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 52 of 131
Found at i:10728257 original size:203 final size:202
Alignment explanation
Indices: 10727756--10728406 Score: 1048
Period size: 203 Copynumber: 3.2 Consensus size: 202
10727746 TTTTACCAAA
* * *
10727756 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTATCAC
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CAC
* *
10727821 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCC
65 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCC
*
10727886 TCTAAACAGAGGTACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-ACTTTG
127 TCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC-TTG
10727950 GAAAA-TAAATT
191 GAAAAGTAAATT
*
10727961 GCTCCTCTAAACAGAGG--CAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CA
10728023 CGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCT
64 CGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCT
10728088 CTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGA
128 CTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGA
10728153 AAAGTAAATT
193 AAAGTAAATT
10728163 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACG
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG
*
10728227 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCT
66 -ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATTGCTCCT
* *
10728292 CTAAACAGAGG--CAACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGG
128 CTAAACAGAGGTACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGG
10728355 AAAAGTAAATT
192 AAAAGTAAATT
10728366 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
10728407 ACTCCTAGAC
Statistics
Matches: 425, Mismatches: 10, Indels: 24
0.93 0.02 0.05
Matches are distributed among these distances:
201 84 0.20
202 37 0.09
203 209 0.49
204 74 0.17
205 21 0.05
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (202 bp):
GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTA
AACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAA
GTAAATT
Found at i:10728441 original size:121 final size:121
Alignment explanation
Indices: 10727756--10728406 Score: 991
Period size: 121 Copynumber: 5.3 Consensus size: 121
10727746 TTTTACCAAA
* * *
10727756 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTATCAC
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
*
10727821 GACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATT
64 GA-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
10727881 GCTCCTCTAAACAGAGGTACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10727945 CTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
66 -TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
*
10728001 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
*
10728065 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAGTAAATT
65 A-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAACTTTGAAAAGTAAATT
* *
10728123 GCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAA
10728185 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
63 CGA-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
10728245 GCTCCTCTAAACAGAGGTACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
* *
10728309 ACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
65 ATTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
10728366 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
10728407 ACTCCTAGAC
Statistics
Matches: 495, Mismatches: 13, Indels: 39
0.90 0.02 0.07
Matches are distributed among these distances:
119 1 0.00
120 85 0.17
121 155 0.31
122 120 0.24
123 71 0.14
124 34 0.07
125 29 0.06
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (121 bp):
GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
Found at i:10728963 original size:12 final size:12
Alignment explanation
Indices: 10728946--10728979 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
10728936 TCAGCGCTAG
10728946 CAAATTTCATAA
1 CAAATTTCATAA
*
10728958 CAAATTTCAAAA
1 CAAATTTCATAA
10728970 CAAATTTCAT
1 CAAATTTCAT
10728980 CCACCATCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (12 bp):
CAAATTTCATAA
Found at i:10729674 original size:8 final size:8
Alignment explanation
Indices: 10729661--10729730 Score: 54
Period size: 8 Copynumber: 8.6 Consensus size: 8
10729651 TTTGGATCTC
10729661 TTTTTTCA
1 TTTTTTCA
*
10729669 TTTTTTTA
1 TTTTTTCA
*
10729677 TTTTCTCA
1 TTTTTTCA
*
10729685 TTTTCTCA
1 TTTTTTCA
*
10729693 TTTTTTCCC
1 TTTTTT-CA
*
10729702 TTTTTT-T
1 TTTTTTCA
10729709 TTTTTTC-
1 TTTTTTCA
10729716 TCTTTTCTCA
1 T-TTTT-TCA
10729726 TTTTT
1 TTTTT
10729731 CATCCAGTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
7 7 0.14
8 30 0.59
9 13 0.25
10 1 0.02
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10729698 original size:33 final size:33
Alignment explanation
Indices: 10729667--10729730 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
10729657 TCTCTTTTTT
10729667 CATTTTTTTATTTTCTCATTTTCTCATTTTTTCC
1 CATTTTTTTATTTTCTC-TTTTCTCATTTTTTCC
* *
10729701 CTTTTTTTTTTTTTCTCTTTTCTCATTTTT
1 CATTTTTTTATTTTCTCTTTTCTCATTTTT
10729731 CATCCAGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (33 bp):
CATTTTTTTATTTTCTCTTTTCTCATTTTTTCC
Found at i:10733619 original size:59 final size:58
Alignment explanation
Indices: 10733541--10733999 Score: 536
Period size: 59 Copynumber: 7.6 Consensus size: 58
10733531 TTTTTTGTAG
*
10733541 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTT-ATTTCT-AA
*
10733600 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCT-TTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA--TATTTTTTTGAAATTTTATTTCTAA
* *
10733659 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTTGAAATTTT-ATTTCTAA
* * *
10733721 GGAAAATTGATACTTTCAACTTTTTTCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAA-ATA-TTTTTTT-GAAATTT-TATTTC---TA
10733786 A
58 A
*
10733787 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAA-TTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTT-GAAATTTTATTTCTAA
* * * *
10733846 GGAAAATTGATAGTTTCAACTTTTCCCCAAAAATTTTTTTTTTTTTGAAA-TTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAA----TATTTTTTTGAAATTTTATTTCTAA
*
10733907 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATA-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTGAAATTTTATTTCTAA
10733964 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
10734000 ATATTTTTTT
Statistics
Matches: 355, Mismatches: 20, Indels: 51
0.83 0.05 0.12
Matches are distributed among these distances:
56 17 0.05
57 39 0.11
58 3 0.01
59 97 0.27
60 16 0.05
61 54 0.15
62 54 0.15
63 23 0.06
64 19 0.05
65 10 0.03
66 23 0.06
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTTATTTCTAA
Found at i:10733839 original size:187 final size:182
Alignment explanation
Indices: 10733541--10734008 Score: 643
Period size: 187 Copynumber: 2.6 Consensus size: 182
10733531 TTTTTTGTAG
* * ** *
10733541 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAA-TT-TTGAT-TTTCAAGGA
1 GGAAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTGGAAATTTATTTTTCTTTTAAGGA
**
10733603 AAATTGATACTTTCAACTTTT-CCTCAAAAACCTTTTTTTTGAAAATTTATTTCTAAGGAAAATT
66 AAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTATTTCTAAGGAAAATT
*
10733667 GATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTTTGAAATTTTGATTTTTAA
130 GATACTTTCAACTTTTCCCCAAAAATTATTTTTTTTTTGAAA-TTT-ATTTCTAA
10733721 GGAAAATTGATACTTTCAACTTTTTTCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAAC-TTTTTCCAAAAA-ATA--TTTTTTGGAAATTTATTTTTCTTTTA
*
10733786 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCG-AAATTTATTTCTGAGGAA
62 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAAATTTATTTCTAAGGAA
* * *
10733850 AATTGATAGTTTCAACTTTTCCCCAAAAATTTTTTTTTTTTTGAAATTTATTTCTGA
126 AATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTTTTGAAATTTATTTCTAA
* *
10733907 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTA--TTTC---TAAGGA
1 GGAAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTGGAAATTTATTTTTCTTTTAAGGA
10733967 AAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTT
66 AAATTGATACTTTCAACTTTTCCCTAAAAATAT-T-TTTTTT
10734009 TTGGAATTTT
Statistics
Matches: 262, Mismatches: 14, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
177 39 0.15
178 1 0.00
179 6 0.02
180 24 0.09
181 10 0.04
182 17 0.06
184 14 0.05
185 13 0.05
186 29 0.11
187 90 0.34
188 19 0.07
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (182 bp):
GGAAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTGGAAATTTATTTTTCTTTTAAGGA
AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAATTATTTTTTTTTTGAAATTTATTTCTAA
Found at i:10735145 original size:9 final size:9
Alignment explanation
Indices: 10735098--10735156 Score: 52
Period size: 8 Copynumber: 6.7 Consensus size: 9
10735088 AATCTAATAA
10735098 AAAATAAAT
1 AAAATAAAT
10735107 -AAATAAAT
1 AAAATAAAT
*
10735115 -AAATATAT
1 AAAATAAAT
10735123 ACATAAT-AAT
1 A-A-AATAAAT
*
10735133 AAAATATAT
1 AAAATAAAT
*
10735142 AAAATACAT
1 AAAATAAAT
10735151 AAAATA
1 AAAATA
