 TTTTTTGAAGAGATTATTTTAAGCATTTTTTGTCAAAAAATGA-CTTAAATAATCATGGTCAA
* * * * *
16146510 TTTTTTG-TGAGAATTA-TTTAAGGCATTTTCTAG-CTAAAAATGTCTTAACTAATCATGGTCAA
1 TTTTTTGAAGAG-ATTATTTTAA-GCATTTT-TTGTCAAAAAATGACTTAAATAATCATGGTCAA
* * *
16146572 TTTTTTGTAAGAGATTATTTTAAGCATTTTTTGTCTAAAAATGCCTTAAATAATCATGTTCAA
1 TTTTTTG-AAGAGATTATTTTAAGCATTTTTTGTCAAAAAATGACTTAAATAATCATGGTCAA
16146635 TTTTTT--AGAGGATTA-TTTAAG-ATATTTTTGGTCAAAAAATGACTTAAATAATC
1 TTTTTTGAAGA-GATTATTTTAAGCAT-TTTTT-GTCAAAAAATGACTTAAATAATC
16146688 CCCTAAAAAA
Statistics
Matches: 147, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
59 2 0.01
60 14 0.10
61 39 0.27
62 40 0.27
63 44 0.30
64 8 0.05
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (62 bp):
TTTTTTGAAGAGATTATTTTAAGCATTTTTTGTCAAAAAATGACTTAAATAATCATGGTCAA
Found at i:16147896 original size:20 final size:20
Alignment explanation
Indices: 16147842--16147907 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
16147832 AAAAACGATG
* **
16147842 TTTTTAAGATAGAAAACACAA
1 TTTTTAAGATA-AAAATAGTA
*
16147863 TTTTTATTGA-AAAAATAGTA
1 TTTTTA-AGATAAAAATAGTA
16147883 TTTTTAAGATAAAAAT-GTA
1 TTTTTAAGATAAAAATAGTA
16147902 GTTTTT
1 -TTTTT
16147908 GTTAAACACA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.14
20 23 0.62
21 7 0.19
22 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (20 bp):
TTTTTAAGATAAAAATAGTA
Found at i:16147991 original size:34 final size:34
Alignment explanation
Indices: 16147926--16147992 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
16147916 CATGAAAAGA
* * *
16147926 TATATTTTTCAGAATTCAACAAAGATAATATTTC
1 TATAGTTTTCAGAATTCAACAAAAACAATATTTC
* * *
16147960 TATAGTTTTCAGAATTTAATAAAAACGATATTT
1 TATAGTTTTCAGAATTCAACAAAAACAATATTT
16147993 TAAAGATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (34 bp):
TATAGTTTTCAGAATTCAACAAAAACAATATTTC
Found at i:16148257 original size:36 final size:35
Alignment explanation
Indices: 16148182--16148262 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 35
16148172 ATATGAACAA
* * * *
16148182 ATAAAATGTAAAATATTTTTTTAATATTATTACAT
1 ATAAAATTTAAAATAATTTCTTAATATTATTACAC
* *
16148217 ATAAAATTTAAAATACATTTCTTATTATTATTATAC
1 ATAAAATTTAAAATA-ATTTCTTAATATTATTACAC
16148253 ATAAAATTTA
1 ATAAAATTTA
16148263 TTCTGGTGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 14 0.36
36 25 0.64
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (35 bp):
ATAAAATTTAAAATAATTTCTTAATATTATTACAC
Found at i:16149053 original size:22 final size:23
Alignment explanation
Indices: 16149028--16149073 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
16149018 ATTTGAAGAC
*
16149028 AAAATGAAAGCA-CAAAAGAGTG
1 AAAATCAAAGCAGCAAAAGAGTG
* *
16149050 AAAATCAAAGGAGCAGAAGAGTG
1 AAAATCAAAGCAGCAAAAGAGTG
16149073 A
1 A
16149074 GGAGGATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.57, C:0.09, G:0.26, T:0.09
Consensus pattern (23 bp):
AAAATCAAAGCAGCAAAAGAGTG
Found at i:16149973 original size:46 final size:46
Alignment explanation
Indices: 16149910--16150006 Score: 169
Period size: 46 Copynumber: 2.1 Consensus size: 46
16149900 TTTATGTAGC
*
16149910 ATAATAATTACTCAAAGTTTTATG-TAAGTAAATTTATATAACATGT
1 ATAATAATTACTCAAAGTTCTATGCT-AGTAAATTTATATAACATGT
16149956 ATAATAATTACTCAAAGTTCTATGCTAGTAAATTTATATAACATGT
1 ATAATAATTACTCAAAGTTCTATGCTAGTAAATTTATATAACATGT
16150002 ATAAT
1 ATAAT
16150007 TTACATCTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 48 0.98
47 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.40
Consensus pattern (46 bp):
ATAATAATTACTCAAAGTTCTATGCTAGTAAATTTATATAACATGT
Found at i:16151201 original size:16 final size:16
Alignment explanation
Indices: 16151161--16151193 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16151151 TAGCTACGAA
*
16151161 AATGAGAAGAAATCTT
1 AATGAAAAGAAATCTT
16151177 AATGAAAAGAAATCTT
1 AATGAAAAGAAATCTT
16151193 A
1 A
16151194 CTTGAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.24
Consensus pattern (16 bp):
AATGAAAAGAAATCTT
Found at i:16154316 original size:18 final size:18
Alignment explanation
Indices: 16154293--16154327 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16154283 TTAATATATA
16154293 TTTTAAT-TAATTTTTTAT
1 TTTTAATAT-ATTTTTTAT
16154311 TTTTAATATATTTTTTA
1 TTTTAATATATTTTTTA
16154328 AAATGTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTAATATATTTTTTAT
Found at i:16154431 original size:18 final size:17
Alignment explanation
Indices: 16154401--16154435 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16154391 TTATCCGCAC
16154401 AAATAACAATAAATAAT
1 AAATAACAATAAATAAT
*
16154418 AAATAAACAGTAAATAAT
1 AAAT-AACAATAAATAAT
16154436 GTAATGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (17 bp):
AAATAACAATAAATAAT
Found at i:16160503 original size:62 final size:62
Alignment explanation
Indices: 16160429--16160564 Score: 204
Period size: 62 Copynumber: 2.2 Consensus size: 62
16160419 CCCGGACCAG
* ** *
16160429 TTTAAGTAGATTTATTTACATTGATTTTAGCAAATTTTTGAGAAATTACTTTTCACAATTTC
1 TTTAAGTAGATTTATTTACATCGATAATAGCAAATTCTTGAGAAATTACTTTTCACAATTTC
* *
