Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 7 of 29
Found at i:807904 original size:16 final size:16
Alignment explanation
Indices: 807885--807915 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
807875 ATTTTTTAAT
807885 TTTTTTATATTATATA
1 TTTTTTATATTATATA
*
807901 TTTTTTGTATTATAT
1 TTTTTTATATTATAT
807916 TGTGTTCAAA
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:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTTATATTATATA
Found at i:808198 original size:33 final size:34
Alignment explanation
Indices: 808159--808226 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 34
808149 ATATGTTTTA
808159 TTATATTACAATT-ATATTTAAAAT-ATTA-ATAAT
1 TTATATTA-AATTAAT-TTTAAAATAATTATATAAT
*
808192 TTATATTATATTAATTTTAAAATAATTATATAAT
1 TTATATTAAATTAATTTTAAAATAATTATATAAT
808226 T
1 T
808227 GTATCATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 11 0.35
33 14 0.45
34 6 0.19
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (34 bp):
TTATATTAAATTAATTTTAAAATAATTATATAAT
Found at i:812665 original size:39 final size:40
Alignment explanation
Indices: 812580--812665 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
812570 TTATAACGCC
812580 GCTAAATTTTAATGTTTAGCGGTATTTTTTCTAAAACACT
1 GCTAAATTTTAATGTTTAGCGGTATTTTTTCTAAAACACT
** * * **
812620 ATTAAATTTTAATGTTTAGCGG-CTTTTTTGTAAAACGTT
1 GCTAAATTTTAATGTTTAGCGGTATTTTTTCTAAAACACT
812659 GCTAAAT
1 GCTAAAT
812666 ATACTTTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 18 0.47
40 20 0.53
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.45
Consensus pattern (40 bp):
GCTAAATTTTAATGTTTAGCGGTATTTTTTCTAAAACACT
Found at i:817602 original size:66 final size:66
Alignment explanation
Indices: 817498--817649 Score: 236
Period size: 66 Copynumber: 2.3 Consensus size: 66
817488 TTGTTTAAAT
* * * *
817498 TAAAT-AA-ATTTATTTATGAATATTAAACGAACATGTTCTAATATATAATCAGTACGTTCATAA
1 TAAATAAAGATTTATTAATGAATATTAAACGAACATGTTCTAATATATAATAAATACATTCATAA
817561 G
66 G
* *
817562 TAAATAAAGATTTATTAATGAATATTAAACGAACTTGTTCTAATATATAATAAATTCATTCATAA
1 TAAATAAAGATTTATTAATGAATATTAAACGAACATGTTCTAATATATAATAAATACATTCATAA
817627 G
66 G
817628 TAAATAAAGATTTATTAATGAA
1 TAAATAAAGATTTATTAATGAA
817650 CAATAGTAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
64 5 0.06
65 2 0.03
66 73 0.91
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (66 bp):
TAAATAAAGATTTATTAATGAATATTAAACGAACATGTTCTAATATATAATAAATACATTCATAA
G
Found at i:818367 original size:21 final size:22
Alignment explanation
Indices: 818328--818377 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
818318 CAATATTTAT
818328 ATATTTTTATAATTAAATAAAA
1 ATATTTTTATAATTAAATAAAA
*
818350 ATATTATTT-TAA-TAAATAAAT
1 ATATT-TTTATAATTAAATAAAA
818371 A-ATTTTT
1 ATATTTTT
818378 CGAACTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
21 9 0.35
22 8 0.31
23 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTTTTATAATTAAATAAAA
Found at i:822899 original size:21 final size:21
Alignment explanation
Indices: 822858--822900 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
822848 GAAAACAAAG
* *
822858 TTTATCGGTTGAAAAAGGCAC
1 TTTATAGGTTGAAAAAAGCAC
822879 TTTATAGGTT-AAAACAAGCAC
1 TTTATAGGTTGAAAA-AAGCAC
822900 T
1 T
822901 ACGAGCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (21 bp):
TTTATAGGTTGAAAAAAGCAC
Found at i:825177 original size:3 final size:3
Alignment explanation
Indices: 825160--825198 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
825150 GAACGTTGCA
825160 ATT ATT -TT 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 ATT AT
825199 GTGTTTGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:834235 original size:20 final size:21
Alignment explanation
Indices: 834187--834235 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
834177 ATTACAAAAA
834187 TTTATA-TATTGTTAACAAAT
1 TTTATATTATTGTTAACAAAT
* * *
834207 TTAATATTATTTTTAAC-ATT
1 TTTATATTATTGTTAACAAAT
834227 TTTATATTA
1 TTTATATTA
834236 AAATTGTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTATATTATTGTTAACAAAT
Found at i:834816 original size:3 final size:3
Alignment explanation
Indices: 834808--834848 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
834798 TCTTATTTCT
834808 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
834849 GTCTTAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:837045 original size:2 final size:2
Alignment explanation
Indices: 837038--837074 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
837028 TACCATAAGT
837038 TA TA TA TA 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 TA TA TA TA T
837075 TCTTTTAGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:837185 original size:2 final size:2
Alignment explanation
Indices: 837180--837225 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
837170 TATTTCTTAC
* * *
837180 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT GT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
837222 AT AT
1 AT AT
837226 TAGGGCCAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
AT
Found at i:843622 original size:1 final size:1
Alignment explanation
Indices: 843616--843714 Score: 72
Period size: 1 Copynumber: 99.0 Consensus size: 1
843606 GAGTTCCCTT
* * * * * * * * * * *
843616 AAAAAAAAAAAAACAAACAAACAAACAAAAAAACACACAAAAAAAAACAAAAAACACAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
843681 AAAAACAAAAAAAAAAAACAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
843715 GTGCAAAGGT
Statistics
Matches: 70, Mismatches: 28, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:843637 original size:8 final size:7
Alignment explanation
Indices: 843616--843712 Score: 87
Period size: 7 Copynumber: 13.9 Consensus size: 7
843606 GAGTTCCCTT
*
843616 AAAAAAA
1 AAAAAAC
843623 AAAAAAC
1 AAAAAAC
843630 AAACAAAC
1 AAA-AAAC
843638 AAACAAA-
1 AAA-AAAC
843645 AAAACACAC
1 AAAA-A-AC
843654 AAAAAA-
1 AAAAAAC
*
843660 AAACAA-
1 AAAAAAC
*
843666 AAAACAC
1 AAAAAAC
843673 AAAAAAC
1 AAAAAAC
843680 AAAAAAC
1 AAAAAAC
843687 AAAAAA-
1 AAAAAAC
843693 AAAAAAC
1 AAAAAAC
843700 AAAACAA-
1 AAAA-AAC
843707 AAAAAA
1 AAAAAA
843713 AAGTGCAAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
6 18 0.23
7 41 0.53
8 15 0.19
9 4 0.05
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:843643 original size:12 final size:11
Alignment explanation
Indices: 843619--843710 Score: 88
Period size: 12 Copynumber: 8.5 Consensus size: 11
843609 TTCCCTTAAA
*
843619 AAAAAAAAAAC
1 AAAAAACAAAC
843630 AAACAAACAAAC
1 AAA-AAACAAAC
*
843642 AAAAAAACACAC
1 -AAAAAACAAAC
843654 AAAAAA-AAAC
1 AAAAAACAAAC
843664 AAAAAAC--AC
1 AAAAAACAAAC
843673 AAAAAACAAA-
1 AAAAAACAAAC
843683 AAACAAA-AAA-
1 AAA-AAACAAAC
843693 AAAAAACAAAAC
1 AAAAAAC-AAAC
843705 AAAAAA
1 AAAAAA
843711 AAAAGTGCAA
Statistics
Matches: 69, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
9 12 0.17
10 18 0.26
11 16 0.23
12 20 0.29
13 3 0.04
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAC
Found at i:843647 original size:20 final size:20
Alignment explanation
Indices: 843616--843714 Score: 97
Period size: 18 Copynumber: 5.3 Consensus size: 20
843606 GAGTTCCCTT
843616 AAAAAA-AAAAAAACAAACA
1 AAAAAACAAAAAAACAAACA
* *
843635 AACAAACAAAAAAACACAC-
1 AAAAAACAAAAAAACAAACA
*
843654 AAAAAA-AAACAAA-AAACA
1 AAAAAACAAAAAAACAAACA
843672 CAAAAAAC-AAAAAACAAA-A
1 -AAAAAACAAAAAAACAAACA
*
843691 AAAAAA-AACAAAACAAA-A
1 AAAAAACAAAAAAACAAACA
843709 AAAAAA
1 AAAAAA
843715 GTGCAAAGGT
Statistics
Matches: 67, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
17 3 0.04
18 28 0.42
19 22 0.33
20 14 0.21
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAACAAAAAAACAAACA
Found at i:843655 original size:16 final size:15
Alignment explanation
Indices: 843618--843713 Score: 101
Period size: 16 Copynumber: 6.4 Consensus size: 15
843608 GTTCCCTTAA
*
843618 AAAAAAAAAAACAAAC
1 AAAAAACAAAA-AAAC
843634 AAACAAACAAAAAAAC
1 AAA-AAACAAAAAAAC
* *
843650 ACACAA-AAAAAAAC
1 AAAAAACAAAAAAAC
843664 AAAAAACACAAAAAAC
1 AAAAAACA-AAAAAAC
843680 AAAAAAC-AAAAAA-
1 AAAAAACAAAAAAAC
843693 AAAAAACAAAACAAA-
1 AAAAAACAAAA-AAAC
843708 AAAAAA
1 AAAAAA
843714 AGTGCAAAGG
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
13 7 0.10
14 21 0.30
15 12 0.17
16 23 0.33
17 7 0.10
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAC
Found at i:845104 original size:32 final size:32
Alignment explanation
Indices: 845063--845634 Score: 451
Period size: 34 Copynumber: 17.9 Consensus size: 32
845053 ATCTCTGCTC
* * *
845063 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* * * * *
845095 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* * *
845125 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* * * * *
845157 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* * * ** *
845187 AAGGTCCACGACTCAATGGCAT-TTTTTCTTC
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* *
845218 AAAGCCCACAACTCCGTGGCACCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
