Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 12 of 362
Found at i:3950312 original size:26 final size:26
Alignment explanation
Indices: 3950281--3950364 Score: 80
Period size: 26 Copynumber: 3.1 Consensus size: 26
3950271 GACACCTTAA
*
3950281 AAATAACATACAAAAGAGTTTAAAAT
1 AAATAATATACAAAAGAGTTTAAAAT
**
3950307 AAATAATATGTAAAAGAGAAATTTAAAAT
1 AAATAATATACAAAAGAG---TTTAAAAT
* *
3950336 AAATAATGTACAAAAACAGTTT-AAAT
1 AAATAATATAC-AAAAGAGTTTAAAAT
3950362 AAA
1 AAA
3950365 AAAATTATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
26 22 0.47
27 3 0.06
29 16 0.34
30 6 0.13
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.25
Consensus pattern (26 bp):
AAATAATATACAAAAGAGTTTAAAAT
Found at i:3951110 original size:27 final size:27
Alignment explanation
Indices: 3951000--3951131 Score: 83
Period size: 27 Copynumber: 5.0 Consensus size: 27
3950990 TAAAAAAAAC
* * * * *
3951000 TTAAAATAGATAATACATATATAATGGT
1 TTAAAATAAATAATATATGTAAAAT-AT
** *
3951028 TTAAAATAAATAACGTAT-AAAAATAT
1 TTAAAATAAATAATATATGTAAAATAT
* * * *
3951054 TTCAAAATAAGT-A-ATATGTACAGTAG
1 TT-AAAATAAATAATATATGTAAAATAT
3951080 TTAAAATAAATAATATATGTAAAATAT
1 TTAAAATAAATAATATATGTAAAATAT
** *
3951107 TTAAAATTTATAATA-ATTTAAAATA
1 TTAAAATAAATAATATATGTAAAATA
3951132 CATAAGACGT
Statistics
Matches: 80, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
25 11 0.14
26 20 0.25
27 35 0.44
28 14 0.17
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (27 bp):
TTAAAATAAATAATATATGTAAAATAT
Found at i:3951205 original size:25 final size:26
Alignment explanation
Indices: 3951152--3951217 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
3951142 AAAAAAAGGA
* * *
3951152 TTAAAATAAGTAATA-ATAAAATTAT
1 TTAAAATAAATAATATATAAAATAAC
3951177 TTAAAATAAATAATATATAAAA-AAC
1 TTAAAATAAATAATATATAAAATAAC
3951202 TTAAAA-AGAATAATAT
1 TTAAAATA-AATAATAT
3951218 TAACAGTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 29 0.81
26 6 0.17
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAATAAC
Found at i:3952084 original size:13 final size:13
Alignment explanation
Indices: 3952066--3952095 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3952056 TTTAACAATA
3952066 CTTTTAAAAAGCG
1 CTTTTAAAAAGCG
*
3952079 CTTTTAAAAAGTG
1 CTTTTAAAAAGCG
3952092 CTTT
1 CTTT
3952096 GGAGAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
CTTTTAAAAAGCG
Found at i:3956956 original size:26 final size:26
Alignment explanation
Indices: 3956925--3957008 Score: 80
Period size: 26 Copynumber: 3.1 Consensus size: 26
3956915 GACACCTTAA
*
3956925 AAATAACATACAAAAGAGTTTAAAAT
1 AAATAATATACAAAAGAGTTTAAAAT
**
3956951 AAATAATATGTAAAAGAGAAATTTAAAAT
1 AAATAATATACAAAAGAG---TTTAAAAT
* *
3956980 AAATAATGTACAAAAACAGTTT-AAAT
1 AAATAATATAC-AAAAGAGTTTAAAAT
3957006 AAA
1 AAA
3957009 AAAATTATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
26 22 0.47
27 3 0.06
29 16 0.34
30 6 0.13
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.25
Consensus pattern (26 bp):
AAATAATATACAAAAGAGTTTAAAAT
Found at i:3957754 original size:27 final size:27
Alignment explanation
Indices: 3957644--3957775 Score: 83
Period size: 27 Copynumber: 5.0 Consensus size: 27
3957634 TAAAAAAAAC
* * * * *
3957644 TTAAAATAGATAATACATATATAATGGT
1 TTAAAATAAATAATATATGTAAAAT-AT
** *
3957672 TTAAAATAAATAACGTAT-AAAAATAT
1 TTAAAATAAATAATATATGTAAAATAT
* * * *
3957698 TTCAAAATAAGT-A-ATATGTACAGTAG
1 TT-AAAATAAATAATATATGTAAAATAT
3957724 TTAAAATAAATAATATATGTAAAATAT
1 TTAAAATAAATAATATATGTAAAATAT
** *
3957751 TTAAAATTTATAATA-ATTTAAAATA
1 TTAAAATAAATAATATATGTAAAATA
3957776 CATAAGACGT
Statistics
Matches: 80, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
25 11 0.14
26 20 0.25
27 35 0.44
28 14 0.17
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (27 bp):
TTAAAATAAATAATATATGTAAAATAT
Found at i:3957849 original size:25 final size:26
Alignment explanation
Indices: 3957796--3957861 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
3957786 AAAAAAAGGA
* * *
3957796 TTAAAATAAGTAATA-ATAAAATTAT
1 TTAAAATAAATAATATATAAAATAAC
3957821 TTAAAATAAATAATATATAAAA-AAC
1 TTAAAATAAATAATATATAAAATAAC
3957846 TTAAAA-AGAATAATAT
1 TTAAAATA-AATAATAT
3957862 TAACAGTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 29 0.81
26 6 0.17
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAATAAC
Found at i:3958723 original size:13 final size:13
Alignment explanation
Indices: 3958705--3958734 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3958695 TTTAACAATA
3958705 CTTTTAAAAAGCG
1 CTTTTAAAAAGCG
*
3958718 CTTTTAAAAAGTG
1 CTTTTAAAAAGCG
3958731 CTTT
1 CTTT
3958735 GGAGAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
CTTTTAAAAAGCG
Found at i:3963596 original size:26 final size:26
Alignment explanation
Indices: 3963565--3963648 Score: 80
Period size: 26 Copynumber: 3.1 Consensus size: 26
3963555 GACACCTTAA
*
3963565 AAATAACATACAAAAGAGTTTAAAAT
1 AAATAATATACAAAAGAGTTTAAAAT
**
3963591 AAATAATATGTAAAAGAGAAATTTAAAAT
1 AAATAATATACAAAAGAG---TTTAAAAT
* *
3963620 AAATAATGTACAAAAACAGTTT-AAAT
1 AAATAATATAC-AAAAGAGTTTAAAAT
3963646 AAA
1 AAA
3963649 AAAATTATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
26 22 0.47
27 3 0.06
29 16 0.34
30 6 0.13
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.25
Consensus pattern (26 bp):
AAATAATATACAAAAGAGTTTAAAAT
Found at i:3964378 original size:27 final size:27
Alignment explanation
Indices: 3964268--3964399 Score: 83
Period size: 27 Copynumber: 5.0 Consensus size: 27
3964258 TAAAAAAAAC
* * * * *
3964268 TTAAAATAGATAATACATATATAATGGT
1 TTAAAATAAATAATATATGTAAAAT-AT
** *
3964296 TTAAAATAAATAACGTAT-AAAAATAT
1 TTAAAATAAATAATATATGTAAAATAT
* * * *
3964322 TTCAAAATAAGT-A-ATATGTACAGTAG
1 TT-AAAATAAATAATATATGTAAAATAT
3964348 TTAAAATAAATAATATATGTAAAATAT
1 TTAAAATAAATAATATATGTAAAATAT
** *
3964375 TTAAAATTTATAATA-ATTTAAAATA
1 TTAAAATAAATAATATATGTAAAATA
3964400 CATAAGACGT
Statistics
Matches: 80, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
25 11 0.14
26 20 0.25
27 35 0.44
28 14 0.17
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (27 bp):
TTAAAATAAATAATATATGTAAAATAT
Found at i:3964473 original size:25 final size:26
Alignment explanation
Indices: 3964420--3964485 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
3964410 AAAAAAAGGA
* * *
3964420 TTAAAATAAGTAATA-ATAAAATTAT
1 TTAAAATAAATAATATATAAAATAAC
3964445 TTAAAATAAATAATATATAAAA-AAC
1 TTAAAATAAATAATATATAAAATAAC
3964470 TTAAAA-AGAATAATAT
1 TTAAAATA-AATAATAT
3964486 TAACAGTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 29 0.81
26 6 0.17
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAATAAC
Found at i:3965343 original size:13 final size:13
Alignment explanation
Indices: 3965325--3965354 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3965315 TTTAACAATA
3965325 CTTTTAAAAAGCG
1 CTTTTAAAAAGCG
*
3965338 CTTTTAAAAAGTG
1 CTTTTAAAAAGCG
3965351 CTTT
1 CTTT
3965355 GGAGAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
CTTTTAAAAAGCG
Found at i:3966050 original size:17 final size:19
Alignment explanation
Indices: 3966028--3966069 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
3966018 ATGGAAATAT
3966028 AATCTTTA-A-TGATATGC
1 AATCTTTAGAGTGATATGC
3966045 AATC-TTAGATGTGATATGC
1 AATCTTTAGA-GTGATATGC
3966064 AATCTT
1 AATCTT
3966070 AGATATGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 5 0.24
19 12 0.57
20 1 0.05
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (19 bp):
AATCTTTAGAGTGATATGC
Found at i:3966061 original size:19 final size:19
Alignment explanation
Indices: 3966036--3966126 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
3966026 ATAATCTTTA
3966036 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
3966055 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
3966074 ATGGTA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
3966091 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
3966109 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
3966127 AGATATGATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.25
19 33 0.52
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:3966076 original size:14 final size:15
Alignment explanation
Indices: 3966057--3966112 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
