Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 22 of 125
Found at i:3916301 original size:19 final size:19
Alignment explanation
Indices: 3916266--3916303 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
3916256 CAATATATTT
3916266 ATTAATTAAAATAATAAAA
1 ATTAATTAAAATAATAAAA
3916285 ATTATATTAAAAT-ATAAAA
1 ATTA-ATTAAAATAATAAAA
3916304 GCTTGATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTAATTAAAATAATAAAA
Found at i:3920633 original size:9 final size:9
Alignment explanation
Indices: 3920615--3920643 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3920605 ATGACGTGTC
3920615 AAAAAT-AA
1 AAAAATAAA
3920623 AAAAATAAA
1 AAAAATAAA
3920632 AAAAATAAA
1 AAAAATAAA
3920641 AAA
1 AAA
3920644 CAAAATCAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:3920690 original size:23 final size:23
Alignment explanation
Indices: 3920660--3920706 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
3920650 CAGCCCCACA
3920660 TCTTGGCATAA-TACAAGATTCCT
1 TCTTGGCA-AAGTACAAGATTCCT
3920683 TCTTGGCAAAGTACAAGATTCCT
1 TCTTGGCAAAGTACAAGATTCCT
3920706 T
1 T
3920707 GGATCTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (23 bp):
TCTTGGCAAAGTACAAGATTCCT
Found at i:3922174 original size:12 final size:12
Alignment explanation
Indices: 3922142--3922230 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
3922132 ATTATTTTTA
3922142 AAATAT-TAATAT
1 AAATATATAA-AT
3922154 AAA-AT-TAAAT
1 AAATATATAAAT
3922164 AAATATATAAAT
1 AAATATATAAAT
*
3922176 ATATATATAAAT
1 AAATATATAAAT
*
3922188 ATAAAAT-TAAAT
1 A-AATATATAAAT
*
3922200 AATTA-ATTAAA-
1 AAATATA-TAAAT
*
3922211 AAATA-ATATAT
1 AAATATATAAAT
*
3922222 ATATATATA
1 AAATATATA
3922231 GGATCGAGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
10 8 0.13
11 18 0.29
12 33 0.53
13 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATATATAAAT
Found at i:3922177 original size:6 final size:6
Alignment explanation
Indices: 3922142--3922192 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
3922132 ATTATTTTTA
* *
3922142 AAATAT TAATAT AAA-ATT AAATA- AATATAT AAATAT ATATAT AAATAT
1 AAATAT AAATAT AAATA-T AAATAT AA-ATAT AAATAT AAATAT AAATAT
3922190 AAA
1 AAA
3922193 ATTAAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 3 0.08
6 31 0.84
7 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAATAT
Found at i:3922220 original size:36 final size:35
Alignment explanation
Indices: 3922143--3922226 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 35
3922133 TTATTTTTAA
* *
3922143 AATATTAATATAAAATTAAATAAATATATAAATAT
1 AATATAAATATAAAATTAAATAAATATATAAAAAT
*
3922178 ATATATAAATATAAAATTAAATAATTA-ATTAAAAAAT
1 A-ATATAAATATAAAATTAAATAAATATA-T-AAAAAT
*
3922215 AATATATATATA
1 AATATAAATATA
3922227 TATAGGATCG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 2 0.05
36 34 0.81
37 6 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (35 bp):
AATATAAATATAAAATTAAATAAATATATAAAAAT
Found at i:3924023 original size:15 final size:15
Alignment explanation
Indices: 3923989--3924027 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
3923979 TTTGATTTAA
* *
3923989 ATTTAAATTGATTTT
1 ATTTAAATTGATATG
*
3924004 TTTTAAATTGATATG
1 ATTTAAATTGATATG
3924019 ATTTAAATT
1 ATTTAAATT
3924028 AAATTCTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATTTAAATTGATATG
Found at i:3924103 original size:22 final size:22
Alignment explanation
Indices: 3924078--3924119 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
3924068 TTATTTTTTT
3924078 ATTTTT-ATATTATTTTAATATA
1 ATTTTTAATA-TATTTTAATATA
3924100 ATTTTTAATATATTTTAATA
1 ATTTTTAATATATTTTAATA
3924120 GATTTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTTAATATATTTTAATATA
Found at i:3924117 original size:10 final size:10
Alignment explanation
Indices: 3924077--3924124 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
3924067 TTTATTTTTT
*
3924077 TATTTTTATA
1 TATTTTAATA
3924087 TTATTTTAATA
1 -TATTTTAATA
3924098 TAATTTTTAATA
1 T-A-TTTTAATA
3924110 TATTTTAATA
1 TATTTTAATA
*
3924120 GATTT
1 TATTT
3924125 ATGTAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
10 13 0.39
11 11 0.33
12 9 0.27
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TATTTTAATA
Found at i:3928072 original size:3 final size:3
Alignment explanation
Indices: 3928066--3928095 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3928056 AATATTTAAA
*
3928066 ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3928096 GCAATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:3930662 original size:13 final size:13
Alignment explanation
Indices: 3930639--3930682 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
3930629 TCTGTTAATA
3930639 AAATATTTAATTTT
1 AAAT-TTTAATTTT
*
3930653 TAATTTTAATTATT
1 AAATTTTAATT-TT
3930667 AAATTTTGAATTTT
1 AAATTTT-AATTTT
3930681 AA
1 AA
3930683 TAATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 7 0.27
14 15 0.58
15 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
AAATTTTAATTTT
Found at i:3930671 original size:21 final size:21
Alignment explanation
Indices: 3930642--3930683 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3930632 GTTAATAAAA
* *
3930642 TATTTAATTTTTAATTTTAAT
1 TATTAAATTTTGAATTTTAAT
3930663 TATTAAATTTTGAATTTTAAT
1 TATTAAATTTTGAATTTTAAT
3930684 AATTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTAAATTTTGAATTTTAAT
Found at i:3932870 original size:15 final size:15
Alignment explanation
Indices: 3932850--3932879 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3932840 TATTTATATA
3932850 TTTTTAGTAAATAAT
1 TTTTTAGTAAATAAT
*
3932865 TTTTTATTAAATAAT
1 TTTTTAGTAAATAAT
3932880 ATACATTATT
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:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TTTTTAGTAAATAAT
Found at i:3935845 original size:29 final size:29
Alignment explanation
Indices: 3935786--3935885 Score: 94
Period size: 29 Copynumber: 3.3 Consensus size: 29
3935776 AATATTATAA
* *
3935786 ATGATTTTTAAATTATAGTAAAATATTTAAT
1 ATGATATTTAAATTATA--AAAATTTTTAAT
3935817 ATGATATTTAAAATT-TAAAAATTTTTAAT
1 ATGATATTT-AAATTATAAAAATTTTTAAT
* * *
3935846 ATAATATTTTAATTATAAATATATTAATTAAT
1 ATGATATTTAAATTATAAA-A-ATT-TTTAAT
3935878 ATGATATT
1 ATGATATT
3935886 CAACTCTAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
28 4 0.07
29 23 0.40
30 1 0.02
31 13 0.22
32 17 0.29
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
ATGATATTTAAATTATAAAAATTTTTAAT
Found at i:3935884 original size:17 final size:17
Alignment explanation
Indices: 3935841--3935884 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
3935831 TTAAAAATTT
*
3935841 TTAATATAATATTTTAA
1 TTAATATAATATATTAA
3935858 TT-ATA-AATATATTAA
1 TTAATATAATATATTAA
*
3935873 TTAATATGATAT
1 TTAATATAATAT
3935885 TCAACTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.48
16 6 0.26
17 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAATATAATATATTAA
Found at i:3940360 original size:20 final size:19
Alignment explanation
Indices: 3940322--3940360 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
3940312 TAAATATATT
3940322 AATATATATTTTAAATGAA
1 AATATATATTTTAAATGAA
3940341 AATATATTAGTTTT-AATGAA
1 AATATA-TA-TTTTAAATGAA
3940361 TTTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (19 bp):
AATATATATTTTAAATGAA
Found at i:3942310 original size:18 final size:19
Alignment explanation
Indices: 3942286--3942346 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 19
3942276 GATAATAGCC
3942286 ATTCTGAGGATGAAAG-TG
1 ATTCTGAGGATGAAAGATG
* * *
3942304 GTTCTGATGA-GGAAGATG
1 ATTCTGAGGATGAAAGATG
3942322 ATTCTGAGGATG-AAGATG
1 ATTCTGAGGATGAAAGATG
*
3942340 AGTCTGA
1 ATTCTGA
3942347 TGAGGTTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 4 0.11
18 30 0.86
19 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.34, T:0.28
Consensus pattern (19 bp):
ATTCTGAGGATGAAAGATG
Found at i:3947620 original size:6 final size:6
Alignment explanation
Indices: 3947609--3947660 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
3947599 ACTGAACAAC
3947609 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
3947657 ATAT
1 ATAT
3947661 ATAAACTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:3954496 original size:23 final size:21
Alignment explanation
