Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 121 of 127
Found at i:23483759 original size:6 final size:6
Alignment explanation
Indices: 23483738--23483812 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 6
23483728 TTATTTAAAG
* * * *
23483738 AAAATA AAATTAA AAAATA AAATTA AAAAT- AAAATG AGAATA AAAAT-
1 AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
23483785 -AAAGA AAAAT- AAAATAA CAAAATA AAAA
1 AAAATA AAAATA AAAAT-A -AAAATA AAAA
23483813 AATATTAAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
4 3 0.06
5 10 0.19
6 29 0.55
7 6 0.11
8 5 0.09
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:23483765 original size:12 final size:13
Alignment explanation
Indices: 23483738--23483811 Score: 64
Period size: 13 Copynumber: 5.7 Consensus size: 13
23483728 TTATTTAAAG
23483738 AAAATAAAATTAA
1 AAAATAAAATTAA
23483751 AAAATAAAATT-A
1 AAAATAAAATTAA
* *
23483763 AAAATAAAATGAG
1 AAAATAAAATTAA
* *
23483776 AATA-AAAATAAAGA
1 AAAATAAAAT-TA-A
23483790 AAAATAAAA-TAA
1 AAAATAAAATTAA
23483802 CAAAATAAAA
1 -AAAATAAAA
23483812 AAATATTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 17 0.35
13 25 0.51
14 3 0.06
15 4 0.08
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (13 bp):
AAAATAAAATTAA
Found at i:23483787 original size:23 final size:21
Alignment explanation
Indices: 23483751--23483814 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 21
23483741 ATAAAATTAA
*
23483751 AAAATAAAATTAAAAATAAAAT
1 AAAATAAAAATAAAAA-AAAAT
* *
23483773 GAGAATAAAAATAAAGAAAAAT
1 -AAAATAAAAATAAAAAAAAAT
23483795 AAAATAACAAAATAAAAAAA
1 AAAAT-A-AAAATAAAAAAA
23483815 TATTAAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.12
22 6 0.18
23 24 0.71
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (21 bp):
AAAATAAAAATAAAAAAAAAT
Found at i:23483863 original size:19 final size:19
Alignment explanation
Indices: 23483816--23483864 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
23483806 ATAAAAAAAT
* *
23483816 ATTAAACAATTATAATCTA
1 ATTAAAAAATAATAATCTA
*
23483835 ATTAATAAATAATAATCATA
1 ATTAAAAAATAATAATC-TA
23483855 A-TAAAAAATA
1 ATTAAAAAATA
23483865 TATATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAATAATCTA
Found at i:23484789 original size:42 final size:41
Alignment explanation
Indices: 23484715--23484853 Score: 100
Period size: 42 Copynumber: 3.2 Consensus size: 41
23484705 ACCGAAAAAA
* * *
23484715 AAATCAAATAAAAATATTAATAGATAATTAAAAGA-AAATAAT
1 AAAT-AAATAAAAATATTAACAGACAAATAAAA-ATAAATAAT
* *
23484757 CAAATAAATCAAAATATTAACAGGCAAATAAAAATAAATAAT
1 -AAATAAATAAAAATATTAACAGACAAATAAAAATAAATAAT
* * * * * *
23484799 AGATAAATTATAATATATAAATAGATAAATAATAATAAATACAT
1 AAATAAA-TA-AAAATATTAACAGACAAATAAAAATAAATA-AT
*
23484843 ATATATAATAA
1 AAATA-AATAA
23484854 TATATAAATA
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
41 7 0.09
42 31 0.40
43 29 0.38
44 8 0.10
45 2 0.03
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (41 bp):
AAATAAATAAAAATATTAACAGACAAATAAAAATAAATAAT
Found at i:23484797 original size:4 final size:4
Alignment explanation
Indices: 23484788--23484946 Score: 62
Period size: 4 Copynumber: 39.2 Consensus size: 4
23484778 AGGCAAATAA
* * *
23484788 AAAT AAAT -AAT AGAT AAATT ATAAT ATAT AAAT AGAT AAAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAA-T A-AAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * ** * *
23484835 AAAT ACAT ATAT ATAAT -AAT ATAT AAAT AGCT AAGT -AAT -AAT AACT
1 AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * *
23484881 ATAT ATATT AACAT AAAA AAAT AAAT ATATAT TAAT AAAT AGTAAT -AAT
1 AAAT A-AAT AA-AT AAAT AAAT AAAT A-A-AT AAAT AAAT A--AAT AAAT
23484930 AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT A
23484947 GTACATAAGA
Statistics
Matches: 115, Mismatches: 26, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
3 20 0.17
4 75 0.65
5 13 0.11
6 7 0.06
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (4 bp):
AAAT
Found at i:23484824 original size:22 final size:22
Alignment explanation
Indices: 23484782--23484877 Score: 99
Period size: 22 Copynumber: 4.5 Consensus size: 22
23484772 ATTAACAGGC
* *
23484782 AAATAAAAATAAAT-AATAGAT
1 AAATAATAATATATAAATAGAT
*
23484803 AAATTATAATATATAAATAGAT
1 AAATAATAATATATAAATAGAT
* *
23484825 AAATAATAATAAATACAT--AT
1 AAATAATAATATATAAATAGAT
* *
23484845 ATATAATAATATATAAATAGCT
1 AAATAATAATATATAAATAGAT
*
23484867 AAGTAATAATA
1 AAATAATAATA
23484878 ACTATATATA
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
20 17 0.28
21 11 0.18
22 32 0.53
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
AAATAATAATATATAAATAGAT
Found at i:23484835 original size:14 final size:13
Alignment explanation
Indices: 23484783--23484935 Score: 73
Period size: 14 Copynumber: 10.9 Consensus size: 13
23484773 TTAACAGGCA
23484783 AATAA-AAATAAAT
1 AATAATAAAT-AAT
*
23484796 AATAGATAAATTAT
1 AATA-ATAAATAAT
23484810 AATATATAAATAGAT
1 AATA-ATAAATA-AT
23484825 AAATAAT-AATAAAT
1 -AATAATAAAT-AAT
*
23484839 ACAT-ATATATAAT
1 A-ATAATAAATAAT
*
23484852 AATATATAAATAGCT
1 AATA-ATAAATA-AT
23484867 AAGTAAT-AATAACT
1 AA-TAATAAATAA-T
23484881 ATATATATTAACATAA-
1 A-ATA-A-TAA-ATAAT
*
23484897 AAAAATAAATATAT
1 AATAATAAATA-AT
* *
23484911 ATTAATAAATAGT
1 AATAATAAATAAT
23484924 AATAATAAATAA
1 AATAATAAATAA
23484936 ATAAATAAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
12 5 0.05
13 26 0.24
14 46 0.43
15 18 0.17
16 8 0.07
17 1 0.01
18 4 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:23484852 original size:20 final size:19
Alignment explanation
Indices: 23484807--23484855 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
23484797 ATAGATAAAT
*
23484807 TATAATATATAAATAGATAA
1 TATAATA-ATAAATACATAA
23484827 -ATAATAATAAATACATATA
1 TATAATAATAAATACATA-A
23484846 TATAATAATA
1 TATAATAATA
23484856 TATAAATAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 7 0.27
20 9 0.35
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TATAATAATAAATACATAA
Found at i:23484874 original size:42 final size:42
Alignment explanation
Indices: 23484782--23484888 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 42
23484772 ATTAACAGGC
* * *
23484782 AAATAAAAATAAATA-ATAGATAAATTATAATATATAAATAGAT
1 AAATAATAATAAATACAT--ATATATAATAATATATAAATAGAT
*
23484825 AAATAATAATAAATACATATATATAATAATATATAAATAGCT
1 AAATAATAATAAATACATATATATAATAATATATAAATAGAT
* * *
23484867 AAGTAATAATAACTATATATAT
1 AAATAATAATAAATACATATAT
23484889 TAACATAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
42 40 0.71
43 14 0.25
44 2 0.04
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (42 bp):
AAATAATAATAAATACATATATATAATAATATATAAATAGAT
Found at i:23485840 original size:2 final size:2
Alignment explanation
Indices: 23485833--23485861 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23485823 AAGGAACATT
23485833 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23485862 CTTCTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23486912 original size:14 final size:14
Alignment explanation
Indices: 23486893--23486923 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23486883 GTTTGCTTTA
23486893 AATTTTTTATTTTT
1 AATTTTTTATTTTT
23486907 AATTTTTTATTTTT
1 AATTTTTTATTTTT
23486921 AAT
1 AAT
23486924 CTTCCTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
AATTTTTTATTTTT
Found at i:23487222 original size:22 final size:24
Alignment explanation
Indices: 23487197--23487243 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
23487187 TTATGTCATA
*
23487197 TTAATA-TATTGT-TTTATTTTTT
1 TTAATATTATTCTATTTATTTTTT
23487219 TTAATATTATTCTCATTTATTTTTT
1 TTAATATTATTCT-ATTTATTTTTT
23487244 CTCTCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 5 0.24
25 10 0.48
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (24 bp):
TTAATATTATTCTATTTATTTTTT
