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 119 of 131
Found at i:21299343 original size:33 final size:30
Alignment explanation
Indices: 21299308--21299434 Score: 105
Period size: 32 Copynumber: 4.0 Consensus size: 30
21299298 ATCCTTTTTA
21299308 AAAAAATTTCATATAATTTTAAAAAGTAAACT
1 AAAAAATTTCATATAATTTTAAAAA-TAAA-T
*
21299340 -AAAAATTTCTATATAGATTTAAAAAAATTAAAT
1 AAAAAATTTC-ATATA-ATTT-TAAAAA-TAAAT
* * *
21299373 AAAAAACTAT-ATATCATTTTAAAATATTAAGT
1 AAAAAA-TTTCATATAATTTTAAAA-A-TAAAT
* *
21299405 AAAAAATTTTATATCATTTTAAAAATAAAT
1 AAAAAATTTCATATAATTTTAAAAATAAAT
21299435 TTATTAATCT
Statistics
Matches: 80, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
30 4 0.05
31 16 0.20
32 35 0.44
33 9 0.11
34 14 0.17
35 2 0.03
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAAAATTTCATATAATTTTAAAAATAAAT
Found at i:21299436 original size:23 final size:24
Alignment explanation
Indices: 21299408--21299467 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
21299398 ATTAAGTAAA
21299408 AAATTTTATATCAT-TTTAAAAAT
1 AAATTTTATATCATATTTAAAAAT
21299431 AAA-TTTATTAATC-TATTTAAAAAT
1 AAATTTTA-T-ATCATATTTAAAAAT
* *
21299455 ACATTTTCTATCA
1 AAATTTTATATCA
21299468 AAAAATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
22 4 0.13
23 8 0.27
24 15 0.50
25 3 0.10
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATTTTATATCATATTTAAAAAT
Found at i:21312155 original size:28 final size:28
Alignment explanation
Indices: 21312123--21312177 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
21312113 GTAGCGCGTC
21312123 TTGTAGTGTATAGGGAGGGCGTGTAGAA
1 TTGTAGTGTATAGGGAGGGCGTGTAGAA
21312151 TTGTAGTGTATAGGGAGGGCGTGTAGA
1 TTGTAGTGTATAGGGAGGGCGTGTAGA
21312178 GATCGAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.24, C:0.04, G:0.44, T:0.29
Consensus pattern (28 bp):
TTGTAGTGTATAGGGAGGGCGTGTAGAA
Found at i:21313207 original size:20 final size:20
Alignment explanation
Indices: 21313182--21313225 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
21313172 TTCAAAATTA
21313182 ATAAAATATT-TTTTTAAAAT
1 ATAAAATATTATTTTT-AAAT
21313202 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTTAAAT
21313222 ATAA
1 ATAA
21313226 TTACATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:21319014 original size:3 final size:3
Alignment explanation
Indices: 21319006--21319037 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
21318996 TCAAGAGATG
21319006 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
21319038 AATGGACTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:21322452 original size:9 final size:9
Alignment explanation
Indices: 21322438--21322467 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
21322428 AATATTTTAT
21322438 TAATTAAAA
1 TAATTAAAA
21322447 TAATTAAAA
1 TAATTAAAA
21322456 TATATTAAAA
1 TA-ATTAAAA
21322466 TA
1 TA
21322468 TAAAAATTCA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:21322464 original size:10 final size:10
Alignment explanation
Indices: 21322440--21322469 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21322430 TATTTTATTA
21322440 ATTAAAATA-
1 ATTAAAATAT
21322449 ATTAAAATAT
1 ATTAAAATAT
21322459 ATTAAAATAT
1 ATTAAAATAT
21322469 A
1 A
21322470 AAAATTCAAT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:21323593 original size:107 final size:108
Alignment explanation
Indices: 21323460--21323668 Score: 350
Period size: 107 Copynumber: 1.9 Consensus size: 108
21323450 ATTCAAATAT
* **
21323460 TATATAAAAAATTTTAAAATTTAAATATTTTATTATAGTTTGAGAGTTAAAAACATTTTATTTAT
1 TATATAAAAAATTTTAAAATTCAAATATTTTATTATAGTTTGAGAGTTAAAAACATTTTACCTAT
21323525 AATT-TTTTTATTATAACACTATAATTAGTTAATCACCTATAA
66 AATTCTTTTTATTATAACACTATAATTAGTTAATCACCTATAA
21323567 TATATAAAAAAATTTT-AAATTCAAATATTTTATTATAGTTTGAGAGTTAAAAACATTTTACCTA
1 TATAT-AAAAAATTTTAAAATTCAAATATTTTATTATAGTTTGAGAGTTAAAAACATTTTACCTA
* *
21323631 TTATTCTTTTTATTATAATACTATAATTAGTTAATCAC
65 TAATTCTTTTTATTATAACACTATAATTAGTTAATCAC
21323669 AATAAAAAAT
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
107 54 0.57
108 41 0.43
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (108 bp):
TATATAAAAAATTTTAAAATTCAAATATTTTATTATAGTTTGAGAGTTAAAAACATTTTACCTAT
AATTCTTTTTATTATAACACTATAATTAGTTAATCACCTATAA
Found at i:21328619 original size:7 final size:7
Alignment explanation
Indices: 21328609--21328651 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
21328599 TTTTATTAAA
21328609 TTTAATT
1 TTTAATT
21328616 TTTAATT
1 TTTAATT
*
21328623 TTTACATA
1 TTTA-ATT
*
21328631 TATAATT
1 TTTAATT
21328638 TTT-ATT
1 TTTAATT
21328644 TTTAATT
1 TTTAATT
21328651 T
1 T
21328652 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
6 6 0.20
7 19 0.63
8 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTAATT
Found at i:21330352 original size:58 final size:59
Alignment explanation
Indices: 21330268--21330383 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
21330258 CTATGATTGT
21330268 GGAAAGCAACTGAAAACGC-CTTTTTTTCCCTCACAATTGAAATTTTTAGTGTTGGAAA
1 GGAAAGCAACTGAAAACGCTCTTTTTTTCCCTCACAATTGAAATTTTTAGTGTTGGAAA
*
21330326 GGAAAGCAACTGAAAACGCTTTTTTTTTCCCTCACAATTGAAATTTTTAGTGTTGGAA
1 GGAAAGCAACTGAAAACGCTCTTTTTTTCCCTCACAATTGAAATTTTTAGTGTTGGAA
21330384 TTTAATATAT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 19 0.34
59 37 0.66
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (59 bp):
GGAAAGCAACTGAAAACGCTCTTTTTTTCCCTCACAATTGAAATTTTTAGTGTTGGAAA
Found at i:21333372 original size:2 final size:2
Alignment explanation
Indices: 21333365--21333390 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21333355 ACATACATAC
21333365 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
21333391 CCTAAAAGCT
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:21334224 original size:27 final size:28
Alignment explanation
Indices: 21334194--21334257 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
21334184 CGAGTTATTG
21334194 AAATTTAAATTT-AATTTGATAATAAAT
1 AAATTTAAATTTAAATTTGATAATAAAT
* * * *
21334221 AAA-TCAAATTTAAATTTTATTATAATT
1 AAATTTAAATTTAAATTTGATAATAAAT
21334248 AAATTTAAAT
1 AAATTTAAAT
21334258 AATTTATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.23
27 18 0.60
28 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
AAATTTAAATTTAAATTTGATAATAAAT
Found at i:21334483 original size:14 final size:14
Alignment explanation
Indices: 21334453--21334485 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21334443 ACATGAACAT
21334453 AAATAAAATTTACA
1 AAATAAAATTTACA
21334467 AAATCAAAATTTA-A
1 AAAT-AAAATTTACA
21334481 AAATA
1 AAATA
21334486 TATTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 9 0.50
15 8 0.44
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAAAATTTACA
Found at i:21339105 original size:25 final size:25
Alignment explanation
Indices: 21339045--21339094 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
21339035 AAATTTTAAA
*
21339045 ATTTGAATT-AAATTCAAATTATATTC
1 ATTT-AATTCAAA-TCAAATTAAATTC
21339071 ATTTAATTCAAATCAAATTAAATT
1 ATTTAATTCAAATCAAATTAAATT
21339095 TTTTTGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTTAATTCAAATCAAATTAAATTC
Found at i:21339369 original size:20 final size:20
Alignment explanation
Indices: 21339330--21339371 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21339320 TTAATTTAAA
*
21339330 TTAAATTAAATATTATAATT
1 TTAAATTAAATATTAAAATT
* *
21339350 TTAAATTAATTTTTAAAATT
1 TTAAATTAAATATTAAAATT
21339370 TT
1 TT
21339372 CTTTTAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAAATTAAATATTAAAATT
Found at i:21339964 original size:30 final size:30
Alignment explanation
Indices: 21339923--21339979 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
21339913 TTAATTATTT
* * *
21339923 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
21339953 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
21339980 ATTAATTTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:21341011 original size:29 final size:29
Alignment explanation
Indices: 21340939--21341010 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
21340929 AAAAAAAATA
*
21340939 TTTATTAATTAAAATTTTAATATTTTATT
1 TTTATTAATTAAAATTTTAATATTTAATT
*** * *
21340968 GCAATCAATTAAAATTTTTATATTTAATTT
1 TTTATTAATTAAAATTTTAATATTTAA-TT
21340998 TTTATTAATTAAA
1 TTTATTAATTAAA
21341011 TCTAAATTAA
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (29 bp):
TTTATTAATTAAAATTTTAATATTTAATT
Found at i:21341513 original size:20 final size:22
Alignment explanation
Indices: 21341488--21341540 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 22
21341478 GATATTTTTA
21341488 AATATTTT-TA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
21341508 AATATTTTATATTTTTAAAAAAT
1 AATATTTTATA-TTTTAAAAAAT
21341531 AATATTTTAT
1 AATATTTTAT
21341541 TAATTTCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.27
21 2 0.07
23 20 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:21347150 original size:16 final size:16
Alignment explanation
Indices: 21347129--21347159 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21347119 TCAACTTCAA