Indices: 3954454--3954498 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
3954444 ATGTTTTTCA
3954454 AAATTTTTAATTTTGATTATT
1 AAATTTTTAATTTTGATTATT
*
3954475 AAATTATTTATTTATTGATTATT
1 AAATT-TTTAATT-TTGATTATT
3954498 A
1 A
3954499 TTTTTGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 6 0.29
23 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
AAATTTTTAATTTTGATTATT
Found at i:3959076 original size:20 final size:21
Alignment explanation
Indices: 3959038--3959076 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
3959028 ACAACAACTT
3959038 TTTTAATTATAATTATAATAA
1 TTTTAATTATAATTATAATAA
* *
3959059 TTTT-ATTATTATTTTAAT
1 TTTTAATTATAATTATAAT
3959077 CTCATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATTATAATTATAATAA
Found at i:3960738 original size:108 final size:108
Alignment explanation
Indices: 3960594--3960797 Score: 372
Period size: 108 Copynumber: 1.9 Consensus size: 108
3960584 AACTCGATTA
*
3960594 ACATGTAAAAATAAATTCGATTCTTATATTTGACAAAAATTCAATTATTTATATTCAAGCTTGAG
1 ACATGTAAAAATAAATTCGATTCTTATATTTGACAAAAATTCAATTATTTATATTCAAGCTTAAG
3960659 ATATTTTATTAACTAAAATAATTAAAATATAAAAGCTTAATTG
66 ATATTTTATTAACTAAAATAATTAAAATATAAAAGCTTAATTG
* * *
3960702 ACATGTAAAAATAAATTCGATTCTTATATTTGACAAAAATTTAATTATTTATGTTCGAGCTTAAG
1 ACATGTAAAAATAAATTCGATTCTTATATTTGACAAAAATTCAATTATTTATATTCAAGCTTAAG
3960767 ATATTTTATTAACTAAAATAATTAAAATATA
66 ATATTTTATTAACTAAAATAATTAAAATATA
3960798 TTAAAATATA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 92 1.00
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (108 bp):
ACATGTAAAAATAAATTCGATTCTTATATTTGACAAAAATTCAATTATTTATATTCAAGCTTAAG
ATATTTTATTAACTAAAATAATTAAAATATAAAAGCTTAATTG
Found at i:3960802 original size:10 final size:10
Alignment explanation
Indices: 3960780--3960808 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3960770 TTTTATTAAC
3960780 TAAAATA-AT
1 TAAAATATAT
3960789 TAAAATATAT
1 TAAAATATAT
3960799 TAAAATATAT
1 TAAAATATAT
3960809 AAGCTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATATAT
Found at i:3971319 original size:108 final size:108
Alignment explanation
Indices: 3971196--3971408 Score: 399
Period size: 108 Copynumber: 2.0 Consensus size: 108
3971186 ATATTATAAG
* *
3971196 AAAAAAAGAGCGGTTAAGAGTAAAGATAAGAGTGTTCCTTGTATTTGTGTTCCAATTCTCAAATT
1 AAAAAAAGAGCGGTTAAGAGTAAAGATAAGAGTGTTCCTTGCACTTGTGTTCCAATTCTCAAATT
3971261 AGAAGTAAGCTAATAGAGGTTCAACGAAGAGGAAAAAAAAGAA
66 AGAAGTAAGCTAATAGAGGTTCAACGAAGAGGAAAAAAAAGAA
3971304 AAAAAAAGAGCGGTTAAGAGTAAAGATAAGAGTGTTCCTTGCACTTGTGTTCCAATTCTCAAATT
1 AAAAAAAGAGCGGTTAAGAGTAAAGATAAGAGTGTTCCTTGCACTTGTGTTCCAATTCTCAAATT
*
3971369 AGAAGTAAGCTAATAGAGGTTGAACGAAGAGGAAAAAAAA
66 AGAAGTAAGCTAATAGAGGTTCAACGAAGAGGAAAAAAAA
3971409 AAATTATATT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (108 bp):
AAAAAAAGAGCGGTTAAGAGTAAAGATAAGAGTGTTCCTTGCACTTGTGTTCCAATTCTCAAATT
AGAAGTAAGCTAATAGAGGTTCAACGAAGAGGAAAAAAAAGAA
Found at i:3974196 original size:38 final size:38
Alignment explanation
Indices: 3974154--3974230 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
3974144 AAATTGTATA
*
3974154 AATTTAAAAAAAAGATAATTTTAATCAATAAATAAATT
1 AATTTAAAAAAAAGATAATTTTAACCAATAAATAAATT
*
3974192 AATTTTAAAAAAAGATAATTTTAACCAATAAATAAATT
1 AATTTAAAAAAAAGATAATTTTAACCAATAAATAAATT
3974230 A
1 A
3974231 TCATATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.34
Consensus pattern (38 bp):
AATTTAAAAAAAAGATAATTTTAACCAATAAATAAATT
Found at i:3974210 original size:16 final size:16
Alignment explanation
Indices: 3974154--3974215 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 16
3974144 AAATTGTATA
*
3974154 AATTTAAAAAAAAGAT
1 AATTTTAAAAAAAGAT
*
3974170 AATTTTAATCAATAAATAAATT
1 AATTTT-A--AA-AAA-AGA-T
3974192 AATTTTAAAAAAAGAT
1 AATTTTAAAAAAAGAT
3974208 AATTTTAA
1 AATTTTAA
3974216 CCAATAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
16 14 0.38
17 3 0.08
18 3 0.08
19 4 0.11
20 3 0.08
21 3 0.08
22 7 0.19
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (16 bp):
AATTTTAAAAAAAGAT
Found at i:3974303 original size:27 final size:26
Alignment explanation
Indices: 3974273--3974332 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
3974263 ATATAAGATG
3974273 ATATTATTTAATCTAATCATATTCATA
1 ATATTATTTAATCTAATCATATT-ATA
* * *
3974300 ATATTATTTTATTTTATCATATTATA
1 ATATTATTTAATCTAATCATATTATA
*
3974326 ATCTTAT
1 ATATTAT
3974333 GTACCAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATTATTTAATCTAATCATATTATA
Found at i:3979762 original size:7 final size:8
Alignment explanation
Indices: 3979730--3979762 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
3979720 TAATTTCTTG
*
3979730 AATTTACA
1 AATTTAAA
3979738 AATTTAAA
1 AATTTAAA
3979746 AATTTAAA
1 AATTTAAA
3979754 AATTTAAA
1 AATTTAAA
3979762 A
1 A
3979763 GTGATAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (8 bp):
AATTTAAA
Found at i:3983116 original size:1 final size:1
Alignment explanation
Indices: 3983110--3983135 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
3983100 CCCGCCAACA
3983110 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
3983136 AAAAAAAAAA
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:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:3990797 original size:14 final size:14
Alignment explanation
Indices: 3990788--3990817 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3990778 AAATAATTAT
3990788 AAAATTATAATAAA
1 AAAATTATAATAAA
3990802 AAAATTATAAGTAAA
1 AAAATTATAA-TAAA
3990817 A
1 A
3990818 TTAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAATTATAATAAA
Found at i:3990797 original size:22 final size:22
Alignment explanation
Indices: 3990769--3990811 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3990759 AATTTTTTTT
* *
3990769 ATTATAATTAAATAATTATAAA
1 ATTATAATAAAAAAATTATAAA
3990791 ATTATAATAAAAAAATTATAA
1 ATTATAATAAAAAAATTATAA
3990812 GTAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAAAAATTATAAA
Found at i:3990841 original size:25 final size:25
Alignment explanation
Indices: 3990786--3990843 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
3990776 TTAAATAATT
3990786 ATAAAATTATAATAAAAAAATTATA
1 ATAAAATTATAATAAAAAAATTATA
*
3990811 AGTAAAATTAATAA-AAAAAAGTGTA-A
1 A-TAAAATT-ATAATAAAAAAAT-TATA
3990837 ATAAAAT
1 ATAAAAT
3990844 GTTTTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 7 0.24
26 16 0.55
27 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (25 bp):
ATAAAATTATAATAAAAAAATTATA
Found at i:3991237 original size:29 final size:30
Alignment explanation
Indices: 3991201--3991277 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
3991191 TTTATTAATT
3991201 TATTTAGATAAATTTTTATATTTTT-ATT-A
1 TATTTAGATAAA-TTTTATATTTTTAATTCA
* *
3991230 TATTTAGATAAA-TATATATTTTTAATTCG
1 TATTTAGATAAATTTTATATTTTTAATTCA
*
3991259 TATTCAGATAAACTTTTAT
1 TATTTAGATAAA-TTTTAT
3991278 TTCAAATATC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 10 0.25
28 3 0.08
29 23 0.57
31 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (30 bp):
TATTTAGATAAATTTTATATTTTTAATTCA
Found at i:3991354 original size:29 final size:28
Alignment explanation
Indices: 3991289--3991396 Score: 117
Period size: 30 Copynumber: 3.7 Consensus size: 28
3991279 TCAAATATCA
* * *
3991289 AAAATTTATTTAAGTACAAATTAAAAGTC
1 AAAATTTATTTAAATATAAATT-AAAGTT
3991318 AAATATTTATTTAAATATAAATTAAAGTTT
1 AAA-ATTTATTTAAATATAAATTAAAG-TT
* * *
3991348 AAAATTTTATTTAAATGTAAAGTAAAAATT
1 AAAA-TTTATTTAAATATAAA-TTAAAGTT
3991378 AAAATTTATTTAAATATAA
1 AAAATTTATTTAAATATAA
3991397 TAAACATAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
29 22 0.32
30 42 0.62
31 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (28 bp):
AAAATTTATTTAAATATAAATTAAAGTT
Found at i:3993112 original size:37 final size:37
Alignment explanation
Indices: 3993071--3993146 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
3993061 CAGAACAAGA
*
3993071 CTCATTAAATAAGGGCTGTTTACGCTATTACGCACAC
1 CTCATTAAATAAGGGCTGTTTACACTATTACGCACAC
3993108 CTCATTAAATAAGGGCTGTTTACACTATTACGCACAC
1 CTCATTAAATAAGGGCTGTTTACACTATTACGCACAC
3993145 CT
1 CT
3993147 AGGTGTGGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (37 bp):
CTCATTAAATAAGGGCTGTTTACACTATTACGCACAC
Found at i:3994582 original size:2 final size:2
Alignment explanation
