Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 128 of 187
Found at i:38145248 original size:24 final size:24
Alignment explanation
Indices: 38145221--38145267 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
38145211 AATAATAAAG
* *
38145221 AAAAAATTTTAAAAATGACACTGC
1 AAAAAAGTTTAAAAAAGACACTGC
*
38145245 AAAAAGGTTTAAAAAAGACACTG
1 AAAAAAGTTTAAAAAAGACACTG
38145268 ACGCAACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (24 bp):
AAAAAAGTTTAAAAAAGACACTGC
Found at i:38146878 original size:36 final size:36
Alignment explanation
Indices: 38146838--38146913 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
38146828 AGGATGATGA
38146838 TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
1 TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
* *
38146874 TTTCTCTTCATCTTTCCTCCTTTCTTGTACTATTAT
1 TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
38146910 TTTC
1 TTTC
38146914 GTAATAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.13, C:0.28, G:0.01, T:0.58
Consensus pattern (36 bp):
TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
Found at i:38146931 original size:11 final size:11
Alignment explanation
Indices: 38146915--38146953 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
38146905 ATTATTTTCG
38146915 TAATAAAATAT
1 TAATAAAATAT
38146926 TAATAAAA-AT
1 TAATAAAATAT
38146936 CTAATTAAAATAT
1 -TAA-TAAAATAT
38146949 TAATA
1 TAATA
38146954 TTATAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 8 0.32
13 2 0.08
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:38149350 original size:19 final size:19
Alignment explanation
Indices: 38149323--38149361 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38149313 ATTTAAATTG
38149323 TTTTATATTTGATTTG-TAA
1 TTTTATATTTG-TTTGATAA
*
38149342 TTTTGTATTTGTTTGATAA
1 TTTTATATTTGTTTGATAA
38149361 T
1 T
38149362 AGTTTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (19 bp):
TTTTATATTTGTTTGATAA
Found at i:38149801 original size:19 final size:19
Alignment explanation
Indices: 38149774--38149812 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38149764 ATTTAAATTG
38149774 TTTTATATTTGATTTG-TAA
1 TTTTATATTTG-TTTGATAA
*
38149793 TTTTGTATTTGTTTGATAA
1 TTTTATATTTGTTTGATAA
38149812 T
1 T
38149813 AGTTTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (19 bp):
TTTTATATTTGTTTGATAA
Found at i:38149854 original size:451 final size:451
Alignment explanation
Indices: 38149012--38149914 Score: 1788
Period size: 451 Copynumber: 2.0 Consensus size: 451
38149002 GCTTTCAAAG
*
38149012 TACTTAATTGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGTTATAATAGTTTTGGTTTTA
1 TACTTAATTGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGTTATAATAGTTTTCGTTTTA
38149077 GGGACTAAATTGAATAAAATACAAAAGTTTAGGGGGATTCGAATAGTAAAATTAAACTGATATAT
66 GGGACTAAATTGAATAAAATACAAAAGTTTAGGGGGATTCGAATAGTAAAATTAAACTGATATAT
38149142 AATTATAACAAGATGTTTGGAATTGATGAATTGAATTGAATTAAATTAATGAATAGTTTGAAAAT
131 AATTATAACAAGATGTTTGGAATTGATGAATTGAATTGAATTAAATTAATGAATAGTTTGAAAAT
38149207 TGGACCAAATTGAAGAAAATCGAGGAAATGACAAAAATTACTGATTAGTCCTTAAAGAGTTGTCT
196 TGGACCAAATTGAAGAAAATCGAGGAAATGACAAAAATTACTGATTAGTCCTTAAAGAGTTGTCT
38149272 TGTTGTTGTTTTAACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATT
261 TGTTGTTGTTTTAACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATT
38149337 TGTAATTTTGTATTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTAT
326 TGTAATTTTGTATTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTAT
38149402 AAACTAAAACATAGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATC
391 AAACTAAAACATAGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATC
38149463 TACTTAATTGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGTTATAATAGTTTTCGTTTTA
1 TACTTAATTGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGTTATAATAGTTTTCGTTTTA
*
38149528 GGGACTAAATTGAATAAAATACAAAAGTTTAGGGGGATTTGAATAGTAAAATTAAACTGATATAT
66 GGGACTAAATTGAATAAAATACAAAAGTTTAGGGGGATTCGAATAGTAAAATTAAACTGATATAT
38149593 AATTATAACAAGATGTTTGGAATTGATGAATTGAATTGAATTAAATTAATGAATAGTTTGAAAAT
131 AATTATAACAAGATGTTTGGAATTGATGAATTGAATTGAATTAAATTAATGAATAGTTTGAAAAT
38149658 TGGACCAAATTGAAGAAAATCGAGGAAATGACAAAAATTACTGATTAGTCCTTAAAGAGTTGTCT
196 TGGACCAAATTGAAGAAAATCGAGGAAATGACAAAAATTACTGATTAGTCCTTAAAGAGTTGTCT
38149723 TGTTGTTGTTTTAACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATT
261 TGTTGTTGTTTTAACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATT
38149788 TGTAATTTTGTATTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTAT
326 TGTAATTTTGTATTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTAT
38149853 AAACTAAAACATAGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATC
391 AAACTAAAACATAGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATC
38149914 T
1 T
38149915 GAAATAAAAA
Statistics
Matches: 450, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
451 450 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (451 bp):
TACTTAATTGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGTTATAATAGTTTTCGTTTTA
GGGACTAAATTGAATAAAATACAAAAGTTTAGGGGGATTCGAATAGTAAAATTAAACTGATATAT
AATTATAACAAGATGTTTGGAATTGATGAATTGAATTGAATTAAATTAATGAATAGTTTGAAAAT
TGGACCAAATTGAAGAAAATCGAGGAAATGACAAAAATTACTGATTAGTCCTTAAAGAGTTGTCT
TGTTGTTGTTTTAACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATT
TGTAATTTTGTATTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTAT
AAACTAAAACATAGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATC
Found at i:38154336 original size:11 final size:11
Alignment explanation
Indices: 38154320--38154361 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
38154310 ATAATGCAAG
*
38154320 ATTTTTCTGTA
1 ATTTTTCTGTT
*
38154331 ATTTTTCTTTT
1 ATTTTTCTGTT
38154342 ATTTTTCTGTT
1 ATTTTTCTGTT
*
38154353 GTTTTTCTG
1 ATTTTTCTG
38154362 CCATATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (11 bp):
ATTTTTCTGTT
Found at i:38156750 original size:111 final size:114
Alignment explanation
Indices: 38156590--38156802 Score: 278
Period size: 111 Copynumber: 1.9 Consensus size: 114
38156580 GGAAGGATAT
* *
38156590 TTTTTTGTTGTGTTATTTTAGTTTTAGATTTATATTAAAGGTCTGATTAATTTGTTTTATT-AAT
1 TTTTTTGTTGTGTTATTTTAGTTTAAGATTTATATTAAAGGTCTGATTAATTTGTTTGATTAAAT
*
38156654 GCTTTTAT-G-GTATCTTATATC-AGTTTTTCGTATTTACTTGAAATGTTA
66 -CTTTTATGGAGAATCTTATATCGA-TTTTTCGTATTTACTTGAAATGTTA
* *
38156702 TTTTTTGTTGTGTT-TTATTAGCTTTAAG-TTTGTA-TAAAGGTTTGATTAATTTGTTTGATTAA
1 TTTTTTGTTGTGTTATT-TTAG-TTTAAGATTTATATTAAAGGTCTGATTAATTTGTTTGATTAA
* *
38156764 ATTTTTTTTGGAGAATCTTATATCGATTTTTCGTATTTA
64 ATCTTTTATGGAGAATCTTATATCGATTTTTCGTATTTA
38156803 AGGTATGAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
111 31 0.35
112 27 0.31
113 29 0.33
114 1 0.01
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (114 bp):
TTTTTTGTTGTGTTATTTTAGTTTAAGATTTATATTAAAGGTCTGATTAATTTGTTTGATTAAAT
CTTTTATGGAGAATCTTATATCGATTTTTCGTATTTACTTGAAATGTTA
Found at i:38159629 original size:21 final size:21
Alignment explanation
Indices: 38159583--38159675 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
38159573 TGATCAGTAG
* *
38159583 ACGACACA-TAAGTGCCTGAA
1 ACGACACACGAAGTGCCTGAT
* *
38159603 ATGACACACGAAGTGTCTGAT
1 ACGACACACGAAGTGCCTGAT
* *
38159624 ACGACACCCGAGGTGCCTGAT
1 ACGACACACGAAGTGCCTGAT
* ** *
38159645 ACGGCACATAAAGTGTCTGATAT
1 ACGACACACGAAGTGCCTG--AT
38159668 ACGACACA
1 ACGACACA
38159676 TAAAGTTCCT
Statistics
Matches: 55, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 7 0.13
21 39 0.71
23 9 0.16
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (21 bp):
ACGACACACGAAGTGCCTGAT
Found at i:38161091 original size:22 final size:20
Alignment explanation
Indices: 38161066--38161105 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38161056 ACATAATATA
38161066 ATAATATAATATAATATATTTT
1 ATAATA-AA-ATAATATATTTT
*
38161088 ATAATAAAATAATGTATT
1 ATAATAAAATAATATATT
38161106 AATATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
ATAATAAAATAATATATTTT
Found at i:38161099 original size:30 final size:28
Alignment explanation
Indices: 38161058--38161114 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
38161048 TTTATTTTAC
*
38161058 ATAATATAATAATATAATATAATATATTTT
1 ATAATAAAATAATAT-AT-TAATATATTTT
*
38161088 ATAATAAAATAATGTATTAATATATTT
1 ATAATAAAATAATATATTAATATATTT
38161115 AAAACATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.40
29 2 0.08
30 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
ATAATAAAATAATATATTAATATATTTT
Found at i:38168493 original size:32 final size:32
Alignment explanation
Indices: 38168452--38168527 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
38168442 CCACAGAGAA
* * * * *
38168452 AGGCAGCACACCATTGGTCATGCCCATTTCAC
1 AGGCGGCACACCACTAGTCAAGCCCATTCCAC
*
38168484 AGGCGGCACACCGCTAGTCAAGCCCATTCCAC
1 AGGCGGCACACCACTAGTCAAGCCCATTCCAC
*
38168516 AGGTGGCACACC
1 AGGCGGCACACC