*
21347129 GCATTATGTTACATTG
1 GCATTATGCTACATTG
21347145 GCATTATGCTACATT
1 GCATTATGCTACATT
21347160 TGGATTCATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (16 bp):
GCATTATGCTACATTG
Found at i:21348205 original size:14 final size:14
Alignment explanation
Indices: 21348186--21348214 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21348176 AAAAATAATT
21348186 TTTTTTAATATTTA
1 TTTTTTAATATTTA
21348200 TTTTTTAATATTTA
1 TTTTTTAATATTTA
21348214 T
1 T
21348215 AAAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:21350431 original size:28 final size:28
Alignment explanation
Indices: 21350366--21350422 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
21350356 TCTATTGTAT
21350366 GCAGTCTTTCCTTGCATTTTTTGTAAAG
1 GCAGTCTTTCCTTGCATTTTTTGTAAAG
21350394 GCAGTCTTTCCTTGCATTTTTTGTAAAG
1 GCAGTCTTTCCTTGCATTTTTTGTAAAG
21350422 G
1 G
21350423 GCTGTTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.46
Consensus pattern (28 bp):
GCAGTCTTTCCTTGCATTTTTTGTAAAG
Found at i:21359090 original size:13 final size:14
Alignment explanation
Indices: 21359062--21359091 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21359052 TTGAGACGGA
21359062 AATATTTTATTTAT
1 AATATTTTATTTAT
21359076 AATATTTTA-TTAT
1 AATATTTTATTTAT
21359089 AAT
1 AAT
21359092 TTATAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATATTTTATTTAT
Found at i:21359095 original size:20 final size:21
Alignment explanation
Indices: 21359070--21359112 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
21359060 GAAATATTTT
*
21359070 ATTTATAA-TATTTTATTATA
1 ATTTATAATTATTTAATTATA
21359090 ATTTATAATTATTTAATTATA
1 ATTTATAATTATTTAATTATA
21359111 AT
1 AT
21359113 AAAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTATAATTATTTAATTATA
Found at i:21359120 original size:21 final size:21
Alignment explanation
Indices: 21359078--21359121 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
21359068 TTATTTATAA
* ** *
21359078 TATTTTATTATAATTTATAAT
1 TATTTAATTATAATAAAAAAT
21359099 TATTTAATTATAATAAAAAAT
1 TATTTAATTATAATAAAAAAT
21359120 TA
1 TA
21359122 AATAAAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTTAATTATAATAAAAAAT
Found at i:21359814 original size:105 final size:104
Alignment explanation
Indices: 21359701--21359956 Score: 293
Period size: 110 Copynumber: 2.4 Consensus size: 104
21359691 TTACCATATT
*
21359701 TATAATAAATGCTCATTAAATCAAAAGTCATCAAATTAAATATAAAAAAAAATTAAAT-GCTAAA
1 TATAATAAATGCTTATTAAATCAAAAGTCATCAAATTAAATATAAAAAAAAATTAAATGGC-AAA
* * * *
21359765 TGTTACATTTTTGTTCAAAGAAATGCAGTAATTGTCATACC
65 TATTACATTTTTATT-AAAAAAATACAGTAATTGTCATACC
* * * *
21359806 TATAATAAATACTTATTAAATCAAAAGTTAT-TAATTGAAACGTAAAAAAAAAAAAAATTAAATG
1 TATAATAAATGCTTATTAAATCAAAAGTCATCAAATT-AAA--T---ATAAAAAAAAATTAAATG
* * *
21359870 GCAAATATTACATTTTTATTAAAAAAATATAGTAATTGTTATACT
60 GCAAATATTACATTTTTATTAAAAAAATACAGTAATTGTCATACC
* *
21359915 TATAA-AAATGCTTATTAAATCAAAAGTCATCAAGTCAAATAT
1 TATAATAAATGCTTATTAAATCAAAAGTCATCAAATTAAATAT
21359957 TATGTTTTCA
Statistics
Matches: 125, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
103 1 0.01
104 4 0.03
105 31 0.25
106 1 0.01
107 1 0.01
108 26 0.21
109 27 0.22
110 32 0.26
111 2 0.02
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.33
Consensus pattern (104 bp):
TATAATAAATGCTTATTAAATCAAAAGTCATCAAATTAAATATAAAAAAAAATTAAATGGCAAAT
ATTACATTTTTATTAAAAAAATACAGTAATTGTCATACC
Found at i:21359941 original size:108 final size:110
Alignment explanation
Indices: 21359744--21359941 Score: 294
Period size: 110 Copynumber: 1.8 Consensus size: 110
21359734 AATTAAATAT
* * * *
21359744 AAAAAAAAATTAAATGCTAAATGTTACATTTTTGTTCAAAGAAATGCAGTAATTGTCATACCTAT
1 AAAAAAAAATTAAATGCTAAATATTACATTTTTATTCAAAAAAATACAGTAATTGTCATACCTAT
21359809 AATAAATACTTATTAAATCAAAAGTTATTAATTGAAACGTAAAAA
66 AATAAATACTTATTAAATCAAAAGTTATTAATTGAAACGTAAAAA
* * *
21359854 AAAAAAAAATTAAATGGC-AAATATTACATTTTTATT-AAAAAAATATAGTAATTGTTATACTTA
1 AAAAAAAAATTAAAT-GCTAAATATTACATTTTTATTCAAAAAAATACAGTAATTGTCATACCTA
*
21359917 TAA-AAATGCTTATTAAATCAAAAGT
65 TAATAAATACTTATTAAATCAAAAGT
21359942 CATCAAGTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
108 21 0.27
109 25 0.32
110 31 0.39
111 2 0.03
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.34
Consensus pattern (110 bp):
AAAAAAAAATTAAATGCTAAATATTACATTTTTATTCAAAAAAATACAGTAATTGTCATACCTAT
AATAAATACTTATTAAATCAAAAGTTATTAATTGAAACGTAAAAA
Found at i:21360717 original size:104 final size:104
Alignment explanation
Indices: 21360525--21360747 Score: 247
Period size: 104 Copynumber: 2.2 Consensus size: 104
21360515 TAAATGCTCG
* * * * *
21360525 TTAAATCAAAAGTCATCAAATT-AAATAT-AAAAAAAATTAAATGCTAAATGTTACATTTTTGTT
1 TTAAATCAAAAATCAT-TAATTGAAATGTAAAAAAAAATTAAATGCTAAATATTACATTTTTATT
* * * *
21360588 CAAAGAAATGCAATAATTGTCATACCCATAATAGATACTTA
65 CAAAGAAATACAATAATTATCATACCCATAA-AAATACGTA
* *
21360629 TTAAATTAAAAATCATTAATTGAAATGTAAAAAAAAATTAAATGGTAAATATTACATTTTTATT-
1 TTAAATCAAAAATCATTAATTGAAATGTAAAAAAAAATTAAATGCTAAATATTACATTTTTATTC
* * * *
21360693 AAA-AATATATAGTAATTATTATACCTATAAAAATACGTA
66 AAAGAA-ATACAATAATTATCATACCCATAAAAATACGTA
*
21360732 TTAAATCAAAAGTCAT
1 TTAAATCAAAAATCAT
21360748 CAAGTCAAAT
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
103 27 0.27
104 40 0.40
105 32 0.32
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (104 bp):
TTAAATCAAAAATCATTAATTGAAATGTAAAAAAAAATTAAATGCTAAATATTACATTTTTATTC
AAAGAAATACAATAATTATCATACCCATAAAAATACGTA
Found at i:21361006 original size:803 final size:806
Alignment explanation
Indices: 21359445--21361062 Score: 2823
Period size: 803 Copynumber: 2.0 Consensus size: 806
21359435 AAAAAAAGTA
* * * *
21359445 AAAAAACACAATACTGGTATGGTCAATTATAAAAAAAAAATTAATCCTTAATTATTGTATTAATT
1 AAAAAACACAATACTGGCATGGCCAATTATAAAAAAAAAATTAATCATTAATTACTGTATTAATT
*
21359510 TCATTCAAAAAACATAGAAAACGCAATAATTAAATAAATATAATGAATAATTATTACGTTGAACT
66 TCATTCAAAAAACATAAAAAACGCAATAATTAAATAAATATAATGAATAATTATTACGTTGAACT
*
21359575 TTAAAGAAACACAATAATTGACAAACTCATAATAAATACTCATTAAATCAAAAGCTATCAAGTTC
131 TTAAAGAAACACAATAATTGACAAACTCATAATAAATACTCATTAAATCAAAAGCTATCAAGTCC
21359640 AAAAAAATTCAATACCAAATATTGCGATTCTATTAAAAGAAATTGGATTAATTACCATATTTATA
196 AAAAAAATTCAATACCAAATATTGCGATTCTATTAAAAGAAATTGGATTAATTACCATATTTATA
21359705 ATAAATGCTCATTAAATCAAAAGTCATCAAATTAAATATAAAAAAAAATTAAATGCTAAATGTTA
261 ATAAATGCTCATTAAATCAAAAGTCATCAAATTAAATATAAAAAAAAATTAAATGCTAAATGTTA
* * * *
21359770 CATTTTTGTTCAAAGAAATGCAGTAATTGTCATACCTATAATAAATACTTATTAAATCAAAAGTT
326 CATTTTTGTTCAAAGAAATGCAATAATTGTCATACCCATAATAAATACTTATTAAATCAAAAATC
21359835 ATTAATTGAAACGTAAAAAAAAAAAAAATTAAATGGCAAATATTACATTTTTATTAAAAAAATAT
391 ATTAATTGAAACGT----AAAAAAAAAATTAAATGGCAAATATTACATTTTTATTAAAAAAATAT
* * * *
21359900 AGTAATTGTTATACTTATAAAAATGCTTATTAAATCAAAAGTCATCAAGTCAAATATTATGTTTT
452 AGTAATTATTATACCTATAAAAATACGTATTAAATCAAAAGTCATCAAGTCAAATATTATGTTTT
*
21359965 CATTCAAAGAAACGCAATAAATAATTATAATTATTACATTTTAAAGCCTACAAATGTAATATTTA
517 CATTCAAAGAAACGCAATAAATAATTATAATTATTACATTTTAAAGCCTACAAATGCAATATTTA
*
21360030 AATGAAAAAATAAAAAAATACTTAATTAAAAAAAGTTTAAAATAAAAGTAATTCATAATTATTTA
582 AATGAAAAAATAAAAAAATACTTAATTAAAAAAAATTTAAAATAAAAGTAATTCATAATTATTTA
21360095 ATTTTTATATGTTGATTTTCATGATAGTAAAATAAAAAAAAAAATTTGTTAAGGTCATAAGATAA
647 ATTTTTATATGTTGATTTTCATGATAGTAAAATAAAAAAAAAAATTTGTTAAGGTCATAAGATAA
* *
21360160 AAGTCTCTTTTTTTTAGAATCTTAAAAAATTACAAAGAAAAATATTATTTTATTCTAAAATTTTA
712 AAGTCTCTTTTTTCTAGAATCTTAAAAAATTACAAAAAAAAATATTATTTTATTCTAAAATTTTA
21360225 GATACTATTAAGGAATATAAGATTATACTT
777 GATACTATTAAGGAATATAAGATTATACTT
* *
21360255 AAAAAATACAGTACTGGCATGGCCAATTATAAAAAAAAAAATTAATCATTAATTACTGTATTAAT
1 AAAAAACACAATACTGGCATGGCCAATTAT-AAAAAAAAAATTAATCATTAATTACTGTATTAAT
* * *
21360320 TTCATTCAAAAAACTTAAAAAATGCAATAATTAAATAAATATAATGAATAATTATTACGTTTAAC
65 TTCATTCAAAAAACATAAAAAACGCAATAATTAAATAAATATAATGAATAATTATTACGTTGAAC
21360385 TTTAAAGAAACACAATAATTGACAAACTCATAATAAATACTCATTAAATCAAAAGCTATCAAGTC
130 TTTAAAGAAACACAATAATTGACAAACTCATAATAAATACTCATTAAATCAAAAGCTATCAAGTC
21360450 CAAAAAAATTCAATACCAAATATTGCGATTCTATTAAAAG-AA-TGGATTAATTACCATATTTAT
195 CAAAAAAATTCAATACCAAATATTGCGATTCTATTAAAAGAAATTGGATTAATTACCATATTTAT
*
21360513 AATAAATGCTCGTTAAATCAAAAGTCATCAAATTAAATAT-AAAAAAAATTAAATGCTAAATGTT
260 AATAAATGCTCATTAAATCAAAAGTCATCAAATTAAATATAAAAAAAAATTAAATGCTAAATGTT
* *
21360577 ACATTTTTGTTCAAAGAAATGCAATAATTGTCATACCCATAATAGATACTTATTAAATTAAAAAT
325 ACATTTTTGTTCAAAGAAATGCAATAATTGTCATACCCATAATAAATACTTATTAAATCAAAAAT
* * *
21360642 CATTAATTGAAATGT-AAAAAAAAATTAAATGGTAAATATTACATTTTTATTAAAAATATATAGT
390 CATTAATTGAAACGTAAAAAAAAAATTAAATGGCAAATATTACATTTTTATTAAAAAAATATAGT
21360706 AATTATTATACCTATAAAAATACGTATTAAATCAAAAGTCATCAAGTCAAATATTATGTTTTCAT
455 AATTATTATACCTATAAAAATACGTATTAAATCAAAAGTCATCAAGTCAAATATTATGTTTTCAT
* * *
21360771 TCAAAGAAACGTAATAAATAATTATAATTATTACATTTTGAAGTCTACAAATGCAATATTTAAAT
520 TCAAAGAAACGCAATAAATAATTATAATTATTACATTTTAAAGCCTACAAATGCAATATTTAAAT
* *
21360836 GAAAAGATAAAAAAAATGCTTAATTAAAAAAAATTTAAAATAAAAGTAATTCATAATTATTTAAT
585 GAAAAAAT-AAAAAAATACTTAATTAAAAAAAATTTAAAATAAAAGTAATTCATAATTATTTAAT
