Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 39 of 121
Found at i:6904845 original size:21 final size:21
Alignment explanation
Indices: 6904800--6904911 Score: 77
Period size: 20 Copynumber: 5.2 Consensus size: 21
6904790 TCGTACAAAT
* **
6904800 AAATATATTAAT-TATCATGC
1 AAATATATTAATAAATCACAC
*
6904820 AAATATATTAATAAATTACAC
1 AAATATATTAATAAATCACAC
* * *
6904841 AAATA-AATATATTAATCTTACAAAT
1 AAATATATTA-ATAAATC--AC--AC
**
6904866 AAATATATTAAT-AATCATGC
1 AAATATATTAATAAATCACAC
6904886 AAATATATTAATAAATCACAC
1 AAATATATTAATAAATCACAC
6904907 AAATA
1 AAATA
6904912 AATATATTAA
Statistics
Matches: 70, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
20 27 0.39
21 25 0.36
22 1 0.01
23 2 0.03
24 4 0.06
25 8 0.11
26 3 0.04
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATATATTAATAAATCACAC
Found at i:6904871 original size:111 final size:110
Alignment explanation
Indices: 6904622--6904922 Score: 256
Period size: 111 Copynumber: 2.7 Consensus size: 110
6904612 ATAATGCAAT
* * * * * * *
6904622 TAAATATACTAATAATCATATAATAAAAT-ATAATCATACAAATAAATATATTAATAATCA-AGT
1 TAAATATATTAATCATCATA-AATATATTAATAATCATGCAAATAAATA-AAT-A-AATCACA-C
* * *
6904685 AATTAAATGTATTAATAATCATGCAATCAAATTAAATATAATCATACAAA
61 AAATAAATATATTAATAATCATGCAATCAAATTAAATATAATCACACAAA
* ** **
6904735 TAAATATATTAATGATCATGCA-ATATTAATAATCATGC-AATCAAATCAAATATAATCGTACAA
1 TAAATATATTAATCATCATAAATATATTAATAATCATGCAAAT-AAAT-AAATA-AATCACACAA
* * *
6904798 ATAAATATATTAATTATCATGCAAAT-ATATT-AATA-AATTACACAAA
63 ATAAATATATTAATAATCATGC-AATCAAATTAAATATAATCACACAAA
* * *
6904844 TAAATATATTAATCTTACAAATAAATATATTAATAATCATGCAAATATATTAATAAATCACACAA
1 TAAATATATTAATCAT-C--ATAAATATATTAATAATCATGCAAATAAATAAATAAATCACACAA
6904909 ATAAATATATTAAT
63 ATAAATATATTAAT
6904923 CCTACAAATA
Statistics
Matches: 154, Mismatches: 24, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
109 23 0.15
110 5 0.03
111 59 0.38
112 27 0.18
113 37 0.24
114 3 0.02
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.34
Consensus pattern (110 bp):
TAAATATATTAATCATCATAAATATATTAATAATCATGCAAATAAATAAATAAATCACACAAATA
AATATATTAATAATCATGCAATCAAATTAAATATAATCACACAAA
Found at i:6904923 original size:21 final size:21
Alignment explanation
Indices: 6904794--6904943 Score: 117
Period size: 21 Copynumber: 6.9 Consensus size: 21
6904784 ATATAATCGT
*
6904794 ACAAATAAATATATTAATTATC
1 ACAAATAAATATATTAATCA-C
* * *
6904816 ATGCAAATATAT-TAATAAATTAC
1 A--CAAATAAATAT-ATTAATCAC
**
6904839 ACAAATAAATATATTAATCTT
1 ACAAATAAATATATTAATCAC
*
6904860 ACAAATAAATATATTAATAATC
1 ACAAATAAATATATTAATCA-C
* *
6904882 ATGCAAATATAT-TAATAAATCAC
1 A--CAAATAAATAT-ATTAATCAC
6904905 ACAAATAAATATATTAATC-C
1 ACAAATAAATATATTAATCAC
6904925 TACAAATAAATATATTAAT
1 -ACAAATAAATATATTAAT
6904944 AATCATGCAA
Statistics
Matches: 103, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.01
21 63 0.61
22 4 0.04
23 6 0.06
24 29 0.28
ACGTcount: A:0.55, C:0.10, G:0.01, T:0.34
Consensus pattern (21 bp):
ACAAATAAATATATTAATCAC
Found at i:6904966 original size:17 final size:17
Alignment explanation
Indices: 6904944--6905031 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 17
6904934 ATATATTAAT
*
6904944 AATCATGCAATTAAATA
1 AATCATGCAAATAAATA
6904961 AATCATGCAAATAAATA
1 AATCATGCAAATAAATA
* * *
6904978 TATTAGGCAAATAAAT-
1 AATCATGCAAATAAATA
* *
6904994 TATCTTGCAAATATAATA
1 AATCATGCAAATA-AATA
*
6905012 TCAATCATACAAATATAATA
1 --AATCATGCAAATA-AATA
6905032 TTAGTCATGT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.18
17 32 0.56
20 15 0.26
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (17 bp):
AATCATGCAAATAAATA
Found at i:6905013 original size:16 final size:15
Alignment explanation
Indices: 6904966--6905013 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
6904956 AAATAAATCA
*
6904966 TGCAAATAAATATAT
1 TGCAAATAAATATCT
6904981 TAGGCAAATAAATTATCT
1 T--GCAAATAAA-TATCT
6904999 TGCAAATATAATATC
1 TGCAAATA-AATATC
6905014 AATCATACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 11 0.39
17 11 0.39
18 5 0.18
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (15 bp):
TGCAAATAAATATCT
Found at i:6905998 original size:43 final size:43
Alignment explanation
Indices: 6905951--6906087 Score: 161
Period size: 43 Copynumber: 3.2 Consensus size: 43
6905941 ACTAAGGTAG
* *
6905951 TGAAACTTTTGGAAAGTAAAATACTCCTCCATAACTGAGGCTT
1 TGAAACTTTTGGAAAATAAAATACTCCCCCATAACTGAGGCTT
* * * * *
6905994 TGAAATTTTTGAAAAATAAAGTGCTCCCCCATAA-TCGAGGTTT
1 TGAAACTTTTGGAAAATAAAATACTCCCCCATAACT-GAGGCTT
* * *
6906037 TGAAATTTTTGGAAAATAAAATGCTCCCCCATAACCGAGGC-T
1 TGAAACTTTTGGAAAATAAAATACTCCCCCATAACTGAGGCTT
6906079 TGAAACTTT
1 TGAAACTTT
6906088 AAGTAAAAGT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
42 10 0.12
43 70 0.88
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (43 bp):
TGAAACTTTTGGAAAATAAAATACTCCCCCATAACTGAGGCTT
Found at i:6906215 original size:37 final size:37
Alignment explanation
Indices: 6906107--6906282 Score: 221
Period size: 38 Copynumber: 4.7 Consensus size: 37
6906097 TACTTGTCCT
6906107 TCAAGGCTTCAACTTTGAAAAAATAAAGAACTCCTCCA
1 TCAAGGCTTCAACTTTG-AAAAATAAAGAACTCCTCCA
* *
6906145 TCAAGACTTCAACTTTGAGAAAATAAAGTACTCCTCCA
1 TCAAGGCTTCAACTTTGA-AAAATAAAGAACTCCTCCA
*** *
6906183 TTGGGGCTTCAATTTTGAAAAATAAAGAACTCCTCCA
1 TCAAGGCTTCAACTTTGAAAAATAAAGAACTCCTCCA
* * *
6906220 -CAAGGCTTCAACTTGGAAAAATAAA-ATACTCTTCTA
1 TCAAGGCTTCAACTTTGAAAAATAAAGA-ACTCCTCCA
*
6906256 TCGAGGCTTCAACTTTGAAAAATAAAG
1 TCAAGGCTTCAACTTTGAAAAATAAAG
6906283 TAATCTTCAA
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.01
36 27 0.23
37 42 0.36
38 47 0.40
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (37 bp):
TCAAGGCTTCAACTTTGAAAAATAAAGAACTCCTCCA
Found at i:6906266 original size:73 final size:75
Alignment explanation
Indices: 6906110--6906282 Score: 251
Period size: 73 Copynumber: 2.3 Consensus size: 75
6906100 TTGTCCTTCA
* *
6906110 AGGCTTCAACTTTGAAAAAATAAAGAACTCCTCCATCAAGACTTCAACTTTGAGAAAATAAAGTA
1 AGGCTTCAACTTTG-AAAAATAAAGAACTCCTCCATCAAGACTTCAACTTGGAGAAAATAAAATA
*
6906175 CTCCTCCATTG
65 CTCCTCCATCG
* * *
6906186 GGGCTTCAATTTTGAAAAATAAAGAACTCCTCCA-CAAGGCTTCAACTTGGA-AAAATAAAATAC
1 AGGCTTCAACTTTGAAAAATAAAGAACTCCTCCATCAAGACTTCAACTTGGAGAAAATAAAATAC
* *
6906249 TCTTCTATCG
66 TCCTCCATCG
6906259 AGGCTTCAACTTTGAAAAATAAAG
1 AGGCTTCAACTTTGAAAAATAAAG
6906283 TAATCTTCAA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
73 40 0.46
74 15 0.17
75 20 0.23
76 12 0.14
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (75 bp):
AGGCTTCAACTTTGAAAAATAAAGAACTCCTCCATCAAGACTTCAACTTGGAGAAAATAAAATAC
TCCTCCATCG
Found at i:6906290 original size:37 final size:37
Alignment explanation
Indices: 6906107--6906287 Score: 197
Period size: 37 Copynumber: 4.9 Consensus size: 37
6906097 TACTTGTCCT
6906107 TCAAGGCTTCAACTTTGAAAAAATAAAG-AACTCCTCCA
1 TCAAGGCTTCAACTTTG-AAAAATAAAGTAA-TCCTCCA
* *
6906145 TCAAGACTTCAACTTTGAGAAAATAAAGTACTCCTCCA
1 TCAAGGCTTCAACTTTGA-AAAATAAAGTAATCCTCCA
*** *
6906183 TTGGGGCTTCAATTTTGAAAAATAAAG-AACTCCTCCA
1 TCAAGGCTTCAACTTTGAAAAATAAAGTAA-TCCTCCA
* * * * *
6906220 -CAAGGCTTCAACTTGGAAAAATAAAATACTCTTCTA
1 TCAAGGCTTCAACTTTGAAAAATAAAGTAATCCTCCA
*
6906256 TCGAGGCTTCAACTTTGAAAAATAAAGTAATC
1 TCAAGGCTTCAACTTTGAAAAATAAAGTAATC
6906288 TTCAACTTTA
Statistics
Matches: 117, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
36 26 0.22
37 45 0.38
38 45 0.38
39 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (37 bp):
TCAAGGCTTCAACTTTGAAAAATAAAGTAATCCTCCA
Found at i:6906559 original size:19 final size:19
Alignment explanation
Indices: 6906537--6906576 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6906527 AGGTTTTGTT
6906537 TAGGGTCTAGGGTTTCACC
1 TAGGGTCTAGGGTTTCACC
*
6906556 TAGGGTTTAGGGTTTCACC
1 TAGGGTCTAGGGTTTCACC
6906575 TA
1 TA
6906577 ATATTTAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.35
Consensus pattern (19 bp):
TAGGGTCTAGGGTTTCACC
Found at i:6906583 original size:19 final size:19
Alignment explanation
Indices: 6906544--6906583 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6906534 GTTTAGGGTC
* *
6906544 TAGGGTTTCACCTAGGGTT
1 TAGGGTTTCACCTAAGATT
*
6906563 TAGGGTTTCACCTAATATT
1 TAGGGTTTCACCTAAGATT
6906582 TA
1 TA
6906584 AGATTTTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (19 bp):
TAGGGTTTCACCTAAGATT
Found at i:6906837 original size:19 final size:18
Alignment explanation
Indices: 6906815--6906853 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6906805 GGTTTAAGAA
*
6906815 TTCACATAAGATTTATGGT
1 TTCACATAAAATTTA-GGT
*
6906834 TTCACCTAAAATTTAGGT
1 TTCACATAAAATTTAGGT
6906852 TT
1 TT
6906854 TTACGTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (18 bp):
TTCACATAAAATTTAGGT
Found at i:6906901 original size:19 final size:20
Alignment explanation
Indices: 6906864--6906904 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6906854 TTACGTAGGG
* *
6906864 TTTTAAAATTTTATGAACAT
1 TTTTAAAAATTTATCAACAT
6906884 TTTTAAAAATTT-TCAACAT
1 TTTTAAAAATTTATCAACAT
6906903 TT
1 TT
6906905 AGCAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTAAAAATTTATCAACAT
Found at i:6906982 original size:8 final size:9
Alignment explanation
Indices: 6906960--6906984 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6906950 AAAAAAATGA
6906960 ATTTTTTAT
1 ATTTTTTAT
6906969 ATTTTTTAT
1 ATTTTTTAT
6906978 ATTTTTT
1 ATTTTTT
6906985 CTAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:6907009 original size:37 final size:35
Alignment explanation
Indices: 6906928--6907009 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 35
6906918 AGCAAGTGTG
6906928 TTTATTTA-TTGTTATATTTTTTAAAAAAATGAAT
1 TTTATTTATTTGTTATATTTTTTAAAAAAATGAAT
* *
6906962 TTT-TTATATTTTTTATATTTTTTCTAAAAAAAT-TAT
1 TTTATT-TATTTGTTATA-TTTTT-TAAAAAAATGAAT
6906998 TATTATTTATTT
1 T-TTATTTATTT