Indices: 3994575--3994601 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3994565 CACATAAATA
3994575 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
3994602 CTATATATAT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3994608 original size:2 final size:2
Alignment explanation
Indices: 3994603--3994630 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3994593 TGTGTGTGTC
3994603 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
3994631 AAATATACAA
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):
TA
Found at i:4002270 original size:14 final size:14
Alignment explanation
Indices: 4002253--4002279 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4002243 GTGTGGAAAA
4002253 AAGATGGAAATTTC
1 AAGATGGAAATTTC
4002267 AAGATGGAAATTT
1 AAGATGGAAATTT
4002280 AAAAGAAAAG
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:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (14 bp):
AAGATGGAAATTTC
Found at i:4003483 original size:27 final size:27
Alignment explanation
Indices: 4003447--4003502 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
4003437 ATTGAAAATA
* *
4003447 TTTTTTTAATCATAACTATAATAACTT
1 TTTTTTTAATAACAACTATAATAACTT
*
4003474 TTTTTTTAATAACAATTATAATAACTT
1 TTTTTTTAATAACAACTATAATAACTT
4003501 TT
1 TT
4003503 ATTATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTTTTTAATAACAACTATAATAACTT
Found at i:4004050 original size:15 final size:15
Alignment explanation
Indices: 4004026--4004055 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4004016 TTCAATCGAT
4004026 AAGTACAATCACTTA
1 AAGTACAATCACTTA
*
4004041 AAGTATAATCACTTA
1 AAGTACAATCACTTA
4004056 CTAAAATAGA
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:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (15 bp):
AAGTACAATCACTTA
Found at i:4009087 original size:29 final size:29
Alignment explanation
Indices: 4009032--4009087 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
4009022 AAATTTATCG
* *
4009032 TACAAAAAAAATATCTATAATTTATAATT
1 TACAAAAAAAATATCGATAATTGATAATT
*
4009061 TACATAAAAAAATAT-GATTATTGATAA
1 TACA-AAAAAAATATCGATAATTGATAA
4009088 AACTATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 13 0.57
30 10 0.43
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (29 bp):
TACAAAAAAAATATCGATAATTGATAATT
Found at i:4009416 original size:136 final size:131
Alignment explanation
Indices: 4009191--4009514 Score: 384
Period size: 136 Copynumber: 2.4 Consensus size: 131
4009181 AACTTTCATT
* *
4009191 AATGGATTTATTTGATAAATAAAAAA-ATTAAAGTTTA-CATTAAGTTGTTTTATCTTCAAGAAT
1 AATGGATTTATTTAATAAAAAAAAAAGATTAAAGTTTATCA--AA-TTGTTTTATCTTCAAGAAT
* * * ** * *
4009254 TCTAATTTTACATTAATACTAAAAGCAATAAATTTATGTTAATCTAGTTCTATTTAAAGATTTTC
63 TCTAATTTTACATTAACACTAAAAGCAACAAACTTATGTTAATCT-GTTAAACTTAAAGATTTGC
4009319 AATTA
127 AATTA
4009324 AATGGATTTATTAGATAAATAAAAAAAAAAGAGTTAAAGTTTATCAAATTGTTTTATCTTCAA-A
1 AATGGATTTATT---T-AATAAAAAAAAAAGA-TTAAAGTTTATCAAATTGTTTTATCTTCAAGA
* * *
4009388 GTTTTAATTTTACATTAACACTAAAAGCAACAAACTTATGTTACTCTGTTAAACTTAAAGATTTG
61 ATTCTAATTTTACATTAACACTAAAAGCAACAAACTTATGTTAATCTGTTAAACTTAAAGATTTG
4009453 CAATTA
126 CAATTA
* *
4009459 TATGGATTTATTTAATAAAACAAAAAAGAATTAAAGATTATATTAAATTGTTTTAT
1 AATGGATTTATTTAATAAAA-AAAAAAG-ATTAAAG-TT-TATCAAATTGTTTTAT
4009515 TTTTAGAGTA
Statistics
Matches: 166, Mismatches: 14, Indels: 21
0.83 0.07 0.10
Matches are distributed among these distances:
131 7 0.04
132 14 0.08
133 15 0.09
134 15 0.09
135 31 0.19
136 43 0.26
137 26 0.16
138 3 0.02
139 10 0.06
140 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (131 bp):
AATGGATTTATTTAATAAAAAAAAAAGATTAAAGTTTATCAAATTGTTTTATCTTCAAGAATTCT
AATTTTACATTAACACTAAAAGCAACAAACTTATGTTAATCTGTTAAACTTAAAGATTTGCAATT
A
Found at i:4011147 original size:21 final size:20
Alignment explanation
Indices: 4011114--4011162 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
4011104 TTTATTTGTA
*
4011114 TATATTATTTTAATATAATTTT
1 TATA-TATTTAAATA-AATTTT
4011136 TAATATATTTAAATAAATTTT
1 T-ATATATTTAAATAAATTTT
4011157 TATATA
1 TATATA
4011163 AAATAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 7 0.28
22 10 0.40
23 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATATATTTAAATAAATTTT
Found at i:4012208 original size:20 final size:19
Alignment explanation
Indices: 4012183--4012224 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4012173 GAATTGAATG
*
4012183 ATATATATTTTTTAATTTTT
1 ATATATA-TTTTAAATTTTT
4012203 ATATATATTTTAAATTTTT
1 ATATATATTTTAAATTTTT
4012222 ATA
1 ATA
4012225 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATATATTTTAAATTTTT
Found at i:4013470 original size:13 final size:13
Alignment explanation
Indices: 4013454--4013490 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4013444 TTTAAATTAA
4013454 ATTATATTTATAT
1 ATTATATTTATAT
4013467 ATTAT-TTT-TAT
1 ATTATATTTATAT
*
4013478 ATCATATTTATAT
1 ATTATATTTATAT
4013491 CGTATCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 7 0.33
12 6 0.29
13 8 0.38
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATATTTATAT
Found at i:4013923 original size:25 final size:25
Alignment explanation
Indices: 4013854--4013937 Score: 64
Period size: 25 Copynumber: 3.3 Consensus size: 25
4013844 ATTATATAAA
*
4013854 AATTAAATAATATAATTAAAAATATT
1 AATTAATTAA-ATAATTAAAAATATT
* * *
4013880 TATTCAATTAATTTA-TAAAAATATT
1 AATT-AATTAAATAATTAAAAATATT
*
4013905 AATT-ATGTAAATAATTAAATATAATT
1 AATTAAT-TAAATAATTAAAAAT-ATT
*
4013931 ATTTAAT
1 AATTAAT
4013938 ATTAAATTCT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
23 2 0.05
24 5 0.11
25 19 0.43
26 11 0.25
27 7 0.16
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
AATTAATTAAATAATTAAAAATATT
Found at i:4013931 original size:22 final size:21
Alignment explanation
Indices: 4013898--4013944 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
4013888 TAATTTATAA
4013898 AAATATTAATTATGTAAATAATT
1 AAATATTAATTAT-TAAAT-ATT
*
4013921 AAATA-TAATTATTTAATATT
1 AAATATTAATTATTAAATATT
4013941 AAAT
1 AAAT
4013945 TCTGTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 4 0.17
22 7 0.30
23 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
AAATATTAATTATTAAATATT
Found at i:4014001 original size:15 final size:15
Alignment explanation
Indices: 4013983--4014015 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4013973 AATTCTAAAT
4013983 TATAT-TTAATAATAA
1 TATATGTTAAT-ATAA
4013998 TATATGTTAATATAA
1 TATATGTTAATATAA
4014013 TAT
1 TAT
4014016 TTAATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TATATGTTAATATAA
Found at i:4014026 original size:12 final size:12
Alignment explanation
Indices: 4013984--4014131 Score: 58
Period size: 12 Copynumber: 11.7 Consensus size: 12
4013974 ATTCTAAATT
4013984 ATATTTAATAATAA
1 ATATTTAAT--TAA
4013998 TATATGTTAA-TATA
1 -ATAT-TTAATTA-A
4014012 ATATTTAATTAA
1 ATATTTAATTAA
*
4014024 ATATTTTATTGAA
1 ATATTTAATT-AA
4014037 TGATATTTAATT-A
1 --ATATTTAATTAA
4014050 ATA-TT-ATGTAA
1 ATATTTAAT-TAA
*
4014061 ATATTTATTGTTTAAA
1 ATATTTA---ATT-AA
*
4014077 GATATTTAATAAA
1 -ATATTTAATTAA
*
4014090 ATA-TTATATTTA
1 ATATTTA-ATTAA
*
4014102 ATA-AT-ATTAA
1 ATATTTAATTAA
*
4014112 ATATTTAATAAA
1 ATATTTAATTAA
4014124 ATATTTAA
1 ATATTTAA
4014132 ATTTATATAA
Statistics
Matches: 104, Mismatches: 11, Indels: 39
0.68 0.07 0.25
Matches are distributed among these distances:
9 2 0.02
10 10 0.10
11 11 0.11
12 38 0.37
13 13 0.12
14 2 0.02
15 14 0.13
16 7 0.07
17 7 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (12 bp):
ATATTTAATTAA
Found at i:4014098 original size:17 final size:18
Alignment explanation
Indices: 4014078--4014151 Score: 77
Period size: 17 Copynumber: 4.3 Consensus size: 18
4014068 TTGTTTAAAG
4014078 ATATTTAATAAAATATT-
1 ATATTTAATAAAATATTA
4014095 ATATTTAAT--AATATTAA
1 ATATTTAATAAAATATT-A
4014112 ATATTTAATAAAATATTTA
1 ATATTTAATAAAATA-TTA
* *
4014131 A-ATTT-ATATAATATAA
1 ATATTTAATAAAATATTA
4014147 ATATT
1 ATATT
4014152 ATATAATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
15 6 0.12
16 3 0.06
17 28 0.57
18 4 0.08
19 6 0.12
20 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTAATAAAATATTA
Found at i:4014116 original size:34 final size:35
Alignment explanation
Indices: 4014078--4014151 Score: 116