Found at i:23488284 original size:28 final size:28
Alignment explanation
Indices: 23488253--23488306 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
23488243 AATAGTCTTT
23488253 AAAAAAATTATCAAATAATACACTAATA
1 AAAAAAATTATCAAATAATACACTAATA
23488281 AAAAAAATTATCAAATAATACACTAA
1 AAAAAAATTATCAAATAATACACTAA
23488307 CAGTGAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (28 bp):
AAAAAAATTATCAAATAATACACTAATA
Found at i:23502156 original size:3 final size:3
Alignment explanation
Indices: 23502150--23502175 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23502140 TTATTATATT
23502150 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
23502176 TATTATATTA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:23502180 original size:3 final size:3
Alignment explanation
Indices: 23502174--23502210 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
23502164 AATAATAATA
23502174 ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23502211 AAGTAGCAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23506841 original size:19 final size:18
Alignment explanation
Indices: 23506817--23506859 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
23506807 CCTTTCTCTA
*
23506817 TTATTTCACTTTTATATGT
1 TTATTTCA-TTTTATATAT
* *
23506836 TTATTTTATTTTGTATAT
1 TTATTTCATTTTATATAT
23506854 TTATTT
1 TTATTT
23506860 GTGAGTGTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
TTATTTCATTTTATATAT
Found at i:23521225 original size:14 final size:14
Alignment explanation
Indices: 23521205--23521258 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
23521195 TAAATATTAA
23521205 TTTTAATA-AATTT
1 TTTTAATATAATTT
23521218 TATTTAATATAATTT
1 T-TTTAATATAATTT
23521233 TTTT-AT-TACA-TT
1 TTTTAATATA-ATTT
23521245 TTTTAATTATAATT
1 TTTTAA-TATAATT
23521259 ATAATAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
12 8 0.24
13 5 0.15
14 12 0.35
15 9 0.26
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTAATATAATTT
Found at i:23521240 original size:37 final size:38
Alignment explanation
Indices: 23521199--23521283 Score: 90
Period size: 36 Copynumber: 2.3 Consensus size: 38
23521189 TGAATTTAAA
* *
23521199 TATTAATTTTAATAAATTTTATTTA-ATATAATTTTT-T
1 TATTAATTTTAATAAATTATAATTATA-ATAATTTTTAT
*
23521236 TATTACATTTT--TTAATTATAATTATAATAATTTTTAT
1 TATTA-ATTTTAATAAATTATAATTATAATAATTTTTAT
23521273 TATT-ATTTTAA
1 TATTAATTTTAA
23521284 AATTGAGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
35 5 0.12
36 19 0.47
37 11 0.28
38 5 0.12
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (38 bp):
TATTAATTTTAATAAATTATAATTATAATAATTTTTAT
Found at i:23526224 original size:4 final size:4
Alignment explanation
Indices: 23526215--23526254 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
23526205 CTAACTTAAG
*
23526215 TAAA TAAA TAAA TAAA TAAA TAAA TAAA CAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
23526255 AATGTTAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:23527091 original size:32 final size:32
Alignment explanation
Indices: 23527050--23527119 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
23527040 GTCAGATTTG
*
23527050 CAGTTAAAGGTTTAATACAACAAATAAATTGT
1 CAGTTAAAGGTTTAATACAAAAAATAAATTGT
23527082 CAGTTAAAGGTTTAATACAAAAAATAAATTGT
1 CAGTTAAAGGTTTAATACAAAAAATAAATTGT
*
23527114 CGGTTA
1 CAGTTA
23527120 GCTTTGAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (32 bp):
CAGTTAAAGGTTTAATACAAAAAATAAATTGT
Found at i:23532368 original size:19 final size:19
Alignment explanation
Indices: 23532346--23532399 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
23532336 ATAAAAGTTT
*
23532346 AATTATTTAA-AATTTATAA
1 AATTATTAAATAATTTA-AA
*
23532365 AATTAATAAATAATTTAAA
1 AATTATTAAATAATTTAAA
*
23532384 AATTATTAAATTATTT
1 AATTATTAAATAATTT
23532400 TATATCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 24 0.80
20 6 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTATTAAATAATTTAAA
Found at i:23536509 original size:19 final size:19
Alignment explanation
Indices: 23536482--23536518 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23536472 TGTGAAAAGA
*
23536482 GTTACATTTAATCACAATC
1 GTTAAATTTAATCACAATC
*
23536501 GTTAAATTTGATCACAAT
1 GTTAAATTTAATCACAAT
23536519 TGCAATGACA
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:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
GTTAAATTTAATCACAATC
Found at i:23536787 original size:1 final size:1
Alignment explanation
Indices: 23536781--23536809 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
23536771 CCTAACTTTG
23536781 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23536810 GTTTCGAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:23545730 original size:21 final size:21
Alignment explanation
Indices: 23545706--23545753 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
23545696 AGTAAATTTA
*
23545706 AAATTTTGAAATCT-TAAAAAT
1 AAATTTT-AAATATATAAAAAT
*
23545727 AAATATTTAATTATATAAAAAT
1 AAAT-TTTAAATATATAAAAAT
23545749 AAATT
1 AAATT
23545754 AATAAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATTTTAAATATATAAAAAT
Found at i:23546860 original size:36 final size:36
Alignment explanation
Indices: 23546814--23546890 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
23546804 TAAGAAAAAA
23546814 AATC-CAACCACGTGGCTTTATCATTTAGATACCCT
1 AATCACAACCACGTGGCTTTATCATTTAGATACCCT
* *
23546849 AATCACAACCACGTGGCTTTATCTTTTAGATGCCCT
1 AATCACAACCACGTGGCTTTATCATTTAGATACCCT
*
23546885 TATCAC
1 AATCAC
23546891 CATTTTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 4 0.11
36 34 0.89
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (36 bp):
AATCACAACCACGTGGCTTTATCATTTAGATACCCT
Found at i:23550508 original size:2 final size:2
Alignment explanation
Indices: 23550503--23550542 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23550493 ATATATATAT
23550503 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23550543 GGCAAACGAG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23553384 original size:44 final size:44
Alignment explanation
Indices: 23553316--23553428 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
23553306 AGCTCCTCTC
* * * * *
23553316 AACAGA-GCTAAAAAACTTTCAAAAAAT-AAATATAGCTTCTCTA
1 AACAGAGGCTCAACAACTTTTAAAAAATAAAAAATA-CTTATCTA
* * * *
23553359 AATAGAGGCTCAACGACTTTTAAAAAATAAAAAATATTTATTTA
1 AACAGAGGCTCAACAACTTTTAAAAAATAAAAAATACTTATCTA
23553403 AACAGAGGCTCAACAACTTTTAAAAA
1 AACAGAGGCTCAACAACTTTTAAAAA
23553429 TAAGTAAGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
43 5 0.09
44 46 0.81
45 6 0.11
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (44 bp):
AACAGAGGCTCAACAACTTTTAAAAAATAAAAAATACTTATCTA
Found at i:23553446 original size:43 final size:44
Alignment explanation
Indices: 23553399--23553484 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
23553389 AAAATATTTA
* *
23553399 TTTAAACAGAGGCT-CAACAACTTTT-AAAAATAAGTAAGGCTCT
1 TTTAAACAAAGG-TGCAACAACTTTTGAAAAATAAATAAGGCTCT
**
23553442 TTTAAACAAAGGTGCAATGACTTTTGAAAAATAAATAAGGCTC
1 TTTAAACAAAGGTGCAACAACTTTTGAAAAATAAATAAGGCTC
23553485 ATTTCCTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.03
43 20 0.54
44 16 0.43
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (44 bp):
TTTAAACAAAGGTGCAACAACTTTTGAAAAATAAATAAGGCTCT
Found at i:23553482 original size:44 final size:45
Alignment explanation
Indices: 23553399--23553532 Score: 137
Period size: 49 Copynumber: 2.9 Consensus size: 45
23553389 AAAATATTTA
* * ** *
23553399 TTTAAACAGAGGCTCAACAACTTTTAAAAATAAGTAAGGCTC-T-
1 TTTAAACAAAGGCGCAATGACTTTTAAAAATAAATAAGGCTCTTC
*
23553442 TTTAAACAAAGGTGCAATGACTTTTGAAAAATAAATAAGGCTCATTTCC
1 TTTAAACAAAGGCGCAATGACTTTT-AAAAATAAATAAGGCTC--TT-C
* * *
23553491 TTTAAATAGAGGCGTAATGACTTTTAAAAATAAATAAGGCTC
1 TTTAAACAAAGGCGCAATGACTTTTAAAAATAAATAAGGCTC
