Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 9 of 131
Found at i:2138159 original size:68 final size:68
Alignment explanation
Indices: 2138048--2138181 Score: 169
Period size: 68 Copynumber: 2.0 Consensus size: 68
2138038 TAAATTTTTT
* * *
2138048 TTTAATACCGACGTTCAAGCACATAGAGTTGATGAATGAGATCAACCTCCGATCTGCCAACAATC
1 TTTAATACCGACGTTCAAGCACATAAAATTAATGAATGAGATCAACCTCCGATCTGCCAACAATC
2138113 TCC
66 TCC
* * * * * * * *
2138116 TTTAATATCGATGTTCAAGTACATAAAATTAATGGATGCGATCAACCTCTGATCTGTCAATAATC
1 TTTAATACCGACGTTCAAGCACATAAAATTAATGAATGAGATCAACCTCCGATCTGCCAACAATC
2138181 T
66 T
2138182 TTTCCTTAGC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (68 bp):
TTTAATACCGACGTTCAAGCACATAAAATTAATGAATGAGATCAACCTCCGATCTGCCAACAATC
TCC
Found at i:2138435 original size:19 final size:19
Alignment explanation
Indices: 2138394--2138435 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2138384 ATATTTTATT
*
2138394 TAAATTTTTTAACGATGTA
1 TAAATTTTTTAACCATGTA
2138413 -AAATTTTTT-ACTCATGTA
1 TAAATTTTTTAAC-CATGTA
2138431 TAAAT
1 TAAAT
2138436 CAAATCCCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.10
18 14 0.70
19 4 0.20
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (19 bp):
TAAATTTTTTAACCATGTA
Found at i:2156008 original size:14 final size:14
Alignment explanation
Indices: 2155991--2156017 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2155981 AATAAAAATA
2155991 AAATAATTTAATTT
1 AAATAATTTAATTT
2156005 AAATAATTTAATT
1 AAATAATTTAATT
2156018 CAAAATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATAATTTAATTT
Found at i:2160837 original size:21 final size:21
Alignment explanation
Indices: 2160807--2160855 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
2160797 TTTCACTCAC
* * *
2160807 AATTTTTTTATTATAATATTAA
1 AATTATTTAATTATAATA-AAA
2160829 AATTATTTAATTATAATAAAA
1 AATTATTTAATTATAATAAAA
2160850 AATTAT
1 AATTAT
2160856 ATAAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTATTTAATTATAATAAAA
Found at i:2161944 original size:31 final size:31
Alignment explanation
Indices: 2161900--2161968 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
2161890 TTTTTTAAAA
* * *
2161900 AATTTA-TTTATTAATGAGAATGTATTATTT
1 AATTTATTTTATTAATAAGAATATATCATTT
* *
2161930 TATTTATTTTATTAATAAGATTATATCATTT
1 AATTTATTTTATTAATAAGAATATATCATTT
2161961 AATTTATT
1 AATTTATT
2161969 AATAATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (31 bp):
AATTTATTTTATTAATAAGAATATATCATTT
Found at i:2167846 original size:10 final size:11
Alignment explanation
Indices: 2167833--2167871 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
2167823 GTTCAATCAT
2167833 TATATTATAT-
1 TATATTATATA
2167843 TATATTATATA
1 TATATTATATA
2167854 TATATATATATA
1 TATAT-TATATA
2167866 TATATT
1 TATATT
2167872 CTTTTCCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.37
11 6 0.22
12 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATTATATA
Found at i:2167855 original size:2 final size:2
Alignment explanation
Indices: 2167833--2167870 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
2167823 GTTCAATCAT
2167833 TA TA T- TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2167871 TCTTTTCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2172787 original size:2 final size:2
Alignment explanation
Indices: 2172780--2172806 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2172770 ATTTGCCAGG
2172780 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2172807 TTATGAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2180116 original size:23 final size:24
Alignment explanation
Indices: 2180085--2180139 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
2180075 AAAATTTTTA
2180085 TTAAATAATATA-AATT-AT-TATT
1 TTAAATAAT-TAGAATTAATATATT
2180107 TTAAATTAATTAGAATTAATATATT
1 TTAAA-TAATTAGAATTAATATATT
*
2180132 TTTAATAA
1 TTAAATAA
2180140 AATAATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 7 0.25
23 8 0.29
24 5 0.18
25 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTAAATAATTAGAATTAATATATT
Found at i:2180149 original size:25 final size:25
Alignment explanation
Indices: 2180078--2180153 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
2180068 AATAAATAAA
*
2180078 ATTTTT-ATTAAATAATATAAATTATT
1 ATTTTTAATTAAATAATATTAA-TA-T
* *
2180104 ATTTTAAATTAATTAGA-ATTAATAT
1 ATTTTTAATTAAATA-ATATTAATAT
*
2180129 ATTTTTAATAAAATAATATTAATAT
1 ATTTTTAATTAAATAATATTAATAT
2180154 GTATTTATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 1 0.02
25 21 0.51
26 7 0.17
27 11 0.27
28 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (25 bp):
ATTTTTAATTAAATAATATTAATAT
Found at i:2180336 original size:17 final size:19
Alignment explanation
Indices: 2180310--2180348 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
2180300 TATTCGTTGG
2180310 ATATAGATATAAAAA-TTA
1 ATATAGATATAAAAATTTA
2180328 ATATA-ATATAAAAATTTA
1 ATATAGATATAAAAATTTA
2180346 ATA
1 ATA
2180349 ATGAGAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
ATATAGATATAAAAATTTA
Found at i:2180645 original size:2 final size:2
Alignment explanation
Indices: 2180638--2180664 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2180628 AGTGAGATTG
2180638 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2180665 AAAGGTTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2196925 original size:2 final size:2
Alignment explanation
Indices: 2196918--2196961 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
2196908 ATTACCAAAG
* *
2196918 AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC GC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2196960 AC
1 AC
2196962 GAGCTTCAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.48, G:0.02, T:0.02
Consensus pattern (2 bp):
AC
Found at i:2198123 original size:40 final size:40
Alignment explanation
Indices: 2198043--2198124 Score: 98
Period size: 40 Copynumber: 2.0 Consensus size: 40
2198033 TAAATGATTC
* *
2198043 AATTAAATTAATAAAATATTATTTTTTAATATAAATATAA
1 AATTAAATTAATAAAATATTATTTATTAATATAAAAATAA
2198083 AATTAAA-TATATAAAATA-TATTTAATTAAT-TAAAAAATAA
1 AATTAAATTA-ATAAAATATTATTT-ATTAATAT-AAAAATAA
2198123 AA
1 AA
2198125 AATTTTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
39 8 0.22
40 29 0.78
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (40 bp):
AATTAAATTAATAAAATATTATTTATTAATATAAAAATAA
Found at i:2198127 original size:42 final size:40
Alignment explanation
Indices: 2198043--2198138 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
2198033 TAAATGATTC
* * *
2198043 AATTAAAT-TAATAAAATATTATTTTTTAATATAAATATAA
1 AATTAAATAT-ATAAAATATTATTTATTAATAAAAATAAAA
2198083 AATTAAATATATAAAATA-TATTTAATTAATTAAAAAATAAAA
1 AATTAAATATATAAAATATTATTT-ATTAA-T-AAAAATAAAA
**
2198125 AATTTTATATATAA
1 AATTAAATATATAA
2198139 CGAGTCGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
39 5 0.11
40 20 0.43
41 2 0.04
42 20 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (40 bp):
AATTAAATATATAAAATATTATTTATTAATAAAAATAAAA
Found at i:2198834 original size:29 final size:29
Alignment explanation
Indices: 2198800--2198875 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
2198790 TTATAATTCA
*
2198800 ATAATTATTTAAGATTTTAATATTTTATT
1 ATAATTAATTAAGATTTTAATATTTTATT
* *
2198829 ATAATTAATTAAGCTTTTAATCTTTTATT
1 ATAATTAATTAAGATTTTAATATTTTATT
2198858 -TCAATTCAATTAA-ATTTT
1 AT-AATT-AATTAAGATTTT
2198876 TAAATGGGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.02
29 34 0.83
30 6 0.15
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (29 bp):
ATAATTAATTAAGATTTTAATATTTTATT
Found at i:2213307 original size:25 final size:25
Alignment explanation
Indices: 2213271--2213336 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
2213261 AAGATTAAAA
*
2213271 ATAA-TAATAAAATTTATTATAATT
1 ATAATTAAAAAAATTTATTATAATT
*
2213295 ATGATTGAAAAAAA-TTATTATAATT
1 ATAATT-AAAAAAATTTATTATAATT
2213320 ATAATTAAAAAAATTTA
1 ATAATTAAAAAAATTTA
2213337 ATAAAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 10 0.28
25 20 0.56
26 6 0.17