Period size: 35 Copynumber: 2.1 Consensus size: 35
4014068 TTGTTTAAAG
*
4014078 ATATTTAATAAAATA-TTATATTTA-ATAATATTAA
1 ATATTTAATAAAATATTTAAATTTATATAATA-TAA
4014112 ATATTTAATAAAATATTTAAATTTATATAATATAA
1 ATATTTAATAAAATATTTAAATTTATATAATATAA
4014147 ATATT
1 ATATT
4014152 ATATAATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
34 15 0.41
35 16 0.43
36 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
ATATTTAATAAAATATTTAAATTTATATAATATAA
Found at i:4014155 original size:16 final size:16
Alignment explanation
Indices: 4014129--4014166 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
4014119 ATAAAATATT
4014129 TAAAT-TTATATAATA
1 TAAATATTATATAATA
4014144 TAAATATTATATAATA
1 TAAATATTATATAATA
4014160 TAAATAT
1 TAAATAT
4014167 CTTTTCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAATATTATATAATA
Found at i:4036945 original size:19 final size:19
Alignment explanation
Indices: 4036907--4036945 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4036897 TATTTAATAT
*
4036907 TAAAATTTAAATTTTTTTA
1 TAAAATTTAAATTTTATTA
4036926 TAAAA-TTAAATTTTCATTA
1 TAAAATTTAAATTTT-ATTA
4036945 T
1 T
4036946 TTTTAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAAAATTTAAATTTTATTA
Found at i:4037816 original size:18 final size:17
Alignment explanation
Indices: 4037794--4037859 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 17
4037784 ATATATAAGT
4037794 TAATTTAATTTTTATAA
1 TAATTTAATTTTTATAA
*
4037811 TAAATTAAATTAGTTTTATCAA
1 T-AATTTAA-T--TTTTAT-AA
* *
4037833 TTATTTGATTTTTATAA
1 TAATTTAATTTTTATAA
4037850 TTAATTTAAT
1 -TAATTTAAT
4037860 CGAATCGACT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
17 3 0.08
18 19 0.51
19 1 0.03
20 1 0.03
21 10 0.27
22 3 0.08
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
TAATTTAATTTTTATAA
Found at i:4037827 original size:22 final size:25
Alignment explanation
Indices: 4037776--4037827 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 25
4037766 AAACTATTTG
*
4037776 ATTTTTATATATATAAGTTAATTTA
1 ATTTTTATATATATAAGTTAAATTA
4037801 ATTTTTATA-ATA-AA-TTAAATTA
1 ATTTTTATATATATAAGTTAAATTA
*
4037823 GTTTT
1 ATTTT
4037828 ATCAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 2 0.08
24 3 0.12
25 9 0.36
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
ATTTTTATATATATAAGTTAAATTA
Found at i:4048054 original size:21 final size:22
Alignment explanation
Indices: 4048012--4048063 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4048002 CCCGAAATTA
4048012 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
4048034 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
4048055 AT-AAATATT
1 ATAAAATATT
4048064 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:4048131 original size:19 final size:20
Alignment explanation
Indices: 4048094--4048132 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4048084 TATATATAAA
4048094 TAAATAAATAATTTATTAAT
1 TAAATAAATAATTTATTAAT
4048114 TAAA-AAATATATTT-TTAAT
1 TAAATAAATA-ATTTATTAAT
4048133 AATATCGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATAAATAATTTATTAAT
Found at i:4053242 original size:6 final size:6
Alignment explanation
Indices: 4053231--4053268 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
4053221 CACATGGATC
* *
4053231 TGTATA TGTATA TGTATA TGTATA TGTTTT TGTATA TG
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TG
4053269 CATGCCAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.55
Consensus pattern (6 bp):
TGTATA
Found at i:4054629 original size:15 final size:15
Alignment explanation
Indices: 4054609--4054641 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4054599 TTGGTGAAGA
4054609 ACAGAACGGAAATTC
1 ACAGAACGGAAATTC
*
4054624 ACAGAACGGAGATTC
1 ACAGAACGGAAATTC
4054639 ACA
1 ACA
4054642 TATAGAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (15 bp):
ACAGAACGGAAATTC
Found at i:4055645 original size:22 final size:22
Alignment explanation
Indices: 4055605--4055648 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4055595 TGTATATTTA
* *
4055605 TATTTGTATATCTAGAATTAAG
1 TATTTGTATACCTAAAATTAAG
*
4055627 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATACCTAAAATTAAG
4055649 GAAGATTTAG
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:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATACCTAAAATTAAG
Found at i:4059778 original size:22 final size:22
Alignment explanation
Indices: 4059752--4059795 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4059742 TGTATATTTA
*
4059752 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4059774 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4059796 GAAGATTTAG
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:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:4066652 original size:3 final size:3
Alignment explanation
Indices: 4066644--4066733 Score: 81
Period size: 3 Copynumber: 30.0 Consensus size: 3
4066634 CCTCGGCTCC
* * * * * * *
4066644 TCT TCT TCT TCT TCT TCT TCT TCG TCT TCT ACA TCT TCA TCA TCA TCA
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * *
4066692 TCA TCA TCA TCA TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
4066734 CTCTCGTCGT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.11, C:0.33, G:0.01, T:0.54
Consensus pattern (3 bp):
TCT
Found at i:4067163 original size:14 final size:15
Alignment explanation
Indices: 4067144--4067183 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4067134 TAAATTGGAA
4067144 ATTTATAT-TTTTAT
1 ATTTATATATTTTAT
*
4067158 ATTTATTTATTTTAT
1 ATTTATATATTTTAT
4067173 ATTATATATAT
1 ATT-TATATAT
4067184 AAAATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 7 0.32
15 9 0.41
16 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTATATATTTTAT
Found at i:4067247 original size:9 final size:9
Alignment explanation
Indices: 4067235--4067268 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
4067225 ATATAAAATA
4067235 TATATTTTT
1 TATATTTTT
4067244 TATATTTTT
1 TATATTTTT
4067253 TATATAATTTT
1 TATAT--TTTT
4067264 TATAT
1 TATAT
4067269 AACATCACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TATATTTTT
Found at i:4067270 original size:11 final size:11
Alignment explanation
Indices: 4067232--4067270 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
4067222 CTAATATAAA
4067232 ATATATATTTTT
1 ATATA-ATTTTT
*
4067244 -TATATTTTTT
1 ATATAATTTTT
4067254 ATATAATTTTT
1 ATATAATTTTT
4067265 ATATAA
1 ATATAA
4067271 CATCACCGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATAATTTTT
Found at i:4068124 original size:17 final size:17
Alignment explanation
Indices: 4068102--4068136 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4068092 ATTTTTATTT
4068102 TTAATTTAA-AATAAAAA
1 TTAATTTAATAA-AAAAA
4068119 TTAATTTAATAAAAAAA
1 TTAATTTAATAAAAAAA
4068136 T
1 T
4068137 AAAAAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAATTTAATAAAAAAA
Found at i:4069671 original size:52 final size:52
Alignment explanation
Indices: 4069593--4069737 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 52
4069583 CTTGTAAAAA
* * *
4069593 AAGAATTCCAAGA-GAAAGAGGGTTCTTAATAGGTAAGTTTGACTTGCAAGAG
1 AAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGTAAGTTTGACTTACAAGAG
* *
4069645 AAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAGGAG
1 AAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAAGAG
* * *
4069697 AAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTTG
1 AAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTTG
4069738 TATGGTTACA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 78 0.94
53 5 0.06
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (52 bp):
AAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAAGAG
Found at i:4070266 original size:25 final size:25
Alignment explanation
Indices: 4070238--4070328 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
4070228 AAATGGTATC
4070238 AGAGTTGAAAGTTCGAAATGTGAGA
1 AGAGTTGAAAGTTCGAAATGTGAGA
*
4070263 AGAGTTG-AAGATTC-AAGATGTGGGA
1 AGAGTTGAAAG-TTCGAA-ATGTGAGA
** ** * **
4070288 AGAGCCGATGGTTCGAGACATGAGA
1 AGAGTTGAAAGTTCGAAATGTGAGA
*
4070313 AGAGTTGACAGTTCGA
1 AGAGTTGAAAGTTCGA
4070329 GATATAAGAA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
24 5 0.10
25 42 0.86
26 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.34, T:0.22