16160491 TTTAAGTAGATTTATTTACGTCGATAATAGCAAATTCTTGAGAAATTACTTTTCACAGTTTC
1 TTTAAGTAGATTTATTTACATCGATAATAGCAAATTCTTGAGAAATTACTTTTCACAATTTC
16160553 -TTAA-TAGATTTA
1 TTTAAGTAGATTTA
16160565 GATTCAAGCA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 8 0.12
61 4 0.06
62 56 0.82
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (62 bp):
TTTAAGTAGATTTATTTACATCGATAATAGCAAATTCTTGAGAAATTACTTTTCACAATTTC
Found at i:16166243 original size:32 final size:31
Alignment explanation
Indices: 16166203--16166312 Score: 98
Period size: 32 Copynumber: 3.5 Consensus size: 31
16166193 CTTGCTTTTT
*
16166203 TATAAATATAAAAATTCCTATATTTATATTA
1 TATAAATATAAAAATTCATATATTTATATTA
* *
16166234 TATAGAATATTAAAATTTATATATTTATATTA
1 TATA-AATATAAAAATTCATATATTTATATTA
** * *
16166266 TATTTTACATAAAAA-TAATATA-TTATAATTTA
1 TA-TAAATATAAAAATTCATATATTTAT-A-TTA
*
16166298 TATTAATATAAAAAT
1 TATAAATATAAAAAT
16166313 AAAATATATT
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
30 4 0.06
31 21 0.33
32 38 0.59
33 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (31 bp):
TATAAATATAAAAATTCATATATTTATATTA
Found at i:16166287 original size:31 final size:32
Alignment explanation
Indices: 16166252--16166333 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 32
16166242 ATTAAAATTT
*
16166252 ATATATTTAT-A-TTATATTTTACATAAAAATA
1 ATATATTTATAATTTATA-TTAACATAAAAATA
*
16166283 ATATA-TTATAATTTATATTAATATAAAAATAAA
1 ATATATTTATAATTTATATTAACATAAAAAT--A
*
16166316 ATATATTTTTTAATTTAT
1 ATATA-TTTATAATTTAT
16166334 TAAATTCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 4 0.10
31 17 0.40
32 5 0.12
33 6 0.14
35 10 0.24
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATATTTATAATTTATATTAACATAAAAATA
Found at i:16166308 original size:25 final size:24
Alignment explanation
Indices: 16166224--16166308 Score: 63
Period size: 25 Copynumber: 3.6 Consensus size: 24
16166214 AAATTCCTAT
*
16166224 ATTTATATTATATAGA-ATATTAAA
1 ATTTATATTATATA-ATATATTATA
16166248 ATTTATA-TAT-T--TATATTATA
1 ATTTATATTATATAATATATTATA
* * * *
16166268 TTTTACATAAAAATAATATATTATA
1 ATTTATAT-TATATAATATATTATA
16166293 ATTTATATTAATATAA
1 ATTTATATT-ATATAA
16166309 AAATAAAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 13
0.67 0.13 0.19
Matches are distributed among these distances:
20 12 0.27
22 2 0.04
23 4 0.09
24 7 0.16
25 20 0.44
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
ATTTATATTATATAATATATTATA
Found at i:16167369 original size:24 final size:24
Alignment explanation
Indices: 16167340--16167387 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
16167330 TTCTCTACTC
*
16167340 TTATTTTTCACCATTGCAGCTTCT
1 TTATTTTTCACCATGGCAGCTTCT
16167364 TTATTTTTCACCATGGCAGCTTCT
1 TTATTTTTCACCATGGCAGCTTCT
16167388 CACTCCTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.25, G:0.10, T:0.48
Consensus pattern (24 bp):
TTATTTTTCACCATGGCAGCTTCT
Found at i:16171306 original size:15 final size:15
Alignment explanation
Indices: 16171282--16171313 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16171272 TGATGTAGCG
16171282 TTTATGTTTTAATAA
1 TTTATGTTTTAATAA
*
16171297 TTTATTTTTTAATAA
1 TTTATGTTTTAATAA
16171312 TT
1 TT
16171314 AGTGTCATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTATGTTTTAATAA
Found at i:16173146 original size:24 final size:24
Alignment explanation
Indices: 16173119--16173166 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16173109 ACATTTCACT
*
16173119 AAATAAAAATAGAAGAA-ATTAAAA
1 AAATAAAAATA-AAAAAGATTAAAA
16173143 AAATAAAAATAAAAAAGATTAAAA
1 AAATAAAAATAAAAAAGATTAAAA
16173167 GGATGTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (24 bp):
AAATAAAAATAAAAAAGATTAAAA
Found at i:16173403 original size:27 final size:27
Alignment explanation
Indices: 16173354--16173406 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16173344 ATTTATTGGA
**
16173354 TATTGATTATTTTTTAATTTTTATTTT
1 TATTGATTATTTTTTAAAATTTATTTT
16173381 TATTGATT-TTTTTATAAAATTTATTT
1 TATTGATTATTTTT-TAAAATTTATTT
16173407 AATTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (27 bp):
TATTGATTATTTTTTAAAATTTATTTT
Found at i:16175159 original size:38 final size:38
Alignment explanation
Indices: 16175117--16175190 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
16175107 TAAGATATTA
* *
16175117 TTTATTCTGATTTCTT-TAATTTTACGATTTTATTTTTT
1 TTTATTCTGATTT-TTCTAACTTTACAATTTTATTTTTT
* *
16175155 TTTATTTTGATTTTTCTAACTTTATAATTTTATTTT
1 TTTATTCTGATTTTTCTAACTTTACAATTTTATTTT
16175191 ATAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 2 0.06
38 29 0.94
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (38 bp):
TTTATTCTGATTTTTCTAACTTTACAATTTTATTTTTT
Found at i:16175209 original size:38 final size:38
Alignment explanation
Indices: 16175167--16175241 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
16175157 TATTTTGATT
16175167 TTTCTAACTTTATAATTTTATTTTATAAAAAATATTTA
1 TTTCTAACTTTATAATTTTATTTTATAAAAAATATTTA
16175205 TTTCTAACTTTATAATTTTATTTTATAAAAAATATTT
1 TTTCTAACTTTATAATTTTATTTTATAAAAAATATTT
16175242 TAAAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (38 bp):