38168528 TCTGGCTTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.37, G:0.22, T:0.16
Consensus pattern (32 bp):
AGGCGGCACACCACTAGTCAAGCCCATTCCAC
Found at i:38168651 original size:3 final size:3
Alignment explanation
Indices: 38168645--38168734 Score: 162
Period size: 3 Copynumber: 30.0 Consensus size: 3
38168635 ATTGAAAAAG
* *
38168645 AGA AGA AGA AGA AGA TGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
38168693 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
38168735 GAGCGGGAAG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:38170843 original size:14 final size:14
Alignment explanation
Indices: 38170824--38170858 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
38170814 GACATTGTTT
*
38170824 TTCTAATGATACTA
1 TTCTAACGATACTA
38170838 TTCTAACGATACTA
1 TTCTAACGATACTA
38170852 TTCTAAC
1 TTCTAAC
38170859 ATGTAATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:38171539 original size:6 final size:6
Alignment explanation
Indices: 38171528--38171579 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
38171518 GCTCAAGTCA
*
38171528 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCC
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT
38171576 GAGC
1 GAGC
38171580 AGTCGCATAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (6 bp):
GAGCCT
Found at i:38172200 original size:48 final size:48
Alignment explanation
Indices: 38172058--38172191 Score: 250
Period size: 48 Copynumber: 2.8 Consensus size: 48
38172048 AAATTAATTG
*
38172058 CAACATTAAAACTTAGAACAAACTTTGTAATATAAATTGAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
38172106 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
*
38172154 CAACATTAAAGCTTGGAACAAACTTTGTAATATAAATT
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
38172192 AGGTACATTG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (48 bp):
CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
Found at i:38183493 original size:60 final size:60
Alignment explanation
Indices: 38183421--38183541 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
38183411 TGCTAACCCA
38183421 CTAAGGCACATTAAAATTTAAACCCAATTTGCCTAGACCCTAGCCCAATCACGAAGCGGC
1 CTAAGGCACATTAAAATTTAAACCCAATTTGCCTAGACCCTAGCCCAATCACGAAGCGGC
* *
38183481 CTAAGGCCCATTAAAATTTAAACCCAATTTGCCTAGACCGTAGCCCAATCACGAAGCGGC
1 CTAAGGCACATTAAAATTTAAACCCAATTTGCCTAGACCCTAGCCCAATCACGAAGCGGC
38183541 C
1 C
38183542 CAACGCAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.20
Consensus pattern (60 bp):
CTAAGGCACATTAAAATTTAAACCCAATTTGCCTAGACCCTAGCCCAATCACGAAGCGGC
Found at i:38183984 original size:70 final size:70
Alignment explanation
Indices: 38183871--38184011 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
38183861 TTTTGTCTGT
* *
38183871 GTTTTTCTCTTTTCCTGCTTTTATTATTATTATTATTCGTGTATAAAAATAGGGGTAAAAGGGAG
1 GTTTTTCTCTTTTCCTACTTTTATTATTATTATTATTCATGTATAAAAATAGGGGTAAAAGGGAG
38183936 GAGTC
66 GAGTC
38183941 GTTTTTCTCTTTTCCTACTTTTATTATTATTATTATTCATGTATAAAAATAGGGGTAAAAGGGAG
1 GTTTTTCTCTTTTCCTACTTTTATTATTATTATTATTCATGTATAAAAATAGGGGTAAAAGGGAG
38184006 GAGTC
66 GAGTC
38184011 G
1 G
38184012 AGGTTGAGAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (70 bp):
GTTTTTCTCTTTTCCTACTTTTATTATTATTATTATTCATGTATAAAAATAGGGGTAAAAGGGAG
GAGTC
Found at i:38184762 original size:20 final size:21
Alignment explanation
Indices: 38184739--38184779 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
38184729 TCCTGTATGT
38184739 ATTTATATAT-ATTATATTAA
1 ATTTATATATGATTATATTAA
* *
38184759 ATTTGTATATGATTATTTTAA
1 ATTTATATATGATTATATTAA
38184780 CTTGCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTATATATGATTATATTAA
Found at i:38184812 original size:25 final size:26
Alignment explanation
Indices: 38184770--38184857 Score: 85
Period size: 25 Copynumber: 3.4 Consensus size: 26
38184760 TTTGTATATG
* *
38184770 ATTATTTTAACTTGCTTTCTA-G-ATT
1 ATTATTTTAAGTTACTTT-TACGTATT
*
38184795 ATTATTTTAAGTTACTTTATATGTCATT
1 ATTATTTTAAGTTACTTT-TACGT-ATT
38184823 -TTATTTTAAGTTA-TTTTACGTATT
1 ATTATTTTAAGTTACTTTTACGTATT
38184847 ATTTATTTTAA
1 A-TTATTTTAA
38184858 AATTAACCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.06
25 22 0.41
26 13 0.24
27 13 0.24
28 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (26 bp):
ATTATTTTAAGTTACTTTTACGTATT
Found at i:38184850 original size:27 final size:26
Alignment explanation
Indices: 38184796--38184857 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
38184786 TTCTAGATTA
38184796 TTATTTTAAGTTACTTTATATGTCATT
1 TTATTTTAAGTTACTTTATATGTCA-T
*
38184823 TTATTTTAAGTTATTTTACGTAT-T-AT
1 TTATTTTAAGTTACTTTA--TATGTCAT
38184849 TTATTTTAA
1 TTATTTTAA
38184858 AATTAACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.31
27 18 0.56
28 1 0.03
29 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTATATGTCAT
Found at i:38192112 original size:88 final size:87
Alignment explanation
Indices: 38191956--38192280 Score: 463
Period size: 88 Copynumber: 3.7 Consensus size: 87
38191946 ATCAGTAAAA
* * *
38191956 ATAGTAGATCTTGCCTTCCTGCATCGATAGTGAAGAAGATCGAAAACACAAGCCTTGCCTCCCTC
1 ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCT-CCTC
38192021 GGTTGTAGTGGAGCAGGTTGAAG
65 GGTTGTAGTGGAGCAGGTTGAAG
* * * *
38192044 ATAGCATATCTTACCTTCTTGCATAGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCCGTC
1 ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCC-TC
*
38192109 GGTTGTAGTGGAGTAGGTTGAAG
65 GGTTGTAGTGGAGCAGGTTGAAG
* * *
38192132 ATAGCAGATCTTGCCTTCTTGCATCGACGA-CGAAGCAGATCGAAGACACAAGCCTTGCCTGCCT
1 ATAGCAGATCTTGCCTTCCTGCATCGA-GAGTGAAGCAGATCGAAAACACAAGCCTTGCCT-CCT
*
38192196 CGATTGTAGTGGAGCAGGTTGAAG
64 CGGTTGTAGTGGAGCAGGTTGAAG
* * * *
38192220 ATAGCAGATCTTGCCTTCCTGCATCGACAATGAAACAGATCGAAACCACAAGCCTTGCCTC
1 ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTC
38192281 TCTAAGTGGT
Statistics
Matches: 212, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
87 4 0.02
88 204 0.96
89 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (87 bp):
ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCCTCG
GTTGTAGTGGAGCAGGTTGAAG
Found at i:38192524 original size:131 final size:128
Alignment explanation
Indices: 38192295--38192562 Score: 403
Period size: 131 Copynumber: 2.1 Consensus size: 128
38192285 AGTGGTAGTA
* *
38192295 GAGCAGATCGAAGACGGCGAATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCGCAAGTCCT
1 GAGCAGATCGAAGACAGCGAATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCT
* *
38192360 ATCTCACTGGTCAGCGGTGGAATAGGTTAGAAATTAC-AGATCTTATCCCCCTAAGCAGTAGCG
66 ATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACGA-ATCTTATCCCCCTAAGCAGTAGCG
38192423 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
1 GAGCAGATCGAAGACAGCGAATCTTATCTT---CAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
* * * * * *
38192488 CCTATCTCCCTGGTCAGCAGTGGAGTAGTTTGGAAATAACGAATCTTATCTCCCTAAGCAGTAGT
63 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACGAATCTTATCCCCCTAAGCAGTAGC
38192553 G
128 G
38192554 GAGCAGATC
1 GAGCAGATC
38192563 AAGGATGACA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
128 29 0.23
131 96 0.76
132 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (128 bp):
GAGCAGATCGAAGACAGCGAATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCT
ATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACGAATCTTATCCCCCTAAGCAGTAGCG
Found at i:38192613 original size:131 final size:130
Alignment explanation
Indices: 38192295--38192595 Score: 364
Period size: 131 Copynumber: 2.3 Consensus size: 130
38192285 AGTGGTAGTA
* * *
38192295 GAGCAGATCGAAGACGGCGAATCTTATCTT--C-AGGAGTAGGGAAGCAGATTTAAGCCGCAAGT
1 GAGCAGATCGAAGAC-ACGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAGT
* *
38192357 CCTATCTCACTGGTCAGCGGTGGAATAGGTTAGAAATTACAGATCTTATCCCCCTAAGCAGTAGC
65 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACAGATCTTATCCCCCTAAGCAGTAGC
38192422 G
130 G
* *
38192423 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
1 GAGCAGATCGAAGACA-CGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAGT
* * * * *
38192488 CCTATCTCCCTGGTCAGCAGTGGAGTAGTTTGGAAATAAC-GAATCTTATCTCCCTAAGCAGTAG
65 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACAG-ATCTTATCCCCCTAAGCAGTAG
*
38192552 TG
129 CG
*
38192554 GAGCAGATC-AAGGATGAC-AGATCTTATC-TCCCTAAGCAGTAG
1 GAGCAGATCGAA-GA-CACGA-ATCTTATCTTCCC-AAGCAGTAG
38192596 TGGAGCATAT
Statistics
Matches: 151, Mismatches: 13, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
128 28 0.19
130 9 0.06
131 113 0.75
132 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (130 bp):
GAGCAGATCGAAGACACGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAGTC
CTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACAGATCTTATCCCCCTAAGCAGTAGCG
Found at i:38192979 original size:44 final size:44
Alignment explanation
Indices: 38192920--38193013 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
38192910 AATCCTATTT