6907010 ATCTTTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
33 2 0.05
34 5 0.12
35 7 0.17
36 8 0.20
37 16 0.40
38 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (35 bp):
TTTATTTATTTGTTATATTTTTTAAAAAAATGAAT
Found at i:6907021 original size:10 final size:10
Alignment explanation
Indices: 6906994--6907036 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
6906984 TCTAAAAAAA
6906994 TTATTATTAT
1 TTATTATTAT
6907004 TTATTTATCT-T
1 TTA-TTAT-TAT
6907015 TTATTATTAT
1 TTATTATTAT
6907025 TTATTTATTAT
1 TTA-TTATTAT
6907036 T
1 T
6907037 ATTTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.03
10 11 0.38
11 16 0.55
12 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTATTAT
Found at i:6907037 original size:14 final size:14
Alignment explanation
Indices: 6906993--6907044 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
6906983 TTCTAAAAAA
6906993 ATTATTA-TTATTT
1 ATTATTATTTATTT
*
6907006 A-T-TTATCT-TTT
1 ATTATTATTTATTT
6907017 ATTATTATTTATTT
1 ATTATTATTTATTT
6907031 ATTATTATTTATTT
1 ATTATTATTTATTT
6907045 TTAAAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
11 7 0.21
12 3 0.09
13 6 0.18
14 17 0.52
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTATTATTTATTT
Found at i:6907042 original size:21 final size:21
Alignment explanation
Indices: 6906993--6907047 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
6906983 TTCTAAAAAA
6906993 ATTATTATTATTTATTTATCT
1 ATTATTATTATTTATTTATCT
*
6907014 TTTATTATTATTTATTTAT-T
1 ATTATTATTATTTATTTATCT
6907034 ATTATTTATT-TTTA
1 ATTA-TTATTATTTA
6907048 AAATACAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 8 0.26
21 23 0.74
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTATTATTATTTATTTATCT
Found at i:6907144 original size:23 final size:23
Alignment explanation
Indices: 6907104--6907163 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
6907094 TTTTTTATTT
* *
6907104 TTTTATTATATATTTATTA-TTTA
1 TTTTATAAT-TATTTATTAGTATA
6907127 CTTTTATAATTATTTATTAGTATA
1 -TTTTATAATTATTTATTAGTATA
*
6907151 TTTTTTAATTATT
1 TTTTATAATTATT
6907164 ATTTTAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 21 0.66
24 11 0.34
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTATAATTATTTATTAGTATA
Found at i:6907820 original size:12 final size:12
Alignment explanation
Indices: 6907803--6907828 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6907793 TCCTTACAAG
6907803 TTATTCTTTTTC
1 TTATTCTTTTTC
6907815 TTATTCTTTTTC
1 TTATTCTTTTTC
6907827 TT
1 TT
6907829 CTTTTTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTCTTTTTC
Found at i:6907957 original size:20 final size:20
Alignment explanation
Indices: 6907901--6907957 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
6907891 AGCAAACCTT
* *
6907901 TTTTTTCTAGTTTTGTTGCC
1 TTTTTCCTACTTTTGTTGCC
* *
6907921 TTTTTCCTACTTCTGTTGGTC
1 TTTTTCCTACTTTTGTT-GCC
*
6907942 TTTTTGCT-CTTTTGTT
1 TTTTTCCTACTTTTGTT
6907958 CAATTCTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.04, C:0.18, G:0.14, T:0.65
Consensus pattern (20 bp):
TTTTTCCTACTTTTGTTGCC
Found at i:6908320 original size:10 final size:11
Alignment explanation
Indices: 6908291--6908319 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6908281 CTTTTTCTAC
6908291 TTTTTTTTAAA
1 TTTTTTTTAAA
6908302 TTTTTTTTAAA
1 TTTTTTTTAAA
6908313 TTTTTTT
1 TTTTTTT
6908320 AGAACTACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTTAAA
Found at i:6912113 original size:43 final size:43
Alignment explanation
Indices: 6912061--6912186 Score: 173
Period size: 43 Copynumber: 3.0 Consensus size: 43
6912051 CAGTGAAACA
* ***
6912061 TTTGGAAAATAAAATACTCATTCATAATTGAGGCTTTGAAATT
1 TTTGGAAAATAAAATGCTCCCCCATAATTGAGGCTTTGAAATT
* * * *
6912104 TTTGAAAAATAAAGTGCTCCCCCATTACTGAGGCTTTGAAATT
1 TTTGGAAAATAAAATGCTCCCCCATAATTGAGGCTTTGAAATT
6912147 TTTGGAAAATAAAATGCTCCCCCATAATTGAGGC-TTGAAA
1 TTTGGAAAATAAAATGCTCCCCCATAATTGAGGCTTTGAAA
6912187 CTTTAAGTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 6 0.08
43 65 0.92
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (43 bp):
TTTGGAAAATAAAATGCTCCCCCATAATTGAGGCTTTGAAATT
Found at i:6912379 original size:37 final size:37
Alignment explanation
Indices: 6912198--6912416 Score: 223
Period size: 37 Copynumber: 5.9 Consensus size: 37
6912188 TTTAAGTAAT
*
6912198 AATACTCTTCCATCGAGGCTTCAACTTTGAAAAAATAA
1 AATACTCTTCCATCGAGACTTCAACTTTG-AAAAATAA
* * * *
6912236 AGTACTCCTCCACCAAGACTTCAACTTTGAGAAAATAA
1 AATACTCTTCCATCGAGACTTCAACTTTGA-AAAATAA
* * *
6912274 AGTACTCTTCCACTC-ATG-CTTTAATTTTGAAAAATAA
1 AATACTCTTCCA-TCGA-GACTTCAACTTTGAAAAATAA
* * *
6912311 AGA-ACTCCTCCAT-GAGCCTTCAACTTGGAAAAATAA
1 A-ATACTCTTCCATCGAGACTTCAACTTTGAAAAATAA
6912347 AATACTCTTCCATCGAGACTTCAACTTTGAAAAATAA
1 AATACTCTTCCATCGAGACTTCAACTTTGAAAAATAA
* * * *
6912384 AGTACTCTTCCACCGAGGCTTTAAC-TTGAAAAA
1 AATACTCTTCCATCGAGACTTCAACTTTGAAAAA
6912417 AATAAAGAAT
Statistics
Matches: 152, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
35 2 0.01
36 36 0.24
37 59 0.39
38 53 0.35
39 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (37 bp):
AATACTCTTCCATCGAGACTTCAACTTTGAAAAATAA
Found at i:6912417 original size:37 final size:38
Alignment explanation
Indices: 6912200--6912423 Score: 235
Period size: 38 Copynumber: 6.0 Consensus size: 38
6912190 TAAGTAATAA
*
6912200 TACTCTTCCATCGAGGCTTCAACTTTGAAAAAATAAAG
1 TACTCTTCCACCGAGGCTTCAACTTTGAAAAAATAAAG
* * * *
6912238 TACTCCTCCACCAAGACTTCAACTTTGAGAAAATAAAG
1 TACTCTTCCACCGAGGCTTCAACTTTGAAAAAATAAAG
* * *
6912276 TACTCTTCCACTC-ATGCTTTAATTTTG-AAAAATAAAG
1 TACTCTTCCAC-CGAGGCTTCAACTTTGAAAAAATAAAG
* * * * * *
6912313 AACTCCTCCA-TGAGCCTTCAAC-TTGGAAAAATAAAA
1 TACTCTTCCACCGAGGCTTCAACTTTGAAAAAATAAAG
* *
6912349 TACTCTTCCATCGAGACTTCAACTTTG-AAAAATAAAG
1 TACTCTTCCACCGAGGCTTCAACTTTGAAAAAATAAAG
*
6912386 TACTCTTCCACCGAGGCTTTAAC-TTGAAAAAAATAAAG
1 TACTCTTCCACCGAGGCTTCAACTTTG-AAAAAATAAAG
6912424 AATTTTTCCG
Statistics
Matches: 152, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
35 3 0.02
36 26 0.17
37 56 0.37
38 66 0.43
39 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.28
Consensus pattern (38 bp):
TACTCTTCCACCGAGGCTTCAACTTTGAAAAAATAAAG
Found at i:6912418 original size:111 final size:113
Alignment explanation
Indices: 6912201--6912425 Score: 307
Period size: 111 Copynumber: 2.0 Consensus size: 113
6912191 AAGTAATAAT
* * *
6912201 ACTCTTCCATCGAGGCTTCAACTTTGAAAAAATAAAGTACTCCTCCACCAAGACTTCAACTTTGA
1 ACTCCTCCATCGAGCCTTCAACTTTGAAAAAATAAAATACTCCTCCACCAAGACTTCAACTTTGA
* *
6912266 GAAAATAAAGTACTCTTCCACTCATGCTTTAATTTTGAAAAATAAAGA
66 GAAAATAAAGTACTCTTCCACTCAGGCTTTAATCTTGAAAAATAAAGA
* * * *
6912314 ACTCCTCCAT-GAGCCTTCAAC-TTGGAAAAATAAAATACTCTTCCATCGAGACTTCAACTTTGA
1 ACTCCTCCATCGAGCCTTCAACTTTGAAAAAATAAAATACTCCTCCACCAAGACTTCAACTTTGA
6912377 -AAAATAAAGTACTCTTCCAC-CGAGGCTTTAA-CTTGAAAAAAATAAAGA
66 GAAAATAAAGTACTCTTCCACTC-AGGCTTTAATCTTG--AAAAATAAAGA
6912425 A
1 A
6912426 TTTTTCCGTT
Statistics
Matches: 100, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
109 4 0.04
110 28 0.28
111 49 0.49
112 10 0.10
113 9 0.09
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (113 bp):
ACTCCTCCATCGAGCCTTCAACTTTGAAAAAATAAAATACTCCTCCACCAAGACTTCAACTTTGA
GAAAATAAAGTACTCTTCCACTCAGGCTTTAATCTTGAAAAATAAAGA
Found at i:6912601 original size:47 final size:49
Alignment explanation
Indices: 6912472--6912602 Score: 169
Period size: 48 Copynumber: 2.7 Consensus size: 49
6912462 CATGTTCAGG
* * * * *
6912472 AAAGCTCTTTTTCAATAAAGACTTGAAACTTTAAAATTCTCATTTAGGA
1 AAAGCTCTTTCTCAACAAAGGCTTGAAACATTAAAATTCTCATCTAGGA
* *
6912521 AAAGCTCATTCT-AACAAAGGCTTAAAACATTAAAATTCTCATCTA-GA
1 AAAGCTCTTTCTCAACAAAGGCTTGAAACATTAAAATTCTCATCTAGGA
*
6912568 AAAGCTCTTTCTCAACGAAGGCTTGAAAC-TTAAAA
1 AAAGCTCTTTCTCAACAAAGGCTTGAAACATTAAAA
6912603 ATAAACATAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
47 19 0.27
48 42 0.59
49 10 0.14
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (49 bp):
AAAGCTCTTTCTCAACAAAGGCTTGAAACATTAAAATTCTCATCTAGGA
Found at i:6913063 original size:113 final size:113
Alignment explanation
Indices: 6912918--6913152 Score: 380
Period size: 113 Copynumber: 2.1 Consensus size: 113
6912908 ATGCATGATG
* * *
6912918 CATGGAATGAATATGATGAACATAATGTATGCATACAATGAATGCATGAGCTAAAGATTTTTCAA
1 CATGGAATGAATATGATGAACACAATGTATGCATACAATGAATGCATAAGCCAAAGATTTTTCAA
** * *
6912983 AATTCCATCCTAATTTCTTAACTCAAATTTTGATATTTCTTTTCCAAA
66 AATTCCATCCTAATTTCACAACTCAAACTTTGATATTTATTTTCCAAA
* *
6913031 CATGGAATGAATATGATGAACACAATGTATGCATATAATGAATGCATAAGCCAAAGATTTTTTAA
1 CATGGAATGAATATGATGAACACAATGTATGCATACAATGAATGCATAAGCCAAAGATTTTTCAA
6913096 AATTCCATCCTAATTTCACAACTCAAACTTTGATATTTATTTTCCAAA
66 AATTCCATCCTAATTTCACAACTCAAACTTTGATATTTATTTTCCAAA
*
6913144 CATGCAATG
1 CATGGAATG
6913153 TATGAGTGCA
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (113 bp):
CATGGAATGAATATGATGAACACAATGTATGCATACAATGAATGCATAAGCCAAAGATTTTTCAA
AATTCCATCCTAATTTCACAACTCAAACTTTGATATTTATTTTCCAAA
Found at i:6918155 original size:22 final size:23
Alignment explanation
Indices: 6918125--6918170 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
6918115 CTTGCAATAA
6918125 ATCAAGCAATAA-ATAAAATCAT
1 ATCAAGCAATAATATAAAATCAT
*
6918147 ATCATGCAATAATATAAAATCAT
1 ATCAAGCAATAATATAAAATCAT
6918170 A
1 A
6918171 CCATACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (23 bp):
ATCAAGCAATAATATAAAATCAT
Found at i:6918298 original size:24 final size:24
Alignment explanation
Indices: 6918268--6918701 Score: 262
Period size: 24 Copynumber: 18.8 Consensus size: 24
6918258 GCAATCAAAT
*
6918268 ATAATCACACAAATAAATATATTA
1 ATAATCATACAAATAAATATATTA
* * * *
6918292 ATAATCATGCAATTAAATATAATC
1 ATAATCATACAAATAAATATATTA
* * *
6918316 ATACA-AATGC-AATCAAAT-TA-AA
1 ATA-ATCATACAAAT-AAATATATTA
6918338 TATAATCATACAAATAAATATATTA