3966047 TCTTAGATGT
3966057 GATATG-CAATCTTA
1 GATATGACAATCTTA
3966071 GATATGGTACAATCTTA
1 GATAT-G-ACAATCTTA
3966088 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
3966106 GATATGA
1 GATATGA
3966113 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.14
15 2 0.06
16 1 0.03
17 13 0.36
18 15 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:3966106 original size:35 final size:37
Alignment explanation
Indices: 3966044--3966133 Score: 125
Period size: 35 Copynumber: 2.5 Consensus size: 37
3966034 TAATGATATG
* *
3966044 CAATCTTAGATGTGATATGCAATCTTAGATATG-GTA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
3966080 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
3966117 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
3966134 ATTTTGTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
35 19 0.39
36 18 0.37
37 12 0.24
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:3967361 original size:26 final size:26
Alignment explanation
Indices: 3967332--3967413 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
3967322 TGGTACAAAT
3967332 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
3967358 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
3967384 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3967410 TGAT
1 TGAT
3967414 GGGCATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:3974946 original size:11 final size:10
Alignment explanation
Indices: 3974928--3974985 Score: 73
Period size: 11 Copynumber: 5.5 Consensus size: 10
3974918 CTTCTATTTC
3974928 AAAAAAAAAG
1 AAAAAAAAAG
3974938 AAGAAAAAAAG
1 AA-AAAAAAAG
3974949 AAAATAAAAAG
1 AAAA-AAAAAG
3974960 AAAATAAAAA-
1 AAAA-AAAAAG
3974970 AGAAAAAAAAG
1 A-AAAAAAAAG
3974981 AAAAA
1 AAAAA
3974986 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
10 14 0.32
11 30 0.68
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:3974946 original size:12 final size:11
Alignment explanation
Indices: 3974928--3974979 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
3974918 CTTCTATTTC
3974928 AAAAAAAAAGA
1 AAAAAAAAAGA
*
3974939 AGAAAAAAAGA
1 AAAAAAAAAGA
*
3974950 AAATAAAAAGA
1 AAAAAAAAAGA
3974961 AAATAAAAAAGA
1 AAA-AAAAAAGA
3974973 AAAAAAA
1 AAAAAAA
3974980 GAAAAATGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
11 26 0.72
12 10 0.28
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:3975965 original size:43 final size:41
Alignment explanation
Indices: 3975917--3976056 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 41
3975907 CGCATTAATC
3975917 CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGTTAAA-TTACAGATCTTATCT
* * * * * * *
3975960 CCCTAAGCAGTAGTGGAGCAGATCGAAGACT-C-G-CCTTAACC
1 CCCTAAGCAGTAG-GGAACAGGT-TAA-ATTACAGATCTTATCT
* *
3976001 CCCTAAGAAGTAGGGGAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTA-GGGAACAGG-TTAAATTACAGATCTTATCT
3976044 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
3976057 CAGAATAGAT
Statistics
Matches: 73, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
40 2 0.03
41 25 0.34
42 5 0.07
43 35 0.48
44 5 0.07
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGAACAGGTTAAATTACAGATCTTATCT
Found at i:3976067 original size:84 final size:85
Alignment explanation
Indices: 3975911--3976114 Score: 284
Period size: 84 Copynumber: 2.4 Consensus size: 85
3975901 ATTCAGCGCA
* **
3975911 TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAG
*
3975976 AGCAGAT-CGAAGACTCGCC
66 AACAGATACGAAGACTCGCC
* * * *
3975995 TTAACCCCCTAAGAAGTAGGGGAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAG
1 TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAG
* *
3976060 AATAGATCAACGACGACTCGCC
66 AACAGAT--ACGAAGACTCGCC
*
3976082 TTAATCCCCTAAGCAGCAGGGTAACAGGTTAAA
1 TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
3976115 GTATAGCAGA
Statistics
Matches: 102, Mismatches: 15, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 63 0.62
87 39 0.38
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (85 bp):
TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAG
AACAGATACGAAGACTCGCC
Found at i:3976598 original size:207 final size:207
Alignment explanation
Indices: 3976239--3977159 Score: 1556
Period size: 207 Copynumber: 4.5 Consensus size: 207
3976229 CGGAGAGCAG
* * * * *
3976239 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAACAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
3976304 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
3976369 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
3976434 TACAAGGAACAA
196 TACAAGGAACAA
* *
3976446 ATCAAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
3976511 TATCTGTATTGTCAGAGAACAAATCAAAGTTTGGAGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* *
3976576 AGCAGATCTGGCCTTCAGATGTTTATGCTGAAGCAAGATCCAATATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
3976641 TACAAGGAACAA
196 TACAAGGAACAA
* *
3976653 ATCGAAGACATAACTGATTTGGCTTTCACGTGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
3976718 TCTCTGTATTGTCAGAAAACAAATCGAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
3976783 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
3976848 TACAAGGAACAA
196 TACAAGGAACAA
3976860 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
3976925 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGACAGACATAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
** * * * *
3976990 AGCAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAATATGGTTTGGTATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
3977054 TACAAGGAGCAA
196 TACAAGGAACAA
* * *
3977066 ATCGAAGACATAGCTGATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
3977131 TCTCTGTATTGTCAGGGAACAAATTGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
3977160 AAGCAGATTT
Statistics
Matches: 672, Mismatches: 42, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 128 0.19
207 544 0.81
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:3977574 original size:19 final size:19
Alignment explanation
Indices: 3977549--3977639 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
3977539 ATTATCTTCA
3977549 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
3977568 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
3977587 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
3977604 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
3977622 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
3977640 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:3977589 original size:14 final size:15
Alignment explanation
Indices: 3977570--3977625 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
3977560 TCTTAGATGT
3977570 GATATG-CAATCTTA
1 GATATGACAATCTTA
3977584 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
3977601 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
3977619 GATATGA
1 GATATGA
3977626 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:3977619 original size:35 final size:37
Alignment explanation
Indices: 3977557--3977646 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 37
3977547 CAATGATATG
*
3977557 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
3977593 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
3977630 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
3977647 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 19 0.38
36 18 0.36
37 13 0.26
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:3983368 original size:30 final size:30
Alignment explanation
Indices: 3983332--3983388 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3983322 GACCCAACAC
3983332 AAATT-AAATTTAAATAATAAAAAATATTTT
1 AAATTAAAATTT-AATAATAAAAAATATTTT
* *
3983362 AAATTAAAATTTAATCATAAAATATAT
1 AAATTAAAATTTAATAATAAAAAATAT
3983389 AAAACAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATTAAAATTTAATAATAAAAAATATTTT
Found at i:3986913 original size:36 final size:35
Alignment explanation
Indices: 3986860--3986934 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 35
3986850 AAATAAAATG
*
3986860 TTTATAATTTTTATTTATAATTTAGCA-TAAATATAA
1 TTTATAATTTATATTTATAATTT-G-ATTAAATATAA
*
3986896 TTTAT-ATTTATATTTTATTATTTGATTTAAATATAA
1 TTTATAATTTATA-TTTATAATTTGA-TTAAATATAA