38192920 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
1 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
* *
38192964 CCCTGATATTGCAGTGGAGTGGATCAAAGCATCAATTCCTATAC
1 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
38193008 CCCTGA
1 CCCTGA
38193014 AGATGCAGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
Found at i:38193021 original size:44 final size:44
Alignment explanation
Indices: 38192920--38193024 Score: 158
Period size: 44 Copynumber: 2.4 Consensus size: 44
38192910 AATCCTATTT
* *
38192920 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
1 CCCTGATAATGCAGTGGAGTGGATCAAAGCACCAATTCCTATAC
* *
38192964 CCCTGATATTGCAGTGGAGTGGATCAAAGCATCAATTCCTATAC
1 CCCTGATAATGCAGTGGAGTGGATCAAAGCACCAATTCCTATAC
38193008 CCCTGA-AGATGCAGTGG
1 CCCTGATA-ATGCAGTGG
38193025 GTTAGAATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
CCCTGATAATGCAGTGGAGTGGATCAAAGCACCAATTCCTATAC
Found at i:38194462 original size:20 final size:21
Alignment explanation
Indices: 38194439--38194479 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
38194429 TCCTGTATGT
38194439 ATTTATATAT-ATTATATTAA
1 ATTTATATATGATTATATTAA
* *
38194459 ATTTGTATATGATTATTTTAA
1 ATTTATATATGATTATATTAA
38194480 CTTGCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTATATATGATTATATTAA
Found at i:38194512 original size:25 final size:26
Alignment explanation
Indices: 38194470--38194557 Score: 85
Period size: 25 Copynumber: 3.4 Consensus size: 26
38194460 TTTGTATATG
* *
38194470 ATTATTTTAACTTGCTTTCTA-G-ATT
1 ATTATTTTAAGTTACTTT-TACGTATT
*
38194495 ATTATTTTAAGTTACTTTATATGTCATT
1 ATTATTTTAAGTTACTTT-TACGT-ATT
38194523 -TTATTTTAAGTTA-TTTTACGTATT
1 ATTATTTTAAGTTACTTTTACGTATT
38194547 ATTTATTTTAA
1 A-TTATTTTAA
38194558 AATTAACCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.06
25 22 0.41
26 13 0.24
27 13 0.24
28 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (26 bp):
ATTATTTTAAGTTACTTTTACGTATT
Found at i:38194550 original size:27 final size:26
Alignment explanation
Indices: 38194496--38194557 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
38194486 TTCTAGATTA
38194496 TTATTTTAAGTTACTTTATATGTCATT
1 TTATTTTAAGTTACTTTATATGTCA-T
*
38194523 TTATTTTAAGTTATTTTACGTAT-T-AT
1 TTATTTTAAGTTACTTTA--TATGTCAT
38194549 TTATTTTAA
1 TTATTTTAA
38194558 AATTAACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.31
27 18 0.56
28 1 0.03
29 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTATATGTCAT
Found at i:38199046 original size:31 final size:31
Alignment explanation
Indices: 38198967--38199054 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
38198957 AAGGGCCTAT
* * *
38198967 CATTTACATAAAGTGCTC-AATGAGGGCCAAA
1 CATTTTCA-AAAGTGCTCAAATAAGGGCAAAA
* * * *
38198998 CCTTTTCGAAAGCGCTCAAATAAGGGTAAAA
1 CATTTTCAAAAGTGCTCAAATAAGGGCAAAA
38199029 CATTTTCAAAAGTGCTCAAATAAGGG
1 CATTTTCAAAAGTGCTCAAATAAGGG
38199055 ATTTTTGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 8 0.17
31 38 0.83
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (31 bp):
CATTTTCAAAAGTGCTCAAATAAGGGCAAAA
Found at i:38200642 original size:30 final size:31
Alignment explanation
Indices: 38200603--38200662 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
38200593 GGAGGTGGGA
*
38200603 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
38200634 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
38200663 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:38203591 original size:47 final size:47
Alignment explanation
Indices: 38203528--38204489 Score: 1773
Period size: 47 Copynumber: 20.4 Consensus size: 47
38203518 CCCTTCGGGA
* * * *
38203528 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203575 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203622 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203669 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203716 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203763 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203810 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203857 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203904 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203951 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38203998 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38204045 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38204092 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38204139 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38204186 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38204233 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38204280 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
38204327 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
* * * *
38204374 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACT-TTCTCATTCATCACATTGGCCATTCGGC
* * *
38204421 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
* *
38204470 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
38204490 GTACATCAAT
Statistics
Matches: 897, Mismatches: 14, Indels: 8
0.98 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 856 0.95
49 39 0.04
50 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.08, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
Found at i:38217675 original size:21 final size:20
Alignment explanation
Indices: 38217650--38217688 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38217640 GAAATAGTTG
38217650 AAAAAGATCAAAACTTTTTTA
1 AAAAAGATC-AAACTTTTTTA
**
38217671 AAAAATTTCAAACTTTTT
1 AAAAAGATCAAACTTTTT
38217689 CTTTAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAAAGATCAAACTTTTTTA
Found at i:38217817 original size:72 final size:73
Alignment explanation
Indices: 38217608--38217817 Score: 156
Period size: 72 Copynumber: 2.9 Consensus size: 73
38217598 AAAAAAGATC
* *
38217608 ACTACTTTTCTTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTT--TTTA
1 ACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGCTTTA
38217671 AAAAATTTCAA
66 AAAAA--T-AA
* * * ** * **
38217682 AC--TTTTTCTTTAAAATGACCAAAAAAC-ATATTT----TTA-TTTTAAAA-ATCTAAACGTCC
1 ACTATTTTTC-TTAAAA--ATC--AAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAAC-TTT
38217738 GCTTTTAAAAAA-AA
60 GC-TTTAAAAAATAA
38217752 ACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGCTTTA
1 ACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGCTTTA
38217817 A
66 A
38217818 GAATTTAAAC
Statistics
Matches: 100, Mismatches: 18, Indels: 38
0.64 0.12 0.24
Matches are distributed among these distances:
67 5 0.05
68 5 0.05
69 2 0.02
70 11 0.11
71 13 0.13
72 20 0.20
73 15 0.15
74 18 0.18
75 2 0.02
76 5 0.05
77 4 0.04
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (73 bp):
ACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGCTTTA
AAAAATAA
Found at i:38217828 original size:144 final size:145
Alignment explanation
Indices: 38217593--38217876 Score: 441
Period size: 144 Copynumber: 2.0 Consensus size: 145
38217583 TCAAAGTTTT
* *
38217593 CTTTTAAAAAAGATCACTACTTTTCTTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAAGAT
1 CTTTTAAAAAAGATAACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
* *
38217658 CAAAACTTTTTTAAAAAATTTCAAACTTTTTCTTTAAAATGACCAAAAAACATATTTTTATTTTA
66 CAAAACTTTTTTAAAAAATTTCAAACTTTTCCTTTAAAATGA-CAAAAAACAGATTTTTATTTTA
38217723 AAAATCTAAACGTCCG
130 AAAATCTAAACGTCCG
*
38217739 CTTTTAAAAAA-A-AACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
1 CTTTTAAAAAAGATAACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
* * *
38217802 CAAAACTTTGCTTT-AAGAATTT-AAACTTTTCCTTTAATATGACTAAAAACAGATTTTTATTTT
66 CAAAACTTT--TTTAAAAAATTTCAAACTTTTCCTTTAAAATGACAAAAAACAGATTTTTATTTT
38217865 AAAAATCTAAAC
129 AAAAATCTAAAC
38217877 TTTCTCTTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
143 31 0.24
144 75 0.59
145 8 0.06
146 14 0.11
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (145 bp):
CTTTTAAAAAAGATAACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
CAAAACTTTTTTAAAAAATTTCAAACTTTTCCTTTAAAATGACAAAAAACAGATTTTTATTTTAA
AAATCTAAACGTCCG
Found at i:38220485 original size:22 final size:22
Alignment explanation
Indices: 38220460--38220516 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
38220450 AAAATAGTTG
38220460 AAAAAGATTAAAACTTTAT-TTT
1 AAAAAGATTAAAA-TTTATCTTT
*
38220482 AAAAA-ATTTAAAATTTTTCTTT
1 AAAAAGA-TTAAAATTTATCTTT
* *
38220504 AAAATGACTAAAA
1 AAAAAGATTAAAA
38220517 AACATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 5 0.17
22 23 0.79
23 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (22 bp):
AAAAAGATTAAAATTTATCTTT
Found at i:38221981 original size:12 final size:12
Alignment explanation
Indices: 38221964--38221997 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
38221954 CGACCCACCC
38221964 ATATTAATTTTT
1 ATATTAATTTTT
*
38221976 ATATTATTTTTT
1 ATATTAATTTTT
38221988 ATA-TAATTTT
1 ATATTAATTTT