Consensus pattern (25 bp):
AGAGTTGAAAGTTCGAAATGTGAGA
Found at i:4070329 original size:25 final size:23
Alignment explanation
Indices: 4070296--4070363 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
4070286 GAAGAGCCGA
4070296 TGGTTCGAGACATGAGAAGAG-T
1 TGGTTCGAGACATGAGAAGAGCT
* *
4070318 TGACAGTTCGAGATATAAGAAGAGCT
1 TG---GTTCGAGACATGAGAAGAGCT
*
4070344 TGGTTTGAGACATGAGAAGA
1 TGGTTCGAGACATGAGAAGA
4070364 AGTAAGCTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.05
23 15 0.41
25 17 0.46
26 3 0.08
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.24
Consensus pattern (23 bp):
TGGTTCGAGACATGAGAAGAGCT
Found at i:4070340 original size:50 final size:48
Alignment explanation
Indices: 4070258--4070363 Score: 124
Period size: 50 Copynumber: 2.2 Consensus size: 48
4070248 GTTCGAAATG
* **
4070258 TGAGAAGAGTTGAAGATTCAAGATGTGGGAAGAGCCGATGGTTCGAGACA
1 TGAGAAGAGTTGAAGATTCAAGATATAAGAAGAG-C-ATGGTTCGAGACA
* * *
4070308 TGAGAAGAGTTGACAG-TTCGAGATATAAGAAGAGCTTGGTTTGAGACA
1 TGAGAAGAGTTGA-AGATTCAAGATATAAGAAGAGCATGGTTCGAGACA
4070356 TGAGAAGA
1 TGAGAAGA
4070364 AGTAAGCTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 19 0.39
49 1 0.02
50 27 0.55
51 2 0.04
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.22
Consensus pattern (48 bp):
TGAGAAGAGTTGAAGATTCAAGATATAAGAAGAGCATGGTTCGAGACA
Found at i:4070726 original size:52 final size:51
Alignment explanation
Indices: 4070636--4070792 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 51
4070626 TGGACAAGAA
* * *
4070636 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGAGGGTTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGA--ATTCTTAATAGGTAAGTTT
*
4070688 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGTAATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-AATTCTTAATAGGTAAGTTT
** * * * * *
4070740 GACTTATAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGA-AAGAATTCTTAATAGGTAAGTTT
4070792 G
1 G
4070793 TATGGTTATA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
52 82 0.91
53 7 0.08
54 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAATTCTTAATAGGTAAGTTT
Found at i:4078711 original size:29 final size:29
Alignment explanation
Indices: 4078669--4078728 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
4078659 TAAATGAGGC
* *
4078669 TATAAATATACTACTATATCAGTAGGTGA
1 TATAAATACACTACTATATCAGCAGGTGA
4078698 TATAAATACACTACTATATCAGCAGGTGA
1 TATAAATACACTACTATATCAGCAGGTGA
4078727 TA
1 TA
4078729 ACATACAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (29 bp):
TATAAATACACTACTATATCAGCAGGTGA
Found at i:4078729 original size:27 final size:28
Alignment explanation
Indices: 4078670--4078735 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
4078660 AAATGAGGCT
* *
4078670 ATAAATATACTACTATATCAGTAGGTGA
1 ATAAATACACTACTATATCAGCAGGTGA
4078698 TATAAATACACTACTATATCAGCAGGTG-
1 -ATAAATACACTACTATATCAGCAGGTGA
4078726 ATAACATACA
1 ATAA-ATACA
4078736 AACTTTCTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 4 0.12
28 5 0.15
29 25 0.74
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (28 bp):
ATAAATACACTACTATATCAGCAGGTGA
Found at i:4083653 original size:3 final size:3
Alignment explanation
Indices: 4083645--4083670 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4083635 TTGGCATCAA
4083645 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
4083671 TTGTGCGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4084083 original size:2 final size:2
Alignment explanation
Indices: 4084076--4084112 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4084066 AATTTCTCTG
*
4084076 AT AT AT AT AT GT 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 AT AT AT AT AT A
4084113 GGGGCTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4091726 original size:38 final size:38
Alignment explanation
Indices: 4091587--4091755 Score: 176
Period size: 39 Copynumber: 4.4 Consensus size: 38
4091577 TGGGTGTTTA
* * * ** *
4091587 TTTATTTTTAAAGTTGTGTACCTCTATTATGGATAAACT
1 TTTATTTTTAAAGTTGTATGCCTCTATTA-AGAGGAGCT
* * * *
4091626 CTTATTTTTAAAGTTGTGTGCCTCTATTAAGAAGAGTT
1 TTTATTTTTAAAGTTGTATGCCTCTATTAAGAGGAGCT
* * *
4091664 TTTATTTTTAAAAGTTGCATGCCTCTGTTAAGAGGAGCC
1 TTTATTTTT-AAAGTTGTATGCCTCTATTAAGAGGAGCT
* * *
4091703 TTTATCTTTGAAGTTGTATGCCTCTATTAGGAGGAGCT
1 TTTATTTTTAAAGTTGTATGCCTCTATTAAGAGGAGCT
4091741 TTTATTTTTAAAGTT
1 TTTATTTTTAAAGTT
4091756 ATGCACCTTT
Statistics
Matches: 107, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
38 49 0.46
39 58 0.54
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (38 bp):
TTTATTTTTAAAGTTGTATGCCTCTATTAAGAGGAGCT
Found at i:4091771 original size:38 final size:38
Alignment explanation
Indices: 4091742--4091862 Score: 145
Period size: 38 Copynumber: 3.2 Consensus size: 38
4091732 GGAGGAGCTT
* **
4091742 TTATTTTTAAAGTTATGCACCTTTGTTAGGAGAAGCCC
1 TTATTTTTAAAATTATGTGCCTTTGTTAGGAGAAGCCC
* * *
4091780 TTATTTTTAAAATTGTGTGCCTTTGTTAAGAGAAG-TC
1 TTATTTTTAAAATTATGTGCCTTTGTTAGGAGAAGCCC
* ** *
4091817 TTATTTTAAAAATTATGTGCCACTGTTAGGAGGAGCCC
1 TTATTTTTAAAATTATGTGCCTTTGTTAGGAGAAGCCC
4091855 TTATTTTT
1 TTATTTTT
4091863 TTAAAGTGGT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
37 30 0.44
38 38 0.56
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (38 bp):
TTATTTTTAAAATTATGTGCCTTTGTTAGGAGAAGCCC
Found at i:4091829 original size:37 final size:38
Alignment explanation
Indices: 4091761--4091891 Score: 129
Period size: 37 Copynumber: 3.4 Consensus size: 38
4091751 AAGTTATGCA
* *
4091761 CCTTTGTTAGGAGAAGCCCTTATTTTTAAAATTGTGTG
1 CCTTTGTTAAGAGAAGCCCTTATTTTAAAAATTGTGTG
* *
4091799 CCTTTGTTAAGAGAAG-TCTTATTTTAAAAATTATGTG
1 CCTTTGTTAAGAGAAGCCCTTATTTTAAAAATTGTGTG
** * * * * *
4091836 CCACTGTTAGGAGGAGCCCTTATTTTTTTAAAGTGGTGTG
1 CCTTTGTTAAGAGAAGCCCTTA--TTTTAAAAATTGTGTG
*
4091876 CCTTTGTTGAGAGAAG
1 CCTTTGTTAAGAGAAG
4091892 TTTTTTTATT
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
37 30 0.42
38 19 0.26
40 23 0.32
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (38 bp):
CCTTTGTTAAGAGAAGCCCTTATTTTAAAAATTGTGTG
Found at i:4093045 original size:16 final size:15
Alignment explanation
Indices: 4093010--4093054 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4093000 AGCCTTCTTC
* *
4093010 TTTATTTTTTTTTTG
1 TTTATTTTATTTTTA
4093025 TTTATTTTATTTTTA
1 TTTATTTTATTTTTA
*
4093040 TCTTATATTATTTTT
1 T-TTATTTTATTTTT
4093055 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:4094831 original size:3 final size:3
Alignment explanation
Indices: 4094823--4094864 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
4094813 TTCATAAGGT
4094823 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4094865 CTTGAAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4096417 original size:17 final size:17
Alignment explanation
Indices: 4096395--4096455 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
4096385 ATGAATCAAA
4096395 TAATAATAATAATTTAT
1 TAATAATAATAATTTAT
*
4096412 TAATAAATAAT-ATATAT
1 TAAT-AATAATAATTTAT
*
4096429 AAATTAA-AATAATTTACT
1 TAA-TAATAATAATTTA-T
*
4096447 TATTAATAA
1 TAATAATAA
4096456 AATATTATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
16 3 0.09
17 20 0.59
18 11 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAATAATAATTTAT
Found at i:4096481 original size:31 final size:30
Alignment explanation
Indices: 4096438--4096503 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
4096428 TAAATTAAAA
*
4096438 TAATTTACTTATTAATAAAATATTATCATT
1 TAATTTACTTATTAATAAAATATAATCATT
* **
4096468 TAATTTATTTTATTAATAAGTTATAATCATT
1 TAATTTA-CTTATTAATAAAATATAATCATT
4096499 TAATT
1 TAATT
4096504 CACTGTTGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (30 bp):
TAATTTACTTATTAATAAAATATAATCATT
Found at i:4098268 original size:2 final size:2
Alignment explanation
Indices: 4098261--4098286 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4098251 ATTTAAGTTC
4098261 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
4098287 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4100073 original size:77 final size:77
Alignment explanation
Indices: 4099985--4100128 Score: 227
Period size: 77 Copynumber: 1.9 Consensus size: 77
4099975 AATAATCACA
* *
4099985 AGTGTTTTTTGACATTAGAATACAATTTAATTGTTGGTTTAGAATTGTTTA-TGTAATTTTTGAT