1 -ATAATCATACAAATAAATATATTA
* * *
6918363 ATAATCTTGC-AATCAAAT-TA-AA
1 ATAATCATACAAAT-AAATATATTA
*
6918385 TATAATCATACAACTAAATATATTA
1 -ATAATCATACAAATAAATATATTA
*
6918410 ATAATCATGC----AAATATATTA
1 ATAATCATACAAATAAATATATTA
*
6918430 ATAAATCACACAAATAAATATA-T-
1 AT-AATCATACAAATAAATATATTA
*
6918453 -TAATCATGCAAATAAATATATTA
1 ATAATCATACAAATAAATATATTA
*
6918476 ATAATCATACAATTAAATATATTA
1 ATAATCATACAAATAAATATATTA
* *
6918500 GTAATCATA-TAAT-AA-A-A-T-
1 ATAATCATACAAATAAATATATTA
* *
6918518 ATAATCATACAAATGCAATCAAATTAAA
1 ATAATCATACAAAT-AAAT-ATATT--A
6918546 TATAATCATACAAATAAATATATTA
1 -ATAATCATACAAATAAATATATTA
* * *
6918571 ATAATCTTGC-AATCAAAT-TA-AA
1 ATAATCATACAAAT-AAATATATTA
*
6918593 TATAATCATACAAGTAAATATATTA
1 -ATAATCATACAAATAAATATATTA
* *
6918618 ATAACCATGC----AAATATATTA
1 ATAATCATACAAATAAATATATTA
* *
6918638 ATAAATCACAAAAATAAATATA-T-
1 AT-AATCATACAAATAAATATATTA
*
6918661 -TAATCATGCAAATAAATATATTA
1 ATAATCATACAAATAAATATATTA
*
6918684 ATAATCATACAATTAAAT
1 ATAATCATACAAATAAAT
6918702 TAATAAATCA
Statistics
Matches: 315, Mismatches: 51, Indels: 88
0.69 0.11 0.19
Matches are distributed among these distances:
18 8 0.03
19 4 0.01
20 25 0.08
21 46 0.15
22 9 0.03
23 51 0.16
24 131 0.42
25 20 0.06
27 4 0.01
28 3 0.01
29 14 0.04
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (24 bp):
ATAATCATACAAATAAATATATTA
Found at i:6918303 original size:42 final size:40
Alignment explanation
Indices: 6918243--6918323 Score: 126
Period size: 42 Copynumber: 2.0 Consensus size: 40
6918233 CATTCATGCC
6918243 AATATATATAATCATGCAATCAAATATAATCACACAAATA
1 AATATATATAATCATGCAATCAAATATAATCACACAAATA
* *
6918283 AATATATTAATAATCATGCAATTAAATATAATCATACAAAT
1 AATATA-T-ATAATCATGCAATCAAATATAATCACACAAAT
6918324 GCAATCAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 6 0.16
41 1 0.03
42 30 0.81
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.31
Consensus pattern (40 bp):
AATATATATAATCATGCAATCAAATATAATCACACAAATA
Found at i:6918356 original size:47 final size:47
Alignment explanation
Indices: 6918248--6918406 Score: 152
Period size: 47 Copynumber: 3.5 Consensus size: 47
6918238 ATGCCAATAT
* * * *
6918248 ATATAATCATGC-AATCAAATATAATCACACAAAT-AAAT-ATATT--
1 ATATAATCATACAAAT-AAATATAATCATACAAATGCAATCAAATTAA
* *
6918291 A-ATAATCATGCAATTAAATATAATCATACAAATGCAATCAAATTAA
1 ATATAATCATACAAATAAATATAATCATACAAATGCAATCAAATTAA
* * **
6918337 ATATAATCATACAAATAAATATATTAATA-ATCTTGCAATCAAATTAA
1 ATATAATCATACAAATAAATATAATCATACA-AATGCAATCAAATTAA
*
6918384 ATATAATCATACAACTAAATATA
1 ATATAATCATACAAATAAATATA
6918407 TTAATAATCA
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
42 27 0.28
43 6 0.06
44 4 0.04
46 2 0.02
47 59 0.60
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (47 bp):
ATATAATCATACAAATAAATATAATCATACAAATGCAATCAAATTAA
Found at i:6918407 original size:47 final size:47
Alignment explanation
Indices: 6918322--6918712 Score: 222
Period size: 47 Copynumber: 8.5 Consensus size: 47
6918312 AATCATACAA
6918322 ATGC-AATCAAATTAAATATAATCATACAAATAAATATATTAATAATC
1 ATGCAAAT-AAATTAAATATAATCATACAAATAAATATATTAATAATC
* *
6918369 TTGC-AATCAAATTAAATATAATCATACAACTAAATATATTAATAATC
1 ATGCAAAT-AAATTAAATATAATCATACAAATAAATATATTAATAATC
* *
6918416 ATGCAAATATATT-AATA-AATCACACAAATAAATATA-T--TAATC
1 ATGCAAATAAATTAAATATAATCATACAAATAAATATATTAATAATC
* * *
6918458 ATGCAAATAAA-TATATTAATAATCATACAATTAAATATATTAGTAATC
1 ATGCAAATAAATTA-AAT-ATAATCATACAAATAAATATATTAATAATC
* * *
6918506 AT----AT-AATAAAATATAATCATACAAATGCAATCAAATTAAATATAATC
1 ATGCAAATAAATTAAATATAATCATACAAAT-AAAT-ATATT--A-ATAATC
* * * * *
6918553 ATACAAATAAA-TATATTAATAATCTTGC-AATCAAAT-TA-AATATAATC
1 ATGCAAATAAATTA-AAT-ATAATCATACAAAT-AAATATATTA-ATAATC
* * * *
6918600 ATACAAGTAAA-TATAT-TAAT-A-AC-CATGCAAATATATTAATAAATC
1 ATGCAAATAAATTAAATATAATCATACAAAT--AAATATATTAAT-AATC
*** * *
6918645 ACAAAAATAAA-TATAT-TAATCATGCAAATAAATATATTAATAATC
1 ATGCAAATAAATTAAATATAATCATACAAATAAATATATTAATAATC
* *
6918690 ATACAATTAAATT-AATA-AATCAT
1 ATGCAAATAAATTAAATATAATCAT
6918713 GCCATTAAAT
Statistics
Matches: 274, Mismatches: 40, Indels: 62
0.73 0.11 0.16
Matches are distributed among these distances:
41 1 0.00
42 31 0.11
43 14 0.05
44 17 0.06
45 76 0.28
46 21 0.08
47 80 0.29
48 12 0.04
50 1 0.00
51 3 0.01
52 10 0.04
53 8 0.03
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (47 bp):
ATGCAAATAAATTAAATATAATCATACAAATAAATATATTAATAATC
Found at i:6918423 original size:20 final size:20
Alignment explanation
Indices: 6918400--6918466 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
6918390 TCATACAACT
6918400 AAATATATTAATAATCATGC
1 AAATATATTAATAATCATGC
**
6918420 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCATGC
* *
6918441 AAATAAATATATTAATCATGC
1 AAATATAT-TAATAATCATGC
6918462 AAATA
1 AAATA
6918467 AATATATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
20 12 0.31
21 24 0.62
22 3 0.08
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATATATTAATAATCATGC
Found at i:6918443 original size:21 final size:20
Alignment explanation
Indices: 6918400--6918487 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 20
6918390 TCATACAACT
**
6918400 AAATATATTAATAATCATGC
1 AAATATATTAATAATCACAC
6918420 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
* * *
6918441 AAATAAATATATTAATCATGCAAAT
1 ----AAATATATTAATAAT-CACAC
*
6918466 AAATATATTAATAATCATAC
1 AAATATATTAATAATCACAC
6918486 AA
1 AA
6918488 TTAAATATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
20 17 0.31
21 20 0.37
24 2 0.04
25 15 0.28
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:6918499 original size:208 final size:208
Alignment explanation
Indices: 6918268--6918735 Score: 809
Period size: 208 Copynumber: 2.3 Consensus size: 208
6918258 GCAATCAAAT
* *
6918268 ATAATCACACAAATAAATATATTAATAATCATGCAATTAAATATAATCATACAAATGCAATCAAA
1 ATAATCATACAATTAAATATATTAATAATCATGCAATTAAATATAATCATACAAATGCAATCAAA
6918333 TTAAATATAATCATACAAATAAATATATTAATAATCTTGCAATCAAATTAAATATAATCATACAA
66 TTAAATATAATCATACAAATAAATATATTAATAATCTTGCAATCAAATTAAATATAATCATACAA
* *
6918398 CTAAATATATTAATAATCATGCAAATATATTAATAAATCACACAAATAAATATATTAATCATGCA
131 CTAAATATATTAATAACCATGCAAATATATTAATAAATCACAAAAATAAATATATTAATCATGCA
6918463 AATAAATATATTA
196 AATAAATATATTA
* ** *
6918476 ATAATCATACAATTAAATATATTAGTAATCATATAATAAAATATAATCATACAAATGCAATCAAA
1 ATAATCATACAATTAAATATATTAATAATCATGCAATTAAATATAATCATACAAATGCAATCAAA
6918541 TTAAATATAATCATACAAATAAATATATTAATAATCTTGCAATCAAATTAAATATAATCATACAA
66 TTAAATATAATCATACAAATAAATATATTAATAATCTTGCAATCAAATTAAATATAATCATACAA
*
6918606 GTAAATATATTAATAACCATGCAAATATATTAATAAATCACAAAAATAAATATATTAATCATGCA
131 CTAAATATATTAATAACCATGCAAATATATTAATAAATCACAAAAATAAATATATTAATCATGCA
6918671 AATAAATATATTA
196 AATAAATATATTA
* *
6918684 ATAATCATACAATTAAAT-TAAT-A-AATCATGCCATTAAATA-AATCATACAAAT
1 ATAATCATACAATTAAATATATTAATAATCATGCAATTAAATATAATCATACAAAT
6918736 AAAAATTAGG
Statistics
Matches: 245, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
204 12 0.05
205 13 0.05
207 3 0.01
208 217 0.89
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (208 bp):
ATAATCATACAATTAAATATATTAATAATCATGCAATTAAATATAATCATACAAATGCAATCAAA
TTAAATATAATCATACAAATAAATATATTAATAATCTTGCAATCAAATTAAATATAATCATACAA
CTAAATATATTAATAACCATGCAAATATATTAATAAATCACAAAAATAAATATATTAATCATGCA
AATAAATATATTA
Found at i:6918665 original size:21 final size:21
Alignment explanation
Indices: 6918641--6918685 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6918631 TATATTAATA
6918641 AATCACAAAAATAAATATATT
1 AATCACAAAAATAAATATATT
***
6918662 AATCATGCAAATAAATATATT
1 AATCACAAAAATAAATATATT
6918683 AAT
1 AAT
6918686 AATCATACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (21 bp):
AATCACAAAAATAAATATATT
Found at i:6918712 original size:21 final size:20
Alignment explanation
Indices: 6918680--6918738 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
6918670 AAATAAATAT
6918680 ATTAATAATCATACAATTAA
1 ATTAATAATCATACAATTAA
* *
6918700 ATTAATAAATCATGCCATTAA
1 ATTAAT-AATCATACAATTAA
*
6918721 A-T-A-AATCATACAAATAA
1 ATTAATAATCATACAATTAA
6918738 A
1 A
6918739 AATTAGGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 12 0.36
19 1 0.03
20 7 0.21
21 13 0.39
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (20 bp):
ATTAATAATCATACAATTAA
Found at i:6918723 original size:66 final size:66
Alignment explanation
Indices: 6918387--6918712 Score: 300
Period size: 66 Copynumber: 4.8 Consensus size: 66
6918377 AAATTAAATA
* * * *
6918387 TAATCATACAACTAAATATATTAATAATCATGCAAATATATTAATAAATCACACAAATAAATATA
1 TAATCATACAAATAAATATATTAATAATCATACAAATAAATTAATAAATCATACAAATAAATATA
6918452 T
66 T
* * * *
6918453 TAATCATGCAAATAAATATATTAATAATCATACAATTAAATATATTAGTAATCATA-TAATAAA-
1 TAATCATACAAATAAATATATTAATAATCATACAAATAAAT-TAATA--AATCATACAAATAAAT
6918516 ATA-
63 ATAT
* * * * *
6918519 TAATCATACAAATGCAATCAAATTAAATATAATCATACAAATAAATATATTAATAATCTTGC-AA
1 TAATCATACAAAT-AAAT-ATATT--A-ATAATCATACAAATAAAT-TAAT-A-AATCATACAAA
*
6918583 TCAAATTAAAT
58 T-AAA-TATAT
* * * * * *
6918594 ATAATCATACAAGTAAATATATTAATAACCATGCAAATATATTAATAAATCACAAAAATAAATAT
1 -TAATCATACAAATAAATATATTAATAATCATACAAATAAATTAATAAATCATACAAATAAATAT
6918659 AT
65 AT
* *
6918661 TAATCATGCAAATAAATATATTAATAATCATACAATTAAATTAATAAATCAT
1 TAATCATACAAATAAATATATTAATAATCATACAAATAAATTAATAAATCAT
6918713 GCCATTAAAT
Statistics
Matches: 210, Mismatches: 34, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
66 93 0.44
67 14 0.07
68 17 0.08
69 10 0.05
70 4 0.02
71 46 0.22
72 5 0.02
74 6 0.03
75 3 0.01
76 12 0.06
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (66 bp):
TAATCATACAAATAAATATATTAATAATCATACAAATAAATTAATAAATCATACAAATAAATATA
T
Found at i:6918774 original size:16 final size:15
Alignment explanation
Indices: 6918731--6918776 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