23553533 CTCTAAGCAG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
43 20 0.27
44 16 0.21
47 1 0.01
48 17 0.23
49 21 0.28
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (45 bp):
TTTAAACAAAGGCGCAATGACTTTTAAAAATAAATAAGGCTCTTC
Found at i:23553560 original size:44 final size:43
Alignment explanation
Indices: 23553337--23553572 Score: 145
Period size: 44 Copynumber: 5.3 Consensus size: 43
23553327 AAAACTTTCA
* * * * *
23553337 AAAAATAAATATA-GCTTCTCTAAATAGAGGCTCAACGACTTTT
1 AAAAATAAATA-AGGCTCCTTTAAACAGAAGCTCAATGACTTTT
* *** ** * **
23553380 AAAAAATAAAAAATATTTATTTAAACAGAGGCTCAACAACTTTT
1 -AAAAATAAATAAGGCTCCTTTAAACAGAAGCTCAATGACTTTT
* * *
23553424 AAAAATAAGTAAGGCTCTTTTAAACA-AAGGTGCAATGACTTTT
1 AAAAATAAATAAGGCTCCTTTAAACAGAAGCT-CAATGACTTTT
* *
23553467 GAAAAATAAATAAGGCTCATTTCCTTTAAATAGAGGCGT-AATGACTTTT
1 -AAAAATAAATAAGG--C---TCCTTTAAACAGAAGC-TCAATGACTTTT
* *
23553516 AAAAATAAATAAGGCTCCTCTAAGCAGAAGCTCAATGACCTTTT
1 AAAAATAAATAAGGCTCCTTTAAACAGAAGCTCAATGA-CTTTT
*
23553560 AAAAGTAATATAA
1 AAAAATAA-ATAA
23553573 AAAACTTTTT
Statistics
Matches: 151, Mismatches: 28, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
42 4 0.03
43 46 0.30
44 59 0.39
45 4 0.03
46 2 0.01
48 14 0.09
49 19 0.13
50 2 0.01
51 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (43 bp):
AAAAATAAATAAGGCTCCTTTAAACAGAAGCTCAATGACTTTT
Found at i:23556532 original size:105 final size:105
Alignment explanation
Indices: 23556345--23556553 Score: 301
Period size: 105 Copynumber: 2.0 Consensus size: 105
23556335 CAGAGAGATT
* * * *
23556345 AAAATTACCTTAATTTCATGCCCTAAGGTATTGGCAGATCTATCAAACTACATTTTCTAACACTT
1 AAAAATACCTTAATTTCATGCCCCAAGGCATTAGCAGATCTATCAAACTACATTTTCTAACACTT
* * * *
23556410 TTTATAATGTTTTTCTTTTTCAAATTGGGAAATAGTCATA
66 CTTATAATGTCTTTCTTTTTCAAATTAGAAAATAGTCATA
* * *
23556450 AAAAATACCTTAATTTCATGCCCCAAGGCATTAGCAGCTCTATCAAAGTATATTTTCTAACACTT
1 AAAAATACCTTAATTTCATGCCCCAAGGCATTAGCAGATCTATCAAACTACATTTTCTAACACTT
* *
23556515 CTTATCATGTCTTTCTTTTTCAAGTTAGAAAATAGTCAT
66 CTTATAATGTCTTTCTTTTTCAAATTAGAAAATAGTCAT
23556554 CAAATTTTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 91 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (105 bp):
AAAAATACCTTAATTTCATGCCCCAAGGCATTAGCAGATCTATCAAACTACATTTTCTAACACTT
CTTATAATGTCTTTCTTTTTCAAATTAGAAAATAGTCATA
Found at i:23556846 original size:24 final size:24
Alignment explanation
Indices: 23556818--23556863 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
23556808 AAAAAATATA
23556818 AAGAGTTTAAGTAGGATTAAAATT
1 AAGAGTTTAAGTAGGATTAAAATT
* *
23556842 AAGAGTTTAGGTGGGATTAAAA
1 AAGAGTTTAAGTAGGATTAAAA
23556864 ATTGAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.30
Consensus pattern (24 bp):
AAGAGTTTAAGTAGGATTAAAATT
Found at i:23557805 original size:60 final size:58
Alignment explanation
Indices: 23557751--23557927 Score: 212
Period size: 59 Copynumber: 3.0 Consensus size: 58
23557741 TCAATGATCT
* * * *
23557751 CTTTAAAATGAAAATTTGAAAAAAATATTTTTAA-AAGAAAGTTGAATGTATCAATTTC
1 CTTTAAAATAAAAATTTTAAAAAAATATTTTTAAGGA-AAAGTTGAAAGTATCAATTTC
* * *
23557809 CTTTGAATATAAAAATTTTAAAAATATATTTTTGAGGAAAAGTTGAAAGTTATCAATTTCC
1 CTTT-AAAATAAAAATTTTAAAAAAATATTTTTAAGGAAAAGTTGAAAG-TATCAATTT-C
* * *
23557870 CTTGAAAATAAAAATTTTTCAAAAAATATTTTCAAGGAAAAGTTGAAAGTATCAATTT
1 CTTTAAAATAAAAA-TTTTAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTT
23557928 TTCTTATGTA
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
58 4 0.04
59 35 0.35
60 28 0.28
61 34 0.34
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (58 bp):
CTTTAAAATAAAAATTTTAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTC
Found at i:23559133 original size:18 final size:18
Alignment explanation
Indices: 23559090--23559146 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
23559080 TGTGCATCTG
23559090 CATTTTATGTATCATTTT
1 CATTTTATGTATCATTTT
* *
23559108 TATATTATGATATCA-TTT
1 CATTTTATG-TATCATTTT
*
23559126 CATTTTATGCATCATTTT
1 CATTTTATGTATCATTTT
23559144 CAT
1 CAT
23559147 GATCATGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 4 0.12
18 23 0.72
19 5 0.16
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.56
Consensus pattern (18 bp):
CATTTTATGTATCATTTT
Found at i:23561684 original size:15 final size:13
Alignment explanation
Indices: 23561658--23561702 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
23561648 AAAAGGTCTC
23561658 AAAGAAAAAAAGA
1 AAAGAAAAAAAGA
23561671 AAAGCAAAATAAAGA
1 AAAG-AAAA-AAAGA
*
23561686 AAAGAGAGAAAAGA
1 AAAGA-AAAAAAGA
23561700 AAA
1 AAA
23561703 ATGCCACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 4 0.14
14 13 0.46
15 11 0.39
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAGAAAAAAAGA
Found at i:23561703 original size:24 final size:23
Alignment explanation
Indices: 23561658--23561704 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
23561648 AAAAGGTCTC
*
23561658 AAAGAAAAAAAGAAAAGCAAAAT
1 AAAGAAAAAAAGAAAAGAAAAAT
*
23561681 AAAGAAAAGAGAGAAAAGAAAAAT
1 AAAGAAAA-AAAGAAAAGAAAAAT
23561705 GCCACAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (23 bp):
AAAGAAAAAAAGAAAAGAAAAAT
Found at i:23562060 original size:8 final size:8
Alignment explanation
Indices: 23562047--23562102 Score: 62
Period size: 9 Copynumber: 6.9 Consensus size: 8
23562037 TCAATAATAG
23562047 AAAAAAAT
1 AAAAAAAT
23562055 -AAAAAAT
1 AAAAAAAT
23562062 -AAAAAAT
1 AAAAAAAT
23562069 AAAAAAAT
1 AAAAAAAT
*
23562077 AGAAAAGAT
1 A-AAAAAAT
23562086 GAAAAAAAT
1 -AAAAAAAT
23562095 AGAAAAAA
1 A-AAAAAA
23562103 AAGACTCAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
7 14 0.33
8 9 0.21
9 18 0.43
10 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:23562092 original size:18 final size:16
Alignment explanation
Indices: 23562042--23562101 Score: 77
Period size: 18 Copynumber: 3.6 Consensus size: 16
23562032 AGATATCAAT
*
23562042 AATAGAAAAAAATAAAA
1 AATAGAAAAATA-AAAA
23562059 AATA-AAAAATAAAAA
1 AATAGAAAAATAAAAA
23562074 AATAGAAAAGATGAAAAA
1 AATAGAAAA-AT-AAAAA
23562092 AATAGAAAAA
1 AATAGAAAAA
23562102 AAAGACTCAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 8 0.21
16 10 0.26
17 7 0.18
18 14 0.36
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (16 bp):
AATAGAAAAATAAAAA
Found at i:23562100 original size:7 final size:7
Alignment explanation
Indices: 23562048--23562074 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23562038 CAATAATAGA
23562048 AAAAAAT
1 AAAAAAT
23562055 AAAAAAT
1 AAAAAAT
23562062 AAAAAAT
1 AAAAAAT
23562069 AAAAAA
1 AAAAAA
23562075 ATAGAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:23562992 original size:23 final size:23
Alignment explanation
Indices: 23562966--23563009 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
23562956 AAAGCCTATG
23562966 AATGATAATCAAGTGATGAAAAC
1 AATGATAATCAAGTGATGAAAAC
* *
23562989 AATGATGATCAATTGATGAAA
1 AATGATAATCAAGTGATGAAA
23563010 CTTGTTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (23 bp):
AATGATAATCAAGTGATGAAAAC
Found at i:23563607 original size:22 final size:23
Alignment explanation
Indices: 23563579--23563621 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
23563569 TATTGGAAAA
23563579 GAATCTTGCA-AT-TTGCAAATGC
1 GAATCTTG-AGATCTTGCAAATGC
23563601 GAATCTTGAGATCTTGCAAAT
1 GAATCTTGAGATCTTGCAAAT
23563622 TTGAATCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.05
22 10 0.53
23 8 0.42
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (23 bp):
GAATCTTGAGATCTTGCAAATGC
Found at i:23563849 original size:41 final size:41
Alignment explanation
Indices: 23563781--23564119 Score: 408
Period size: 41 Copynumber: 8.3 Consensus size: 41
23563771 GACTCCTTCA
*
23563781 TTTAGATGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
1 TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
* * * * *