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (25 bp):
ATAATTAAAAAAATTTATTATAATT
Found at i:2214623 original size:63 final size:63
Alignment explanation
Indices: 2214542--2214735 Score: 253
Period size: 63 Copynumber: 3.0 Consensus size: 63
2214532 AACAAAACGA
* * * *
2214542 ATTCCAAATGATCCATCTTCTCCAAAACTAACTCATGAATCTGATCAGAAGAAAGAGTCCACC
1 ATTCCAAATGATCCATCTTCTCCACAACAAACTCATGGATCTGATCAGAAGAAAGAGTCTACC
* * *
2214605 ATTCCAAATGATCTATCTTCTCCACAACAAACTCATGGATTTGATCAGAAGAAAGAAAGAGTTTA
1 ATTCCAAATGATCCATCTTCTCCACAACAAACTCATGGATCTGATC---AG-AAGAAAGAGTCTA
*
2214670 TC
62 CC
* * *
2214672 ATTCCACACGATCCATCTTCTCCACAGCAAACTCATGGATCTGATCAGAAGAAAGAGTCTACC
1 ATTCCAAATGATCCATCTTCTCCACAACAAACTCATGGATCTGATCAGAAGAAAGAGTCTACC
2214735 A
1 A
2214736 AAAATTGATT
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
63 55 0.49
64 2 0.02
66 2 0.02
67 53 0.47
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (63 bp):
ATTCCAAATGATCCATCTTCTCCACAACAAACTCATGGATCTGATCAGAAGAAAGAGTCTACC
Found at i:2214690 original size:67 final size:67
Alignment explanation
Indices: 2214542--2214727 Score: 245
Period size: 67 Copynumber: 2.8 Consensus size: 67
2214532 AACAAAACGA
* * *
2214542 ATTCCAAATGATCCATCTTCTCCAAAACTAACTCATGAATCTGATC---AG-AAGAAAGAGTCCA
1 ATTCCAAATGATCCATCTTCTCCACAACAAACTCATGGATCTGATCAGAAGAAAGAAAGAGTCCA
2214603 CC
66 CC
* * **
2214605 ATTCCAAATGATCTATCTTCTCCACAACAAACTCATGGATTTGATCAGAAGAAAGAAAGAGTTTA
1 ATTCCAAATGATCCATCTTCTCCACAACAAACTCATGGATCTGATCAGAAGAAAGAAAGAGTCCA
*
2214670 TC
66 CC
* * *
2214672 ATTCCACACGATCCATCTTCTCCACAGCAAACTCATGGATCTGATCAGAAGAAAGA
1 ATTCCAAATGATCCATCTTCTCCACAACAAACTCATGGATCTGATCAGAAGAAAGA
2214728 GTCTACCAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
63 41 0.39
66 2 0.02
67 63 0.59
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (67 bp):
ATTCCAAATGATCCATCTTCTCCACAACAAACTCATGGATCTGATCAGAAGAAAGAAAGAGTCCA
CC
Found at i:2216274 original size:21 final size:21
Alignment explanation
Indices: 2216250--2216300 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
2216240 CTCAAAATTA
2216250 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
2216271 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
2216292 AT-AAATATT
1 ATAAAATATT
2216301 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:2216340 original size:26 final size:26
Alignment explanation
Indices: 2216290--2216371 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
2216280 TATTTTTTAA
*
2216290 ATATAAATAT-T-TAAA-AATATCATT
1 ATATAAATATATATAAATAAT-TAATT
2216314 ATATAAATATATATAAATAATTAATT
1 ATATAAATATATATAAATAATTAATT
* * * **
2216340 AAATAATTA-ATTAAAAATAATTTTTT
1 ATATAAATATA-TATAAATAATTAATT
2216366 ATATAA
1 ATATAA
2216372 TATCGGATCG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 10 0.21
25 2 0.04
26 32 0.68
27 3 0.06
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATAAATATATATAAATAATTAATT
Found at i:2216342 original size:12 final size:12
Alignment explanation
Indices: 2216327--2216354 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2216317 TAAATATATA
2216327 TAAATAATTAAT
1 TAAATAATTAAT
2216339 TAAATAATTAAT
1 TAAATAATTAAT
2216351 TAAA
1 TAAA
2216355 AATAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAATAATTAAT
Found at i:2217705 original size:21 final size:21
Alignment explanation
Indices: 2217672--2217714 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2217662 TAATATTAAT
* *
2217672 AAATATTTGAAAAGTTAT-TTA
1 AAATATAT-AAAAATTATCTTA
2217693 AAATATATAAAAATTATCTTA
1 AAATATATAAAAATTATCTTA
2217714 A
1 A
2217715 TTATAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (21 bp):
AAATATATAAAAATTATCTTA
Found at i:2217861 original size:21 final size:20
Alignment explanation
Indices: 2217837--2217890 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
2217827 AGTTACTTTG
*
2217837 AAGGTTATAAAAACTGCTATA
1 AAGGTTATAAAAACT-CTACA
*
2217858 AAGGTGAGT-AAAACTCTACA
1 AAGGTTA-TAAAAACTCTACA
*
2217878 AAGATTATAAAAA
1 AAGGTTATAAAAA
2217891 ATACCAATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 13 0.48
21 12 0.44
22 1 0.04
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (20 bp):
AAGGTTATAAAAACTCTACA
Found at i:2223288 original size:21 final size:20
Alignment explanation
Indices: 2223249--2223288 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2223239 TAGCAAGTAT
* *
2223249 AAAATTTTTTGTATTTTTTC
1 AAAATTTTTTGAATATTTTC
2223269 AAAATTATTTTGAATATTTT
1 AAAATT-TTTTGAATATTTT
2223289 GTGTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
AAAATTTTTTGAATATTTTC
Found at i:2225506 original size:27 final size:27
Alignment explanation
Indices: 2225476--2225530 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2225466 ACTTTTAAGC
2225476 AAGAAAATTTGTAATTTGTGCAGTTGT
1 AAGAAAATTTGTAATTTGTGCAGTTGT
2225503 AAGAAAATTTGTAATTTGTGCAGTTGT
1 AAGAAAATTTGTAATTTGTGCAGTTGT
2225530 A
1 A
2225531 TGGCTCTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.40
Consensus pattern (27 bp):
AAGAAAATTTGTAATTTGTGCAGTTGT
Found at i:2228566 original size:18 final size:18
Alignment explanation
Indices: 2228523--2228568 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2228513 TTTTTTATTT
2228523 AATTTTAAATATTAAATA
1 AATTTTAAATATTAAATA
* *
2228541 TATATTAAAT-TTAAATA
1 AATTTTAAATATTAAATA
2228558 CAATTTTAAAT
1 -AATTTTAAAT
2228569 CAAGATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTTAAATATTAAATA
Found at i:2228776 original size:14 final size:14
Alignment explanation
Indices: 2228759--2228801 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2228749 TATAATATCT
2228759 AATAATTTAAAATA
1 AATAATTTAAAATA
*
2228773 AATAA-TTATAAATT
1 AATAATTTA-AAATA
*
2228787 ATTAATTTAAAATA
1 AATAATTTAAAATA
2228801 A
1 A
2228802 TCCCAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 3 0.12
14 18 0.75
15 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAATTTAAAATA
Found at i:2228776 original size:28 final size:28
Alignment explanation
Indices: 2228736--2228801 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 28
2228726 ATTTTTTAAA
2228736 TTAAAAT-AA-AATATATAATATCTAATAAT
1 TTAAAATAAATAAT-TATAA-AT-TAATAAT
*
2228765 TTAAAATAAATAATTATAAATTATTAAT
1 TTAAAATAAATAATTATAAATTAATAAT
2228793 TTAAAATAA
1 TTAAAATAA
2228802 TCCCAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 15 0.44
29 9 0.26
30 7 0.21
31 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
TTAAAATAAATAATTATAAATTAATAAT
Found at i:2231969 original size:19 final size:18
Alignment explanation
Indices: 2231934--2231978 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
2231924 AGTTTATATT
2231934 TTAATAATAATATTTAATA
1 TTAA-AATAATATTTAATA
*
2231953 TTAAAATATTATATTAATA
1 TTAAAATAATAT-TTAATA
*
2231972 TAAAAAT
1 TTAAAAT
2231979 GCTTAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAAATAATATTTAATA
Found at i:2233653 original size:11 final size:11
Alignment explanation
Indices: 2233600--2233653 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
2233590 ATTTTTAAAT
*
2233600 TTTTATATATTA
1 TTTTAAATA-TA
2233612 TTTT-AATATAA
1 TTTTAAATAT-A
*
2233623 TTTTTAATATA
1 TTTTAAATATA
2233634 --TTAAATATA
1 TTTTAAATATA
2233643 TTTTAAATATA
1 TTTTAAATATA
2233654 AAATAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 8 0.22
10 1 0.03
11 18 0.50
12 9 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAATATA
Found at i:2244904 original size:22 final size:22
Alignment explanation
Indices: 2244873--2244917 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2244863 TAATTAAAAA
*
2244873 TGCTATTCTCAAAAAGATTTGT
1 TGCTACTCTCAAAAAGATTTGT
2244895 TGCTACTCTCAAAAAGATTTGT
1 TGCTACTCTCAAAAAGATTTGT
2244917 T
1 T
2244918 TGACTTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (22 bp):
TGCTACTCTCAAAAAGATTTGT
Found at i:2245059 original size:12 final size:12
Alignment explanation
Indices: 2245029--2245061 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2245019 TAAATCTGAG
*
2245029 ATTTAATATTGA
1 ATTTAATATCGA
2245041 A-TTAATATCGA
1 ATTTAATATCGA
2245052 ATTTAATATC
1 ATTTAATATC