6918721 ATAAATCATA
*
6918731 CAAATAAAAATTAGG
1 CAAATAAATATTAGG
*
6918746 CAAATAAATTATTATG
1 CAAATAAA-TATTAGG
6918762 CAAATATAATATTAG
1 CAAATA-AATATTAG
6918777 TCATGCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 8 0.31
16 16 0.62
17 2 0.08
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (15 bp):
CAAATAAATATTAGG
Found at i:6919921 original size:23 final size:24
Alignment explanation
Indices: 6919878--6919932 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
6919868 TTGAGTGGTT
* * *
6919878 AGCCAATGTGGTGATGGTGAAGAA
1 AGCCAATGTGATGATGATGAAAAA
6919902 AGCCAAT-TGATGATGATGAAAAA
1 AGCCAATGTGATGATGATGAAAAA
6919925 AGCCAATG
1 AGCCAATG
6919933 GGAAATGGCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (24 bp):
AGCCAATGTGATGATGATGAAAAA
Found at i:6923297 original size:48 final size:48
Alignment explanation
Indices: 6923226--6923329 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 48
6923216 CCAACATGCT
* * * * * *
6923226 CAACATGCCTTATGCACTATACTTATCTTCGT-TTCAAGGTTCTGACAC
1 CAACATGCCCTATGCACAATACTTATCTTCATGTTAAAGCTT-TCACAC
*
6923274 CAACATGCCCTATGCCCAATACTTATCTTCATGTTAAAGCTTTCACAC
1 CAACATGCCCTATGCACAATACTTATCTTCATGTTAAAGCTTTCACAC
6923322 CAACATGC
1 CAACATGC
6923330 TCAACATGCC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 41 0.85
49 7 0.15
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (48 bp):
CAACATGCCCTATGCACAATACTTATCTTCATGTTAAAGCTTTCACAC
Found at i:6925019 original size:27 final size:27
Alignment explanation
Indices: 6924984--6925043 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
6924974 TTAAATAAAA
* *
6924984 ATTTCAATCCTACCAAACTATT-AAAGG
1 ATTTAAATCCTAACAAACTATTCAAA-G
* *
6925011 ATTTAAATCTTAACAAATTATTCAAAG
1 ATTTAAATCCTAACAAACTATTCAAAG
6925038 ATTTAA
1 ATTTAA
6925044 TGATTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (27 bp):
ATTTAAATCCTAACAAACTATTCAAAG
Found at i:6927533 original size:15 final size:14
Alignment explanation
Indices: 6927513--6927554 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
6927503 ATTTTTGCTT
6927513 TTATTTTTATTATTA
1 TTATTTTTATT-TTA
*
6927528 TTATTTTTTATTTTT
1 TTA-TTTTTATTTTA
6927543 TTA-TTTTATTTT
1 TTATTTTTATTTT
6927555 TTAAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 9 0.36
15 8 0.32
16 8 0.32
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:6927595 original size:22 final size:23
Alignment explanation
Indices: 6927558--6927696 Score: 107
Period size: 24 Copynumber: 6.2 Consensus size: 23
6927548 TTATTTTTTA
*
6927558 AATA-ATTTATTATTTATCTACT
1 AATATATTTATTATTTATCTATT
6927580 AATATATTTATT-TTTATCTATT
1 AATATATTTATTATTTATCTATT
* *
6927602 AACATATTTTTTTATTTATCTATT
1 AATATA-TTTATTATTTATCTATT
6927626 AATATATTATATGT-TTT-T-TATT
1 AATATATT-TAT-TATTTATCTATT
6927648 -ATA-ATTTATCTA-TTAT-TATT
1 AATATATTTAT-TATTTATCTATT
* * * *
6927668 ATTATTTTCTTTTAGTTATCTATT
1 AATATATT-TATTATTTATCTATT
6927692 AATAT
1 AATAT
6927697 TTTTTTTCTT
Statistics
Matches: 95, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
19 6 0.06
20 8 0.08
21 5 0.05
22 26 0.27
23 21 0.22
24 28 0.29
25 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (23 bp):
AATATATTTATTATTTATCTATT
Found at i:6927619 original size:24 final size:24
Alignment explanation
Indices: 6927536--6927701 Score: 104
Period size: 24 Copynumber: 7.2 Consensus size: 24
6927526 TATTATTTTT
* * *
6927536 TATTTTTTTATTTTATTTTTTAA-A
1 TATTTTATTA-TTTATCTATTAATA
* *
6927560 TAATTTATTATTTATCTACTAATA
1 TATTTTATTATTTATCTATTAATA
*
6927584 TA-TTTATT-TTTATCTATTAACA
1 TATTTTATTATTTATCTATTAATA
*
6927606 TATTTTTTTATTTATCTATTAATA
1 TATTTTATTATTTATCTATTAATA
*
6927630 TATTATATGT-TTT-T-TATT-ATA
1 TATTTTAT-TATTTATCTATTAATA
*
6927651 -A-TTTATCTA-TTAT-TATTATTA
1 TATTTTAT-TATTTATCTATTAATA
* *
6927672 T-TTTCTTTTAGTTATCTATTAATA
1 TATTT-TATTATTTATCTATTAATA
*
6927696 TTTTTT
1 TATTTT
6927702 TTCTTTTTCT
Statistics
Matches: 113, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
19 7 0.06
20 6 0.05
21 5 0.04
22 22 0.19
23 27 0.24
24 42 0.37
25 4 0.04
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (24 bp):
TATTTTATTATTTATCTATTAATA
Found at i:6927620 original size:46 final size:45
Alignment explanation
Indices: 6927542--6927661 Score: 124
Period size: 46 Copynumber: 2.7 Consensus size: 45
6927532 TTTTTATTTT
* *
6927542 TTTA-TTTTATTTTTTAAATAATTTATTATTTATCTACTAATATA
1 TTTATTTTTATCTATTAAATAATTTATTATTTATCTACTAATATA
* * *
6927586 TTTATTTTTATCTATTAACATATTTTTTTATTTATCTATTAATATA
1 TTTATTTTTATCTATTAA-ATAATTTATTATTTATCTACTAATATA
6927632 TTATATGTTTT-T-TATT--ATAATTTATCTATT
1 TT-TAT-TTTTATCTATTAAATAATTTAT-TATT
6927662 ATTATTATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
43 7 0.11
44 8 0.12
45 11 0.17
46 30 0.47
47 4 0.06
48 4 0.06
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (45 bp):
TTTATTTTTATCTATTAAATAATTTATTATTTATCTACTAATATA
Found at i:6927643 original size:30 final size:29
Alignment explanation
Indices: 6927605--6927696 Score: 85
Period size: 34 Copynumber: 2.9 Consensus size: 29
6927595 ATCTATTAAC
6927605 ATATTTTTTTATTTATCTATTAATATATT
1 ATATTTTTTTATTTATCTATTAATATATT
* *
6927634 ATATGTTTTTTATTATAATTTATCTATTATTATT
1 ATAT-TTTTTTATT-T-ATCTAT-TAATA-TATT
*
6927668 ATTATTTTCTTTTAGTTATCTATTAATAT
1 A-TA-TTT-TTTTATTTATCTATTAATAT
6927697 TTTTTTTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
29 4 0.08
30 9 0.18
31 1 0.02
32 6 0.12
33 8 0.16
34 10 0.20
35 5 0.10
36 7 0.14
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (29 bp):
ATATTTTTTTATTTATCTATTAATATATT
Found at i:6927681 original size:36 final size:37
Alignment explanation
Indices: 6927615--6927686 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
6927605 ATATTTTTTT
6927615 ATTTATCTATTAATATATTATATGTTTTTTA-TTATA
1 ATTTATCTATTAATATATTATATGTTTTTTAGTTATA
*
6927651 ATTTATCTATT-AT-TATTATTATTTTCTTTTAGTTAT
1 ATTTATCTATTAATATATTA-TATGTT-TTTTAGTTAT
6927687 CTATTAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 5 0.16
35 7 0.22
36 16 0.50
37 4 0.12
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (37 bp):
ATTTATCTATTAATATATTATATGTTTTTTAGTTATA
Found at i:6928058 original size:19 final size:19
Alignment explanation
Indices: 6928021--6928060 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6928011 ATTTGGGCGA
* * *
6928021 AATTTTTCGGCGAACTTTG
1 AATTTTTCGACCAAATTTG
6928040 AATTTTTCGACCAAATTTG
1 AATTTTTCGACCAAATTTG
6928059 AA
1 AA
6928061 GATTCCAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (19 bp):
AATTTTTCGACCAAATTTG
Found at i:6928460 original size:13 final size:13
Alignment explanation
Indices: 6928434--6928579 Score: 62
Period size: 13 Copynumber: 11.4 Consensus size: 13
6928424 GTTCAAAAGG
*
6928434 TTTTT-TTATATA
1 TTTTTATTATTTA
6928446 -TTTTATTTATTTA
1 TTTTTA-TTATTTA
6928459 TTTTTATTATTTA
1 TTTTTATTATTTA
*
6928472 TTATTATTA-TTA
1 TTTTTATTATTTA
**
6928484 TTTATTAGATTA-AAA
1 TTT-TT--ATTATTTA
* *
6928499 TTATTTAGTATTTC
1 TT-TTTATTATTTA
6928513 TTATTT-TGT-TTTA
1 TT-TTTAT-TATTTA
6928526 TTTTTATTTTATTTA
1 TTTTTA--TTATTTA
*
6928541 TTTTTA-TCTTTA
1 TTTTTATTATTTA
6928553 TTTTTATT-TTT-
1 TTTTTATTATTTA
*
6928564 GTTTTA-T-TTTA
1 TTTTTATTATTTA
6928575 TTTTT
1 TTTTT
6928580 TGATTTTCTT
Statistics
Matches: 105, Mismatches: 14, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
10 4 0.04
11 13 0.12
12 22 0.21
13 32 0.30
14 13 0.12
15 20 0.19
16 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTATTATTTA
Found at i:6928464 original size:10 final size:10
Alignment explanation
Indices: 6928451--6928579 Score: 61
Period size: 10 Copynumber: 12.3 Consensus size: 10
6928441 ATATATTTTA
6928451 TTTATTTATT
1 TTTATTTATT
6928461 TTTA-TTATT
1 TTTATTTATT
6928470 TATTA-TTATT
1 T-TTATTTATT
*
6928480 ATTATTTATT
1 TTTATTTATT
* **
6928490 AGATTA-AAATT
1 --TTTATTTATT
*
6928501 ATTTA-GTATT
1 -TTTATTTATT
6928511 TCTTATTT-TGT
1 T-TTATTTAT-T
*
6928522 TTTATTTTTAT
1 TTTATTTAT-T
6928533 TTTATTTATT
1 TTTATTTATT
6928543 TTTATCTTTATT
1 TTTA--TTTATT
*
6928555 TTTATTTTTGT
1 TTTATTTAT-T
6928566 TTTATTTTATT
1 TTTA-TTTATT
6928577 TTT
1 TTT
6928580 TGATTTTCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
9 10 0.11
10 42 0.44
11 25 0.26
12 18 0.19
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTATTTATT
Found at i:6928481 original size:16 final size:16
Alignment explanation
Indices: 6928439--6928490 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
6928429 AAAGGTTTTT
6928439 TTATATATT-TTATTTA
1 TTAT-TATTATTATTTA
*
6928455 TTTATTTTTATTATTTA
1 -TTATTATTATTATTTA
6928472 TTATTATTATTATTTA
1 TTATTATTATTATTTA
6928488 TTA
1 TTA
6928491 GATTAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 21 0.66
17 11 0.34
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTATTATTTA
Found at i:6928532 original size:6 final size:6
Alignment explanation
Indices: 6928521--6928579 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
6928511 TCTTATTTTG
* *
6928521 TTTTAT TTTTA- TTTTA- -TTTAT TTTTAT CTTTAT TTTTAT TTTT-G
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
6928565 TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTT
6928580 TGATTTTCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
4 4 0.09
5 14 0.30
6 28 0.61
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:6928534 original size:16 final size:15
Alignment explanation
Indices: 6928507--6928579 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 15
6928497 AATTATTTAG
6928507 TATTTCTTATTTTGTTT
1 TATTT-TTATTTT-TTT
*
6928524 TATTTTTATTTTATT
1 TATTTTTATTTTTTT
6928539 TATTTTTATCTTTATTTT
1 TATTTTTA--TTT-TTTT
*
6928557 TATTTTTGTTTTATTT
1 TATTTTTATTTT-TTT
6928573 TATTTTT
1 TATTTTT
6928580 TGATTTTCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
15 11 0.22
16 20 0.41
17 8 0.16
18 10 0.20
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (15 bp):