23563822 TTTAAAGGAGCAATTTATTTTTTAAAGTTTTAGTGCCTTTG
1 TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
* * ** *
23563863 TTTAGAGGAGTATTTTATTTTTCAAAGTTGTAATGCCTCTA
1 TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
* **
23563904 TTTAGAGGAGCAATTTATTTTTGAAAGTTGTAATGCCTCTG
1 TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
*
23563945 TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
1 TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
* * * *
23563986 TTTAGAGGAGTAATTTATTTTTTAAAGTTGTGATGCTTCTG
1 TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
* * *
23564027 TTTAGAGAAACAATTTATTTTTCAAAGTTGTGGTGCCTCTA
1 TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
* * * * * * *
23564068 TTTAGATGAACATTTTATTTTTCAAAGTCGTTGAGCCTTTG
1 TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
*
23564109 ATTAGAGGAGC
1 TTTAGAGGAGC
23564120 TTTGTTTACT
Statistics
Matches: 253, Mismatches: 45, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 253 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (41 bp):
TTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTG
Found at i:23565226 original size:15 final size:15
Alignment explanation
Indices: 23565206--23565238 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
23565196 TAATGATTTC
23565206 TTTAAAATAAAA-ATT
1 TTTAAAA-AAAATATT
23565221 TTTAAAAAAAATATT
1 TTTAAAAAAAATATT
23565236 TTT
1 TTT
23565239 GACGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAAAAAAAATATT
Found at i:23565274 original size:61 final size:61
Alignment explanation
Indices: 23565202--23565340 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 61
23565192 TTTTTAATGA
* * * **
23565202 TTTCTTTAAAATAAAAATTTTTA-AAAAAAATATTTTTGACGAAAAA-TTGAAAGTATTAATT
1 TTTCTTAAAAATAAAAATTTTCAGAAAAAAAT-TTCTTGA-GAAAAAGTTGAAAGTACGAATT
* ** *
23565263 TTTCTTGAAAAT-AAAATTTTCAGAAAAGCATTTCTTGAGAAAAAGTTGGAAGTACGAATT
1 TTTCTTAAAAATAAAAATTTTCAGAAAAAAATTTCTTGAGAAAAAGTTGAAAGTACGAATT
*
23565323 TTTTTTAAAAATAAAAAT
1 TTTCTTAAAAATAAAAAT
23565341 GTCAAAAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
59 6 0.09
60 37 0.57
61 22 0.34
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (61 bp):
TTTCTTAAAAATAAAAATTTTCAGAAAAAAATTTCTTGAGAAAAAGTTGAAAGTACGAATT
Found at i:23565379 original size:56 final size:60
Alignment explanation
Indices: 23565242--23565384 Score: 161
Period size: 60 Copynumber: 2.5 Consensus size: 60
23565232 TATTTTTGAC
* * * * * *
23565242 GAAAAA-TTGAAAGTATTAATTTTTCTTGAAAATAAAATTTTCAGAAAAGCATTTCTTGA
1 GAAAAAGTTGAAAGTATTAATTTTTTTTAAAAATAAAAATGTCAGAAAAGCATCTCTTAA
* ** *
23565301 GAAAAAGTTGGAAGTACGAATTTTTTTTAAAAATAAAAATGTCA-AAAA-TA-CT-TTAA
1 GAAAAAGTTGAAAGTATTAATTTTTTTTAAAAATAAAAATGTCAGAAAAGCATCTCTTAA
23565357 GAAAAAGTTGAAAGTATTAATTTTTTTT
1 GAAAAAGTTGAAAGTATTAATTTTTTTT
23565385 TATGTAAAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
56 28 0.40
57 1 0.01
58 1 0.01
59 10 0.14
60 30 0.43
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (60 bp):
GAAAAAGTTGAAAGTATTAATTTTTTTTAAAAATAAAAATGTCAGAAAAGCATCTCTTAA
Found at i:23584305 original size:21 final size:21
Alignment explanation
Indices: 23584281--23584320 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23584271 AGAATAATTT
* *
23584281 TAAATCAAATAATATTATAAA
1 TAAAACAAATAATAATATAAA
*
23584302 TAAAAGAAATAATAATATA
1 TAAAACAAATAATAATATA
23584321 TCAAAGATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAAACAAATAATAATATAAA
Found at i:23584413 original size:17 final size:19
Alignment explanation
Indices: 23584393--23584431 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
23584383 TATTTTTGTA
*
23584393 TTTAAATAAAT-TTTA-TT
1 TTTAAAAAAATATTTAGTT
23584410 TTTAAAAAAATATTTAGTT
1 TTTAAAAAAATATTTAGTT
23584429 TTT
1 TTT
23584432 GGTATATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 4 0.21
19 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTAAAAAAATATTTAGTT
Found at i:23586599 original size:18 final size:20
Alignment explanation
Indices: 23586576--23586616 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
23586566 TTTATATATA
*
23586576 TTTAATAA-ATTAATTTT-T
1 TTTAATAATATAAATTTTAT
23586594 TTTAATAATATAAATTTTAT
1 TTTAATAATATAAATTTTAT
23586614 TTT
1 TTT
23586617 TAGATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAATAATATAAATTTTAT
Found at i:23588752 original size:14 final size:14
Alignment explanation
Indices: 23588735--23588789 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
23588725 ATTATTGTAA
23588735 TATAATTTATTAAT
1 TATAATTTATTAAT
*
23588749 TATAATTTTATTATTGTAA
1 TATAA-TTTATTA----AT
23588768 TATAATTTATTAAT
1 TATAATTTATTAAT
23588782 TATAATTT
1 TATAATTT
23588790 TATATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
15 7 0.21
18 7 0.21
19 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TATAATTTATTAAT
Found at i:23588763 original size:33 final size:33
Alignment explanation
Indices: 23588725--23588792 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
23588715 TATTTTTATA
23588725 ATTATTGTAATATAATTTATTAATTATAATTTT
1 ATTATTGTAATATAATTTATTAATTATAATTTT
23588758 ATTATTGTAATATAATTTATTAATTATAATTTT
1 ATTATTGTAATATAATTTATTAATTATAATTTT
23588791 AT
1 AT
23588793 ATTATATGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (33 bp):
ATTATTGTAATATAATTTATTAATTATAATTTT
Found at i:23588771 original size:19 final size:18
Alignment explanation
Indices: 23588725--23588779 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
23588715 TATTTTTATA
23588725 ATTATTGTAATATAATTT
1 ATTATTGTAATATAATTT
* *
23588743 ATTAAT-T-ATA-ATTTT
1 ATTATTGTAATATAATTT
23588758 ATTATTGTAATATAATTT
1 ATTATTGTAATATAATTT
23588776 ATTA
1 ATTA
23588780 ATTATAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 9 0.30
16 4 0.13
17 4 0.13
18 13 0.43
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
ATTATTGTAATATAATTT
Found at i:23588787 original size:19 final size:19
Alignment explanation
Indices: 23588732--23588787 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
23588722 ATAATTATTG
23588732 TAATATAATTTATTAATTA
1 TAATATAATTTATTAATTA
*
23588751 T-A-AT--TTTATT-ATTG
1 TAATATAATTTATTAATTA
23588765 TAATATAATTTATTAATTA
1 TAATATAATTTATTAATTA
23588784 TAAT
1 TAAT
23588788 TTTATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 2 0.07
17 2 0.07
18 7 0.23
19 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TAATATAATTTATTAATTA
Found at i:23593675 original size:10 final size:10
Alignment explanation
Indices: 23593659--23593695 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
23593649 AATCAAATGT
23593659 TTATATTTTA
1 TTATATTTTA
*
23593669 ATATATTTTA
1 TTATATTTTA
23593679 TTATTATTTTA
1 TTA-TATTTTA
23593690 TTATAT
1 TTATAT
23593696 AAATTAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATATTTTA
Found at i:23601211 original size:128 final size:128
Alignment explanation
Indices: 23601048--23601297 Score: 437
Period size: 128 Copynumber: 2.0 Consensus size: 128
23601038 TGTTTGAAAT
* *
23601048 AAGGGTTTATTTAAATATAAATTAAAGAATTAAAACTTATATGGATATAATAAAAAAATAGGACT
1 AAGGATTTATTTAAATATAAATTAAAGAATAAAAACTTATATGGATATAATAAAAAAATAGGACT
**
23601113 TATTTGAAAGTAGTGAAATAGTTCAAGAATTTTTTTAGTATTTTAGTCATAATCAAACAAAAC
66 TATTTGAAAAAAGTGAAATAGTTCAAGAATTTTTTTAGTATTTTAGTCATAATCAAACAAAAC
*
23601176 AAGGATTTATTTAAATATAAATTAAAGAATAAAAACTTATATGGATATAATAAAAATATAGGACT
1 AAGGATTTATTTAAATATAAATTAAAGAATAAAAACTTATATGGATATAATAAAAAAATAGGACT
* *
23601241 TATTTGAAAAAAGTGAAATAGTTCAATAATTTTTTTAGTATTTTAGTCTTAATCAAA
66 TATTTGAAAAAAGTGAAATAGTTCAAGAATTTTTTTAGTATTTTAGTCATAATCAAA
23601298 TGAATCAATC
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 115 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (128 bp):
AAGGATTTATTTAAATATAAATTAAAGAATAAAAACTTATATGGATATAATAAAAAAATAGGACT
TATTTGAAAAAAGTGAAATAGTTCAAGAATTTTTTTAGTATTTTAGTCATAATCAAACAAAAC