**
845250 AAAGCCCACAACTCCGTGGCA-C--CCT-TTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
*
845278 AAAGCCCACAATTCCGTGGCA-CTTTTTTCATCTT
1 AAAGCCCACAACTCCGTGGCATC-TTTTTC-T-TT
* * * *
845312 TAAGTCCACAACTCCGTGGCACCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* *
845344 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCATCTT-TT-TCTTT
* *
845378 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTC-TTT
*
845411 CAAAGCCCACAACTCCGTGGCA-CTTTTT-TTA
1 -AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
*
845442 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTT-CTT-T
* *
845477 -AAGCCCATAACTCCGTGGCACCCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTT-C-TTT
*
845511 AAAGCCCACGACTCCGTGGCA-C----TCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* *
845538 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCATCTT-TT-TCTTT
845572 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTT--CTTT
* * *
845607 TAAGTCCACAACTTCGTGGCATCTTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTT
845635 TCCTTCCCAA
Statistics
Matches: 459, Mismatches: 49, Indels: 62
0.81 0.09 0.11
Matches are distributed among these distances:
27 23 0.05
28 26 0.06
29 1 0.00
30 69 0.15
31 37 0.08
32 105 0.23
33 15 0.03
34 138 0.30
35 45 0.10
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (32 bp):
AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
Found at i:845131 original size:30 final size:32
Alignment explanation
Indices: 845032--845270 Score: 260
Period size: 32 Copynumber: 7.7 Consensus size: 32
845022 TAAAAAAAAA
*
845032 AAAGTCCACGACTCAGTGGCAATCTCTG-C-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGTCTTC
* *
845063 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
845095 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* *
845125 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
845157 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * *
845187 AAGGTCCACGACTCAATGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * * * *
845218 AAAGCCCACAACTCCGTGGCACCTTT-TCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGT-CTTC
* * *
845250 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
845271 CCCTTTTAAA
Statistics
Matches: 182, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
30 54 0.30
31 55 0.30
32 73 0.40
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
Found at i:845142 original size:62 final size:62
Alignment explanation
Indices: 845032--845238 Score: 319
Period size: 62 Copynumber: 3.3 Consensus size: 62
845022 TAAAAAAAAA
*
845032 AAAGTCCACGACTCAGTGGCAATCTCTG-CTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
845095 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
* * *
845157 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAGGTCCACGACTCAATGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
* * *
845218 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
845239 CCTTTTCCTT
Statistics
Matches: 136, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
61 29 0.21
62 87 0.64
63 20 0.15
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
Found at i:845220 original size:93 final size:94
Alignment explanation
Indices: 845032--845270 Score: 288
Period size: 93 Copynumber: 2.6 Consensus size: 94
845022 TAAAAAAAAA
* * * * *
845032 AAAGTCCACGACTCAGTGGCAATC-TCTGC-TCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCCTTTAAAGTCCACGACTCAGTGGCATCTTTGTCTTC
*
845095 AAAGTCCACGACTCAGTGGCATTTTGTCTC
65 AAAGTCCACGACTCAATGGCATTTTGTCTC
*
845125 AAAGTCCACGACTCAGTGGCATCTTTTTCTTTAAAGTCCACGACTCAGTGGCAT-TTTGTC-TCA
1 AAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAGTCCACGACTCAGTGGCATCTTTGTCTTCA
* *
845188 AGGTCCACGACTCAATGGCATTTTTTCTTC
66 AAGTCCACGACTCAATGGCATTTTGTC-TC
* * * * * * *
845218 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAGTCCACGACTCAGTGGCA
845271 CCCTTTTAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
92 29 0.23
93 75 0.59
94 23 0.18
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (94 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAGTCCACGACTCAGTGGCATCTTTGTCTTCA
AAGTCCACGACTCAATGGCATTTTGTCTC
Found at i:845542 original size:160 final size:156
Alignment explanation
Indices: 845212--845600 Score: 536
Period size: 160 Copynumber: 2.4 Consensus size: 156
845202 ATGGCATTTT
* * *
845212 TTCTTCAAAGCCCACAACTCCGTGGCACCTT-TTCCTTTAAAGCCCACAACTCCGTGGCAC-CCT
1 TTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
* *
845275 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTC
66 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCA-CTTTAAGCCCACAACTCCGTGGCACCTTTTC
845340 CTTTAAAGCCCACAACTCCGTGGCACCTTC
130 CTTTAAAGCCCACAACTCCGTGGCA-C--C
845370 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACT
1 TTC--TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT-AAAGCCCACAACTCCGTGGCACT
* * *
845435 TTTTTTAAAAGCCCACAACTCTGTGGCACTCTTTTTC-CTTCTAAGCCCATAACTCCGTGGCACC
63 CTTTTT-AAAGCCCACAACTCCGTGGCACT-TTTTTCACTT-TAAGCCCACAACTCCGTGGCA-C
*
845499 CTTTTTCCTTTTAAAGCCCACGACTCCGTGGCA-C
124 C-TTTTCC-TTTAAAGCCCACAACTCCGTGGCACC
845533 -TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 TTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTC-TTTTAAAGCCCACAACTCCGTGGCACTCT
845597 TTTT
65 TTTT
845601 CCCTTTTAAG
Statistics
Matches: 209, Mismatches: 10, Indels: 22
0.87 0.04 0.09
Matches are distributed among these distances:
158 3 0.01
160 87 0.42
161 10 0.05
162 24 0.11
163 8 0.04
164 40 0.19
165 8 0.04
166 6 0.03
167 23 0.11
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (156 bp):
TTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTAAAGCCCACAACTCCGTGGCACTTTTTTCACTTTAAGCCCACAACTCCGTGGCACCTTTTCC
TTTAAAGCCCACAACTCCGTGGCACC
Found at i:845544 original size:194 final size:192
Alignment explanation
Indices: 845215--845635 Score: 536
Period size: 194 Copynumber: 2.2 Consensus size: 192
845205 GCATTTTTTC
845215 TTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCCTTTTAA
1 TTCAAAGCCCACAACTCCGTGGCACCTTTT--TTTAAAGCCCACAACTCCGTGGCACCCTTTTAA
* * *
845280 AGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTA
64 AGCCCACAACTCCGTGGCACCTTTTTCATCTTTAAGCCCACAACTCCGTGGCACC--TTCCTTTA
845345 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CT
127 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCT
845408 T
192 T
* *
845409 TTCAAAGCCCACAACTCCGTGGCA-CTTTTTTTAAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTTT-AAAGCCCACAACTCCGTGGCAC-C--CTT--
* * * *
845473 TTCTAAGCCCATAACTCCGTGGCACCCTTTTTCCT-TTTAAAGCCCACGACTCCGTGGCA-C-T-
60 TT-AAAGCCCACAACTCCGTGGCA-CCTTTTTCATCTTT-AAGCCCACAACTCCGTGGCACCTTC
*
845534 CTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
122 CTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTC
845599 TTCCCTT
187 TT-CCTT
* * *
845606 TT--AAGTCCACAACTTCGTGGCATCTTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTT
845636 CCTTCCCAAA
Statistics
Matches: 202, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
191 3 0.01
192 21 0.10
193 6 0.03
194 84 0.42
195 26 0.13
196 7 0.03
197 7 0.03
198 22 0.11
199 26 0.13
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (192 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAAG
CCCACAACTCCGTGGCACCTTTTTCATCTTTAAGCCCACAACTCCGTGGCACCTTCCTTTAAAGC
CCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTT
Found at i:845546 original size:27 final size:27
Alignment explanation
Indices: 845508--845598 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 27
845498 CCTTTTTCCT
*
845508 TTTAAAGCCCACGACTCCGTGGCACTC
1 TTTAAAGCCCACAACTCCGTGGCACTC
845535 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTAAAGCCCACAACTCCGTGGCA----C-TC
845567 TTTTTAAAGCCCACAACTCCGTGGCACTC
1 --TTTAAAGCCCACAACTCCGTGGCACTC
845596 TTT
1 TTT
845599 TTCCCTTTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
27 26 0.46
29 2 0.04
30 1 0.02
31 1 0.02
32 2 0.04
34 24 0.43
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.29
Consensus pattern (27 bp):
TTTAAAGCCCACAACTCCGTGGCACTC
Found at i:845637 original size:35 final size:34
Alignment explanation
Indices: 845534--845637 Score: 120
Period size: 35 Copynumber: 3.0 Consensus size: 34
845524 CCGTGGCACT
* * *
845534 CTTTAAAGCCCACAACTCCGTGGCACCTTCTT-C
1 CTTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
*
845567 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTT-AAGCCCACAACTCCGTGGCACT-TTTTTCC
* *
845603 CTTTTAAGTCCACAACTTCGTGGCATCTTTTTTCC
1 CTTTTAAGCCCACAACTCCGTGGCA-CTTTTTTCC
845638 TTCCCAAAGC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
33 3 0.05
34 21 0.35
35 29 0.48
36 7 0.12
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.36
Consensus pattern (34 bp):
CTTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
Found at i:845774 original size:49 final size:49
Alignment explanation
Indices: 845706--846615 Score: 1315
Period size: 49 Copynumber: 18.8 Consensus size: 49
845696 GCAACCCCTC
* * * *
845706 TAAGCCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