*
21360901 TTTTATATGTTGATTTTCATGATAGTAAAAT-AAAAAAAAATTTTGTTAAGGTCATAAGATAAAA
649 TTTTATATGTTGATTTTCATGATAGTAAAATAAAAAAAAAAATTTGTTAAGGTCATAAGATAAAA
*
21360965 GTCTCTTTTTTCTAGAATCTTAAAAAATTATAAAAAAAAATATTATTTTATTCTAAAATTTTAGA
714 GTCTCTTTTTTCTAGAATCTTAAAAAATTACAAAAAAAAATATTATTTTATTCTAAAATTTTAGA
21361030 TACTATTAAGGAATATAAGATTATACTT
779 TACTATTAAGGAATATAAGATTATACTT
21361058 AAAAA
1 AAAAA
21361063 TTTAATACAA
Statistics
Matches: 770, Mismatches: 36, Indels: 11
0.94 0.04 0.01
Matches are distributed among these distances:
803 303 0.39
804 85 0.11
808 97 0.13
809 60 0.08
810 28 0.04
811 197 0.26
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.34
Consensus pattern (806 bp):
AAAAAACACAATACTGGCATGGCCAATTATAAAAAAAAAATTAATCATTAATTACTGTATTAATT
TCATTCAAAAAACATAAAAAACGCAATAATTAAATAAATATAATGAATAATTATTACGTTGAACT
TTAAAGAAACACAATAATTGACAAACTCATAATAAATACTCATTAAATCAAAAGCTATCAAGTCC
AAAAAAATTCAATACCAAATATTGCGATTCTATTAAAAGAAATTGGATTAATTACCATATTTATA
ATAAATGCTCATTAAATCAAAAGTCATCAAATTAAATATAAAAAAAAATTAAATGCTAAATGTTA
CATTTTTGTTCAAAGAAATGCAATAATTGTCATACCCATAATAAATACTTATTAAATCAAAAATC
ATTAATTGAAACGTAAAAAAAAAATTAAATGGCAAATATTACATTTTTATTAAAAAAATATAGTA
ATTATTATACCTATAAAAATACGTATTAAATCAAAAGTCATCAAGTCAAATATTATGTTTTCATT
CAAAGAAACGCAATAAATAATTATAATTATTACATTTTAAAGCCTACAAATGCAATATTTAAATG
AAAAAATAAAAAAATACTTAATTAAAAAAAATTTAAAATAAAAGTAATTCATAATTATTTAATTT
TTATATGTTGATTTTCATGATAGTAAAATAAAAAAAAAAATTTGTTAAGGTCATAAGATAAAAGT
CTCTTTTTTCTAGAATCTTAAAAAATTACAAAAAAAAATATTATTTTATTCTAAAATTTTAGATA
CTATTAAGGAATATAAGATTATACTT
Found at i:21368331 original size:17 final size:16
Alignment explanation
Indices: 21368309--21368349 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
21368299 CGTTTGATTC
21368309 TATAATTATATCAGTTT
1 TATAATTATATCA-TTT
*
21368326 TATAATTAAATCATTT
1 TATAATTATATCATTT
21368342 TA-AATTAT
1 TATAATTAT
21368350 TATAAACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 5 0.23
16 5 0.23
17 12 0.55
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (16 bp):
TATAATTATATCATTT
Found at i:21368889 original size:30 final size:33
Alignment explanation
Indices: 21368830--21368907 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 33
21368820 TGATTTTAAC
*
21368830 TTCCTTTTTATTAATTTTCATATAAATATAAATGT
1 TTCCTTTTTATTAATTTT-ATAT-AATATAAATAT
*
21368865 TTCCTTTTTATTAA-TTT-TAT-ATATAGATAT
1 TTCCTTTTTATTAATTTTATATAATATAAATAT
*
21368895 TTCTTTTTTATTA
1 TTCCTTTTTATTA
21368908 CATAAAGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 20 0.50
32 3 0.08
34 3 0.08
35 14 0.35
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (33 bp):
TTCCTTTTTATTAATTTTATATAATATAAATAT
Found at i:21377425 original size:42 final size:40
Alignment explanation
Indices: 21377371--21377450 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 40
21377361 ATTTGACTTA
*
21377371 AAATTAATTTAA-TATAATATTAACAAAATATTTTAAATAT
1 AAATTAATTTAATTAT-ATATAAACAAAATATTTTAAATAT
* *
21377411 AAATTATATTTTAATTATATATAAATATAATATTTTAAAT
1 AAATTA-A-TTTAATTATATATAAACAAAATATTTTAAAT
21377451 TTAAGTATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 6 0.18
41 1 0.03
42 24 0.71
43 3 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (40 bp):
AAATTAATTTAATTATATATAAACAAAATATTTTAAATAT
Found at i:21378685 original size:30 final size:29
Alignment explanation
Indices: 21378630--21378686 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
21378620 ATGCTAAAAG
*
21378630 TAAAAAAATTAAAATATAATTTTAAAATA
1 TAAAAAAATTAAAATATAATGTTAAAATA
* *
21378659 TAAAAAAATTTAAATTTAAATGTTAAAA
1 TAAAAAAATTAAAATAT-AATGTTAAAA
21378687 AAATAGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
TAAAAAAATTAAAATATAATGTTAAAATA
Found at i:21385346 original size:30 final size:30
Alignment explanation
Indices: 21385298--21385361 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
21385288 GCATTTCTAT
*
21385298 CATAGCCACCACCTCCATAATTACCACCAC
1 CATAGCCACCACCTCCATAACTACCACCAC
* * *
21385328 CATAGCCACTA-CTGCCATAGCTGCCACCAC
1 CATAGCCACCACCT-CCATAACTACCACCAC
21385358 CATA
1 CATA
21385362 ACTGCTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.31, C:0.44, G:0.08, T:0.17
Consensus pattern (30 bp):
CATAGCCACCACCTCCATAACTACCACCAC
Found at i:21388544 original size:17 final size:18
Alignment explanation
Indices: 21388512--21388550 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
21388502 AGCAAAATTA
* *
21388512 TATATTTTTATTAATTTT
1 TATATTTTTATAAATTTG
21388530 TATATTTTT-TAAATTTG
1 TATATTTTTATAAATTTG
21388547 TATA
1 TATA
21388551 AAATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TATATTTTTATAAATTTG
Found at i:21388591 original size:20 final size:21
Alignment explanation
Indices: 21388554--21388618 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 21
21388544 TTGTATAAAA
* *
21388554 TAAAATTAATTATTATATATA-
1 TAAAATTTA-TATTAAATATAT
21388575 T-AAATTTAT-TTAAATATAT
1 TAAAATTTATATTAAATATAT
21388594 TAAAATTTATATTAAA-AT-T
1 TAAAATTTATATTAAATATAT
21388613 TAAAAT
1 TAAAAT
21388619 AATAAATTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 8 0.21
19 9 0.23
20 16 0.41
21 6 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAATTTATATTAAATATAT
Found at i:21388606 original size:12 final size:12
Alignment explanation
Indices: 21388589--21388614 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21388579 TTTATTTAAA
21388589 TATATTAAAATT
1 TATATTAAAATT
21388601 TATATTAAAATT
1 TATATTAAAATT
21388613 TA
1 TA
21388615 AAATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATTAAAATT
Found at i:21395196 original size:24 final size:25
Alignment explanation
Indices: 21395142--21395197 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
21395132 ATATACATTT
21395142 AATTTT-TTCTCTTAGTTTTTCATAC
1 AATTTTATTCTCTTAGTTTTTCA-AC
*
21395167 AGTTTTATT-TCTTAGTTTTTTC-AC
1 AATTTTATTCTCTTAG-TTTTTCAAC
21395191 AATTTTA
1 AATTTTA
21395198 ACAACAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 8 0.30
25 11 0.41
26 8 0.30
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.61
Consensus pattern (25 bp):
AATTTTATTCTCTTAGTTTTTCAAC
Found at i:21402330 original size:17 final size:16
Alignment explanation
Indices: 21402306--21402346 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
21402296 AGATCGAAAC
21402306 CCAAAAAAAATCCAAT
1 CCAAAAAAAATCCAAT
* *
21402322 CCGAAAAAAATTTCAAT
1 CC-AAAAAAAATCCAAT
21402339 CCAAAAAA
1 CCAAAAAA
21402347 GCTTGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.61, C:0.22, G:0.02, T:0.15
Consensus pattern (16 bp):
CCAAAAAAAATCCAAT
Found at i:21403001 original size:21 final size:20
Alignment explanation
Indices: 21402977--21403016 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21402967 AATAAAAAAA
*
21402977 ATTATCTTATATATTAAAATT
1 ATTATCTTA-AAATTAAAATT
*
21402998 ATTATTTTAAAATTAAAAT
1 ATTATCTTAAAATTAAAAT
21403017 ATAAGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTATCTTAAAATTAAAATT
Found at i:21404344 original size:17 final size:17
Alignment explanation
Indices: 21404312--21404345 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21404302 GACAAAATTA
21404312 ATATATAATATATATTT
1 ATATATAATATATATTT
21404329 ATATA-AATATATTATTT
1 ATATATAATATA-TATTT
21404346 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATATAATATATATTT
Found at i:21404572 original size:16 final size:16
Alignment explanation
Indices: 21404551--21404607 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
21404541 GTATTCGAGT
21404551 TTATCCAAATTTGAAA
1 TTATCCAAATTTGAAA
* *
21404567 TTATCCGAATTTAAAA
1 TTATCCAAATTTGAAA
*
21404583 TTATCCGAATTTGAAA
1 TTATCCAAATTTGAAA
*
21404599 TGATCCAAA
1 TTATCCAAA
21404608 CCTGAAAGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (16 bp):
TTATCCAAATTTGAAA
Found at i:21405045 original size:30 final size:29
Alignment explanation
Indices: 21404999--21405244 Score: 99
Period size: 30 Copynumber: 8.0 Consensus size: 29
21404989 AGATAAAACA
*
21404999 CTTATACTTTT-A-TTATACCAAAATAAACT
1 CTTA-ACTTTTAATTTATACC-AAATAAGCT
* * *
21405028 TTTAACTTTTAATTTATACTCAAATAATCC
1 CTTAACTTTTAATTTATAC-CAAATAAGCT
* * *
21405058 CTTAAATTTTAATTTGTATTCAAATAAGCT
1 CTTAACTTTTAATTTATA-CCAAATAAGCT
**
21405088 CTTATTTTTTAATTTATACCTAAATAAGCT
1 CTTAACTTTTAATTTATACC-AAATAAGCT
* * ** *
21405118 -TTAA-TATAAATAAACATTTTGTTTATAAAATAAACT
1 CTTAACT-T---T-TA-A--TT-TATACCAAATAAGCT
*
21405154 CTTAACTTTTAATTTATACTCAAATAATAC-
1 CTTAACTTTTAATTTATAC-CAAATAA-GCT
* *
21405184 CTTAAATTTTAATTTATATCCAAATAAACT
1 CTTAACTTTTAATTTATA-CCAAATAAGCT
*
21405214 CTT-ATTGTTTAATTTACATACCTAAATAAGC
1 CTTAACT-TTTAATTT--ATACC-AAATAAGC
21405245 CTTTAATATA
Statistics
Matches: 167, Mismatches: 26, Indels: 45
0.70 0.11 0.19
Matches are distributed among these distances:
28 7 0.04
29 16 0.10
30 103 0.62
31 6 0.04
32 12 0.07
33 2 0.01
34 2 0.01
36 10 0.06
37 8 0.05
38 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.44
Consensus pattern (29 bp):
CTTAACTTTTAATTTATACCAAATAAGCT
Found at i:21405097 original size:126 final size:125
Alignment explanation
Indices: 21405006--21405244 Score: 334