TTTCTAACTTTATAATTTTATTTTATAAAAAATATTTA
Found at i:16176545 original size:34 final size:34
Alignment explanation
Indices: 16176502--16176569 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
16176492 TGGATTCTAT
16176502 AAAGAAAAAATGATAAATGGTGTTAAAATTGTAA
1 AAAGAAAAAATGATAAATGGTGTTAAAATTGTAA
16176536 AAAGAAAAAATGATAAATGGTGTTAAAATTGTAA
1 AAAGAAAAAATGATAAATGGTGTTAAAATTGTAA
16176570 CTTTAAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (34 bp):
AAAGAAAAAATGATAAATGGTGTTAAAATTGTAA
Found at i:16177449 original size:16 final size:16
Alignment explanation
Indices: 16177428--16177462 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16177418 TCTCCCTTTC
16177428 TTTTATGTTATATTAT
1 TTTTATGTTATATTAT
* *
16177444 TTTTATTTTGTATTAT
1 TTTTATGTTATATTAT
16177460 TTT
1 TTT
16177463 GAGCATTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTATGTTATATTAT
Found at i:16179921 original size:21 final size:21
Alignment explanation
Indices: 16179895--16179939 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
16179885 TGTTTGGTAG
16179895 ATAAAAT-TATTATAAAATAAA
1 ATAAAATATATTAT-AAATAAA
*
16179916 ATAAAATGATATTATGAATAAA
1 ATAAAAT-ATATTATAAATAAA
16179938 AT
1 AT
16179940 GATATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAAAATATATTATAAATAAA
Found at i:16181605 original size:16 final size:16
Alignment explanation
Indices: 16181558--16181607 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
16181548 AGCAATGTGA
16181558 TTTATTCTTAATAGGT
1 TTTATTCTTAATAGGT
*
16181574 TTTA-TC-T-AT-CGT
1 TTTATTCTTAATAGGT
16181586 TTTATTCTTAATAGGT
1 TTTATTCTTAATAGGT
16181602 TTTATT
1 TTTATT
16181608 TTTTTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 2 0.07
15 4 0.14
16 12 0.43
ACGTcount: A:0.22, C:0.08, G:0.10, T:0.60
Consensus pattern (16 bp):
TTTATTCTTAATAGGT
Found at i:16182349 original size:18 final size:17
Alignment explanation
Indices: 16182319--16182353 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16182309 TTATCCGCAC
16182319 AAATAACAATAAATAAT
1 AAATAACAATAAATAAT
*
16182336 AAATAAACAGTAAATAAT
1 AAAT-AACAATAAATAAT
16182354 GTAATGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (17 bp):
AAATAACAATAAATAAT
Found at i:16183059 original size:69 final size:69
Alignment explanation
Indices: 16182948--16183085 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
16182938 GAACGAATGA
* *
16182948 GATTATACCAATTTGCAGGATTTGATGACTTTGTCCAATCAATTAATAATGTCCATTATTTATAG
1 GATTATACCAAATTGCAGGATTTGATGACTTTGTCAAATCAATTAATAATGTCCATTATTTATAG
16183013 AGTT
66 AGTT
16183017 GATTATACCAAATTGCAGGATTTGATGACTTTGTCAAATCAATTAATAATGTCCATTATTTATAG
1 GATTATACCAAATTGCAGGATTTGATGACTTTGTCAAATCAATTAATAATGTCCATTATTTATAG
16183082 AGTT
66 AGTT
16183086 CGAATGGCGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (69 bp):
GATTATACCAAATTGCAGGATTTGATGACTTTGTCAAATCAATTAATAATGTCCATTATTTATAG
AGTT
Found at i:16183170 original size:32 final size:32
Alignment explanation
Indices: 16183129--16183191 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
16183119 AGCAAGCAAG
16183129 AACCATGGATGGATGAGATAATGCCAAATTGC
1 AACCATGGATGGATGAGATAATGCCAAATTGC
16183161 AACCATGGATGGATGAGATAATGCCAAATTG
1 AACCATGGATGGATGAGATAATGCCAAATTG
16183192 AAAGGTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (32 bp):
AACCATGGATGGATGAGATAATGCCAAATTGC
Found at i:16183206 original size:82 final size:82
Alignment explanation
Indices: 16183107--16183273 Score: 334
Period size: 82 Copynumber: 2.0 Consensus size: 82
16183097 AGCATAGAGT
16183107 TTGAAAGGTAAGAGCAAGCAAGAACCATGGATGGATGAGATAATGCCAAATTGCAACCATGGATG
1 TTGAAAGGTAAGAGCAAGCAAGAACCATGGATGGATGAGATAATGCCAAATTGCAACCATGGATG
16183172 GATGAGATAATGCCAAA
66 GATGAGATAATGCCAAA
16183189 TTGAAAGGTAAGAGCAAGCAAGAACCATGGATGGATGAGATAATGCCAAATTGCAACCATGGATG
1 TTGAAAGGTAAGAGCAAGCAAGAACCATGGATGGATGAGATAATGCCAAATTGCAACCATGGATG
16183254 GATGAGATAATGCCAAA
66 GATGAGATAATGCCAAA
16183271 TTG
1 TTG
16183274 CAGAATTTGA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 85 1.00
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (82 bp):
TTGAAAGGTAAGAGCAAGCAAGAACCATGGATGGATGAGATAATGCCAAATTGCAACCATGGATG
GATGAGATAATGCCAAA
Found at i:16183252 original size:32 final size:32
Alignment explanation
Indices: 16183211--16183275 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
16183201 AGCAAGCAAG
16183211 AACCATGGATGGATGAGATAATGCCAAATTGC
1 AACCATGGATGGATGAGATAATGCCAAATTGC
16183243 AACCATGGATGGATGAGATAATGCCAAATTGC
1 AACCATGGATGGATGAGATAATGCCAAATTGC
16183275 A
1 A
16183276 GAATTTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (32 bp):
AACCATGGATGGATGAGATAATGCCAAATTGC
Found at i:16183900 original size:27 final size:27
Alignment explanation
Indices: 16183869--16183920 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
16183859 TAAAATTATT
*
16183869 ATAAAATAAGATAAAATGATATTATGA
1 ATAAAATAAGATAAAATAATATTATGA
* * *
16183896 ATAAAATTATATTAAATAATATTAT
1 ATAAAATAAGATAAAATAATATTAT
16183921 CATATCTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (27 bp):
ATAAAATAAGATAAAATAATATTATGA
Found at i:16189893 original size:150 final size:147