TATTTTTATTTTTTT
Found at i:6928586 original size:6 final size:5
Alignment explanation
Indices: 6928513--6928578 Score: 62
Period size: 5 Copynumber: 12.4 Consensus size: 5
6928503 TTAGTATTTC
*
6928513 TTATT TTGTT TTATTT TTATT TTA-T TTATTT TTATCT TTATTT TTATTT
1 TTATT TTATT TTA-TT TTATT TTATT TTA-TT TTAT-T TTA-TT TTA-TT
*
6928562 TTGTT TTATT TTATT TT
1 TTATT TTATT TTATT TT
6928579 TTGATTTTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
4 4 0.08
5 25 0.48
6 22 0.42
7 1 0.02
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:6928665 original size:61 final size:59
Alignment explanation
Indices: 6928600--6928892 Score: 272
Period size: 60 Copynumber: 4.8 Consensus size: 59
6928590 TAAATAAAAA
* *
6928600 TTCTAAAAAAAAGTATTTTTGAGGAAGAGTTAAAAGTATCAATTTTTCTTGAAAATAAGTT
1 TTCT-AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
*** * * *
6928661 TTCTAAAATTTTTTTTTTTTAAGAAAAGTTGAAAGTATCAA-TTTTCGTTGAAAATAAGTTTTT
1 TTCTAAAA-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAG---TT
* * *
6928724 TTCTAAAAACAT-TTTTTGAAGAAAAGATGAAAGTATCAATTTTTCTTGAAAATAAGTTT
1 TTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG-TT
* * *
6928783 TTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTAACAATTTTTTTTTG-AAATAA--T
1 TTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTTCTTGAAAATAAGTT
** * *
6928840 TTAAAAAAAAAGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 TTCTAAAAAAA----TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
6928893 TACAAAAGCA
Statistics
Matches: 195, Mismatches: 25, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
57 10 0.05
59 18 0.09
60 77 0.39
61 74 0.38
62 6 0.03
63 10 0.05
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (59 bp):
TTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
Found at i:6928980 original size:15 final size:16
Alignment explanation
Indices: 6928962--6928991 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6928952 TTCTTTCTTT
6928962 TTTTCA-TTTTATTTC
1 TTTTCATTTTTATTTC
6928977 TTTTCATTTTTATTT
1 TTTTCATTTTTATTT
6928992 TCTTGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCATTTTTATTTC
Found at i:6939383 original size:13 final size:13
Alignment explanation
Indices: 6939354--6939397 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
6939344 ATACTATGCT
6939354 TGAAAAAA-AAAGA
1 TGAAAAAATAAA-A
6939367 -GAAAAAATAAAA
1 TGAAAAAATAAAA
6939379 TGAAAAAATAAAA
1 TGAAAAAATAAAA
6939392 T-AAAAA
1 TGAAAAA
6939398 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (13 bp):
TGAAAAAATAAAA
Found at i:6939391 original size:18 final size:17
Alignment explanation
Indices: 6939368--6939408 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
6939358 AAAAAAAGAG
*
6939368 AAAAAATAAAATGAAAA
1 AAAAAATAAAAAGAAAA
6939385 AATAAAATAAAAAGAAAA
1 AA-AAAATAAAAAGAAAA
6939403 AAAAAA
1 AAAAAA
6939409 GTGAATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (17 bp):
AAAAAATAAAAAGAAAA
Found at i:6940488 original size:42 final size:41
Alignment explanation
Indices: 6940435--6940849 Score: 383
Period size: 41 Copynumber: 9.9 Consensus size: 41
6940425 AGCAATTTAC
* *
6940435 TTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTTTACT
1 TTTC-AAAGTCGTTGAGCCTCTGATTAGAAGAGCTTTTTATT
* **
6940477 TTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATT
1 TTTC-AAAGTCGTTGAGCCTCTGATTAGAAGAGCTTTTTATT
* *
6940519 TTTCAAAGTAGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATT
1 TTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGC-TT-TTTATT
* **
6940562 GTTT--AAGTCGTTGAGCCTCTGATTAGAGGAGCAATTTATT
1 -TTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCTTTTTATT
* *
6940602 TTTCAAAGTTGTTGAGCCTC-GATTTAGAAAAGCTTTGTTTATT
1 TTTCAAAGTCGTTGAGCCTCTGA-TTAGAAGAGC-TT-TTTATT
* * *
6940645 TTTCAAATTCATTGAGCCTCTGTTTAGAAGAGCTTTATTTATT
1 TTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGC-TT-TTTATT
* * * * **
6940688 TTCCAAAATCGTTGAGCCTCT-ATTCAGATGAACCATTTATT
1 TTTCAAAGTCGTTGAGCCTCTGATT-AGAAGAGCTTTTTATT
* * **
6940729 TTTCAAAGTTGTTGAGCCTCTGATTAGATGAGCCATTTA-T
1 TTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCTTTTTATT
* *
6940769 TTTCAAAGTCGTTAAGCCTCTAATTAGAAGAGCTTTGTTTATGTT
1 TTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGC-TT-TTTA--TT
* *
6940814 TTTCAAAGTCATTGAGCCTCT-ACTTAGAGGAGCTTT
1 TTTCAAAGTCGTTGAGCCTCTGA-TTAGAAGAGCTTT
6940850 GATCAAAATT
Statistics
Matches: 311, Mismatches: 45, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.01
40 38 0.12
41 85 0.27
42 77 0.25
43 72 0.23
44 7 0.02
45 29 0.09
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (41 bp):
TTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCTTTTTATT
Found at i:6940570 original size:83 final size:83
Alignment explanation
Indices: 6940435--6940846 Score: 417
Period size: 83 Copynumber: 4.9 Consensus size: 83
6940425 AGCAATTTAC
* * *
6940435 TTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGC-TT-TTTACTTTTCAAAAGTCGTTGAGCCTC
1 TTTC-AAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTA-TTTT-TAAAGTCGTTGAGCCTC
6940498 TGATTAGAGGAGCCATTTATT
63 TGATTAGAGGAGCCATTTATT
*
6940519 TTTCAAAGTAGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTGTTT-AAGTCGTTGAGCCTCTG
1 TTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATT-TTTAAAGTCGTTGAGCCTCTG
*
6940583 ATTAGAGGAGCAATTTATT
65 ATTAGAGGAGCCATTTATT
* * * *
6940602 TTTCAAAGTTGTTGAGCCTC-GATTTAGAAAAGCTTTGTTTATTTTTCAAATTCATTGAGCCTCT
1 TTTCAAAGTCGTTGAGCCTCTG-TTTAGAAGAGCTTTGTTTATTTTT-AAAGTCGTTGAGCCTCT
* * *
6940666 GTTTAGAAGAGCTTTATTTATT
64 GATTAGAGGAGC--CATTTATT
* * * * * * ** *
6940688 TTCCAAAATCGTTGAGCCTCTATTCAGATGAAC--CATTTATTTTTCAAAGTTGTTGAGCCTCTG
1 TTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTT-AAAGTCGTTGAGCCTCTG
*
6940751 ATTAGATGAGCCATTTA-T
65 ATTAGAGGAGCCATTTATT
* ** *
6940769 TTTCAAAGTCGTTAAGCCTCTAATTAGAAGAGCTTTGTTTATGTTTTTCAAAGTCATTGAGCCTC
1 TTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTA--TTTTT-AAAGTCGTTGAGCCTC
6940834 T-ACTTAGAGGAGC
63 TGA-TTAGAGGAGC
6940847 TTTGATCAAA
Statistics
Matches: 274, Mismatches: 40, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
81 27 0.10
82 9 0.03
83 104 0.38
84 67 0.24
85 36 0.13
86 31 0.11
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (83 bp):
TTTCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTAAAGTCGTTGAGCCTCTGA
TTAGAGGAGCCATTTATT
Found at i:6941064 original size:12 final size:12
Alignment explanation
Indices: 6941049--6941082 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6941039 ATTTTTGCTT
6941049 TTATTTTTATTA
1 TTATTTTTATTA
*
6941061 TTATTTTTTTTA
1 TTATTTTTATTA
6941073 TT-TTTTTATT
1 TTATTTTTATT
6941083 TTTTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:6941139 original size:22 final size:23
Alignment explanation
Indices: 6941088--6941163 Score: 100
Period size: 22 Copynumber: 3.3 Consensus size: 23
6941078 TTATTTTTTA
**
6941088 AATATATTTATTATTTATCTGCT
1 AATATATTTATTATTTATCTATT
6941111 AATATATTTATT-TTTATCTATT
1 AATATATTTATTATTTATCTATT
* *
6941133 AACATATTTTTTAATTTATCTATT
1 AATATATTTATT-ATTTATCTATT
6941157 AATATAT
1 AATATAT
6941164 ACATGTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 18 0.39
23 12 0.26
24 16 0.35
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (23 bp):
AATATATTTATTATTTATCTATT
Found at i:6941488 original size:22 final size:22
Alignment explanation
Indices: 6941463--6941504 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6941453 CAGCTTTAGG
*
6941463 AATTTGTGGGATTTTTTTTTCA
1 AATTTGTGGCATTTTTTTTTCA
* *
6941485 AATTTTTGGCTTTTTTTTTT
1 AATTTGTGGCATTTTTTTTT
6941505 GGAAAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.05, G:0.14, T:0.67
Consensus pattern (22 bp):
AATTTGTGGCATTTTTTTTTCA
Found at i:6941763 original size:71 final size:71
Alignment explanation
Indices: 6941678--6941816 Score: 260
Period size: 71 Copynumber: 2.0 Consensus size: 71
6941668 GGAAGGGAAG
6941678 AGAGAGAGAGGGAAGGAGCAGTTTGCTGAAAAATAGAGGTTAGAGCCTTTTATACTTGCTGAAAA
1 AGAGAGAGAGGGAAGGAGCAGTTTGCTGAAAAATAGAGGTTAGAGCCTTTTATACTTGCTGAAAA
6941743 TGACAT
66 TGACAT
* *
6941749 AGAGAGAGAGGGAAGGAGCGGTTTGCTGAAAAATAGAGGTTAGAGTCTTTTATACTTGCTGAAAA
1 AGAGAGAGAGGGAAGGAGCAGTTTGCTGAAAAATAGAGGTTAGAGCCTTTTATACTTGCTGAAAA
6941814 TGA
66 TGA
6941817 TCTGTTTTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (71 bp):
AGAGAGAGAGGGAAGGAGCAGTTTGCTGAAAAATAGAGGTTAGAGCCTTTTATACTTGCTGAAAA
TGACAT
Found at i:6942068 original size:18 final size:19
Alignment explanation
Indices: 6942047--6942083 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6942037 TTTTTTATAT
*
6942047 TTATTTATTTATTT-ATTA
1 TTATTTATTGATTTGATTA
6942065 TTATTTATTGATTTGATTA
1 TTATTTATTGATTTGATTA
6942084 GAATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTATTTATTGATTTGATTA
Found at i:6942125 original size:17 final size:16
Alignment explanation
Indices: 6942095--6942152 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 16
6942085 AATTATTTAG
*
6942095 TATTTCTTATTTTATTC
1 TATTT-TTATTTTATTT
6942112 TATTTTTATCTTTATTTT
1 TATTTTTAT-TTTA-TTT
*
6942130 TATTTTTATTTTCTTT
1 TATTTTTATTTTATTT
6942146 TATTTTT
1 TATTTTT
6942153 TGATTTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
16 14 0.38
17 12 0.32
18 11 0.30
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTTATTTTATTT
Found at i:6942141 original size:11 final size:11
Alignment explanation
Indices: 6942104--6942152 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
6942094 GTATTTCTTA
*
6942104 TTTTATTCTAT
1 TTTTATTTTAT
6942115 TTTTATCTTTAT
1 TTTTAT-TTTAT
6942127 TTTTATTTT-T
1 TTTTATTTTAT
*
6942137 ATTTTCTTTTAT
1 -TTTTATTTTAT
6942149 TTTT
1 TTTT
6942153 TGATTTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 1 0.03
11 21 0.64
12 11 0.33