10735157 CAAAATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
8 18 0.43
9 17 0.40
10 4 0.10
11 3 0.07
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATAAAT
Found at i:10735157 original size:9 final size:9
Alignment explanation
Indices: 10735127--10735168 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
10735117 ATATATACAT
10735127 AATA-ATAA
1 AATACATAA
*
10735135 AATATATAA
1 AATACATAA
10735144 AATACATAA
1 AATACATAA
*
10735153 AATACAAAA
1 AATACATAA
10735162 TAATACA
1 -AATACA
10735169 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 4 0.13
9 20 0.67
10 6 0.20
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (9 bp):
AATACATAA
Found at i:10741506 original size:22 final size:22
Alignment explanation
Indices: 10741449--10741513 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
10741439 TATATATTTA
* *
10741449 TATTTGTATATCTAGAATTAAG
1 TATTTGTATACCTAAAATTAAG
*
10741471 TATTTGTATTCCTAAAATTAAG
1 TATTTGTATACCTAAAATTAAG
* *
10741493 TATTTGTATCCCTATAATTAA
1 TATTTGTATACCTAAAATTAA
10741514 CGATAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (22 bp):
TATTTGTATACCTAAAATTAAG
Found at i:10741691 original size:25 final size:24
Alignment explanation
Indices: 10741658--10741705 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
10741648 ATACATTCAG
10741658 TTTTA-TTTTTAATTTTTCACACTA
1 TTTTATTTTTTAATTTTTC-CACTA
*
10741682 TTTTATTTTTTTAGTTTTTCCACT
1 TTTTA-TTTTTTAATTTTTCCACT
10741706 GTCCACATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 4 0.19
26 12 0.57
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTATTTTTTAATTTTTCCACTA
Found at i:10750465 original size:2 final size:2
Alignment explanation
Indices: 10750458--10750496 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10750448 TTTCTTTTGA
10750458 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
10750497 AAGAGTTGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10753326 original size:18 final size:18
Alignment explanation
Indices: 10753293--10753327 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10753283 TTATAATGCA
*
10753293 TTAAAAACTTTAAAAGTT
1 TTAAAAACCTTAAAAGTT
*
10753311 TTAAAAACCTTGAAAGT
1 TTAAAAACCTTAAAAGT
10753328 GCAATTAGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (18 bp):
TTAAAAACCTTAAAAGTT
Found at i:10757397 original size:26 final size:26
Alignment explanation
Indices: 10757366--10757447 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 26
10757356 AAAGGTAGAA
10757366 AGAAAAATAATAGTTGATTAGAAATG
1 AGAAAAATAATAGTTGATTAGAAATG
*
10757392 AGAAAATGACTAA-A-ATGCA--AGAAA--
1 AGAAAA--A-TAATAGTTG-ATTAGAAATG
10757416 AGAAAAATAATAGTTGATTAGAAATG
1 AGAAAAATAATAGTTGATTAGAAATG
10757442 AGAAAA
1 AGAAAA
10757448 TGACTAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 20
0.67 0.03 0.30
Matches are distributed among these distances:
21 3 0.07
22 3 0.07
23 2 0.05
24 11 0.25
26 17 0.39
27 2 0.05
28 3 0.07
29 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.18, T:0.21
Consensus pattern (26 bp):
AGAAAAATAATAGTTGATTAGAAATG
Found at i:10757420 original size:50 final size:50
Alignment explanation
Indices: 10757364--10757463 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
10757354 CAAAAGGTAG
10757364 AAAGAAAAATAATAGTTGATTAGAAATGAGAAAATGACTAAAATGCAAGA
1 AAAGAAAAATAATAGTTGATTAGAAATGAGAAAATGACTAAAATGCAAGA
10757414 AAAGAAAAATAATAGTTGATTAGAAATGAGAAAATGACTAAAATGCAAGA
1 AAAGAAAAATAATAGTTGATTAGAAATGAGAAAATGACTAAAATGCAAGA
10757464 CCAATTATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.20
Consensus pattern (50 bp):
AAAGAAAAATAATAGTTGATTAGAAATGAGAAAATGACTAAAATGCAAGA
Found at i:10757438 original size:24 final size:25
Alignment explanation
Indices: 10757364--10757448 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
10757354 CAAAAGGTAG
10757364 AAAGA-AAAATAATAGTTGATTAGA
1 AAAGAGAAAATAATAGTTGATTAGA
* * **
10757388 AATGAGAAAATGACTAAAATGCA--AGA
1 AAAGAGAAAAT-AAT-AGTTG-ATTAGA
10757414 AAAGA-AAAATAATAGTTGATTAGA
1 AAAGAGAAAATAATAGTTGATTAGA
*
10757438 AATGAGAAAAT
1 AAAGAGAAAAT
10757449 GACTAAAATG
Statistics
Matches: 45, Mismatches: 9, Indels: 13
0.67 0.13 0.19
Matches are distributed among these distances:
22 1 0.02
23 3 0.07
24 13 0.29
25 15 0.33
26 9 0.20
27 3 0.07
28 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.18, T:0.21
Consensus pattern (25 bp):
AAAGAGAAAATAATAGTTGATTAGA
Found at i:10759268 original size:12 final size:12
Alignment explanation
Indices: 10759251--10759275 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10759241 ATATTTTAAA
10759251 TTTAAAAATATT
1 TTTAAAAATATT
10759263 TTTAAAAATATT
1 TTTAAAAATATT
10759275 T
1 T
10759276 AAAATATATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAAAAATATT
Found at i:10761322 original size:19 final size:19
Alignment explanation
Indices: 10761300--10761435 Score: 119
Period size: 19 Copynumber: 7.1 Consensus size: 19
10761290 GAGTTTCGTT
*
10761300 TAGGGTTTAAGATTTCACC
1 TAGGGTTTAAGGTTTCACC
* *
10761319 TAGGGTTTAAGGTTTCTCT
1 TAGGGTTTAAGGTTTCACC
* * *
10761338 TAGAGTTTCAGGTTTCACT
1 TAGGGTTTAAGGTTTCACC
*
10761357 TAGGGTTTAAGATTTCACC
1 TAGGGTTTAAGGTTTCACC
* **
10761376 TAGTGTTTTTGGGTTTCACC
1 TAG-GGTTTAAGGTTTCACC
** *
10761396 TAGGGTTTTTGGTTTCATC
1 TAGGGTTTAAGGTTTCACC
** *
10761415 TAAAGTTTAGGGTTTCACC
1 TAGGGTTTAAGGTTTCACC
10761434 TA
1 TA
10761436 AGTTTTTTGG
Statistics
Matches: 94, Mismatches: 22, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
19 79 0.84
20 15 0.16
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (19 bp):
TAGGGTTTAAGGTTTCACC
Found at i:10761394 original size:20 final size:20
Alignment explanation
Indices: 10761369--10761456 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
10761359 GGGTTTAAGA
10761369 TTTCACCTAGTGTTTTTGGG
1 TTTCACCTAGTGTTTTTGGG
*
10761389 TTTCACCTAGGGTTTTT-GG
1 TTTCACCTAGTGTTTTTGGG
* ** *
10761408 TTTCATCTAAAG-TTTAGGG
1 TTTCACCTAGTGTTTTTGGG
10761427 TTTCACCTAAGT-TTTTTGGG
1 TTTCACCT-AGTGTTTTTGGG
*
10761447 TTTCATCTAG
1 TTTCACCTAG
10761457 GATTTCATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
18 3 0.05
19 22 0.40
20 30 0.55
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.48
Consensus pattern (20 bp):
TTTCACCTAGTGTTTTTGGG
Found at i:10761423 original size:58 final size:58
Alignment explanation
Indices: 10761304--10761463 Score: 155
Period size: 58 Copynumber: 2.8 Consensus size: 58
10761294 TTCGTTTAGG
* ** * * * **
10761304 GTTTAAGATTTCACCTAG-GGTTTAAGGTTTCTCTTAGAGTTTCAGGTTTCACTTAGG
1 GTTTAAGATTTCACCTAGTGTTTTTGGGTTTCACCTAGGGTTTCAGGTTTCACTTAAA
**
10761361 GTTTAAGATTTCACCTAGTGTTTTTGGGTTTCACCTAGGGTTTTTGGTTTCA-TCTAAA
1 GTTTAAGATTTCACCTAGTGTTTTTGGGTTTCACCTAGGGTTTCAGGTTTCACT-TAAA
* * * *
10761419 GTTTAGGGTTTCACCTAAGT-TTTTTGGGTTTCATCTAGGATTTCA
1 GTTTAAGATTTCACCT-AGTGTTTTTGGGTTTCACCTAGGGTTTCA
10761464 TTTAGGGTTT
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
57 19 0.23
58 62 0.74
59 3 0.04
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.45
Consensus pattern (58 bp):
GTTTAAGATTTCACCTAGTGTTTTTGGGTTTCACCTAGGGTTTCAGGTTTCACTTAAA
Found at i:10761477 original size:12 final size:12
Alignment explanation
Indices: 10761444--10761502 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
10761434 TAAGTTTTTT
*
10761444 GGGTTTCATCTA
1 GGGTTTCATTTA
*
10761456 GGATTTCATTTA
1 GGGTTTCATTTA
10761468 GGGTTTCATTTTA
1 GGGTTTCA-TTTA
* *
10761481 GGGTTTTATTTT
1 GGGTTTCATTTA
10761493 GGG-TTCATTT
1 GGGTTTCATTT
10761503 TAGGATTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
11 6 0.15
12 23 0.57
13 11 0.28
ACGTcount: A:0.15, C:0.08, G:0.24, T:0.53
Consensus pattern (12 bp):
GGGTTTCATTTA
Found at i:10761499 original size:24 final size:25
Alignment explanation
Indices: 10761440--10761516 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 25
10761430 CACCTAAGTT
* *
10761440 TTTTGGGTTTCA-TCTAGGATTTCA
1 TTTTGGGTTTCATTTTAGGATTTTA
* *
10761464 TTTAGGGTTTCATTTTAGGGTTTTA
1 TTTTGGGTTTCATTTTAGGATTTTA
*
10761489 TTTTGGG-TTCATTTTAGGATTTTC
1 TTTTGGGTTTCATTTTAGGATTTTA
10761513 TTTT
1 TTTT
10761517 TTTAGGGTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 30 0.67
25 15 0.33
ACGTcount: A:0.14, C:0.08, G:0.21, T:0.57
Consensus pattern (25 bp):
TTTTGGGTTTCATTTTAGGATTTTA
Found at i:10761679 original size:3 final size:3
Alignment explanation
Indices: 10761671--10761734 Score: 96
Period size: 3 Copynumber: 22.0 Consensus size: 3
10761661 TTTCATTAAA
*
10761671 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
10761719 CTT -TT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT
10761735 TTTAGTATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
2 4 0.07
3 52 0.93
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10763340 original size:7 final size:7
Alignment explanation
Indices: 10763330--10763360 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10763320 TTATATTTTT
10763330 TTTAATA
1 TTTAATA
10763337 TTTAATA
1 TTTAATA
*
10763344 TTCAATA
1 TTTAATA
10763351 TTTAATA
1 TTTAATA
10763358 TTT
1 TTT
10763361 TGTGATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTAATA
Found at i:10764095 original size:33 final size:34