2245062 TACTGCTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (12 bp):
ATTTAATATCGA
Found at i:2253456 original size:2 final size:2
Alignment explanation
Indices: 2253449--2253485 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2253439 ATGTCACCAA
2253449 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2253486 GCAAACAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2256887 original size:16 final size:17
Alignment explanation
Indices: 2256855--2256890 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2256845 TATTTAATAT
*
2256855 TAAAATTAATTTTTTTA
1 TAAAATTAATATTTTTA
2256872 TAAAATTAA-ATTTTTA
1 TAAAATTAATATTTTTA
2256888 TAA
1 TAA
2256891 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAAATTAATATTTTTA
Found at i:2280787 original size:30 final size:31
Alignment explanation
Indices: 2280751--2280818 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
2280741 CTCTTAAAAT
2280751 TATTAATTAATAAATATT-T-TTTAAATATTA
1 TATTAATTAATAAAT-TTATATTTAAATATTA
*
2280781 TATTAATTAATAAATTTATAATTTAAATATTT
1 TATTAATTAATAAATTTAT-ATTTAAATATTA
2280813 TATTAA
1 TATTAA
2280819 AAAATTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
29 2 0.06
30 16 0.47
32 16 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TATTAATTAATAAATTTATATTTAAATATTA
Found at i:2288863 original size:2 final size:2
Alignment explanation
Indices: 2288856--2288882 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2288846 AGTTTAAAGC
2288856 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2288883 TCATGATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2290100 original size:30 final size:30
Alignment explanation
Indices: 2290064--2290122 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
2290054 GTAAATTTAA
*
2290064 TATAAATATTCTCTTAAATTTAGGATCTAG
1 TATAAATATTCTCTTAAACTTAGGATCTAG
*
2290094 TATAAATATTTTCTTAAACTTAGGATCTA
1 TATAAATATTCTCTTAAACTTAGGATCTA
2290123 CTCTGATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.44
Consensus pattern (30 bp):
TATAAATATTCTCTTAAACTTAGGATCTAG
Found at i:2302989 original size:8 final size:8
Alignment explanation
Indices: 2302973--2303008 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
2302963 TAATTATTTA
2302973 ATTTA-AT
1 ATTTATAT
2302980 ATTTATAT
1 ATTTATAT
2302988 ATTTTATAT
1 A-TTTATAT
2302997 ATTTATAT
1 ATTTATAT
2303005 ATTT
1 ATTT
2303009 TATGTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.19
8 14 0.52
9 8 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTATAT
Found at i:2302995 original size:9 final size:9
Alignment explanation
Indices: 2302981--2303021 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
2302971 TAATTTAATA
2302981 TTTATATAT
1 TTTATATAT
2302990 TTTATATA-
1 TTTATATAT
2302998 TTTATATAT
1 TTTATATAT
*
2303007 TTTATGTAAT
1 TTTATAT-AT
2303017 TTTAT
1 TTTAT
2303022 TTATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.28
9 14 0.48
10 7 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTATATAT
Found at i:2302998 original size:17 final size:17
Alignment explanation
Indices: 2302974--2303011 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2302964 AATTATTTAA
2302974 TTTA-ATATTTATATAT
1 TTTATATATTTATATAT
2302990 TTTATATATTTATATAT
1 TTTATATATTTATATAT
2303007 TTTAT
1 TTTAT
2303012 GTAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATATATTTATATAT
Found at i:2303256 original size:13 final size:13
Alignment explanation
Indices: 2303232--2303287 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
2303222 CTTAAAATTT
*
2303232 AAAATATGATATA
1 AAAATATAATATA
*
2303245 ATAATATAATAT-
1 AAAATATAATATA
*
2303257 -GAATATAATATA
1 AAAATATAATATA
2303269 AAAATA-AGATATA
1 AAAATATA-ATATA
2303282 AAAATA
1 AAAATA
2303288 ATGTTATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 10 0.28
12 1 0.03
13 25 0.69
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (13 bp):
AAAATATAATATA
Found at i:2303280 original size:24 final size:24
Alignment explanation
Indices: 2303233--2303289 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
2303223 TTAAAATTTA
* *
2303233 AAATATGATATAATAATATAATAT
1 AAATATAATATAAAAATATAATAT
*
2303257 GAATATAATATAAAAATA-AGATAT
1 AAATATAATATAAAAATATA-ATAT
*
2303281 AAAAATAAT
1 AAATATAAT
2303290 GTTATAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (24 bp):
AAATATAATATAAAAATATAATAT
Found at i:2303288 original size:13 final size:14
Alignment explanation
Indices: 2303264--2303298 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2303254 TATGAATATA
2303264 ATATAAAAATAA-G
1 ATATAAAAATAATG
2303277 ATATAAAAATAATG
1 ATATAAAAATAATG
*
2303291 TTATAAAA
1 ATATAAAA
2303299 TTTTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
ATATAAAAATAATG
Found at i:2305744 original size:13 final size:13
Alignment explanation
Indices: 2305712--2305753 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2305702 AAAATCTACT
2305712 TAATATATTAAAA
1 TAATATATTAAAA
**
2305725 TTTTATATTAAAA
1 TAATATATTAAAA
*
2305738 TAATATATAAAAA
1 TAATATATTAAAA
2305751 TAA
1 TAA
2305754 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATATTAAAA
Found at i:2308359 original size:2 final size:2
Alignment explanation
Indices: 2308352--2308376 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2308342 TGTAAGCTTA
2308352 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
2308377 ACTCACATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2311608 original size:2 final size:2
Alignment explanation
Indices: 2311601--2311628 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2311591 CTACATACAG
2311601 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
2311629 CAAGAATAAC
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:2316413 original size:18 final size:18
Alignment explanation
Indices: 2316390--2316427 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2316380 TTTTATTTAA
2316390 TTTAAATTAAAT-TTAAAT
1 TTTAAA-TAAATATTAAAT
*
2316408 TTTAAATATATATTAAAT
1 TTTAAATAAATATTAAAT
2316426 TT
1 TT
2316428 GAATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATAAATATTAAAT
Found at i:2317730 original size:30 final size:30
Alignment explanation
Indices: 2317680--2317741 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
2317670 TCATTCCAGT
** * *
2317680 AAAGGTAATAAACTGGAGAATCTAGTAAGA
1 AAAGGTAATAAACTACAGAATCAAGCAAGA
*
2317710 AAAGGTAATAAAGTACAGAATCAAGCAAGA
1 AAAGGTAATAAACTACAGAATCAAGCAAGA
2317740 AA
1 AA
2317742 GTAAAATGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.21, T:0.16
Consensus pattern (30 bp):
AAAGGTAATAAACTACAGAATCAAGCAAGA
Found at i:2319164 original size:30 final size:30
Alignment explanation
Indices: 2319098--2319164 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 30
2319088 TAATAAGGGT
* * *
2319098 TTAATT-ATTGAAAATAAATGTTTGAAGAT
1 TTAATTAATTGAAAAAAAAGGTTTGAAGAA
*
2319127 TTAATTAATTGAAAAAAAAAGGTTTGAATAA
1 TTAATTAATTG-AAAAAAAAGGTTTGAAGAA
2319158 TT-ATTAA
1 TTAATTAA
2319165 AATTTAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.19
30 9 0.28
31 17 0.53
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (30 bp):
TTAATTAATTGAAAAAAAAGGTTTGAAGAA
Found at i:2324052 original size:21 final size:21
Alignment explanation
Indices: 2324026--2324089 Score: 65
Period size: 27 Copynumber: 2.8 Consensus size: 21
2324016 ATTTATTATT
2324026 AAATAATAAATTTTATTAAAG
1 AAATAATAAATTTTATTAAAG
2324047 AAATAATAAATCATATATTTATTAAAG
1 AAATAAT--A--A-AT-TTTATTAAAG
*
2324074 AAATAATTAATTTTAT
1 AAATAATAAATTTTAT
2324090 ATCAATTCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
21 12 0.33
22 2 0.06
23 2 0.06
25 1 0.03
26 2 0.06
27 17 0.47
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (21 bp):
AAATAATAAATTTTATTAAAG
Found at i:2325108 original size:13 final size:14
Alignment explanation
Indices: 2325082--2325110 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2325072 TATATTTATA
2325082 TAATTATAATATTT
1 TAATTATAATATTT
2325096 TAATTAT-ATATTT
1 TAATTATAATATTT
2325109 TA
1 TA
2325111 TTTAGATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:2327155 original size:24 final size:24