Alignment explanation
Indices: 16189584--16190022 Score: 542
Period size: 143 Copynumber: 3.0 Consensus size: 147
16189574 TTACAAACAC
* * *
16189584 CAATATAATACAGGAAACATTACAGTATGATAACTATGCTTGTTAAAAAAAAAAAAAACTTGATC
1 CAATCTAATACAGAAAACATTACAGTATGATAACTATGCATGTT-----AAAAAAAAACTTGAT-
* * * **
16189649 AAAACATCTCTTCTGAATTCTTCAATTGAACTACAAATGA-T-T----T-TATCTATTAACTCGT
60 TAAACATTTCTTCTGAATTCTTCAATTGAACTACAAATAACTCTACGATCTATCTATTAACTCAC
16189707 GAATTTTGCCATACTATTTGAAG
125 GAATTTTGCCATACTATTTGAAG
* * * *
16189730 CAATCCAATACAGAAAACATTACAGTATGATAACCATGGATGTTCAAAAAAAATCTTGATTGAAA
1 CAATCTAATACAGAAAACATTACAGTATGATAACTATGCATGTT-AAAAAAAAACTTGATT-AAA
* * * *
16189795 CATTTGTTCTGAATTCTTCAATTGAACTACAAATAACTCTACGATCCTAACCATTAACTCACAAA
64 CATTTCTTCTGAATTCTTCAATTGAACTACAAATAACTCTACGAT-CTATCTATTAACTCACGAA
16189860 TTTTGCCATACTATTTGAAG
128 TTTTGCCATACTATTTGAAG
*
16189880 CAATCTAATACAGAAAACATTACAGTATGATAACTATGCATGTT--AAAAAAGCTTGATT---CA
1 CAATCTAATACAGAAAACATTACAGTATGATAACTATGCATGTTAAAAAAAAACTTGATTAAACA
16189940 TTTCTTCTGAATTCTTCAATTGAACTACAAATAACTCTACGATTCTATCTATTAACTCACGAATT
66 TTTCTTCTGAATTCTTCAATTGAACTACAAATAACTCTACGA-TCTATCTATTAACTCACGAATT
*
16190005 TTGTCATACTATTTGAAG
130 TTGCCATACTATTTGAAG
16190023 TCAACCAACC
Statistics
Matches: 257, Mismatches: 26, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
142 50 0.19
143 79 0.31
144 2 0.01
146 38 0.15
147 13 0.05
148 1 0.00
150 74 0.29
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (147 bp):
CAATCTAATACAGAAAACATTACAGTATGATAACTATGCATGTTAAAAAAAAACTTGATTAAACA
TTTCTTCTGAATTCTTCAATTGAACTACAAATAACTCTACGATCTATCTATTAACTCACGAATTT
TGCCATACTATTTGAAG
Found at i:16190985 original size:12 final size:12
Alignment explanation
Indices: 16190969--16190998 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16190959 TTATAAATTG
16190969 ATTTAATAAAAA
1 ATTTAATAAAAA
*
16190981 TTTTAATAAAAA
1 ATTTAATAAAAA
16190993 ATTTAA
1 ATTTAA
16190999 ATGAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:16194195 original size:59 final size:58
Alignment explanation
Indices: 16194039--16194506 Score: 568
Period size: 58 Copynumber: 8.0 Consensus size: 58
16194029 TTTTGTGCAG
* *
16194039 GAAAAATTGATACTTTCAACTTTT-CTCCAAAAGTATTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAA--ATATTTTTTTGAAACTTTATTTTTAA
*
16194099 GGAAAAATTGATACTTTCAACTTTTTCTCAAAAAATATTTTTTTTGAAGA-TTTATTTTTAA
1 -GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTTGAA-ACTTTATTTTTAA
* *
16194160 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAAACCTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAA-CTTTATTTTTAA
* *** *
16194219 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTTAA
* * *
16194277 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAC-TTTATTTTTAA
* ** *
16194336 GAAAAATTAATACTTTCAACTTTTCCTCAAAAA-CCTTTTTTGAAATTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTTAA
* * * *
16194393 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTCTTTGAAACTTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTT-ATTTTTAA
* *** *
16194451 GAAAAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTTTGAAATTTTATTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTT
16194507 TTAAGGAAAA
Statistics
Matches: 357, Mismatches: 38, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
57 60 0.17
58 105 0.29
59 103 0.29
60 36 0.10
61 46 0.13
62 7 0.02
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.45
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTTAA
Found at i:16194293 original size:117 final size:116
Alignment explanation
Indices: 16194041--16194516 Score: 677
Period size: 117 Copynumber: 4.0 Consensus size: 116
16194031 TTGTGCAGGA
* * * *
16194041 AAAATTGATACTTTCAACTTTTCTCCAAAAGTATTTTTTTTTGAAAATTT-ATTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAA--A-TATTTTTTGAAACTTTGATTTTCAA-GAAAA
* *** * *
16194105 ATTGATACTTTCAACTTTTTCTCAAAAAATATTTTTTTTGAAGATTTATTTTTAAGA
62 ATTGATACTTTCAACTTTTCCTC-AAAAA-CCCTTTTTTGAAAATTTATTTTTAAGG
* * *
16194162 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACCTTGATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTG-AAACTTTGATTTTCAAGAAAAATT
16194227 GATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGG
65 GATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGG
*
16194279 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTTATTTTCAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAACTTTGATTTTCAAGAAAAATT
* *
16194344 AATACTTTCAACTTTTCCTCAAAAA-CCTTTTTTGAAATTTTATTTTTAAGG
65 GATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGG
*
16194395 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGAAACTTTGATTTTCAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTGATTTTCAAGAAAAATTG
* *
16194460 ATACTTTCAACTTTTTCTCAAAAACCCTTTTTTGAAATTTTATTTTTTTAAGG
66 ATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTA--TTTTTAAGG
16194513 AAAA
1 AAAA
16194517 AAAATAAAAC
Statistics
Matches: 326, Mismatches: 23, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
115 52 0.16
116 75 0.23