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:6942152 original size:6 final size:6
Alignment explanation
Indices: 6942095--6942141 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
6942085 AATTATTTAG
* *
6942095 TATTTCT TA-TTT TA-TTC TATTTT TATCTT TATTTT TATTTT TATTTT
1 TATTT-T TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
6942142 CTTTTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 7 0.20
6 26 0.74
7 2 0.06
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:6942153 original size:18 final size:17
Alignment explanation
Indices: 6942112--6942163 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
6942102 TATTTTATTC
*
6942112 TATTTTTATCTTTATTTT
1 TATTTTTAT-TTTCTTTT
6942130 TATTTTTATTTTC-TTT
1 TATTTTTATTTTCTTTT
6942146 TATTTTTTGATTTTCTTT
1 TA-TTTTT-ATTTTCTTT
6942164 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.17
17 8 0.27
18 15 0.50
19 2 0.07
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (17 bp):
TATTTTTATTTTCTTTT
Found at i:6942277 original size:118 final size:120
Alignment explanation
Indices: 6942155--6942409 Score: 320
Period size: 118 Copynumber: 2.1 Consensus size: 120
6942145 TTATTTTTTG
*
6942155 ATTTTCTTTAAATAA-AAATTTGAAAAAAAAAATATTTTTGAACAAGAGTTGAAAGTATCAATTT
1 ATTTTCTTTAAA-AATAAATTTGAAAAAAAAAATATTTTTGAACAAAAGTTGAAAGTATCAATTT
* *** * **
6942219 TCTTTGAAAATAAGTTTTCT-AAAATTTTTTTTTTTTG-AAAAGTTGAAAGTATCA
65 TCCTTGAAAATAAGTTTTCTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
* **** *
6942273 ATTTT-TCTTAAAAATAAGTTTGTTCTAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTT
1 ATTTTCT-TTAAAAATAAATTTGAAAAAAAAAATATTTTTGAACAAAAGTTGAAAGTATCAATTT
*
6942337 TCCTTGAAAATAAGTTTTTTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
65 TCCTTGAAAATAAGTTTTCTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
*
6942393 ATTTTCTTTGAAAATAA
1 ATTTTCTTTAAAAATAA
6942410 TTTTCAGAAA
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
117 3 0.03
118 70 0.60
119 11 0.09
120 31 0.27
121 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (120 bp):
ATTTTCTTTAAAAATAAATTTGAAAAAAAAAATATTTTTGAACAAAAGTTGAAAGTATCAATTTT
CCTTGAAAATAAGTTTTCTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
Found at i:6942407 original size:60 final size:60
Alignment explanation
Indices: 6942179--6942413 Score: 284
Period size: 60 Copynumber: 4.0 Consensus size: 60
6942169 AAAATTTGAA
* *
6942179 AAAAAAAATATTTTTGAACAAGAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCT
1 AAAAAAAATATTTTTGAACAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTT
**** * * *
6942239 AAAATTTTTTTTTTTTG---AAAAGTTGAAAGTATCAATTTT-TCTTAAAAATAAGTTTGTT
1 AAAA-AAAATATTTTTGAACAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAAGTTTTTT
** * *
6942297 CTAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
1 AAAAAAAATATTTTTGAACAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTT
6942357 AAAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCTTTGAAAATAA-TTTT
1 AAAAAAAATATTTTTGA-ACAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTT
6942414 CAGAAAAAAG
Statistics
Matches: 146, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
57 8 0.05
58 37 0.25
59 4 0.03
60 89 0.61
61 8 0.05
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (60 bp):
AAAAAAAATATTTTTGAACAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTT
Found at i:6942421 original size:118 final size:117
Alignment explanation
Indices: 6942181--6942522 Score: 311
Period size: 118 Copynumber: 2.9 Consensus size: 117
6942171 AATTTGAAAA
* * ***
6942181 AAAAAATATTTTTGAACAAGAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAAAATTT
1 AAAAAATATTTTTGAACAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAA
* ** *
6942246 TTTTTTTTTGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTGTTCT
66 TATTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTGTTCG
* *
6942299 AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTAAAAAAA
1 AAAAAATATTTTTGAACAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT-AAAAAA
*
6942364 ATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAA-TT-TTCAG
65 ATATTTTTGAG-AAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAGTTGTTC-G
* * * *
6942417 AAAAAAGGTTTTTTTTTTTTTAGA-AAAAGTTGAAAGTATCAA-TTTCCTTGAAATTAAAG-TCT
1 AAAAAA-------TATTTTTGA-ACAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTT
** * * * *
6942479 C-AGGAAAATATTTTCGAGGATAGTTGAAAGTATTAATTTTTCTT
57 CTAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTT
6942523 GTACAAAAAC
Statistics
Matches: 187, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
117 3 0.02
118 62 0.33
119 16 0.09
120 27 0.14
121 17 0.09
122 19 0.10
124 14 0.07
125 28 0.15
126 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.42
Consensus pattern (117 bp):
AAAAAATATTTTTGAACAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAA
TATTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTGTTCG
Found at i:6942608 original size:15 final size:15
Alignment explanation
Indices: 6942590--6942618 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6942580 TTTTTTCTTT
6942590 TTTTCATTTTATTTC
1 TTTTCATTTTATTTC
6942605 TTTTCATTTTATTT
1 TTTTCATTTTATTT
6942619 TCTTGAATTT
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:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCATTTTATTTC
Found at i:6945586 original size:37 final size:37
Alignment explanation
Indices: 6945535--6945612 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
6945525 CAAGGATAAG
* *
6945535 AAAAACCCAACAATGGCACCATCCTTTGGTTACATGC
1 AAAAACACAACAATGGCACCATACTTTGGTTACATGC
* **
6945572 AAAAACACAGCAATGGTGCCATACTTTGGTTACATGC
1 AAAAACACAACAATGGCACCATACTTTGGTTACATGC
6945609 AAAA
1 AAAA
6945613 GGCATCCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.22
Consensus pattern (37 bp):
AAAAACACAACAATGGCACCATACTTTGGTTACATGC
Found at i:6949311 original size:3 final size:3
Alignment explanation
Indices: 6949303--6949330 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6949293 AAATTTATGC
6949303 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6949331 AAAAAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6952863 original size:13 final size:13
Alignment explanation
Indices: 6952845--6952878 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6952835 GCAGCAACAA
*
6952845 AAAAAAATAATAG
1 AAAAAAATAAAAG
6952858 AAAAAAATAAAAG
1 AAAAAAATAAAAG
6952871 AGAAAAAA
1 A-AAAAAA
6952879 GGCTAGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAAAAATAAAAG
Found at i:6953542 original size:24 final size:23
Alignment explanation
Indices: 6953506--6953554 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
6953496 GAAAAAAAAG
* *
6953506 AAGAAGAAGAGTTTATAAGGAAAC
1 AAGAAGAAAAGTTT-TAAAGAAAC
*
6953530 AAGATGAAAAGTTTTAAAGAAAC
1 AAGAAGAAAAGTTTTAAAGAAAC
6953553 AA
1 AA
6953555 ATTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.57, C:0.04, G:0.20, T:0.18
Consensus pattern (23 bp):
AAGAAGAAAAGTTTTAAAGAAAC
Found at i:6954227 original size:16 final size:16
Alignment explanation
Indices: 6954161--6954227 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 16
6954151 AGTGTTTAAA
6954161 ATAATAATTAAAAA-AT
1 ATAATAA-TAAAAATAT
*
6954177 ATACTAATAAATAATAAT
1 ATAATAATAAA-AAT-AT
*
6954195 AAAAGTAAATAATAAATAT
1 ATAA-T-AATAA-AAATAT
6954214 ATAATAATAAAAAT
1 ATAATAATAAAAAT
6954228 TTTAAATCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 4 0.10
16 12 0.29
17 5 0.12
18 5 0.12
19 6 0.15
20 8 0.20
21 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (16 bp):
ATAATAATAAAAATAT
Found at i:6954496 original size:19 final size:19
Alignment explanation
Indices: 6954449--6954513 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
6954439 TAAACTTTTC
* *
6954449 AAACCCTAGGTAAAAACCT
1 AAACCCTAGGTGAATACCT
***
6954468 AAATTTTAGGTGAA-ACCAT
1 AAACCCTAGGTGAATACC-T
6954487 AAACCCTAGGTGAATACCT
1 AAACCCTAGGTGAATACCT
*
6954506 AAATCCTA
1 AAACCCTA
6954514 AGCAAAACCC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 3 0.08
19 30 0.83
20 3 0.08
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (19 bp):
AAACCCTAGGTGAATACCT
Found at i:6954679 original size:19 final size:19
Alignment explanation
Indices: 6954655--6954707 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
6954645 CTCTAAAATG
*
6954655 AAACCCTAAATCCTAAGTA
1 AAACCCTAAACCCTAAGTA
* *
6954674 AAACCCGAAACCCTAGGTA
1 AAACCCTAAACCCTAAGTA
6954693 AAA-CCTAAAACCCTA
1 AAACCCT-AAACCCTA
6954708 TAATGAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 2 0.07
19 27 0.93
ACGTcount: A:0.47, C:0.30, G:0.08, T:0.15
Consensus pattern (19 bp):
AAACCCTAAACCCTAAGTA
Found at i:6958809 original size:34 final size:34
Alignment explanation
Indices: 6958766--6958842 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
6958756 ATCTAAGAAG
* * * *
6958766 ATCCAAGAAGGTTTGATGCTTCTCGGAAATGGAT
1 ATCCAAGAAGCTTTGAAGCTTCTCGAAAATGAAT
*
6958800 ATCCAAGAAGCTTTGAAGCTTTTCGAAAATGAAT
1 ATCCAAGAAGCTTTGAAGCTTCTCGAAAATGAAT
*
6958834 ATTCAAGAA
1 ATCCAAGAA
6958843 TTCTTAAAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (34 bp):
ATCCAAGAAGCTTTGAAGCTTCTCGAAAATGAAT
Found at i:6960921 original size:27 final size:25
Alignment explanation
Indices: 6960861--6960923 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
6960851 ACGTTGATTT
*
6960861 TTCTTTTTT-TATCTTTCATTTTTA
1 TTCTTTTTTATATCTTTAATTTTTA
*
6960885 TCTCTCTTTTTATATTTTTAAATTTTTAA
1 T-TCT-TTTTTATATCTTT-AATTTTT-A
6960914 TTCTTTTTTA
1 TTCTTTTTTA
6960924 AAAAATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
24 1 0.03
25 3 0.09
26 5 0.16
27 12 0.38
28 9 0.28
29 2 0.06
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (25 bp):
TTCTTTTTTATATCTTTAATTTTTA
Found at i:6961116 original size:14 final size:14
Alignment explanation