Alignment explanation
Indices: 2327128--2327175 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2327118 TCAATGTAAG
2327128 TTTGAGTTGTCTTTATCTTTTTGT
1 TTTGAGTTGTCTTTATCTTTTTGT
** *
2327152 TTTGTTTTGTCTTTTTCTTTTTGT
1 TTTGAGTTGTCTTTATCTTTTTGT
2327176 ATGTTGTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.08, G:0.15, T:0.73
Consensus pattern (24 bp):
TTTGAGTTGTCTTTATCTTTTTGT
Found at i:2332365 original size:16 final size:16
Alignment explanation
Indices: 2332344--2332374 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2332334 AAATATTTTT
*
2332344 AAAAAAATTAAAAACA
1 AAAAAAAATAAAAACA
2332360 AAAAAAAATAAAAAC
1 AAAAAAAATAAAAAC
2332375 TATAGATCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (16 bp):
AAAAAAAATAAAAACA
Found at i:2334550 original size:59 final size:58
Alignment explanation
Indices: 2334477--2334594 Score: 159
Period size: 57 Copynumber: 2.0 Consensus size: 58
2334467 ATCTCCGCAT
* *
2334477 TGTGCACTTTTTAGGACCATATCC-TTCCTGAGCTCCATAAAAAAATGAGGTCCATTTTGA
1 TGTGCACTTTTTAGGACCATATCCTTTAC-AAGCT-C-TAAAAAAATGAGGTCCATTTTGA
* *
2334537 TGTGC-CTTTTTAGGACCATATCCTTTACAAGCTCTATAAAAATGAGGTCCTTTTTGA
1 TGTGCACTTTTTAGGACCATATCCTTTACAAGCTCTAAAAAAATGAGGTCCATTTTGA
2334594 T
1 T
2334595 AGTTATCATC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
57 22 0.42
58 1 0.02
59 22 0.42
60 8 0.15
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (58 bp):
TGTGCACTTTTTAGGACCATATCCTTTACAAGCTCTAAAAAAATGAGGTCCATTTTGA
Found at i:2334620 original size:3 final size:3
Alignment explanation
Indices: 2334612--2334644 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2334602 ATCCATTTCT
2334612 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2334645 CTTCATCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:2360433 original size:10 final size:10
Alignment explanation
Indices: 2360418--2360447 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2360408 AATTAATTTT
2360418 TATATTTTAA
1 TATATTTTAA
2360428 TATATTTTAA
1 TATATTTTAA
2360438 T-TATTTTAA
1 TATATTTTAA
2360447 T
1 T
2360448 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:2360444 original size:9 final size:9
Alignment explanation
Indices: 2360406--2360449 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
2360396 AGTCACGAGC
2360406 TTAATTAATT
1 TTAATT-ATT
*
2360416 TTTA-TATT
1 TTAATTATT
2360424 TTAATATATT
1 TTAAT-TATT
2360434 TTAATTATT
1 TTAATTATT
2360443 TTAATTA
1 TTAATTA
2360450 ATAAAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 6 0.20
9 12 0.40
10 12 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTAATTATT
Found at i:2360486 original size:27 final size:24
Alignment explanation
Indices: 2360456--2360510 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
2360446 ATTAATAAAA
2360456 TATTTTAAATACAAATAATTAAAATT
1 TATTTTAAATACAAA-AATT-AAATT
* *
2360482 T-TATTAAATATAAAAATTAAATT
1 TATTTTAAATACAAAAATTAAATT
2360505 TATTTT
1 TATTTT
2360511 TGTATATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 6 0.24
24 7 0.28
25 11 0.44
26 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TATTTTAAATACAAAAATTAAATT
Found at i:2360499 original size:24 final size:24
Alignment explanation
Indices: 2360451--2360502 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2360441 TTTTAATTAA
2360451 TAAAATATTTTAAATACAAATAAT
1 TAAAATATTTTAAATACAAATAAT
* *
2360475 TAAAATTTTATTAAATATAAA-AAT
1 TAAAATATT-TTAAATACAAATAAT
2360499 TAAA
1 TAAA
2360503 TTTATTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAATATTTTAAATACAAATAAT
Found at i:2360578 original size:6 final size:6
Alignment explanation
Indices: 2360547--2360645 Score: 53
Period size: 6 Copynumber: 16.7 Consensus size: 6
2360537 GAATTTAAAT
* * * * * *
2360547 AATTTA ATTTTT ATTTTA AA-TCA AATTTA AATTAAA AAATTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT-TA AATTTA AATTTA
* * * *
2360594 AA-TCA AATTT- AATTTA AATTTCA AGTATTA AATTTA AAATTA AATTCA
1 AATTTA AATTTA AATTTA AATTT-A AAT-TTA AATTTA AATTTA AATTTA
2360642 AATT
1 AATT
2360646 CGATCAATTT
Statistics
Matches: 69, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
4 1 0.01
5 13 0.19
6 43 0.62
7 10 0.14
8 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:2361064 original size:19 final size:19
Alignment explanation
Indices: 2361028--2361066 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2361018 AACCTTTGTG
*
2361028 AACATAAAAATTTGTTTTT
1 AACATAAAAATATGTTTTT
*
2361047 AACATAAAAA-ATATTTTT
1 AACATAAAAATATGTTTTT
2361065 AA
1 AA
2361067 TTTTATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (19 bp):
AACATAAAAATATGTTTTT
Found at i:2361228 original size:41 final size:39
Alignment explanation
Indices: 2361182--2361278 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 39
2361172 TATTTATATT
2361182 AATTTATTAATTTTAATAAAT-AATCATAAATAATATTTTAA
1 AATTTATTAATTTTAATAAATAAATCATAAATAA-A--TTAA
* *
2361223 AATTTATTAA-TTAAATAAATAAATTATAAATAAATTAA
1 AATTTATTAATTTTAATAAATAAATCATAAATAAATTAA
2361261 AATTTATTAATATTTAAT
1 AATTTATTAAT-TTTAAT
2361279 TCATTTATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 14 0.28
40 15 0.30
41 21 0.42
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (39 bp):
AATTTATTAATTTTAATAAATAAATCATAAATAAATTAA
Found at i:2365176 original size:22 final size:22
Alignment explanation
Indices: 2365151--2365194 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2365141 ATTTTTTGTC
*
2365151 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
2365173 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
2365195 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:2368914 original size:25 final size:25
Alignment explanation
Indices: 2368880--2368938 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
2368870 TAAAATAGCT
* *
2368880 ATGAAGGCCTTAACAGGGTTCGACA
1 ATGAAGGCCTAAACAGGGTTCAACA
*
2368905 ATGAAGGCCTAAATAGGGTTCAACA
1 ATGAAGGCCTAAACAGGGTTCAACA
*
2368930 ATGAGGGCC
1 ATGAAGGCC
2368939 CAAAATAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.19
Consensus pattern (25 bp):
ATGAAGGCCTAAACAGGGTTCAACA
Found at i:2369216 original size:22 final size:22
Alignment explanation
Indices: 2369174--2369217 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2369164 ATTTTTTGTC
* *
2369174 CTTAATTCTAGGGATATAAATA
1 CTTAATTCTAGAGATACAAATA
*
2369196 CTTAATTCTAGATATACAAATA
1 CTTAATTCTAGAGATACAAATA
2369218 TAAATATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:2372829 original size:22 final size:21
Alignment explanation
Indices: 2372796--2372837 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2372786 AAACTAATAA
*
2372796 AAGGTCATAAATCTTAAGCTAG
1 AAGGTCATAAAT-ATAAGCTAG
2372818 AAGGT-ATAAAATATAAGCTA
1 AAGGTCAT-AAATATAAGCTA
2372838 ATCATTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.26
Consensus pattern (21 bp):
AAGGTCATAAATATAAGCTAG
Found at i:2378175 original size:86 final size:86
Alignment explanation
Indices: 2378069--2378253 Score: 307
Period size: 86 Copynumber: 2.2 Consensus size: 86
2378059 TGGTTAAAAG
* * *
2378069 TAAATTTCATTAAGGATATTTAATTAAAATTTGTATATAATAAAATTTATAATATAAATTTAATA
1 TAAATTTTATTAAGGATATTTAATTAAAATTTGCATATAATAAAACTTATAATATAAATTTAATA
*
2378134 TTTGTGAAATTAATAAACAAT
66 TTTATGAAATTAATAAACAAT
2378155 TAAATTTTATTAAGGATATTTAATTAAAATTTGCATATAATAAAACTTATAATATAAATTTAATA
1 TAAATTTTATTAAGGATATTTAATTAAAATTTGCATATAATAAAACTTATAATATAAATTTAATA
*
2378220 TTTATGAAATTAATAAATAAT
66 TTTATGAAATTAATAAACAAT
**
2378241 TAAAAATTATTAA
1 TAAATTTTATTAA
2378254 AGTTATTTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 92 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (86 bp):
TAAATTTTATTAAGGATATTTAATTAAAATTTGCATATAATAAAACTTATAATATAAATTTAATA
TTTATGAAATTAATAAACAAT
Found at i:2378800 original size:21 final size:21
Alignment explanation
Indices: 2378776--2378826 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2378766 AATTCGATTC
2378776 AAAAT-TAATAAAATTATTTTA
1 AAAATATAA-AAAATTATTTTA
*
2378797 AAAATATAAAATATTATTTT-
1 AAAATATAAAAAATTATTTTA
*
2378817 TAAATATAAA