38221998 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:38225159 original size:13 final size:13
Alignment explanation
Indices: 38225141--38225171 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
38225131 TTTGAGAGTG
38225141 GATTTTATTTCTC
1 GATTTTATTTCTC
38225154 GATTTTATTTCTC
1 GATTTTATTTCTC
38225167 GATTT
1 GATTT
38225172 CATATAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.61
Consensus pattern (13 bp):
GATTTTATTTCTC
Found at i:38226582 original size:42 final size:42
Alignment explanation
Indices: 38226535--38227005 Score: 658
Period size: 42 Copynumber: 11.3 Consensus size: 42
38226525 CTTCATATAC
* *
38226535 AATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
38226577 AATGCAATGAAAAGTAAACGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
38226619 GATGTAAGGAAAAGTCAATGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
38226661 AATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCCTATA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
38226703 AATGCAATGAAAAG-AAATGGAACTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
38226744 AATGCAATAAAAAGTAAATGGACCTCCACACCTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
38226786 AATGCAATGAAAAGTAAATGAACCTCCATACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
38226828 AGTGTAAT-AAAAGTAAATGGACCTCTACGCCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
38226869 AATGCAATGAAAAGTAAATAGACTTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * **
38226911 AATGTAATAAAAAGTAAATGAACTTCCACTTCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
38226953 AATGTAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
38226995 AATGCAATGAA
1 AATGCAATGAA
38227006 TGTTTTCCTT
Statistics
Matches: 377, Mismatches: 50, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
41 71 0.19
42 306 0.81
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:38226770 original size:167 final size:168
Alignment explanation
Indices: 38226530--38227005 Score: 688
Period size: 167 Copynumber: 2.8 Consensus size: 168
38226520 TGTGCCTTCA
* *
38226530 TATACAATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAA
1 TATA-AATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAA
* * * * *
38226595 CGGACCTCCACACCTGGGCCTCTAGATGTAAGGAAAAGTCAATGGACCTCCACACCTGGGCCTCT
65 TGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCT
38226660 AAATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCC
130 AAATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCC
*
38226699 TATAAATGCAATGAAAAG-AAATGGA-ACTCCACACCTAGGCCTCTAAATGCAATAAAAAGTAAA
1 TATAAATGCAATGAAAAGTAAATGGACA-TCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAA
* * *
38226762 TGGACCTCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAATGAACCTCCATACCTGGGCCTCT
65 TGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCT
* * * * *
38226827 AAGTGTAAT-AAAAGTAAATGGACCTCTACGCCTGGGCC
130 AAATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCC
* * * *
38226865 TCTAAATGCAATGAAAAGTAAATAGACTTCCACACCTGGGCCTCTAAATGTAATAAAAAGTAAAT
1 TATAAATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAAT
* * ** *
38226930 GAACTTCCACTTCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTA
66 GGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTA
38226995 AATGCAATGAA
131 AATGCAATGAA
38227006 TGTTTTCCTT
Statistics
Matches: 272, Mismatches: 31, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
166 44 0.16
167 208 0.76
168 16 0.06
169 4 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (168 bp):
TATAAATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAAT
GGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTA
AATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCC
Found at i:38226789 original size:125 final size:126
Alignment explanation
Indices: 38226535--38227005 Score: 642
Period size: 125 Copynumber: 3.8 Consensus size: 126
38226525 CTTCATATAC
* * * * *
38226535 AATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAACGGAC
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
* * * * *
38226600 CTCCACACCTGGGCCTCTAGATGTAAGGAAAAGTCAATGGACCTCCACACCTGGGCCTCTA
66 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
38226661 AATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCCTATAAATGCAATGAAAAG-AAATGGAA
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
* *
38226725 CTCCACACCTAGGCCTCTAAATGCAATAAAAAGTAAATGGACCTCCACACCTGGGCCTTTA
66 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
38226786 AATGCAATGAAAAGTAAATGAACCTCCATACCTGGGCCTCTAAGTGTAAT-AAAAGTAAATGGAC
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
* * * * *
38226850 CTCTACGCCTGGGCCTCTAAATGCAATGAAAAGTAAATAGACTTCCACACCTGGGCCTCTA
66 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * ** *
38226911 AATGTAATAAAAAGTAAATGAACTTCCACTTCTGGGCCTCTAAATGTAATGAAAAGTAAAT-GAA
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
38226975 CCTCCACACCTAGGCCTCTAAATGCAATGAA
66 -CTCCACACCTAGGCCTCTAAATGCAATGAA
38227006 TGTTTTCCTT
Statistics
Matches: 305, Mismatches: 37, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
124 5 0.02
125 210 0.69
126 90 0.30
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (126 bp):
AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:38231983 original size:4 final size:4
Alignment explanation
Indices: 38231976--38232002 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
38231966 AATGGATGAA
38231976 TGAT TGAT TGAT TGAT TGAT TGAT TGA
1 TGAT TGAT TGAT TGAT TGAT TGAT TGA
38232003 AATTAGGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
TGAT
Found at i:38234325 original size:18 final size:18
Alignment explanation
Indices: 38234302--38234342 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
38234292 CTATATGCAT
*
38234302 CTTAACTATGGAGTAGTC
1 CTTAACCATGGAGTAGTC
*
38234320 CTTAACCATGGAGTATTC
1 CTTAACCATGGAGTAGTC
38234338 CTTAA
1 CTTAA
38234343 ACTTATGCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (18 bp):
CTTAACCATGGAGTAGTC
Found at i:38235754 original size:26 final size:26
Alignment explanation
Indices: 38235725--38235789 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
38235715 CTAACCTAAA
38235725 TTTAAATGGT-AAAACCTTATAGTTTC
1 TTTAAAT-GTAAAAACCTTATAGTTTC
*
38235751 TTTAAAATGTAAAAACCTTATGGTTTC
1 TTT-AAATGTAAAAACCTTATAGTTTC
*
38235778 ATTAAAATGTAA
1 -TTTAAATGTAA
38235790 CATCTACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 5 0.15
27 27 0.79
28 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (26 bp):
TTTAAATGTAAAAACCTTATAGTTTC
Found at i:38235766 original size:27 final size:27
Alignment explanation
Indices: 38235735--38235789 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
38235725 TTTAAATGGT
*
38235735 AAAACCTTATAGTTTCTTTAAAATGTA
1 AAAACCTTATAGTTTCATTAAAATGTA
*
38235762 AAAACCTTATGGTTTCATTAAAATGTA
1 AAAACCTTATAGTTTCATTAAAATGTA
38235789 A
1 A
38235790 CATCTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (27 bp):
AAAACCTTATAGTTTCATTAAAATGTA
Found at i:38236953 original size:146 final size:145
Alignment explanation
Indices: 38236679--38236974 Score: 454
Period size: 146 Copynumber: 2.0 Consensus size: 145
38236669 TTTTTTGTAC
* * *
38236679 AAAATCAAAGTTTTCTTTTAAAAAAGATCACTACTTTTCTTAAAAATCAAAACTTTGTTTCGGAA
1 AAAATCAAAGTTTGCTTTTAAAAAAGATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAA
* * *
38236744 TAGTTGAAAAAGATCAAAATTTTGTTTTAAAAATTTTAAACTTTTTCTTTAAAATGACTAAAAAA
66 TAGTTGAAAAAGATCAAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAA
38236809 CATATTTTTATTTTA
131 CATATTTTTATTTTA
* *
38236824 AAAATCTAAACGTTTGCTTTTTAAAAAA-AT-AGTATTTTTCTTAAAAATCAAAACTTTATTTCG
1 AAAATC-AAA-GTTTGC-TTTTAAAAAAGATCACTACTTTTCTTAAAAATCAAAACTTTATTTCG
* *
38236887 AAATAGTTGAAAAAGATCAAAACTTTGCTTTAAGAA-TTTAAACTTTTCCTTTAATATGACTAAA
63 AAATAGTTGAAAAAGATCAAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAA
38236951 AAACATATTTTTATTTTA
128 AAACATATTTTTATTTTA
38236969 AAAATC
1 AAAATC
38236975 CTGAATAGTT
Statistics
Matches: 138, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
145 56 0.41
146 65 0.47
147 7 0.05
148 10 0.07
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (145 bp):
AAAATCAAAGTTTGCTTTTAAAAAAGATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAA
TAGTTGAAAAAGATCAAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAA
CATATTTTTATTTTA
Found at i:38236990 original size:90 final size:91
Alignment explanation
Indices: 38236888--38237065 Score: 295
Period size: 91 Copynumber: 2.0 Consensus size: 91
38236878 TTTATTTCGA
* *
38236888 AATAGTTGAAAAAGATCAAAACTTTGCTTTAAGAA-TTTAAACTTTTCCTTTAATATGACTAAAA
1 AATAGTTGAAAAAGATCAAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAA
38236952 AACATATTTTTATTTTAAAAATCCTG
66 AACATATTTTTATTTTAAAAATCCTG
* * * *
38236978 AATAGTTTAAAAAGATCAAAATTTTGTTTTAAAAATTTTAAACTTTTTCTTTAAAATGACTAAAA
1 AATAGTTGAAAAAGATCAAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAA
38237043 AACATATTTTTATTTTAAAAATC
66 AACATATTTTTATTTTAAAAATC
38237066 TAAATTTTCT
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 31 0.38
91 50 0.62
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (91 bp):
AATAGTTGAAAAAGATCAAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAA
AACATATTTTTATTTTAAAAATCCTG
Found at i:38249957 original size:37 final size:37
Alignment explanation
Indices: 38249904--38250047 Score: 270
Period size: 37 Copynumber: 3.9 Consensus size: 37
38249894 NNNNNNNNAG
* *
38249904 ACAAAGTGATAAGTGGCTGCACTTATCTGATCAAGAA
1 ACAAAGTGATAGGTGGCTACACTTATCTGATCAAGAA
38249941 ACAAAGTGATAGGTGGCTACACTTATCTGATCAAGAA
1 ACAAAGTGATAGGTGGCTACACTTATCTGATCAAGAA
38249978 ACAAAGTGATAGGTGGCTACACTTATCTGATCAAGAA
1 ACAAAGTGATAGGTGGCTACACTTATCTGATCAAGAA
38250015 ACAAAGTGATAGGTGGCTACACTTATCTGATCA
1 ACAAAGTGATAGGTGGCTACACTTATCTGATCA
38250048 GGGACAAGTG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
ACAAAGTGATAGGTGGCTACACTTATCTGATCAAGAA
Found at i:38250025 original size:74 final size:74
Alignment explanation
Indices: 38249904--38250064 Score: 272
Period size: 74 Copynumber: 2.2 Consensus size: 74
38249894 NNNNNNNNAG
*
38249904 ACAAAGTGATAAGTGGCTGCACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCT
1 ACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCT
38249969 GATCAAGAA
66 GATCAAGAA
*
38249978 ACAAAGTGATAGGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCT
1 ACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCT
**
38250043 GATC-AGGG
66 GATCAAGAA
38250051 AC-AAGTGATAAGTG
1 ACAAAGTGATAAGTG
38250065 ATCATACGTA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 11 0.13
73 4 0.05
74 67 0.82
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (74 bp):
ACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCT
GATCAAGAA
Found at i:38254546 original size:23 final size:21
Alignment explanation
Indices: 38254504--38254546 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
38254494 CTAACCTTGT
38254504 CTTTCTTCTTTCTTCCTTTCC
1 CTTTCTTCTTTCTTCCTTTCC
*
38254525 CTTTTTTCTTTTCTTTCCTTTC
1 CTTTCTTC-TTTC-TTCCTTTC
38254547 TGTTTCGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
CTTTCTTCTTTCTTCCTTTCC
Found at i:38260231 original size:54 final size:54
Alignment explanation
Indices: 38260168--38260276 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
38260158 AACAAAATCA
38260168 ATGATGCTATGCACCAGATTATAAAGCTGAAGTTTCTGTTTCTTTTTTCCCTAC
1 ATGATGCTATGCACCAGATTATAAAGCTGAAGTTTCTGTTTCTTTTTTCCCTAC
* *
38260222 ATGATGCTATGCACCAGATTATAAAGTTGAAGTTTCTGTTTCTTTTTTCTCTAC
1 ATGATGCTATGCACCAGATTATAAAGCTGAAGTTTCTGTTTCTTTTTTCCCTAC
38260276 A
1 A
38260277 ATACAACAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (54 bp):
ATGATGCTATGCACCAGATTATAAAGCTGAAGTTTCTGTTTCTTTTTTCCCTAC
Found at i:38269008 original size:18 final size:19
Alignment explanation
Indices: 38268982--38269030 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
38268972 TATTTCAAAA
*
38268982 AATTATTTTTATTTTT-AC
1 AATTTTTTTTATTTTTAAC
* *
38269000 AATTTTTTTAATTTTTAAAT
1 AATTTTTTTTATTTTT-AAC
38269020 AATTTTTTTTA
1 AATTTTTTTTA
38269031 CATCCGGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 14 0.56
20 11 0.44
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTTTTTATTTTTAAC
Found at i:38281980 original size:26 final size:26
Alignment explanation
Indices: 38281951--38282006 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
38281941 ATTATTTTCA
* *
38281951 AAATTA-TAAAAGTTATTAAAAAATAT
1 AAATTATTAAAAATT-TCAAAAAATAT
38281977 AAATTATTAAAAATTTCAAAAAATAT
1 AAATTATTAAAAATTTCAAAAAATAT
38282003 AAAT
1 AAAT
38282007 AATTCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
AAATTATTAAAAATTTCAAAAAATAT
Found at i:38285407 original size:18 final size:18
Alignment explanation
Indices: 38285372--38285408 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38285362 ATTCAGTGGA
*
38285372 ATAAAAGCATGGTTAGTG
1 ATAAAAGCATGGTGAGTG
*
38285390 ATAAAAGCATTGTGAGTG
1 ATAAAAGCATGGTGAGTG
38285408 A
1 A
38285409 AACAGTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (18 bp):
ATAAAAGCATGGTGAGTG
Found at i:38288405 original size:131 final size:131
Alignment explanation
Indices: 38288171--38288433 Score: 490
Period size: 131 Copynumber: 2.0 Consensus size: 131
38288161 TATCTTAGTG
*
38288171 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATCAAAAATTTTCA
1 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGCTAAAATATCAAAAATTTTCA
*
38288236 GAAAAGGGGCATATTTGACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
66 GAAAAGGGGCATATTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
38288301 C
131 C
38288302 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGCTAAAATATCAAAAATTTTCA
1 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGCTAAAATATCAAAAATTTTCA
* *
38288367 GAAAAGGGGCATATTTCACGTTAATCGAGAAAGAGAATTATGTCCCGTAAGTTAGGTCACTATGT
66 GAAAAGGGGCATATTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
38288432 C
131 C
38288433 T
1 T
38288434 TAAACCCCGA
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (131 bp):
TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGCTAAAATATCAAAAATTTTCA
GAAAAGGGGCATATTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
C
Found at i:38289058 original size:17 final size:17
Alignment explanation
Indices: 38289032--38289069 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
38289022 GTAGTAAAAT
*
38289032 TAAAATAAAA-AATACAA
1 TAAAAGAAAATAATA-AA
38289049 TAAAAGAAAATAATAAA
1 TAAAAGAAAATAATAAA
38289066 TAAA
1 TAAA
38289070 TAAATGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
TAAAAGAAAATAATAAA
Found at i:38289059 original size:22 final size:21
Alignment explanation
Indices: 38289033--38289073 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
38289023 TAGTAAAATT
38289033 AAAATAAAAAATACAATAAAAG
1 AAAATAAAAAATA-AATAAAAG
*
38289055 AAAATAATAAATAAATAAA
1 AAAATAAAAAATAAATAAA
38289074 TGTGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAATAAAAAATAAATAAAAG
Found at i:38291209 original size:18 final size:17
Alignment explanation
Indices: 38291178--38291235 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
38291168 CTCGTTTCTC
*
38291178 CAAAGTTTTAAAGTTTAT
1 CAAAATTTTAAAGTTT-T
* *
38291196 CTAAATTTTCAAGTTTT
1 CAAAATTTTAAAGTTTT
38291213 CAAAA-TTT-AAGTTTT
1 CAAAATTTTAAAGTTTT
38291228 -AAAATTTT
1 CAAAATTTT
38291236 TATTACAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 4 0.11
15 10 0.29
16 3 0.09
17 5 0.14
18 13 0.37
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (17 bp):
CAAAATTTTAAAGTTTT
Found at i:38291233 original size:14 final size:15
Alignment explanation
Indices: 38291206--38291234 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38291196 CTAAATTTTC
38291206 AAGTTTTCAAAATTT
1 AAGTTTTCAAAATTT
38291221 AAGTTTT-AAAATTT
1 AAGTTTTCAAAATTT
38291235 TTATTACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (15 bp):
AAGTTTTCAAAATTT
Found at i:38294375 original size:15 final size:15
Alignment explanation
Indices: 38294355--38294385 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38294345 ACATCTACCG
*
38294355 AAATAGATGAATTAC
1 AAATAGACGAATTAC
38294370 AAATAGACGAATTAC
1 AAATAGACGAATTAC
38294385 A
1 A
38294386 TACAACATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:38295570 original size:24 final size:25
Alignment explanation
Indices: 38295524--38295575 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
38295514 ACAAATGAAC
* *
38295524 AAAGAAATGGAAGAATTTTTTAA-A
1 AAAGAAATGCAAGAATTTCTTAATA
38295548 AAAGAAATGCAAGACA-TTCTTAATA
1 AAAGAAATGCAAGA-ATTTCTTAATA
38295573 AAA
1 AAA
38295576 ATTTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.56, C:0.06, G:0.13, T:0.25
Consensus pattern (25 bp):
AAAGAAATGCAAGAATTTCTTAATA
Found at i:38298906 original size:25 final size:25
Alignment explanation
Indices: 38298861--38298927 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
38298851 GTCATTAGGG
* *
38298861 TTACCGATTC-CAGCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
38298885 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* * *
38298910 TTACTGTTATTCAGCTCG
1 TTACCGATACTCAGCTCG
38298928 GAGGATCTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 9 0.24
25 28 0.76
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:38304458 original size:13 final size:13
Alignment explanation
Indices: 38304434--38304477 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
38304424 TTCTTTTAAT
38304434 TAAC-TAATAAAA
1 TAACATAATAAAA
38304446 TAA-ATATATAAAA
1 TAACATA-ATAAAA
38304459 TAACATAATAAAA
1 TAACATAATAAAA
*
38304472 AAACAT
1 TAACAT
38304478 CAACCGTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 20 0.71
14 3 0.11
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (13 bp):
TAACATAATAAAA
Found at i:38306430 original size:78 final size:78