845755 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
845804 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
845853 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
845902 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
845951 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
846000 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
846049 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
846098 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
846147 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
846196 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
846245 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
846294 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
846343 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
846392 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
846441 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
846490 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
846533 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
846576 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
846616 ATTTTCCATC
Statistics
Matches: 774, Mismatches: 84, Indels: 11
0.89 0.10 0.01
Matches are distributed among these distances:
43 80 0.10
45 1 0.00
48 1 0.00
49 691 0.89
50 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:845880 original size:98 final size:98
Alignment explanation
Indices: 845706--846615 Score: 1673
Period size: 98 Copynumber: 9.4 Consensus size: 98
845696 GCAACCCCTC
* * *
845706 TAAGCCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCACT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
845771 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
845804 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
845869 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
845902 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
845967 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
846000 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
846065 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
846098 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
846163 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
846196 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
846261 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
846294 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
846359 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
846392 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
846457 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
846490 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
*
846549 GGCCTTGAATCAGCACATTGGCA----C--CTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * *
846576 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
846616 ATTTTCCATC
Statistics
Matches: 804, Mismatches: 7, Indels: 13
0.98 0.01 0.02
Matches are distributed among these distances:
86 39 0.05
88 1 0.00
92 41 0.05
94 1 0.00
98 722 0.90
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (98 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCATCTTCATCTT
Found at i:846550 original size:43 final size:43
Alignment explanation
Indices: 846438--846649 Score: 250
Period size: 43 Copynumber: 4.8 Consensus size: 43
846428 GCACCTTCAT
* *
846438 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
846485 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
846530 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
846573 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
846616 ATTT---TCCATCTTTAAGCTGGCCTTGAATCAGCAC
1 CTTTAAGTCCA-ATAT-AGCTGGCCTTGAATCAGCAC
846650 GTTGACATCC
Statistics
Matches: 148, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
40 4 0.03
41 2 0.01
42 19 0.13
43 84 0.57
45 1 0.01
49 38 0.26
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:846558 original size:92 final size:86
Alignment explanation
Indices: 846438--846615 Score: 266
Period size: 92 Copynumber: 2.0 Consensus size: 86
846428 GCACCTTCAT
* *
846438 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATA
*
846503 GCTGGCCTTGACTCAGCACATTGGCAC
60 GCTGGCCTTGAATCAGCACATTGGCAC
846530 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
*
846595 CTTGAATCAGCATATTGGCAC
66 CTTGAATCAGCACATTGGCAC
846616 ATTTTCCATC
Statistics
Matches: 82, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
86 40 0.49
88 1 0.01
92 41 0.50
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (86 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGC
CTTGAATCAGCACATTGGCAC
Found at i:846853 original size:171 final size:168
Alignment explanation
Indices: 846573--846957 Score: 611
Period size: 171 Copynumber: 2.3 Consensus size: 168
846563 ACATTGGCAC
* *
846573 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---CAT-TTTCCATCTTTAAGCT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTCAATCTGTAAGCT
846634 GGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAAT
66 GGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAAT
846699 CAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
131 CAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
846737 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT-AAGTTCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTCAA--TC--TGT
*
846801 -AGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCA
61 AAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
*
846865 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
126 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
*
846908 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
846958 ATCTCTAAAA
Statistics
Matches: 203, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
164 40 0.20
168 4 0.02
169 3 0.01
170 2 0.01
171 152 0.75
172 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (168 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTCAATCTGTAAGCT
GGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAAT
CAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:847793 original size:33 final size:33
Alignment explanation
Indices: 847756--847822 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
847746 TTCAATGATT
847756 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
847789 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
847822 T
1 T
847823 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:847794 original size:13 final size:13
Alignment explanation
Indices: 847776--847800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
847766 CATAAAATGT
847776 TGTATCGATACAA
1 TGTATCGATACAA
847789 TGTATCGATACA
1 TGTATCGATACA
847801 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:847891 original size:13 final size:13
Alignment explanation
Indices: 847873--847897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
847863 ATTACTCAAA
847873 TGTATCGATACAT
1 TGTATCGATACAT
847886 TGTATCGATACA
1 TGTATCGATACA
847898 CTGATTGTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:847962 original size:52 final size:52
Alignment explanation
Indices: 847906--848026 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
847896 CACTGATTGT
*
847906 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
847958 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
848010 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
848027 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:851156 original size:2 final size:2
Alignment explanation
Indices: 851151--851178 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
851141 TCTCTCTCTC
851151 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
851179 CTTGGATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:851705 original size:20 final size:22
Alignment explanation
Indices: 851680--851719 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
851670 GAGATTTTTG
851680 AAATTAAATA-ATAA-ATTAAA
1 AAATTAAATATATAATATTAAA
851700 AAATTAAATATATAATATTA
1 AAATTAAATATATAATATTA
851720 CAAGCAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATTAAATATATAATATTAAA
Found at i:852414 original size:22 final size:22
Alignment explanation
Indices: 852367--852414 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
852357 AAAAAATGAT
* *
852367 AATTAAATTATTAGATATATTA
1 AATTAAAATATTAGATATAATA
*
852389 AATTAAAAT-TTATATATAATA
1 AATTAAAATATTAGATATAATA
852410 GAATT
1 -AATT
852415 TATAACGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
AATTAAAATATTAGATATAATA
Found at i:853151 original size:7 final size:7
Alignment explanation
Indices: 853063--853151 Score: 53
Period size: 7 Copynumber: 13.0 Consensus size: 7
853053 AGCGTATAAT
853063 ATATTTA
1 ATATTTA
853070 A-ATTTA
1 ATATTTA
*
853076 AAATTT-
1 ATATTTA
853082 AT-TTTA
1 ATATTTA
*
853088 ATTAATTA
1 A-TATTTA
*
853096 ATATTTT
1 ATATTTA
853103 ATATTTA
1 ATATTTA
* * *
853110 AGATGTG
1 ATATTTA
853117 ATATTATA
1 ATATT-TA
853125 A-ATTTAA
1 ATATTT-A
*