1 AAAATATAAA
2378827 TATAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 9 0.33
21 15 0.56
22 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAATATAAAAAATTATTTTA
Found at i:2378827 original size:19 final size:20
Alignment explanation
Indices: 2378783--2378829 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2378773 TTCAAAATTA
2378783 ATAAA-ATTATTTTAAAAAT
1 ATAAATATTATTTTAAAAAT
*
2378802 ATAAAATATTATTTT-TAAAT
1 AT-AAATATTATTTTAAAAAT
2378822 ATAAATAT
1 ATAAATAT
2378830 AAAATCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 9 0.36
21 8 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAATATTATTTTAAAAAT
Found at i:2378861 original size:22 final size:24
Alignment explanation
Indices: 2378820--2378878 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
2378810 TTATTTTTAA
*
2378820 ATATAAATATAAAATCAATTATAT
1 ATATAAATATAAAATCAATTAAAT
*
2378844 ATATAAATAT-ATAT-AATTAAAT
1 ATATAAATATAAAATCAATTAAAT
*
2378866 AAAT-AAT-TAAAAT
1 ATATAAATATAAAAT
2378879 ATACATATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.03
21 6 0.20
22 10 0.33
23 3 0.10
24 10 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATAAATATAAAATCAATTAAAT
Found at i:2384780 original size:6 final size:6
Alignment explanation
Indices: 2384769--2384794 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2384759 AAAAATAGTG
2384769 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
2384795 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:2384805 original size:17 final size:17
Alignment explanation
Indices: 2384785--2384817 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2384775 AAATTTAAAT
2384785 TTAAAT-TTAATTTTTTA
1 TTAAATATT-ATTTTTTA
2384802 TTAAATATTATTTTTT
1 TTAAATATTATTTTTT
2384818 GGAAGGGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTAAATATTATTTTTTA
Found at i:2385744 original size:20 final size:20
Alignment explanation
Indices: 2385721--2385760 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2385711 TAGATTTTGT
2385721 ATAAATTTAAAAATTTAAAA
1 ATAAATTTAAAAATTTAAAA
* *
2385741 ATAAATTTGATAATTTAAAA
1 ATAAATTTAAAAATTTAAAA
2385761 TTGATATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
ATAAATTTAAAAATTTAAAA
Found at i:2385797 original size:13 final size:12
Alignment explanation
Indices: 2385781--2385810 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
2385771 AATACGATAT
2385781 AAATATAATATAA
1 AAATATAATA-AA
2385794 AAATATAATAAA
1 AAATATAATAAA
2385806 AAATA
1 AAATA
2385811 ATATGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATATAATAAA
Found at i:2385822 original size:28 final size:27
Alignment explanation
Indices: 2385782--2385842 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
2385772 ATACGATATA
2385782 AATATAATATAAAAATATAATAAAAAAT
1 AATATAATATAAAAATATAAT-AAAAAT
* * * * *
2385810 AATATGATTTAAAATTATAGTAATAAT
1 AATATAATATAAAAATATAATAAAAAT
2385837 AATATA
1 AATATA
2385843 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (27 bp):
AATATAATATAAAAATATAATAAAAAT
Found at i:2386210 original size:1 final size:1
Alignment explanation
Indices: 2386206--2386231 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
2386196 TTTTAAAGGT
2386206 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
2386232 GTGCAGACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2386656 original size:15 final size:15
Alignment explanation
Indices: 2386638--2386672 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2386628 TTATAGGAAT
*
2386638 TATTTTTAAAAGTAA
1 TATTTTTAAAAATAA
*
2386653 TATTATTAAAAATAA
1 TATTTTTAAAAATAA
2386668 TATTT
1 TATTT
2386673 GCCTATGTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TATTTTTAAAAATAA
Found at i:2389475 original size:379 final size:381
Alignment explanation
Indices: 2388879--2389658 Score: 1406
Period size: 379 Copynumber: 2.0 Consensus size: 381
2388869 ATTAATGACA
*
2388879 TTAAAATGTATTT-AAATATGATAACTTGTAAAACATGAGAAAAAAGTAATGTATAACTATTATT
1 TTAAAAT-AATTTAAAATATGATAACTTGTAAAACATGAGAAAAAAGTAATGTATAACTATTATT
*
2388943 TTCACAATTGAAAAAATATTTTTTTTCATATTTAAGCCATTCATTCTTGTTTTATAAAGATTTGT
65 TTCACAATTG-AAAAATATTTTTTTTCATACTTAAGCCATTCATTCTTGTTTTATAAAGATTTGT
* **
2389008 TTTGATTTTCAATTATCAAACACATTTTCACTCATATTTTTTATTTTTTAAAAAATAAAAACAAA
129 TTTCATTTTCAATTATCAAACACATTTTCACTCATATTTTTTATTTTAAAAAAAATAAAAACAAA
2389073 AAATGACTATATTTTTTAAAACCAAATATCACCTAACTTTTTAAATT-AAAAGTGAAAATTGTTA
194 AAATGACTATATTTTTTAAAACCAAATATCACCTAACTTTTTAAATTAAAAAGTGAAAATTGTTA
2389137 TGCCTACTCGATAAAATATATTTTTTATTTATAATTACATAATAATATTAATGTATTATATATTT
259 TGCCTACTCGATAAAATATATTTTTTATTTATAATTACATAATAATATTAATGTATTATATATTT
*
2389202 TATGTGTATGGATTATATGATTTTTTTTTACTTTTATGTAATTATTATAAAAATAT-AT
324 TATGTGCATGGATTATATGA-TTTTTTTTACTTTTATGTAATTATTATAAAAATATAAT
2389260 TTAAAATAATTTAAAATATGATAACTTGTAAAACATGAGAAAAAAGTAATGTATAACTATTATTT
1 TTAAAATAATTTAAAATATGATAACTTGTAAAACATGAGAAAAAAGTAATGTATAACTATTATTT
* * *
2389325 TCACAATTG-AAAATTTTTTTTTTCATACTTAAGCCATTCATTCTTGTTTTCTAAAGTTTTGTTT
66 TCACAATTGAAAAATATTTTTTTTCATACTTAAGCCATTCATTCTTGTTTTATAAAGATTTGTTT
*
2389389 TCATTTTCAATTATCAAACACGTTTTCACTCATATTTTTTATTTTAAAAAAAATAAAAACAAAAA
131 TCATTTTCAATTATCAAACACATTTTCACTCATATTTTTTATTTTAAAAAAAATAAAAACAAAAA
2389454 ATGACTATATTTTTTAAAACCAAATATCACCTAACTTTTTAAATTAAAAAGTGAAAATTGTTATG
196 ATGACTATATTTTTTAAAACCAAATATCACCTAACTTTTTAAATTAAAAAGTGAAAATTGTTATG
*
2389519 CCTACTCGATAAAATATATTTTTTATTTATAATTACATAATAATGTTAATGTATTATATATTTTA
261 CCTACTCGATAAAATATATTTTTTATTTATAATTACATAATAATATTAATGTATTATATATTTTA
2389584 TGTGCATGGATTATATGATTTTTTTTACTTTTATGTAATTATTATAAAAATATAAT
326 TGTGCATGGATTATATGATTTTTTTTACTTTTATGTAATTATTATAAAAATATAAT
2389640 TTAAAATAATTTAAAATAT
1 TTAAAATAATTTAAAATAT
2389659 TTATTATTAT
Statistics
Matches: 385, Mismatches: 11, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
379 192 0.50
380 125 0.32
381 68 0.18
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (381 bp):
TTAAAATAATTTAAAATATGATAACTTGTAAAACATGAGAAAAAAGTAATGTATAACTATTATTT
TCACAATTGAAAAATATTTTTTTTCATACTTAAGCCATTCATTCTTGTTTTATAAAGATTTGTTT
TCATTTTCAATTATCAAACACATTTTCACTCATATTTTTTATTTTAAAAAAAATAAAAACAAAAA
ATGACTATATTTTTTAAAACCAAATATCACCTAACTTTTTAAATTAAAAAGTGAAAATTGTTATG
CCTACTCGATAAAATATATTTTTTATTTATAATTACATAATAATATTAATGTATTATATATTTTA
TGTGCATGGATTATATGATTTTTTTTACTTTTATGTAATTATTATAAAAATATAAT
Found at i:2389586 original size:22 final size:23
Alignment explanation
Indices: 2389561--2389605 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2389551 TTACATAATA
* *
2389561 ATGTTAATGTATTATAT-ATTTT
1 ATGTGAATGGATTATATGATTTT
*
2389583 ATGTGCATGGATTATATGATTTT
1 ATGTGAATGGATTATATGATTTT
2389606 TTTTACTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (23 bp):
ATGTGAATGGATTATATGATTTT
Found at i:2391513 original size:51 final size:51
Alignment explanation
Indices: 2391449--2391564 Score: 126
Period size: 51 Copynumber: 2.3 Consensus size: 51
2391439 GGATATGGAA
2391449 GGTTTAGGATTTTGATTTTAA-AGTTTGGAGATTTTAAGATTTGGATTTTGG
1 GGTTTAGGATTTTGA-TTTAAGAGTTTGGAGATTTTAAGATTTGGATTTTGG
* * * * ** * *
2391500 GGTTTGGGGTTTTGATTTAAGGGTTTGGGGATTTTGGGGTTTGGATTTTAGA
1 GGTTTAGGATTTTGATTTAAGAGTTTGGAGATTTTAAGATTTGGATTTT-GG
*
2391552 GGTTTCGGATTTT
1 GGTTTAGGATTTT
2391565 AGGGGTTTGG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
50 5 0.09
51 36 0.68
52 12 0.23
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.48
Consensus pattern (51 bp):
GGTTTAGGATTTTGATTTAAGAGTTTGGAGATTTTAAGATTTGGATTTTGG
Found at i:2391538 original size:30 final size:30
Alignment explanation
Indices: 2391495--2391589 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
2391485 AGATTTGGAT
*
2391495 TTTGGGG--TTTGGGGTTTTGATTTAAGGG
1 TTTGGGGATTTTGGGGTTTGGATTTAAGGG
*
2391523 TTTGGGGATTTTGGGGTTTGGATTTTAGAGG
1 TTTGGGGATTTTGGGGTTTGGATTTAAG-GG
*
2391554 TTT-CGGATTTTAGGGGTTTGGATTTAAGGGG
1 TTTGGGGATTTT-GGGGTTTGGATTTAA-GGG
2391585 TTTGG
1 TTTGG
2391590 ATTTAAGGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
28 7 0.12
30 24 0.43
31 24 0.43
32 1 0.02
ACGTcount: A:0.13, C:0.01, G:0.41, T:0.45