117 99 0.30
118 33 0.10
119 32 0.10
120 7 0.02
121 28 0.09
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTGATTTTCAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGG
Found at i:16194542 original size:24 final size:23
Alignment explanation
Indices: 16194514--16194595 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
16194504 TTTTTAAGGA
16194514 AAAAAAATAAAACAAAATAAAAGT
1 AAAAAAATAAAACAAAATAAAA-T
* *
16194538 GAAAAGAA-AAAATAAAATAAAAT
1 -AAAAAAATAAAACAAAATAAAAT
** * *
16194561 AAAAAAATAAAGGAAAGTAAAAA
1 AAAAAAATAAAACAAAATAAAAT
16194584 AAATAAAATAAA
1 AAA-AAAATAAA
16194596 TATAAAAAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 6 0.12
23 15 0.31
24 21 0.44
25 6 0.12
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.12
Consensus pattern (23 bp):
AAAAAAATAAAACAAAATAAAAT
Found at i:16194565 original size:18 final size:18
Alignment explanation
Indices: 16194513--16194608 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 18
16194503 TTTTTTAAGG
16194513 AAAA-AAAATAAAACAAAAT
1 AAAATAAAAT-AAA-AAAAT
*
16194532 AAAAGTGAAAA-GAAAAAAT
1 AAAA-T-AAAATAAAAAAAT
16194551 AAAATAAAATAAAAAAAT
1 AAAATAAAATAAAAAAAT
** *
16194569 AAAGGAAAGTAAAAAAAAT
1 AAAATAAAAT-AAAAAAAT
16194588 AAAATAAATATAAAAAGAAT
1 AAAATAAA-ATAAAAA-AAT
16194608 A
1 A
16194609 TTAAATAAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
17 4 0.06
18 15 0.24
19 32 0.52
20 7 0.11
22 4 0.06
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (18 bp):
AAAATAAAATAAAAAAAT
Found at i:16194572 original size:29 final size:30
Alignment explanation
Indices: 16194515--16194595 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
16194505 TTTTAAGGAA
* **
16194515 AAAAAATAAAACAAAATAAAAGTGAAAA-G
1 AAAAAATAAAATAAAATAAAAGAAAAAAGG
16194544 AAAAAATAAAATAAAATAAAA-AAATAAAGG
1 AAAAAATAAAATAAAATAAAAGAAA-AAAGG
*
16194574 AAAGTAAAAAAAATAAAATAAA
1 AAA--AAATAAAATAAAATAAA
16194596 TATAAAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
28 1 0.02
29 23 0.52
30 4 0.09
32 16 0.36
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.12
Consensus pattern (30 bp):
AAAAAATAAAATAAAATAAAAGAAAAAAGG
Found at i:16194600 original size:6 final size:5
Alignment explanation
Indices: 16194513--16194602 Score: 66
Period size: 5 Copynumber: 18.8 Consensus size: 5
16194503 TTTTTTAAGG
* * *
16194513 AAAA- AAAAT AAAAC AAAAT AAAAGT GAAA- AGAA- AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT
** *
16194561 -AAA- AAAAT AAAGG AAAGT AAAA- AAAAT AAAAT AAATAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAA
16194603 AGAATATTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
4 19 0.28
5 41 0.59
6 9 0.13
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:16194633 original size:4 final size:4
Alignment explanation
Indices: 16194626--16194670 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
16194616 AACCTAATCT
*
16194626 AATA AATA AATA AATA AAT- AATA AAT- AACA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
16194671 TCAAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 5 0.14
4 32 0.86
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:16194650 original size:11 final size:11
Alignment explanation
Indices: 16194589--16194668 Score: 65
Period size: 11 Copynumber: 6.9 Consensus size: 11
16194579 AAAAAAAATA
16194589 AAATAAAT-AT
1 AAATAAATAAT
* *
16194599 AAAAAGAATATT
1 AAATA-AATAAT
16194611 AAATAAACCTAAT
1 AAATAAA--TAAT
*
16194624 CTAATAAATAAAT
1 -AAATAAAT-AAT
16194637 AAATAAATAAT
1 AAATAAATAAT
16194648 AAATAACA-AAT
1 AAATAA-ATAAT
16194659 AAATAAATAA
1 AAATAAATAA
16194669 ATTCAAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
10 5 0.09
11 25 0.45
12 14 0.25
13 6 0.11
14 6 0.11
ACGTcount: A:0.69, C:0.05, G:0.01, T:0.25
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:16194650 original size:15 final size:15
Alignment explanation
Indices: 16194626--16194668 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
16194616 AACCTAATCT
*
16194626 AATAAATAAATAAATA
1 AATAAATAAAT-AACA
16194642 AAT-AATAAATAACA
1 AATAAATAAATAACA
16194656 AATAAATAAATAA
1 AATAAATAAATAA
16194669 ATTCAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 6 0.24
15 16 0.64
16 3 0.12
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAATAAATAACA
Found at i:16195128 original size:19 final size:19
Alignment explanation
Indices: 16195100--16195136 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16195090 TGACCGGAAT
16195100 TTTCGCCAAAAAATTCAAG
1 TTTCGCCAAAAAATTCAAG
*
16195119 TTTCGTCAAAAAATTCAA
1 TTTCGCCAAAAAATTCAA
16195137 CCGGAATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (19 bp):
TTTCGCCAAAAAATTCAAG
Found at i:16195531 original size:3 final size:3
Alignment explanation
Indices: 16195525--16195628 Score: 58
Period size: 3 Copynumber: 33.7 Consensus size: 3
16195515 TAAATAAAAA
* *
16195525 AAT AAT AAT AAT AAC AGAT ATAT AATT AGAT AAAT AAA AAT ACA- AA-
1 AAT AAT AAT AAT AAT A-AT A-AT AA-T A-AT -AAT AAT AAT A-AT AAT
*
16195571 AAT AAAT AA- AAT -AT AA- AAT AAT AAT AAT AAT AAT AAAT AAAT TAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT
16195616 AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AA
16195629 ATATATAACT
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
2 11 0.13
3 48 0.59
4 21 0.26
5 2 0.02
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:16195577 original size:4 final size:4
Alignment explanation
Indices: 16195554--16195705 Score: 83
Period size: 4 Copynumber: 38.2 Consensus size: 4
16195544 ATATAATTAG
*
16195554 ATAA AT-A A-AA ATACA A-AA ATAA ATAA A-AT ATAA A-ATA AT-A AT-A
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA
* * *
16195597 AT-A AT-A ATAA ATAA ATTATA ATATA AT-A ATAA ATAT ATAA CTAT ATAA
1 ATAA ATAA ATAA ATAA A-TA-A ATA-A ATAA ATAA ATAA ATAA ATAA ATAA
* *
16195645 ATAAA ATACA TATAA AT-A TTAA CAGAAA ATAA ATAA ATAA ATAA ATAA
1 AT-AA ATA-A -ATAA ATAA ATAA -A-TAA ATAA ATAA ATAA ATAA ATAA
16195693 ATAA ATAA ATAA A
1 ATAA ATAA ATAA A
16195706 GATATACATA
Statistics
Matches: 119, Mismatches: 12, Indels: 34
0.72 0.07 0.21
Matches are distributed among these distances:
3 26 0.22
4 69 0.58
5 17 0.14
6 7 0.06
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.28
Consensus pattern (4 bp):
ATAA
Found at i:16195596 original size:22 final size:23
Alignment explanation
Indices: 16195571--16195633 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
16195561 AAAATACAAA
16195571 AATAAATAA-AATATAAAATAAT
1 AATAAATAATAATATAAAATAAT
* *
16195593 AAT-AATAATAATAAATAAATTAT
1 AATAAATAATAATATA-AAATAAT
16195616 AATATAATAATAAATATA
1 AATA-AATAAT-AATATA
16195634 TAACTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.15
22 8 0.24
23 9 0.27
25 6 0.18
26 5 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAAATAATAATATAAAATAAT
Found at i:16195645 original size:65 final size:62
Alignment explanation
Indices: 16195523--16195785 Score: 168
Period size: 62 Copynumber: 4.1 Consensus size: 62
16195513 GATAAATAAA
* *
16195523 AAAATAATAATAATAACAGATATATAATTAGATAAATAAAAATACAAAAATAAATAAAATAT
1 AAAATAATAATAATAACAGATAAATAATTAAATAAATAAAAATACAAAAATAAATAAAATAT
* *
16195585 AAAATAATAATAATAATA-ATAAATAAATTATAATATAATAATAAATATATAACTATATAAATAA
1 AAAATAATAATAATAACAGATAAAT-AATTA-AATA-AATAA-AAATACA-AA--A-ATAAATAA
16195649 AATA-
58 AATAT
* * * * *
16195653 CATAT-A-AATATTAACAGA-AAATAAATAAATAAATAAATAAATA-AATAAATAAAGATATACA
1 AAAATAATAATAATAACAGATAAATAATTAAATAAAT-AA-AAATACAA-AAAT-AA-ATA-AAA
16195714 TAT
60 TAT
* * * * * * *
16195717 ATTAATACATAGTAATAAGAAATAAATAATAAAATACAT-AAAATAC-AAAAGAAA-AAAATA-
1 A-AAATA-ATAATAATAACAGATAAATAATTAAATAAATAAAAATACAAAAATAAATAAAATAT
16195777 AAAATAATA
1 AAAATAATA
16195786 CAAAATAGAA
Statistics
Matches: 157, Mismatches: 23, Indels: 46
0.69 0.10 0.20
Matches are distributed among these distances:
58 3 0.02
59 4 0.03
60 3 0.02
61 12 0.08
62 27 0.17
63 13 0.08
64 19 0.12
65 15 0.10
66 20 0.13
67 4 0.03
68 12 0.08
69 25 0.16
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (62 bp):
AAAATAATAATAATAACAGATAAATAATTAAATAAATAAAAATACAAAAATAAATAAAATAT
Found at i:16197286 original size:29 final size:28
Alignment explanation
Indices: 16197235--16197300 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
16197225 GAACAATACG
*
16197235 GATATATATGAATAAAAATGACTAACATT
1 GATATATATGAATAAAAACGACTAACA-T
***
16197264 GATATATATGAATAGGCACGACTAACAT
1 GATATATATGAATAAAAACGACTAACAT
16197292 GAATATATA
1 G-ATATATA
16197301 CAAAAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (28 bp):
GATATATATGAATAAAAACGACTAACAT
Found at i:16200929 original size:20 final size:21
Alignment explanation
Indices: 16200906--16200944 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16200896 TATTCTTTAA
*
16200906 TTTTAAA-TTATATTCAAAAC
1 TTTTAAACCTATATTCAAAAC
16200926 TTTTAAACCTATATTCAAA
1 TTTTAAACCTATATTCAAA
16200945 TATTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTAAACCTATATTCAAAAC
Found at i:16207985 original size:17 final size:17
Alignment explanation
Indices: 16207945--16208000 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
16207935 AAATAAAATT
*
16207945 ATTTTA-TTATAATTTA
1 ATTTTATTTATAATATA
* *
16207961 ATTCTATTTATAATATC
1 ATTTTATTTATAATATA
16207978 ATTTTATTT-T-ATCATA
1 ATTTTATTTATAAT-ATA
16207994 ATTTTAT
1 ATTTTAT
16208001 ATATTAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 2 0.06
16 15 0.45
17 16 0.48
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTATTTATAATATA
Found at i:16209947 original size:2 final size:2
Alignment explanation
Indices: 16209935--16209965 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16209925 ATCCCTCATT
*
16209935 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16209966 TAGTATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16210284 original size:21 final size:21
Alignment explanation
Indices: 16210248--16210290 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
16210238 ATAAACCGAA
16210248 TAAAATTTAACTTT-AAATGT
1 TAAAATTTAACTTTAAAATGT
16210268 TAAAATTTTAA-TCTTAAAATGT
1 TAAAA-TTTAACT-TTAAAATGT
16210290 T
1 T
16210291 TAAGTACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.30
21 7 0.35
22 7 0.35