853132 ATTTTTA
1 ATATTTA
853139 AT-TTTA
1 ATATTTA
853145 ATATTTA
1 ATATTTA
853152 TGATATATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 3 0.05
6 15 0.24
7 35 0.56
8 9 0.15
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (7 bp):
ATATTTA
Found at i:853359 original size:5 final size:6
Alignment explanation
Indices: 853338--853368 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
853328 GAAGACATTC
*
853338 TTTTAA TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
853369 AAAAAATCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:854586 original size:13 final size:13
Alignment explanation
Indices: 854565--854596 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
854555 TTATAAAAAA
854565 TTTTCT-TTTTT-
1 TTTTCTCTTTTTC
854576 TTTTCTCTTTTTC
1 TTTTCTCTTTTTC
854589 TTTTCTCT
1 TTTTCTCT
854597 AATTACTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 6 0.32
12 5 0.26
13 8 0.42
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTCTTTTTC
Found at i:854767 original size:19 final size:18
Alignment explanation
Indices: 854738--854774 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
854728 AAATAAATAT
*
854738 TTTTTATAAATTACTTTA
1 TTTTTATAAATTAATTTA
854756 TTTTTATAAAATTAATTTA
1 TTTTTAT-AAATTAATTTA
854775 AATTATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTATAAATTAATTTA
Found at i:855076 original size:18 final size:18
Alignment explanation
Indices: 855050--855096 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
855040 TAATAGGAAT
*
855050 AATTTTTTATTTT-TATAA
1 AATTATTTATTTTGTA-AA
855068 AATTATTTAATTTTGTAAA
1 AATTATTT-ATTTTGTAAA
855087 AATTAATTTA
1 AATT-ATTTA
855097 AATATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 12 0.48
20 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTATTTATTTTGTAAA
Found at i:855112 original size:21 final size:19
Alignment explanation
Indices: 855062--855112 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
855052 TTTTTTATTT
*
855062 TTATAAAATT-ATTTAATT
1 TTATAAAATTAATTTAATA
*
855080 TTGTAAAAATTAATTTAAATA
1 TTAT-AAAATTAATTT-AATA
855101 TTATATAAATTA
1 TTATA-AAATTA
855113 TTATTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.12
19 6 0.23
20 5 0.19
21 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTATAAAATTAATTTAATA
Found at i:855266 original size:172 final size:164
Alignment explanation
Indices: 854910--855277 Score: 388
Period size: 165 Copynumber: 2.2 Consensus size: 164
854900 AGATTATTTG
* * *
854910 ATTTTTAAAAATTTAATTTAAATTATAATATGAATTATTATATATTTTTCTTTGTATTTATTTAG
1 ATTTTTAAAAA-TTAATTTAAA-TATAATATAAATTATTATATAATTTTCTTTGTATTTATGTAG
*
854975 AAAAAAAAAGAGAAAAGGAAAAAAGAAAGAGGGGAAGAAAGAAAAAATTAAATTTTTTATAAAAT
64 AAAAAAAAAGAGAAAA-GAAAAAAGAAAGAGGGGAAGAAAGAAAAAATTAAATTTTTTATAAAAA
* * *
855040 TAATAGGAATAATTTTTTATTTTTATAAAATTATTTA
128 TAATAGAAATAATTTTTTATTTTAATAAAATTATGTA
* *
855077 ATTTTGTAAAAATTAATTTAAATATTATATAAATTATTAT-TAATTTTCTTTGTATTTATGTATA
1 ATTTT-TAAAAATTAATTTAAATATAATATAAATTATTATATAATTTTCTTTGTATTTATGTAGA
* * **
855141 AAGAAGAAAA-ATGAAAA-AAAAAAGAAATA-TGGAAGAAAGGAAAATTTTGAAAATAATTTTTT
65 AA-AA-AAAAGA-GAAAAGAAAAAAGAAAGAGGGGAAGAAA-GAAAAAATT----A-AATTTTTT
* *
855203 TTCAAAAATAAT-GTAAATAAATATTTTATATTTTAAT-AATTTATGTA
121 AT-AAAAATAATAG-AAAT-AAT-TTTT-TATTTTAATAAAATTATGTA
855250 ATTTTTAAAAATTAATTTAAATTATAAT
1 ATTTTTAAAAATTAATTTAAA-TATAAT
855278 TTAATTTACT
Statistics
Matches: 169, Mismatches: 16, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
164 8 0.05
165 41 0.24
166 19 0.11
167 24 0.14
168 6 0.04
169 1 0.01
170 10 0.06
171 11 0.07
172 19 0.11
173 22 0.13
174 8 0.05
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (164 bp):
ATTTTTAAAAATTAATTTAAATATAATATAAATTATTATATAATTTTCTTTGTATTTATGTAGAA
AAAAAAAGAGAAAAGAAAAAAGAAAGAGGGGAAGAAAGAAAAAATTAAATTTTTTATAAAAATAA
TAGAAATAATTTTTTATTTTAATAAAATTATGTA
Found at i:859017 original size:21 final size:20
Alignment explanation
Indices: 858993--859040 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
858983 TTTTGATAGG
858993 ATTTTGATAAATTTTAACATA
1 ATTTTGAT-AATTTTAACATA
* * * *
859014 ATTTTAATAGTTTTTACATG
1 ATTTTGATAATTTTAACATA
859034 ATTTTGA
1 ATTTTGA
859041 CGGTCTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (20 bp):
ATTTTGATAATTTTAACATA
Found at i:859088 original size:21 final size:21
Alignment explanation
Indices: 859064--859150 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
859054 TCATTGATAA
* * *
859064 TTTTTATATAATTTTTGTAAC
1 TTTTGATACAATTTTAGTAAC
*
859085 TTTTGATACAATATTAGTAAC
1 TTTTGATACAATTTTAGTAAC
** * *
859106 CATTGATATC-ATTTTGGTAAT
1 TTTTGATA-CAATTTTAGTAAC
* *
859127 TTTTTATGCAATTTTAGTAAC
1 TTTTGATACAATTTTAGTAAC
859148 TTT
1 TTT
859151 AATATGATTT
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.02
21 47 0.96
22 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTTGATACAATTTTAGTAAC
Found at i:859433 original size:11 final size:11
Alignment explanation
Indices: 859247--859519 Score: 68
Period size: 11 Copynumber: 26.0 Consensus size: 11
859237 TTTTGGCTAG
*
859247 TAATGTTGATA
1 TAATTTTGATA
*
859258 TAATTTTGGTA
1 TAATTTTGATA
* *
859269 -ATTTTTTATA
1 TAATTTTGATA
859279 TAATTTT-A-A
1 TAATTTTGATA
*
859288 TAACCTTTTTAATA
1 TAA---TTTTGATA
*
859302 TGATTTT-A-A
1 TAATTTTGATA
859311 TAACTTTTGATA
1 TAA-TTTTGATA
*
859323 GAATTTTGATA
1 TAATTTTGATA
** *
859334 -ACCTTTAATA
1 TAATTTTGATA
*
859344 TTATTTT-A-A
1 TAATTTTGATA
859353 TAAGCTTTT-ATA
1 TAA--TTTTGATA
*
859365 TAATTTTCATA
1 TAATTTTGATA
*
859376 -AA-TTTAATA
1 TAATTTTGATA
859385 TAATTTT-A-A
1 TAATTTTGATA
**
859394 TAGCTTTGATA
1 TAATTTTGATA
* *
859405 TAGTTTTAATA
1 TAATTTTGATA
**
859416 T-CCTTTGATA
1 TAATTTTGATA
*
859426 TAATTTTGCTA
1 TAATTTTGATA
** *
859437 -ACCTTTGAAA
1 TAATTTTGATA
*
859447 TGATTTTG--A
1 TAATTTTGATA
*
859456 TAATTTTTATA
1 TAATTTTGATA
859467 -AGATTTT-A-A
1 TA-ATTTTGATA
**
859476 GTGCTTTTGATA
1 -TAATTTTGATA
859488 TAATTTTG--A
1 TAATTTTGATA
859497 TAATTTGTGATA
1 TAATTT-TGATA
859509 TAATTTTGATA
1 TAATTTTGATA
859520 ACATTGAGTA
Statistics
Matches: 192, Mismatches: 40, Indels: 60
0.66 0.14 0.21
Matches are distributed among these distances:
9 37 0.19
10 52 0.27
11 80 0.42
12 19 0.10
13 1 0.01
14 3 0.02
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (11 bp):
TAATTTTGATA
Found at i:859443 original size:21 final size:21
Alignment explanation
Indices: 859252--859555 Score: 174
Period size: 21 Copynumber: 14.6 Consensus size: 21
859242 GCTAGTAATG
* **
859252 TTGATATAATTTTGGTAATTT
1 TTGATATAATTTTGATAACCT
* *
859273 TTTATATAATTTTAATAACCTTT
1 TTGATATAATTTTGATAACC--T
* * * *
859296 TTAATATGATTTTAATAACTT
1 TTGATATAATTTTGATAACCT
*
859317 TTGATAGAATTTTGATAACCT
1 TTGATATAATTTTGATAACCT
* * * *
859338 TTAATATTATTTTAATAAGCT
1 TTGATATAATTTTGATAACCT
* * *
859359 TTTATATAATTTTCATAA-AT
1 TTGATATAATTTTGATAACCT
* * *
859379 TTAATATAATTTTAAT-AGCT
1 TTGATATAATTTTGATAACCT
* * *
859399 TTGATATAGTTTTAATATCCT
1 TTGATATAATTTTGATAACCT
*
859420 TTGATATAATTTTGCTAACCT
1 TTGATATAATTTTGATAACCT
* * *
859441 TTGAAATGATTTTGATAA-TT
1 TTGATATAATTTTGATAACCT
* * * *
859461 TTTATA-AGATTTTAAGT-GCTT
1 TTGATATA-ATTTTGA-TAACCT
*
859482 TTGATATAATTTTGATAA-TT
1 TTGATATAATTTTGATAACCT
*
859502 TGTGATATAATTTTGATAA-CA
1 T-TGATATAATTTTGATAACCT
* *
859523 TTGAGTATAA-TTTGGTAACTT
1 TTGA-TATAATTTTGATAACCT
*
859544 TTAATATAATTT
1 TTGATATAATTT
859556 AAAATACAAT
Statistics
Matches: 219, Mismatches: 51, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.00
20 60 0.27
21 139 0.63
22 1 0.00
23 18 0.08
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.51
Consensus pattern (21 bp):
TTGATATAATTTTGATAACCT
Found at i:859515 original size:62 final size:64
Alignment explanation
Indices: 859252--859521 Score: 218
Period size: 62 Copynumber: 4.3 Consensus size: 64
859242 GCTAGTAATG
* ** * * * *
859252 TTGATATAATTTTGGTAATTTTTTATATA-ATTTTAATAACCTTTTTAATATGATTTTAATAACT
1 TTGATATAATTTTGATAACCTTTTATATAGATTTTAAT-AGC-TTTTGATATAATTTTGATAACT
859316 T
64 T
* * * * *
859317 TTGATAGAATTTTGATAACCTTTAATAT-TATTTTAATAAGCTTTT-ATATAATTTTCATAA-AT
1 TTGATATAATTTTGATAACCTTTTATATAGATTTTAAT-AGCTTTTGATATAATTTTGATAACTT
* * * * * * * *
859379 TTAATATAATTTTAAT-AGCTTTGATATAG-TTTTAATATCCTTTGATATAATTTTGCTAACCT
1 TTGATATAATTTTGATAACCTTTTATATAGATTTTAATAGCTTTTGATATAATTTTGATAACTT
* * *
859441 TTGAAATGATTTTGATAA-TTTTTATA-AGATTTTAAGT-GCTTTTGATATAATTTTGATAA-TT
1 TTGATATAATTTTGATAACCTTTTATATAGATTTTAA-TAGCTTTTGATATAATTTTGATAACTT
859502 TGTGATATAATTTTGATAAC
1 T-TGATATAATTTTGATAAC
859522 ATTGAGTATA
Statistics
Matches: 164, Mismatches: 32, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
60 5 0.03
61 33 0.20
62 73 0.45
63 15 0.09
64 4 0.02
65 34 0.21
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (64 bp):
TTGATATAATTTTGATAACCTTTTATATAGATTTTAATAGCTTTTGATATAATTTTGATAACTT
Found at i:859541 original size:20 final size:20
Alignment explanation
Indices: 859506--859555 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
859496 ATAATTTGTG
859506 ATATAATTTTGATAACATTGA