Alignment explanation
Indices: 10764022--10764100 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 34
10764012 CTTTCTGATT
* ***
10764022 TGCAAATTCGAAAGGTTTTAAAAGCTTTTGAAAA
1 TGCAAATTCGAAAGGTTTTAAAACCTTCCAAAAA
* *
10764056 TTCAAATTTGAAAGGTTTT-AAACCTTCCAAAAA
1 TGCAAATTCGAAAGGTTTTAAAACCTTCCAAAAA
10764089 TGCAAATTCGAA
1 TGCAAATTCGAA
10764101 TACCTTTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
33 20 0.54
34 17 0.46
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.32
Consensus pattern (34 bp):
TGCAAATTCGAAAGGTTTTAAAACCTTCCAAAAA
Found at i:10766022 original size:27 final size:27
Alignment explanation
Indices: 10765969--10766038 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
10765959 TTAATACAAG
* *
10765969 TTTTGATTTCATTTTTTT-ACTACCAA
1 TTTTCATTTTATTTTTTTAACTACCAA
**
10765995 TTTTCATTTTATTTTTTTAACTTTCAA
1 TTTTCATTTTATTTTTTTAACTACCAA
10766022 TTTTC--TTTATTTTTTTA
1 TTTTCATTTTATTTTTTTA
10766039 GCACACACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 12 0.31
26 16 0.41
27 11 0.28
ACGTcount: A:0.20, C:0.11, G:0.01, T:0.67
Consensus pattern (27 bp):
TTTTCATTTTATTTTTTTAACTACCAA
Found at i:10766030 original size:25 final size:26
Alignment explanation
Indices: 10765969--10766038 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
10765959 TTAATACAAG
*
10765969 TTTTGATTTCATTTTTTT-ACTACCAA
1 TTTTCATTT-ATTTTTTTAACTACCAA
**
10765995 TTTTCATTTTATTTTTTTAACTTTCAA
1 TTTTCA-TTTATTTTTTTAACTACCAA
10766022 TTTTC-TTTATTTTTTTA
1 TTTTCATTTATTTTTTTA
10766039 GCACACACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
25 12 0.31
26 13 0.33
27 14 0.36
ACGTcount: A:0.20, C:0.11, G:0.01, T:0.67
Consensus pattern (26 bp):
TTTTCATTTATTTTTTTAACTACCAA
Found at i:10766679 original size:26 final size:26
Alignment explanation
Indices: 10766650--10766700 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
10766640 TTATTTTTGC
*
10766650 TTATTGTTTCTATTAATTCTAGTTGT
1 TTATTGTTTCTACTAATTCTAGTTGT
*
10766676 TTATTGTTTTTACTAATTCTAGTTG
1 TTATTGTTTCTACTAATTCTAGTTG
10766701 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.08, G:0.12, T:0.61
Consensus pattern (26 bp):
TTATTGTTTCTACTAATTCTAGTTGT
Found at i:10767577 original size:15 final size:15
Alignment explanation
Indices: 10767557--10767598 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10767547 TATTTTTTTG
*
10767557 TTATTTGTGTGTTTA
1 TTATTTGTTTGTTTA
10767572 TTATTT-TTTGATTTA
1 TTATTTGTTTG-TTTA
10767587 TT-TTTGTTTGTT
1 TTATTTGTTTGTT
10767599 CATCTTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.12, C:0.00, G:0.14, T:0.74
Consensus pattern (15 bp):
TTATTTGTTTGTTTA
Found at i:10768380 original size:20 final size:20
Alignment explanation
Indices: 10768338--10768395 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
10768328 CCAGATCATC
* *
10768338 AAGTTAATGCCACATTAGCA
1 AAGTCAATGCCACATCAGCA
* *
10768358 AAGTCAATGCCATATCAGTA
1 AAGTCAATGCCACATCAGCA
*
10768378 AAGTCGATGCCTACATCA
1 AAGTCAATGCC-ACATCA
10768396 TTAAGTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (20 bp):
AAGTCAATGCCACATCAGCA
Found at i:10769224 original size:21 final size:21
Alignment explanation
Indices: 10769191--10769231 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10769181 TATTCAATGT
* *
10769191 CAAGCAGCTGTCATTTAAAAC
1 CAAGCAGCCGTCATTAAAAAC
*
10769212 CAAGTAGCCGTCATTAAAAA
1 CAAGCAGCCGTCATTAAAAA
10769232 TCTTAAGGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (21 bp):
CAAGCAGCCGTCATTAAAAAC
Found at i:10770528 original size:9 final size:10
Alignment explanation
Indices: 10770507--10770552 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
10770497 ACTTATGGCC
10770507 AAATTTT-ACA
1 AAATTTTCA-A
10770517 AAA-TTTCAA
1 AAATTTTCAA
*
10770526 AAATTTTTAA
1 AAATTTTCAA
10770536 AAATTTTCAA
1 AAATTTTCAA
10770546 AAATTTT
1 AAATTTT
10770553 TGCAAGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
AAATTTTCAA
Found at i:10770562 original size:20 final size:20
Alignment explanation
Indices: 10770510--10770553 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
10770500 TATGGCCAAA
10770510 TTTTACAAAA-TTTCAAAAAT
1 TTTTA-AAAATTTTCAAAAAT
10770530 TTTTAAAAATTTTCAAAAAT
1 TTTTAAAAATTTTCAAAAAT
10770550 TTTT
1 TTTT
10770554 GCAAGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTTAAAAATTTTCAAAAAT
Found at i:10771142 original size:17 final size:17
Alignment explanation
Indices: 10771119--10771172 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
10771109 AAATTGAATG
10771119 AAAAAAATGAAA-AAAA
1 AAAAAAATGAAAGAAAA
10771135 AAAGAAAATGAAAGAAAA
1 AAA-AAAATGAAAGAAAA
10771153 AAAAAGAAT-AAAGAAAA
1 AAAAA-AATGAAAGAAAA
10771170 AAA
1 AAA
10771173 TATGGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.09
17 22 0.63
18 10 0.29
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAAAATGAAAGAAAA
Found at i:10771151 original size:21 final size:18
Alignment explanation
Indices: 10771127--10771172 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
10771117 TGAAAAAAAT
10771127 GAAAAAAAAAAGAAAATGAAA
1 GAAAAAAAAAAG--AAT-AAA
10771148 G-AAAAAAAAAGAATAAA
1 GAAAAAAAAAAGAATAAA
10771165 GAAAAAAA
1 GAAAAAAA
10771173 TATGGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.17
18 9 0.38
20 10 0.42
21 1 0.04
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (18 bp):
GAAAAAAAAAAGAATAAA
Found at i:10771173 original size:30 final size:29
Alignment explanation
Indices: 10771104--10771173 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
10771094 GTTTTACTTC
* * *
10771104 AAAAAAAATTGAATGAAAAAAATGAAAAA
1 AAAAAAAAATGAAAGAAAAAAAAGAAAAA
*
10771133 AAAAAGAAAATGAAAGAAAAAAAAAGAATAA
1 AAAAA-AAAATGAAAG-AAAAAAAAGAAAAA
*
10771164 AGAAAAAAAT
1 AAAAAAAAAT
10771174 ATGGAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 13 0.38
31 16 0.47
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.10
Consensus pattern (29 bp):
AAAAAAAAATGAAAGAAAAAAAAGAAAAA
Found at i:10774169 original size:175 final size:174
Alignment explanation
Indices: 10773878--10774212 Score: 528
Period size: 175 Copynumber: 1.9 Consensus size: 174
10773868 CAGAACTTTA
10773878 AACACAACCTAAACACAAAAACATAAACCTCAATCCATAAACCCCAAACCATTTTATTATATACG
1 AACACAACCTAAACACAAAAACATAAACCTCAATCCATAAACCCCAAACCATTTTATTATATACG
* * *
10773943 AAATTGTTAAATTGTTGAATTAGTTTTAAATAAATTGGTTGAGTGTTTGATATTTTGCTCTACAT
66 AAATTGTTAAATTGTTGAATTACTTTTAAATAAATTGGTTGAATATTTGATATTTTGCTCTACAT
* *
10774008 CATATTGCATGAATAAAAGAAGACAACGAGTTGAAAAATATGTAG
131 CATATTGCATAAACAAAA-AAGACAACGAGTTGAAAAATATGTAG
* * * *
10774053 AACACAACCTAAACACAAAAACATAAACCTCAATCCATAAATCTCAAACCATTTTTGTTATATGC
1 AACACAACCTAAACACAAAAACATAAACCTCAATCCATAAACCCCAAACCA-TTTTATTATATAC
* * **
10774118 GAAATTGTTAAATTGTTGAATT-CTTTTGAATGAATTGGTTGAATATTTGATATTTTGCTCTATG
65 GAAATTGTTAAATTGTTGAATTACTTTTAAATAAATTGGTTGAATATTTGATATTTTGCTCTACA
10774182 TCATATTGCATAAACAAAAAAGACAACGAGT
130 TCATATTGCATAAACAAAAAAGACAACGAGT
10774213 AAAAAAACAT
Statistics
Matches: 146, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
174 12 0.08
175 101 0.69
176 33 0.23
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (174 bp):
AACACAACCTAAACACAAAAACATAAACCTCAATCCATAAACCCCAAACCATTTTATTATATACG
AAATTGTTAAATTGTTGAATTACTTTTAAATAAATTGGTTGAATATTTGATATTTTGCTCTACAT
CATATTGCATAAACAAAAAAGACAACGAGTTGAAAAATATGTAG
Found at i:10779235 original size:21 final size:20
Alignment explanation
Indices: 10779189--10779236 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
10779179 AGGTATGAAA
10779189 TTTTAGAAAAAGAAAATTTTG
1 TTTT-GAAAAAGAAAATTTTG
*
10779210 ATTTGAAAAAG-AAATTTGATG
1 TTTTGAAAAAGAAAATTT--TG
10779231 TTTTGA
1 TTTTGA
10779237 TGAATGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 7 0.30
21 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTGAAAAAGAAAATTTTG
Found at i:10785452 original size:9 final size:9
Alignment explanation
Indices: 10785440--10785499 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
10785430 AAATTTCAAA
10785440 AAAAATTTT
1 AAAAATTTT
*
10785449 -AAAATTTA
1 AAAAATTTT
10785457 AAAAATTCTT
1 AAAAATT-TT
*
10785467 AAAATTTTT
1 AAAAATTTT
* **
10785476 TAAAATTAA
1 AAAAATTTT
10785485 AAAAATTTT
1 AAAAATTTT
10785494 CAAAAA
1 -AAAAA
10785500 AATTTTTTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
8 7 0.18
9 19 0.50
10 12 0.32
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:10785461 original size:18 final size:18
Alignment explanation
Indices: 10785439--10785473 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10785429 AAAATTTCAA
10785439 AAAAAATT-TTAAAATTT
1 AAAAAATTCTTAAAATTT
10785456 AAAAAATTCTTAAAATTT
1 AAAAAATTCTTAAAATTT
10785474 TTTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAAATTCTTAAAATTT
Found at i:10785523 original size:28 final size:28
Alignment explanation
Indices: 10785429--10785526 Score: 108
Period size: 28 Copynumber: 3.4 Consensus size: 28
10785419 ACATTAAAAG
* * * *
10785429 AAAATTTCAAAAAAAATTTTAAAATTTA
1 AAAAATTCAAAAAAATTTTTTAAATTAA
**
10785457 AAAAATTC-TTAAAATTTTTTAAAATTAA
1 AAAAATTCAAAAAAATTTTTT-AAATTAA
10785485 AAAAATTTTCAAAAAAATTTTTTAAATTAA