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (21 bp):
TAAAATTTAACTTTAAAATGT
Found at i:16210290 original size:22 final size:20
Alignment explanation
Indices: 16210248--16210290 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
16210238 ATAAACCGAA
*
16210248 TAAAATTTAACTTTAAATGT
1 TAAAATTTAACTTAAAATGT
16210268 TAAAATTTTAATCTTAAAATGT
1 TAAAA-TTTAA-CTTAAAATGT
16210290 T
1 T
16210291 TAAGTACGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 5 0.25
22 10 0.50
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
TAAAATTTAACTTAAAATGT
Found at i:16212606 original size:2 final size:2
Alignment explanation
Indices: 16212599--16212628 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16212589 TTTTGCCATT
16212599 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16212629 AAATACAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16214450 original size:18 final size:18
Alignment explanation
Indices: 16214427--16214465 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
16214417 CTGTTGGAAA
*
16214427 AGGAGGAGGAGGTGGTGG
1 AGGAGGAGGAAGTGGTGG
16214445 AGGAGGAGGAAGTGGTGG
1 AGGAGGAGGAAGTGGTGG
16214463 AGG
1 AGG
16214466 TCGGGGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.64, T:0.10
Consensus pattern (18 bp):
AGGAGGAGGAAGTGGTGG
Found at i:16214575 original size:6 final size:6
Alignment explanation
Indices: 16214561--16214612 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
16214551 GCTTATGGTA
* * * * * *
16214561 GTGGAG GTGGGG GTGGAG GTGGTG GTGGTG GCGGAG GAGGTG GTGGAG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG
16214609 GTGG
1 GTGG
16214613 CTTTGGACCA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.10, C:0.02, G:0.69, T:0.19
Consensus pattern (6 bp):
GTGGAG
Found at i:16214613 original size:21 final size:21
Alignment explanation
Indices: 16214561--16214613 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
16214551 GCTTATGGTA
* *
16214561 GTGGAGGTGGGGGTGGAGGTG
1 GTGGAGGTGGCGGAGGAGGTG
*
16214582 GTGGTGGTGGCGGAGGAGGTG
1 GTGGAGGTGGCGGAGGAGGTG
16214603 GTGGAGGTGGC
1 GTGGAGGTGGC
16214614 TTTGGACCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.09, C:0.04, G:0.68, T:0.19
Consensus pattern (21 bp):
GTGGAGGTGGCGGAGGAGGTG
Found at i:16214701 original size:18 final size:18
Alignment explanation
Indices: 16214680--16214720 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
16214670 TGGGACAGGA
* *
16214680 GGTGGTGGAGGTGGCGGT
1 GGTGGTAGAGGAGGCGGT
*
16214698 GGTGGTAGAGGAGGTGGT
1 GGTGGTAGAGGAGGCGGT
16214716 GGTGG
1 GGTGG
16214721 GGTGGAGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.02, G:0.66, T:0.22
Consensus pattern (18 bp):
GGTGGTAGAGGAGGCGGT
Found at i:16214710 original size:21 final size:20
Alignment explanation
Indices: 16214686--16214728 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
16214676 AGGAGGTGGT
16214686 GGAGGTGGCGGTGGTGGTAGA
1 GGAGGTGGCGGTGG-GGTAGA
* *
16214707 GGAGGTGGTGGTGGGGTGGA
1 GGAGGTGGCGGTGGGGTAGA
16214727 GG
1 GG
16214729 CAATGGAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.12, C:0.02, G:0.67, T:0.19
Consensus pattern (20 bp):
GGAGGTGGCGGTGGGGTAGA
Found at i:16214713 original size:15 final size:16
Alignment explanation
Indices: 16214676--16214718 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
16214666 GTAGTGGGAC
16214676 AGGAGGTGGTGG-AGG
1 AGGAGGTGGTGGTAGG
* *
16214691 TGGCGGTGGTGGTA-G
1 AGGAGGTGGTGGTAGG
16214706 AGGAGGTGGTGGT
1 AGGAGGTGGTGGT
16214719 GGGGTGGAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.63, T:0.21
Consensus pattern (16 bp):
AGGAGGTGGTGGTAGG
Found at i:16214784 original size:18 final size:18
Alignment explanation
Indices: 16214740--16214793 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
16214730 AATGGAGGAG
* * *
16214740 GTGGGTCAGGCTATGGAT
1 GTGGGTCTGGATATGGAA
* * *
16214758 CTGGATCTGGGTATGGAA
1 GTGGGTCTGGATATGGAA
16214776 GTGGGTCTGGATATGGAA
1 GTGGGTCTGGATATGGAA
16214794 ACGGTGGTGG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.20, C:0.09, G:0.43, T:0.28
Consensus pattern (18 bp):
GTGGGTCTGGATATGGAA
Found at i:16214818 original size:9 final size:9
Alignment explanation
Indices: 16214806--16214839 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16214796 GGTGGTGGTA
16214806 GAGGTGGAG
1 GAGGTGGAG
16214815 GAGGTGGAG
1 GAGGTGGAG
*
16214824 AAGGTGGAG
1 GAGGTGGAG
*
16214833 GTGGTGG
1 GAGGTGG
16214840 TGGTGGCAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.65, T:0.15
Consensus pattern (9 bp):
GAGGTGGAG
Found at i:16215377 original size:29 final size:28
Alignment explanation
Indices: 16215345--16215407 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
16215335 TTATCTTATA
16215345 TTTTTA-ATAGTTT-ATTATTTTATAAATAT
1 TTTTTAGATA-TTTAATTATTTT-T-AATAT
16215374 TTTTTAGATATTTCAATTATTTTTAATAT
1 TTTTTAGATATTT-AATTATTTTTAATAT
16215403 TTTTT
1 TTTTT
16215408 CATATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
29 19 0.61
30 4 0.13
31 8 0.26
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTTTAGATATTTAATTATTTTTAATAT