1 ATATAA-TTTGATAACATTGA
* * * *
859527 GTATAATTTGGTAACTTTTA
1 ATATAATTTGATAACATTGA
859547 ATATAATTT
1 ATATAATTT
859556 AAAATACAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (20 bp):
ATATAATTTGATAACATTGA
Found at i:859785 original size:21 final size:20
Alignment explanation
Indices: 859678--859785 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 20
859668 TTTAGGTTAT
*
859678 TAATTTTGATAATCTTT-ATA
1 TAATTTTAAT-ATCTTTGATA
* *
859698 TACTTTTGATGA-CTTTGATA
1 TAATTTTAAT-ATCTTTGATA
* *
859718 TAATTATAATAACTTTTGATA
1 TAATTTTAATATC-TTTGATA
* * **
859739 TGATTTTGATAATCTTT-ACG
1 TAATTTTAAT-ATCTTTGATA
859759 TAATTTTAATATTCTTTGATA
1 TAATTTTAATA-TCTTTGATA
859780 TAATTT
1 TAATTT
859786 AGATGTATAA
Statistics
Matches: 67, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
19 6 0.09
20 35 0.52
21 24 0.36
22 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.53
Consensus pattern (20 bp):
TAATTTTAATATCTTTGATA
Found at i:860418 original size:43 final size:41
Alignment explanation
Indices: 860326--860426 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 41
860316 TTTAATTTTG
*
860326 ATAATCTTTTATAT-TTTTGGTAACCTTTGATAATAAGTTT
1 ATAATCTTTTATATGATTTGGTAACCTTTGATAATAAGTTT
*
860366 AGTAA-CTTTTAATATGATTTGGATAAGCTTTGAT-AT-AGTTAAT
1 A-TAATCTTTT-ATATGATTTGG-TAACCTTTGATAATAAGTT--T
860409 ATAATCTTTTATATGATT
1 ATAATCTTTTATATGATT
860427 ATAGTAACTT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
40 6 0.12
41 11 0.21
42 18 0.35
43 17 0.33
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.50
Consensus pattern (41 bp):
ATAATCTTTTATATGATTTGGTAACCTTTGATAATAAGTTT
Found at i:860529 original size:21 final size:21
Alignment explanation
Indices: 860318--860616 Score: 76
Period size: 21 Copynumber: 14.3 Consensus size: 21
860308 TGGTGGAATT
860318 TAATTTTGATAATCTTTT-ATA
1 TAATTTTGATAA-CTTTTAATA
* * *
860339 T--TTTTGGTAACCTTTGATAA
1 TAATTTTGATAACTTTTAAT-A
*
860359 TAAGTTT-AGTAACTTTTAATA
1 TAATTTTGA-TAACTTTTAATA
* * *
860380 TGATTTGGATAAGC-TTTGATA
1 TAATTTTGATAA-CTTTTAATA
* *
860401 TAGTTAAT-ATAATCTTTT-ATA
1 TAATT-TTGATAA-CTTTTAATA
* *
860422 TGATTAT-AGTAACTTTTAATA
1 TAATTTTGA-TAACTTTTAATA
* ** *
860443 TAATTTAGAT-A-TTTTTTTG
1 TAATTTTGATAACTTTTAATA
* * *
860462 TAATCTTTTG-CAATTTTTTATA
1 TAA--TTTTGATAACTTTTAATA
* *
860484 TAATTTTAATAA-TATTT-GTAA
1 TAATTTTGATAACT-TTTAAT-A
*
860505 TAATTTTGATAACTTTTAATG
1 TAATTTTGATAACTTTTAATA
* * *
860526 TAATTTTAGCA-AGC-TTTATTG
1 TAATTTT-G-ATAACTTTTAATA
* *
860547 TATTTTTGATAAATTTT-ATAA
1 TAATTTTGATAACTTTTAAT-A
* *
860568 CAATTTTGATAA-TCTTAAATA
1 TAATTTTGATAACT-TTTAATA
860589 TAATTTTGATAATCTTTT-ATA
1 TAATTTTGATAA-CTTTTAATA
860610 TAATTTT
1 TAATTTT
860617 AACAATATTA
Statistics
Matches: 203, Mismatches: 45, Indels: 60
0.66 0.15 0.19
Matches are distributed among these distances:
18 4 0.02
19 19 0.09
20 21 0.10
21 121 0.60
22 36 0.18
23 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.53
Consensus pattern (21 bp):
TAATTTTGATAACTTTTAATA
Found at i:860630 original size:21 final size:21
Alignment explanation
Indices: 860586--860630 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
860576 ATAATCTTAA
* * * *
860586 ATATAATTTTGATAATCTTTT
1 ATATAATTTTAACAATATTAT
860607 ATATAATTTTAACAATATTAT
1 ATATAATTTTAACAATATTAT
860628 ATA
1 ATA
860631 ATTTTGGGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATAATTTTAACAATATTAT
Found at i:860669 original size:103 final size:101
Alignment explanation
Indices: 860550--860737 Score: 240
Period size: 103 Copynumber: 1.8 Consensus size: 101
860540 TTTATTGTAT
* *
860550 TTTTGATAAATTTTATAACAA-TTTTGATAATCTTAAAT-ATAATTTTGATAATCTTT-TATATA
1 TTTTGATAAAATTTATAA-AACTTTTGATAAT-TTAAATAATAATTTTGATAATATTTATA-ATA
*
860612 ATTTTAACAATATT-ATATAATTTTGGGTGCCCTCCATATAA
63 A-TCTAAC-AT-TTGATATAATTTTGGGTGCCCTCCATATAA
***
860653 TTTTGATAAAATTTATAAAACTTTTGATAATTTTTTTAATAATTTTGATAATATTTATAATAATC
1 TTTTGATAAAATTTATAAAACTTTTGATAATTTAAATAATAATTTTGATAATATTTATAATAATC
860718 TAACATTTGATATAATTTTG
66 TAACATTTGATATAATTTTG
860738 ATAGAATTTG
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
100 2 0.03
101 13 0.17
102 10 0.13
103 48 0.64
104 2 0.03
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (101 bp):
TTTTGATAAAATTTATAAAACTTTTGATAATTTAAATAATAATTTTGATAATATTTATAATAATC
TAACATTTGATATAATTTTGGGTGCCCTCCATATAA
Found at i:860677 original size:21 final size:21
Alignment explanation
Indices: 860649--860716 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
860639 TGCCCTCCAT
*
860649 ATAATTTTGATAAAATTTATA
1 ATAATTTTGATAATATTTATA
* *
860670 A-AACTTTTGATAATTTTTTTA
1 ATAA-TTTTGATAATATTTATA
860691 ATAATTTTGATAATATTTATA
1 ATAATTTTGATAATATTTATA
860712 ATAAT
1 ATAAT
860717 CTAACATTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (21 bp):
ATAATTTTGATAATATTTATA
Found at i:868565 original size:17 final size:17
Alignment explanation
Indices: 868540--868578 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
868530 AAAATAAATA
868540 TTAAAATATAACTTTTT
1 TTAAAATATAACTTTTT
* *
868557 TTAATATATAATTTTTT
1 TTAAAATATAACTTTTT
868574 TTAAA
1 TTAAA
868579 TTAAACATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATATAACTTTTT
Found at i:868621 original size:16 final size:16
Alignment explanation
Indices: 868583--868615 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
868573 TTTAAATTAA
868583 ACATATTATATCGAAT
1 ACATATTATATCGAAT
*
868599 ACATATTATATCTAAT
1 ACATATTATATCGAAT
868615 A
1 A
868616 TTTATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.39
Consensus pattern (16 bp):
ACATATTATATCGAAT
Found at i:871021 original size:19 final size:19
Alignment explanation
Indices: 870997--871034 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
870987 TTATTTTTAT
870997 ATAATTATAATTAAATAAA
1 ATAATTATAATTAAATAAA
* *
871016 ATAATTTTTATTAAATAAA
1 ATAATTATAATTAAATAAA
871035 TAGTGATTTA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAATTATAATTAAATAAA
Found at i:872862 original size:2 final size:2
Alignment explanation
Indices: 872857--872885 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
872847 CATAATCATA
872857 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 A
872886 CTTTATAATA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:875436 original size:2 final size:2
Alignment explanation
Indices: 875429--875466 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
875419 GACCACAAAG
875429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
875467 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:881356 original size:79 final size:79
Alignment explanation
Indices: 881239--881445 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 79
881229 GAGATAATAA
* * * * * * * *
881239 CGGGGTTGGAGTGTTCCCTTGAAAATAATGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
881304 -TTAGAAAAAAAAAT
65 TTTAGAAAAAAAAAT
* *
881318 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
* ** * *
881383 TTTGGGAATAAAGT
66 TTAGAAAAAAAAAT
* *
881397 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
881446 GAAATAACGA
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 107 0.99
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTAGAAAAAAAAAT
Found at i:881431 original size:28 final size:28
Alignment explanation
Indices: 881397--881468 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
881387 GGAATAAAGT
** *
881397 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
881425 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
881453 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
881469 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:881537 original size:108 final size:109
Alignment explanation
Indices: 881318--881629 Score: 393
Period size: 107 Copynumber: 2.9 Consensus size: 109
881308 AAAAAAAAAT
* * * * * * ***
881318 CGGGATTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCAATTATG-AGAAATCAAT
1 CGGGGTTGGAGTAT-CCC-CGATGAATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGT
* * * *
881381 -A-TTTTGGGAATAAAGTCGGGGTTGGAGTATCCCCTCGGAAGTAA
64 GATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAA
*
881425 CGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGACTGTGAA-AAATTGGT-
1 CGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGTG
881488 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAA
65 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAA
* * * *
881533 CGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGT
1 CGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGTGA
881598 TTTTTGGAAATAAAATCGGAGTTGGAGTATCC
66 TTTTTGGAAATAAAATCGGAGTTGGAGTATCC
881630 TCGATTATAG
Statistics
Matches: 180, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
105 3 0.02
106 3 0.02
107 72 0.40
108 70 0.39
109 32 0.18
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (109 bp):
CGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGTGA
TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAA
Found at i:881544 original size:28 final size:27
Alignment explanation