1 AAAAA--TTCAAAAAAATTTTTTAAATTAA
10785515 AAAAATTCAAAA
1 AAAAATTCAAAA
10785527 CTTCTAAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
27 8 0.14
28 25 0.43
30 15 0.26
31 10 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAAATTCAAAAAAATTTTTTAAATTAA
Found at i:10786779 original size:57 final size:58
Alignment explanation
Indices: 10786691--10786804 Score: 158
Period size: 57 Copynumber: 2.0 Consensus size: 58
10786681 TCTTTTAGAA
*
10786691 TTTCACTGATTGAAGAATCTTCATAAATGAGATCAA-TCTTGCCTAGCTGAAATTGAG
1 TTTCACTGATTGAAGAATCTTCATAAATGAGATCAATTCTTGCCTAGCTAAAATTGAG
* * * * * *
10786748 TTTCACTGATTTAGGAATCTTCATGAATGAGATTAATTCTTGTCTGGCTAAAATTGA
1 TTTCACTGATTGAAGAATCTTCATAAATGAGATCAATTCTTGCCTAGCTAAAATTGA
10786805 CTCTTGCATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 32 0.65
58 17 0.35
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (58 bp):
TTTCACTGATTGAAGAATCTTCATAAATGAGATCAATTCTTGCCTAGCTAAAATTGAG
Found at i:10787352 original size:13 final size:13
Alignment explanation
Indices: 10787334--10787361 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10787324 CTATACTTAG
10787334 CTTTTTGCTTGTC
1 CTTTTTGCTTGTC
10787347 CTTTTTGCTTGTC
1 CTTTTTGCTTGTC
10787360 CT
1 CT
10787362 CAAGAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.25, G:0.14, T:0.61
Consensus pattern (13 bp):
CTTTTTGCTTGTC
Found at i:10787925 original size:57 final size:56
Alignment explanation
Indices: 10787805--10787915 Score: 149
Period size: 56 Copynumber: 2.0 Consensus size: 56
10787795 AAGGCATCTT
** * *
10787805 TTTTTTTTTTCATGTAGTCATTTTTGGCTTTTTCTCTGTTTTTCTTATTTTCTTTC
1 TTTTTTTTTTCACATAGCCATTTTTGGCTTTTTCTCTGTTTTTATTATTTTCTTTC
10787861 TTTTTTTTTTCACATAGCCATTTTTGGCTTTTT-T-T-TTTCTTATT-TTTTCTTTC
1 TTTTTTTTTTCACATAGCCATTTTTGGCTTTTTCTCTGTTT-TTATTATTTTCTTTC
10787914 TT
1 TT
10787916 GCTCATTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
53 14 0.28
54 5 0.10
55 1 0.02
56 30 0.60
ACGTcount: A:0.08, C:0.14, G:0.07, T:0.70
Consensus pattern (56 bp):
TTTTTTTTTTCACATAGCCATTTTTGGCTTTTTCTCTGTTTTTATTATTTTCTTTC
Found at i:10793420 original size:15 final size:16
Alignment explanation
Indices: 10793378--10793424 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
10793368 AGATTTCTCT
10793378 TTTTTTGTTATAATTTA
1 TTTTTT-TTATAATTTA
*
10793395 TTTTCTTTTATAGTTTA
1 TTTT-TTTTATAATTTA
10793412 TTTTTTTATATAA
1 TTTTTTT-TATAA
10793425 AAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 3 0.12
17 21 0.81
18 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (16 bp):
TTTTTTTTATAATTTA
Found at i:10795679 original size:72 final size:72
Alignment explanation
Indices: 10795576--10795723 Score: 233
Period size: 72 Copynumber: 2.1 Consensus size: 72
10795566 AATCTCTGCA
* * * *
10795576 TGCAGTTTCATAGTTATAAACCAGTTTTGCTTGCTAATTGCAGATTTAACTTTTTGAACTTTTCT
1 TGCAGTTTCATAGTTACAAACCAGTTATGCTTGCTAATTGCAAATGTAACTTTTTGAACTTTTCT
10795641 AAAAATC
66 AAAAATC
* **
10795648 TGCAGTTTCATAGTTGCAAACTGGTTATGCTTGCTAATTGCAAATGTAACTTTTTGAACTTTTCT
1 TGCAGTTTCATAGTTACAAACCAGTTATGCTTGCTAATTGCAAATGTAACTTTTTGAACTTTTCT
10795713 AAAAATC
66 AAAAATC
10795720 TGCA
1 TGCA
10795724 ATGCCTAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (72 bp):
TGCAGTTTCATAGTTACAAACCAGTTATGCTTGCTAATTGCAAATGTAACTTTTTGAACTTTTCT
AAAAATC
Found at i:10795738 original size:72 final size:72
Alignment explanation
Indices: 10795603--10795739 Score: 195
Period size: 72 Copynumber: 1.9 Consensus size: 72
10795593 AAACCAGTTT
* * * ** **
10795603 TGCTTGCTAATTGCAGATTTAACTTTTTGAACTTTTCTAAAAATCTGCAGTTTCATAGTTGCAAA
1 TGCTTGCTAATTGCAAATGTAACTTTTTGAACTTTTCTAAAAATCTGCAATGCCATAAATGCAAA
10795668 CTGGTTA
66 CTGGTTA
10795675 TGCTTGCTAATTGCAAATGTAACTTTTTGAACTTTTCTAAAAATCTGCAATGCC-TAAAATGCAA
1 TGCTTGCTAATTGCAAATGTAACTTTTTGAACTTTTCTAAAAATCTGCAATGCCAT-AAATGCAA
10795739 A
65 A
10795740 GAAGATGGCC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 1 0.02
72 56 0.98
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (72 bp):
TGCTTGCTAATTGCAAATGTAACTTTTTGAACTTTTCTAAAAATCTGCAATGCCATAAATGCAAA
CTGGTTA
Found at i:10798284 original size:37 final size:39
Alignment explanation
Indices: 10798238--10798311 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
10798228 TTCTTGTGAT
10798238 ATAAATATT-AAATT-GACTTGAAAATTTTAAACATATG
1 ATAAATATTAAAATTAGACTTGAAAATTTTAAACATATG
* * **
10798275 ATAAGTATTAAAATTAGATTTGTGAATTTTAAACATA
1 ATAAATATTAAAATTAGACTTGAAAATTTTAAACATA
10798312 ATATGGCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 8 0.26
38 5 0.16
39 18 0.58
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (39 bp):
ATAAATATTAAAATTAGACTTGAAAATTTTAAACATATG
Found at i:10798663 original size:28 final size:28
Alignment explanation
Indices: 10798622--10798681 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
10798612 AATACGATAT
10798622 AAAT-ATATAAATTATCAAATTTAATTA
1 AAATAATATAAATTATCAAATTTAATTA
* * *
10798649 AAATAATATGAATTATCATATTTATTTA
1 AAATAATATAAATTATCAAATTTAATTA
10798677 AAATA
1 AAATA
10798682 TTATTAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (28 bp):
AAATAATATAAATTATCAAATTTAATTA
Found at i:10800240 original size:19 final size:19
Alignment explanation
Indices: 10800218--10800254 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10800208 ATAAGTTAAT
*
10800218 TTTAATAACAAATAATAAA
1 TTTAATAAAAAATAATAAA
*
10800237 TTTATTAAAAAATAATAA
1 TTTAATAAAAAATAATAA
10800255 TAATGTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAATAAAAAATAATAAA
Found at i:10800376 original size:24 final size:24
Alignment explanation
Indices: 10800321--10800373 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
10800311 TTATTAATTT
*
10800321 ATTAAGTAATTAT-ATAAATGATTA
1 ATTAAATAATTATAAT-AATGATTA
10800345 ATTAAATAATTATAATAAT-ATTA
1 ATTAAATAATTATAATAATGATTA
*
10800368 TTTAAA
1 ATTAAA
10800374 ATATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 9 0.35
24 15 0.58
25 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
ATTAAATAATTATAATAATGATTA
Found at i:10801252 original size:15 final size:16
Alignment explanation
Indices: 10801232--10801264 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10801222 AATATAAAAA
10801232 TTTTTAA-GTTTTATT
1 TTTTTAATGTTTTATT
*
10801247 TTTTTAATTTTTTATT
1 TTTTTAATGTTTTATT
10801263 TT
1 TT
10801265 AATATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTAATGTTTTATT
Found at i:10801849 original size:24 final size:24
Alignment explanation
Indices: 10801806--10801858 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
10801796 TTTTACAAAA
*
10801806 ATAA-TTGTCTATTTTGAATAGAC
1 ATAATTTGTCTATTTTAAATAGAC
10801829 ATAATTTGTCT-TATTTAAATAGAC
1 ATAATTTGTCTAT-TTTAAATAGAC
*
10801853 TTAATT
1 ATAATT
10801859 ATTTATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (24 bp):
ATAATTTGTCTATTTTAAATAGAC
Found at i:10807253 original size:63 final size:62
Alignment explanation
Indices: 10806882--10807313 Score: 206
Period size: 63 Copynumber: 6.9 Consensus size: 62
10806872 TTTTAAGCAA
* * * *
10806882 AAAAAACACTTTCAATAATC-CTCTTAAATTTTTTA-GAGAGGATTATTGAAGGCGTTTTCTGCA
1 AAAAAACACCTTCAATAATCTC-CTTCAATTTTTTATGAGAGGATTATTAAAGGTGTTTT-T--A
*
10806945 A
62 C
* * * * * * * * * *
10806946 AAAAAATACATTTAATAATTTCTTTTAATTTTTTA-AAGTGAATTATTGAAA-GTG-TTTCAGGC
1 AAAAAACACCTTCAATAATCTCCTTCAATTTTTTATGAGAGGATTATT-AAAGGTGTTTTTA--C
** * * * * * *
10807008 AAAAAAGGCATTCAATAATCCCCTT-AAATTTTGATGAGAAGATTATTGAAA-GTGTTTTTGGC
1 AAAAAACACCTTCAATAATCTCCTTCAATTTTTTATGAGAGGATTATT-AAAGGTGTTTTT-AC
* * * * * * * * * * * *
10807070 TAAAAACGCTTTTAATAATCCCCTCCAATTTTTTA-AAGGGGATTCTTGATAGCAT-TTTTTGAT
1 AAAAAACACCTTCAATAATCTCCTTCAATTTTTTATGAGAGGATTATT-AAAG-GTGTTTTT-AC
* * * * * *
10807133 AAAAAATACCTTCAATAAACTCCTCCAATTTTTTA-GAGGGGATTATTAAATGCGTTTTCTAC
1 AAAAAACACCTTCAATAATCTCCTTCAATTTTTTATGAGAGGATTATTAAAGGTGTTTT-TAC
* * * * *
10807195 AAAAAAATACCTTCAATAATC-CTTTTC-TTTTTTTATGAGAGGATTATTGAAGGTGTTTTTGC
1 -AAAAAACACCTTCAATAATCTC-CTTCAATTTTTTATGAGAGGATTATTAAAGGTGTTTTTAC
* *
10807257 ACAAAACACCTTTAATAATCTCCTTCAATTTTTTATGAGA-GATTATTAAAGGTGTTT
1 AAAAAACACCTTCAATAATCTCCTTCAATTTTTTATGAGAGGATTATTAAAGGTGTTT
10807314 CAGACAAAAG
Statistics
Matches: 280, Mismatches: 71, Indels: 37
0.72 0.18 0.10
Matches are distributed among these distances:
60 1 0.00
61 43 0.15
62 96 0.34
63 98 0.35
64 39 0.14
65 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (62 bp):
AAAAAACACCTTCAATAATCTCCTTCAATTTTTTATGAGAGGATTATTAAAGGTGTTTTTAC
Found at i:10807276 original size:61 final size:61
Alignment explanation
Indices: 10807135--10807313 Score: 175
Period size: 61 Copynumber: 2.9 Consensus size: 61
10807125 TTTTTGATAA
* * * * * * * *
10807135 AAAATACCTTCAATAAACTCCTCCAATTTTTTA-GAGGGGATTATTAAATGCGTTTTCTACAAA
1 AAAACACCTTCAATAATCTCCTTCAATTTTTTATGA-GAGATTATTAAAGGTGTTTT-TGC-AC
* * * *
10807198 AAAATACCTTCAATAATC-CTTTTC-TTTTTTTATGAGAGGATTATTGAAGGTGTTTTTGCAC
1 AAAACACCTTCAATAATCTC-CTTCAATTTTTTATGAGA-GATTATTAAAGGTGTTTTTGCAC
*
10807259 AAAACACCTTTAATAATCTCCTTCAATTTTTTATGAGAGATTATTAAAGGTGTTT
1 AAAACACCTTCAATAATCTCCTTCAATTTTTTATGAGAGATTATTAAAGGTGTTT