3986932 TTT
1 TTT
3986935 GTAGCGACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
34 1 0.03
35 7 0.21
36 26 0.76
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (35 bp):
TTTATAATTTATATTTATAATTTGATTAAATATAA
Found at i:3988272 original size:23 final size:23
Alignment explanation
Indices: 3988254--3988307 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
3988244 GGTATACACG
3988254 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* **
3988277 TACATAATAATAATA-ATGGTAA
1 TACATAATAAAAATATATACTAA
3988299 TAC-TAATAA
1 TACATAATAA
3988308 TACTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:3988288 original size:3 final size:3
Alignment explanation
Indices: 3988257--3988327 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
3988247 ATACACGTAC
* * * * *
3988257 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
3988304 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
3988328 CAAGGATATT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:3988969 original size:17 final size:17
Alignment explanation
Indices: 3988910--3988971 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
3988900 GTAAAAAAAA
*
3988910 AATATTTTTTATTTTTT
1 AATATTTTTTATGTTTT
** *
3988927 TCTATTTTTTTATG-CTT
1 AATA-TTTTTTATGTTTT
*
3988944 AATAGTTTTTATGTTTT
1 AATATTTTTTATGTTTT
*
3988961 GATATTTTTTA
1 AATATTTTTTA
3988972 GTATTTTTAT
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
16 8 0.24
17 17 0.52
18 8 0.24
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.69
Consensus pattern (17 bp):
AATATTTTTTATGTTTT
Found at i:3990715 original size:51 final size:51
Alignment explanation
Indices: 3990660--3990760 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
3990650 TTTTAAAAAT
3990660 TGTAAAGCGTTACAAATAAAAATTGATGGACTAAATTCTAAATGTGTAAAC
1 TGTAAAGCGTTACAAATAAAAATTGATGGACTAAATTCTAAATGTGTAAAC
* *
3990711 TGTAAAGTGTTACAAATAAAAATTGATGTACTAAATTCTAAATGTGTAAA
1 TGTAAAGCGTTACAAATAAAAATTGATGGACTAAATTCTAAATGTGTAAA
3990761 AAGTATATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.32
Consensus pattern (51 bp):
TGTAAAGCGTTACAAATAAAAATTGATGGACTAAATTCTAAATGTGTAAAC
Found at i:4004329 original size:30 final size:31
Alignment explanation
Indices: 4004293--4004352 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
4004283 AAAAAAAATA
4004293 TTATAATTTTA-AATTTTTTA-TAAATTTTGT
1 TTATAATTTTAGAATTTTTTACT-AATTTTGT
4004323 TTATAATTTTAGTAATTTTTTACTAATTTT
1 TTATAATTTTAG-AATTTTTTACTAATTTT
4004353 AAAATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 11 0.41
32 15 0.56
33 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (31 bp):
TTATAATTTTAGAATTTTTTACTAATTTTGT
Found at i:4006472 original size:26 final size:24
Alignment explanation
Indices: 4006442--4006489 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
4006432 AATAAAAAAA
*
4006442 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
4006468 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
4006490 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:4006494 original size:21 final size:21
Alignment explanation
Indices: 4006441--4006515 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 21
4006431 AAATAAAAAA
*
4006441 ATTAAAAATATAATAAATCAAATAT
1 ATTAAAAAAATAA-AAA-C-AA-AT
*
4006466 ATTTAAAAACATAAAAACAAAT
1 A-TTAAAAAAATAAAAACAAAT
*
4006488 ATTAAAACAAATAAAAA-TAAT
1 ATTAAAA-AAATAAAAACAAAT
4006509 ATTAAAA
1 ATTAAAA
4006516 CAATTCTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
21 16 0.36
22 11 0.24
23 2 0.04
24 1 0.02
25 4 0.09
26 11 0.24
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
ATTAAAAAAATAAAAACAAAT
Found at i:4006496 original size:12 final size:12
Alignment explanation
Indices: 4006479--4006530 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
4006469 TAAAAACATA
4006479 AAAACAAATATT
1 AAAACAAATATT
4006491 AAAACAAATA--
1 AAAACAAATATT
*
4006501 AAAA-TAATATT
1 AAAACAAATATT
* *
4006512 AAAACAATTCTT
1 AAAACAAATATT
4006524 AAAACAA
1 AAAACAA
4006531 TACACAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 4 0.12
10 4 0.12
11 4 0.12
12 21 0.64
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAACAAATATT
Found at i:4006516 original size:21 final size:21
Alignment explanation
Indices: 4006460--4006518 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
4006450 ATAATAAATC
*
4006460 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
4006480 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
4006502 AAATAATATTAAAACAA
1 AAATAATATTAAAACAA
4006519 TTCTTAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 3 0.09
21 19 0.58
22 11 0.33
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:4006628 original size:5 final size:5
Alignment explanation
Indices: 4006618--4006643 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4006608 ATATATAATT
4006618 CGGGC CGGGC CGGGC CGGGC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGGC C
4006644 TGGACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:4007572 original size:16 final size:16
Alignment explanation
Indices: 4007551--4007599 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
4007541 ATATTTAGTC
4007551 ATATAATAAATTATTA
1 ATATAATAAATTATTA
4007567 ATATAAT---TTATTA
1 ATATAATAAATTATTA
4007580 A-ATAATAAATTATTTA
1 ATATAATAAATTA-TTA
4007596 ATAT
1 ATAT
4007600 TTCAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.18
13 7 0.25
15 3 0.11
16 11 0.39
17 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:4007585 original size:28 final size:28
Alignment explanation
Indices: 4007553--4007639 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 28
4007543 ATTTAGTCAT
4007553 ATAATAAATTATTAATATAATTTATTAA
1 ATAATAAATTATTAATATAATTTATTAA
*
4007581 ATAATAAATTATTTAATATTTCAATTTTATTTTA
1 ATAATAAATTA-TTAATA--T-AA-TTTA-TTAA
4007615 ATAATAAATT-TTAA-ATAATATTATT
1 ATAATAAATTATTAATATAAT-TTATT
4007640 CACATATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
27 3 0.06
28 16 0.31
29 7 0.14
31 2 0.04
32 6 0.12
33 4 0.08
34 13 0.25
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
ATAATAAATTATTAATATAATTTATTAA
Found at i:4007687 original size:15 final size:15
Alignment explanation
Indices: 4007653--4007723 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
4007643 ATATTATTGG
4007653 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
4007666 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
4007681 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
4007700 AAATATATTAATAAT
1 AAATATTTTAATAAT
4007715 AAATATTTT
1 AAATATTTT
4007724 GTAGTATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 19 0.41
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:4008195 original size:14 final size:14
Alignment explanation
Indices: 4008176--4008214 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4008166 TCAGAAAAGT
*
4008176 AAATCATTTTTCAG
1 AAATCATTTTCCAG
*
4008190 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
4008204 AAGTCATTTTC
1 AAATCATTTTC
4008215 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:4008404 original size:15 final size:15
Alignment explanation
Indices: 4008384--4008416 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4008374 CTCCTTACTA
4008384 AGTTACATCTCTTTT
1 AGTTACATCTCTTTT
4008399 AGTTACATCTCTTTT
1 AGTTACATCTCTTTT
4008414 AGT
1 AGT
4008417 CTTATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (15 bp):
AGTTACATCTCTTTT
Found at i:4010559 original size:18 final size:18
Alignment explanation
Indices: 4010536--4010571 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4010526 ACTCACTTCT
4010536 CCTTCGCCTCCGCCTCCG
1 CCTTCGCCTCCGCCTCCG
* *
4010554 CCTTCGTCTCCGTCTCCG
1 CCTTCGCCTCCGCCTCCG
4010572 TCGGATTCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.56, G:0.17, T:0.28
Consensus pattern (18 bp):
CCTTCGCCTCCGCCTCCG
Found at i:4014937 original size:98 final size:98
Alignment explanation
Indices: 4014768--4014965 Score: 378
Period size: 98 Copynumber: 2.0 Consensus size: 98
4014758 TGAAAATTAC
*
4014768 TATAAAGTGCTTAATTTTTGTGATATTTTTCTCTTTGTCTTCTCTTTTCAAATGCTTGTAATCTT
1 TATAAAGTGCTTAATTTTTGTGATATTTTTCTCTCTGTCTTCTCTTTTCAAATGCTTGTAATCTT
4014833 GCAAACTCTGTAATGCTGTATGGTCACATCAGT
66 GCAAACTCTGTAATGCTGTATGGTCACATCAGT