1 AGTGTTTTTTGACATTAGAATACAATTTAATCGTTAGTTTAGAATTG-TTACTGTAATTTTTGAT
4100049 TTGGTGAGAGTAG
65 TTGGTGAGAGTAG
* * *
4100062 AGTGTTTTTTGACATTAGAATAGAATTTAATCGTTAGTTTATAATTGTTACTGTAATTTTTTATT
1 AGTGTTTTTTGACATTAGAATACAATTTAATCGTTAGTTTAGAATTGTTACTGTAATTTTTGATT
4100127 TG
66 TG
4100129 ATGATCAAGA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
76 3 0.05
77 58 0.95
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.50
Consensus pattern (77 bp):
AGTGTTTTTTGACATTAGAATACAATTTAATCGTTAGTTTAGAATTGTTACTGTAATTTTTGATT
TGGTGAGAGTAG
Found at i:4100810 original size:11 final size:11
Alignment explanation
Indices: 4100794--4100869 Score: 77
Period size: 11 Copynumber: 7.2 Consensus size: 11
4100784 AAATTATATC
4100794 AATAATATTTT
1 AATAATATTTT
4100805 AATAATATTTT
1 AATAATATTTT
*
4100816 GATAATATTTT
1 AATAATATTTT
**
4100827 -A-AAT-TGAT
1 AATAATATTTT
* *
4100835 GATATTATTTT
1 AATAATATTTT
4100846 AATAATATTTT
1 AATAATATTTT
*
4100857 AGTAATATTTT
1 AATAATATTTT
4100868 AA
1 AA
4100870 ATTAATTTGA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
8 2 0.04
9 4 0.08
10 3 0.06
11 43 0.83
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (11 bp):
AATAATATTTT
Found at i:4105848 original size:40 final size:40
Alignment explanation
Indices: 4105804--4105914 Score: 135
Period size: 36 Copynumber: 2.9 Consensus size: 40
4105794 ATTCTTGCTA
* *
4105804 AAGAACCAAGCAATG-AGGCTCCCAAAGTTTTGGAAGAATT
1 AAGAACCAAGCAATGAAGCCT-CCAAAGGTTTGGAAGAATT
4105844 AAGAACCAAGCAATGAAGCCTCCAAAGGTTTGGAAG----
1 AAGAACCAAGCAATGAAGCCTCCAAAGGTTTGGAAGAATT
*
4105880 AAGAACCAAGCAAT-AAGACCTCCAGAGGTTTGGAA
1 AAGAACCAAGCAATGAAG-CCTCCAAAGGTTTGGAA
4105915 ATAGAAGAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
35 3 0.05
36 30 0.45
40 29 0.44
41 4 0.06
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.16
Consensus pattern (40 bp):
AAGAACCAAGCAATGAAGCCTCCAAAGGTTTGGAAGAATT
Found at i:4107982 original size:8 final size:8
Alignment explanation
Indices: 4107969--4108002 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
4107959 ATTAATAAAA
4107969 TTATATTT
1 TTATATTT
4107977 TTATATTT
1 TTATATTT
4107985 TTATATTT
1 TTATATTT
*
4107993 ATTTTATTT
1 -TTATATTT
4108002 T
1 T
4108003 AAAATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATATTT
Found at i:4108051 original size:21 final size:21
Alignment explanation
Indices: 4108000--4108055 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
4107990 TTTATTTTAT
*
4108000 TTTAAAATTAATTTATATTCA
1 TTTAAAATTTATTTATATTCA
*
4108021 TTT-GAATTTATTTATAATT-A
1 TTTAAAATTTATTTAT-ATTCA
4108041 TTTAAAATTTATTTA
1 TTTAAAATTTATTTA
4108056 ATTATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAAAATTTATTTATATTCA
Found at i:4108085 original size:24 final size:24
Alignment explanation
Indices: 4108052--4108102 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
4108042 TTAAAATTTA
*
4108052 TTTAATTATAATTTAATTAT-TATT
1 TTTAAATAT-ATTTAATTATATATT
*
4108076 TTTAAATATATTTATTTATATATT
1 TTTAAATATATTTAATTATATATT
4108100 TTT
1 TTT
4108103 GTGAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTAAATATATTTAATTATATATT
Found at i:4108095 original size:10 final size:10
Alignment explanation
Indices: 4107976--4108096 Score: 55
Period size: 10 Copynumber: 12.7 Consensus size: 10
4107966 AAATTATATT
4107976 TTTATA-TT-
1 TTTATATTTA
4107984 TTTATATTTA
1 TTTATATTTA
4107994 TTT-TA-TT-
1 TTTATATTTA
* * *
4108001 TTAAAATTAA
1 TTTATATTTA
*
4108011 TTTATATTCA
1 TTTATATTTA
4108021 TTTGA-ATTTA
1 TTT-ATATTTA
*
4108031 TTTATAATTA
1 TTTATATTTA
*
4108041 TTTAAAATTTA
1 TTT-ATATTTA
4108052 TTTA-ATTATAA
1 TTTATATT-T-A
4108063 TTTA-A-TTA
1 TTTATATTTA
*
4108071 -TTATTTTTA
1 TTTATATTTA
**
4108080 AATATATTTA
1 TTTATATTTA
4108090 TTTATAT
1 TTTATAT
4108097 ATTTTTGTGA
Statistics
Matches: 85, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
7 5 0.06
8 10 0.12
9 13 0.15
10 42 0.49
11 15 0.18
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTATATTTA
Found at i:4109879 original size:27 final size:26
Alignment explanation
Indices: 4109841--4109918 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
4109831 AATATAAAAT
*
4109841 ATAAT-TTTTTATTTTATTATATTTAA
1 ATAATATTATTATTTTATTAT-TTTAA
* *
4109867 ATATTATTATTATTATTATAATTTTAA
1 ATAATATTATTATT-TTATTATTTTAA
4109894 ATAATATTA-TATTTATATTATTTTA
1 ATAATATTATTATTT-TATTATTTTA
4109919 TTTTATCATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 1 0.02
26 17 0.39
27 20 0.45
28 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATAATATTATTATTTTATTATTTTAA
Found at i:4120923 original size:4 final size:4
Alignment explanation
Indices: 4120914--4121017 Score: 56
Period size: 4 Copynumber: 25.5 Consensus size: 4
4120904 ATTATTATTA
* * *
4120914 TTAT TTAT TTAT TT-T TTTT GTTAATT TTAG TTAT TTAT TTAT TTGT TT-T
1 TTAT TTAT TTAT TTAT TTAT -TT-A-T TTAT TTAT TTAT TTAT TTAT TTAT
* *
4120963 CTAT CTATAGT TTA- TTATT TTAT TTAT TT-G TTAT TTAT TTA- TTAT
1 TTAT -T-TA-T TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT TTAT
*
4121008 TCAT TTAT TT
1 TTAT TTAT TT
4121018 GTAAATATCT
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
3 13 0.17
4 50 0.64
5 8 0.10
6 5 0.06
7 2 0.03
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:4120929 original size:30 final size:31
Alignment explanation
Indices: 4120893--4121017 Score: 80
Period size: 30 Copynumber: 4.0 Consensus size: 31
4120883 CAGCAGAGTC
*
4120893 ATTTTTTTGGTATTATTATTATTATTTATTT
1 ATTTATTTGGTATTATTATTATTATTTATTT
* * *
4120924 ATTTTTTTTGT-TAATT-TTAGTTATTTATTT
1 ATTTATTTGGTATTATTATTA-TTATTTATTT
* ** *
4120954 ATTTGTTTTCTATCTA-TAGT-TTA-TTATTTT
1 ATTTATTTGGTAT-TATTATTATTATTTA-TTT
*
4120984 ATTTATTTGTTATTTATTTATTATTCATTTATTT
1 ATTTATTTGGTA-TTA-TTATTATT-ATTTATTT
4121018 GTAAATATCT
Statistics
Matches: 73, Mismatches: 10, Indels: 19
0.72 0.10 0.19
Matches are distributed among these distances:
29 6 0.08
30 40 0.55
31 13 0.18
32 5 0.07
33 2 0.03
34 4 0.05
35 3 0.04
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (31 bp):
ATTTATTTGGTATTATTATTATTATTTATTT
Found at i:4120985 original size:34 final size:30
Alignment explanation
Indices: 4120911--4121017 Score: 103
Period size: 30 Copynumber: 3.4 Consensus size: 30
4120901 GGTATTATTA
* *
4120911 TTATTATTTATTTATTT-TTTTTGTTAATT
1 TTATTATTTATTTATTTGTTTTTATTAAGT
4120940 TTAGTTATTTATTTATTTGTTTTCTATCTATAGT
1 TTA-TTATTTATTTATTTGTTTT-TAT-TA-AGT
*
4120974 TTATTATTTTATTTATTTGTTATTTATTTA--
1 TTATTA-TTTATTTATTTGTT-TTTATTAAGT
4121004 TTATTCATTTATTT
1 TTATT-ATTTATTT
4121018 GTAAATATCT
Statistics
Matches: 67, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
29 3 0.04
30 26 0.39
31 5 0.07
32 3 0.04
33 6 0.09
34 22 0.33
35 2 0.03
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (30 bp):
TTATTATTTATTTATTTGTTTTTATTAAGT
Found at i:4121014 original size:11 final size:11
Alignment explanation
Indices: 4120903--4121016 Score: 69
Period size: 11 Copynumber: 10.4 Consensus size: 11
4120893 ATTTTTTTGG
4120903 TATTA-TTA-T
1 TATTATTTATT
4120912 TATTATTTATT
1 TATTATTTATT
4120923 TATT-TTT-TT
1 TATTATTTATT
* *
4120932 TGTTAATTTTAGT
1 TATT-A-TTTATT
4120945 TATTTATTTATT
1 TA-TTATTTATT
* *
4120957 TGTT-TTCTATC
1 TATTATT-TATT
4120968 TA-TAGTTTATT
1 TATTA-TTTATT
*
4120979 ATTTTATTTATT
1 -TATTATTTATT
*
4120991 TGTTATTTATT
1 TATTATTTATT
*
4121002 TATTATTCATT
1 TATTATTTATT
4121013 TATT
1 TATT
4121017 TGTAAATATC
Statistics
Matches: 81, Mismatches: 12, Indels: 22
0.70 0.10 0.19
Matches are distributed among these distances:
9 10 0.12
10 9 0.11
11 37 0.46
12 18 0.22
13 5 0.06
14 2 0.02
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (11 bp):
TATTATTTATT
Found at i:4121263 original size:121 final size:120
Alignment explanation
Indices: 4121132--4121395 Score: 393
Period size: 121 Copynumber: 2.2 Consensus size: 120
4121122 CAAAAGGTTT
* * * * *
4121132 TTACCAACATATTGGAAGGTAATTTAATTTTTAAAATAAGATTTTATCAACATATTGAAAAATTT
1 TTACCAACATATTGAAAAGCAATTTAATTTTTAAAATAAAATTTTATCAACATATTGAAAAACTT
4121197 TATTAATTTTTTATAAAAAAATAAATTTCAAGAAAAAAAAAGTTTTCAGTAAAGCC
66 TATTAATTTTTTAT-AAAAAATAAATTTCAAGAAAAAAAAAGTTTTCAGTAAAGCC
* * * *
4121253 TTACCAACATATTGAAAAGCAATTTGATTTTTAAAATAAAATTTTATCAGCATATTGGATAACTT
1 TTACCAACATATTGAAAAGCAATTTAATTTTTAAAATAAAATTTTATCAACATATTGAAAAACTT