Found at i:23601327 original size:128 final size:128
Alignment explanation
Indices: 23601060--23601324 Score: 386
Period size: 128 Copynumber: 2.1 Consensus size: 128
23601050 GGGTTTATTT
* **
23601060 AAATATAAATTAAAGAATTAAAACTTATATGGATATAATAAAAAAATAGGACTTATTTGAAAGTA
1 AAATATAAATTAAAGAATAAAAACTTATATGGATATAATAAAAAAATAGGACTTATTTGAAAAAA
** ** * *
23601125 GTGAAATAGTTCAAGAATTTTTTTAGTATTTTAGTCATAATCAAACAAAACAAGGATTTATTT
66 GTGAAATAGTTCAAGAATTTTTTTAGTATTTTAGTCATAATCAAACAAAACAACAATAAACTA
*
23601188 AAATATAAATTAAAGAATAAAAACTTATATGGATATAATAAAAATATAGGACTTATTTGAAAAAA
1 AAATATAAATTAAAGAATAAAAACTTATATGGATATAATAAAAAAATAGGACTTATTTGAAAAAA
* * ** *
23601253 GTGAAATAGTTCAATAATTTTTTTAGTATTTTAGTCTTAATCAAATGAATCAATCAATAAACTA
66 GTGAAATAGTTCAAGAATTTTTTTAGTATTTTAGTCATAATCAAACAAAACAA-CAATAAACTA
23601317 AAATATAA
1 AAATATAA
23601325 TTAGACAAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
128 109 0.90
129 12 0.10
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (128 bp):
AAATATAAATTAAAGAATAAAAACTTATATGGATATAATAAAAAAATAGGACTTATTTGAAAAAA
GTGAAATAGTTCAAGAATTTTTTTAGTATTTTAGTCATAATCAAACAAAACAACAATAAACTA
Found at i:23602735 original size:10 final size:10
Alignment explanation
Indices: 23602701--23602734 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
23602691 AGTTTAATTA
23602701 ATATAAGTA-
1 ATATAAGTAT
23602710 ATATAAGTAT
1 ATATAAGTAT
*
23602720 ATATATGTAT
1 ATATAAGTAT
23602730 ATATA
1 ATATA
23602735 TATATACTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (10 bp):
ATATAAGTAT
Found at i:23604570 original size:2 final size:2
Alignment explanation
Indices: 23604563--23604589 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23604553 TCACTACCCT
23604563 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
23604590 GGCCTTTCTC
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:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23608527 original size:2 final size:2
Alignment explanation
Indices: 23608520--23608547 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23608510 TGCTCCAAGG
23608520 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
23608548 CTCACGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23609883 original size:2 final size:2
Alignment explanation
Indices: 23609876--23609901 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23609866 CTTGCATTGA
23609876 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
23609902 TGAAGCTTTA
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:23612024 original size:41 final size:41
Alignment explanation
Indices: 23611979--23612057 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
23611969 TCGAGGGGTC
23611979 TTCAAATATAAGTTTGTAGTAGGCTTAATGAATCAAGAGAT
1 TTCAAATATAAGTTTGTAGTAGGCTTAATGAATCAAGAGAT
23612020 TTCAAATATAAGTTTGTAGTAGGCTTAATGAATCAAGA
1 TTCAAATATAAGTTTGTAGTAGGCTTAATGAATCAAGA
23612058 AACGCATTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (41 bp):
TTCAAATATAAGTTTGTAGTAGGCTTAATGAATCAAGAGAT
Found at i:23616634 original size:21 final size:20
Alignment explanation
Indices: 23616609--23616648 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
23616599 TCTCATACCT
*
23616609 TATATATATTTATATATTTAG
1 TATATAAATTTATAT-TTTAG
*
23616630 TATATAAATTTTTATTTTA
1 TATATAAATTTATATTTTA
23616649 AATTAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TATATAAATTTATATTTTAG
Found at i:23616693 original size:28 final size:28
Alignment explanation
Indices: 23616660--23616716 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
23616650 ATTAATTAAA
* *
23616660 ATTAATATAT-TTTGGTTAAAAAATATAT
1 ATTAATATATATTT-ATAAAAAAATATAT
23616688 ATTAATATATATTTATAAAAAAATATAT
1 ATTAATATATATTTATAAAAAAATATAT
23616716 A
1 A
23616717 AATATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATTAATATATATTTATAAAAAAATATAT
Found at i:23618295 original size:2 final size:2
Alignment explanation
Indices: 23618288--23618315 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23618278 TGAATGAAAC
23618288 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
23618316 GAATGATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23619351 original size:17 final size:18
Alignment explanation
Indices: 23619331--23619368 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
23619321 TCATATATTA
23619331 ATAAAATTTTTATAAAT-
1 ATAAAATTTTTATAAATG
23619348 AT-AAATTTTTATAAATG
1 ATAAAATTTTTATAAATG
23619365 ATAA
1 ATAA
23619369 TATAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 14 0.74
17 4 0.21
18 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
ATAAAATTTTTATAAATG
Found at i:23635544 original size:52 final size:52
Alignment explanation
Indices: 23635458--23635614 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
23635448 TATAACCATA
* * * *
23635458 CAAACTTACCCATTAAGAATCTCTCTCCTCTTAAAATTTTTCTTTTGTAAGT
1 CAAACTTACCTATTAAGAATCTCTTTCCTCTTAAAATTATTCTTTTGCAAGT
* * *
23635510 CAAACTTATCTATTAAGAATCTCTTTCCTTTTAAAATTATTCTGTTGCAAGT
1 CAAACTTACCTATTAAGAATCTCTTTCCTCTTAAAATTATTCTTTTGCAAGT
* * *
23635562 CAAACTTACCTATTAAGAATCAT-TTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATC-TCTTTCCTCTTAAAATTATTCTTTTGCAAGT
23635614 C
1 C
23635615 TTCTTGTCTA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 90 0.99
53 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.43
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTCTTTCCTCTTAAAATTATTCTTTTGCAAGT
Found at i:23635656 original size:11 final size:11
Alignment explanation
Indices: 23635640--23635682 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
23635630 TAATATCTGG
23635640 ACAAATCTCAA
1 ACAAATCTCAA
*
23635651 ACAAATCTCTA
1 ACAAATCTCAA
*
23635662 ACAAATCTTAA
1 ACAAATCTCAA
23635673 ACAAAATCTC
1 AC-AAATCTC
23635683 TTATGTGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 21 0.78
12 6 0.22
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:23635665 original size:22 final size:23
Alignment explanation
Indices: 23635640--23635683 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
23635630 TAATATCTGG
23635640 ACAAATCTCAAAC-AAATCTCTA
1 ACAAATCTCAAACAAAATCTCTA
*
23635662 ACAAATCTTAAACAAAATCTCT
1 ACAAATCTCAAACAAAATCTCT
23635684 TATGTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (23 bp):
ACAAATCTCAAACAAAATCTCTA
Found at i:23636630 original size:5 final size:5
Alignment explanation
Indices: 23636616--23636670 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
23636606 AATTATCTAT
* * * *
23636616 TTTTA TTTTTA TTTTA TATTA TTTTA --TTA TTTTA GTTTG TATTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
23636665 TTTTA T
1 TTTTA T
23636671 CATTTTTGGT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
3 3 0.08
5 31 0.79
6 5 0.13
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:23636658 original size:23 final size:23
Alignment explanation
Indices: 23636622--23636666 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23636612 CTATTTTTAT
*
23636622 TTTTATTTTATATTATTTTATTA
1 TTTTAGTTTATATTATTTTATTA
*
23636645 TTTTAGTTTGTATTATTTTATT
1 TTTTAGTTTATATTATTTTATT
23636667 TTATCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTAGTTTATATTATTTTATTA
Found at i:23636797 original size:24 final size:26
Alignment explanation
Indices: 23636754--23636801 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
23636744 TTATCAAATT
*
23636754 AGGTAATAACAAATATAATAAAAACA
1 AGGTAATAACAAATAAAATAAAAACA
23636780 AGGTAA-AA-AAATAAAATAAAAA
1 AGGTAATAACAAATAAAATAAAAA
23636802 AATAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 2 0.10
26 6 0.29
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.17
Consensus pattern (26 bp):
AGGTAATAACAAATAAAATAAAAACA
Found at i:23636799 original size:13 final size:13
Alignment explanation