4014866 TATAAAGTGCTTAATTTTTGTGATATTTTTCTCTCTGTCTTCTCTTTTCAAATGCTTGTAATCTT
1 TATAAAGTGCTTAATTTTTGTGATATTTTTCTCTCTGTCTTCTCTTTTCAAATGCTTGTAATCTT
*
4014931 GCAAACTCTGTAATGCTGTATGGTCAGATCAGT
66 GCAAACTCTGTAATGCTGTATGGTCACATCAGT
4014964 TA
1 TA
4014966 GAATGCTTTA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (98 bp):
TATAAAGTGCTTAATTTTTGTGATATTTTTCTCTCTGTCTTCTCTTTTCAAATGCTTGTAATCTT
GCAAACTCTGTAATGCTGTATGGTCACATCAGT
Found at i:4038291 original size:92 final size:89
Alignment explanation
Indices: 4038182--4038359 Score: 266
Period size: 92 Copynumber: 2.0 Consensus size: 89
4038172 ATCTCCATTA
*
4038182 CCCAATCTCTCATTGGAATTTTATTAAAAATTTATATTGATATATTAATAATATTATTAAATAAT
1 CCCAATCTCTCATTGGAATTTTATTAAAAATTTATAGTGATATATTAATAATATTATTAAATAAT
4038247 AATTAAAAAATGAAATTAAAATTGCTG
66 AA-T--AAAATGAAATTAAAATTGCTG
* * ** *
4038274 CCCACTCTCTCATTGGAATTTTATTAAATATTTATAGTGATATATTAATTTTATTATTAGATAAT
1 CCCAATCTCTCATTGGAATTTTATTAAAAATTTATAGTGATATATTAATAATATTATTAAATAAT
*
4038339 AATAAACTGAAATTAAAATTG
66 AATAAAATGAAATTAAAATTG
4038360 TACCAGGGCA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
89 17 0.22
91 1 0.01
92 61 0.77
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (89 bp):
CCCAATCTCTCATTGGAATTTTATTAAAAATTTATAGTGATATATTAATAATATTATTAAATAAT
AATAAAATGAAATTAAAATTGCTG
Found at i:4043166 original size:175 final size:176
Alignment explanation
Indices: 4042864--4043215 Score: 625
Period size: 175 Copynumber: 2.0 Consensus size: 176
4042854 ACTATCATTC
*
4042864 AGGAGGTTGGGATTGAGAAAACCTGATATCTTGTTCGTGAGCTTGGGAAGATCTAATATTTGATT
1 AGGAGATTGGGATTGAGAAAACCTGATATCTTGTTCGTGAGCTTGGGAAGATCTAATATTTGATT
* * * *
4042929 TTTCTCCACTATTAACAAAAGGTTAAGGAACTGATTGATCATTATTGCTTTCTGTTACCCTTTTT
66 TTTCTCCACTAATAACAAAAGGTTAAAGAACTGATTGATCATAATTGCTTTCTGTCACCCTTTTT
*
4042994 TCGAAAAAAGATTCGGTCTTTTTGTTGACCATTATTTAATCTGAAA
131 TCGAAAAAAGATTCGGTCTTTTTGTTGACCATAATTTAATCTGAAA
4043040 AGGAGATTGGGATTGAGAAAACCTGATATCTTGTTCGTGAGCTT-GGAAGATCTAATATTTGATT
1 AGGAGATTGGGATTGAGAAAACCTGATATCTTGTTCGTGAGCTTGGGAAGATCTAATATTTGATT
*
4043104 TTTCTCCACTAATAACAAAAGGTTAAAGAACTGATTGATCGTAATTGCTTTCTGTCACCCTTTTT
66 TTTCTCCACTAATAACAAAAGGTTAAAGAACTGATTGATCATAATTGCTTTCTGTCACCCTTTTT
*
4043169 TCGAAAAATGATTCGGTCTTTTTGTTGACCATAATTTAATCTGAAA
131 TCGAAAAAAGATTCGGTCTTTTTGTTGACCATAATTTAATCTGAAA
4043215 A
1 A
4043216 ACCTGAAGAC
Statistics
Matches: 168, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
175 125 0.74
176 43 0.26
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (176 bp):
AGGAGATTGGGATTGAGAAAACCTGATATCTTGTTCGTGAGCTTGGGAAGATCTAATATTTGATT
TTTCTCCACTAATAACAAAAGGTTAAAGAACTGATTGATCATAATTGCTTTCTGTCACCCTTTTT
TCGAAAAAAGATTCGGTCTTTTTGTTGACCATAATTTAATCTGAAA
Found at i:4044341 original size:15 final size:15
Alignment explanation
Indices: 4044321--4044377 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
4044311 ATTCAATATT
4044321 AATATTTTAATAATA
1 AATATTTTAATAATA
*
4044336 AATATTTATTACAGTTATA
1 AATA-TT-TTA-A-TAATA
*
4044355 AATATATTAATAATA
1 AATATTTTAATAATA
*
4044370 AATGTTTT
1 AATATTTT
4044378 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 14 0.42
16 3 0.09
17 6 0.18
18 2 0.06
19 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:4049712 original size:13 final size:14
Alignment explanation
Indices: 4049696--4049728 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4049686 ATTAAAATTT
4049696 ATTTTATTTT-TAA
1 ATTTTATTTTATAA
*
4049709 ATTTTTTTTTATAA
1 ATTTTATTTTATAA
4049723 ATTTTA
1 ATTTTA
4049729 AATTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTATTTTATAA
Found at i:4054167 original size:18 final size:17
Alignment explanation
Indices: 4054134--4054172 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4054124 TTGTATAAAT
4054134 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
4054152 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
4054169 TGTG
1 TGTG
4054173 GAAGGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:4054424 original size:23 final size:23
Alignment explanation
Indices: 4054397--4054472 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
4054387 AGTGTTATTG
4054397 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4054420 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4054443 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4054466 ATCAGTG
1 ATCAGTG
4054473 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4061491 original size:18 final size:17
Alignment explanation
Indices: 4061458--4061496 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4061448 TTGTATAAAT
4061458 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
4061476 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
4061493 TGTG
1 TGTG
4061497 GAAGGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:4061748 original size:23 final size:23
Alignment explanation
Indices: 4061721--4061796 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
4061711 AGTGTTATTG
4061721 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4061744 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4061767 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4061790 ATCAGTG
1 ATCAGTG
4061797 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4063691 original size:15 final size:15
Alignment explanation
Indices: 4063681--4063714 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4063671 TGTTGTTTTA
4063681 ATTAGTATTGTTATT
1 ATTAGTATTGTTATT
* *
4063696 ATTATTATTGGTATT
1 ATTAGTATTGTTATT
4063711 ATTA
1 ATTA
4063715 CCACCATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (15 bp):
ATTAGTATTGTTATT
Found at i:4065139 original size:15 final size:15
Alignment explanation
Indices: 4065121--4065167 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
4065111 ATTCCATTGC
4065121 ATCAACTGGTAGAGA
1 ATCAACTGGTAGAGA
*
4065136 ATCAACTGTTAGAG-
1 ATCAACTGGTAGAGA
*
4065150 ATCAA-TTGTAGAGA
1 ATCAACTGGTAGAGA
4065164 ATCA
1 ATCA
4065168 TCAGAAGGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.21
14 9 0.32
15 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAACTGGTAGAGA
Found at i:4065167 original size:14 final size:14
Alignment explanation
Indices: 4065121--4065167 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
4065111 ATTCCATTGC
4065121 ATCAACTGGTAGAGA
1 ATCAACT-GTAGAGA
4065136 ATCAACTGTTAGAG-
1 ATCAACTG-TAGAGA
*
4065150 ATCAATTGTAGAGA
1 ATCAACTGTAGAGA
4065164 ATCA
1 ATCA
4065168 TCAGAAGGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.17
14 12 0.41
15 12 0.41
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (14 bp):
ATCAACTGTAGAGA
Found at i:4068026 original size:15 final size:15
Alignment explanation
Indices: 4068006--4068054 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
4067996 AACCTTCTGA
*
4068006 TGATTCTCTACCAAT
1 TGATTCTCTACCAGT
*
4068021 TGATTCTCTAACAGT
1 TGATTCTCTACCAGT
4068036 TGATTCTCTACCAGT
1 TGATTCTCTACCAGT
4068051 TGAT
1 TGAT
4068055 GCAATGGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (15 bp):
TGATTCTCTACCAGT
Found at i:4077151 original size:28 final size:28
Alignment explanation
Indices: 4077097--4077157 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
4077087 AAAATTTTAT
* *
4077097 TATAAAAATATTTTATATATTATAAAAA
1 TATAAAAATATTTCATATATTAAAAAAA
* *
4077125 TATAAAAATATATTCATTTA-TAAAAAAT
1 TATAAAAATAT-TTCATATATTAAAAAAA
4077153 TATAA
1 TATAA
4077158 TAGAGTATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
TATAAAAATATTTCATATATTAAAAAAA
Found at i:4078117 original size:23 final size:23
Alignment explanation
Indices: 4078087--4078133 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
4078077 TGAATATATT
* *
4078087 ATTACATGCGTAAATTTTACGGA
1 ATTACATGCATAAATTTTAAGGA
4078110 ATTACATGCATAAATTTTAAGGA
1 ATTACATGCATAAATTTTAAGGA
4078133 A
1 A
4078134 AAAATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (23 bp):
ATTACATGCATAAATTTTAAGGA
Found at i:4078274 original size:6 final size:6
Alignment explanation
Indices: 4078263--4078298 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
4078253 TTTTTGTTGA
*
4078263 AATTTT AATTTT AATTTT AAATTTT AATTAT AATTT
1 AATTTT AATTTT AATTTT -AATTTT AATTTT AATTT
4078299 AATGTATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
AATTTT