Indices: 6961088--6961120 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6961078 TTAATATATA
*
6961088 TATATATATATATT
1 TATATATATAAATT
6961102 TATATATATAAATT
1 TATATATATAAATT
6961116 TATAT
1 TATAT
6961121 TTGATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATATATAAATT
Found at i:6961129 original size:2 final size:2
Alignment explanation
Indices: 6961081--6961111 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6961071 ACACTTATTA
*
6961081 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6961112 AATTTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6961160 original size:17 final size:19
Alignment explanation
Indices: 6961140--6961182 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6961130 TATTTGTATA
6961140 TAAATTT-TA-TACACTAT
1 TAAATTTATATTACACTAT
*
6961157 TAAATATTATATTATACTAT
1 TAAAT-TTATATTACACTAT
6961177 TAAATT
1 TAAATT
6961183 AATAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 2 0.09
19 3 0.14
20 12 0.55
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATTTATATTACACTAT
Found at i:6966178 original size:12 final size:12
Alignment explanation
Indices: 6966161--6966185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6966151 TTAAAAAAAA
6966161 AAAATTTATATT
1 AAAATTTATATT
6966173 AAAATTTATATT
1 AAAATTTATATT
6966185 A
1 A
6966186 TTTTTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAATTTATATT
Found at i:6966186 original size:17 final size:18
Alignment explanation
Indices: 6966164--6966213 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
6966154 AAAAAAAAAA
6966164 ATTTATATTAAAATTTAT
1 ATTTATATTAAAATTTAT
* * *
6966182 A-TTATTTTTAAATATAT
1 ATTTATATTAAAATTTAT
*
6966199 ATTTAAATTAAAATT
1 ATTTATATTAAAATT
6966214 AAATTAATAA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATATTAAAATTTAT
Found at i:6967849 original size:7 final size:7
Alignment explanation
Indices: 6967837--6967871 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
6967827 ATTTTAATCT
6967837 TAAAATA
1 TAAAATA
6967844 TAAAATA
1 TAAAATA
6967851 TAAAATA
1 TAAAATA
6967858 TAAAATA
1 TAAAATA
6967865 TAAAATA
1 TAAAATA
6967872 ATTTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAAATA
Found at i:6968578 original size:13 final size:13
Alignment explanation
Indices: 6968555--6968591 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6968545 ATTAGATTCG
6968555 CAATA-AAAAATA
1 CAATATAAAAATA
6968567 CAATATAAAAATA
1 CAATATAAAAATA
6968580 -ATATATAAAAAT
1 CA-ATATAAAAAT
6968592 GACATGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (13 bp):
CAATATAAAAATA
Found at i:6969695 original size:244 final size:242
Alignment explanation
Indices: 6969260--6969700 Score: 724
Period size: 244 Copynumber: 1.8 Consensus size: 242
6969250 AAATCAGCAA
* *
6969260 TTATTTATTTCTGTTTGGAATATCTCCAAATGACGCATAAATGTCTAAGATTTTTTTTTATTGAA
1 TTATTTATTTCTGTTTGGAATATCTCCAAATGACGCAGAAATGTCTAAGATTATTTTTTATTGAA
*
6969325 AACTTACCATTATTTATGTATTTTTAAAATTTTTAAAGTTTTTATCCGTTTTTGTTATGAATATG
66 AACTTACCATTATTTATGTATTTTTAAAATTTTTAAAGTTTTTATCCGTTTTTGTTATAAATATG
*
6969390 GCTTTGATATTTTAATTTCCTATACATTAATTACTTTAAAAAGATATTTTCCTAGGTTACTCCTC
131 GCCTTGATATTTTAATTTCCTATACATTAATTACTTTAAAAAGATATTTTCCTAGGTTACTCCTC
6969455 TTTAAATAAGTTGGCGATGAGATTTGTTTTTATAATTGTGAGATTGG
196 TTTAAATAAGTTGGCGATGAGATTTGTTTTTATAATTGTGAGATTGG
*
6969502 TTATTTATTTCTGTTTGGAATATCTCCAAATGGA-GCAGAAATGTTTAAGA-TATTTTTTATTGA
1 TTATTTATTTCTGTTTGGAATATCTCCAAAT-GACGCAGAAATGTCTAAGATTATTTTTTATTGA
**
6969565 AAACTTACCATTATTTATGTATTTTTTAAGTTTTCTTTAAAGTTTTTATCCGTTTTTGTTATAAA
65 AAACTTACCATTATTTATGTA-TTTTTAA-AATT-TTTAAAGTTTTTATCCGTTTTTGTTATAAA
* * * *
6969630 TATGGCCTTGATATTTTAATTTTCTATACATTAATTACTTTGAAAAGATATTTTTCTATGTTACT
127 TATGGCCTTGATATTTTAATTTCCTATACATTAATTACTTTAAAAAGATATTTTCCTAGGTTACT
*
6969695 CTTCTT
192 CCTCTT
6969701 GAATGTATAC
Statistics
Matches: 183, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
241 33 0.18
242 52 0.28
243 4 0.02
244 94 0.51
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (242 bp):
TTATTTATTTCTGTTTGGAATATCTCCAAATGACGCAGAAATGTCTAAGATTATTTTTTATTGAA
AACTTACCATTATTTATGTATTTTTAAAATTTTTAAAGTTTTTATCCGTTTTTGTTATAAATATG
GCCTTGATATTTTAATTTCCTATACATTAATTACTTTAAAAAGATATTTTCCTAGGTTACTCCTC
TTTAAATAAGTTGGCGATGAGATTTGTTTTTATAATTGTGAGATTGG
Found at i:6970082 original size:297 final size:298
Alignment explanation
Indices: 6969484--6970096 Score: 729
Period size: 297 Copynumber: 2.1 Consensus size: 298
6969474 AGATTTGTTT
* * * * * * * * *
6969484 TTATAATTGTGAGATTGGTTATTTATTTCTGTTTGGAATATCTCCAAATGGAGCAGAAATGTTTA
1 TTATAATTATGAGATTAGTTATCTATTTATATTTGGAATATCTCAAAATGAAGCAGAAATATTCA
*
6969549 AGATATTTTTTATTGAAAACTTACCATTATTTATGTATTTTTTAAGTTTTCTTTAAAGTTTTTAT
66 AGATATTTTTTATTGAAAACTTACCATTAGTTATGTATTTTTTAAGTTTTCTTTAAAGTTTTTAT
*
6969614 CCGTTTTTGTTATAAATATGGCCTTGATATTTTAATTTTCTATACATTAATTACTTTGAAAAGAT
131 CCGTTTTTGTTATAAATATGGCCTTAATATTTTAATTTTCTATACATTAATTACTTTGAAAAGAT
* *** * * *
6969679 ATTTTTCTATGTTACTCTTCTTGAATGTATACTTTTTTTTTTTTTGTTTTTAGCCCATCATTTGA
196 ATTTTTCTATGTTACTCTCCTTGAATGTATACTAGATTATTTTCTGGTTTTAGCCCATCATTTGA
*
6969744 ACATGACTCTTTGAGTAAGATGACGATGAGATTAATTC
261 ACATGACTCTTTGAGTAAGATGACGATGAAATTAATTC
* * * *
6969782 TTATAATTATGATATTAGTTATCTATTTATATTTGTAATATCTTAAAATGAAAGCTGAAATATTC
1 TTATAATTATGAGATTAGTTATCTATTTATATTTGGAATATCTCAAAATG-AAGCAGAAATATTC
* **
6969847 AAGATATTTTTT-TTGAAAACTTACCATTAGTTATGTA-TTTTTAAGTTTTTTTTTTAGTTTTTA
65 AAGATATTTTTTATTGAAAACTTACCATTAGTTATGTATTTTTTAAGTTTTCTTTAAAGTTTTTA
** * * * * *
6969910 TTCTTTTTTTTTTTATGAATATGGCTTTAATATTTTAGTTTTCTATACATTGATTACTTT-AAAA
130 -TC-CGTTTTTGTTATAAATATGGCCTTAATATTTTAATTTTCTATACATTAATTACTTTGAAAA
* * ** *
6969974 GGATAATTTTTCTATGTTACTCTCCTTGAAT-T-T-GTAGATTATTTTCTGGTTTTGGCCTGTTA
193 -GAT-ATTTTTCTATGTTACTCTCCTTGAATGTATACTAGATTATTTTCTGGTTTTAGCCCATCA
* *
6970036 TTTGAACATGACTCTTTGAGTAAGGT-A-GCAGTGAAATTAGTTC
256 TTTGAACATGACTCTTTGAGTAAGATGACG-A-TGAAATTAATTC
* *
6970079 TTATAATTGTAAGATTAG
1 TTATAATTATGAGATTAG
6970097 ATCATTGGTA
Statistics
Matches: 265, Mismatches: 43, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
295 1 0.00
296 2 0.01
297 91 0.34
298 72 0.27
299 74 0.28
300 25 0.09
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (298 bp):
TTATAATTATGAGATTAGTTATCTATTTATATTTGGAATATCTCAAAATGAAGCAGAAATATTCA
AGATATTTTTTATTGAAAACTTACCATTAGTTATGTATTTTTTAAGTTTTCTTTAAAGTTTTTAT
CCGTTTTTGTTATAAATATGGCCTTAATATTTTAATTTTCTATACATTAATTACTTTGAAAAGAT
ATTTTTCTATGTTACTCTCCTTGAATGTATACTAGATTATTTTCTGGTTTTAGCCCATCATTTGA
ACATGACTCTTTGAGTAAGATGACGATGAAATTAATTC
Found at i:6971957 original size:23 final size:25
Alignment explanation
Indices: 6971908--6971963 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
6971898 ATATTATACA
* *
6971908 TTTAATTATTAATTTGTATATTAAT
1 TTTATTTATTAATGTGTATATTAAT
*
6971933 TTTATTTATTAA-GTGT-TATTCAT
1 TTTATTTATTAATGTGTATATTAAT
6971956 TTTATTTA
1 TTTATTTA
6971964 ATTTTAGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 14 0.50
24 3 0.11
25 11 0.39
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTATTTATTAATGTGTATATTAAT
Found at i:6973396 original size:23 final size:23
Alignment explanation
Indices: 6973348--6973401 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
6973338 TGTCGATGGT
6973348 TTTTAATTAAATAAAATAATATA
1 TTTTAATTAAATAAAATAATATA
*
6973371 TTTTACATTATATAAAAT-AT-TA
1 TTTTA-ATTAAATAAAATAATATA
*
6973393 ATTTAATTA
1 TTTTAATTA
6973402 TTTTATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.14
22 6 0.21
23 7 0.25
24 11 0.39
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTTAATTAAATAAAATAATATA
Found at i:6975333 original size:29 final size:29
Alignment explanation
Indices: 6975300--6975360 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
6975290 TGAATCGAGA
6975300 TTTGTTTTGAAAACTGAGAACTCAAATAC
1 TTTGTTTTGAAAACTGAGAACTCAAATAC
6975329 TTTGTTTTGAAAACTGAGAACTCAAATAC
1 TTTGTTTTGAAAACTGAGAACTCAAATAC
6975358 TTT
1 TTT
6975361 TGCTATCCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (29 bp):
TTTGTTTTGAAAACTGAGAACTCAAATAC
Found at i:6976691 original size:16 final size:16
Alignment explanation
Indices: 6976670--6976701 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6976660 GGCAGCTTAT
6976670 GTATCTGACACAAAAC
1 GTATCTGACACAAAAC
6976686 GTATCTGACACAAAAC
1 GTATCTGACACAAAAC
6976702 TTAAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (16 bp):
GTATCTGACACAAAAC
Found at i:6989473 original size:13 final size:13
Alignment explanation
Indices: 6989455--6989479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6989445 AATGGCCTTA
6989455 GCTTTATTTAAAG
1 GCTTTATTTAAAG
6989468 GCTTTATTTAAA
1 GCTTTATTTAAA
6989480 CTTGTTTGTT
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:0.08, G:0.12, T:0.48
Consensus pattern (13 bp):
GCTTTATTTAAAG
Found at i:6995461 original size:87 final size:85
Alignment explanation
Indices: 6995296--6995468 Score: 276
Period size: 87 Copynumber: 2.0 Consensus size: 85
6995286 GACATGACCT
* *
6995296 AAACTTAAAACAAACAACTGCTGCACGCTATCACTGTATTTGAGACCCAATCATGCATGCTTGAC
1 AAACTTAAAACAAACAACTGCTGCAAGCTATCACTGTATTTGAAACCCAATCATGCATGCTTGAC
6995361 TAATGAAGCAGTTTAATACA
66 TAATGAAGCAGTTTAATACA
6995381 AAACTTAAAA-AGAACATAACTGCTGCAAGCTATCACTGTATTTGAAACCCAATCATGCATGCTT
1 AAACTTAAAACA-AAC--AACTGCTGCAAGCTATCACTGTATTTGAAACCCAATCATGCATGCTT
* *
6995445 GACTAATGAGGGAGTTTAATACA
63 GACTAATGAAGCAGTTTAATACA
6995468 A
1 A
6995469 TGAGTTTACT
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
84 1 0.01
85 13 0.16
87 67 0.83
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (85 bp):
AAACTTAAAACAAACAACTGCTGCAAGCTATCACTGTATTTGAAACCCAATCATGCATGCTTGAC
TAATGAAGCAGTTTAATACA
Found at i:6996400 original size:2 final size:2
Alignment explanation
Indices: 6996393--6996423 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6996383 AAGAAAATCA