Period size: 126 Copynumber: 1.9 Consensus size: 125
21404996 ACACTTATAC
* *
21405006 TTTTATTATACCAAAATAAACTTTTAACTTTTAATTTATACTCAAATAATCCCTTAAATTTTAAT
1 TTTTATT-TA-CAAAATAAACTCTTAACTTTTAATTTATACTCAAATAATACCTTAAATTTTAAT
* * * * * *
21405071 TTGTATTCAAATAAGCTCTTATTTTTTAATTTATACCTAAATAAGCTTTAATATAAATAAACA
64 TTATATCCAAATAAACTCTTATTTTTTAATTTATACCTAAATAAGC-ATAAAACAAATAAACA
* *
21405134 TTTTGTTTATAAAATAAACTCTTAACTTTTAATTTATACTCAAATAATACCTTAAATTTTAATTT
1 TTTTATTTACAAAATAAACTCTTAACTTTTAATTTATACTCAAATAATACCTTAAATTTTAATTT
*
21405199 ATATCCAAATAAACTCTTATTGTTTAATTTACATACCTAAATAAGC
66 ATATCCAAATAAACTCTTATTTTTTAATTT--ATACCTAAATAAGC
21405245 CTTTAATATA
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
126 79 0.78
127 2 0.02
128 20 0.20
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (125 bp):
TTTTATTTACAAAATAAACTCTTAACTTTTAATTTATACTCAAATAATACCTTAAATTTTAATTT
ATATCCAAATAAACTCTTATTTTTTAATTTATACCTAAATAAGCATAAAACAAATAAACA
Found at i:21405150 original size:66 final size:66
Alignment explanation
Indices: 21405079--21405274 Score: 176
Period size: 66 Copynumber: 3.0 Consensus size: 66
21405069 ATTTGTATTC
*
21405079 AAATAAGCTCTTATTTTTTAATTTATACCTAAATAAGCTTTAATATAAATAAACATTTTGTTTAT
1 AAATAAACTCTTATTTTTTAATTTATACCTAAATAAGCTTTAATATAAATAAACATTTTGTTTAT
21405144 A
66 A
** * * ** *
21405145 AAATAAACTCTTAACTTTTAATTTATA-CTCAAATAATACCTTAA-AT---TTTA-A--TT-TAT
1 AAATAAACTCTTATTTTTTAATTTATACCT-AAATAA-GCTTTAATATAAATAAACATTTTGTTT
*
21405201 ATCC
64 AT-A
* *
21405205 AAATAAACTCTTATTGTTTAATTTACATACCTAAATAAGCCTTTAATATAAATCAACATTTTGTT
1 AAATAAACTCTTATTTTTTAATTT--ATACCTAAATAAG-CTTTAATATAAATAAACATTTTGTT
21405270 TATA
63 TATA
21405274 A
1 A
21405275 TCAGGGTTTA
Statistics
Matches: 97, Mismatches: 18, Indels: 27
0.68 0.13 0.19
Matches are distributed among these distances:
59 4 0.04
60 23 0.24
62 15 0.15
63 6 0.06
65 2 0.02
66 34 0.35
67 6 0.06
69 3 0.03
70 4 0.04
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.43
Consensus pattern (66 bp):
AAATAAACTCTTATTTTTTAATTTATACCTAAATAAGCTTTAATATAAATAAACATTTTGTTTAT
A
Found at i:21405526 original size:3 final size:3
Alignment explanation
Indices: 21405518--21405548 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21405508 TTATTTAGAT
21405518 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21405549 GTGCTTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21419997 original size:24 final size:24
Alignment explanation
Indices: 21419952--21419997 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21419942 AATTATTATT
* *
21419952 ATTATTATTATTATGATAAAAAAA
1 ATTATTATAATTATAATAAAAAAA
*
21419976 ATTATTATAATTATAATTAAAA
1 ATTATTATAATTATAATAAAAA
21419998 TATTTACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATTATTATAATTATAATAAAAAAA
Found at i:21430779 original size:27 final size:26
Alignment explanation
Indices: 21430736--21430788 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
21430726 CATGCCTACC
21430736 TTGTTTTCATTGAATATTAAGAAAATA
1 TTGTTTTCATTGAATA-TAAGAAAATA
*
21430763 TTGTTTTCATT-ATATATAAGGAAATA
1 TTGTTTTCATTGA-ATATAAGAAAATA
21430789 GATTTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (26 bp):
TTGTTTTCATTGAATATAAGAAAATA
Found at i:21432753 original size:36 final size:35
Alignment explanation
Indices: 21432690--21432757 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
21432680 TGATATATTT
*
21432690 AAAAAATATTTACTTAATATATTTTTTATAAATCCA
1 AAAAAATATATACTTAATATATTTTTTA-AAATCCA
21432726 AAAAAATTATATA-TTAAT-TATATTTTTAAAAT
1 AAAAAA-TATATACTTAATATAT-TTTTTAAAAT
21432758 AAATATCACT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 7 0.24
36 17 0.59
37 5 0.17
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (35 bp):
AAAAAATATATACTTAATATATTTTTTAAAATCCA
Found at i:21434541 original size:308 final size:308
Alignment explanation
Indices: 21433905--21434680 Score: 1274
Period size: 308 Copynumber: 2.5 Consensus size: 308
21433895 TGTTATTGAC
* *
21433905 ACTATATGATTGTGCGGAAGTGAAGGTATTGTAACTAGTTGACTTCTAAGATCATTCACTGC-TT
1 ACTATATGATTGTGCAGAAGTGAAGGTATTGTAACTAGATGACTTCTAAGATCATTCACTGCTTT
* *
21433969 TTTGAATTTTTGATTGATATAATGTCTTCTCGAATACTTATTTAA-GTCGTTAGAGTTTAAATGT
66 TTTG-ATTTCTG---GATATAATGTCTTCTCAAATACTTATTTAAGGT-GTTAGAGTTTAAATGT
*
21434033 GGAGACATGGAGTGATTTTCTTTTGATTTGTTCTTTTTTTAATGAATTTTGATGTTTTAAAGATT
126 GGAGACATGGAGTGATTTTCTTTTTATTTGTTCTTTTTTTAATGAATTTTGATGTTTTAAAGATT
21434098 TGGGCATTGGTCAAGTTTTTGTTTTGAGATGTGGTGATTGGTTTGTTACTGTTGTATCGTTTGGG
191 TGGGCATTGGTCAAGTTTTTGTTTTGAGATGTGGTGATTGGTTTGTTACTGTTGTATCGTTTGGG
*
21434163 CTTTTAAGTAGCTGGGGGTTGGGTGGAATTTTATTGAGGCTTGATTATGAGTT
256 CTTTTAAGCAGCTGGGGGTTGGGTGGAATTTTATTGAGGCTTGATTATGAGTT
* * * *
21434216 ACTATATGACTGTGCAGAAGTGAAGGTA-TGTAACTAGATGACTTGTAAGATCATTGACAGCTTT
1 ACTATATGATTGTGCAGAAGTGAAGGTATTGTAACTAGATGACTTCTAAGATCATTCACTGCTTT
21434280 TTTGATTTCTGGATATAATGTCTTCTCAAATACTTATTTAAGGTGTTAGAGTTTAAATGTGGAGA
66 TTTGATTTCTGGATATAATGTCTTCTCAAATACTTATTTAAGGTGTTAGAGTTTAAATGTGGAGA
21434345 CATGGAGTGATTTTCTTTTTATTTGTTCCTTTTTTTAATGAATTTTGATGTTTTAAAGATTTGGG
131 CATGGAGTGATTTTCTTTTTATTTGTT-CTTTTTTTAATGAATTTTGATGTTTTAAAGATTTGGG
* * * * *
21434410 TATTTGTCAAGTTTTTGTTTTGAGATGTGGTGATTGTTTTGTTACTGTTTTATGGTTTGGGCTTT
195 CATTGGTCAAGTTTTTGTTTTGAGATGTGGTGATTGGTTTGTTACTGTTGTATCGTTTGGGCTTT
*
21434475 TAAGCGGCTGGGGGTTGGGTGGAATTTTATTGAGGCTTGATTATGAGTT
260 TAAGCAGCTGGGGGTTGGGTGGAATTTTATTGAGGCTTGATTATGAGTT
21434524 ACTATATGATTGTGCAGAAGTGAAGGTATTGTAACTAGATGACTTCTAAGATCATTCACTGCTTT
1 ACTATATGATTGTGCAGAAGTGAAGGTATTGTAACTAGATGACTTCTAAGATCATTCACTGCTTT
*
21434589 TTTGATTTCT-GATTGATATATGTCTTCT-AGAATACTTATTTAAGGCGTTAGAGTTTAAATGTG
66 TTTGATTTCTGGA-T-ATA-ATGTCTTCTCA-AATACTTATTTAAGGTGTTAGAGTTTAAATGTG
21434652 GAGACATGGAGTGATTTTCTTTTTATTTG
127 GAGACATGGAGTGATTTTCTTTTTATTTG
21434681 AGTTTGAAGG
Statistics
Matches: 436, Mismatches: 21, Indels: 16
0.92 0.04 0.03
Matches are distributed among these distances:
307 76 0.17
308 175 0.40
309 44 0.10
310 39 0.09
311 102 0.23
ACGTcount: A:0.23, C:0.08, G:0.24, T:0.45
Consensus pattern (308 bp):
ACTATATGATTGTGCAGAAGTGAAGGTATTGTAACTAGATGACTTCTAAGATCATTCACTGCTTT
TTTGATTTCTGGATATAATGTCTTCTCAAATACTTATTTAAGGTGTTAGAGTTTAAATGTGGAGA
CATGGAGTGATTTTCTTTTTATTTGTTCTTTTTTTAATGAATTTTGATGTTTTAAAGATTTGGGC
ATTGGTCAAGTTTTTGTTTTGAGATGTGGTGATTGGTTTGTTACTGTTGTATCGTTTGGGCTTTT
AAGCAGCTGGGGGTTGGGTGGAATTTTATTGAGGCTTGATTATGAGTT
Found at i:21435932 original size:2 final size:2
Alignment explanation
Indices: 21435925--21435956 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21435915 AACTTGCTCC
21435925 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21435957 TGATTTGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:21438052 original size:24 final size:24
Alignment explanation
Indices: 21438025--21438079 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
21438015 TGTTGAGTAC
*
21438025 AAATAATCAATTTTTTATTGAATA
1 AAATAATCAATTTTTTATCGAATA
*
21438049 AAATAATCGATTTTTTATCGAATA
1 AAATAATCAATTTTTTATCGAATA
*
21438073 TAATAAT
1 AAATAAT
21438080 TGAATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (24 bp):
AAATAATCAATTTTTTATCGAATA
Found at i:21441500 original size:21 final size:18
Alignment explanation
Indices: 21441473--21441516 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
21441463 ATAATATTTT
21441473 AAATTTATGTATCAAATTAAA
1 AAATTTAT-TAT--AATTAAA
*
21441494 TAATTTATTATAATTAAA
1 AAATTTATTATAATTAAA
21441512 AAATT
1 AAATT
21441517 ATTTGTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 11 0.52
20 3 0.14
21 7 0.33
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATTTATTATAATTAAA
Found at i:21441844 original size:10 final size:11
Alignment explanation
Indices: 21441806--21441847 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
21441796 TTTATTCGTT
* *
21441806 ATATTTAAATA
1 ATATTTATATC
21441817 ATATTTATATC
1 ATATTTATATC
*
21441828 TTATTTAT-TC
1 ATATTTATATC
21441838 ATATTTATAT
1 ATATTTATAT
21441848 AACTCGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATTTATATC
Found at i:21441891 original size:21 final size:21
Alignment explanation
Indices: 21441860--21441910 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
21441850 CTCGATATTT
21441860 TAATA-TTTATATTTAAAAAA
1 TAATATTTTATATTTAAAAAA
21441880 TAATATTTTATATTTAAAAAA
1 TAATATTTTATATTTAAAAAA
21441901 T-ATATTTTAT
1 TAATATTTTAT
21441911 TAATTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATATTTTATATTTAAAAAA
Found at i:21442000 original size:16 final size:16
Alignment explanation
Indices: 21441981--21442016 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21441971 GAATGTAAAA
21441981 AAATAAAAAAAAATTT
1 AAATAAAAAAAAATTT
**
21441997 AAATAAAATCAAATTT
1 AAATAAAAAAAAATTT
21442013 AAAT
1 AAAT
21442017 TTAATAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAAAAAAAAATTT
Found at i:21442779 original size:21 final size:19
Alignment explanation
Indices: 21442752--21442793 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
21442742 TCGAATCGAA
*
21442752 TTATATATTTTTTTAATTT
1 TTATATATATTTTTAATTT
21442771 TTATATATATTTTTAATTT