Alignment explanation
Indices: 38306296--38306452 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
38306286 ATGCAAGTTT
* * * * *
38306296 CGAGTGTTGCTGTCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACCATTGCGAATTCAG
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
38306361 TCCTCATTAACCC
66 TCCTCATTAACCC
* * * *
38306374 CGAGTGTCGCTGCCTTATCAATGGAAGCTAAGCCAATTAAGTTAGAATCACAATTGCAAATTCAC
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
**
38306439 TCCTTGTTAACCC
66 TCCTCATTAACCC
38306452 C
1 C
38306453 TTGACTAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (78 bp):
CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
TCCTCATTAACCC
Found at i:38306639 original size:34 final size:34
Alignment explanation
Indices: 38306596--38306663 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
38306586 TTAAATGTAG
38306596 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
38306630 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
38306664 GAATTTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (34 bp):
AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
Found at i:38306679 original size:34 final size:34
Alignment explanation
Indices: 38306607--38306679 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
38306597 ACATTTGGGT
* **
38306607 TTTGCCCAAAGCAGATCGAGATTAACATTTGGGT
1 TTTGCCCAAAGCAGATCGAGATTAACATTTAGAA
*
38306641 TTTGCCCAAAGCAGATCGAGATTGA-ATTTCAGAA
1 TTTGCCCAAAGCAGATCGAGATTAACATTT-AGAA
38306675 TTTGC
1 TTTGC
38306680 ATGCTCGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 4 0.12
34 30 0.88
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (34 bp):
TTTGCCCAAAGCAGATCGAGATTAACATTTAGAA
Found at i:38308235 original size:18 final size:17
Alignment explanation
Indices: 38308207--38308241 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38308197 ATTATTAAGA
*
38308207 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38308224 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38308242 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38308495 original size:16 final size:16
Alignment explanation
Indices: 38308474--38308512 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
38308464 TTGATTTGCT
*
38308474 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
38308490 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
38308506 ATTACAC
1 ATTACAC
38308513 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:38308513 original size:16 final size:16
Alignment explanation
Indices: 38308487--38308543 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
38308477 ACACAGCTTT
* *
38308487 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
38308503 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
38308519 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
38308535 TCCAATACA
1 TCCAATACA
38308544 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:38309050 original size:158 final size:158
Alignment explanation
Indices: 38308561--38309010 Score: 803
Period size: 158 Copynumber: 2.9 Consensus size: 158
38308551 AAACGTGCTG
* * * * *
38308561 TAATAGAAATTAAATGTTTTT-AACTTTTACGATTTAGTCCTTTTTACTTAATTAGCTATTTAAA
1 TAATAGAAATTAACTTTTTTTAAATTTTTATGATTTAGACCTTTTTACTTAATTAGCTATTTAAA
38308625 TGCTAAAATTTCTTAGCCAAATTTTAATATGACCCTAATAACACATATTTACGGGCTCAGTTTAT
66 TGCTAAAATTTCTTAGCCAAATTTTAATATGACCCTAATAACACATATTTACGGGCTCAGTTTAT
38308690 AAAAACGAGGTCTAGTTAATCAATTAAC
131 AAAAACGAGGTCTAGTTAATCAATTAAC
38308718 TAATAGAAATTAACTTTTTTTAAATTTTTATGATTTAGACCTTTTTACTTAATTAGCTATTTAAA
1 TAATAGAAATTAACTTTTTTTAAATTTTTATGATTTAGACCTTTTTACTTAATTAGCTATTTAAA
38308783 TGCTAAAATTTCTTAGCCAAATTTTAATATGACCCTAATAACACATATTTACGGGCTCAGTTTAT
66 TGCTAAAATTTCTTAGCCAAATTTTAATATGACCCTAATAACACATATTTACGGGCTCAGTTTAT
38308848 AAAAACGAGGTCTAGTTAATCAATTAAC
131 AAAAACGAGGTCTAGTTAATCAATTAAC
38308876 TAATAGAAATTAACTTTTTTTAAATTTTTATGATTTAGACCTTTTTACTTAATTAGCTATTTAAA
1 TAATAGAAATTAACTTTTTTTAAATTTTTATGATTTAGACCTTTTTACTTAATTAGCTATTTAAA
* * * *
38308941 CGCTAAAATTTCGTAACCAAATTTTAATATAACCCTAATAACACATATTTACGGGCTCAGTTTAT
66 TGCTAAAATTTCTTAGCCAAATTTTAATATGACCCTAATAACACATATTTACGGGCTCAGTTTAT
*
38309006 GAAAA
131 AAAAA
38309011 TAAGGTCTCG
Statistics
Matches: 282, Mismatches: 10, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
157 19 0.07
158 263 0.93
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (158 bp):
TAATAGAAATTAACTTTTTTTAAATTTTTATGATTTAGACCTTTTTACTTAATTAGCTATTTAAA
TGCTAAAATTTCTTAGCCAAATTTTAATATGACCCTAATAACACATATTTACGGGCTCAGTTTAT
AAAAACGAGGTCTAGTTAATCAATTAAC
Found at i:38310351 original size:52 final size:52
Alignment explanation
Indices: 38310272--38310370 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
38310262 TCAGTGATGG
* * *
38310272 TTTTTGAAGTGAAGAAATCATAGCCACTACCGAGGATGTCGTAACACCGATT
1 TTTTTGAAGTGAAAAAATCATAGCCACTACCGAGGATGCCGCAACACCGATT
* *
38310324 TTTTTGAAGTGAAAAAATTAT-GACCACTATCGAGGATGCCGCAACAC
1 TTTTTGAAGTGAAAAAATCATAG-CCACTACCGAGGATGCCGCAACAC
38310371 TAGCTACTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 40 0.98
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (52 bp):
TTTTTGAAGTGAAAAAATCATAGCCACTACCGAGGATGCCGCAACACCGATT
Found at i:38310644 original size:34 final size:34
Alignment explanation
Indices: 38310606--38310674 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
38310596 TTCACAATTT
38310606 TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
1 TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
38310640 TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
1 TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
38310674 T
1 T
38310675 TTTCGTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.06, C:0.23, G:0.12, T:0.59
Consensus pattern (34 bp):
TAGGCTAGGTTTCCTTTCTTTTTCTTTTCCTTTC
Found at i:38310683 original size:16 final size:16
Alignment explanation
Indices: 38310615--38310677 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
38310605 TTAGGCTAGG
38310615 TTTCCTTTCTTTTTCT
1 TTTCCTTTCTTTTTCT
***
38310631 TTTCCTTTC-TAGGCT
1 TTTCCTTTCTTTTTCT
38310646 AGGTTTCCTTTCTTTTTCT
1 ---TTTCCTTTCTTTTTCT
38310665 TTTCCTTTCTTTT
1 TTTCCTTTCTTTT
38310678 CGTTTTTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
15 3 0.08
16 22 0.59
18 9 0.24
19 3 0.08
ACGTcount: A:0.03, C:0.24, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTCCTTTCTTTTTCT
Found at i:38310721 original size:25 final size:26
Alignment explanation
Indices: 38310673--38310721 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
38310663 CTTTTCCTTT
* *
38310673 CTTTTCGTTTTTAGATTAGGTTTTTC
1 CTTTTCGTTTTTAGAATAGATTTTTC
*
38310699 CTTTTC-TTTTTAGAATATATTTT
1 CTTTTCGTTTTTAGAATAGATTTT
38310722 ATTTTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (26 bp):
CTTTTCGTTTTTAGAATAGATTTTTC
Found at i:38313592 original size:21 final size:24
Alignment explanation
Indices: 38313567--38313610 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
38313557 TCTTATTATT
38313567 AATAT-TATTT-TT-AAGAGATAA
1 AATATATATTTATTCAAGAGATAA
38313588 AATATCATATTTATTCAAGAGAT
1 AATAT-ATATTTATTCAAGAGAT
38313611 TTTTGGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
23 5 0.26
24 2 0.11
25 7 0.37
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (24 bp):
AATATATATTTATTCAAGAGATAA
Found at i:38315431 original size:28 final size:28
Alignment explanation
Indices: 38315394--38315447 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
38315384 AAATTTTAAA
38315394 AAATTCAAAAAAC-TATAAAATATATTTTT
1 AAATTCAAAAAACAT-TAAAAT-TATTTTT
38315423 AAATT-AAAAAACATTAAAATTATTT
1 AAATTCAAAAAACATTAAAATTATTT
38315448 AGCATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.21
28 13 0.54
29 6 0.25
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATTCAAAAAACATTAAAATTATTTTT
Found at i:38315610 original size:223 final size:224
Alignment explanation
Indices: 38315213--38315671 Score: 884
Period size: 223 Copynumber: 2.0 Consensus size: 224
38315203 TCGTATTCAA
* *
38315213 AAAATTATTTTAGCATTTTATTTATTTGTTTATTTATTTTTTAAAAAATTTAAAAATTTGTGTTT
1 AAAATTA-TTTAGCATTTTATTTATTTATTTATTTATTTTTAAAAAAATTTAAAAATTTGTGTTT
38315278 TTTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACAT
65 TTTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACAT
38315343 AAACATGGATGACATGTTAGCATTTAATTAATTTTTTTTAAAAATTTTAAAAAATTCAAAAAACT
130 AAACATGGATGACATGTTAGCATTTAATTAATTTTTTTTAAAAATTTTAAAAAATTCAAAAAACT
38315408 ATAAAATATATTTTTAAATTAAAAAACATT
195 ATAAAATATATTTTTAAATTAAAAAACATT
38315438 AAAATTATTTAGCATTTTATTTATTTATTTATTT-TTTTTAAAAAAATTTAAAAATTTGTGTTTT
1 AAAATTATTTAGCATTTTATTTATTTATTTATTTATTTTTAAAAAAATTTAAAAATTTGTGTTTT
38315502 TTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACATA
66 TTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACATA
38315567 AACATGGATGACATGTTAGCATTTAATTAATTTTTTTTAAAAATTTTAAAAAATTCAAAAAACTA
131 AACATGGATGACATGTTAGCATTTAATTAATTTTTTTTAAAAATTTTAAAAAATTCAAAAAACTA