Consensus pattern (30 bp):
TTTGGGGATTTTGGGGTTTGGATTTAAGGG
Found at i:2391570 original size:31 final size:31
Alignment explanation
Indices: 2391505--2391667 Score: 143
Period size: 31 Copynumber: 5.2 Consensus size: 31
2391495 TTTGGGGTTT
* * *
2391505 GGGGTTTTGA-TTTAAGGGTTTGGGGATTTT-
1 GGGGTTTGGATTTTAGGGGTTT-CGGATTTTA
*
2391535 GGGGTTTGGATTTTAGAGGTTTCGGATTTTA
1 GGGGTTTGGATTTTAGGGGTTTCGGATTTTA
* *
2391566 GGGGTTTGGATTTAAGGGGTTT-GGATTTAA
1 GGGGTTTGGATTTTAGGGGTTTCGGATTTTA
** *
2391596 GGAATTTTAGATTTTTAGGGGTTTCGGATTTTA
1 GG-GGTTTGGA-TTTTAGGGGTTTCGGATTTTA
* ** *
2391629 AGATTTTGGATTTTAGGGGATTTTGGATTTTA
1 GGGGTTTGGATTTTAGGGG-TTTCGGATTTTA
*
2391661 AGGGTTT
1 GGGGTTT
2391668 TAGAAACCTA
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
30 25 0.23
31 43 0.39
32 34 0.31
33 8 0.07
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.46
Consensus pattern (31 bp):
GGGGTTTGGATTTTAGGGGTTTCGGATTTTA
Found at i:2391578 original size:15 final size:15
Alignment explanation
Indices: 2391505--2391667 Score: 132
Period size: 15 Copynumber: 10.5 Consensus size: 15
2391495 TTTGGGGTTT
*
2391505 GGGGTTTTGA-TTTA
1 GGGGTTTGGATTTTA
*
2391519 AGGGTTTGGGGATTTT-
1 GGGGTTT--GGATTTTA
2391535 GGGGTTTGGATTTTA
1 GGGGTTTGGATTTTA
*
2391550 GAGGTTTCGGATTTTA
1 GGGGTTT-GGATTTTA
*
2391566 GGGGTTTGGATTTAA
1 GGGGTTTGGATTTTA
*
2391581 GGGGTTTGGATTTAA
1 GGGGTTTGGATTTTA
** *
2391596 GGAATTTTAGATTTTTA
1 GG-GGTTTGGA-TTTTA
2391613 GGGGTTTCGGATTTTA
1 GGGGTTT-GGATTTTA
* **
2391629 AGATTTTGGATTTTA
1 GGGGTTTGGATTTTA
2391644 GGGGATTTTGGATTTTA
1 GGGG--TTTGGATTTTA
*
2391661 AGGGTTT
1 GGGGTTT
2391668 TAGAAACCTA
Statistics
Matches: 119, Mismatches: 20, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
14 13 0.11
15 42 0.35
16 39 0.33
17 25 0.21
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.46
Consensus pattern (15 bp):
GGGGTTTGGATTTTA
Found at i:2391618 original size:32 final size:31
Alignment explanation
Indices: 2391543--2391671 Score: 120
Period size: 32 Copynumber: 4.1 Consensus size: 31
2391533 TTGGGGTTTG
* ** *
2391543 GATTTTAGAGGTTTCGGATTTT-AGGGGTTTG
1 GATTTTAGGGGTTT-GGATTTTAAGGATTTTA
*
2391574 GATTTAAGGGGTTTGGA-TTTAAGGAATTTTA
1 GATTTTAGGGGTTTGGATTTTAAGG-ATTTTA
*
2391605 GATTTTTAGGGGTTTCGGATTTTAA-GATTTTG
1 GA-TTTTAGGGGTTT-GGATTTTAAGGATTTTA
*
2391637 GATTTTAGGGGATTTTGGATTTTAAGGGTTTTA
1 GATTTTAGGGG--TTTGGATTTTAAGGATTTTA
2391670 GA
1 GA
2391672 AACCTAAGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
29 3 0.04
30 6 0.07
31 26 0.32
32 27 0.33
33 14 0.17
34 5 0.06
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.46
Consensus pattern (31 bp):
GATTTTAGGGGTTTGGATTTTAAGGATTTTA
Found at i:2391625 original size:63 final size:64
Alignment explanation
Indices: 2391545--2391671 Score: 168
Period size: 63 Copynumber: 2.0 Consensus size: 64
2391535 GGGGTTTGGA
* *
2391545 TTTTAGAGGTTTCGGATTTTAGGGGTTTGGATTTAAGGGG-TTTGGA-TTTAAGGAATTTTAGAT
1 TTTTAGAGGTTTCGGATTTTAAGAGTTTGGATTTAAGGGGATTTGGATTTTAAGG-ATTTTAGAT
* * * *
2391608 TTTTAGGGGTTTCGGATTTTAAGATTTTGGATTTTAGGGGATTTTGGATTTTAAGGGTTTTAGA
1 TTTTAGAGGTTTCGGATTTTAAGAGTTTGGATTTAAGGGGA-TTTGGATTTTAAGGATTTTAGA
2391672 AACCTAAGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 35 0.64
65 13 0.24
66 7 0.13
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (64 bp):
TTTTAGAGGTTTCGGATTTTAAGAGTTTGGATTTAAGGGGATTTGGATTTTAAGGATTTTAGAT
Found at i:2391639 original size:48 final size:48
Alignment explanation
Indices: 2391561--2391664 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 48
2391551 AGGTTTCGGA
*
2391561 TTTTAGGGGTTTGGATTTAAGGGGTTTGGA-TTTAAGGAATTTTAGAT
1 TTTTAGGGGTTTGGATTTAAGGAGTTTGGATTTTAAGGAATTTTAGAT
* * * *
2391608 TTTTAGGGGTTTCGGATTTTAA-GATTTTGGATTTTAGGGGATTTTGGAT
1 TTTTAGGGGTTT-GGA-TTTAAGGAGTTTGGATTTTAAGGAATTTTAGAT
*
2391657 TTTAAGGG
1 TTTTAGGG
2391665 TTTTAGAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 12 0.25
48 10 0.21
49 26 0.54
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (48 bp):
TTTTAGGGGTTTGGATTTAAGGAGTTTGGATTTTAAGGAATTTTAGAT
Found at i:2394151 original size:19 final size:20
Alignment explanation
Indices: 2394114--2394154 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2394104 CAGAAATGAA
*
2394114 TTTTTGAAAAGTATTAAAAC
1 TTTTTGAAAAGTATAAAAAC
*
2394134 TTTTTGAAAA-TCTAAAAAC
1 TTTTTGAAAAGTATAAAAAC
2394153 TT
1 TT
2394155 AAAGATTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
TTTTTGAAAAGTATAAAAAC
Found at i:2396002 original size:29 final size:28
Alignment explanation
Indices: 2395955--2396019 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
2395945 TATCTAAGTG
* * *
2395955 TAAATTAAAAATTAAAAACTTACTTAGA
1 TAAAATAAAAATAAAAAACTTACTTAAA
* *
2395983 TACAATAAAAATAAAGAAACTTATTTAAA
1 TAAAATAAAAATAAA-AAACTTACTTAAA
2396012 TAAAATAA
1 TAAAATAA
2396020 TAAAATGTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (28 bp):
TAAAATAAAAATAAAAAACTTACTTAAA
Found at i:2397118 original size:21 final size:21
Alignment explanation
Indices: 2396908--2397118 Score: 146
Period size: 21 Copynumber: 10.2 Consensus size: 21
2396898 TTAAGTTATG
2396908 ATATAATTTT-AGTAA-TTTTA
1 ATATAATTTTGA-TAATTTTTA
* * **
2396928 GATATAAATTTAATAAGCTTTA
1 -ATATAATTTTGATAATTTTTA
*
2396950 ATGTAATTTTGATAATTTTTA
1 ATATAATTTTGATAATTTTTA
* * * *
2396971 GTATAA-TTGGGTAATTTTAA
1 ATATAATTTTGATAATTTTTA
* * *
2396991 ATAAAATTTTGATAACTTGTA
1 ATATAATTTTGATAATTTTTA
* ** *
2397012 ATATAATTTTAATAAACTTTG
1 ATATAATTTTGATAATTTTTA
* *
2397033 ATATTATTTTGATAATATTTA
1 ATATAATTTTGATAATTTTTA
2397054 ATATAA-TTTGATAAATTTTT-
1 ATATAATTTTGAT-AATTTTTA
* * * * *
2397074 CTACAAATTTAATTATTTTT-
1 ATATAATTTTGATAATTTTTA
2397094 ATATAATTTTGATAATTTTTA
1 ATATAATTTTGATAATTTTTA
2397115 ATAT
1 ATAT
2397119 GTAAATTTAA
Statistics
Matches: 143, Mismatches: 41, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
20 46 0.32
21 92 0.64
22 5 0.03
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (21 bp):
ATATAATTTTGATAATTTTTA
Found at i:2397492 original size:18 final size:19
Alignment explanation
Indices: 2397469--2397513 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
2397459 ATATAAATAT
2397469 TAAATAA-ATTTAAATAAA
1 TAAATAAGATTTAAATAAA
* *
2397487 TAAATAAGATTTGATTAAA
1 TAAATAAGATTTAAATAAA
2397506 -AAATAAGA
1 TAAATAAGA
2397514 CTGAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (19 bp):
TAAATAAGATTTAAATAAA
Found at i:2399732 original size:24 final size:25
Alignment explanation
Indices: 2399693--2399750 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 25
2399683 ATCTGATAAT
2399693 TTAAAATACGATATG-ATAATAAAATA
1 TTAAAATA-GATATGAATAA-AAAATA
2399719 TTAAAAT-GATATGAATAAAAAATA
1 TTAAAATAGATATGAATAAAAAATA
*
2399743 TAAAAATA
1 TTAAAATA
2399751 ACATAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 18 0.62
25 4 0.14
26 7 0.24
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (25 bp):
TTAAAATAGATATGAATAAAAAATA
Found at i:2410883 original size:19 final size:19
Alignment explanation
Indices: 2410844--2410888 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2410834 CTTTTTAGGG
2410844 TTAATATTATTAATAAAAT
1 TTAATATTATTAATAAAAT
2410863 TTAA-ATTA-TAATGAAATAT
1 TTAATATTATTAAT-AAA-AT
2410882 TTAATAT
1 TTAATAT
2410889 ATTCTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.17
18 7 0.30
19 10 0.43
20 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TTAATATTATTAATAAAAT
Found at i:2411071 original size:80 final size:80
Alignment explanation
Indices: 2410983--2411161 Score: 272
Period size: 80 Copynumber: 2.2 Consensus size: 80
2410973 ATTATATATC
* *
2410983 ATCATTTAAAATTAATTACGTTAAAAATAAATACTACATTAATTAATAAATTTATAATTCAATTG
1 ATCATTTAAAATTAATTAAGTTAAAAATAAATACTACATTAATTAATAAATTTATAATTCAATTA
2411048 TATTAAAAATTTTAA
66 TATTAAAAATTTTAA
* * * *
2411063 ATCATTTAAAATTAATTAAGTTAAAAGTAAATATTATATTAATTAATAAATTTATAATTTAATTA
1 ATCATTTAAAATTAATTAAGTTAAAAATAAATACTACATTAATTAATAAATTTATAATTCAATTA
2411128 TATTAAAAATTTTAA
66 TATTAAAAATTTTAA
2411143 A--ATTTAAACATTATATTAA
1 ATCATTTAAA-ATTA-ATTAA