1 TTATATATATTTTTAATTT
21442790 TTAT
1 TTAT
21442794 GAAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATATATATTTTTAATTT
Found at i:21442876 original size:33 final size:32
Alignment explanation
Indices: 21442797--21442877 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
21442787 TTTTTATGAA
* * *
21442797 ATAAAAA-TAATAATTTTATATTATAATCTAT
1 ATAAAAATTAAAAATTTTATATTAAAATATAT
*
21442828 TTAAATAGATT-AAAATTTTATATTAAAATAATAT
1 ATAAA-A-ATTAAAAATTTTATATTAAAAT-ATAT
21442862 ATAAAAATTAAAAATT
1 ATAAAAATTAAAAATT
21442878 AATAAATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
31 4 0.10
32 4 0.10
33 24 0.60
34 8 0.20
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (32 bp):
ATAAAAATTAAAAATTTTATATTAAAATATAT
Found at i:21449291 original size:43 final size:43
Alignment explanation
Indices: 21449243--21449326 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
21449233 CTATAATAGT
*
21449243 AATACTTGAATACACATGCATAATTGTTCCATTAAAACACAGA
1 AATACTTGAATACACATGCATAATTGTTCAATTAAAACACAGA
*
21449286 AATACTTGAATACACATTCATAATTGTTCAATTAAAACACA
1 AATACTTGAATACACATGCATAATTGTTCAATTAAAACACA
21449327 AAACCTAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (43 bp):
AATACTTGAATACACATGCATAATTGTTCAATTAAAACACAGA
Found at i:21452036 original size:10 final size:11
Alignment explanation
Indices: 21452021--21452060 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
21452011 AAATTTTAAA
21452021 TTATATCA-TT
1 TTATATCATTT
21452031 TTATAT-ATTT
1 TTATATCATTT
*
21452041 TTATATTATTT
1 TTATATCATTT
21452052 TTATATCAT
1 TTATATCAT
21452061 ATCTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 1 0.04
10 14 0.52
11 12 0.44
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATATCATTT
Found at i:21452052 original size:11 final size:11
Alignment explanation
Indices: 21452029--21452057 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21452019 AATTATATCA
21452029 TTTTATA-TAT
1 TTTTATATTAT
21452039 TTTTATATTAT
1 TTTTATATTAT
21452050 TTTTATAT
1 TTTTATAT
21452058 CATATCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTATATTAT
Found at i:21454368 original size:2 final size:2
Alignment explanation
Indices: 21454355--21454402 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
21454345 GATGATAGTG
* * * * *
21454355 AT AT AC AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT AT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21454397 AT AT AT
1 AT AT AT
21454403 TGGGACATGG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21459161 original size:52 final size:52
Alignment explanation
Indices: 21459075--21459179 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
21459065 TATAACCATA
* * *
21459075 CAAACTTGCCCATTAAAAATCTCTCTCATCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCCATTAAAAATCCCTCTCATCTTAGAATTATTCTCCTGCAAGT
* * * * * *
21459127 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTATTCTCTTGCAAGT
1 CAAACTTGCCCATTAAAAATCCCTCTCATCTTAGAATTATTCTCCTGCAAGT
21459179 C
1 C
21459180 TTCTTGTCTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (52 bp):
CAAACTTGCCCATTAAAAATCCCTCTCATCTTAGAATTATTCTCCTGCAAGT
Found at i:21459220 original size:11 final size:11
Alignment explanation
Indices: 21459204--21459235 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
21459194 GCAATATCTG
21459204 ACAAATCTCTA
1 ACAAATCTCTA
*
21459215 ACAAATCTCAA
1 ACAAATCTCTA
21459226 ACAAATCTCT
1 ACAAATCTCT
21459236 TATGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:21461557 original size:14 final size:14
Alignment explanation
Indices: 21461535--21461565 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21461525 GGGGAACGCA
*
21461535 TGGGTTGAGTGGGG
1 TGGGGTGAGTGGGG
21461549 TGGGGTGAGTGGGG
1 TGGGGTGAGTGGGG
21461563 TGG
1 TGG
21461566 ATGAGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.68, T:0.26
Consensus pattern (14 bp):
TGGGGTGAGTGGGG
Found at i:21462755 original size:12 final size:12
Alignment explanation
Indices: 21462738--21462772 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
21462728 GTTGATATGT
21462738 ACATATATTTTA
1 ACATATATTTTA
21462750 ACATATATTTTA
1 ACATATATTTTA
*
21462762 AAATTATATTT
1 ACA-TATATTT
21462773 AAAGCTAGAT
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:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (12 bp):
ACATATATTTTA
Found at i:21464001 original size:15 final size:15
Alignment explanation
Indices: 21463973--21464008 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
21463963 CGATCGATTC
*
21463973 AATTAATTTTAAATTA
1 AATT-ATTTAAAATTA
21463989 AATTATTTAAAATTA
1 AATTATTTAAAATTA
21464004 AATTA
1 AATTA
21464009 ATCAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATTTAAAATTA
Found at i:21464301 original size:16 final size:15
Alignment explanation
Indices: 21464276--21464318 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
21464266 CATGCATTTT
21464276 TTATTTATATTTAAA
1 TTATTTATATTTAAA
*
21464291 TTATATTATATTTCAA
1 TTAT-TTATATTTAAA
21464307 TTAATTTA-ATTT
1 TT-ATTTATATTT
21464319 TTGAATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 15 0.60
17 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTTATATTTAAA
Found at i:21468045 original size:4 final size:4
Alignment explanation
Indices: 21468036--21468103 Score: 61
Period size: 4 Copynumber: 16.8 Consensus size: 4
21468026 AATTATTTTT
* *
21468036 ATTA ATTA ATCA A--A ATTA ATTTA A-TA ATTA ATTG ATTA ATTAA ATTAA
1 ATTA ATTA ATTA ATTA ATTA A-TTA ATTA ATTA ATTA ATTA ATT-A ATT-A
21468084 ATTA ATATA ATTA ATTA ATT
1 ATTA AT-TA ATTA ATTA ATT
21468104 CGATTAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
2 2 0.04
3 3 0.05
4 33 0.60
5 17 0.31
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:21468076 original size:34 final size:36
Alignment explanation
Indices: 21468036--21468110 Score: 102
Period size: 34 Copynumber: 2.1 Consensus size: 36
21468026 AATTATTTTT
*
21468036 ATTAATT-AATCAAAATTAATTTAA-TAATTAATT-G
1 ATTAATTAAAT-AAAATTAATATAATTAATTAATTCG
*
21468070 ATTAATTAAATTAAATTAATATAATTAATTAATTCG
1 ATTAATTAAATAAAATTAATATAATTAATTAATTCG
21468106 ATTAA
1 ATTAA
21468111 AATCAGAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
34 18 0.50
35 12 0.33
36 6 0.17
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
ATTAATTAAATAAAATTAATATAATTAATTAATTCG
Found at i:21468710 original size:20 final size:20
Alignment explanation
Indices: 21468685--21468724 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21468675 TAAAAATAAG
*
21468685 TATAATATTAATTAT-ATATT
1 TATAAT-TTAAATATCATATT
21468705 TATAATTTAAATATCATATT
1 TATAATTTAAATATCATATT
21468725 AAAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TATAATTTAAATATCATATT
Found at i:21469024 original size:14 final size:14
Alignment explanation
Indices: 21469005--21469053 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
21468995 AGATAAAATA
21469005 TTAAAATTTTAATT
1 TTAAAATTTTAATT
*
21469019 TTAAAATTTAAATCT
1 TTAAAATTTTAAT-T
* *
21469034 TGATAATTTTAATT
1 TTAAAATTTTAATT
*
21469048 ATAAAA
1 TTAAAA
21469054 ATATAAATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TTAAAATTTTAATT
Found at i:21474362 original size:2 final size:2
Alignment explanation
Indices: 21474355--21474381 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21474345 ATCCTTTAAA
21474355 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21474382 AATCCAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21476426 original size:57 final size:56
Alignment explanation
Indices: 21476338--21476452 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 56
21476328 TTTTATAGCT
*
21476338 ATTCTACTCCAGTTTCAATGAGGGATATGATTTATTAGAAGTATCTTATGACAAATG
1 ATTCTACTCCAGTTTCAATGAGGGATATGATTTATTAGAAGTATCATATGAC-AATG
* * *
21476395 ATTCTGCTGCAGTTTCAATGAGGTATATGATTTATTAGAAGTATCATATGACAATG
1 ATTCTACTCCAGTTTCAATGAGGGATATGATTTATTAGAAGTATCATATGACAATG
21476451 AT
1 AT
21476453 CTTAATTAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
56 6 0.11
57 48 0.89
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.37
Consensus pattern (56 bp):
ATTCTACTCCAGTTTCAATGAGGGATATGATTTATTAGAAGTATCATATGACAATG
Found at i:21480874 original size:22 final size:23
Alignment explanation
Indices: 21480832--21480875 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
21480822 AAAAAAATAT
*
21480832 ATATAATTGGTTTCAATTATTTTA
1 ATATAATT-GTTTAAATTATTTTA
21480856 ATATAATT-TTTAAATTATTT
1 ATATAATTGTTTAAATTATTT
21480876 ATTTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
24 8 0.42
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATAATTGTTTAAATTATTTTA
Found at i:21481257 original size:22 final size:22
Alignment explanation
Indices: 21481225--21481269 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21481215 GAGATGCGGC
*
21481225 TCTAGTTTCAATTTGTAAGGGT
1 TCTAGTGTCAATTTGTAAGGGT
*
21481247 TCTAGTGTCAATTTTTAAGGGT
1 TCTAGTGTCAATTTGTAAGGGT
21481269 T
1 T
21481270 TTATTTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.47
Consensus pattern (22 bp):
TCTAGTGTCAATTTGTAAGGGT