* *
4121318 TATTAATTTTTTATAAAAAATAAATTTCAAGAAAAAAATAGTTTTCAGTAAAGTC
66 TATTAATTTTTTATAAAAAATAAATTTCAAGAAAAAAAAAGTTTTCAGTAAAGCC
* * *
4121373 TTATCAATATATTAAAAAGCAAT
1 TTACCAACATATTGAAAAGCAAT
4121396 CTGGTTTTTA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
120 59 0.46
121 70 0.54
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (120 bp):
TTACCAACATATTGAAAAGCAATTTAATTTTTAAAATAAAATTTTATCAACATATTGAAAAACTT
TATTAATTTTTTATAAAAAATAAATTTCAAGAAAAAAAAAGTTTTCAGTAAAGCC
Found at i:4121404 original size:120 final size:121
Alignment explanation
Indices: 4121158--4121406 Score: 383
Period size: 120 Copynumber: 2.1 Consensus size: 121
4121148 AGGTAATTTA
* *
4121158 ATTTTTAAAATAAGATTTTATCAACATATTGAAAAATTTTATTAATTTTTTATAAAAAAATAAAT
1 ATTTTTAAAATAAAATTTTATCAACATATTGAAAAACTTTATTAATTTTTTATAAAAAAATAAAT
* *
4121223 TTCAAGAAAAAAAAAGTTTTCAGTAAAGCCTTACCAACATATTGAAAAGCAATTTG
66 TTCAAGAAAAAAAAAGTTTTCAGTAAAGCCTTACCAACATATTAAAAAGCAATCTG
* * *
4121279 ATTTTTAAAATAAAATTTTATCAGCATATTGGATAACTTTATTAATTTTTTAT-AAAAAATAAAT
1 ATTTTTAAAATAAAATTTTATCAACATATTGAAAAACTTTATTAATTTTTTATAAAAAAATAAAT
* * * *
4121343 TTCAAGAAAAAAATAGTTTTCAGTAAAGTCTTATCAATATATTAAAAAGCAATCTG
66 TTCAAGAAAAAAAAAGTTTTCAGTAAAGCCTTACCAACATATTAAAAAGCAATCTG
*
4121399 GTTTTTAA
1 ATTTTTAA
4121407 GACAATGTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
120 68 0.59
121 48 0.41
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.39
Consensus pattern (121 bp):
ATTTTTAAAATAAAATTTTATCAACATATTGAAAAACTTTATTAATTTTTTATAAAAAAATAAAT
TTCAAGAAAAAAAAAGTTTTCAGTAAAGCCTTACCAACATATTAAAAAGCAATCTG
Found at i:4121471 original size:17 final size:17
Alignment explanation
Indices: 4121441--4121487 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
4121431 AAACCTTATG
*
4121441 ATTTTTAAATAAAAATTA
1 ATTTTTATA-AAAAATTA
4121459 ATTTTTATAAAAAATTA
1 ATTTTTATAAAAAATTA
*
4121476 ATTTTCATAAAA
1 ATTTTTATAAAA
4121488 TTCTACCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTTTATAAAAAATTA
Found at i:4122815 original size:3 final size:3
Alignment explanation
Indices: 4122807--4122871 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
4122797 ATTTTTCTAG
4122807 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4122855 TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TA
4122872 CTCTAGTTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4122918 original size:9 final size:9
Alignment explanation
Indices: 4122809--4122938 Score: 70
Period size: 9 Copynumber: 14.1 Consensus size: 9
4122799 TTTTCTAGTA
*
4122809 TTATTATTA
1 TTATTATTT
*
4122818 TTATTATTA
1 TTATTATTT
*
4122827 TTATTATTA
1 TTATTATTT
*
4122836 TTATTATTA
1 TTATTATTT
*
4122845 TTATTATTA
1 TTATTATTT
*
4122854 TTATTATTA
1 TTATTATTT
*
4122863 CTATTATTACT
1 TTATTATT--T
*
4122874 CTAGTTATTT
1 TTA-TTATTT
4122884 TT-TTATTT
1 TTATTATTT
* *
4122892 GTT-TTCTAT
1 -TTATTATTT
*
4122901 CTA-TATTT
1 TTATTATTT
4122909 TTATTA-TT
1 TTATTATTT
4122917 TTATTTATTT
1 TTA-TTATTT
4122927 GTTATTTATTT
1 -TTA-TTATTT
4122938 T
1 T
4122939 ATCATTCATT
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
8 17 0.17
9 63 0.61
10 5 0.05
11 13 0.13
12 5 0.05
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.68
Consensus pattern (9 bp):
TTATTATTT
Found at i:4123276 original size:16 final size:15
Alignment explanation
Indices: 4123254--4123298 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
4123244 AAACCCTTAT
4123254 TAATTTTATAAAAAA
1 TAATTTTATAAAAAA
*
4123269 TAAATTTTAAGAAAAAA
1 T-AATTTT-ATAAAAAA
4123286 TAATTTTAGTAAA
1 TAATTTTA-TAAA
4123299 GCTTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.08
16 15 0.60
17 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (15 bp):
TAATTTTATAAAAAA
Found at i:4123340 original size:116 final size:115
Alignment explanation
Indices: 4123059--4123559 Score: 509
Period size: 116 Copynumber: 4.3 Consensus size: 115
4123049 AATTAAAACA
* *
4123059 AAAGCCTTA-CAATATATTAAAAGGCAATTTGATTTTT-AAATAA-AGTTTTACCAACATATTAG
1 AAAG-CTTACCAATATATT-GAAGGTAATTTGATTTTTAAAATAAGA-TTTTACCAACATATTAG
* *
4123121 AAAATCTTATTAATTTTTTTATAAAAAATAAATTTCAAGATAAAAAATAATTTTTAGT
63 AAAACCTTATTAA--TTTTTATAAAAAATAAATTTTAAG--AAAAAATAA-TTTTAGT
* *
4123179 AAAGCTTTACCAATATATTGAAGGTAACTTTGATTTTTATAATAAGATTTTACCAACATATTTGA
1 AAAGC-TTACCAATATATTGAAGGTAA-TTTGATTTTTAAAATAAGATTTTACCAACATATTAGA
4123244 AAACCCTTATTAA-TTTTATAAAAAATAAATTTTAAGAAAAAATAATTTTAGT
64 AAA-CCTTATTAATTTTTATAAAAAATAAATTTTAAGAAAAAATAATTTTAGT
** * *
4123296 AAAGCTTATTAATATATTGTAAGGTAATTTGATTTTTAAAATAAGGTTTTACCAACATATTTGAA
1 AAAGCTTACCAATATATTG-AAGGTAATTTGATTTTTAAAATAAGATTTTACCAACATATTAGAA
* *
4123361 AACCTTACTAATTTTTTATAAAAAAT-AATTTTTA-AAAAAATAATTTTAGT
65 AACCTTATTAA-TTTTTATAAAAAATAAATTTTAAGAAAAAATAATTTTAGT
* * * *
4123411 AAAGCCTTACCAACATATTGGAAGGTAATTTGGTTTTTAAGATAATG-TTTTACTAA-ATTATTA
1 AAAG-CTTACCAATATATT-GAAGGTAATTTGATTTTTAAAATAA-GATTTTACCAACA-TATTA
* * * * *
4123474 GAAAATCTTA-TGATTTTTAAATAAAAATTAATTTTTAGAAAAAAAATAATTTTA-T
62 GAAAACCTTATTAATTTTT--ATAAAAAATAAATTTTA-AGAAAAAATAATTTTAGT
* * * *
4123529 AAAATCTTACTAACATATTGGAGGATAATTT
1 -AAAGCTTACCAATATATTGAAGG-TAATTT
4123560 CTAAAAAAAA
Statistics
Matches: 334, Mismatches: 27, Indels: 42
0.83 0.07 0.10
Matches are distributed among these distances:
114 5 0.01
115 31 0.09
116 119 0.36
117 43 0.13
118 30 0.09
119 18 0.05
120 35 0.10
121 19 0.06
122 25 0.07
123 9 0.03
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.40
Consensus pattern (115 bp):
AAAGCTTACCAATATATTGAAGGTAATTTGATTTTTAAAATAAGATTTTACCAACATATTAGAAA
ACCTTATTAATTTTTATAAAAAATAAATTTTAAGAAAAAATAATTTTAGT
Found at i:4123398 original size:14 final size:16
Alignment explanation
Indices: 4123374--4123413 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
4123364 CTTACTAATT
4123374 TTTTAT-AAAAAATAA
1 TTTTATAAAAAAATAA
4123389 TTTT-TAAAAAAATAA
1 TTTTATAAAAAAATAA
4123404 TTTTAGTAAA
1 TTTTA-TAAA
4123414 GCCTTACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.05
15 17 0.77
17 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TTTTATAAAAAAATAA
Found at i:4123398 original size:15 final size:16
Alignment explanation
Indices: 4123373--4123407 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
4123363 CCTTACTAAT
4123373 TTTTTATAAAAAATAA
1 TTTTTATAAAAAATAA
4123389 TTTTTA-AAAAAATAA
1 TTTTTATAAAAAATAA
4123404 TTTT
1 TTTT
4123408 AGTAAAGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTTATAAAAAATAA
Found at i:4123518 original size:19 final size:17
Alignment explanation
Indices: 4123486--4123532 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
4123476 AAATCTTATG
*
4123486 ATTTTTAAATAAAAATTA
1 ATTTTTAAA-AAAAAATA
4123504 ATTTTTAGAAAAAAAATA
1 ATTTTTA-AAAAAAAATA
4123522 ATTTTATAAAA
1 ATTTT-TAAAA
4123533 TCTTACTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTTTAAAAAAAAATA
Found at i:4124665 original size:6 final size:6
Alignment explanation
Indices: 4124647--4124686 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
4124637 TATATCGTCC
* *
4124647 ATAAAT ATGAAT ATAAAT ATAAAT ATATAT ATAATAT ATA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAA-AT ATA
4124687 GTATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (6 bp):
ATAAAT
Found at i:4124691 original size:18 final size:16
Alignment explanation
Indices: 4124647--4124694 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
4124637 TATATCGTCC
4124647 ATAAATATGAATATAAAT
1 ATAAATAT--ATATAAAT
4124665 ATAAATATATATATAAT
1 ATAAATATATATA-AAT
*
4124682 ATATAGTATATAT
1 ATA-AATATATAT
4124695 GTATCAATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 5 0.19
17 6 0.22
18 16 0.59
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
ATAAATATATATAAAT
Found at i:4127870 original size:10 final size:10
Alignment explanation
Indices: 4127822--4127890 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 10
4127812 ATTTTTATTA
*
4127822 TTTATTTTAT
1 TTTAATTTAT
* *
4127832 TTTAAAATTAA
1 TTT-AATTTAT
*
4127843 TTTATATTCAT
1 TTTA-ATTTAT
*
4127854 TTGAATTTAT
1 TTTAATTTAT
*
4127864 TATAA-TTAT
1 TTTAATTTAT
4127873 TTTAAATTTAT
1 TTT-AATTTAT
4127884 TTTAATT
1 TTTAATT
4127891 ATAATTAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
9 6 0.14
10 18 0.41
11 20 0.45