Found at i:16215420 original size:28 final size:32
Alignment explanation
Indices: 16215357--16215420 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 32
16215347 TTTAATAGTT
* *
16215357 TATTATTTTATAAATATTTTTTAGATATTTCA
1 TATTATTTTATAAATATTTTTTACATATTTAA
16215389 -ATTATTTT-T-AATATTTTTT-CATA-TTAA
1 TATTATTTTATAAATATTTTTTACATATTTAA
16215416 TATTA
1 TATTA
16215421 AACAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 3 0.10
28 7 0.24
29 10 0.34
30 1 0.03
31 8 0.28
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (32 bp):
TATTATTTTATAAATATTTTTTACATATTTAA
Found at i:16220128 original size:11 final size:11
Alignment explanation
Indices: 16220114--16220141 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
16220104 CCGGCGACCA
16220114 TCCGGCCAACT
1 TCCGGCCAACT
16220125 TCCGGCCAACT
1 TCCGGCCAACT
16220136 TCCGGC
1 TCCGGC
16220142 GAAATTCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.46, G:0.21, T:0.18
Consensus pattern (11 bp):
TCCGGCCAACT
Found at i:16220157 original size:19 final size:19
Alignment explanation
Indices: 16220130--16220179 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
16220120 CAACTTCCGG
*
16220130 CCAACTTCCGGCGAAATTC
1 CCAAATTCCGGCGAAATTC
*
16220149 CCAAATTCCGGCGAAATTT
1 CCAAATTCCGGCGAAATTC
16220168 CCAGAA-TCCGGC
1 CCA-AATTCCGGC
16220180 ACCGGCGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 26 0.93
20 2 0.07
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (19 bp):
CCAAATTCCGGCGAAATTC
Found at i:16220408 original size:5 final size:5
Alignment explanation
Indices: 16220398--16220440 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
16220388 TTTCAGCCCT
*
16220398 CCGAG CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
16220441 CTCCAGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.21, C:0.44, G:0.35, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:16220474 original size:17 final size:17
Alignment explanation
Indices: 16220452--16220484 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16220442 TCCAGGTTTT
*
16220452 TTTTTTTTTTTTTTGAA
1 TTTTTTTTTTATTTGAA
16220469 TTTTTTTTTTATTTGA
1 TTTTTTTTTTATTTGA
16220485 CTTTGATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTATTTGAA
Found at i:16221128 original size:156 final size:156
Alignment explanation
Indices: 16220515--16221110 Score: 1147
Period size: 156 Copynumber: 3.8 Consensus size: 156
16220505 TTTTTCTTTA
* *
16220515 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACTCCT
16220580 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
65 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
16220645 AATTAATTAATTGGTTGATCTTGATTT
130 AATTAATTAATTGGTTGATCTTGATTT
16220672 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAG-TTTTTCTTGCATACTCCT
16220737 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
65 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
16220802 AATTAATTAATTGGTTGATCTTGATTT
130 AATTAATTAATTGGTTGATCTTGATTT
16220829 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
16220894 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
16220959 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
*
16220985 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
16221050 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
16221111 AACAACTAAC
Statistics
Matches: 435, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
156 244 0.56
157 191 0.44
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (156 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
ATTAATTAATTGGTTGATCTTGATTT
Found at i:16221648 original size:15 final size:15
Alignment explanation
Indices: 16221628--16221679 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 15
16221618 ATTTTACCAC
16221628 ATGGTAATCTTTACT
1 ATGGTAATCTTTACT
16221643 ATGGTAATCAAAATTATCACT
1 ATGGTAATC----TT-T-ACT
16221664 ATGGTAATCTTTACT
1 ATGGTAATCTTTACT
16221679 A
1 A
16221680 AAATTTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
15 13 0.42
16 1 0.03
17 2 0.06
19 2 0.06
20 1 0.03
21 12 0.39
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (15 bp):
ATGGTAATCTTTACT
Found at i:16225280 original size:20 final size:16
Alignment explanation
Indices: 16225267--16225296 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16225257 TATTATAATT
16225267 AATAT-AAATATATTA
1 AATATAAAATATATTA
16225282 AATATAAAATATATT
1 AATATAAAATATATT
16225297 TTATTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAAAATATATTA
Found at i:16233583 original size:37 final size:36
Alignment explanation
Indices: 16233501--16233581 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 36
16233491 ACAAAATATC
* *
16233501 ATAAAAATTTTCTAAAAATCATAAAAATTAAAAACT
1 ATAAAAATTTTATAAAAATCATAAAAATTAAAAACA
16233537 ATGAAAAATTTTATAAAAATTC-TAAAAATATTAAAAACA
1 AT-AAAAATTTTATAAAAA-TCAT-AAAA-ATTAAAAACA
16233576 ATAAAA
1 ATAAAA
16233582 TTAAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 2 0.05
37 16 0.41
38 10 0.26
39 11 0.28
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (36 bp):
ATAAAAATTTTATAAAAATCATAAAAATTAAAAACA
Done.