10807314 CAGACAAAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
61 36 0.38
62 24 0.25
63 36 0.38
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (61 bp):
AAAACACCTTCAATAATCTCCTTCAATTTTTTATGAGAGATTATTAAAGGTGTTTTTGCAC
Found at i:10807338 original size:62 final size:62
Alignment explanation
Indices: 10807223--10807339 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 62
10807213 ATCCTTTTCT
* ** **
10807223 TTTTTTATGAGAGGATTATTGAAGGTGTTTTTGCACAAAACACCTTTAATAATCTCCTTCAA
1 TTTTTTATGAGAGGATTATTAAAGGTGTTTCAGCACAAAACACCTCGAATAATCTCCTTCAA
*
10807285 TTTTTTATGAGA-GATTATTAAAGGTGTTTCAG-ACAAAAGATACCTCGAATAATCT
1 TTTTTTATGAGAGGATTATTAAAGGTGTTTCAGCAC-AAA-ACACCTCGAATAATCT
10807340 GCTCATAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 2 0.04
61 20 0.43
62 25 0.53
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (62 bp):
TTTTTTATGAGAGGATTATTAAAGGTGTTTCAGCACAAAACACCTCGAATAATCTCCTTCAA
Found at i:10807949 original size:64 final size:64
Alignment explanation
Indices: 10807851--10808020 Score: 186
Period size: 64 Copynumber: 2.7 Consensus size: 64
10807841 ACAGAAAACG
* *
10807851 CCTTCAATAAT-CCCTTCTATTTTTTATGAAAGGATTATTCAAAGCATTGTCTAC-CAAAAATA
1 CCTTCAATAATCCCCTTCCATTTTTTATGAAAGGATTATTCAAAGCATTGTCTACAAAAAAATA
* * * * *
10807913 CCTTTAATAATCCCCTATCCATTTTTTAT-AAGAGGATTATTGAAGGCGTTTTCTACAAAAAAAA
1 CCTTCAATAATCCCCT-TCCATTTTTTATGAA-AGGATTATTCAAAGCATTGTCTAC-AAAAAAA
10807977 TA
63 TA
* ** *
10807979 CCTTCAATAAT-CACTTTAATTTTTTAAGAAAGGATTATTCAA
1 CCTTCAATAATCCCCTTCCATTTTTTATGAAAGGATTATTCAA
10808021 GGTGTTTTAG
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
62 10 0.11
63 6 0.07
64 51 0.57
65 5 0.06
66 17 0.19
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (64 bp):
CCTTCAATAATCCCCTTCCATTTTTTATGAAAGGATTATTCAAAGCATTGTCTACAAAAAAATA
Found at i:10834278 original size:10 final size:10
Alignment explanation
Indices: 10834263--10834292 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10834253 AATCGAATTT
10834263 TATATTTTAA
1 TATATTTTAA
10834273 TATATTTTAA
1 TATATTTTAA
10834283 T-TATTTTAA
1 TATATTTTAA
10834292 T
1 T
10834293 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:10834289 original size:9 final size:9
Alignment explanation
Indices: 10834265--10834294 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
10834255 TCGAATTTTA
10834265 TATTTTAAT
1 TATTTTAAT
10834274 ATATTTTAAT
1 -TATTTTAAT
10834284 TATTTTAAT
1 TATTTTAAT
10834293 TA
1 TA
10834295 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:10836792 original size:20 final size:19
Alignment explanation
Indices: 10836767--10836806 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10836757 CTGTTCAACA
10836767 TTTTTT-TTCTTTCCATTTTC
1 TTTTTTATT-TTTCC-TTTTC
10836787 TTTTTTATTTTTCCTTTTC
1 TTTTTTATTTTTCCTTTTC
10836806 T
1 T
10836807 AGAAATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 11 0.58
21 2 0.11
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTATTTTTCCTTTTC
Found at i:10838482 original size:14 final size:14
Alignment explanation
Indices: 10838465--10838508 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
10838455 GTTTTATGTT
10838465 TTTGATTTTTTTTA
1 TTTGATTTTTTTTA
10838479 TTTGATTTTATTTTTA
1 TTTGA-TTT-TTTTTA
* *
10838495 TTTTATTGTTTTTA
1 TTTGATTTTTTTTA
10838509 ATTTTATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 11 0.42
15 5 0.19
16 10 0.38
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (14 bp):
TTTGATTTTTTTTA
Found at i:10838507 original size:15 final size:15
Alignment explanation
Indices: 10838472--10838517 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
10838462 GTTTTTGATT
* *
10838472 TTTTTTATTTGATTT
1 TTTTTTATTTTATTG
10838487 TATTTTTATTTTATTG
1 T-TTTTTATTTTATTG
*
10838503 TTTTTAATTTTATTG
1 TTTTTTATTTTATTG
10838518 AATTTGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTTTTATTTTATTG
Found at i:10838507 original size:20 final size:19
Alignment explanation
Indices: 10838456--10838516 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
10838446 GGCTATTGTG
10838456 TTTTA-TGTTTTTGATTTT-
1 TTTTATTGTTTTT-ATTTTA
*
10838474 TTTTATTTGATTTTATTTTTA
1 TTTTA-TTGTTTTTA-TTTTA
10838495 TTTTATTGTTTTTAATTTTA
1 TTTTATTGTTTTT-ATTTTA
10838515 TT
1 TT
10838517 GAATTTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
18 5 0.14
19 1 0.03
20 24 0.67
21 6 0.17
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTATTGTTTTTATTTTA
Found at i:10846857 original size:2 final size:2
Alignment explanation
Indices: 10846850--10846880 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10846840 TAATTTATGC
10846850 CT CT CT 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 CT CT CT C
10846881 CATTGCAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:10853113 original size:25 final size:25
Alignment explanation
Indices: 10853084--10853160 Score: 145
Period size: 25 Copynumber: 3.1 Consensus size: 25
10853074 TTTTAGAGAT
10853084 TTGTTTCTATTATAGATTAGAATAA
1 TTGTTTCTATTATAGATTAGAATAA
10853109 TTGTTTCTATTATAGATTAGAATAA
1 TTGTTTCTATTATAGATTAGAATAA
*
10853134 TTGTTTCTATTTTAGATTAGAATAA
1 TTGTTTCTATTATAGATTAGAATAA
10853159 TT
1 TT
10853161 CTCTTTCTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.51
Consensus pattern (25 bp):
TTGTTTCTATTATAGATTAGAATAA
Found at i:10854594 original size:22 final size:22
Alignment explanation
Indices: 10854566--10854607 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10854556 TGTATATTTA
*
10854566 TATTTGTATCTCTAGAATTATG
1 TATTTGTATCCCTAGAATTATG
10854588 TATTTGTATCCCTAGAATTA
1 TATTTGTATCCCTAGAATTA
10854608 AGGAAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTATG
Found at i:10856134 original size:22 final size:22
Alignment explanation
Indices: 10856109--10856150 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10856099 AAATCTCCCT
*
10856109 TAATTCTAGGGATACAAATACA
1 TAATTCTAGAGATACAAATACA
10856131 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
10856151 TAAATATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACA
Found at i:10863047 original size:22 final size:22
Alignment explanation
Indices: 10863022--10863065 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10863012 TGTATATTTA
*
10863022 TATTCGTATCTCTAGAATTAAG
1 TATTCGTATCCCTAGAATTAAG
*
10863044 TATTTGTATCCCTAGAATTAAG
1 TATTCGTATCCCTAGAATTAAG
10863066 GAAGATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (22 bp):
TATTCGTATCCCTAGAATTAAG
Found at i:10863240 original size:22 final size:23
Alignment explanation
Indices: 10863215--10863301 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 23
10863205 AAATTTTTCA
*
10863215 GCCTTCATTGCTGA-CTTTTTAG
1 GCCTTCATTGCCGACCTTTTTAG
10863237 GCCTTCATTGCCGACCTTTTTAG
1 GCCTTCATTGCCGACCTTTTTAG
*
10863260 GCCTTTCATCTGCCGAATCCTGTTTAG
1 GCC-TTCAT-TGCCG-A-CCTTTTTAG
10863287 GCCTTCATTTGCCGA
1 GCCTTCA-TTGCCGA
10863302 ACCCTTTCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
22 13 0.23
23 11 0.19
24 5 0.09
25 6 0.11
26 10 0.18
27 12 0.21
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (23 bp):
GCCTTCATTGCCGACCTTTTTAG
Found at i:10863300 original size:26 final size:25
Alignment explanation
Indices: 10863232--10863304 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 25
10863222 TTGCTGACTT
*
10863232 TTTAGGCCTTCA-TTGCCG-ACCTT
1 TTTAGGCCTTCATTTGCCGAACCTG
*
10863255 TTTAGGCCTTTCATCTGCCGAATCCTG
1 TTTAGGCC-TTCATTTGCCGAA-CCTG
10863282 TTTAGGCCTTCATTTGCCGAACC
1 TTTAGGCCTTCATTTGCCGAACC
10863305 CTTTCAAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 8 0.19
24 4 0.09
25 7 0.16
26 13 0.30
27 11 0.26
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.37
Consensus pattern (25 bp):
TTTAGGCCTTCATTTGCCGAACCTG
Found at i:10869681 original size:48 final size:48
Alignment explanation
Indices: 10869629--10869726 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
10869619 AAAATTATAA
* * *
10869629 ACGCATTAATTACATGTTCTAGATAGCTAATAGTTACAAATTTATCAT
1 ACGCATAAATTACAAGTTCTAGATAGCTAATAATTACAAATTTATCAT
*
10869677 ACGCATAAATTAGAAGTTCTAGATAGCTAATAATTACAAATTTATCAT
1 ACGCATAAATTACAAGTTCTAGATAGCTAATAATTACAAATTTATCAT
10869725 AC
1 AC
10869727 TTCTAAGTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (48 bp):
ACGCATAAATTACAAGTTCTAGATAGCTAATAATTACAAATTTATCAT
Found at i:10870393 original size:27 final size:27
Alignment explanation
Indices: 10870363--10870414 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
10870353 CCCAATTAGA
*
10870363 AGGGGCTTGATAATTGATAGGTTTAAT
1 AGGGGCTTAATAATTGATAGGTTTAAT
*
10870390 AGGGGCTTAATCATTGATAGGTTTA
1 AGGGGCTTAATAATTGATAGGTTTA
10870415 CTTATTCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.37
Consensus pattern (27 bp):
AGGGGCTTAATAATTGATAGGTTTAAT
Found at i:10870455 original size:49 final size:49
Alignment explanation
Indices: 10870386--10870487 Score: 177
Period size: 49 Copynumber: 2.1 Consensus size: 49
10870376 TTGATAGGTT
* *
10870386 TAATAGGGGCTTAATCATTGATAGGTTTACTTATTCTGGGGGAAATAGG
1 TAATAGGGGCTTAATAATTGATAGGTTTACTTATTCTGGAGGAAATAGG
*
10870435 TAATAGGGGCTTGATAATTGATAGGTTTACTTATTCTGGAGGAAATAGG