Found at i:4078286 original size:19 final size:19
Alignment explanation
Indices: 4078262--4078298 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4078252 ATTTTTGTTG
*
4078262 AAATTTTAATTTTAATTTT
1 AAATTTTAATTATAATTTT
4078281 AAATTTTAATTATAATTT
1 AAATTTTAATTATAATTT
4078299 AATGTATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AAATTTTAATTATAATTTT
Found at i:4094777 original size:12 final size:12
Alignment explanation
Indices: 4094762--4094791 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4094752 TATACATTTG
4094762 ACAAAAAAAAAA
1 ACAAAAAAAAAA
*
4094774 ACAAAAAACAAA
1 ACAAAAAAAAAA
4094786 ACAAAA
1 ACAAAA
4094792 CATGCAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAAAA
Found at i:4100581 original size:6 final size:6
Alignment explanation
Indices: 4100541--4100578 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
4100531 AATGGTGAAA
*
4100541 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGGAAT GG
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GG
4100579 GAAAGGTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.39, T:0.16
Consensus pattern (6 bp):
GGCAAT
Found at i:4104563 original size:14 final size:15
Alignment explanation
Indices: 4104540--4104572 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4104530 CCCAACCAAT
*
4104540 TGTCATGTGT-CACG
1 TGTCACGTGTCCACG
4104554 TGTCACGTGTCCACG
1 TGTCACGTGTCCACG
4104569 TGTC
1 TGTC
4104573 CCGTTGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.12, C:0.27, G:0.27, T:0.33
Consensus pattern (15 bp):
TGTCACGTGTCCACG
Found at i:4111864 original size:24 final size:25
Alignment explanation
Indices: 4111832--4111882 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
4111822 TAAATACAAT
4111832 GTAATGCAAGCCTAAGAAGATG-AA
1 GTAATGCAAGCCTAAGAAGATGTAA
4111856 GTAATGCAAGCCTAAGAAGATGTAA
1 GTAATGCAAGCCTAAGAAGATGTAA
4111881 GT
1 GT
4111883 TCAAGCCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (25 bp):
GTAATGCAAGCCTAAGAAGATGTAA
Found at i:4111880 original size:21 final size:21
Alignment explanation
Indices: 4111830--4111889 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 21
4111820 CATAAATACA
4111830 ATGTAATGCAAGCCTAAGAAG
1 ATGTAATGCAAGCCTAAGAAG
4111851 ATGAAGTAATGCAAGCCTAAGAAG
1 AT---GTAATGCAAGCCTAAGAAG
*
4111875 ATGTAAGTTCAAGCC
1 ATGTAA-TGCAAGCC
4111890 AGATGACCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
21 6 0.18
22 7 0.21
24 21 0.62
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (21 bp):
ATGTAATGCAAGCCTAAGAAG
Found at i:4113149 original size:13 final size:13
Alignment explanation
Indices: 4113131--4113158 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4113121 AAAAATTCCG
4113131 AAATCTGTACACA
1 AAATCTGTACACA
4113144 AAATCTGTACACA
1 AAATCTGTACACA
4113157 AA
1 AA
4113159 CTACAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (13 bp):
AAATCTGTACACA
Found at i:4114176 original size:10 final size:10
Alignment explanation
Indices: 4114161--4114185 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4114151 ACTATTAATA
4114161 ATTGATGTTG
1 ATTGATGTTG
4114171 ATTGATGTTG
1 ATTGATGTTG
4114181 ATTGA
1 ATTGA
4114186 GTTTCAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (10 bp):
ATTGATGTTG
Found at i:4117563 original size:2 final size:2
Alignment explanation
Indices: 4117556--4117580 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4117546 AAACTCGAAG
4117556 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 A
4117581 AAAAGAGGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4120407 original size:12 final size:12
Alignment explanation
Indices: 4120390--4120419 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4120380 TTTAAATTAT
4120390 GAAAGAGAACTC
1 GAAAGAGAACTC
*
4120402 GAAAGAGAACTT
1 GAAAGAGAACTC
4120414 GAAAGA
1 GAAAGA
4120420 TAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.27, T:0.10
Consensus pattern (12 bp):
GAAAGAGAACTC
Found at i:4121473 original size:34 final size:34
Alignment explanation
Indices: 4121430--4121495 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
4121420 GAATCTATGA
4121430 TACCATTAGGGTTAGCTAGCTCAAGTATCCAGCT
1 TACCATTAGGGTTAGCTAGCTCAAGTATCCAGCT
4121464 TACCATTAGGGTTAGCTAGCTCAAGTATCCAG
1 TACCATTAGGGTTAGCTAGCTCAAGTATCCAG
4121496 TAACACATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (34 bp):
TACCATTAGGGTTAGCTAGCTCAAGTATCCAGCT
Found at i:4126737 original size:16 final size:15
Alignment explanation
Indices: 4126712--4126745 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
4126702 ACTTTTGTAG
*
4126712 TATATATATATTTTA
1 TATATATATAATTTA
4126727 TATATTATATAATTTA
1 TATA-TATATAATTTA
4126743 TAT
1 TAT
4126746 CACATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATATATAATTTA
Found at i:4129137 original size:20 final size:20
Alignment explanation
Indices: 4129112--4129163 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4129102 AACGCAAACG
** *
4129112 GAAAAAGATGAGTAAACCTA
1 GAAAAAGAAAAGTAAAACTA
4129132 GAAAAAGAAAAGTAAAACTA
1 GAAAAAGAAAAGTAAAACTA
4129152 GAAAAATGAAAA
1 GAAAAA-GAAAA
4129164 ACCGAATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.65, C:0.06, G:0.17, T:0.12
Consensus pattern (20 bp):
GAAAAAGAAAAGTAAAACTA
Found at i:4135945 original size:21 final size:20
Alignment explanation
Indices: 4135921--4135969 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4135911 ATAAGCATTA
*
4135921 AAATAAATAAAAAATTGTATT
1 AAAT-AATAAAAAATTGAATT
* *
4135942 AAATTATTAAAAATTGAATT
1 AAATAATAAAAAATTGAATT
4135962 AAA-AATAA
1 AAATAATAA
4135970 CATAAACTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 3 0.13
20 16 0.70
21 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATAATAAAAAATTGAATT
Found at i:4142156 original size:3 final size:3
Alignment explanation
Indices: 4142148--4142172 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4142138 TCTATCCTTT
4142148 TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC T
4142173 TTTCTTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:4142400 original size:10 final size:10
Alignment explanation
Indices: 4142385--4142455 Score: 74
Period size: 10 Copynumber: 7.0 Consensus size: 10
4142375 TATTTTTTTA
4142385 TAAAAAATAT
1 TAAAAAATAT
4142395 TAAAAAAT-T
1 TAAAAAATAT
* *
4142404 TATAAAATTT
1 TAAAAAATAT
4142414 ATAAAAAATA-
1 -TAAAAAATAT
*
4142424 GAAAAAATAT
1 TAAAAAATAT
4142434 TAAAAAATAT
1 TAAAAAATAT
4142444 TATAATAAATAT
1 TA-AA-AAATAT
4142456 AATAAATTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
9 16 0.31
10 20 0.39
11 9 0.18
12 6 0.12
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:4142407 original size:21 final size:20
Alignment explanation
Indices: 4142381--4142485 Score: 92
Period size: 21 Copynumber: 5.2 Consensus size: 20
4142371 CTAATATTTT
4142381 TTTATAAAAAATATTAAAAAA
1 TTTATAAAAAATA-TAAAAAA
**
4142402 TTTATAAAATTTATAAAAAA
1 TTTATAAAAAATATAAAAAA
*
4142422 --TAGAAAAAATATTAAAAAA
1 TTTATAAAAAATA-TAAAAAA
* *
4142441 TATTATAATAAATATAATAAA
1 T-TTATAAAAAATATAAAAAA
4142462 -TTATAAAATTAATA-AAAAAA
1 TTTATAAAA--AATATAAAAAA
4142482 TTTA
1 TTTA
4142486 AATTTTATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
18 8 0.12
19 14 0.21
20 12 0.18
21 24 0.36
22 9 0.13
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (20 bp):
TTTATAAAAAATATAAAAAA
Found at i:4142419 original size:19 final size:19
Alignment explanation
Indices: 4142388--4142498 Score: 61
Period size: 19 Copynumber: 5.7 Consensus size: 19
4142378 TTTTTTATAA
4142388 AAAATATTA-AAAAATTTAT
1 AAAAT-TTATAAAAATTTAT
** *
4142407 AAAATTTATAAAAAATAGAA
1 AAAATTTAT-AAAAATTTAT
4142427 AAAATATTA-AAAAATATTAT
1 AAAAT-TTATAAAAAT-TTAT
*
4142447 AATAA-ATATAATAAA-TTAT
1 AA-AATTTATAA-AAATTTAT
* *
4142466 AAAATTAATAAAAAAATT-T
1 AAAATTTAT-AAAAATTTAT
*
4142485 AAATTTTATAAAAA
1 AAAATTTATAAAAA
4142499 CGTATTAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
18 10 0.14
19 32 0.45
20 21 0.30
21 8 0.11
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAATTTATAAAAATTTAT
Found at i:4142447 original size:40 final size:39
Alignment explanation
Indices: 4142386--4142498 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 39
4142376 ATTTTTTTAT
4142386 AAAAAATATTAAAAAAT-TTATAAAATTTATAAAAAATA
1 AAAAAATATTAAAAAATATTATAAAATTTATAAAAAATA