6996393 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
6996424 GAGAGAGAGA
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:6996428 original size:2 final size:2
Alignment explanation
Indices: 6996423--6996456 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6996413 ATATATATAT
*
6996423 AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6996457 GAAGAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6998703 original size:15 final size:16
Alignment explanation
Indices: 6998670--6998704 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6998660 AAAAGATTAC
6998670 TTTTTAGAATCTTATT
1 TTTTTAGAATCTTATT
6998686 TTTTTAGAAT-TTGATT
1 TTTTTAGAATCTT-ATT
6998702 TTT
1 TTT
6998705 ATTTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 16 0.89
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.66
Consensus pattern (16 bp):
TTTTTAGAATCTTATT
Found at i:6998938 original size:73 final size:74
Alignment explanation
Indices: 6998846--6998983 Score: 233
Period size: 73 Copynumber: 1.9 Consensus size: 74
6998836 TTTTAATAAC
* * *
6998846 AATTTTTTTAAATTTATTTTATCTTGAAAATTAACGTAATTATATGATAAATAAAAATTTATTTT
1 AATTTTTTTAAATTTATTTTATCTTGAAAATCAACGTAATTAGATGATAAATAAAAATTCATTTT
6998911 AATATGAAA
66 AATATGAAA
*
6998920 AATTTTTTT-AATTTATTTTATCTTGAAAATCAATGTAATTAGATGATAAATAAAAATTCATTTT
1 AATTTTTTTAAATTTATTTTATCTTGAAAATCAACGTAATTAGATGATAAATAAAAATTCATTTT
6998984 GATCTAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
73 51 0.85
74 9 0.15
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.48
Consensus pattern (74 bp):
AATTTTTTTAAATTTATTTTATCTTGAAAATCAACGTAATTAGATGATAAATAAAAATTCATTTT
AATATGAAA
Found at i:7002088 original size:30 final size:29
Alignment explanation
Indices: 7002002--7002088 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
7001992 GTGTTTGAAT
7002002 TATTTTATTT-T-TTTAAATAAGTTTTTA
1 TATTTTATTTATATTTAAATAAGTTTTTA
** *
7002029 TATTTT-TATTATATCCAAATAAATTTTTA
1 TATTTTAT-TTATATTTAAATAAGTTTTTA
*
7002058 TATTTTAATTTATATTTAAATAAGTCTTTA
1 TATTTT-ATTTATATTTAAATAAGTTTTTA
7002088 T
1 T
7002089 TTTAAATAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 8 0.17
28 1 0.02
29 19 0.40
30 18 0.38
31 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (29 bp):
TATTTTATTTATATTTAAATAAGTTTTTA
Found at i:7002155 original size:31 final size:31
Alignment explanation
Indices: 7002113--7002230 Score: 150
Period size: 31 Copynumber: 3.8 Consensus size: 31
7002103 TATTTATGTT
* *
7002113 AAGAGTTTATTTAGATATAAATTAAAAAATTA
1 AAGAGTTTATTTAAATATAAATT-AAAATTTA
*
7002145 AAGA-TTTATTTAAATATAAATTAAAATTTT
1 AAGAGTTTATTTAAATATAAATTAAAATTTA
*
7002175 AAGAGTTTATTTAAATATAAATTAAAGTTTA
1 AAGAGTTTATTTAAATATAAATTAAAATTTA
* * *
7002206 AA-AATTTATTTAAGTGTAAATTAAA
1 AAGAGTTTATTTAAATATAAATTAAA
7002231 TATTAATAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
30 30 0.39
31 43 0.56
32 4 0.05
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (31 bp):
AAGAGTTTATTTAAATATAAATTAAAATTTA
Found at i:7002180 original size:62 final size:61
Alignment explanation
Indices: 7002111--7002272 Score: 177
Period size: 61 Copynumber: 2.7 Consensus size: 61
7002101 ATTATTTATG
* *
7002111 TTAAGAGTTTATTTAGATATAAATTAAAAAATTAAAGATTTATTTAAATATAAATTAAAATT
1 TTAAGAGTTTATTTAAATATAAATT-AAAAATTAAAAATTTATTTAAATATAAATTAAAATT
** * * *
7002173 TTAAGAGTTTATTTAAATATAAATTAAAGTTTAAAAATTTATTTAAGTGTAAATT-AAATA
1 TTAAGAGTTTATTTAAATATAAATTAAAAATTAAAAATTTATTTAAATATAAATTAAAATT
* * * * * *
7002233 TTAATAATTCATTTAAATA-CAA-TAAAAATAAAAAAATTAT
1 TTAAGAGTTTATTTAAATATAAATTAAAAATTAAAAATTTAT
7002273 ATAAGTAAAG
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 14 0.16
59 2 0.02
60 20 0.24
61 25 0.29
62 24 0.28
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (61 bp):
TTAAGAGTTTATTTAAATATAAATTAAAAATTAAAAATTTATTTAAATATAAATTAAAATT
Found at i:7002214 original size:30 final size:30
Alignment explanation
Indices: 7002118--7002251 Score: 144
Period size: 31 Copynumber: 4.4 Consensus size: 30
7002108 ATGTTAAGAG
* * *
7002118 TTTATTTAGATATAAATTAAAAAATTAAAGA
1 TTTATTTAAATATAAATT-AAAATTTAAAAA
* *
7002149 TTTATTTAAATATAAATTAAAATTTTAAGAG
1 TTTATTTAAATATAAATTAAAA-TTTAAAAA
*
7002180 TTTATTTAAATATAAATTAAAGTTTAAAAA
1 TTTATTTAAATATAAATTAAAATTTAAAAA
* * *
7002210 TTTATTTAAGTGTAAATT-AAATATTAATAA
1 TTTATTTAAATATAAATTAAAAT-TTAAAAA
*
7002240 TTCATTTAAATA
1 TTTATTTAAATA
7002252 CAATAAAAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
29 3 0.03
30 41 0.48
31 42 0.49
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTATTTAAATATAAATTAAAATTTAAAAA
Found at i:7004574 original size:31 final size:31
Alignment explanation
Indices: 7004539--7004601 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
7004529 TTTTCCTTAT
* *
7004539 AATTAT-GAAAATATTCTTTATTTTATTATTG
1 AATTATAG-AAATATCCTTTATCTTATTATTG
*
7004570 AATTATAGAAATATCCTTTCTCTTATTATTG
1 AATTATAGAAATATCCTTTATCTTATTATTG
7004601 A
1 A
7004602 CCAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (31 bp):
AATTATAGAAATATCCTTTATCTTATTATTG
Found at i:7005433 original size:21 final size:20
Alignment explanation
Indices: 7005409--7005449 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
7005399 CATGGATATG
7005409 CAATTATATATATATATAACT
1 CAATTATATATA-ATATAACT
7005430 CAATTATATATAATATAACT
1 CAATTATATATAATATAACT
7005450 AATAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (20 bp):
CAATTATATATAATATAACT
Found at i:7005457 original size:23 final size:22
Alignment explanation
Indices: 7005410--7005465 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
7005400 ATGGATATGC
*
7005410 AATTATATAT-ATATATAACTC
1 AATTATATATAATATATAACTA
7005431 AATTATATATAATATAACTAA-TA
1 AATTATATATAATAT-A-TAACTA
*
7005454 AATTTTATATAA
1 AATTATATATAA
7005466 AAAAGTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 10 0.33
22 4 0.13
23 13 0.43
24 3 0.10
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTATATATAATATATAACTA
Found at i:7007560 original size:24 final size:25
Alignment explanation
Indices: 7007517--7007563 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
7007507 TAATTGATCA
7007517 AAATTATTATAATACATTTTATACT
1 AAATTATTATAATACATTTTATACT
7007542 AAATTA-TATAAATAC-TTTTATA
1 AAATTATTAT-AATACATTTTATA
7007564 AGTGCTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATTATTATAATACATTTTATACT
Found at i:7007800 original size:27 final size:28
Alignment explanation
Indices: 7007769--7007822 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
7007759 TAGATAATTG
7007769 TAATTT-TTATTAAAATAAAAA-ATTAAA
1 TAATTTATT-TTAAAATAAAAATATTAAA
7007796 TAATTTATTTTAAAATAAAAATATTAA
1 TAATTTATTTTAAAATAAAAATATTAA
7007823 TCCCCAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TAATTTATTTTAAAATAAAAATATTAAA
Found at i:7008920 original size:2 final size:2
Alignment explanation
Indices: 7008913--7008943 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7008903 TGATTTGAGG
7008913 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
7008944 TATTATTATT
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:7010472 original size:20 final size:20
Alignment explanation
Indices: 7010425--7010473 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
7010415 AAAAATTTAG
*
7010425 AAAATAAAAAATGAAAATTA
1 AAAATAAAAAATGAAAATAA
****
7010445 TTTTTAAAAAATGAAAATAA
1 AAAATAAAAAATGAAAATAA
7010465 AAAATAAAA
1 AAAATAAAA
7010474 TTAGAAAATA
Statistics
Matches: 20, Mismatches: 9, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAATAAAAAATGAAAATAA
Found at i:7015427 original size:10 final size:10
Alignment explanation
Indices: 7015412--7015436 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7015402 TATTTTATAA
7015412 TCAATGAACT
1 TCAATGAACT
7015422 TCAATGAACT
1 TCAATGAACT
7015432 TCAAT
1 TCAAT
7015437 TTACTCAATA
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:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (10 bp):
TCAATGAACT
Found at i:7015560 original size:3 final size:3
Alignment explanation
Indices: 7015554--7015604 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
7015544 ACAATTATTT
7015554 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7015602 TAA
1 TAA
7015605 AAAAAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7016491 original size:23 final size:23
Alignment explanation
Indices: 7016465--7016511 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7016455 TGATGAAGAG
7016465 AAAATATCATTTTATTGACAGAT
1 AAAATATCATTTTATTGACAGAT
7016488 AAAATATCATTTTATTGACAGAT
1 AAAATATCATTTTATTGACAGAT
7016511 A
1 A
7016512 GATGAGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (23 bp):
AAAATATCATTTTATTGACAGAT
Found at i:7017379 original size:19 final size:21
Alignment explanation
Indices: 7017343--7017381 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
7017333 TTTAATATCA
7017343 TTTTAGAAAAAAATTATTTTC
1 TTTTAGAAAAAAATTATTTTC
*
7017364 TTTTA-AAAATAA-TATTTT
1 TTTTAGAAAAAAATTATTTT
7017382 ATTCATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (21 bp):
TTTTAGAAAAAAATTATTTTC
Found at i:7017919 original size:13 final size:14
Alignment explanation
Indices: 7017883--7017913 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7017873 TATTTTTCTT
*
7017883 TTTTATAAAATGTA
1 TTTTATAAAATATA
7017897 TTTTATAAAATATA
1 TTTTATAAAATATA
7017911 TTT
1 TTT
7017914 AAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TTTTATAAAATATA
Found at i:7019058 original size:23 final size:23
Alignment explanation
Indices: 7019032--7019077 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7019022 AACTTTAGAT
*
7019032 TTTTAAAAAATATATAAAAATAA
1 TTTTAAAAAATATAAAAAAATAA
* * *
7019055 TTTTGAAACATTTAAAAAAATAA
1 TTTTAAAAAATATAAAAAAATAA
7019078 AAAAAATGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TTTTAAAAAATATAAAAAAATAA
Done.