Indices: 23636783--23636807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23636773 AAAAACAAGG
23636783 TAAAAAAATAAAA
1 TAAAAAAATAAAA
23636796 TAAAAAAATAAA
1 TAAAAAAATAAA
23636808 GATTCTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:23637862 original size:8 final size:8
Alignment explanation
Indices: 23637844--23637872 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23637834 TTTTCAATGC
23637844 AAAAATA-
1 AAAAATAT
23637851 AAAAATAT
1 AAAAATAT
23637859 AAAAATAT
1 AAAAATAT
23637867 AAAAAT
1 AAAAAT
23637873 TTTAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:23638037 original size:34 final size:34
Alignment explanation
Indices: 23637998--23638067 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
23637988 AAATGGTGAA
23637998 ATAATTTAGATGAAATTTCAATAAAAGTAATTGT
1 ATAATTTAGATGAAATTTCAATAAAAGTAATTGT
23638032 ATAATTTAGATGAAATTTCAATAAAAGTAATTGT
1 ATAATTTAGATGAAATTTCAATAAAAGTAATTGT
23638066 AT
1 AT
23638068 CTTTTTTCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (34 bp):
ATAATTTAGATGAAATTTCAATAAAAGTAATTGT
Found at i:23640077 original size:2 final size:2
Alignment explanation
Indices: 23640072--23640101 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23640062 AAAATGGGGA
23640072 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23640102 GATACGGATT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23640967 original size:16 final size:18
Alignment explanation
Indices: 23640946--23640992 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 18
23640936 ATTATCAAAA
23640946 AATTAAAAAAT-AAAC-T
1 AATTAAAAAATAAAACAT
*
23640962 AATTAACAAATCAAAACAT
1 AATTAAAAAAT-AAAACAT
23640981 AATTAAATAAAT
1 AATTAAA-AAAT
23640993 CGAACGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 10 0.40
18 4 0.16
19 7 0.28
20 4 0.16
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AATTAAAAAATAAAACAT
Found at i:23647697 original size:4 final size:4
Alignment explanation
Indices: 23647688--23647717 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
23647678 TTCTGTCTTT
23647688 AAAG AAAG AAAG AAAG AAAG AAA- AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
23647718 AATTAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:23648351 original size:7 final size:7
Alignment explanation
Indices: 23648339--23648374 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
23648329 TTGTATGAAA
23648339 CCAAGGC
1 CCAAGGC
23648346 CCAAGGC
1 CCAAGGC
23648353 CCAAGGC
1 CCAAGGC
*
23648360 CCAAGTC
1 CCAAGGC
23648367 CCAAGGC
1 CCAAGGC
23648374 C
1 C
23648375 GAAAACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.28, C:0.44, G:0.25, T:0.03
Consensus pattern (7 bp):
CCAAGGC
Found at i:23649017 original size:2 final size:2
Alignment explanation
Indices: 23649010--23649037 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23649000 TGAATAAAAT
23649010 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
23649038 TTTAAAAAAG
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23656540 original size:3 final size:3
Alignment explanation
Indices: 23656532--23656563 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
23656522 CATATTGCTA
*
23656532 AAT AAT AAT AAT AAT AAT AAT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23656564 AAAATAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:23676134 original size:195 final size:195
Alignment explanation
Indices: 23675802--23676193 Score: 757
Period size: 195 Copynumber: 2.0 Consensus size: 195
23675792 ACAAAATAGG
23675802 GCAGGTGTTCTATTGCTAAAGGCTATGTTTAAGATTGTATAGGCTAGAGCATGCTAATGCAATAG
1 GCAGGTGTTCTATTGCTAAAGGCTATGTTTAAGATTGTATAGGCTAGAGCATGCTAATGCAATAG
*
23675867 TTCTCCATAATGATGATGATAAGGGGTCCAAGAGGAATTATTTCATGATAGAAGTGGATGAGCCA
66 TTCTCCATAATGATGATGATAAGGGATCCAAGAGGAATTATTTCATGATAGAAGTGGATGAGCCA
23675932 GTGAGTGCATTGGTGATAGCATAAATGATTTTAAGTTAACTACTGCTCATATTGTTAATTGTCAA
131 GTGAGTGCATTGGTGATAGCATAAATGATTTTAAGTTAACTACTGCTCATATTGTTAATTGTCAA
* *
23675997 GCAGGTGTTCTATTGTTGAAGGCTATGTTTAAGATTGTATAGGCTAGAGCATGCTAATGCAATAG
1 GCAGGTGTTCTATTGCTAAAGGCTATGTTTAAGATTGTATAGGCTAGAGCATGCTAATGCAATAG
23676062 TTCTCCATAATGATGATGATAAGGGATCCAAGAGGAATTATTTCATGATAGAAGTGGATGAGCCA
66 TTCTCCATAATGATGATGATAAGGGATCCAAGAGGAATTATTTCATGATAGAAGTGGATGAGCCA
23676127 GTGAGTGCATTGGTGATAGCATAAATGATTTTAAGTTAACTACTGCTCATATTGTTAATTGTCAA
131 GTGAGTGCATTGGTGATAGCATAAATGATTTTAAGTTAACTACTGCTCATATTGTTAATTGTCAA
23676192 GC
1 GC
23676194 TAAGTTATGA
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
195 194 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (195 bp):
GCAGGTGTTCTATTGCTAAAGGCTATGTTTAAGATTGTATAGGCTAGAGCATGCTAATGCAATAG
TTCTCCATAATGATGATGATAAGGGATCCAAGAGGAATTATTTCATGATAGAAGTGGATGAGCCA
GTGAGTGCATTGGTGATAGCATAAATGATTTTAAGTTAACTACTGCTCATATTGTTAATTGTCAA
Found at i:23682315 original size:6 final size:6
Alignment explanation
Indices: 23682304--23682340 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
23682294 TGGAGAGAAG
*
23682304 AGTGAC AGTGAC AGTGAC AGTGAC AGTGAC TGTGAC A
1 AGTGAC AGTGAC AGTGAC AGTGAC AGTGAC AGTGAC A
23682341 CGCCTGGCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.19
Consensus pattern (6 bp):
AGTGAC
Found at i:23683574 original size:2 final size:2
Alignment explanation
Indices: 23683567--23683595 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23683557 GCTTCCACGC
23683567 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
23683596 TGAATGGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23684880 original size:69 final size:69
Alignment explanation
Indices: 23684769--23684906 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
23684759 ATGCACAGAA
23684769 TAATCAAACTTGGTTTTTCCAATGATGACATTAAAATTCTATTTCAATTTATGAAAGAATAATAA
1 TAATCAAACTTGGTTTTTCCAATGATGACATTAAAATTCTATTTCAATTTATGAAAGAATAATAA
23684834 TATC
66 TATC
*
23684838 TAATCAAACTTGGTTTTTCCAATGATGACTTTAAAATTCTATTTCAATTTATGAAAGAATAATAA
1 TAATCAAACTTGGTTTTTCCAATGATGACATTAAAATTCTATTTCAATTTATGAAAGAATAATAA
23684903 TATC
66 TATC
23684907 AAACAATGGA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (69 bp):
TAATCAAACTTGGTTTTTCCAATGATGACATTAAAATTCTATTTCAATTTATGAAAGAATAATAA
TATC
Found at i:23694931 original size:29 final size:30
Alignment explanation
Indices: 23694864--23694943 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
23694854 CTTTGTTGAT
*
23694864 TTAATATAATAAATAAATATTATTATACAA
1 TTAATATAATAAATAAATATAATTATACAA
* * **
23694894 TAAAT-TAATAAATAAATA-AATTTTATTA
1 TTAATATAATAAATAAATATAATTATACAA
23694922 TTAATATAATAAATAATATATA
1 TTAATATAATAAATAA-ATATA
23694944 TTAATATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
28 10 0.24
29 23 0.56
30 7 0.17
31 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
TTAATATAATAAATAAATATAATTATACAA
Found at i:23694937 original size:33 final size:33
Alignment explanation
Indices: 23694866--23694951 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 33
23694856 TTGTTGATTT
*
23694866 AATATAATAAATAAATATTATTATACAATAAATT
1 AATA-AATAAATAAATATTATTATACAATAAATA
* *
23694900 AATAAATAAATAAATTTTATTAT-TAATATAATA
1 AATAAATAAATAAATATTATTATACAATA-AATA
* *
23694933 AATAATATATATTAATATT
1 AATAA-ATAAATAAATATT
23694952 TTTAATGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
32 4 0.09
33 26 0.59
34 14 0.32
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (33 bp):
AATAAATAAATAAATATTATTATACAATAAATA
Found at i:23694945 original size:25 final size:24
Alignment explanation
Indices: 23694897--23694949 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
23694887 TATACAATAA
*
23694897 ATTAATAAATAAATAAATTTTATT
1 ATTAATAAATAAATAAATTATATT
23694921 ATTAATATAATAAAT-AA-TATA-T
1 ATTAATA-AATAAATAAATTATATT
23694943 ATTAATA
1 ATTAATA
23694950 TTTTTAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 3 0.11
24 9 0.33
25 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTAATAAATAAATAAATTATATT
Found at i:23694953 original size:36 final size:36
Alignment explanation
Indices: 23694864--23694939 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
23694854 CTTTGTTGAT
23694864 TTAATATAATAAATAAA---TATTATTATACAATAAA
1 TTAATA-AATAAATAAATTTTATTATTATACAATAAA
*
23694898 TTAATAAATAAATAAATTTTATTATTAATATAATAAA
1 TTAATAAATAAATAAATTTTATTATT-ATACAATAAA
23694935 -TAATA
1 TTAATA
23694940 TATATTAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
33 10 0.27
34 6 0.16
36 12 0.32
37 9 0.24
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (36 bp):
TTAATAAATAAATAAATTTTATTATTATACAATAAA
Found at i:23696121 original size:23 final size:23
Alignment explanation
Indices: 23696069--23696132 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
23696059 AATATTATTT
*
23696069 TTAA-TAAAA-ATATAAAATTAA
1 TTAATTAAAATATATATAATTAA
*
23696090 AT-ATATAAAATATATATAATTAA
1 TTAAT-TAAAATATATATAATTAA
*
23696113 TTAATTAAAATTTTATATAA
1 TTAATTAAAA-TATATATAA
23696133 ATATATATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 5 0.15
23 17 0.50
24 10 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAATTAAAATATATATAATTAA
Found at i:23701057 original size:2 final size:2
Alignment explanation
Indices: 23701050--23701080 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23701040 AATTGTGAGA
23701050 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 A
23701081 GATAAATAAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23701943 original size:2 final size:2
Alignment explanation
Indices: 23701936--23701969 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23701926 CAGATTTAAG
23701936 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
23701970 TGTGATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23704427 original size:19 final size:18
Alignment explanation
Indices: 23704395--23704433 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
23704385 CCGATTCAAG
**
23704395 TCTTTTTCTTATTTTCTTT
1 TCTTTTTCACATTTT-TTT
23704414 TCTTTTTCACATTTTTTT
1 TCTTTTTCACATTTTTTT
23704432 TC
1 TC
23704434 AAAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (18 bp):
TCTTTTTCACATTTTTTT
Found at i:23705492 original size:50 final size:50
Alignment explanation
Indices: 23705396--23705493 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 50
23705386 AAATCCAGTT
** ****
23705396 GTATCCCTATTGCAGCAAAGTGTATTCCTGGATTTTTTTTTTTTTTTTTG
1 GTATCCCTATTGCAGCAAAGTGTATTCCTGGATTTCCTGAAATTTTTTTG
* *
23705446 GTATCCCTATTGCAGCGAAGTTTATTCCTGGATTTCCTGAAATTTTTT
1 GTATCCCTATTGCAGCAAAGTGTATTCCTGGATTTCCTGAAATTTTTT
23705494 GACCAATCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (50 bp):
GTATCCCTATTGCAGCAAAGTGTATTCCTGGATTTCCTGAAATTTTTTTG
Found at i:23707661 original size:2 final size:2
Alignment explanation
Indices: 23707654--23707689 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23707644 CAAGGAAAAT
23707654 TA TA TA 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 TA TA TA
23707690 AAGACAGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23709928 original size:29 final size:28
Alignment explanation
Indices: 23709895--23709983 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 28
23709885 CTTTATTAAG
23709895 ATAAATTTTTATATTTTTATTATATCTAA
1 ATAAATTTTTA-ATTTTTATTATATCTAA
* *
23709924 ATAAATTTTTAATCTTTATTTTATACCTAA
1 ATAAATTTTTAAT-TTT-TATTATATCTAA
* ** *
23709954 ATAAATCTTTAAATTTAAATTTTATCTAA
1 ATAAAT-TTTTAATTTTTATTATATCTAA
23709983 A
1 A
23709984 CAAACTCTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
28 2 0.04
29 23 0.47
30 18 0.37
31 6 0.12
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (28 bp):
ATAAATTTTTAATTTTTATTATATCTAA
Found at i:23709954 original size:30 final size:28
Alignment explanation
Indices: 23709895--23709965 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 28
23709885 CTTTATTAAG
*
23709895 ATAAATTTTTATATTTTTATTATATCTAA
1 ATAAATTTTTA-ATTTTTATTATACCTAA
*
23709924 ATAAATTTTTAATCTTTATTTTATACCTAA
1 ATAAATTTTTAAT-TTT-TATTATACCTAA
*
23709954 ATAAATCTTTAA
1 ATAAATTTTTAA
23709966 ATTTAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.05
29 14 0.38
30 21 0.57
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (28 bp):
ATAAATTTTTAATTTTTATTATACCTAA
Found at i:23714769 original size:36 final size:36
Alignment explanation
Indices: 23714729--23714799 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
23714719 TAGCCTATTT
*
23714729 GAAGAAGTTGTGGAGAGCACTCAATGAAACCCATTC
1 GAAGAAGTTATGGAGAGCACTCAATGAAACCCATTC
* *
23714765 GAAGAAGTTATGGAGGGCACTCAATGGAACCCATT
1 GAAGAAGTTATGGAGAGCACTCAATGAAACCCATT
23714800 TTCAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (36 bp):
GAAGAAGTTATGGAGAGCACTCAATGAAACCCATTC
Found at i:23718781 original size:18 final size:18
Alignment explanation
Indices: 23718755--23718803 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
23718745 GATTGTTTAG
* *
23718755 AAAACATTTAATAAATAT
1 AAAAAATTTAATAAATAA
* * *
23718773 AAAATATTTATTACATAA
1 AAAAAATTTAATAAATAA
23718791 AAAAAATTTAATA
1 AAAAAATTTAATA
23718804 CGTTTGGACC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAAATTTAATAAATAA
Found at i:23733250 original size:2 final size:2
Alignment explanation
Indices: 23733245--23733332 Score: 176
Period size: 2 Copynumber: 44.0 Consensus size: 2
23733235 ATATATATAT
23733245 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23733287 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23733329 AG AG
1 AG AG
23733333 TTTTTTTTCC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23733559 original size:43 final size:43
Alignment explanation
Indices: 23733498--23733584 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
23733488 ATTTTCTTTG
* *
23733498 GATGAATAGATGGTCGCATTCAACACATGACTTTACGAATGAA
1 GATGAATAGATCGTCGCATTCAACACATGACTTTACAAATGAA
* *
23733541 GATGAATCGATCGTCGCATTCAACACATGACTTTGCAAATGAA
1 GATGAATAGATCGTCGCATTCAACACATGACTTTACAAATGAA
23733584 G
1 G
23733585 CATTCTTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (43 bp):
GATGAATAGATCGTCGCATTCAACACATGACTTTACAAATGAA
Found at i:23733938 original size:30 final size:32
Alignment explanation
Indices: 23733904--23733970 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
23733894 AAATGATGAT
* *
23733904 TATTAGTTAATAAA-TAAT-TTTTAAATATTA
1 TATTACTTAATAAATTAATAATTTAAATATTA
*
23733934 TATTACTTAATAAATTTATAATTTAAATATTA
1 TATTACTTAATAAATTAATAATTTAAATATTA
23733966 TATTA
1 TATTA
23733971 TATTTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 13 0.41
31 3 0.09
32 16 0.50
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (32 bp):
TATTACTTAATAAATTAATAATTTAAATATTA
Found at i:23742902 original size:15 final size:15
Alignment explanation
Indices: 23742884--23742913 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23742874 GTCCTCAGAG
23742884 TCATCATCTTCTTCA
1 TCATCATCTTCTTCA
*
23742899 TCATCCTCTTCTTCA
1 TCATCATCTTCTTCA
23742914 CTGCCTACTT
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:0.17, C:0.37, G:0.00, T:0.47
Consensus pattern (15 bp):
TCATCATCTTCTTCA
Found at i:23745946 original size:18 final size:18
Alignment explanation
Indices: 23745923--23745962 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
23745913 TTTAAATAAA
*
23745923 AAATATTTTAATAGATTC
1 AAATATTTAAATAGATTC
*
23745941 AAATATTTAAATTGATTC
1 AAATATTTAAATAGATTC
23745959 AAAT
1 AAAT
23745963 TTAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (18 bp):
AAATATTTAAATAGATTC
Found at i:23751134 original size:21 final size:22
Alignment explanation
Indices: 23751096--23751148 Score: 92
Period size: 21 Copynumber: 2.5 Consensus size: 22
23751086 CCCGAAATTA
23751096 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
23751118 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