* *
4142424 GAAAAAATATTAAAAAATATTATAATAA-ATATAATAAATTA
1 -AAAAAATATTAAAAAATATTATAA-AATTTATAA-AAAATA
* * * *
4142465 TAAAATTAATAAAAAA-ATT-TAAATTTTATAAAAA
1 AAAAAATATTAAAAAATATTATAAAATTTATAAAAA
4142499 CGTATTAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
37 4 0.06
38 8 0.13
39 20 0.32
40 24 0.38
41 7 0.11
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (39 bp):
AAAAAATATTAAAAAATATTATAAAATTTATAAAAAATA
Found at i:4142469 original size:31 final size:29
Alignment explanation
Indices: 4142381--4142469 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 29
4142371 CTAATATTTT
*
4142381 TTTATAAAAAATATTAAAAAATT-TATAAAA
1 TTTATAAAAAATA-T-AAAAATTATAAAAAA
* *
4142411 TTTATAAAAAATAGAAAAAATATTAAAAAA
1 TTTATAAAAAATATAAAAATTA-TAAAAAA
*
4142441 TATTATAATAAATATAATAAATTATAAAA
1 T-TTATAAAAAATATAA-AAATTATAAAA
4142470 TTAATAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
28 6 0.12
30 20 0.41
31 18 0.37
32 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (29 bp):
TTTATAAAAAATATAAAAATTATAAAAAA
Found at i:4142479 original size:10 final size:9
Alignment explanation
Indices: 4142382--4142561 Score: 60
Period size: 10 Copynumber: 18.4 Consensus size: 9
4142372 TAATATTTTT
4142382 TTATAAAAA
1 TTATAAAAA
*
4142391 ATATTAAAAAA
1 TTA-T-AAAAA
*
4142402 TTTATAAAAT
1 -TTATAAAAA
4142412 TTATAAAAAA
1 TTAT-AAAAA
* *
4142422 TAGAAAAAATA
1 T-TATAAAA-A
*
4142433 TTAAAAAATA
1 TTATAAAA-A
4142443 TTATAATAAA
1 TTATAA-AAA
4142453 -TATAATAAA
1 TTATAA-AAA
4142462 TTAT-AAAA
1 TTATAAAAA
4142470 TTAATAAAAAAA
1 TT-AT--AAAAA
**
4142482 TT-TAAATT
1 TTATAAAAA
4142490 TTATAAAAA
1 TTATAAAAA
* *
4142499 CGTATTAAAAT
1 -TTA-TAAAAA
*
4142510 TCTATAATAA
1 T-TATAAAAA
*
4142520 TCATAAAAAA
1 TTAT-AAAAA
* *
4142530 GTATTAAAA
1 TTATAAAAA
*
4142539 TTATATAAAC
1 TTATA-AAAA
4142549 TTATAAAAA
1 TTATAAAAA
4142558 TTAT
1 TTAT
4142562 TATAAAAACT
Statistics
Matches: 127, Mismatches: 26, Indels: 36
0.67 0.14 0.19
Matches are distributed among these distances:
8 10 0.08
9 38 0.30
10 53 0.42
11 18 0.14
12 8 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:4143322 original size:30 final size:30
Alignment explanation
Indices: 4143288--4143350 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
4143278 ATAATTAAAA
* *
4143288 ATAAA-ATTATTAAGATTGATATAATATAAT
1 ATAAATATTATTAAAATT-ATAAAATATAAT
* *
4143318 ATAAATATTTTTAAAATTTTAAAATATAAT
1 ATAAATATTATTAAAATTATAAAATATAAT
4143348 ATA
1 ATA
4143351 GGCGGGGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
ATAAATATTATTAAAATTATAAAATATAAT
Found at i:4147311 original size:230 final size:230
Alignment explanation
Indices: 4146908--4147367 Score: 902
Period size: 230 Copynumber: 2.0 Consensus size: 230
4146898 TCAAGTTCAA
4146908 ATTTATACTAACTATTCTTTATTTTATATCTACCTATTGTAATACATATATAATAAATATTTTTT
1 ATTTATACTAACTATTCTTTATTTTATATCTACCTATTGTAATACATATATAATAAATATTTTTT
*
4146973 CTCGTATTATTACGCTAATAATCACACAAGGTAAATTTCAATGAAAAGATAACACGTGAGAGGGT
66 CTCGTATTATTACGCTAATAATCACACAAGGTAAATTTCAATGAAAAGATAACACATGAGAGGGT
4147038 AAAACTAAATACAACAATCAAATTGAAGGAATGGTAATTTATGTACAAAATGGAGTCAACAGAAA
131 AAAACTAAATACAACAATCAAATTGAAGGAATGGTAATTTATGTACAAAATGGAGTCAACAGAAA
4147103 ATCCCACCCAATGCCATACTTTTCACCCACGAATG
196 ATCCCACCCAATGCCATACTTTTCACCCACGAATG
4147138 ATTTATACTAACTATTCTTTATTTTATATCTACCTATTGTAATACATATATAATAAATATTTTTT
1 ATTTATACTAACTATTCTTTATTTTATATCTACCTATTGTAATACATATATAATAAATATTTTTT
4147203 CTCGTATTATTACGCTAATAATCACACAAGGTAAATTTCAATGAAAAGATAACACATGAGAGGGT
66 CTCGTATTATTACGCTAATAATCACACAAGGTAAATTTCAATGAAAAGATAACACATGAGAGGGT
4147268 AAAACTAAATACAACAATCAAATTGAAGGAATGGTAATTTATGTACAAAATGGAGTCAACAGAAA
131 AAAACTAAATACAACAATCAAATTGAAGGAATGGTAATTTATGTACAAAATGGAGTCAACAGAAA
*
4147333 ATCCCACCCAGTGCCATACTTTTCACCCACGAATG
196 ATCCCACCCAATGCCATACTTTTCACCCACGAATG
4147368 GACTCAAATA
Statistics
Matches: 228, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
230 228 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (230 bp):
ATTTATACTAACTATTCTTTATTTTATATCTACCTATTGTAATACATATATAATAAATATTTTTT
CTCGTATTATTACGCTAATAATCACACAAGGTAAATTTCAATGAAAAGATAACACATGAGAGGGT
AAAACTAAATACAACAATCAAATTGAAGGAATGGTAATTTATGTACAAAATGGAGTCAACAGAAA
ATCCCACCCAATGCCATACTTTTCACCCACGAATG
Found at i:4151564 original size:35 final size:35
Alignment explanation
Indices: 4151490--4151574 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 35
4151480 GTGGCATTTT
*
4151490 ATATTTTTAAAAATTTACTTATAAAAATAAAAAAATG
1 ATATTTTTAAAAAATTA--TATAAAAATAAAAAAATG
4151527 ATATTTTTAAAAAATTA-ATAAAAATAAAAAAAATG
1 ATATTTTTAAAAAATTATATAAAAAT-AAAAAAATG
*
4151562 ATAATTTTAAAAA
1 ATATTTTTAAAAA
4151575 CGTATTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 8 0.18
35 21 0.47
37 16 0.36
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (35 bp):
ATATTTTTAAAAAATTATATAAAAATAAAAAAATG
Found at i:4151573 original size:17 final size:17
Alignment explanation
Indices: 4151517--4151574 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
4151507 CTTATAAAAA
*
4151517 TAAAAAAATGATATTTT
1 TAAAAAAATGATAATTT
* * **
4151534 TAAAAAATTAATAAAAAT
1 TAAAAAAATGAT-AATTT
*
4151552 AAAAAAAATGATAATTT
1 TAAAAAAATGATAATTT
4151569 TAAAAA
1 TAAAAA
4151575 CGTATTAAAA
Statistics
Matches: 29, Mismatches: 11, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
TAAAAAAATGATAATTT
Found at i:4151584 original size:35 final size:34
Alignment explanation
Indices: 4151510--4151584 Score: 105
Period size: 35 Copynumber: 2.2 Consensus size: 34
4151500 AAATTTACTT
* *
4151510 ATAAAAATAAAAAAATGATATTTTTAAAAAATTA
1 ATAAAAATAAAAAAATGATAATTTTAAAAAAGTA
*
4151544 ATAAAAATAAAAAAAATGATAATTTTAAAAACGTA
1 ATAAAAAT-AAAAAAATGATAATTTTAAAAAAGTA
*
4151579 TTAAAA
1 ATAAAA
4151585 GTTTAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 8 0.22
35 28 0.78
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (34 bp):
ATAAAAATAAAAAAATGATAATTTTAAAAAAGTA
Found at i:4152534 original size:16 final size:16
Alignment explanation
Indices: 4152500--4152556 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 16
4152490 ATAATTGGTC
4152500 TAAATTATTATTTAAAATT
1 TAAATTATT-TTT--AATT
4152519 TAAATTATTTTTAATTT
1 TAAATTATTTTTAA-TT
*
4152536 TAAAATA-TTTTAATT
1 TAAATTATTTTTAATT
*
4152551 GAAATT
1 TAAATT
4152557 TTAAAGTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.18
16 8 0.24
17 8 0.24
18 3 0.09
19 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TAAATTATTTTTAATT
Found at i:4152539 original size:17 final size:17
Alignment explanation
Indices: 4152500--4152550 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
4152490 ATAATTGGTC
*
4152500 TAAATTATTATTTAAAATT
1 TAAATTATT-TTT-AATTT
4152519 TAAATTATTTTTAATTT
1 TAAATTATTTTTAATTT
*
4152536 TAAAATA-TTTTAATT
1 TAAATTATTTTTAATT
4152551 GAAATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 8 0.27
17 10 0.33
18 3 0.10
19 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAATTATTTTTAATTT
Found at i:4168791 original size:3 final size:3
Alignment explanation
Indices: 4168783--4168813 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
4168773 GAATGCAATT
*
4168783 TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
4168814 GAGCATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:4171104 original size:11 final size:12
Alignment explanation
Indices: 4171090--4171118 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
4171080 ATTATTCTAC
4171090 AAATAAAAA-AT
1 AAATAAAAATAT
4171101 AAATAAAAATAT
1 AAATAAAAATAT
4171113 AAATAA
1 AAATAA
4171119 TATATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAATAAAAATAT
Found at i:4171137 original size:21 final size:22
Alignment explanation
Indices: 4171111--4171160 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4171101 AAATAAAAAT
*
4171111 ATAAATAATAT-ATTTAAGAAC-
1 ATAAATAATATAATTCAAG-ACG
*
4171132 ATAAATAGTATAATTCAAGACG
1 ATAAATAATATAATTCAAGACG
4171154 ATAAATA
1 ATAAATA
4171161 TCACAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (22 bp):
ATAAATAATATAATTCAAGACG
Found at i:4177751 original size:36 final size:36
Alignment explanation
Indices: 4177699--4177771 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
4177689 TGCTTACTTG
*
4177699 TTATGATATATGTAAACATAGTCTATTTTATAATAT
1 TTATGATATATATAAACATAGTCTATTTTATAATAT