1 TAATAGGGGCTTAATAATTGATAGGTTTACTTATTCTGGAGGAAATAGG
10870484 TAAT
1 TAAT
10870488 CACAAATAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (49 bp):
TAATAGGGGCTTAATAATTGATAGGTTTACTTATTCTGGAGGAAATAGG
Found at i:10878418 original size:24 final size:24
Alignment explanation
Indices: 10878351--10878418 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
10878341 GAAATAAATT
10878351 AAATAAAAAGAT-TAAAGAAAGGAA
1 AAAT-AAAAGATCTAAAGAAAGGAA
* *
10878375 AAAGAGAAAGACCTAAAGAAA-GAA
1 AAATA-AAAGATCTAAAGAAAGGAA
*
10878399 AAATAAAAGGATCTAGAGAA
1 AAATAAAA-GATCTAAAGAA
10878419 TAAAGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
23 4 0.11
24 24 0.67
25 8 0.22
ACGTcount: A:0.66, C:0.04, G:0.19, T:0.10
Consensus pattern (24 bp):
AAATAAAAGATCTAAAGAAAGGAA
Found at i:10885235 original size:19 final size:19
Alignment explanation
Indices: 10885191--10885236 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
10885181 GCTAGCCAAA
*
10885191 CATAAATAAAAATTATCAT
1 CATAAATAAAAATAATCAT
*
10885210 CAAAAATAAAAA-AATCAT
1 CATAAATAAAAATAATCAT
10885228 CCATAAATA
1 -CATAAATA
10885237 CTTGTAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (19 bp):
CATAAATAAAAATAATCAT
Found at i:10889533 original size:136 final size:136
Alignment explanation
Indices: 10889281--10889546 Score: 415
Period size: 136 Copynumber: 2.0 Consensus size: 136
10889271 TATTCATCAA
**
10889281 CATAATGCTCTTTTAACTTTTTCTTTGAAGTGATTTTGAATTTCAAGCAATGGATAGATCAAGTG
1 CATAATGCTCTTTTAACTTTTTCTTTGAAGTGATTTTGAATTTCAAGCAATAAATAGATCAAGTG
* * * * * *
10889346 GCACCTTAATTTGAATTTTCAACCATTTTATTTTTTATTTAAGTTGGAGAGTTTTGAAAATATCA
66 GCACCTCAATTTGAATTTTCAACCATTTTATCTTTGATTTAAGTTGAAGAGTTCTAAAAATATCA
10889411 AAAAAG
131 AAAAAG
* * *
10889417 CATAATGTTCTTTTGACTTTTTCTTTGAAGTGATTTTGAATTTCAAGCGATAAATAGATCAAGTG
1 CATAATGCTCTTTTAACTTTTTCTTTGAAGTGATTTTGAATTTCAAGCAATAAATAGATCAAGTG
* *
10889482 GCATCTCAATTTGAATTTTCAACCATTTTATCTTTGATTTAATTTGAAGAGTTCTAAAAATATCA
66 GCACCTCAATTTGAATTTTCAACCATTTTATCTTTGATTTAAGTTGAAGAGTTCTAAAAATATCA
10889547 TTATGCCACA
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
136 117 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (136 bp):
CATAATGCTCTTTTAACTTTTTCTTTGAAGTGATTTTGAATTTCAAGCAATAAATAGATCAAGTG
GCACCTCAATTTGAATTTTCAACCATTTTATCTTTGATTTAAGTTGAAGAGTTCTAAAAATATCA
AAAAAG
Found at i:10892158 original size:17 final size:17
Alignment explanation
Indices: 10892136--10892168 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10892126 ATATATATAT
10892136 TTAATAAAGC-ATAAGTA
1 TTAAT-AAGCAATAAGTA
10892153 TTAATAAGCAATAAGT
1 TTAATAAGCAATAAGT
10892169 TCCTTCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (17 bp):
TTAATAAGCAATAAGTA
Found at i:10892663 original size:19 final size:19
Alignment explanation
Indices: 10892635--10892682 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
10892625 AATAGGTTTT
*
10892635 ATCA-TAAATAGAAAAATC
1 ATCACTAAATACAAAAATC
* *
10892653 ATCACTAAATACTATAATC
1 ATCACTAAATACAAAAATC
*
10892672 ATCACAAAATA
1 ATCACTAAATA
10892683 TATGATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.56, C:0.17, G:0.02, T:0.25
Consensus pattern (19 bp):
ATCACTAAATACAAAAATC
Found at i:10898230 original size:10 final size:10
Alignment explanation
Indices: 10898215--10898265 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
10898205 TGTAAACAAT
10898215 TTTAACTAAC
1 TTTAACTAAC
*
10898225 TTTAACTAAA
1 TTTAACTAAC
10898235 TTTAACTAA-
1 TTTAACTAAC
10898244 TTCCTAACTAAC
1 TT--TAACTAAC
10898256 TTTAACTAAC
1 TTTAACTAAC
10898266 AAGTCAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 2 0.05
10 26 0.70
11 7 0.19
12 2 0.05
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (10 bp):
TTTAACTAAC
Found at i:10898236 original size:21 final size:20
Alignment explanation
Indices: 10898215--10898265 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
10898205 TGTAAACAAT
10898215 TTTAACTAACTT-TAACTAAA
1 TTTAACTAACTTCTAACT-AA
10898235 TTTAACTAA-TTCCTAACTAA
1 TTTAACTAACTT-CTAACTAA
10898255 CTTTAACTAAC
1 -TTTAACTAAC
10898266 AAGTCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 2 0.07
20 11 0.41
21 14 0.52
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTAACTAACTTCTAACTAA
Found at i:10907316 original size:5 final size:4
Alignment explanation
Indices: 10907304--10907376 Score: 55
Period size: 4 Copynumber: 18.0 Consensus size: 4
10907294 TCTTATTTCA
*
10907304 TAAT TAAT GTAA- TACAT TTAAT TAAT AAAT T-A- TAAT TAATT TAA-
1 TAAT TAAT -TAAT TA-AT -TAAT TAAT TAAT TAAT TAAT TAA-T TAAT
*
10907348 TAAT TAAAT TAAT TAAC TAAT TAAT TAAT
1 TAAT T-AAT TAAT TAAT TAAT TAAT TAAT
10907377 ATCATAACAA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
2 1 0.02
3 7 0.12
4 33 0.59
5 13 0.23
6 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (4 bp):
TAAT
Found at i:10907696 original size:13 final size:13
Alignment explanation
Indices: 10907674--10907712 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
10907664 CATAATCATG
*
10907674 AATTACTTTAATT
1 AATTAATTTAATT
10907687 AATTAATTTAA-T
1 AATTAATTTAATT
10907699 AATTAATTATAATT
1 AATTAATT-TAATT
10907713 TAATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 9 0.39
13 13 0.57
14 1 0.04
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:10907713 original size:18 final size:16
Alignment explanation
Indices: 10907682--10907717 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
10907672 TGAATTACTT
10907682 TAATTAATTAATTTAA
1 TAATTAATTAATTTAA
10907698 TAATTAATTATAATTTAA
1 TAATTAA-T-TAATTTAA
10907716 TA
1 TA
10907718 TTATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTAATTAATTTAA
Found at i:10908484 original size:27 final size:27
Alignment explanation
Indices: 10908448--10908534 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
10908438 ATTAATTAAT
*
10908448 ATAATATTAAAGTTTATATGAATAAAA
1 ATAATCTTAAAGTTTATATGAATAAAA
* **
10908475 ATAATCTTAAA--TTATAATTAAT-ACG
1 ATAATCTTAAAGTTTAT-ATGAATAAAA
10908500 AT-A--TTAAAGTTTATATGAATAAAA
1 ATAATCTTAAAGTTTATATGAATAAAA
10908524 ATAATCTTAAA
1 ATAATCTTAAA
10908535 TTATAATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
22 5 0.11
23 5 0.11
24 8 0.17
25 8 0.17
26 5 0.11
27 15 0.33
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (27 bp):
ATAATCTTAAAGTTTATATGAATAAAA
Found at i:10908493 original size:49 final size:48
Alignment explanation
Indices: 10908440--10908592 Score: 211
Period size: 49 Copynumber: 3.2 Consensus size: 48
10908430 TTATAATAAT
10908440 TAATTAATATAATATTAAAGTTTATATGAATAAAAATAATCTTAAATTA
1 TAATTAATAT-ATATTAAAGTTTATATGAATAAAAATAATCTTAAATTA
*
10908489 TAATTAATACGATATTAAAGTTTATATGAATAAAAATAATCTTAAATTA
1 TAATTAATA-TATATTAAAGTTTATATGAATAAAAATAATCTTAAATTA
* * * * *
10908538 TAATTAATATATATCAAAG-TTATTATTAATACAAA-AATATTAAACTA
1 TAATTAATATATATTAAAGTTTA-TATGAATAAAAATAATCTTAAATTA
10908585 TAATTAAT
1 TAATTAAT
10908593 TTAGTAAATC
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
47 21 0.22
48 18 0.19
49 56 0.59
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (48 bp):
TAATTAATATATATTAAAGTTTATATGAATAAAAATAATCTTAAATTA
Found at i:10909165 original size:2 final size:2
Alignment explanation
Indices: 10909158--10909197 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10909148 CATTTATAGG
10909158 AT AT AT AT AT AT 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 AT AT AT AT AT AT
10909198 TCAACGATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10909581 original size:25 final size:25
Alignment explanation
Indices: 10909552--10909601 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
10909542 ATATTTAAGT
**
10909552 TTTTTTTTTATAAATATATATTAATA
1 TTTTTTTCAATAAA-ATATATTAATA
*
10909578 TTTTTTTCAATTAAATATATTAAT
1 TTTTTTTCAATAAAATATATTAAT
10909602 TCTAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTTTTCAATAAAATATATTAATA
Found at i:10909659 original size:17 final size:17
Alignment explanation
Indices: 10909618--10909652 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10909608 TAATCTAAAA
10909618 TAATAATAAATATTATT
1 TAATAATAAATATTATT
10909635 TAATAATAAAT-TTATT
1 TAATAATAAATATTATT
10909651 TA
1 TA
10909653 CTAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATAATAAATATTATT
Found at i:10909832 original size:2 final size:2
Alignment explanation
Indices: 10909825--10909854 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10909815 TTAATATTCT
10909825 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10909855 CACTAATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10910416 original size:22 final size:21
Alignment explanation
Indices: 10910382--10910424 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
10910372 GTCCCTACCC
* *
10910382 TTTTCTTTTTTCTCTCCTCCA
1 TTTTCTTATTTCTCTCATCCA
10910403 TTTTCCTTATTTCTCTCATCCA
1 TTTT-CTTATTTCTCTCATCCA
10910425 CTCAAACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.09, C:0.33, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTCTTATTTCTCTCATCCA
Found at i:10913274 original size:12 final size:11
Alignment explanation
Indices: 10913252--10913293 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