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTAATTTAT
Found at i:4127900 original size:20 final size:20
Alignment explanation
Indices: 4127857--4127898 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4127847 TATTCATTTG
*
4127857 AATTTATTATAATTATTTTA
1 AATTTATTATAATTATATTA
*
4127877 AATTTATTTTAATTATAATTA
1 AATTTATTATAATTAT-ATTA
4127898 A
1 A
4127899 TTATTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTATTATAATTATATTA
Found at i:4127916 original size:23 final size:24
Alignment explanation
Indices: 4127883--4127943 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
4127873 TTTAAATTTA
*
4127883 TTTTAATTATAATTAATTAT-TAT
1 TTTTAAATATAATTAATTATATAT
* *
4127906 TTTTAAATATATTTATTTATATAT
1 TTTTAAATATAATTAATTATATAT
*
4127930 TTTGTGAATATAAT
1 TTT-TAAATATAAT
4127944 CGTTAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 17 0.55
24 6 0.19
25 8 0.26
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTTAAATATAATTAATTATATAT
Found at i:4128051 original size:41 final size:39
Alignment explanation
Indices: 4127955--4128082 Score: 104
Period size: 40 Copynumber: 3.2 Consensus size: 39
4127945 GTTAATAATT
*
4127955 TAAATAAATTATTT-TTATTT-AATAAATCAAATATAAATTAAA
1 TAAATAAATT-TTTATTATTTAAAT-AAT-AAATTTAAA--AAA
*
4127997 T--ATAAATATTTATTATTTAAATTAATAAATTTAAAGAAA
1 TAAATAAATTTTTATTATTTAAA-TAATAAATTTAAA-AAA
** *
4128036 TAAATAAATTTTTATTAAATAAA-AATATAATTTTAAAAA
1 TAAATAAATTTTTATTATTTAAATAATA-AATTTAAAAAA
4128075 TAAATAAA
1 TAAATAAA
4128083 CAAATCACGA
Statistics
Matches: 73, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
39 22 0.30
40 27 0.37
41 22 0.30
42 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (39 bp):
TAAATAAATTTTTATTATTTAAATAATAAATTTAAAAAA
Found at i:4128069 original size:21 final size:20
Alignment explanation
Indices: 4128037--4128078 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
4128027 TTAAAGAAAT
*
4128037 AAATAAATTTTTATTAAATAA
1 AAATAAATTTTTA-AAAATAA
4128058 AAATATAA-TTTTAAAAATAA
1 AAATA-AATTTTTAAAAATAA
4128078 A
1 A
4128079 TAAACAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 10 0.53
22 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATAAATTTTTAAAAATAA
Found at i:4129717 original size:27 final size:26
Alignment explanation
Indices: 4129679--4129756 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
4129669 AATATAAAAT
*
4129679 ATAAT-TTTTTATTTTATTATATTTAA
1 ATAATATTATTATTTTATTAT-TTTAA
* *
4129705 ATATTATTATTATTATTATAATTTTAA
1 ATAATATTATTATT-TTATTATTTTAA
4129732 ATAATATTA-TATTTATATTATTTTA
1 ATAATATTATTATTT-TATTATTTTA
4129757 TTTTATCATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 1 0.02
26 17 0.39
27 20 0.45
28 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATAATATTATTATTTTATTATTTTAA
Found at i:4137231 original size:26 final size:25
Alignment explanation
Indices: 4137190--4137243 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 25
4137180 TTAAATTTTC
*
4137190 TTTTTTTGTCTTTATATGTTT-ATA
1 TTTTTTTGTCTTTATATATTTGATA
*
4137214 TTTTTTTTTCATTATATATATTTGATA
1 TTTTTTTGTC-TT-TATATATTTGATA
4137241 TTT
1 TTT
4137244 AAATATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 2 0.08
26 8 0.32
27 6 0.24
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (25 bp):
TTTTTTTGTCTTTATATATTTGATA
Found at i:4140768 original size:3 final size:3
Alignment explanation
Indices: 4140760--4140793 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
4140750 ATTTTTCTAG
4140760 TAT TAT TAT TAT TAT TAT TAT TATT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
4140794 TTTTTGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:4140789 original size:4 final size:4
Alignment explanation
Indices: 4140780--4140883 Score: 54
Period size: 4 Copynumber: 25.5 Consensus size: 4
4140770 ATTATTATTA
* * * * *
4140780 TTAT TTATT TTAT TTTT TTGT TAATT TTAG TTAT TTAT TTAT TTGT TT-T
1 TTAT TTA-T TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT
* *
4140829 CTAT CTATAGT TTA- TTATT TTAT TTAT TT-G TTAT TTAT TTA- TTAT
1 TTAT -T-TA-T TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT TTAT
*
4140874 TCAT TTAT TT
1 TTAT TTAT TT
4140884 GTAAATATCT
Statistics
Matches: 76, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
3 10 0.13
4 50 0.66
5 12 0.16
6 3 0.04
7 1 0.01
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:4140814 original size:30 final size:31
Alignment explanation
Indices: 4140780--4140861 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 31
4140770 ATTATTATTA
*
4140780 TTATTTATTTTATTTTTTTGTTAAT-TTTAG
1 TTATTTATTTTATTTTTTTGTTAATCTATAG
*
4140810 TTATTTA-TTTATTTGTTTT-CT-ATCTATAG
1 TTATTTATTTTATTT-TTTTGTTAATCTATAG
*
4140839 TT-TATTATTTTATTTATTTGTTA
1 TTAT-TTATTTTATTTTTTTGTTA
4140862 TTTATTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
28 3 0.07
29 20 0.48
30 19 0.45
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (31 bp):
TTATTTATTTTATTTTTTTGTTAATCTATAG
Found at i:4140857 original size:9 final size:9
Alignment explanation
Indices: 4140765--4140823 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
4140755 TCTAGTATTA
4140765 TTATTATTA-
1 TTATT-TTAT
4140774 TTATTATTAT
1 TTATT-TTAT
4140784 TTATTTTAT
1 TTATTTTAT
*
4140793 TT-TTTTGT
1 TTATTTTAT
* *
4140801 TAATTTTAG
1 TTATTTTAT
4140810 TTA-TTTAT
1 TTATTTTAT
4140818 TTATTT
1 TTATTT
4140824 GTTTTCTATC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
8 13 0.32
9 23 0.56
10 5 0.12
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (9 bp):
TTATTTTAT
Found at i:4140874 original size:30 final size:28
Alignment explanation
Indices: 4140774--4140883 Score: 96
Period size: 30 Copynumber: 3.6 Consensus size: 28
4140764 ATTATTATTA
* *
4140774 TTATTATTATTTATTTTATTTTTTTGTTAA
1 TTATTATTATTTA-TTTATTTGTTT-TTAT
4140804 TT-TTAGTTATTTATTTATTTGTTTTCTAT
1 TTATTA-TTATTTATTTATTTGTTTT-TAT
4140833 CTATAGTTTATTATTTTATTTATTTGTTATTTAT
1 -T-TA--TTATTA-TTTATTTATTTGTT-TTTAT
4140867 TTATTATTCATTTATTT
1 TTATTATT-ATTTATTT
4140884 GTAAATATCT
Statistics
Matches: 68, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
28 1 0.01
29 15 0.22
30 22 0.32
31 2 0.03
32 2 0.03
33 4 0.06
34 20 0.29
35 2 0.03
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.71
Consensus pattern (28 bp):
TTATTATTATTTATTTATTTGTTTTTAT
Found at i:4140880 original size:11 final size:11
Alignment explanation
Indices: 4140760--4140882 Score: 64
Period size: 11 Copynumber: 11.4 Consensus size: 11
4140750 ATTTTTCTAG
4140760 TATTA-TTA-T
1 TATTATTTATT
4140769 TATTA-TTA-T
1 TATTATTTATT
4140778 TATTATTTA-T
1 TATTATTTATT
*
4140788 T-TTATTTTTT
1 TATTATTTATT
* *
4140798 TGTTAATTTTAGT
1 TATT-A-TTTATT
4140811 TATTTATTTATT
1 TA-TTATTTATT
* *
4140823 TGTT-TTCTATC
1 TATTATT-TATT
4140834 TA-TAGTTTATT
1 TATTA-TTTATT
*
4140845 ATTTTATTTATT
1 -TATTATTTATT
*
4140857 TGTTATTTATT
1 TATTATTTATT
*
4140868 TATTATTCATT
1 TATTATTTATT
4140879 TATT
1 TATT
4140883 TGTAAATATC
Statistics
Matches: 90, Mismatches: 13, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
9 20 0.22
10 10 0.11
11 34 0.38
12 16 0.18
13 8 0.09
14 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (11 bp):
TATTATTTATT
Found at i:4141172 original size:120 final size:120
Alignment explanation
Indices: 4140998--4141260 Score: 384
Period size: 119 Copynumber: 2.2 Consensus size: 120
4140988 CAAAAGGCTT
* * * * *
4140998 TTACCAACATATTGGAAGGTAATTTAATTTTTAAAATAAGATTTTATCAACATATTGAAAAATTT
1 TTACCAACATATTGAAAAGCAATTTAATTTTTAAAATAAAATTTTATCAACATATTGAAAAACTT
4141063 TATTAATTTTTTATAAAAAAATAAATTTCAAGAAAAAAAAAGTTTTCAGTAAAGCC
66 TATTAATTTTTTAT-AAAAAATAAATTTCAAGAAAAAAAAAGTTTTCAGTAAAGCC
* * * *
4141119 TTACCAACATATTGAAAAGCAATTTGA-TTTTAAAATAAAATTTTATCAGCATATTGGATAACTT
1 TTACCAACATATTGAAAAGCAATTTAATTTTTAAAATAAAATTTTATCAACATATTGAAAAACTT
* *
4141183 TATTAATTTTTTATAAAAAATAAATTTCAAGAAAAAAATAGTTTTCAGTAAAGTC
66 TATTAATTTTTTATAAAAAATAAATTTCAAGAAAAAAAAAGTTTTCAGTAAAGCC
* * *
4141238 TTATCAATATATTAAAAAGCAAT
1 TTACCAACATATTGAAAAGCAAT
4141261 CTGGTTTTTA
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 59 0.46
120 46 0.36
121 23 0.18
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (120 bp):
TTACCAACATATTGAAAAGCAATTTAATTTTTAAAATAAAATTTTATCAACATATTGAAAAACTT
TATTAATTTTTTATAAAAAATAAATTTCAAGAAAAAAAAAGTTTTCAGTAAAGCC
Done.