Indices: 881509--881579 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
881499 TAAAATCGGA
**
881509 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
881537 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
881564 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
881580 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:884082 original size:33 final size:33
Alignment explanation
Indices: 884022--884086 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
884012 AAAATTTTCA
***
884022 AATGTATCGATACAAAGATCCACGTATCGATAT
1 AATGTATCGATACAAAGAAAAACGTATCGATAT
* *
884055 AATGTATCGATACACAGAAAAATGTATCGATA
1 AATGTATCGATACAAAGAAAAACGTATCGATA
884087 CATTTCCTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAACGTATCGATAT
Found at i:884148 original size:13 final size:13
Alignment explanation
Indices: 884130--884154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
884120 ACATTACTTA
884130 TGTATCGATACAT
1 TGTATCGATACAT
884143 TGTATCGATACA
1 TGTATCGATACA
884155 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:884152 original size:32 final size:32
Alignment explanation
Indices: 884111--884173 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
884101 TAGCTAATTA
**
884111 TGTATCGATACATTACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
884143 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
884174 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:884167 original size:19 final size:19
Alignment explanation
Indices: 884108--884175 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
884098 CAGTAGCTAA
**
884108 TTATGTATCGATACATTAC
1 TTATGTATCGATACAAAAC
884127 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
884142 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
884159 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
884176 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 1 0.02
19 28 0.65
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:888549 original size:91 final size:90
Alignment explanation
Indices: 888405--888583 Score: 306
Period size: 89 Copynumber: 2.0 Consensus size: 90
888395 TTTAAAATAC
** *
888405 AATAAAAATTTATAAATTATACAATTAGTAATATTAAAAAAGTTTTCACTTTTTTTTAATAAAAT
1 AATAAAAATTTATAAATTATACAATTAGTAATATTAAAAAAG-AATCACTTTTTTTAAATAAAAT
*
888470 TAAATAATAAAATTTAACCACTGTAT
65 CAAATAATAAAATTTAACCACTGTAT
888496 AATAAAAATTTATAAATTATACAATTAGTAATATTAAAAAA-AATCACTTTTTTTAAATAAAATC
1 AATAAAAATTTATAAATTATACAATTAGTAATATTAAAAAAGAATCACTTTTTTTAAATAAAATC
888560 AAATAATAAAATTTAACCACTGTA
66 AAATAATAAAATTTAACCACTGTA
888584 ATTGCTATAA
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
89 43 0.51
91 41 0.49
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (90 bp):
AATAAAAATTTATAAATTATACAATTAGTAATATTAAAAAAGAATCACTTTTTTTAAATAAAATC
AAATAATAAAATTTAACCACTGTAT
Found at i:888830 original size:2 final size:2
Alignment explanation
Indices: 888818--888937 Score: 62
Period size: 2 Copynumber: 60.0 Consensus size: 2
888808 TACCTTGTTT
* * * * *
888818 TA TA AA TA TA TA TA TA TA TA TT TA TA TA TG TA TT TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
888860 TA CA CA TT TA TA TCG T- TA TA TA TA TC TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * ** * *
888902 TA CA CA CA CG TA TC TT 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
888938 AATAGATACT
Statistics
Matches: 93, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
1 1 0.01
2 91 0.98
3 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:892542 original size:88 final size:89
Alignment explanation
Indices: 892368--892543 Score: 318
Period size: 88 Copynumber: 2.0 Consensus size: 89
892358 TTTAAAATAC
* * *
892368 AATAAAAATTTATAAATTATGCAATTAGTAATATTAAAAAAATTTTACTTTTTTTAATAAAATCA
1 AATAAAAATTTATAAATTATACAATTAGTAATATTAAAAAAATATCACTTTTTTTAATAAAATCA
892433 AATAATAAAATTTAACCACTGTAT
66 AATAATAAAATTTAACCACTGTAT
892457 AATAAAAATTTATAAATTATACAATTAGTAATATTAAAAAAA-ATCACTTTTTTTAATAAAATCA
1 AATAAAAATTTATAAATTATACAATTAGTAATATTAAAAAAATATCACTTTTTTTAATAAAATCA
892521 AATAATAAAATTTAACCACTGTA
66 AATAATAAAATTTAACCACTGTA
892544 ATTGCTATAA
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
88 43 0.51
89 41 0.49
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (89 bp):
AATAAAAATTTATAAATTATACAATTAGTAATATTAAAAAAATATCACTTTTTTTAATAAAATCA
AATAATAAAATTTAACCACTGTAT
Found at i:892790 original size:2 final size:2
Alignment explanation
Indices: 892778--892930 Score: 94
Period size: 2 Copynumber: 76.5 Consensus size: 2
892768 TACCTTGTTT
* * * * * * *
892778 TA TA AA TA TA TA TA TT TA TA TA TA TT TT TT TA TA TA TA CA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
892820 TT TA TA TCG T- TA TA TA TA TC TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* ** ** * * *
892862 TA TA TA TA CA CG TA CC TT TA TA TA TA TA TA TA TA TA GA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
892904 TA -A CTT 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
892931 CTGTGCACGA
Statistics
Matches: 118, Mismatches: 29, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
1 2 0.02
2 115 0.97
3 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:892884 original size:30 final size:30
Alignment explanation
Indices: 892850--892929 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
892840 TTTATATATA
*
892850 TATATATATATATATATATACACGTACCTT
1 TATATATATATATATATATACACGTAACTT
* * *
892880 TATATATATATATATATAGATATGTAACTT
1 TATATATATATATATATATACACGTAACTT
892910 TATATATATATATATATATA
1 TATATATATATATATATATA
892930 TCTGTGCACG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (30 bp):
TATATATATATATATATATACACGTAACTT
Found at i:893741 original size:20 final size:21
Alignment explanation
Indices: 893712--893750 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
893702 AACCTATTAA
893712 TAATAATTTAT-TTTATTTAT
1 TAATAATTTATATTTATTTAT
*
893732 TAATATTTTATATTTATTT
1 TAATAATTTATATTTATTT
893751 GATATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TAATAATTTATATTTATTTAT
Found at i:893764 original size:25 final size:26
Alignment explanation
Indices: 893717--893766 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
893707 ATTAATAATA
* * *
893717 ATTTATTTTATTTATTAATATTTTAT
1 ATTTATTTGATATATTAAAATTTTAT
893743 ATTTATTTGATAT-TTAAAATTTTA
1 ATTTATTTGATATATTAAAATTTTA
893767 AAATATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
ATTTATTTGATATATTAAAATTTTAT
Found at i:893794 original size:17 final size:18
Alignment explanation
Indices: 893741--893814 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 18
893731 TTAATATTTT
893741 ATATTTATTTGATATTTAAA
1 ATATTTATTT-ATA-TTAAA
**
893761 AT-TTTA-AAATATT-AA
1 ATATTTATTTATATTAAA
893776 ATATTTA-TTATATTAAA
1 ATATTTATTTATATTAAA
*
893793 AT-TTATATTTATATAAAA
1 ATATT-TATTTATATTAAA
893811 ATAT
1 ATAT
893815 AATATTTATG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
15 4 0.09
16 13 0.30
17 9 0.20
18 11 0.25
19 5 0.11
20 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (18 bp):
ATATTTATTTATATTAAA
Found at i:893806 original size:18 final size:19
Alignment explanation
Indices: 893783--893823 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
893773 TAAATATTTA
* *
893783 TTATATTAAAAT-TTATAT
1 TTATATAAAAATATAATAT
893801 TTATATAAAAATATAATAT
1 TTATATAAAAATATAATAT
893820 TTAT
1 TTAT
893824 GTATTAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATATAAAAATATAATAT
Found at i:893922 original size:18 final size:17
Alignment explanation
Indices: 893888--893948 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
893878 TAAAAATAAA
*
893888 ATATTT-AAATACAATTG
1 ATATTTAAAATA-TATTG
893905 ATATATTAAAATATATTG
1 ATAT-TTAAAATATATTG
*
893923 ATATTTAACATAT-TT-
1 ATATTTAAAATATATTG
893938 ATA-TTAAAATA
1 ATATTTAAAATA
893949 AAATCAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 7 0.18
15 3 0.08
16 2 0.05
17 12 0.31
18 10 0.26
19 5 0.13
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATTTAAAATATATTG
Found at i:895391 original size:15 final size:15
Alignment explanation
Indices: 895368--895413 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
895358 TTTTAATAAA
*
895368 TAATTTTTAAAATATT
1 TAATATTTAAAAT-TT
895384 TAA-ATTT-AAATTT
1 TAATATTTAAAATTT
895397 TAATATTTAAAATTT
1 TAATATTTAAAATTT
895412 TA
1 TA
895414 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.19
14 8 0.30
15 11 0.41
16 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATATTTAAAATTT
Found at i:895419 original size:14 final size:14
Alignment explanation
Indices: 895373--895419 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
895363 ATAAATAATT
*
895373 TTTAAAATATTTAAA
1 TTTAAAAT-TTTATA
895388 TTT-AAATTTTAATA
1 TTTAAAATTTT-ATA
*
895402 TTTAAAATTTTATT
1 TTTAAAATTTTATA
895416 TTTA
1 TTTA
895420 TAATAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 3 0.11
14 15 0.54
15 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAAAATTTTATA
Found at i:896294 original size:2 final size:2
Alignment explanation