Found at i:21484168 original size:26 final size:23
Alignment explanation
Indices: 21484102--21484169 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
21484092 TGAAATCATA
21484102 ATATAATAATAAATTTAATTTATT
1 ATATAATAATAAATTT-ATTTATT
*
21484126 ATATAATAA-AAA-CTATTTATT
1 ATATAATAATAAATTTATTTATT
21484147 ATATTAAATTAATAAATTTATTT
1 ATA-T-AA-TAATAAATTTATTT
21484170 CATAATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 10 0.27
22 2 0.05
23 5 0.14
24 12 0.32
25 3 0.08
26 5 0.14
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATAATAATAAATTTATTTATT
Found at i:21485576 original size:27 final size:26
Alignment explanation
Indices: 21485513--21485586 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
21485503 AATTTCGTAA
21485513 AATT-ATAAATCAATATCAAATATATT
1 AATTCATAAATC-ATATCAAATATATT
*
21485539 AATTCATAAATCATTTCAAATATATTGT
1 AATTCATAAATCATATCAAATATA-T-T
*
21485567 TATTCA-AAATCATAATCAAA
1 AATTCATAAATCAT-ATCAAA
21485587 CCAAATCGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.37
27 15 0.37
28 11 0.27
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (26 bp):
AATTCATAAATCATATCAAATATATT
Found at i:21485585 original size:28 final size:27
Alignment explanation
Indices: 21485513--21485586 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
21485503 AATTTCGTAA
21485513 AATT-ATAAATCA-ATATCAAATATATT
1 AATTCATAAATCATA-ATCAAATATATT
*
21485539 AATTCATAAATCAT-TTCAAATATATTGT
1 AATTCATAAATCATAATCAAATATA-T-T
*
21485567 TATTCA-AAATCATAATCAAA
1 AATTCATAAATCATAATCAAA
21485587 CCAAATCGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 13 0.32
27 16 0.40
28 11 0.28
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (27 bp):
AATTCATAAATCATAATCAAATATATT
Found at i:21491741 original size:91 final size:88
Alignment explanation
Indices: 21491541--21491782 Score: 263
Period size: 89 Copynumber: 2.7 Consensus size: 88
21491531 TTGCATAAAA
* * * * * *
21491541 AAAACATAGTCTTTGATCACATTACAAAAATAATGTTTTTAACCTACAAAACGTGGTGGATAATC
1 AAAACATAGTCTTTGAACACATTACAAAAATACT-TTTCTCACATACAAAAAGTGGTGGATAATC
21491606 ATTCCAAAACCACTTTTTTTTTTC
65 ATTCCAAAACCACTTTTTTTTTTC
* * * * * *
21491630 AAAACGTAATCTTTGAACACATTGCAAAGACTACTTTTCTCACATACAAAATGTGGTGGATAATT
1 AAAACATAGTCTTTGAACACATTACAAA-AATACTTTTCTCACATACAAAAAGTGGTGGATAATC
*
21491695 ATT-CAAAGATCA-TGTTTTTTGCTTTC
65 ATTCCAAA-ACCACT-TTTTTT--TTTC
* * *
21491721 AAAACATAGTCTTTGAACACATTACAAAAATAACATTTCTCACATAAAAAAAGTGGTTGATA
1 AAAACATAGTCTTTGAACACATTACAAAAAT-ACTTTTCTCACATACAAAAAGTGGTGGATA
21491783 CCTATCCTAT
Statistics
Matches: 127, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
88 5 0.04
89 61 0.48
90 6 0.05
91 55 0.43
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (88 bp):
AAAACATAGTCTTTGAACACATTACAAAAATACTTTTCTCACATACAAAAAGTGGTGGATAATCA
TTCCAAAACCACTTTTTTTTTTC
Found at i:21491901 original size:21 final size:19
Alignment explanation
Indices: 21491848--21491903 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
21491838 ATTTTACTTT
*
21491848 ATTTGTTTGTATTTATTTA
1 ATTTGTTTTTATTTATTTA
21491867 ATTAT-TTTTGTATTTATTTTA
1 ATT-TGTTTT-TATTTA-TTTA
21491888 ATTTGTTATTTATTTA
1 ATTTGTT-TTTATTTA
21491904 AAATTTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 6 0.19
20 8 0.26
21 15 0.48
22 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
ATTTGTTTTTATTTATTTA
Found at i:21491981 original size:20 final size:21
Alignment explanation
Indices: 21491956--21491998 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
21491946 ATTTTTTAAA
21491956 TTTGAAAA-AATATAAAAA-AT
1 TTTGAAAATAA-ATAAAAATAT
21491976 TTTGAAAATAAATAAAAATAT
1 TTTGAAAATAAATAAAAATAT
21491997 TT
1 TT
21491999 CAATGATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
TTTGAAAATAAATAAAAATAT
Found at i:21499107 original size:19 final size:18
Alignment explanation
Indices: 21499083--21499118 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21499073 ATCTTGTGAA
*
21499083 ATTACATTTATAAGTAAAC
1 ATTACAATTATAA-TAAAC
21499102 ATTACAATTATAATAAA
1 ATTACAATTATAATAAA
21499119 GCAACTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (18 bp):
ATTACAATTATAATAAAC
Found at i:21499243 original size:19 final size:22
Alignment explanation
Indices: 21499205--21499245 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
21499195 TGATTTATCA
21499205 AATTATAAATTATCTTTTATTT
1 AATTATAAATTATCTTTTATTT
21499227 AATT-TAAATT-T-TTTTATTT
1 AATTATAAATTATCTTTTATTT
21499246 TTCTATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 6 0.32
22 4 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTATAAATTATCTTTTATTT
Found at i:21506568 original size:8 final size:8
Alignment explanation
Indices: 21506552--21506583 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
21506542 TATTTATTCC
*
21506552 TTTTATTA
1 TTTTCTTA
21506560 TTTTCTTA
1 TTTTCTTA
21506568 TTTTCTTA
1 TTTTCTTA
21506576 TTTTCTTA
1 TTTTCTTA
21506584 AAGTTTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTCTTA
Found at i:21507756 original size:3 final size:3
Alignment explanation
Indices: 21507721--21507772 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
21507711 AAAAAGAAGA
* * *
21507721 AAT AAA AAT AAA AAT AAA AAT AA- ACAT -AT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
21507765 AAT AAT AA
1 AAT AAT AA
21507773 GCAAAATTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 3 0.08
3 37 0.93
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:21508082 original size:45 final size:44
Alignment explanation
Indices: 21507996--21508153 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 44
21507986 AAATAAAGGT
* * * * *
21507996 TCAATAA-TTTTAAAAATATTTAAAATGCTCATTTAAATAGAGAC
1 TCAATAACTTTTAAAAA-ATTTAAAAGGATCCTCTAAGTAGAGAC
*
21508040 TCAATAACTTTTAAAAAATTTACAAA-GATTCCTCTAAGTAGAGGC
1 TCAATAACTTTTAAAAAATTTA-AAAGGA-TCCTCTAAGTAGAGAC
* * * *
21508085 TCAATAA-TATTTGAAAGATTTAAAAGGATCTTCTAAGTA-AGGCC
1 TCAATAACT-TTTAAAAAATTTAAAAGGATCCTCTAAGTAGA-GAC
* *
21508129 TCAACAACTTTTACAAAATTTAAAA
1 TCAATAACTTTTAAAAAATTTAAAA
21508154 AAGCTATTCA
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 48 0.51
45 45 0.48
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (44 bp):
TCAATAACTTTTAAAAAATTTAAAAGGATCCTCTAAGTAGAGAC
Found at i:21508150 original size:44 final size:43
Alignment explanation
Indices: 21507919--21508153 Score: 131
Period size: 44 Copynumber: 5.4 Consensus size: 43
21507909 AGTTTTTTTT
* * ** * * * * *
21507919 TTTTAAGAATTTGAAAGGCTCCTTTAAGTAGAAGCTTAACAAT
1 TTTTAAAAATTTAAAAGATTCCTCTAAGTAGAGGCTCAATAAC
* * * * * *
21507962 TTTTAAAAATCTAAAA-ATTCTTTTAAATAAAGGTTCAATAA-
1 TTTTAAAAATTTAAAAGATTCCTCTAAGTAGAGGCTCAATAAC
* * * * *
21508003 TTTTAAAAATATTTAAAATG-CTCATTTAAATAGAGACTCAATAAC
1 TTTT-AAAA-ATTTAAAA-GATTCCTCTAAGTAGAGGCTCAATAAC
21508048 TTTTAAAAAATTTACAAAGATTCCTCTAAGTAGAGGCTCAATAA-
1 TTTT-AAAAATTTA-AAAGATTCCTCTAAGTAGAGGCTCAATAAC
* * *
21508092 TATTTGAAAGATTTAAAAGGA-TCTTCTAAGTA-AGGCCTCAACAAC
1 T-TTT-AAAAATTTAAAA-GATTCCTCTAAGTAGAGG-CTCAATAAC
21508137 TTTTACAAAATTTAAAA
1 TTTTA-AAAATTTAAAA
21508154 AAGCTATTCA
Statistics
Matches: 152, Mismatches: 28, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
41 4 0.03
42 20 0.13
43 24 0.16
44 59 0.39
45 45 0.30
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (43 bp):
TTTTAAAAATTTAAAAGATTCCTCTAAGTAGAGGCTCAATAAC
Found at i:21508253 original size:83 final size:84
Alignment explanation
Indices: 21508128--21508293 Score: 253
Period size: 83 Copynumber: 2.0 Consensus size: 84
21508118 TAAGTAAGGC
* * * *
21508128 CTCAACAACTTTTACAAAATTTAAAAAAGCTATTCAAAGTAGATGCTCAACAACTTTGAAATATT
1 CTCAACAACTTTTACAAAATTTAAAAAAACTATTCAAAGTAGAAGCTCAACAACTTTAAAAGATT
*
21508193 TAAGATATTCTGCCTGAAG
66 TAAGATATTCTACCTGAAG
* * *
21508212 CTCAACAACTTTTA-AAAATTTAAAAAAACTTTTCTAAGTAGAAGCTTAACAACTTTAAAAGATT
1 CTCAACAACTTTTACAAAATTTAAAAAAACTATTCAAAGTAGAAGCTCAACAACTTTAAAAGATT
21508276 TAAGATATTCTACCTGAA
66 TAAGATATTCTACCTGAA
21508294 AAAACTTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 60 0.81
84 14 0.19
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (84 bp):
CTCAACAACTTTTACAAAATTTAAAAAAACTATTCAAAGTAGAAGCTCAACAACTTTAAAAGATT
TAAGATATTCTACCTGAAG
Found at i:21511291 original size:6 final size:6
Alignment explanation
Indices: 21511280--21511314 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
21511270 TTAATTACTC
21511280 TATTTA TATTTA TATTTA TATTTA TA-TTA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
21511315 AAGGCCGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATTTA
Found at i:21511303 original size:18 final size:17
Alignment explanation
Indices: 21511280--21511314 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
21511270 TTAATTACTC
21511280 TATTTATATTTATATTTA
1 TATTTATA-TTATATTTA
21511298 TATTTATATTATATTTA
1 TATTTATATTATATTTA
21511315 AAGGCCGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTATATTATATTTA
Found at i:21516362 original size:19 final size:18
Alignment explanation
Indices: 21516323--21516359 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21516313 AAGATACTTT