38315632 TAAAATATATTTTTAAATTAAAAAACATT
196 TAAAATATATTTTTAAATTAAAAAACATT
38315661 AAAATTATTTA
1 AAAATTATTTA
38315672 AAAAGTATAG
Statistics
Matches: 232, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
223 199 0.86
224 26 0.11
225 7 0.03
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (224 bp):
AAAATTATTTAGCATTTTATTTATTTATTTATTTATTTTTAAAAAAATTTAAAAATTTGTGTTTT
TTTAAATCATCCCCAAATCGATAAAAAAATTTTAACGTTTTTAATTTTGCTGATGTGGTGACATA
AACATGGATGACATGTTAGCATTTAATTAATTTTTTTTAAAAATTTTAAAAAATTCAAAAAACTA
TAAAATATATTTTTAAATTAAAAAACATT
Found at i:38315654 original size:28 final size:28
Alignment explanation
Indices: 38315617--38315670 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
38315607 AAATTTTAAA
38315617 AAATTCAAAAAAC-TATAAAATATATTTTT
1 AAATTCAAAAAACAT-TAAAAT-TATTTTT
38315646 AAATT-AAAAAACATTAAAATTATTT
1 AAATTCAAAAAACATTAAAATTATTT
38315671 AAAAAGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.21
28 13 0.54
29 6 0.25
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATTCAAAAAACATTAAAATTATTTTT
Found at i:38315698 original size:11 final size:11
Alignment explanation
Indices: 38315682--38315715 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
38315672 AAAAGTATAG
38315682 AAATATTTTTA
1 AAATATTTTTA
38315693 AAATATTTTT-
1 AAATATTTTTA
38315703 AAA-ATTTTTA
1 AAATATTTTTA
38315713 AAA
1 AAA
38315716 AGTAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTTTTA
Found at i:38315724 original size:20 final size:19
Alignment explanation
Indices: 38315658--38315725 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
38315648 ATTAAAAAAC
38315658 ATTAAAATTATTTAAAAAGT
1 ATTAAAATT-TTTAAAAAGT
* *
38315678 ATAGAAATATTTTTAAAATATT
1 AT-TAAA-ATTTTTAAAA-AGT
*
38315700 TTTAAAATTTTTAAAAAGT
1 ATTAAAATTTTTAAAAAGT
38315719 AATTAAA
1 -ATTAAA
38315726 TGTTGACATG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.05
20 17 0.45
21 13 0.34
22 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
ATTAAAATTTTTAAAAAGT
Found at i:38318839 original size:29 final size:31
Alignment explanation
Indices: 38318772--38318842 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
38318762 GGTTTATGGG
38318772 AGAAAAAAAAA-GAAAAGAAGAGAAATAGAA
1 AGAAAAAAAAAGGAAAAGAAGAGAAATAGAA
* * * *
38318802 AG-AATAAAAAGGAGAATAA-AGAAATA-AT
1 AGAAAAAAAAAGGAAAAGAAGAGAAATAGAA
38318830 AGAAAAAAAAAGG
1 AGAAAAAAAAAGG
38318843 TAGGAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 3 0.09
29 23 0.68
30 8 0.24
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (31 bp):
AGAAAAAAAAAGGAAAAGAAGAGAAATAGAA
Found at i:38319718 original size:43 final size:44
Alignment explanation
Indices: 38319635--38319730 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
38319625 CCTAAAATTG
* * *
38319635 CCACTAAA-AATCATGATCTTTAGCTGCGTTTGTGGTAAAAGCG
1 CCACTAAAGAATCATGATCTTTAGCGGCATTTGTGGTAAAAGCA
* *
38319678 CCGCTAAAGAA-CATGATCTTTAGCGGCATTTTTGCG-AAAAGCA
1 CCACTAAAGAATCATGATCTTTAGCGGCATTTGTG-GTAAAAGCA
38319721 CCACTAAAGA
1 CCACTAAAGA
38319731 TTCTTTAGCG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 42 0.93
44 3 0.07
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
CCACTAAAGAATCATGATCTTTAGCGGCATTTGTGGTAAAAGCA
Found at i:38338204 original size:9 final size:9
Alignment explanation
Indices: 38338190--38338218 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
38338180 TAAACAATTC
38338190 AATAATATA
1 AATAATATA
38338199 AATAATATA
1 AATAATATA
38338208 AATAATATA
1 AATAATATA
38338217 AA
1 AA
38338219 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:38339649 original size:12 final size:12
Alignment explanation
Indices: 38339632--38339657 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38339622 CTCTCTGCCT
38339632 TAACAAACAAAA
1 TAACAAACAAAA
38339644 TAACAAACAAAA
1 TAACAAACAAAA
38339656 TA
1 TA
38339658 TTTTAATTAT
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:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (12 bp):
TAACAAACAAAA
Found at i:38339687 original size:13 final size:13
Alignment explanation
Indices: 38339666--38339696 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
38339656 TATTTTAATT
*
38339666 ATTTTCTAATAAA
1 ATTTCCTAATAAA
38339679 ATTTCCTAATAAA
1 ATTTCCTAATAAA
38339692 ATTTC
1 ATTTC
38339697 TGCCTGCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTCCTAATAAA
Found at i:38340489 original size:77 final size:75
Alignment explanation
Indices: 38340317--38340542 Score: 262
Period size: 78 Copynumber: 3.0 Consensus size: 75
38340307 AAATTCGAAA
* * * * *
38340317 AAAAAAAGAAAGGGATTTCGGAAAAAA-TTAGGGA-TTT-CGCAGAGGGGGAATTAATTTGGGGA
1 AAAAAAAGAAAGGGGTTTGGGAAAAAACTTAGAGATTTTGGGCAGAGGGGGAATTGATTT-GGGA
38340379 AAAGAAATTGGG
65 AAA-AAATTGGG
* * *
38340391 GAAAAAAGAAAGGGGTCTGGGAAAGAAACTTAGAGATTTTGGGCAGAAGGGGAATTGATTGTGGG
1 AAAAAAAGAAAGGGGTTTGGGAAA-AAACTTAGAGATTTTGGGCAGAGGGGGAATTGATT-TGGG
38340456 AAAAAAATTGGG
64 AAAAAAATTGGG
* *
38340468 AAAAAAAGAAAGGGGTTTGGGAAAAAAAACTTA-AGGATTTCGGGGAGAGGGGGAATTGATTTGG
1 AAAAAAAGAAAGGGGTTTGGG--AAAAAACTTAGA-GATTTTGGGCAGAGGGGGAATTGATTTGG
38340532 GAAAAAGAATT
63 GAAAAA-AATT
38340543 TGGAGTTTTA
Statistics
Matches: 130, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
74 20 0.15
75 3 0.02
76 6 0.05
77 40 0.31
78 57 0.44
79 4 0.03
ACGTcount: A:0.42, C:0.04, G:0.34, T:0.20
Consensus pattern (75 bp):
AAAAAAAGAAAGGGGTTTGGGAAAAAACTTAGAGATTTTGGGCAGAGGGGGAATTGATTTGGGAA
AAAAATTGGG
Found at i:38343300 original size:17 final size:19
Alignment explanation
Indices: 38343278--38343316 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
38343268 AATATTGACA
*
38343278 GATTGAA-GTTGTG-ATAT
1 GATTGAATGATGTGTATAT
38343295 GATTGAATGATGTGTATAT
1 GATTGAATGATGTGTATAT
38343314 GAT
1 GAT
38343317 GTATATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (19 bp):
GATTGAATGATGTGTATAT
Found at i:38343908 original size:46 final size:45
Alignment explanation
Indices: 38343674--38343901 Score: 206
Period size: 46 Copynumber: 5.0 Consensus size: 45
38343664 AGTTCTTGCC
* * * ** *
38343674 TAGGTTCTCAACTCTTGCATATGTTGCGGACTAAAGGATACAGATT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAG-TT
* ** ** **
38343720 TAGGTTCCCAAATCCTGTATACATTAG-AAACTGGAGAATACAGATT
1 TAGGTTCCCAACTCCTACATATGTT-GCGGACTGGAGAATACAG-TT
* * * *
38343766 CAGGTTCCCAACTCCTACATATGTTACAGACTAGAGAATACAGGTT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACA-GTT
* *
38343812 TAGGTTCCCAGCTCCTACATATGTTGCGAACTGGAGAATACAAGTT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATAC-AGTT
* * *
38343858 TAGGTTCCCAACTCCTGCATATGTTGTGGATTGGAGAATACAGT
1 TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAGT
38343902 AATAGGTAGT
Statistics
Matches: 147, Mismatches: 31, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
45 3 0.02
46 141 0.96
47 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (45 bp):
TAGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAGTT
Found at i:38345983 original size:51 final size:50
Alignment explanation
Indices: 38345887--38346018 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 50
38345877 GATACCGGTT
* * *
38345887 CACATAGTAGCCTGCACAGAGTACTACACATGTAACCATCACTAT-CTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTAACCA-CACTATCCAG-TA
* * *
38345938 CACATAGTAGCCTGCACATAGAACTACACACGTGATCGA-AGCTATCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGT-AACCACA-CTATCCAGTA
* *
38345989 CGCATAATAGCCTGCACATAGTACTACACA
1 CACATAGTAGCCTGCACATAGTACTACACA
38346019 TGGGACCTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 63 0.91
52 5 0.07
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTAACCACACTATCCAGTA
Found at i:38346070 original size:101 final size:101
Alignment explanation
Indices: 38345889--38346073 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 101
38345879 TACCGGTTCA
* *
38345889 CATAGTAGCCTGCACAGAGTACTACACATGTAACCATCACTATCTGATACACATAGTAGCCTGCA
1 CATAATAGCCTGCACAGAGTACTACACATGGAACCAT-ACTATCTGATACACATAGTAGCCTGCA
*
38345954 CATAGAACTACACACGTGATCGAAGCTATCCAGTACG
65 CAGAGAACTACACACGTGATCGAAGCTATCCAGTACG
* * * * * *
38345991 CATAATAGCCTGCACATAGTACTACACATGGGACC-TATCTTTTTGGTACACGTAGTAGCCTGCA
1 CATAATAGCCTGCACAGAGTACTACACATGGAACCATA-CTATCTGATACACATAGTAGCCTGCA
* *
38346055 CGGAGTACTACACACGTGA
65 CAGAGAACTACACACGTGA
38346074 CCATCACTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
100 1 0.01
101 39 0.55
102 31 0.44
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAATAGCCTGCACAGAGTACTACACATGGAACCATACTATCTGATACACATAGTAGCCTGCAC
AGAGAACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:38349973 original size:112 final size:112
Alignment explanation
Indices: 38349784--38349990 Score: 315
Period size: 112 Copynumber: 1.8 Consensus size: 112
38349774 TATGACGAGT
* * * ** *
38349784 TCATTAGACAAGCACTAGATAAGTAGCTTTCGTAATGGTATATAATAGGGAAAGCTCATTCATGG
1 TCATTAGACAACCACTAGATAAGTAGCTTTCATAATGGTATATAATAGAGAAAGCAAATTCATGA