10913242 ATAAGTATGT
*
10913252 TAATATGTAAA
1 TAATATATAAA
10913263 TATATATATAAA
1 TA-ATATATAAA
10913275 TAA-ATATAAA
1 TAATATATAAA
10913285 TGAATATAT
1 T-AATATAT
10913294 TAAACAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.30
11 5 0.19
12 14 0.52
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (11 bp):
TAATATATAAA
Found at i:10916288 original size:29 final size:29
Alignment explanation
Indices: 10916204--10916279 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
10916194 AATGTTATGA
10916204 ATGAT-TATTAAATTATAATAAAATATTTAAT
1 ATGATATA-TAAATTAT-A-AAAATATTTAAT
*
10916235 ATGATATATAAATTTTAAAAATATTTAAT
1 ATGATATATAAATTATAAAAATATTTAAT
* *
10916264 GTGATATTTAAATTAT
1 ATGATATATAAATTAT
10916280 GAATTTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 25 0.62
30 1 0.03
31 12 0.30
32 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (29 bp):
ATGATATATAAATTATAAAAATATTTAAT
Found at i:10916835 original size:7 final size:7
Alignment explanation
Indices: 10916814--10916849 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
10916804 AGTTATCTTT
10916814 AAAA-AA
1 AAAATAA
10916820 AAAAT-A
1 AAAATAA
10916826 AAAATAA
1 AAAATAA
10916833 AAAATAA
1 AAAATAA
10916840 AAAATAA
1 AAAATAA
10916847 AAA
1 AAA
10916850 TTTGATCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAATAA
Found at i:10916836 original size:14 final size:15
Alignment explanation
Indices: 10916817--10916849 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
10916807 TATCTTTAAA
10916817 AAAAAAAT-AAAAAT
1 AAAAAAATAAAAAAT
10916831 -AAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
10916845 AAAAA
1 AAAAA
10916850 TTTGATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:10917512 original size:18 final size:20
Alignment explanation
Indices: 10917476--10917514 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
10917466 TATGATAATT
*
10917476 TTATCTTATATAAATAATAA
1 TTATCTTATATAAAAAATAA
10917496 TTAT-TTAT-TAAAAAATAA
1 TTATCTTATATAAAAAATAA
10917514 T
1 T
10917515 AATACATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 4 0.22
20 4 0.22
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATCTTATATAAAAAATAA
Found at i:10918386 original size:71 final size:70
Alignment explanation
Indices: 10918251--10918387 Score: 170
Period size: 69 Copynumber: 1.9 Consensus size: 70
10918241 TATTTTTAAT
* * * * *
10918251 AAAGATTGCGTTTTTTTTATCTTAAAAACGTAGTCTTTGTTGAATTCTGAATTTTTTTTTATGTT
1 AAAGATTGCG-TTTTCTTATCTTAAAAACGTAGTCTTTATTGAATTCTAAAATATTTTTTATGTT
10918316 TCCAAC
65 TCCAAC
*
10918322 AAAGATTGCG-TTTCTTATCTTAAAAGCGTCA-TCTTTATTGAATTCTTAAAAATATTTTTTATG
1 AAAGATTGCGTTTTCTTATCTTAAAAACGT-AGTCTTTATTGAATTC-T-AAAATATTTTTTATG
10918385 TTT
63 TTT
10918388 TCAATAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
69 30 0.53
70 2 0.04
71 25 0.44
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.50
Consensus pattern (70 bp):
AAAGATTGCGTTTTCTTATCTTAAAAACGTAGTCTTTATTGAATTCTAAAATATTTTTTATGTTT
CCAAC
Found at i:10918431 original size:40 final size:41
Alignment explanation
Indices: 10918380--10918458 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 41
10918370 AAAATATTTT
* *
10918380 TTATGTTTTCAATAAAAACTGCT-TTTT-TATTTTAGAAATA
1 TTATCTTTTCAACAAAAACTG-TATTTTCTATTTTAGAAATA
10918420 TTATCTTTTCAACAAAAACTGTATTTTCTATTTTAGAAA
1 TTATCTTTTCAACAAAAACTGTATTTTCTATTTTAGAAA
10918459 CATCATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 1 0.03
40 23 0.66
41 11 0.31
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (41 bp):
TTATCTTTTCAACAAAAACTGTATTTTCTATTTTAGAAATA
Found at i:10918504 original size:72 final size:73
Alignment explanation
Indices: 10918420--10918611 Score: 226
Period size: 72 Copynumber: 2.6 Consensus size: 73
10918410 TTTAGAAATA
* * * * *
10918420 TTATCTTTTCAACAAAAACTGTATTTTCTATTTTAGAAACATCATTATTGTTGAATTGTAAAAAA
1 TTATATTTTCAACAAAGACTGCATTTTCTATTTTAGAAACATCATTATTATTGAATTATAAAAAA
10918485 TAT-TTTT
66 TATATTTT
* * * *
10918492 TTATGTTTTCAACAAAGATTGCATGTTCTATTTTAGAAACGTCATCT-TTATTGAATTATAAAAA
1 TTATATTTTCAACAAAGACTGCATTTTCTATTTTAGAAACATCAT-TATTATTGAATTATAAAAA
10918556 ATATATTTT
65 ATATATTTT
* * * * * *
10918565 TAATATTTTTAACAAAGACTACGTTTTCTATCTTAGAAACATTATTA
1 TTATATTTTCAACAAAGACTGCATTTTCTATTTTAGAAACATCATTA
10918612 GCTCAAAGTG
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
72 59 0.60
73 40 0.40
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.45
Consensus pattern (73 bp):
TTATATTTTCAACAAAGACTGCATTTTCTATTTTAGAAACATCATTATTATTGAATTATAAAAAA
TATATTTT
Found at i:10920168 original size:161 final size:159
Alignment explanation
Indices: 10919936--10920254 Score: 460
Period size: 161 Copynumber: 2.0 Consensus size: 159
10919926 GCAAGGACAA
* *
10919936 AAGCCATTCATTCCTCATTCTTTTTCTTTGTTACATTTTAAAAATTTTAAAAATTACTTTGTTTT
1 AAGCCATTCATTCCTCATTCTTTTTCTTTGTTACATTTTAAAAATTTTAAAAATTACGTTGTTTC
*
10920001 ATTTAACTCAAATTGCTTTATTAATTTGACATAATAAATAAATTTATATATGTCATAATGGTTTT
66 ATTTAACTCAAATTGCTTTATTAATTTGACATAATAAATAAATTTATATATATCATAATGGTTTT
*
10920066 GGAGACTGT-TTGGTGAATTTTTAAAAAAT
131 GGAGACT-TCTTGATGAATTTTTAAAAAAT
* * ** * **
10920095 AAGCCATTCATTCCTCGTTCTTTTTTTTTTTGTTACATTTTTTAAGTTTTTCAAATTACGTTGTT
1 AAGCCATTCATTCCTCATTC--TTTTTCTTTGTTACATTTTAAAAATTTTAAAAATTACGTTGTT
* * * *
10920160 TCATTTAACTCAAATTGCTTTGTTAATTTGATATAATAAATAAATTTATATATATCGTAATTGTT
64 TCATTTAACTCAAATTGCTTTATTAATTTGACATAATAAATAAATTTATATATATCATAATGGTT
*
10920225 TTGGGGACTTCTTGATGAATTTTTAAAAAA
129 TTGGAGACTTCTTGATGAATTTTTAAAAAA
10920255 CAAGGATCCT
Statistics
Matches: 141, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
159 19 0.13
160 1 0.01
161 121 0.86
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (159 bp):
AAGCCATTCATTCCTCATTCTTTTTCTTTGTTACATTTTAAAAATTTTAAAAATTACGTTGTTTC
ATTTAACTCAAATTGCTTTATTAATTTGACATAATAAATAAATTTATATATATCATAATGGTTTT
GGAGACTTCTTGATGAATTTTTAAAAAAT
Found at i:10921354 original size:27 final size:25
Alignment explanation
Indices: 10921310--10921360 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
10921300 CCTTTGTCTT
*
10921310 TTTTTTTTTTCTCTTCTTCTTTTTC
1 TTTTTTTTTTCTATTCTTCTTTTTC
*
10921335 TTTTTTTTTTCTTATGTCTTGTTTTT
1 TTTTTTTTTTC-TAT-TCTTCTTTTT
10921361 ATTAGTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 2 0.09
27 9 0.41
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (25 bp):
TTTTTTTTTTCTATTCTTCTTTTTC
Found at i:10922683 original size:66 final size:66
Alignment explanation
Indices: 10922559--10922683 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 66
10922549 CTTATAAATA
* * * *
10922559 TTTTTTAAAAATTATTTTCTCTAAAACATTCAATTTTTTATATTTTAAGACTCGGATATATGAAT
1 TTTTTTAAAAATTATCTTCTCTAAAACATTCAACTTTTTAAATTTTAAGACTCAGATATATGAAT
10922624 C
66 C
* * * *
10922625 TTTTTTAAAAATTCTCTTCTAC-AAAACATTTAACTTTTTAAATTTTAAGATTTAGATAT
1 TTTTTTAAAAATTATCTTCT-CTAAAACATTCAACTTTTTAAATTTTAAGACTCAGATAT
10922684 CATCATTAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
66 49 0.98
67 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (66 bp):
TTTTTTAAAAATTATCTTCTCTAAAACATTCAACTTTTTAAATTTTAAGACTCAGATATATGAAT
C
Found at i:10923159 original size:79 final size:79
Alignment explanation
Indices: 10923022--10923168 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 79
10923012 CTCAGGTATT
* * * *
10923022 ACCACTAAGAGATTTTAACGAAATTCAAATTTTAATAATCAGATATCACCACTAAGTGATTTGTA
1 ACCACCAAAAGATTTTAACGAAATTCAAACTTTAATAATCAGATATCACCACTAAGTGATTTGAA
10923087 AAAGCTCGGAGATC
66 AAAGCTCGGAGATC
* * *
10923101 ACCACCAAAAGATTTTAATGAAATTCAAACTTTAATACTC-GAATATCACCA-TCGAGTGATTTG
1 ACCACCAAAAGATTTTAACGAAATTCAAACTTTAATAATCAG-ATATCACCACT-AAGTGATTTG
10923164 AAAAA
64 AAAAA
10923169 ACTCAGTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.03
79 57 0.97
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (79 bp):
ACCACCAAAAGATTTTAACGAAATTCAAACTTTAATAATCAGATATCACCACTAAGTGATTTGAA
AAAGCTCGGAGATC
Found at i:10923192 original size:79 final size:78
Alignment explanation
Indices: 10923031--10923248 Score: 190
Period size: 79 Copynumber: 2.8 Consensus size: 78
10923021 TACCACTAAG
* * * * * * *
10923031 AGATTTTAACGAAATTCAAATTTTAATAATCAGATATCACCA-CTAAGTGATTTGTAAAAGCTCG
1 AGATTTTAATGAAATTCAAACTTTAATACTCA-ATATCACCATC-GAGTGATTTGAAAAAACTCA
*
10923095 GAGATCACCACCAAA
64 GAGATCAACACCAAA
10923110 AGATTTTAATGAAATTCAAACTTTAATACTCGAATATCACCATCGAGTGATTTGAAAAAACTCAG
1 AGATTTTAATGAAATTCAAACTTTAATACTC-AATATCACCATCGAGTGATTTGAAAAAACTCAG
** ***
10923175 TTATCAACACTTTA
65 AGATCAACACCAAA
* * ** * *
10923189 AGATTTTATTTAAACTT-AGTC-TTAATACTCAAACATCACCATTGAGTGAATTTGAAAAAA
1 AGATTTTAATGAAA-TTCAAACTTTAATACTC-AATATCACCATCGAGTG-ATTTGAAAAAA
10923249 TCTTAGGTAT
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
78 24 0.21
79 87 0.76
80 4 0.03
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (78 bp):
AGATTTTAATGAAATTCAAACTTTAATACTCAATATCACCATCGAGTGATTTGAAAAAACTCAGA
GATCAACACCAAA
Found at i:10923356 original size:109 final size:108
Alignment explanation
Indices: 10923224--10923434 Score: 237
Period size: 109 Copynumber: 1.9 Consensus size: 108
10923214 TACTCAAACA