2411162 ATATTTTATT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 7 0.08
79 4 0.04
80 80 0.88
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (80 bp):
ATCATTTAAAATTAATTAAGTTAAAAATAAATACTACATTAATTAATAAATTTATAATTCAATTA
TATTAAAAATTTTAA
Found at i:2411132 original size:25 final size:24
Alignment explanation
Indices: 2411020--2411149 Score: 77
Period size: 25 Copynumber: 5.0 Consensus size: 24
2411010 TAAATACTAC
*
2411020 ATTAATTAATAAATTTATAATTCA
1 ATTAATTAATAAATTTATAATTTA
* *
2411044 ATTGTATTAA-AAATTTTAAATCATTTAAA
1 ATT-AATTAATAAA-TTT--ATAATTT--A
**
2411073 ATTAATTAAGTTAAAAGTA-AATATTA
1 ATTAATTAA--TAAATTTATAAT-TTA
2411099 TATTAATTAATAAATTTATAATTTA
1 -ATTAATTAATAAATTTATAATTTA
*
2411124 ATTATATTAA-AAATTTTAAAATTTA
1 ATTA-ATTAATAAA-TTTATAATTTA
2411149 A
1 A
2411150 ACATTATATT
Statistics
Matches: 82, Mismatches: 10, Indels: 27
0.69 0.08 0.23
Matches are distributed among these distances:
24 13 0.16
25 33 0.40
26 4 0.05
27 16 0.20
28 8 0.10
29 4 0.05
30 1 0.01
31 3 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTAATTAATAAATTTATAATTTA
Found at i:2422203 original size:29 final size:29
Alignment explanation
Indices: 2422170--2422263 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
2422160 TTTTTAATTT
2422170 AAATTTAAAATTATTACTTTTATATATTA
1 AAATTTAAAATTATTACTTTTATATATTA
** * *
2422199 AAA-TTATATTTTCTTACTTTTTTATATTA
1 AAATTTA-AAATTATTACTTTTATATATTA
* *
2422228 AAATTATAAAATTTTTAATTTTATA-A--A
1 AAATT-TAAAATTATTACTTTTATATATTA
2422255 AAATTTAAA
1 AAATTTAAA
2422264 TTTTAATATT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
26 4 0.08
27 6 0.11
28 3 0.06
29 25 0.47
30 13 0.25
31 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
AAATTTAAAATTATTACTTTTATATATTA
Found at i:2422261 original size:17 final size:18
Alignment explanation
Indices: 2422231--2422268 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2422221 TATATTAAAA
* *
2422231 TTAT-AAAATTTTTAATT
1 TTATAAAAAATTTAAATT
2422248 TTATAAAAAATTTAAATT
1 TTATAAAAAATTTAAATT
2422266 TTA
1 TTA
2422269 ATATTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATAAAAAATTTAAATT
Found at i:2429358 original size:21 final size:21
Alignment explanation
Indices: 2429334--2429395 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
2429324 AATAAAAAAT
2429334 TAAAATTAAATATTATAATAA
1 TAAAATTAAATATTATAATAA
* **
2429355 TAAAATTTAATATTATAA-CG
1 TAAAATTAAATATTATAATAA
2429375 TAAAATTAAA-ATTAGTAATAA
1 TAAAATTAAATATTA-TAATAA
2429396 GATAATTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.12
20 12 0.36
21 17 0.52
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (21 bp):
TAAAATTAAATATTATAATAA
Found at i:2431679 original size:25 final size:25
Alignment explanation
Indices: 2431651--2431718 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
2431641 TTTTAATATA
*
2431651 ATTATTAAAATATTAAAAATTATTT
1 ATTACTAAAATATTAAAAATTATTT
* **
2431676 ATTAGTAAAATATATTGAAATTATTT
1 ATTACTAAAATAT-TAAAAATTATTT
2431702 ATTACTAAAATAATTAA
1 ATTACTAAAAT-ATTAA
2431719 TATTTAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 12 0.34
26 21 0.60
27 2 0.06
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (25 bp):
ATTACTAAAATATTAAAAATTATTT
Found at i:2431730 original size:17 final size:16
Alignment explanation
Indices: 2431708--2431748 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
2431698 ATTTATTACT
2431708 AAAATAATTAATATTTA
1 AAAATAATT-ATATTTA
2431725 AAAATAATTATATTTA
1 AAAATAATTATATTTA
*
2431741 ATAATAAT
1 AAAATAAT
2431749 ATTTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATAATTATATTTA
Found at i:2431743 original size:13 final size:13
Alignment explanation
Indices: 2431727--2431756 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2431717 AATATTTAAA
*
2431727 AATAATTATATTT
1 AATAATAATATTT
2431740 AATAATAATATTT
1 AATAATAATATTT
2431753 AATA
1 AATA
2431757 TTAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATAATAATATTT
Found at i:2431823 original size:23 final size:23
Alignment explanation
Indices: 2431812--2431940 Score: 88
Period size: 23 Copynumber: 5.6 Consensus size: 23
2431802 CTTATTCTTT
2431812 ATATTATTTATTAATATATTTTA
1 ATATTATTTATTAATATATTTTA
2431835 ATATTATTTATTAATATAATATATTA
1 ATATTATTTATTAATAT-AT-T-TTA
* * * *
2431861 ATAGTATATTATTTAT-TA-ATAA
1 ATATTAT-TTATTAATATATTTTA
*
2431883 TATATTAGTTATTAATATATTATT-
1 -ATATTATTTATTAATATATT-TTA
* **
2431907 ATAATATTTA-TAA-ATAAATTA
1 ATATTATTTATTAATATATTTTA
*
2431928 ATAATATTTATTA
1 ATATTATTTATTA
2431941 TTGTATTATT
Statistics
Matches: 83, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
20 2 0.02
21 13 0.16
22 14 0.17
23 32 0.39
24 2 0.02
25 3 0.04
26 10 0.12
27 7 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATATTATTTATTAATATATTTTA
Found at i:2431831 original size:15 final size:15
Alignment explanation
Indices: 2431811--2431965 Score: 87
Period size: 15 Copynumber: 10.6 Consensus size: 15
2431801 TCTTATTCTT
2431811 TATATTATTTATT-A
1 TATATTATTTATTAA
2431825 -ATA-TA-TT-TTAA
1 TATATTATTTATTAA
2431836 --TATTATTTATTAA
1 TATATTATTTATTAA
* * *
2431849 TATAATATATTAATAG
1 TATATTAT-TTATTAA
2431865 TATATTATTTATTAATAA
1 TATATTATTTA-T--TAA
*
2431883 TATATTAGTTATTAA
1 TATATTATTTATTAA
2431898 TATATTA-TTA-TAA
1 TATATTATTTATTAA
** *
2431911 TAT-TTATAAATAAA
1 TATATTATTTATTAA
* *
2431925 TTAATAATATTTATTAT
1 -T-ATATTATTTATTAA
*
2431942 TGTATTATTTATTAA
1 TATATTATTTATTAA
*
2431957 TATAATATT
1 TATATTATT
2431966 ATTTATATGT
Statistics
Matches: 106, Mismatches: 20, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
10 4 0.04
11 5 0.05
12 7 0.07
13 14 0.13
14 5 0.05
15 37 0.35
16 15 0.14
17 7 0.07
18 12 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:2431856 original size:18 final size:18
Alignment explanation
Indices: 2431815--2431971 Score: 85
Period size: 18 Copynumber: 8.4 Consensus size: 18
2431805 ATTCTTTATA
*
2431815 TTATTTATTAATAT-ATT
1 TTATTTATTAATATAATA
*
2431832 TTAATATTATTTAT-TAATA
1 TT-AT-TTATTAATATAATA
* *
2431851 TAATATATTAATAGT-ATA
1 TTATTTATTAATA-TAATA
2431869 TTATTTATTAATA-ATATA
1 TTATTTATTAATATA-ATA
*
2431887 TTAGTTATTAATATATTATTA
1 TTATTTATTAATATA--A-TA
*
2431908 TAATATTTATAAATAAATTAATA
1 T--TATTTATTAAT--A-TAATA
* *
2431931 ATATTTATT-AT-T-GTA
1 TTATTTATTAATATAATA
2431946 TTATTTATTAATATAATA
1 TTATTTATTAATATAATA
2431964 TTATTTAT
1 TTATTTAT
2431972 ATGTAAAATT
Statistics
Matches: 107, Mismatches: 15, Indels: 35
0.68 0.10 0.22
Matches are distributed among these distances:
15 10 0.09
16 3 0.03
17 9 0.08
18 44 0.41
19 12 0.11
20 4 0.04
21 10 0.09
23 11 0.10
24 1 0.01
25 1 0.01
26 2 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTATTTATTAATATAATA
Found at i:2431901 original size:72 final size:70
Alignment explanation
Indices: 2431811--2431948 Score: 181
Period size: 72 Copynumber: 1.9 Consensus size: 70
2431801 TCTTATTCTT
* * * *
2431811 TATATTATTTATTAATATATT-TTAATATTATTTATTAATATAATATATTAATAGTATATTATT-
1 TATATTAGTTATTAATATATTATT-ATAATATTTATAAATA-AAT-TAATAATA-TATATTATTG
2431874 TATTAATAA
62 TATTAATAA
*
2431883 TATATTAGTTATTAATATATTATTATAATATTTATAAATAAATTAATAATATTTATTATTGTATT
1 TATATTAGTTATTAATATATTATTATAATATTTATAAATAAATTAATAATATATATTATTGTATT
2431948 A
66 A
2431949 TTTATTAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
69 8 0.14
70 12 0.20
71 3 0.05
72 34 0.58
73 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (70 bp):
TATATTAGTTATTAATATATTATTATAATATTTATAAATAAATTAATAATATATATTATTGTATT
AATAA
Found at i:2432133 original size:22 final size:22
Alignment explanation
Indices: 2432083--2432133 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
2432073 AAAATTTATC
*
2432083 TTATTTTTCATTGATTAGTAAG
1 TTATTTTTCATTGATTACTAAG
*
2432105 TTATTTTTCTTTGATCTACTAA-
1 TTATTTTTCATTGAT-TACTAAG
2432127 TT-TTTTT
1 TTATTTTT
2432134 GTCAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.19
22 16 0.62
23 5 0.19
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.63
Consensus pattern (22 bp):
TTATTTTTCATTGATTACTAAG
Found at i:2440233 original size:18 final size:17
Alignment explanation