Indices: 896287--896317 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
896277 ACAAATTCTC
896287 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
896318 ATTACACCAA
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:897535 original size:40 final size:40
Alignment explanation
Indices: 897476--897552 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
897466 ATGGGTAACT
*
897476 TTTTTTAAGTAAAAGATTAAAATATCTCTAATTTTATAAA
1 TTTTTTAAGTAAAAAATTAAAATATCTCTAATTTTATAAA
897516 TTTTTTAAGTAAAAAATTAAAATATCTCTAATTTTAT
1 TTTTTTAAGTAAAAAATTAAAATATCTCTAATTTTAT
897553 TTTATATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (40 bp):
TTTTTTAAGTAAAAAATTAAAATATCTCTAATTTTATAAA
Found at i:897854 original size:22 final size:20
Alignment explanation
Indices: 897828--897873 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
897818 TATTTTTATT
897828 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TAT-AAAATA-A
897850 TAAATATTAATATAAAATAA
1 TAAATATTAATATAAAATAA
897870 TAAA
1 TAAA
897874 ATAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.22
21 6 0.26
22 8 0.35
23 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAATATTAATATAAAATAA
Found at i:902680 original size:19 final size:17
Alignment explanation
Indices: 902649--902692 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
902639 TTTTTCTTTA
*
902649 ATTTTTTACTCAAAACAT
1 ATTTTTAACTCAAAA-AT
*
902667 ATTTTTAACTTCAAAATT
1 ATTTTTAAC-TCAAAAAT
902685 ATTTTTAA
1 ATTTTTAA
902693 TTAGGTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTTAACTCAAAAAT
Found at i:902723 original size:33 final size:31
Alignment explanation
Indices: 902683--902755 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 31
902673 AACTTCAAAA
*
902683 TTATTTTTAATTAGGTTAAA-ATATAATTAAAT
1 TTATTTTTAATTAAG-TAAATATAT-ATTAAAT
*
902715 TATATTTTTATTTAAGTAAATATATATTAAAT
1 T-TATTTTTAATTAAGTAAATATATATTAAAT
902747 TT-TTTTTAA
1 TTATTTTTAA
902756 AATTCGAGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 6 0.17
31 1 0.03
32 13 0.36
33 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (31 bp):
TTATTTTTAATTAAGTAAATATATATTAAAT
Found at i:902969 original size:25 final size:26
Alignment explanation
Indices: 902917--902970 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
902907 TTTTGATATT
*
902917 AATATATTATGTTATTTTTATTTAAA
1 AATAAATTATGTTATTTTTATTTAAA
902943 AATAAATTAT-TT-TTTATTATTTTAAA
1 AATAAATTATGTTATTT-TTA-TTTAAA
902969 AA
1 AA
902971 ATCTAAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 3 0.12
25 5 0.20
26 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
AATAAATTATGTTATTTTTATTTAAA
Found at i:907040 original size:11 final size:12
Alignment explanation
Indices: 907003--907099 Score: 62
Period size: 11 Copynumber: 8.1 Consensus size: 12
906993 TCATTAGTAC
907003 AATA-AAAATAT
1 AATATAAAATAT
907014 AATATAACAATAAT
1 AATATAA-AAT-AT
907028 AAT-TAAAATAT
1 AATATAAAATAT
907039 AATATAAAATTTTAT
1 AATATAAAA---TAT
* *
907054 ATTATAAAAAAAT
1 AATAT-AAAATAT
*
907067 AAAAT-AAATAT
1 AATATAAAATAT
*
907078 GATAT-AAATAT
1 AATATAAAATAT
907089 -ATAT-AAATAT
1 AATATAAAATAT
907099 A
1 A
907100 TTAAATTTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
10 10 0.14
11 23 0.33
12 10 0.14
13 11 0.16
14 5 0.07
15 7 0.10
16 4 0.06
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (12 bp):
AATATAAAATAT
Found at i:907094 original size:10 final size:10
Alignment explanation
Indices: 907070--907105 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
907060 AAAAAATAAA
907070 ATAAATATGAT
1 ATAAATAT-AT
907081 ATAAATATAT
1 ATAAATATAT
907091 ATAAATATAT
1 ATAAATATAT
907101 -TAAAT
1 ATAAAT
907106 TTTATTTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 5 0.20
10 12 0.48
11 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
ATAAATATAT
Found at i:911228 original size:2 final size:2
Alignment explanation
Indices: 911221--911259 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
911211 GCTAGAGTTT
911221 TA TA TA TA TA 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 TA TA TA TA TA T
911260 TGTCTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:914275 original size:18 final size:18
Alignment explanation
Indices: 914237--914275 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
914227 TATAAAAAAG
*
914237 TAAATTTAATTTGTTATA
1 TAAATTTAATTTGTTAAA
914255 TAAATTTAACTTT-TTAAA
1 TAAATTTAA-TTTGTTAAA
914273 TAA
1 TAA
914276 TTAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
TAAATTTAATTTGTTAAA
Found at i:918018 original size:39 final size:40
Alignment explanation
Indices: 917973--918068 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 40
917963 AAAAACTTGG
*
917973 TTTTGATATAAACTTACTAAAATAAAT-TTAATAGATAT-A
1 TTTTGATATAAACTTACTAAAAT-AATCTTAAAAGATATGA
** * *
918012 TTTTGATATAAAAGTACTAATATAATCTTAAAAGATTTGA
1 TTTTGATATAAACTTACTAAAATAATCTTAAAAGATATGA
*
918052 TTTTGATTCTAAACTTA
1 TTTTGA-TATAAACTTA
918069 GCTAGAAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
38 3 0.07
39 29 0.63
40 7 0.15
41 7 0.15
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (40 bp):
TTTTGATATAAACTTACTAAAATAATCTTAAAAGATATGA
Found at i:918663 original size:21 final size:22
Alignment explanation
Indices: 918635--918676 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
918625 TTAATTACAA
918635 AATTTATA-TTT-TTATAATAT
1 AATTTATATTTTATTATAATAT
918655 AATTATATATTTTATTATAATA
1 AATT-TATATTTTATTATAATA
918677 GTTAGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 3 0.16
23 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTATATTTTATTATAATAT
Found at i:918828 original size:20 final size:21
Alignment explanation
Indices: 918789--918831 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
918779 TATATTTAAT
*
918789 TATTAAAAATAATTAAAAATA
1 TATTAAAAATAATAAAAAATA
*
918810 TATTTAAAA-AATAAAAAATA
1 TATTAAAAATAATAAAAAATA
918830 TA
1 TA
918832 ATATAAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TATTAAAAATAATAAAAAATA
Found at i:922507 original size:20 final size:21
Alignment explanation
Indices: 922482--922523 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
922472 AATTATTTTA
922482 AATAAAT-C-AAAATAATAAAT
1 AATAAATACAAAAATAA-AAAT
922502 AATAAATACAAAAATAAAAAT
1 AATAAATACAAAAATAAAAAT
922523 A
1 A
922524 TATATCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (21 bp):
AATAAATACAAAAATAAAAAT
Found at i:924515 original size:20 final size:20
Alignment explanation
Indices: 924490--924527 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
924480 CACCGGTGAC
*
924490 CGACGATCGATAGTGGTCAT
1 CGACGATCGACAGTGGTCAT
924510 CGACGATCGACAGTGGTC
1 CGACGATCGACAGTGGTC
924528 GCGGGCGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.21
Consensus pattern (20 bp):
CGACGATCGACAGTGGTCAT
Found at i:925172 original size:2 final size:2
Alignment explanation
Indices: 925165--925189 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
925155 TTGTTTCATT
925165 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 T
925190 TGAAAATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:925360 original size:11 final size:10
Alignment explanation
Indices: 925342--925392 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
925332 GATTTTCACA
925342 AAAAAAATAT
1 AAAAAAATAT
925352 AAAATAAATA-
1 AAAA-AAATAT
925362 AAAAGAAAGTAT
1 AAAA-AAA-TAT
925374 AAAAAAATAAT
1 AAAAAAAT-AT
*
925385 AATAAAAT
1 AAAAAAAT
925393 GTGTTTTCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 12 0.34
11 19 0.54
12 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:925381 original size:21 final size:20
Alignment explanation
Indices: 925341--925383 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
925331 TGATTTTCAC
925341 AAAAAAAATATAAAATAAAT
1 AAAAAAAATATAAAATAAAT
925361 AAAAAGAAAGTATAAAA-AAAT
1 AAAAA-AAA-TATAAAATAAAT
925382 AA
1 AA
925384 TAATAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAAAAATATAAAATAAAT
Found at i:929237 original size:67 final size:67
Alignment explanation
Indices: 929104--929237 Score: 162
Period size: 67 Copynumber: 2.0 Consensus size: 67
929094 TATTTACAGT
* * * * *
929104 TCATGCATTAGTTTTATCAACTTCTTTCATATAATAAGGAATTTGATTTCCATTAAGAATCTATG
1 TCATGCATTAATTTTATCAACTTCTTTCATATAAGAAGGAATATGATTCCCATTAAGAATCAATG
929169 CA
66 CA
* * * * *
929171 TCATGCATTAATTTTATCAATTTGTTTCATATCAGAATGAATATGATTCCCA-TCAGCAATCAAT
1 TCATGCATTAATTTTATCAACTTCTTTCATATAAGAAGGAATATGATTCCCATTAAG-AATCAAT
929235 GCA
65 GCA
929238 ATAATCACAT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 3 0.05
67 53 0.95
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (67 bp):
TCATGCATTAATTTTATCAACTTCTTTCATATAAGAAGGAATATGATTCCCATTAAGAATCAATG
CA
Found at i:929530 original size:39 final size:39
Alignment explanation
Indices: 929487--929568 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
929477 TGGGTTACAA
* *
929487 CTTTCAGATTTCAATAAAAAATCTATACATTACTAATAT
1 CTTTCAAATTTCAATAAAAAATATATACATTACTAATAT
* * *
929526 CTTTCAAATTTCAATAAAAAATATATGCATTAGTCATAT