21516323 ATTAATTAAAATAATAAA
1 ATTAATTAAAATAATAAA
21516341 ATTATATTAAAAT-ATAAA
1 ATTA-ATTAAAATAATAAA
21516359 A
1 A
21516360 ATTCAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAATTAAAATAATAAA
Found at i:21524949 original size:29 final size:31
Alignment explanation
Indices: 21524917--21524999 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 31
21524907 ATATAAATTA
*
21524917 TAATTTAATTATATATAAAT-GTATTTTT-T
1 TAATTTAATTATATATAAATAATATTTTTAT
* *
21524946 TAATTAAATTAAGATATTAAATAATATTTTTAT
1 TAATTTAATT-ATATA-TAAATAATATTTTTAT
*
21524979 TAATATAATATATATATAAAT
1 TAATTTAAT-TATATATAAAT
21525000 TAATTAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
29 9 0.21
30 4 0.09
31 5 0.12
32 12 0.28
33 12 0.28
34 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (31 bp):
TAATTTAATTATATATAAATAATATTTTTAT
Found at i:21525583 original size:10 final size:9
Alignment explanation
Indices: 21525564--21525629 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
21525554 TTTATTTAAT
21525564 AAAATAAAA
1 AAAATAAAA
21525573 AAAAGTAAAA
1 AAAA-TAAAA
21525583 AAAATCAATAA
1 AAAAT-AA-AA
21525594 AAAAT-AAA
1 AAAATAAAA
** *
21525602 AACCT-TAA
1 AAAATAAAA
*
21525610 AAAATAAAG
1 AAAATAAAA
21525619 AAAATAAAA
1 AAAATAAAA
21525628 AA
1 AA
21525630 TAAACGAGAG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
8 10 0.22
9 17 0.38
10 11 0.24
11 7 0.16
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.14
Consensus pattern (9 bp):
AAAATAAAA
Found at i:21526346 original size:2 final size:2
Alignment explanation
Indices: 21526339--21526365 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21526329 TTTCTTCTTT
21526339 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21526366 CAAAACAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21528708 original size:28 final size:27
Alignment explanation
Indices: 21528677--21528729 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
21528667 AATTATGTGA
*
21528677 TTTATTAATAAGATATTAAAATTTTAAT
1 TTTATTAATAAAAT-TTAAAATTTTAAT
*
21528705 TTTATTAATAAAATTTAAATTTTTA
1 TTTATTAATAAAATTTAAAATTTTA
21528730 TAGTTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTATTAATAAAATTTAAAATTTTAAT
Found at i:21531029 original size:44 final size:43
Alignment explanation
Indices: 21530950--21531061 Score: 154
Period size: 44 Copynumber: 2.6 Consensus size: 43
21530940 TTATCAGAGG
* *
21530950 CTCAACAACTATGAAAAATATAAAATGCTTCTCTCAACAGAAG
1 CTCAACAACTTTGAAAAATATAAAATGCTTCTCTCAACAGAAA
* *
21530993 TTCAACAACTTTTGAAAAATATAAAA-GGTTCTTCTCAACAGAAA
1 CTCAACAAC-TTTGAAAAATATAAAATGCTTC-TCTCAACAGAAA
*
21531037 CTCAATAACTTTGAAAAATATAAAA
1 CTCAACAACTTTGAAAAATATAAAA
21531062 ATTTAAACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 28 0.46
44 33 0.54
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (43 bp):
CTCAACAACTTTGAAAAATATAAAATGCTTCTCTCAACAGAAA
Found at i:21531745 original size:22 final size:22
Alignment explanation
Indices: 21531714--21531796 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
21531704 TGCTTAAAGG
*
21531714 TCTTAAAAATTATGCCTGAAGA
1 TCTTACAAATTATGCCTGAAGA
*
21531736 TCTTACAAATTATGCTTAGAAG-
1 TCTTACAAATTATGCCT-GAAGA
* *
21531758 TCTTGA-GAATTATGCCTGGAGA
1 TCTT-ACAAATTATGCCTGAAGA
* *
21531780 CCCTACAAATTATGCCT
1 TCTTACAAATTATGCCT
21531797 AGAGGCCTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 4 0.08
22 40 0.82
23 5 0.10
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (22 bp):
TCTTACAAATTATGCCTGAAGA
Found at i:21531769 original size:44 final size:44
Alignment explanation
Indices: 21531704--21531827 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
21531694 TTTGAGATTT
*
21531704 TGCTTA-AAGGTCTTAAAAATTATGCCTGAAGATCTTACAAATTA
1 TGCTTAGAA-GTCTTGAAAATTATGCCTGAAGATCTTACAAATTA
* * * *
21531748 TGCTTAGAAGTCTTGAGAATTATGCCTGGAGACCCTACAAATTA
1 TGCTTAGAAGTCTTGAAAATTATGCCTGAAGATCTTACAAATTA
* * * * *
21531792 TGCCTAGAGGCCTTGAAAATTATGCCCGAAGGTCTT
1 TGCTTAGAAGTCTTGAAAATTATGCCTGAAGATCTT
21531828 GAAAATCATA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
44 63 0.97
45 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
TGCTTAGAAGTCTTGAAAATTATGCCTGAAGATCTTACAAATTA
Found at i:21531811 original size:22 final size:22
Alignment explanation
Indices: 21531742--21531817 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
21531732 AAGATCTTAC
* * *
21531742 AAATTATGCTTAGAAGTCTTGA
1 AAATTATGCCTAGAGGCCTTGA
* * * *
21531764 GAATTATGCCTGGAGACCCT-A
1 AAATTATGCCTAGAGGCCTTGA
21531785 CAAATTATGCCTAGAGGCCTTGA
1 -AAATTATGCCTAGAGGCCTTGA
21531808 AAATTATGCC
1 AAATTATGCC
21531818 CGAAGGTCTT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 1 0.02
22 39 0.95
23 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (22 bp):
AAATTATGCCTAGAGGCCTTGA
Found at i:21531828 original size:22 final size:22
Alignment explanation
Indices: 21531710--21531833 Score: 67
Period size: 22 Copynumber: 5.6 Consensus size: 22
21531700 ATTTTGCTTA
* *
21531710 AAGGTCTTAAAAATTATGCCTG
1 AAGGTCTTGAAAATTATGCCCG
* **
21531732 AAGATCTT-ACAAATTATGCTTAG
1 AAGGTCTTGA-AAATTATGC-CCG
* *
21531755 AA-GTCTTGAGAATTATGCCTG
1 AAGGTCTTGAAAATTATGCCCG
* ** * *
21531776 GAGACCCT-ACAAATTATG-CCT
1 AAGGTCTTGA-AAATTATGCCCG
*
21531797 AGAGGCCTTGAAAATTATGCCCG
1 A-AGGTCTTGAAAATTATGCCCG
21531820 AAGGTCTTGAAAAT
1 AAGGTCTTGAAAAT
21531834 CATACCTAAA
Statistics
Matches: 75, Mismatches: 19, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
21 5 0.07
22 62 0.83
23 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (22 bp):
AAGGTCTTGAAAATTATGCCCG
Found at i:21532048 original size:16 final size:18
Alignment explanation
Indices: 21532027--21532060 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21532017 AACTTATCAC
21532027 TTTCTTC-A-TGAAAATT
1 TTTCTTCAACTGAAAATT
21532043 TTTCTTCAACTGAAAATT
1 TTTCTTCAACTGAAAATT
21532061 AAAATCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (18 bp):
TTTCTTCAACTGAAAATT
Found at i:21536220 original size:41 final size:41
Alignment explanation
Indices: 21536163--21536252 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
21536153 CAAATGACTA
* * *
21536163 CATAAATAGATGCATGAGTTAATATTCACTTCATAATGATG
1 CATAAATGGATACATGAGTTAATATTCACCTCATAATGATG
* **
21536204 CATAAATGGATACATGAGTTAATGTTTGCCTCATAATGATG
1 CATAAATGGATACATGAGTTAATATTCACCTCATAATGATG
*
21536245 CATGAATG
1 CATAAATG
21536253 ATGAATGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (41 bp):
CATAAATGGATACATGAGTTAATATTCACCTCATAATGATG
Found at i:21536773 original size:22 final size:22
Alignment explanation
Indices: 21536727--21536784 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
21536717 CATATGCAAA
*
21536727 TGAAGAATAATATATTTAAAACT
1 TGAAAAATAA-ATATTTAAAACT
21536750 TGAAAAATAAATA-TTAAAAGCT
1 TGAAAAATAAATATTTAAAA-CT
*
21536772 TGACAAATAAATA
1 TGAAAAATAAATA
21536785 AATAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 6 0.19
22 17 0.53
23 9 0.28
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.29
Consensus pattern (22 bp):
TGAAAAATAAATATTTAAAACT
Found at i:21541346 original size:60 final size:58
Alignment explanation
Indices: 21541240--21541446 Score: 242
Period size: 59 Copynumber: 3.5 Consensus size: 58
21541230 TTTGTACAAA
* * *
21541240 AAAAATTGATACTTTCAACTTTTTTTCAAAATAT-TTTTTTGAAATTTTAATTTTGAG
1 AAAAATTGATACTTTCAACTTTTCTTCAAAAAATATTTTTTGAAATTTTAATTTTAAG
* * * *
21541297 AAAAATTGATACTTTCTACTTTTCTTAAAAAAAATATTTCTTGAGAA-TTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTT-CAAAAAATATTTTTTGA-AATTTTAATTTTAAG
* *
21541356 AAAAATTGATACTTTCAACTTTTC-TCCAAAAATATTTTTTGAAAAACTTTTAATTTCAA-
1 AAAAATTGATACTTTCAACTTTTCTTCAAAAAATATTTTTTG--AAA-TTTTAATTTTAAG
*
21541415 AGAAAATTGATACTTTCAACTTTTCCTCAAAA
1 A-AAAATTGATACTTTCAACTTTTCTTCAAAA
21541447 GTTTTTTTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
57 37 0.29
58 9 0.07
59 42 0.33
60 34 0.27
61 5 0.04
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCTTCAAAAAATATTTTTTGAAATTTTAATTTTAAG
Found at i:21541454 original size:60 final size:60
Alignment explanation
Indices: 21541236--21541466 Score: 212
Period size: 60 Copynumber: 3.9 Consensus size: 60
21541226 TACTTTTGTA
* *
21541236 CAAA-AAAAATTGATACTTTCAACTTTT-TTTC-AAAATATTTTTTTG-AAATTTTAATTT
1 CAAAGAAAAATTGATACTTTCAACTTTTCCTACAAAAATA-TTTTTTGAAAATTTTAATTT
** * * * * *
21541293 -TGAGAAAAATTGATACTTTCTACTTTTCTTAAAAAAAATATTTCTTGAGAA-TTT-ATTT
1 CAAAGAAAAATTGATACTTTCAACTTTTCCT-ACAAAAATATTTTTTGAAAATTTTAATTT
** *
21541351 TTAAGAAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTGAAAAACTTTTAATTT
1 CAAAGAAAAATTGATACTTTCAACTTTTCCTACAAAAATATTTTTTG-AAAA-TTTTAATTT
* * *
21541412 CAAAG-AAAATTGATACTTTCAACTTTTCCT-CAAAAGTTTTTTTTTAAAAATTTTA
1 CAAAGAAAAATTGATACTTTCAACTTTTCCTACAAAA-ATATTTTTTGAAAATTTTA
21541467 TCATTTTATT
Statistics
Matches: 143, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
56 1 0.01
57 35 0.24
58 10 0.07
59 39 0.27
60 42 0.29
61 16 0.11
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (60 bp):
CAAAGAAAAATTGATACTTTCAACTTTTCCTACAAAAATATTTTTTGAAAATTTTAATTT
Found at i:21542698 original size:4 final size:4