* * * ** * * **
10923224 TCACCATTGAGTGAATTTGAAAAAATCTTAGGTATCACCA-TCG-AGAAATGAAATTTAGGCTTT
1 TCACCATTAAGTGAATTTAAAAAAATCTCAAATATCACCACT-GAAAAAATGAAATTCAAACTTT
*
10923287 AATACTCAGATATCACCTCTAAGTGATTTTGAAAAAGGCTTGGATC
65 -ATACTCAGATATCACATCTAAGTGA-TTTGAAAAAGGCTTGGATC
* * *
10923333 TCACCATTAAGTGATTTTAAAAAATTCTCAAATATCACTACTGAAAAAATGAAATTCAAACTTTA
1 TCACCATTAAGTGAATTTAAAAAAATCTCAAATATCACCACTGAAAAAATGAAATTCAAACTTTA
** *
10923398 TACTTGGATATCACATCTGAGTGATTTGAAAAAGGCT
66 TACTCAGATATCACATCTAAGTGATTTGAAAAAGGCT
10923435 CAAATATCAC
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
108 13 0.15
109 54 0.64
110 17 0.20
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (108 bp):
TCACCATTAAGTGAATTTAAAAAAATCTCAAATATCACCACTGAAAAAATGAAATTCAAACTTTA
TACTCAGATATCACATCTAAGTGATTTGAAAAAGGCTTGGATC
Found at i:10923525 original size:32 final size:33
Alignment explanation
Indices: 10923484--10923563 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
10923474 TGGATACTTG
* *
10923484 GATATCACCATCAAGTGA-TTTGAA-AAAGCTTA
1 GATATCACCATCAAGAGAGTTT-AAGAAAGCTCA
10923516 GATATCACCATCGAA-AGAGTTTAAGAAAGCTCA
1 GATATCACCATC-AAGAGAGTTTAAGAAAGCTCA
*
10923549 AATATCACCATCAAG
1 GATATCACCATCAAG
10923564 GAAATTTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 18 0.44
33 23 0.56
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (33 bp):
GATATCACCATCAAGAGAGTTTAAGAAAGCTCA
Found at i:10927131 original size:13 final size:13
Alignment explanation
Indices: 10927113--10927138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10927103 TTCCTTTATC
10927113 ATGATTTTTCCTT
1 ATGATTTTTCCTT
10927126 ATGATTTTTCCTT
1 ATGATTTTTCCTT
10927139 GTAAGAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
ATGATTTTTCCTT
Found at i:10935946 original size:24 final size:24
Alignment explanation
Indices: 10935913--10935962 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
10935903 AAGCTAACAG
*
10935913 TGTGTTTTGATAGAACATACTACA
1 TGTGTCTTGATAGAACATACTACA
* *
10935937 TGTGTCTTGATTGGACATACTACA
1 TGTGTCTTGATAGAACATACTACA
10935961 TG
1 TG
10935963 AATGATGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (24 bp):
TGTGTCTTGATAGAACATACTACA
Found at i:10936204 original size:22 final size:21
Alignment explanation
Indices: 10936179--10936219 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10936169 ATCAAAAATT
10936179 TCTTTCTTTCCTTTTTTTTTCC
1 TCTTT-TTTCCTTTTTTTTTCC
**
10936201 TCTTTTTTTTTTTTTTTTT
1 TCTTTTTTCCTTTTTTTTT
10936220 AAAGAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TCTTTTTTCCTTTTTTTTTCC
Found at i:10938425 original size:22 final size:22
Alignment explanation
Indices: 10938380--10938445 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
10938370 CCATCGACTA
*
10938380 TTTCTTCTTCTTTTTTTTCCTTTTT
1 TTTC-TCTTCTTCTTTTT--TTTTT
10938405 TTTCTCTTCTTCTTTTTTTTTT
1 TTTCTCTTCTTCTTTTTTTTTT
* *
10938427 TCTT-TCCTCTTCCTTTTTT
1 T-TTCTCTTCTTCTTTTTTT
10938446 CCTAGCCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 19 0.51
23 2 0.05
24 12 0.32
25 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCTCTTCTTCTTTTTTTTTT
Found at i:10938437 original size:19 final size:20
Alignment explanation
Indices: 10938400--10938437 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10938390 TTTTTTTTCC
*
10938400 TTTTTTTTCTCTTCTTCTTT
1 TTTTTTTTCTCTTCCTCTTT
10938420 TTTTTTTTCT-TTCCTCTT
1 TTTTTTTTCTCTTCCTCTT
10938438 CCTTTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTTCTCTTCCTCTTT
Found at i:10938443 original size:19 final size:20
Alignment explanation
Indices: 10938396--10938445 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
10938386 CTTCTTTTTT
*
10938396 TTCCTTTTTTTTCTCTTCTTC
1 TTCC-TTTTTTTCTCTTCCTC
**
10938417 TTTTTTTTTTTCT-TTCCTC
1 TTCCTTTTTTTCTCTTCCTC
10938436 TTCCTTTTTT
1 TTCCTTTTTT
10938446 CCTAGCCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 13 0.54
20 9 0.38
21 2 0.08
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (20 bp):
TTCCTTTTTTTCTCTTCCTC
Found at i:10938516 original size:24 final size:24
Alignment explanation
Indices: 10938469--10938540 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
10938459 CGATGCCTTG
* *
10938469 TCTCTTTCTTTTTCTCTTCTTTCTT
1 TCTCTTTCTTTTTTTTTTC-TTCTT
10938494 T-TCTTTCCTTTTTTTTTTCTTCTT
1 TCTCTTT-CTTTTTTTTTTCTTCTT
*
10938518 TCTCATTCTTTTTCATTTTTCTT
1 TCTCTTTCTTTTT--TTTTTCTT
10938541 TTTAGTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 17 0.43
25 15 0.38
26 8 0.20
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (24 bp):
TCTCTTTCTTTTTTTTTTCTTCTT
Found at i:10938529 original size:19 final size:18
Alignment explanation
Indices: 10938473--10938531 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
10938463 GCCTTGTCTC
10938473 TTTCTT-TTTCTCTTCTT
1 TTTCTTCTTTCTCTTCTT
* *
10938490 TCTT-TTCTTTCCTTTTTTT
1 T-TTCTTCTTT-CTCTTCTT
10938509 TTTCTTCTTTCTCATTCTT
1 TTTCTTCTTTCTC-TTCTT
10938528 TTTC
1 TTTC
10938532 ATTTTTCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 3 0.09
18 9 0.27
19 21 0.64
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTCTTCTTTCTCTTCTT
Found at i:10939510 original size:8 final size:8
Alignment explanation
Indices: 10939497--10939576 Score: 54
Period size: 8 Copynumber: 9.1 Consensus size: 8
10939487 ATAATTATAC
10939497 AATAATTA
1 AATAATTA
10939505 AATAATTAA
1 AATAATT-A
10939514 TTATATAATTA
1 --A-ATAATTA
10939525 AA-AATTA
1 AATAATTA
10939532 AATAAATTA
1 AAT-AATTA
*
10939541 AATATGTATA
1 AATA-AT-TA
10939551 AATAATTA
1 AATAATTA
* *
10939559 CATAATTT
1 AATAATTA
10939567 AATAAATTA
1 AAT-AATTA
10939576 A
1 A
10939577 TTTAATGACA
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
7 7 0.12
8 19 0.33
9 17 0.30
10 6 0.11
11 2 0.04
12 6 0.11
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
AATAATTA
Found at i:10939557 original size:27 final size:27
Alignment explanation
Indices: 10939492--10939568 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
10939482 ACAATATAAT
*
10939492 TATACAATAATTAAAT-AATTAATTATA
1 TATA-AATAATTAAATAAATTAAATATA
*
10939519 TAATTAAA-AATTAAATAAATTAAATATG
1 T-A-TAAATAATTAAATAAATTAAATATA
* *
10939547 TATAAATAATTACATAATTTAA
1 TATAAATAATTAAATAAATTAA
10939569 TAAATTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.10
27 23 0.55
28 13 0.31
29 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (27 bp):
TATAAATAATTAAATAAATTAAATATA
Found at i:10940085 original size:35 final size:35
Alignment explanation
Indices: 10940020--10940091 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 35
10940010 AGTTTTTGAC
* * **
10940020 AATAAATTTTTAAAAAGTTATAATTTTTTTTTAAA
1 AATAAATTTTAAAAAAATTATAATAATTTTTTAAA
*
10940055 AATAAATTTTAAAAAAAATTAT-ATAATTTTTTGAA
1 AATAAATTTT-AAAAAAATTATAATAATTTTTTAAA
10940090 AA
1 AA
10940092 CTATAACATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 22 0.71
36 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (35 bp):
AATAAATTTTAAAAAAATTATAATAATTTTTTAAA
Found at i:10940085 original size:36 final size:35
Alignment explanation
Indices: 10940012--10940091 Score: 83
Period size: 36 Copynumber: 2.3 Consensus size: 35
10940002 TTCATACAAG
* * * *
10940012 TTTTTG-ACAATAAATTTTTAAAAAGTTATAATTT
1 TTTTTGAAAAATAAATTTTAAAAAAATTATAATAT
*
10940046 TTTTTTAAAAATAAATTTTAAAAAAAATTAT-ATAAT
1 TTTTTGAAAAATAAATTTT-AAAAAAATTATAAT-AT
10940082 TTTTTGAAAA
1 TTTTTGAAAA
10940092 CTATAACATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
34 5 0.14
35 13 0.35
36 19 0.51
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (35 bp):
TTTTTGAAAAATAAATTTTAAAAAAATTATAATAT
Found at i:10940273 original size:15 final size:15
Alignment explanation
Indices: 10940250--10940310 Score: 59
Period size: 15 Copynumber: 3.7 Consensus size: 15
10940240 AAGTTTGACC
*
10940250 TTTTAAAAATTTATT
1 TTTTGAAAATTTATT
10940265 TTTTGAAAAATTATATTATT
1 TTTTG--AAA--AT-TTATT
10940285 TTTTGAAAATTTATT
1 TTTTGAAAATTTATT
*
10940300 TTTAGAAAATT
1 TTTTGAAAATT
10940311 ATAAAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 19 0.49
16 2 0.05
17 3 0.08
18 3 0.08
19 2 0.05
20 10 0.26
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (15 bp):
TTTTGAAAATTTATT
Found at i:10940285 original size:20 final size:20
Alignment explanation
Indices: 10940260--10940298 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10940250 TTTTAAAAAT
10940260 TTATTTTTTGAAAAATTATA
1 TTATTTTTTGAAAAATTATA
*
10940280 TTATTTTTTGAAAATTTAT
1 TTATTTTTTGAAAAATTAT
10940299 TTTTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTATTTTTTGAAAAATTATA
Found at i:10940320 original size:34 final size:35
Alignment explanation
Indices: 10940250--10940320 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
10940240 AAGTTTGACC
* **
10940250 TTTTAAAAATTTATTTTTTGAAAAATTATATTATT
1 TTTTAAAAATTTATTTTTAGAAAAATTATAAAATT
*
10940285 TTTTGAAAATTTATTTTTAG-AAAATTATAAAATT
1 TTTTAAAAATTTATTTTTAGAAAAATTATAAAATT
10940319 TT
1 TT
10940321 AAAAAGTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 14 0.44
35 18 0.56
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (35 bp):
TTTTAAAAATTTATTTTTAGAAAAATTATAAAATT
Done.