23751139 AT-AAATATTA
1 ATAAAATATTA
23751149 AAAATATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 8 0.26
21 12 0.39
22 11 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:23751143 original size:27 final size:27
Alignment explanation
Indices: 23751113--23751179 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
23751103 ATTATTTTTT
* * *
23751113 TAAATATAAAATATTATTTTTTAAATA
1 TAAATATAAAATATCATTATATAAATA
23751140 TAAATATTAAAAATATCATTATATAAATA
1 TAAATA-T-AAAATATCATTATATAAATA
*
23751169 TATATATAAAA
1 TAAATATAAAA
23751180 AAAAATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 10 0.29
28 2 0.06
29 22 0.65
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAATATAAAATATCATTATATAAATA
Found at i:23757490 original size:6 final size:6
Alignment explanation
Indices: 23757475--23757504 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
23757465 AGTCCAGCTA
*
23757475 TCTCTC TCTCTT TCTCTT TCTCTT TCTCTT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT
23757505 CCTTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (6 bp):
TCTCTT
Found at i:23760201 original size:101 final size:102
Alignment explanation
Indices: 23760020--23760215 Score: 306
Period size: 101 Copynumber: 1.9 Consensus size: 102
23760010 AGGGCTGTTC
* * * *
23760020 AATGGCATTCTTCACTTGGTCTAATTCAGTGTATGTAGGTTGAAAAACATATGTCAAAATCCATA
1 AATGACATTCTTCACTCGGTCTAATTCAGTGTATGTAGGTTGAAAAACAAATGTCAAAATACATA
*
23760085 AAATTAGTTGATCACTCAACTTCAAAATTGAAAAACA
66 AAATTACTTGATCACTCAACTTCAAAATTGAAAAACA
*
23760122 AATGACATTCTTCACTCGGTCTATTTCA-TAGTATG-AGGTTGAAAAACAAATGTCAAAATACAT
1 AATGACATTCTTCACTCGGTCTAATTCAGT-GTATGTAGGTTGAAAAACAAATGTCAAAATACAT
*
23760185 AAAATTACTTGATCACTCAACTTCAACATTG
65 AAAATTACTTGATCACTCAACTTCAAAATTG
23760216 TGCTCATGGT
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 56 0.65
102 30 0.35
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.32
Consensus pattern (102 bp):
AATGACATTCTTCACTCGGTCTAATTCAGTGTATGTAGGTTGAAAAACAAATGTCAAAATACATA
AAATTACTTGATCACTCAACTTCAAAATTGAAAAACA
Found at i:23763629 original size:25 final size:26
Alignment explanation
Indices: 23763574--23763639 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
23763564 TGTAAAAGAT
23763574 AAATTATTTTTCCTTAATCCAAACAG
1 AAATTATTTTTCCTTAATCCAAACAG
23763600 AAATTATTTTTCCTTAATCCAAACAG
1 AAATTATTTTTCCTTAATCCAAACAG
*
23763626 -AATTTTTTTTCCTT
1 AAATTATTTTTCCTT
23763640 TCTATATCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 13 0.33
26 26 0.67
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (26 bp):
AAATTATTTTTCCTTAATCCAAACAG
Found at i:23768898 original size:12 final size:12
Alignment explanation
Indices: 23768882--23768916 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
23768872 ATGAGATTTC
*
23768882 TTTTTATATTTTA
1 TTTTTAT-TATTA
23768895 TTTTTATTATTA
1 TTTTTATTATTA
23768907 TTTTTATTAT
1 TTTTTATTAT
23768917 GATTATGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATTATTA
Found at i:23773599 original size:23 final size:23
Alignment explanation
Indices: 23773572--23773620 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
23773562 ACCTTCAGTA
*
23773572 TTTAATTTACA-CTCAAATAAATT
1 TTTAATTTACATC-CAAATAAACT
*
23773595 TTTAATTTTCATCCAAATAAACT
1 TTTAATTTACATCCAAATAAACT
23773618 TTT
1 TTT
23773621 GACCGTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAATTTACATCCAAATAAACT
Found at i:23774893 original size:25 final size:23
Alignment explanation
Indices: 23774841--23774899 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
23774831 ATTTATATAT
*
23774841 ATAATTATATATTTATATTTTAA
1 ATAATAATATATTTATATTTTAA
23774864 A-AATAATAT-TTTATATATTTAA
1 ATAATAATATATTTATAT-TTTAA
23774886 A-AATAATAT-TTTAT
1 ATAATAATATATTTAT
23774900 TAATTTTGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 7 0.21
22 26 0.76
23 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATAATAATATATTTATATTTTAA
Found at i:23774905 original size:22 final size:22
Alignment explanation
Indices: 23774847--23774899 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
23774837 ATATATAATT
23774847 ATATATTTATAT-TTTAAAAATA
1 ATAT-TTTATATATTTAAAAATA
23774869 ATATTTTATATATTTAAAAATA
1 ATATTTTATATATTTAAAAATA
23774891 ATATTTTAT
1 ATATTTTAT
23774900 TAATTTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTTATATATTTAAAAATA
Found at i:23775153 original size:20 final size:21
Alignment explanation
Indices: 23775114--23775156 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
23775104 GAATTAATCA
*
23775114 AATATTTATTTTTTAAAATTTT
1 AATATATATTTTTT-AAATTTT
*
23775136 AATATATATTTTTTAATTTTT
1 AATATATATTTTTTAAATTTT
23775157 TTATTCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
AATATATATTTTTTAAATTTT
Found at i:23775629 original size:17 final size:17
Alignment explanation
Indices: 23775595--23775629 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23775585 ATTTGTTTAC
*
23775595 TGATTAATTAATTTATT
1 TGATTAATTAATTAATT
*
23775612 TGATTAATTCATTAATT
1 TGATTAATTAATTAATT
23775629 T
1 T
23775630 TTTGTATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (17 bp):
TGATTAATTAATTAATT
Found at i:23775648 original size:21 final size:21
Alignment explanation
Indices: 23775597--23775644 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
23775587 TTGTTTACTG
23775597 ATTAATTAATTTATTTGATTA
1 ATTAATTAATTTATTTGATTA
*
23775618 ATTCATTAATTT-TTTGTATTA
1 ATTAATTAATTTATTTG-ATTA
23775639 A-TAATT
1 ATTAATT
23775645 TAATCCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTAATTAATTTATTTGATTA
Found at i:23776432 original size:19 final size:19
Alignment explanation
Indices: 23776405--23776442 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23776395 ATAATTTTAG
* *
23776405 ATATGATATAAACATAATA
1 ATATAATATAAAAATAATA
23776424 ATATAATATAAAAATAATA
1 ATATAATATAAAAATAATA
23776443 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
ATATAATATAAAAATAATA
Found at i:23776939 original size:15 final size:15
Alignment explanation
Indices: 23776896--23776943 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
23776886 AAATTTAATA
* *
23776896 TAATTATGTATACAT
1 TAATAATGTATATAT
*
23776911 TTATAATTGT-TATAT
1 TAATAA-TGTATATAT
23776926 TAATAATGTATATAT
1 TAATAATGTATATAT
23776941 TAA
1 TAA
23776944 AATTTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (15 bp):
TAATAATGTATATAT
Found at i:23790688 original size:24 final size:24
Alignment explanation
Indices: 23790624--23790699 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
23790614 TTTTTTGTAT
* *
23790624 ATTTATTTATTAATGATATGATATTA
1 ATTTATTTATTAATAATAT-ATA-AA
* *
23790650 TTTTATTTATAAATAATATATAAA
1 ATTTATTTATTAATAATATATAAA
* *
23790674 ATTTATATATTAATAATATATCAA
1 ATTTATTTATTAATAATATATAAA
23790698 AT
1 AT
23790700 ATAAATTACT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 23 0.55
25 3 0.07
26 16 0.38
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (24 bp):
ATTTATTTATTAATAATATATAAA
Found at i:23792689 original size:18 final size:18
Alignment explanation
Indices: 23792666--23792704 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23792656 TCCTCATCCC
23792666 ATATTTGAATTTTATA-TT
1 ATATTT-AATTTTATACTT
*
23792684 ATATTTATTTTTATACTT
1 ATATTTAATTTTATACTT
23792702 ATA
1 ATA
23792705 CTTAGTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
ATATTTAATTTTATACTT
Found at i:23796671 original size:20 final size:19
Alignment explanation
Indices: 23796648--23796691 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
23796638 TTAAATCGAA
23796648 TTATATA-TTTTTAATAGTTT
1 TTATATATTTTTTAA-A-TTT
23796668 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
23796687 TTATA
1 TTATA
23796692 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 8 0.35
21 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Done.