Alignment explanation
Indices: 21542689--21542797 Score: 98
Period size: 4 Copynumber: 27.5 Consensus size: 4
21542679 CATTTTATTA
* * *
21542689 TTAT TTAT TTAT TTGT TTAT TT-T TCAT TTAT TTAT ATAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * ** *
21542736 TTAT CTGT TTAT TTGA- TCGT TTAT TTAT TTAT TTAT TTGA- TTAT CTAT
1 TTAT TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TT-AT TTAT TTAT
*
21542784 GTAT TTAT TTAT TT
1 TTAT TTAT TTAT TT
21542798 GTAAATATTT
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
3 3 0.04
4 78 0.94
5 2 0.02
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:21542944 original size:61 final size:60
Alignment explanation
Indices: 21542813--21542949 Score: 181
Period size: 60 Copynumber: 2.3 Consensus size: 60
21542803 TATTTTTATA
*
21542813 AAAAAAT--ATTTTTCAAATAAAAATGAACCTTACCAATATATTAAAAGGTTCATAATTC
1 AAAAAATGAATTTTTCAAATAAAAATGAACCTTACCAACATATTAAAAGGTTCATAATTC
* * * *
21542871 AAAAAATGAATTTTTTAAATAAAAATGAACCTTACCAACATTTTAAAGGGTTCA-AGTTTTC
1 AAAAAATGAATTTTTCAAATAAAAATGAACCTTACCAACATATTAAAAGGTTCATA--ATTC
*
21542932 AAGAAATGAATTTTTCAA
1 AAAAAATGAATTTTTCAA
21542950 TAGAATAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
58 7 0.10
59 1 0.01
60 41 0.60
61 19 0.28
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (60 bp):
AAAAAATGAATTTTTCAAATAAAAATGAACCTTACCAACATATTAAAAGGTTCATAATTC
Found at i:21544315 original size:21 final size:23
Alignment explanation
Indices: 21544280--21544322 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
21544270 CTAAGATTAA
21544280 ATTTAAATAAAAATAAAAATTTT
1 ATTTAAATAAAAATAAAAATTTT
*
21544303 ATTT-AAT-AAAATAATAATTT
1 ATTTAAATAAAAATAAAAATTT
21544323 AAATCGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 3 0.16
23 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTAAATAAAAATAAAAATTTT
Found at i:21546446 original size:33 final size:30
Alignment explanation
Indices: 21546388--21546447 Score: 75
Period size: 33 Copynumber: 1.9 Consensus size: 30
21546378 TTATATTTCT
*
21546388 TGAATTAAAAAAAAATTTATGTTATTTAAA
1 TGAATTAAAAAAAAATTTATATTATTTAAA
*
21546418 TGAATTAATAAAAAATATTTTTTATTATTT
1 TGAATTAA-AAAAAA-A-TTTATATTATTT
21546448 TGAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.32
31 6 0.24
32 1 0.04
33 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (30 bp):
TGAATTAAAAAAAAATTTATATTATTTAAA
Found at i:21546489 original size:21 final size:21
Alignment explanation
Indices: 21546456--21546514 Score: 55
Period size: 24 Copynumber: 2.7 Consensus size: 21
21546446 TTTGAAAATT
* * *
21546456 TTATTTTTTAAATAATATTAA
1 TTATTATTAAAATAAAATTAA
*
21546477 TTATTATTAAAATATTAAAATTAT
1 TTATTATT-AAA-A-TAAAATTAA
21546501 TTATTATTAAAATA
1 TTATTATTAAAATA
21546515 TATGGGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 9 0.29
22 3 0.10
23 4 0.13
24 15 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATTATTAAAATAAAATTAA
Found at i:21546524 original size:26 final size:24
Alignment explanation
Indices: 21546472--21546550 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
21546462 TTTAAATAAT
*
21546472 ATTAATTATTATTAAAATATTAAA
1 ATTATTTATTATTAAAATATTAAA
**
21546496 ATTATTTATTATTAAAATATATGGGA
1 ATTATTTATTATTAAAATAT-T-AAA
*
21546522 ATTATTTATTATTAAAATTATTAAT
1 ATTATTTATTATTAAAA-TATTAAA
21546547 ATTA
1 ATTA
21546551 AAACAAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
24 19 0.41
25 5 0.11
26 19 0.41
27 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTATTTATTATTAAAATATTAAA
Found at i:21546551 original size:15 final size:16
Alignment explanation
Indices: 21546521--21546616 Score: 52
Period size: 19 Copynumber: 5.6 Consensus size: 16
21546511 AATATATGGG
*
21546521 AATTATTTATTATTAA
1 AATTATTTAATATTAA
21546537 AATTA-TTAATATTAA
1 AATTATTTAATATTAA
** * *
21546552 AACAAATTATATTTTAA
1 AATTATTTA-ATATTAA
21546569 TAATAATATTTAATATTAA
1 -AAT--TATTTAATATTAA
21546588 ATTATTATGTTAATA-TACA
1 A--ATTAT-TTAATATTA-A
*
21546607 AAATATTTAA
1 AATTATTTAA
21546617 AATAAAACTA
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
15 12 0.19
16 12 0.19
17 10 0.16
18 8 0.13
19 14 0.23
20 6 0.10
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (16 bp):
AATTATTTAATATTAA
Found at i:21546656 original size:15 final size:15
Alignment explanation
Indices: 21546636--21546738 Score: 57
Period size: 15 Copynumber: 7.6 Consensus size: 15
21546626 ACTTTTATTT
21546636 TATATTATTTATTAA
1 TATATTATTTATTAA
* * *
21546651 TATA-T-TGTAATAT
1 TATATTATTTATTAA
* *
21546664 TAT-TTA-TTAATAG
1 TATATTATTTATTAA
*
21546677 TATATTATTTA-TGA
1 TATATTATTTATTAA
21546691 -ATA-TA-TTA-TAA
1 TATATTATTTATTAA
21546702 --TATTATTTATTAA
1 TATATTATTTATTAA
*
21546715 TATATGATTTATTAA
1 TATATTATTTATTAA
*
21546730 TATAATATT
1 TATATTATT
21546739 GTTTATGAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
10 2 0.03
11 7 0.10
12 5 0.07
13 23 0.34
14 5 0.07
15 26 0.38
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:21546663 original size:23 final size:23
Alignment explanation
Indices: 21546637--21546719 Score: 113
Period size: 23 Copynumber: 3.8 Consensus size: 23
21546627 CTTTTATTTT
21546637 ATATTATTTATTAATATATTGTA
1 ATATTATTTATTAATATATTGTA
21546660 ATATTATTTATT-A-ATA--GT-
1 ATATTATTTATTAATATATTGTA
* *
21546678 ATATTATTTATGAATATATTATA
1 ATATTATTTATTAATATATTGTA
21546701 ATATTATTTATTAATATAT
1 ATATTATTTATTAATATAT
21546720 GATTTATTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
18 11 0.21
19 3 0.06
20 3 0.06
21 3 0.06
22 2 0.04
23 30 0.58
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
ATATTATTTATTAATATATTGTA
Found at i:21546681 original size:41 final size:38
Alignment explanation
Indices: 21546636--21546733 Score: 142
Period size: 41 Copynumber: 2.5 Consensus size: 38
21546626 ACTTTTATTT
*
21546636 TATATTATTTATTAATATATTGTAATATTATTTATTAATA
1 TATATTATTTATTAATATATTATAATATTATTTATT-A-A
*
21546676 GTATATTATTTATGAATATATTATAATATTATTTATTAA
1 -TATATTATTTATTAATATATTATAATATTATTTATTAA
*
21546715 TATATGATTTATTAATATA
1 TATATTATTTATTAATATA
21546734 ATATTGTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
38 17 0.32
39 1 0.02
40 1 0.02
41 34 0.64
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (38 bp):
TATATTATTTATTAATATATTATAATATTATTTATTAA
Found at i:21546725 original size:56 final size:55
Alignment explanation
Indices: 21546659--21546785 Score: 177
Period size: 56 Copynumber: 2.3 Consensus size: 55
21546649 AATATATTGT
* *
21546659 AATATTATTTATTAATAGT-ATATTATTTATGAATATATTATAATATTATTTATTA-
1 AATATTATTTATTAATA-TAATATTATTTATGAATATATCATAATATTACTTA-TAC
* *
21546714 ATATATGATTTATTAATATAATATTGTTTATGAATATATCATAATATTACTTATAC
1 A-ATATTATTTATTAATATAATATTATTTATGAATATATCATAATATTACTTATAC
21546770 AATATTATTTATTAAT
1 AATATTATTTATTAAT
21546786 GCATTATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
55 18 0.28
56 46 0.72
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (55 bp):
AATATTATTTATTAATATAATATTATTTATGAATATATCATAATATTACTTATAC
Found at i:21546781 original size:37 final size:33
Alignment explanation
Indices: 21546700--21546816 Score: 84
Period size: 33 Copynumber: 3.6 Consensus size: 33
21546690 AATATATTAT
* * * *
21546700 AATATTATTTATTAATATATGATTTATTAATAT
1 AATATTATTTATGAATATATCATATATTAATAC
*
21546733 AATATTGTTTATGAATATATCATAATATTACTTATAC
1 AATATTATTTATGAATATATCAT-ATATTA---ATAC
*
21546770 AATATTATTTAT---TA-ATGCAT-TA-TAATAT
1 AATATTATTTATGAATATAT-CATATATTAATAC
*
21546798 AATATTATTTATTAATATA
1 AATATTATTTATGAATATA
21546817 ATATTTTTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 19
0.72 0.07 0.20
Matches are distributed among these distances:
28 15 0.22
31 4 0.06
32 3 0.04
33 22 0.32
34 10 0.15
37 14 0.21
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (33 bp):
AATATTATTTATGAATATATCATATATTAATAC
Found at i:21546815 original size:18 final size:17
Alignment explanation
Indices: 21546792--21546831 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
21546782 TAATGCATTA
21546792 TAATATAATATTATTTAT
1 TAATATAATATT-TTTAT
21546810 TAATATAATATTTTTAT
1 TAATATAATATTTTTAT
*
21546827 AAATA
1 TAATA
21546832 AAATTATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATATAATATTTTTAT
Found at i:21546970 original size:22 final size:21
Alignment explanation
Indices: 21546942--21546994 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
21546932 AAAAGATCTC
21546942 ATTTTTTATTAATCAATAAATT
1 ATTTTTTATTAATCAAT-AATT
** * *
21546964 ATTTTTTGCTGATTAATAATT
1 ATTTTTTATTAATCAATAATT
21546985 ATTTTTTATT
1 ATTTTTTATT
21546995 GATTAATCTG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTTTTATTAATCAATAATT
Found at i:21546984 original size:21 final size:21
Alignment explanation
Indices: 21546942--21547001 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
21546932 AAAAGATCTC
* * *
21546942 ATTTTTTATTAATCAATAAATT
1 ATTTTTTACTGATTAAT-AATT
*
21546964 ATTTTTTGCTGATTAATAATT
1 ATTTTTTACTGATTAATAATT
*
21546985 ATTTTTTATTGATTAAT
1 ATTTTTTACTGATTAAT
21547002 CTGTCAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (21 bp):
ATTTTTTACTGATTAATAATT
Done.