4177735 TTATGATATATATAAACATAGTCTATTTTATAATAT
1 TTATGATATATATAAACATAGTCTATTTTATAATAT
4177771 T
1 T
4177772 GGTTGGCTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (36 bp):
TTATGATATATATAAACATAGTCTATTTTATAATAT
Found at i:4183841 original size:35 final size:36
Alignment explanation
Indices: 4183793--4183861 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
4183783 CACCTCCTCT
* *
4183793 TACATAATTAACAATATCT-ATGCGAATCCAACTCC
1 TACATAATCAACAATATATAATGCGAATCCAACTCC
* *
4183828 TACATAATCAACAATGTATAATGCGAATCGAACT
1 TACATAATCAACAATATATAATGCGAATCCAACT
4183862 AATACCCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 16 0.55
36 13 0.45
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (36 bp):
TACATAATCAACAATATATAATGCGAATCCAACTCC
Found at i:4191889 original size:2 final size:2
Alignment explanation
Indices: 4191882--4191938 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
4191872 AAACTCCTTA
4191882 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
4191924 GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT G
4191939 AGAGAGAGAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:4192828 original size:11 final size:11
Alignment explanation
Indices: 4192793--4192833 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
4192783 TAAAATTTTT
4192793 AAAAATATAATA
1 AAAAATAT-ATA
*
4192805 ATAAAT-T-TA
1 AAAAATATATA
4192814 AAAAATATATA
1 AAAAATATATA
4192825 AAAAATATA
1 AAAAATATA
4192834 ATAGTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 12 0.48
12 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAATATATA
Found at i:4193098 original size:14 final size:15
Alignment explanation
Indices: 4193081--4193121 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
4193071 TTAATCATTT
4193081 TAAAATTATAAAT-A
1 TAAAATTATAAATAA
4193095 TAAAATTATTAAAATAA
1 TAAAATTA-T-AAATAA
4193112 TAAAATTATA
1 TAAAATTATA
4193122 TTTTTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.33
15 2 0.08
16 5 0.21
17 9 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAATTATAAATAA
Found at i:4196205 original size:8 final size:8
Alignment explanation
Indices: 4196192--4196217 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
4196182 ATTAGACTTG
4196192 AATTTTAA
1 AATTTTAA
4196200 AATTTTAA
1 AATTTTAA
4196208 AATTTTAA
1 AATTTTAA
4196216 AA
1 AA
4196218 ATAGAGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:4200496 original size:29 final size:29
Alignment explanation
Indices: 4200453--4200516 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
4200443 TTGATAATAT
* *
4200453 TTGATTCTTTTTAATAGTATATGA-ACTAAA
1 TTGA-TCTATTTAATAATATA-GAGACTAAA
*
4200483 TTGATCTATTTAATAATATAGAGACTAAT
1 TTGATCTATTTAATAATATAGAGACTAAA
4200512 TTGAT
1 TTGAT
4200517 AGAAATATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 2 0.07
29 24 0.80
30 4 0.13
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (29 bp):
TTGATCTATTTAATAATATAGAGACTAAA
Found at i:4210902 original size:7 final size:7
Alignment explanation
Indices: 4210890--4210916 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4210880 GGACTAGAAA
4210890 ATTAATT
1 ATTAATT
4210897 ATTAATT
1 ATTAATT
4210904 ATTAATT
1 ATTAATT
4210911 ATTAAT
1 ATTAAT
4210917 CAACAGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTAATT
Found at i:4223133 original size:19 final size:20
Alignment explanation
Indices: 4223101--4223151 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
4223091 AATCAAATTA
*
4223101 TTTAATTAATTTAAGTTTGAT
1 TTTAATT-ATTTAAGTTTAAT
*
4223122 TTTAA-TATTTAATTTTAAT
1 TTTAATTATTTAAGTTTAAT
4223141 TTTAATTATTT
1 TTTAATTATTT
4223152 GTATTAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 16 0.59
20 6 0.22
21 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTAATTATTTAAGTTTAAT
Found at i:4223140 original size:6 final size:6
Alignment explanation
Indices: 4223106--4223147 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
4223096 AATTATTTAA
* *
4223106 TTAA-T TTAAGT TTGATT TTAATAT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAAT-T TTAATT TTAATT TTAATT
4223148 ATTTGTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
5 4 0.12
6 22 0.69
7 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (6 bp):
TTAATT
Found at i:4230691 original size:39 final size:39
Alignment explanation
Indices: 4230648--4230730 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
4230638 CGTTTGAATG
**
4230648 AAAAACGCCACTAACGATCGAGCATTAGCGGCGCTTTAA
1 AAAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTAA
* *
4230687 AAAAACGCCTCTAAAAATCGAGCATTAGCGGCGTTTTAA
1 AAAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTAA
4230726 AAAAA
1 AAAAA
4230731 AGCCGCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (39 bp):
AAAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTAA
Found at i:4230741 original size:38 final size:39
Alignment explanation
Indices: 4230664--4230742 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
4230654 GCCACTAACG
* *
4230664 ATCGAGCATTAGCGGCGCTTTAAAAAAACGCCTCTAAAA
1 ATCGAGCATTAGCGGCGCTTTAAAAAAAAGCCGCTAAAA
*
4230703 ATCGAGCATTAGCGGCGTTTTAAAAAAAAGCCGC-AAAA
1 ATCGAGCATTAGCGGCGCTTTAAAAAAAAGCCGCTAAAA
4230741 AT
1 AT
4230743 TAAAGCAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 6 0.16
39 31 0.84
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (39 bp):
ATCGAGCATTAGCGGCGCTTTAAAAAAAAGCCGCTAAAA
Found at i:4230851 original size:41 final size:41
Alignment explanation
Indices: 4230800--4231078 Score: 434
Period size: 41 Copynumber: 6.8 Consensus size: 41
4230790 GCGTTATTCC
* *
4230800 AAAAGCGCCGCTAATGCTCATATCTATAGCGGCGCTTATTG
1 AAAAACGCCGCTAATGCTCAGATCTATAGCGGCGCTTATTG
*
4230841 AAAAACGCCGCTAATGCTCAAATCTATAGCGGCGCTTATTG
1 AAAAACGCCGCTAATGCTCAGATCTATAGCGGCGCTTATTG
* * *
4230882 AAAAGCGCAGCTAATGCTCATATCTATAGCGGCGCTTATTG
1 AAAAACGCCGCTAATGCTCAGATCTATAGCGGCGCTTATTG
* *
4230923 AAAAACGCCGCGAATGCTCAGATCTATAGCGGCGCTTATTT
1 AAAAACGCCGCTAATGCTCAGATCTATAGCGGCGCTTATTG
*
4230964 AAAAACGCCGCTAATGCTCAGATCTATAGCGGCGCTTATTT
1 AAAAACGCCGCTAATGCTCAGATCTATAGCGGCGCTTATTG
* *
4231005 AAAAACGCCGCTAATGCTCAGATCTATAGCGGCGGTTTTTG
1 AAAAACGCCGCTAATGCTCAGATCTATAGCGGCGCTTATTG
* *
4231046 AAAAACGTCGCTAATGCTC-GATTTATAGCGGCG
1 AAAAACGCCGCTAATGCTCAGATCTATAGCGGCG
4231079 TTTTTTCAAA
Statistics
Matches: 222, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
40 13 0.06
41 209 0.94
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (41 bp):
AAAAACGCCGCTAATGCTCAGATCTATAGCGGCGCTTATTG
Found at i:4231381 original size:7 final size:7
Alignment explanation
Indices: 4231369--4231517 Score: 57
Period size: 7 Copynumber: 20.3 Consensus size: 7
4231359 TATAGTTCAA
4231369 GGTTTAT
1 GGTTTAT
*
4231376 GGTTTAG
1 GGTTTAT
*
4231383 GGTATAT
1 GGTTTAT
* *
4231390 AGTTTAA
1 GGTTTAT
4231397 GGTTTAT
1 GGTTTAT
4231404 GGTTTATGAT
1 GG-TT-T-AT
*
4231414 GAGTTAAT
1 G-GTTTAT
** *
4231422 ATTTTAA
1 GGTTTAT
4231429 GGTTTAT
1 GGTTTAT
**
4231436 GAATTAT
1 GGTTTAT
*
4231443 GGGTTTAG
1 -GGTTTAT
*
4231451 GGTTTAA
1 GGTTTAT
*
4231458 GGTTTAGG
1 GGTTTA-T
4231466 GGTTTAT
1 GGTTTAT
4231473 GGTTTAT
1 GGTTTAT
*
4231480 GAGTTAAT
1 G-GTTTAT
* * *
4231488 -ATCTCAA
1 GGT-TTAT
4231495 GGTTTAT
1 GGTTTAT
4231502 GGTTTAT
1 GGTTTAT
*
4231509 GGATTAT
1 GGTTTAT
4231516 GG
1 GG
4231518 ACTTAGGAAT
Statistics
Matches: 101, Mismatches: 32, Indels: 18
0.67 0.21 0.12
Matches are distributed among these distances:
6 1 0.01
7 73 0.72
8 20 0.20
9 1 0.01
10 5 0.05
11 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.46
Consensus pattern (7 bp):
GGTTTAT
Found at i:4231449 original size:22 final size:22
Alignment explanation
Indices: 4231424--4231481 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
4231414 GAGTTAATAT
*
4231424 TTTAAGGTTTATGAATTATGGG
1 TTTAAGGTTTATGAATTAGGGG
* * **
4231446 TTTAGGGTTTAAGGTTTAGGGG
1 TTTAAGGTTTATGAATTAGGGG
*
4231468 TTTATGGTTTATGA
1 TTTAAGGTTTATGA
4231482 GTTAATATCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (22 bp):
TTTAAGGTTTATGAATTAGGGG
Found at i:4231468 original size:15 final size:14
Alignment explanation
Indices: 4231444--4231478 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
4231434 ATGAATTATG
4231444 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