Indices: 2440216--2440267 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 17
2440206 TTTAAATAAT
2440216 TATTATAATTTATTTAA
1 TATTATAATTTATTTAA
*
2440233 TATATATAATGATTATTTTA
1 TAT-TATAAT--TTATTTAA
2440253 TATTA-AATTT-TTTAA
1 TATTATAATTTATTTAA
2440268 AAAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 4 0.13
16 2 0.07
17 3 0.10
18 9 0.30
19 2 0.07
20 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TATTATAATTTATTTAA
Found at i:2453749 original size:12 final size:12
Alignment explanation
Indices: 2453732--2453756 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2453722 ATCTCTTTTC
2453732 TTTTAAAATTCT
1 TTTTAAAATTCT
2453744 TTTTAAAATTCT
1 TTTTAAAATTCT
2453756 T
1 T
2453757 CTCCTATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATTCT
Found at i:2453783 original size:64 final size:64
Alignment explanation
Indices: 2453682--2453810 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
2453672 CTCTCTCCTC
*
2453682 TTAAAATTCTTCTCCTGTAAGTCAAACTTGCCTATTAAAAATCTCTTTTCTTTTAAAATTCTTT
1 TTAAAATTCTTCTCCTATAAGTCAAACTTGCCTATTAAAAATCTCTTTTCTTTTAAAATTCTTT
*
2453746 TTAAAATTCTTCTCCTATAAGTCAAACTTGTCTATTAAAAATCTCTTTTCTTTTAAAATTCTTT
1 TTAAAATTCTTCTCCTATAAGTCAAACTTGCCTATTAAAAATCTCTTTTCTTTTAAAATTCTTT
2453810 T
1 T
2453811 CTTGCAAATC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.48
Consensus pattern (64 bp):
TTAAAATTCTTCTCCTATAAGTCAAACTTGCCTATTAAAAATCTCTTTTCTTTTAAAATTCTTT
Found at i:2453823 original size:52 final size:52
Alignment explanation
Indices: 2453744--2453869 Score: 126
Period size: 52 Copynumber: 2.4 Consensus size: 52
2453734 TTAAAATTCT
* * ** * ** * * *
2453744 TTTTAAAATTCTTCTCCTATAAGTCAAACTTGTCTATTAAAAATCTCTTTTC
1 TTTTAAAATTCTTTTCTTGCAAATCAAACTTACCTATTAAAAATCACCTATC
*
2453796 TTTTAAAATTCTTTTCTTGCAAATCAAACTTACCTATTAAGAATCACCTATC
1 TTTTAAAATTCTTTTCTTGCAAATCAAACTTACCTATTAAAAATCACCTATC
* * *
2453848 TCTTAGAATTCTTTTTTTGCAA
1 TTTTAAAATTCTTTTCTTGCAA
2453870 GTCTTCTTGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (52 bp):
TTTTAAAATTCTTTTCTTGCAAATCAAACTTACCTATTAAAAATCACCTATC
Found at i:2453858 original size:116 final size:116
Alignment explanation
Indices: 2453652--2453863 Score: 271
Period size: 116 Copynumber: 1.8 Consensus size: 116
2453642 TATAACCATA
* * * *
2453652 CAAACTTGCCAATTAAGAATCTCTCTCCTCTTAAAATTCTTCTCCTGTAAGTCAAACTTGCCTAT
1 CAAACTTGCCAATTAAAAATCTCTCTCCTCTTAAAATTCTTCTCCTGCAAATCAAACTTACCTAT
* * * *
2453717 TAAAAATCTCTTTTCTTTTAAAATTCTTTTTAAAATTCTTCTCCTATAAGT
66 TAAAAATCACCTATCTCTTAAAATTCTTTTTAAAATTCTTCTCCTATAAGT
* * * * * * *
2453768 CAAACTTGTCTATTAAAAATCTCTTTTCTTTTAAAATTCTTTTCTTGCAAATCAAACTTACCTAT
1 CAAACTTGCCAATTAAAAATCTCTCTCCTCTTAAAATTCTTCTCCTGCAAATCAAACTTACCTAT
* *
2453833 TAAGAATCACCTATCTCTTAGAATTCTTTTT
66 TAAAAATCACCTATCTCTTAAAATTCTTTTT
2453864 TTGCAAGTCT
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
116 79 1.00
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (116 bp):
CAAACTTGCCAATTAAAAATCTCTCTCCTCTTAAAATTCTTCTCCTGCAAATCAAACTTACCTAT
TAAAAATCACCTATCTCTTAAAATTCTTTTTAAAATTCTTCTCCTATAAGT
Found at i:2453921 original size:22 final size:22
Alignment explanation
Indices: 2453896--2453937 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2453886 AGTAATATCT
2453896 AACAAATATCAAACAAATCTTA
1 AACAAATATCAAACAAATCTTA
* *
2453918 AACAAATCTCAAATAAATCT
1 AACAAATATCAAACAAATCT
2453938 CTTATGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (22 bp):
AACAAATATCAAACAAATCTTA
Found at i:2453936 original size:11 final size:11
Alignment explanation
Indices: 2453896--2453938 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
2453886 AGTAATATCT
*
2453896 AACAAATATCA
1 AACAAATCTCA
*
2453907 AACAAATCTTA
1 AACAAATCTCA
2453918 AACAAATCTCA
1 AACAAATCTCA
*
2453929 AATAAATCTC
1 AACAAATCTC
2453939 TTATGGGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:2454206 original size:25 final size:25
Alignment explanation
Indices: 2454177--2454231 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
2454167 AAACCATGGA
*
2454177 CTTCCCACATCTTAAACCTTT-AGCT
1 CTTCCCACATCTCAAA-CTTTAAGCT
*
2454202 CTTCCCACATCTCGAACTTTAAGCT
1 CTTCCCACATCTCAAACTTTAAGCT
2454227 CTTCC
1 CTTCC
2454232 GCGTCTCGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.22, C:0.38, G:0.05, T:0.35
Consensus pattern (25 bp):
CTTCCCACATCTCAAACTTTAAGCT
Found at i:2454985 original size:52 final size:52
Alignment explanation
Indices: 2454891--2455031 Score: 167
Period size: 52 Copynumber: 2.7 Consensus size: 52
2454881 ATAATCATAT
* * * * * * * *
2454891 AAACTTGCCCATTAAAAATCTCTCTCCTCTTAAAATTTTTCTCATGTAAGTC
1 AAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTATTCTCATGCAAATC
* *
2454943 AAACTTGCCTATTAAGAATCTCTTTTCTTTTAGAATTATTCTCTTGCAAATC
1 AAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTATTCTCATGCAAATC
*
2454995 AAACTTACCTATTAAGAATCTTCTTTT-TCTTAGAATT
1 AAACTTGCCTATTAAGAATC-TCTTTTCTCTTAGAATT
2455032 CTTTTTTTAC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
52 70 0.92
53 6 0.08
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (52 bp):
AAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTATTCTCATGCAAATC
Found at i:2484111 original size:11 final size:12
Alignment explanation
Indices: 2484095--2484168 Score: 55
Period size: 12 Copynumber: 6.1 Consensus size: 12
2484085 TATATAAAAA
2484095 AATTATTT-TTT
1 AATTATTTATTT
2484106 AATTATTTATTT
1 AATTATTTATTT
* *
2484118 TATTTTTATATTT
1 AATTATT-TATTT
*
2484131 AATTATATATTT
1 AATTATTTATTT
*
2484143 -TTTATATATATTT
1 AATTAT-T-TATTT
2484156 AATT-TTATATTT
1 AATTATT-TATTT
2484168 A
1 A
2484169 TATTTAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
11 12 0.24
12 21 0.42
13 15 0.30
14 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:2484132 original size:25 final size:25
Alignment explanation
Indices: 2484103--2484174 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
2484093 AAAATTATTT
*
2484103 TTTAATTATTTATTTTATTTTTATA
1 TTTAATTATTTATTTTATTTATATA
*
2484128 TTTAATTATATATTTT-TTATATATA
1 TTTAATTATTTATTTTATT-TATATA
2484153 TTTAATT-TTATATTTATATTTA
1 TTTAATTATT-TATTT-TATTTA
2484175 AAATAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 3 0.08
25 32 0.80
26 3 0.08
27 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTAATTATTTATTTTATTTATATA
Found at i:2484168 original size:6 final size:6
Alignment explanation
Indices: 2484109--2484174 Score: 57
Period size: 6 Copynumber: 11.0 Consensus size: 6
2484099 ATTTTTTAAT
* * *
2484109 TATTTA T-TTTA TTTTTA TATTTA -ATTATA TATTTTT TATATA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATT-TA TA-TTTA TATTTA TATTTA
2484157 -ATTTTA TATTTA TATTTA
1 TA-TTTA TATTTA TATTTA
2484175 AAATAATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
5 9 0.18
6 33 0.67
7 5 0.10
8 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:2484170 original size:18 final size:18
Alignment explanation
Indices: 2484109--2484175 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
2484099 ATTTTTTAAT
*
2484109 TATTTAT-TTTATTTTTA
1 TATTTATATTTAATTTTA
*
2484126 TATTTA-ATTATATATTTTT
1 TATTTATATT-TA-ATTTTA
*
2484145 TATATATATTTAATTTTA
1 TATTTATATTTAATTTTA
2484163 TATTTATATTTAA
1 TATTTATATTTAA
2484176 AATAATATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
17 8 0.20
18 19 0.46
19 11 0.27
20 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTATATTTAATTTTA
Found at i:2484184 original size:43 final size:40
Alignment explanation
Indices: 2484083--2484193 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 40
2484073 CCCGATCCGA
* * *
2484083 TATATATAAAAAAATTATTTTTTAATTATTTATTTTATTTT
1 TATATTTAAAATAA-TATTTTTTAATTATTTATTTTATATT
*
2484124 TATATTT-AATTATATATTTTTTATATATATTTAATTTTATATT
1 TATATTTAAAATA-ATATTTTTTA-AT-TATTT-ATTTTATATT
2484167 TATATTTAAAATAATATTTTATTAATT
1 TATATTTAAAATAATATTTT-TTAATT
2484194 TCAAGTCGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
40 12 0.20
41 9 0.15
42 6 0.10
43 25 0.42
44 7 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (40 bp):
TATATTTAAAATAATATTTTTTAATTATTTATTTTATATT
Done.