1 CTTTCAAATTTCAATAAAAAATATATACATTACTAATAT
929565 CTTT
1 CTTT
929569 TATATTTTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.40
Consensus pattern (39 bp):
CTTTCAAATTTCAATAAAAAATATATACATTACTAATAT
Found at i:930393 original size:15 final size:15
Alignment explanation
Indices: 930373--930407 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
930363 CGAAAAATTA
930373 TTTAAACATTTTTAT
1 TTTAAACATTTTTAT
*
930388 TTTAAATATTTTTAT
1 TTTAAACATTTTTAT
930403 TTTAA
1 TTTAA
930408 TATTTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAAACATTTTTAT
Found at i:930409 original size:14 final size:14
Alignment explanation
Indices: 930370--930413 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
930360 CTACGAAAAA
* *
930370 TTATTTAAACATTT
1 TTATTTTAATATTT
930384 TTATTTTAAATATTT
1 TTATTTT-AATATTT
930399 TTATTTTAATATTT
1 TTATTTTAATATTT
930413 T
1 T
930414 AAGTAATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTAATATTT
Found at i:937465 original size:15 final size:15
Alignment explanation
Indices: 937431--937467 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
937421 TATAAAAAAT
937431 AAATATATAATATTA
1 AAATATATAATATTA
*
937446 TAATATA-AATATTA
1 AAATATATAATATTA
937460 AAA-ATATA
1 AAATATATA
937468 TGTTACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 3 0.16
14 10 0.53
15 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATATAATATTA
Found at i:937467 original size:30 final size:30
Alignment explanation
Indices: 937431--937490 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
937421 TATAAAAAAT
937431 AAATATATAATA-TTATAATATAAATATTAA
1 AAATATATAATACTTAT-ATATAAATATTAA
** *
937461 AAATATATGTTACTTATATTTAAATATTAA
1 AAATATATAATACTTATATATAAATATTAA
937491 TAAAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
AAATATATAATACTTATATATAAATATTAA
Found at i:938475 original size:25 final size:26
Alignment explanation
Indices: 938394--938477 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 26
938384 AGATTTGATA
* *
938394 ATTTTTATATTTATATTATATTCATAT
1 ATTTTT-TATTTATATTATATTTAAAT
*
938421 ATTTTATTATATAATAATTATATTTAAAAT
1 ATTTT-TTAT-TTAT-ATTATATTT-AAAT
938451 ATTTTTTATTTATATTA-ATTTAAAT
1 ATTTTTTATTTATATTATATTTAAAT
938476 AT
1 AT
938478 ATCAATAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
25 6 0.12
26 4 0.08
27 12 0.24
28 7 0.14
29 12 0.24
30 8 0.16
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTTTTATTTATATTATATTTAAAT
Found at i:941969 original size:12 final size:13
Alignment explanation
Indices: 941952--941981 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
941942 AATATTTATT
941952 TTTTAAATA-AAA
1 TTTTAAATATAAA
941964 TTTTAAATATAAA
1 TTTTAAATATAAA
941977 TTTTA
1 TTTTA
941982 TTAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAATATAAA
Found at i:941997 original size:15 final size:15
Alignment explanation
Indices: 941979--942013 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
941969 AATATAAATT
941979 TTATTAATAAAAAAA
1 TTATTAATAAAAAAA
**
941994 TTATTGTTAAAAAAA
1 TTATTAATAAAAAAA
942009 TTATT
1 TTATT
942014 TTTAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
TTATTAATAAAAAAA
Found at i:942030 original size:16 final size:15
Alignment explanation
Indices: 941986--942030 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
941976 ATTTTATTAA
*
941986 TAAAAAAATTATTGT
1 TAAAAAAATTATTTT
942001 TAAAAAAATTATTTT
1 TAAAAAAATTATTTT
*
942016 TAAAATAAATAATTT
1 TAAAA-AAATTATTT
942031 AATTTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 19 0.70
16 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TAAAAAAATTATTTT
Found at i:942036 original size:20 final size:19
Alignment explanation
Indices: 942013--942051 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
942003 AAAAAATTAT
942013 TTTTAAAATAAATAATTTAA
1 TTTT-AAATAAATAATTTAA
* *
942033 TTTTAATTAAATTATTTAA
1 TTTTAAATAAATAATTTAA
942052 AATTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAAATAAATAATTTAA
Found at i:942062 original size:19 final size:19
Alignment explanation
Indices: 942019--942070 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
942009 TTATTTTTAA
* *
942019 AATAAATAATTT-AATTTT
1 AATAAATTATTTAAAATTT
942037 AATTAAATTATTTAAAATTT
1 AA-TAAATTATTTAAAATTT
942057 AATAAATT-TTTAAA
1 AATAAATTATTTAAA
942071 TATTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.27
19 15 0.50
20 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAAATTATTTAAAATTT
Found at i:942069 original size:51 final size:49
Alignment explanation
Indices: 942011--942110 Score: 116
Period size: 52 Copynumber: 2.0 Consensus size: 49
942001 TAAAAAAATT
942011 ATTTTTAAA-A-TAAATAATTTAATTTTAATTAAATTATTTAA-AATTTAATAA
1 ATTTTTAAATATTAAA-AATTTAATTTTAA--AAA--ATTTAATAATTTAATAA
* *
942062 ATTTTTAAATATTAAAATTTTATTTTTAAAAAATTTAATAATTTAATAA
1 ATTTTTAAATATTAAAAATTTAATTTTAAAAAATTTAATAATTTAATAA
942111 TTTATATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
48 6 0.14
49 10 0.23
50 3 0.07
51 9 0.20
52 12 0.27
53 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (49 bp):
ATTTTTAAATATTAAAAATTTAATTTTAAAAAATTTAATAATTTAATAA
Found at i:942125 original size:28 final size:31
Alignment explanation
Indices: 942093--942173 Score: 96
Period size: 32 Copynumber: 2.7 Consensus size: 31
942083 ATTTTTAAAA
*
942093 AATTTAATA-ATTTA-ATAAT-TTATATTAT
1 AATTTAATATATTTATATAATATTATATAAT
* *
942121 AATTTTATATATTTATATTATATTATATAAT
1 AATTTAATATATTTATATAATATTATATAAT
*
942152 ATTTTTAATATATTTATATAAT
1 A-ATTTAATATATTTATATAAT
942174 GTTGCTTAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 8 0.19
29 5 0.12
30 4 0.09
31 9 0.21
32 17 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
AATTTAATATATTTATATAATATTATATAAT
Found at i:942129 original size:13 final size:12
Alignment explanation
Indices: 942107--942170 Score: 52
Period size: 11 Copynumber: 5.9 Consensus size: 12
942097 TAATAATTTA
942107 ATAATTTATATT
1 ATAATTTATATT
942119 ATAATTT-TA-T
1 ATAATTTATATT
942129 AT-ATTTATATT
1 ATAATTTATATT
*
942140 AT-A-TTATATA
1 ATAATTTATATT
* *
942150 AT-ATTTTTAAT
1 ATAATTTATATT
942161 AT-ATTTATAT
1 ATAATTTATAT
942171 AATGTTGCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
9 4 0.09
10 14 0.33
11 18 0.42
12 7 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATAATTTATATT
Found at i:942134 original size:21 final size:20
Alignment explanation
Indices: 942110--942171 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
942100 TAATTTAATA
942110 ATTTATATTATAATTTTATAT
1 ATTTATATTAT-ATTTTATAT
*
942131 ATTTATATTATATTATATAAT
1 ATTTATATTATATTTTAT-AT
* *
942152 ATTTTTAATATA-TTTATAT
1 ATTTATATTATATTTTATAT
942171 A
1 A
942172 ATGTTGCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.08
20 10 0.28
21 23 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTATATTATATTTTATAT
Found at i:943379 original size:2 final size:2
Alignment explanation
Indices: 943374--943408 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
943364 TGTGTGTGTG
943374 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
943409 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:943413 original size:2 final size:2
Alignment explanation
Indices: 943408--943438 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
943398 TCTCTCTCTC
943408 TA 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 TA T
943439 GTATGTATGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:948366 original size:15 final size:15
Alignment explanation
Indices: 948346--948374 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
948336 TCGTTTCAGT
948346 ATTATTGTTATTATC
1 ATTATTGTTATTATC
948361 ATTATTGTTATTAT
1 ATTATTGTTATTAT
948375 TAAAGGCTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
ATTATTGTTATTATC
Found at i:951419 original size:24 final size:24
Alignment explanation
Indices: 951374--951419 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
951364 ATTAATGTAT
* *
951374 TATTTTTTAAATTAAATATAAAAA
1 TATTTTTAAAATAAAATATAAAAA
951398 TATTTTTAAAATAATAAT-TAAA
1 TATTTTTAAAATAA-AATATAAA
951420 TAATTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TATTTTTAAAATAAAATATAAAAA
Found at i:956373 original size:21 final size:21
Alignment explanation
Indices: 956348--956401 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
956338 AGAGTCTGGT
956348 AATAATATAATAAAATAAT-AA
1 AATAATATAATAAAAT-ATGAA
*
956369 AATAA-ATTAAAAAAATATGAA
1 AATAATA-TAATAAAATATGAA
956390 AAT--TATAATAAA
1 AATAATATAATAAA
956402 TAAAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 6 0.21
20 4 0.14
21 18 0.64
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATATAATAAAATATGAA
Found at i:956929 original size:17 final size:17
Alignment explanation
Indices: 956907--956945 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
956897 TCATCTAAAT
956907 TTAAAGATGATATATA-A
1 TTAAAGAT-ATATATATA
956924 TTAAAGATATATATATA
1 TTAAAGATATATATATA
956941 TTAAA
1 TTAAA
956946 TCATAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
TTAAAGATATATATATA
Done.