4231458 GGTTTAGGGGTTTAT
1 GGTTTA-GGGTTTAA
4231473 GGTTTA
1 GGTTTA
4231479 TGAGTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:4231613 original size:44 final size:43
Alignment explanation
Indices: 4231527--4231618 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 43
4231517 GACTTAGGAA
* * *
4231527 TTATGATTTATGGTTCAAGGGTTGAGGTTTAGAGATTTAGGGT
1 TTATGATTTAGGGTTAAAGGGTTGAGGTTTAGAGATTAAGGGT
4231570 TTATGATTTAGGGGTTAAAGGG-TGAGGGTTTAGA-AGTTAAGGGT
1 TTATGATTTA-GGGTTAAAGGGTTGA-GGTTTAGAGA-TTAAGGGT
*
4231614 CTATG
1 TTATG
4231619 GGTTAAGGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 14 0.33
44 28 0.67
ACGTcount: A:0.25, C:0.02, G:0.35, T:0.38
Consensus pattern (43 bp):
TTATGATTTAGGGTTAAAGGGTTGAGGTTTAGAGATTAAGGGT
Found at i:4231916 original size:16 final size:16
Alignment explanation
Indices: 4231863--4231916 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
4231853 ATATTAAATA
*
4231863 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTCAAG
4231879 ATTTCAAATTTTC-A-
1 ATTTCAAATTTTCAAG
4231893 A--T--AATTTTCAAG
1 ATTTCAAATTTTCAAG
4231905 ATTTCAAATTTT
1 ATTTCAAATTTT
4231917 ATCTAATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.06
14 2 0.06
15 1 0.03
16 18 0.58
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTTCAAATTTTCAAG
Found at i:4232120 original size:15 final size:16
Alignment explanation
Indices: 4232089--4232121 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4232079 TATAAGTGAT
*
4232089 TTTTTAATTTATATTA
1 TTTTTAAATTATATTA
4232105 TTTTTAAATTAT-TTA
1 TTTTTAAATTATATTA
4232120 TT
1 TT
4232122 AAATAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTAAATTATATTA
Found at i:4233248 original size:14 final size:15
Alignment explanation
Indices: 4233229--4233258 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4233219 TGTGTTTATA
4233229 TAAATACAT-AATTC
1 TAAATACATAAATTC
4233243 TAAATACATAAATTC
1 TAAATACATAAATTC
4233258 T
1 T
4233259 GAAGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATACATAAATTC
Found at i:4236508 original size:23 final size:23
Alignment explanation
Indices: 4236478--4236527 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
4236468 AACATTAATC
4236478 AAATGTATGAATTGCAACCCTTT
1 AAATGTATGAATTGCAACCCTTT
*
4236501 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAACCCTTT
4236524 AAAT
1 AAAT
4236528 AAACTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (23 bp):
AAATGTATGAATTGCAACCCTTT
Found at i:4237073 original size:241 final size:241
Alignment explanation
Indices: 4236650--4237095 Score: 838
Period size: 241 Copynumber: 1.9 Consensus size: 241
4236640 ATGAATTAAT
*
4236650 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGCAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
4236715 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAC
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAC
* * *
4236780 CTTTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATATTAAAAAATTC
4236845 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
4236891 TTTATTACCATGCAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGCAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* *
4236956 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAC
4237021 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATATTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATATTAAAAAATTC
4237086 AAAAAGACTT
196 AAAAAGACTT
4237096 CAAATTACTA
Statistics
Matches: 199, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 199 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGCAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAC
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATATTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:4237229 original size:9 final size:9
Alignment explanation
Indices: 4237206--4237333 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
4237196 ATTGATCATT
*
4237206 ACTTAAATA
1 ACTTACATA
*
4237215 AATTACATA
1 ACTTACATA
4237224 ACTTACATA
1 ACTTACATA
* *
4237233 ACTCATATA
1 ACTTACATA
4237242 ACTTACATA
1 ACTTACATA
*
4237251 ATTTACATAACA
1 ACTTACAT---A
4237263 ACTTACATA
1 ACTTACATA
*
4237272 ACTCACATA
1 ACTTACATA
4237281 ACTTACATA
1 ACTTACATA
*
4237290 ATTTACATA
1 ACTTACATA
*
4237299 ACTCACATA
1 ACTTACATA
*
4237308 ACGTACATAACA
1 ACTTACAT---A
4237320 ACTTACATA
1 ACTTACATA
4237329 ACTTA
1 ACTTA
4237334 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:4237275 original size:39 final size:39
Alignment explanation
Indices: 4237223--4237300 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
4237213 TAAATTACAT
*
4237223 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
4237262 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
4237301 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:4237300 original size:57 final size:57
Alignment explanation
Indices: 4237219--4237331 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
4237209 TAAATAAATT
* * **
4237219 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
4237276 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
4237332 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:4243316 original size:42 final size:43
Alignment explanation
Indices: 4243191--4243341 Score: 198
Period size: 43 Copynumber: 3.5 Consensus size: 43
4243181 TTGAAAAAAG
4243191 CGCCGCTAAAAGTCGTGACTTTTAGCGGCGCTTTACCCACAAA
1 CGCCGCTAAAAGTCGTGACTTTTAGCGGCGCTTTACCCACAAA
* * * *
4243234 CGCCGCTAAAAGCCATGACTTTTAGCGACGCTTCACCCACAAA
1 CGCCGCTAAAAGTCGTGACTTTTAGCGGCGCTTTACCCACAAA
** *
4243277 CGCCTTTAAAAGTCGTG-CTTTTAGCGGCACTTTTA-CCACAAA
1 CGCCGCTAAAAGTCGTGACTTTTAGCGGCGC-TTTACCCACAAA
* *
4243319 CGCCGCTAAAAATTGTGACTTTT
1 CGCCGCTAAAAGTCGTGACTTTT
4243342 TTTAGCGGCG
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
42 31 0.34
43 60 0.66
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAAGTCGTGACTTTTAGCGGCGCTTTACCCACAAA
Found at i:4243501 original size:99 final size:100
Alignment explanation
Indices: 4243341--4243531 Score: 323
Period size: 99 Copynumber: 1.9 Consensus size: 100
4243331 TTGTGACTTT
* *
4243341 TTTTAGCGGCGTTTTTTCAATAAACGCTATAAAATTTTGGGGCGTTACCTATAGCGACGTTTTTT
1 TTTTAGCAGCGTTTTTTCAATAAACGCCATAAAATTTTGGGGCGTTACCTATAGCGACGTTTTTT
4243406 GCGGCGTTTTAGAAAG-GCCGCTAAAAATCATGAC
66 GCGGCGTTTTAGAAAGCGCCGCTAAAAATCATGAC
* *
4243440 TTTTAGCAGCGTTTTTTCAATAAACGCCATAAAATTTTGTGGCGTTACCTATAGTTG-CGTTTTT
1 TTTTAGCAGCGTTTTTTCAATAAACGCCATAAAATTTTGGGGCGTTACCTATAG-CGACGTTTTT
4243504 TGCGGCGTTTTAGAAAGCGCCGCTAAAA
65 TGCGGCGTTTTAGAAAGCGCCGCTAAAA
4243532 GTTTTAGGGG
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
99 75 0.87
100 11 0.13
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (100 bp):
TTTTAGCAGCGTTTTTTCAATAAACGCCATAAAATTTTGGGGCGTTACCTATAGCGACGTTTTTT
GCGGCGTTTTAGAAAGCGCCGCTAAAAATCATGAC
Found at i:4246462 original size:8 final size:8
Alignment explanation
Indices: 4246451--4246481 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
4246441 CCTTTATTAA
4246451 TTTAAAAT
1 TTTAAAAT
4246459 TTTAAAAAT
1 TTT-AAAAT
4246468 TTTAAAAT
1 TTTAAAAT
4246476 TTTAAA
1 TTTAAA
4246482 GAGGTAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTTAAAAT
Found at i:4256587 original size:22 final size:21
Alignment explanation
Indices: 4256559--4256609 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
4256549 AACATTAAAC
4256559 ATATATTTT-TACATTAATATTA
1 ATATATTTTATA-ATTAA-ATTA
4256581 ATATATTTTATAATTAAATTA
1 ATATATTTTATAATTAAATTA
4256602 A-A-ATTTTA
1 ATATATTTTA
4256610 ATATAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 1 0.04
21 5 0.18
22 14 0.50
23 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTA
Found at i:4256602 original size:27 final size:31
Alignment explanation
Indices: 4256574--4256636 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
4256564 TTTTTACATT
4256574 AATATTAATAT-ATTT-TA-TAATTAAATTAA
1 AATATTAATATAATTTATATTAATTAAATT-A
* *
4256603 AATTTTAATATAATTTATATTAATTAAATCA
1 AATATTAATATAATTTATATTAATTAAATTA
4256634 AAT
1 AAT
4256637 TTGGGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.34
30 4 0.14
31 6 0.21
32 9 0.31
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
AATATTAATATAATTTATATTAATTAAATTA
Done.