*
38349849 TACTTTATTAGAATTCCTCCATGACTAAATAGTTTTGTATGATAAGG
66 TACTTTAGTAGAATTCCTCCATGACTAAATAGTTTTGTATGATAAGG
* *
38349896 TCATTAGACAACCACTAGATAAGTAGCTTTCATTATGGTATATAATAGAGAGAGCAAATTCATGA
1 TCATTAGACAACCACTAGATAAGTAGCTTTCATAATGGTATATAATAGAGAAAGCAAATTCATGA
* *
38349961 TACTTTGGTAGAATTCCTCCGTGACTAAAT
66 TACTTTAGTAGAATTCCTCCATGACTAAAT
38349991 GATCTGCCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 84 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (112 bp):
TCATTAGACAACCACTAGATAAGTAGCTTTCATAATGGTATATAATAGAGAAAGCAAATTCATGA
TACTTTAGTAGAATTCCTCCATGACTAAATAGTTTTGTATGATAAGG
Found at i:38355122 original size:102 final size:102
Alignment explanation
Indices: 38355004--38355200 Score: 385
Period size: 102 Copynumber: 1.9 Consensus size: 102
38354994 GGTGTAGGAC
38355004 TAATAGTAGTTATTATTATTATTGCATCTTTTTTAAGTTTTCTCTATAGGACCTAACACGAAGGA
1 TAATAGTAGTTATTATTATTATTGCATCTTTTTTAAGTTTTCTCTATAGGACCTAACACGAAGGA
38355069 GACTCAAACAATTCGAGCTACCACAATCAAGTAGGGG
66 GACTCAAACAATTCGAGCTACCACAATCAAGTAGGGG
*
38355106 TAATAGTAGTTTTTATTATTATTGCATCTTTTTTAAGTTTTCTCTATAGGACCTAACACGAAGGA
1 TAATAGTAGTTATTATTATTATTGCATCTTTTTTAAGTTTTCTCTATAGGACCTAACACGAAGGA
38355171 GACTCAAACAATTCGAGCTACCACAATCAA
66 GACTCAAACAATTCGAGCTACCACAATCAA
38355201 AGGAGGAAGA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (102 bp):
TAATAGTAGTTATTATTATTATTGCATCTTTTTTAAGTTTTCTCTATAGGACCTAACACGAAGGA
GACTCAAACAATTCGAGCTACCACAATCAAGTAGGGG
Found at i:38355777 original size:76 final size:76
Alignment explanation
Indices: 38355651--38355800 Score: 282
Period size: 76 Copynumber: 2.0 Consensus size: 76
38355641 TCCTTCTATA
* *
38355651 AGGGATTAATGTGTGGAGGCACGATCTATTAATTATTTTGTAGGGTTACCCAATGGATCAGTTTT
1 AGGGATTAATGTGTGGAGGCACGATCTATTAACTATTTTGTAGGGTTACCCAATGGATCAGTTGT
38355716 TTGGGAAAGTG
66 TTGGGAAAGTG
38355727 AGGGATTAATGTGTGGAGGCACGATCTATTAACTATTTTGTAGGGTTACCCAATGGATCAGTTGT
1 AGGGATTAATGTGTGGAGGCACGATCTATTAACTATTTTGTAGGGTTACCCAATGGATCAGTTGT
38355792 TTGGGAAAG
66 TTGGGAAAG
38355801 GAAGAATGTG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.34
Consensus pattern (76 bp):
AGGGATTAATGTGTGGAGGCACGATCTATTAACTATTTTGTAGGGTTACCCAATGGATCAGTTGT
TTGGGAAAGTG
Found at i:38360061 original size:12 final size:12
Alignment explanation
Indices: 38360044--38360075 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
38360034 CCATTCCATT
38360044 GAGGAGTACCAA
1 GAGGAGTACCAA
38360056 GAGGAGTACCAA
1 GAGGAGTACCAA
*
38360068 GAAGAGTA
1 GAGGAGTA
38360076 AGTTGTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.34, T:0.09
Consensus pattern (12 bp):
GAGGAGTACCAA
Found at i:38365172 original size:27 final size:27
Alignment explanation
Indices: 38365092--38365422 Score: 377
Period size: 27 Copynumber: 12.3 Consensus size: 27
38365082 TGCGATTCGT
*
38365092 GGTAAAATTACTGAAATACCCTCGAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
* *
38365119 GGTAAAATTAC-CAAATACCCTTGAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
* *
38365145 GGTAAAATGACTAAAATACCCTCAAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
* *
38365172 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
*
38365199 GGTAAAATTA-TAAAAATACCCTCAAATG
1 GGTAAAATTACT-AAAATACCCTCGAA-G
* *
38365227 GGTAAAATTA-TCGACATACCC-CGAAG
1 GGTAAAATTACT-AAAATACCCTCGAAG
* *
38365253 GGTAAAATTACTAAAATACCCCCAAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
*
38365280 GGTAAAATTATTAAAATACCCTCGAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
* *
38365307 GGTAAAATTACCAAAATACCCTCAAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
*
38365334 GTTAAAATTA-TAGAAATACCCTC-AGAG
1 GGTAAAATTACTA-AAATACCCTCGA-AG
* **
38365361 GTTAAAATTACCGAAATACCCTCGAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
* * *
38365388 GCTAAAATTACCAAAATACCCCCGAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
38365415 GGTAAAAT
1 GGTAAAAT
38365423 GACTGTTATA
Statistics
Matches: 263, Mismatches: 32, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
26 44 0.17
27 199 0.76
28 20 0.08
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.21
Consensus pattern (27 bp):
GGTAAAATTACTAAAATACCCTCGAAG
Found at i:38365435 original size:108 final size:108
Alignment explanation
Indices: 38365092--38365422 Score: 427
Period size: 108 Copynumber: 3.1 Consensus size: 108
38365082 TGCGATTCGT
* * * * *
38365092 GGTAAAATTACTGAAATACCCTCGAAGGGTAAAATTA-CCAAATACCCTTGAAGGGTAAAATGAC
1 GGTAAAATTACTAAAATACCCTCAAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTAC
* *
38365156 TAAAATACCCTCAAAGGGTAAAATGACTGAAATACCCTCGAAG
66 TAAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTCGAAG
*
38365199 GGTAAAATTA-TAAAAATACCCTCAAATGGGTAAAATTATCGACATACCC-CGAAGGGTAAAATT
1 GGTAAAATTACT-AAAATACCCTCAAA-GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATT
* *
38365262 ACTAAAATACCCCCAAAGGGTAAAATTATTAAAATACCCTCGAAG
64 ACTAAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTCGAAG
* * * *
38365307 GGTAAAATTACCAAAATACCCTCAAAGGTTAAAATTATAGAAATACCCTC-AGAGGTTAAAATTA
1 GGTAAAATTACTAAAATACCCTCAAAGGGTAAAATTATCGAAATACCCTCGA-AGGGTAAAATTA
** * * * *
38365371 CCGAAATACCCTCGAAGGCTAAAATTACCAAAATACCCCCGAAG
65 CTAAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTCGAAG
38365415 GGTAAAAT
1 GGTAAAAT
38365423 GACTGTTATA
Statistics
Matches: 195, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
106 1 0.01
107 42 0.22
108 144 0.74
109 8 0.04
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.21
Consensus pattern (108 bp):
GGTAAAATTACTAAAATACCCTCAAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTAC
TAAAATACCCTCAAAGGGTAAAATTACTAAAATACCCTCGAAG
Found at i:38366348 original size:20 final size:20
Alignment explanation
Indices: 38366323--38366365 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
38366313 TTCCAAACTT
38366323 AAGAAACGAGTTTTATCAAC
1 AAGAAACGAGTTTTATCAAC
38366343 AAGAAACGAGTTTTATCAAC
1 AAGAAACGAGTTTTATCAAC
38366363 AAG
1 AAG
38366366 TCTAAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (20 bp):
AAGAAACGAGTTTTATCAAC
Found at i:38371228 original size:24 final size:24
Alignment explanation
Indices: 38371196--38371245 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
38371186 TATTTTTCCT
38371196 TGGTTCTTTATGGTAAAGTTGCCA
1 TGGTTCTTTATGGTAAAGTTGCCA
38371220 TGGTTCTTTATGGTAAAGTTGCCA
1 TGGTTCTTTATGGTAAAGTTGCCA
38371244 TG
1 TG
38371246 AATTTAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.26, T:0.42
Consensus pattern (24 bp):
TGGTTCTTTATGGTAAAGTTGCCA
Found at i:38376414 original size:348 final size:345
Alignment explanation
Indices: 38375779--38376470 Score: 1323
Period size: 348 Copynumber: 2.0 Consensus size: 345
38375769 TTAAACTGTA
38375779 GTTAACCCAACAATTTAGCATGAAGGACTTGGGAGAAGCTAAATTGTTCTAGGAATTTGAATCCT
1 GTTAACCCAACAATTTAGCATGAAGGACTTGGGAGAAGCTAAATTGTTCTAGGAATTTGAATCCT
38375844 AAGGGATTGAAAGAAAATTTTGATAGAATTATCACAAGTTTCATATATATAAGATATTAGAAGGT
66 AAGGGATTGAAAGAAAATTTTGATAGAATTATCACAAGTTTCATATATATAAGATATTAGAAGGT
38375909 TATGCAATGACCAAATCGAAAATAAGACACTGGCAAGAAGTTAACCAGTAGGAAATCTCATGTAC
131 TATGCAATGACCAAATCGAAAATAAGACACTGGCAAGAAGTTAACCAGTAGGAAATCTCATGTAC
38375974 GTTATGTTATGCTTCTACAGTAGGAAATCTCATGTACGTTATGTTATGCACATGTCCAGATATTT
196 GTTATGTTATGCTTCTACAGTAGGAAATCTCATGTACGTTATGTTATGCACATGTCCAGATATTT
*
38376039 GTTTTGCAGTAGGGTTCGTGAGTTAATATCAGGCAAATCCAGGTTCAAGACACTGGCAAGAAGTT
261 GTTTTGCAGTAGGGTTCGTGAGTTAATATCAGGCAAATCCAAGTTCAAGACACTGGCAAGAAGTT
38376104 AACCATATACTCAAGTATTG
326 AACCATATACTCAAGTATTG
*
38376124 GTTAACCCAACAATTTAGCATGAAGGACTTGGGAGAAGCTAATTTGTTCTAGGAATTTGAATCCT
1 GTTAACCCAACAATTTAGCATGAAGGACTTGGGAGAAGCTAAATTGTTCTAGGAATTTGAATCCT
38376189 AAGGGATTGAAAGAAAATTTTGATAGAATTATCACAAGTTTCATATATATATATAAGATATTAGA
66 AAGGGATTGAAAGAAAATTTTGATAGAATTATCACAAGTTTC----ATATATATAAGATATTAGA
38376254 AGGTTATGCAATGACCAAATCGAAAATAAGACACTGGCAAGAAGTT-ACCAGTAGGAAATCTCAT
127 AGGTTATGCAATGACCAAATCGAAAATAAGACACTGGCAAGAAGTTAACCAGTAGGAAATCTCAT
38376318 GTACGTTATGTTATGCTTCTACAGTAGGAAATCTCATGTACGTTATGTTATGCACATGTCCAGAT
192 GTACGTTATGTTATGCTTCTACAGTAGGAAATCTCATGTACGTTATGTTATGCACATGTCCAGAT
38376383 ATTTGTTTTGCAGTAGGGTTCGTGAGTTAATATCAGGCAAATCCAAGTTCAAGACACTGGCAAGA
257 ATTTGTTTTGCAGTAGGGTTCGTGAGTTAATATCAGGCAAATCCAAGTTCAAGACACTGGCAAGA
38376448 AGTTAACCATATACTCAAGTATT
322 AGTTAACCATATACTCAAGTATT
38376471 TACAGAGAAC
Statistics
Matches: 341, Mismatches: 2, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
345 106 0.31
348 170 0.50
349 65 0.19
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (345 bp):
GTTAACCCAACAATTTAGCATGAAGGACTTGGGAGAAGCTAAATTGTTCTAGGAATTTGAATCCT
AAGGGATTGAAAGAAAATTTTGATAGAATTATCACAAGTTTCATATATATAAGATATTAGAAGGT
TATGCAATGACCAAATCGAAAATAAGACACTGGCAAGAAGTTAACCAGTAGGAAATCTCATGTAC
GTTATGTTATGCTTCTACAGTAGGAAATCTCATGTACGTTATGTTATGCACATGTCCAGATATTT
GTTTTGCAGTAGGGTTCGTGAGTTAATATCAGGCAAATCCAAGTTCAAGACACTGGCAAGAAGTT
AACCATATACTCAAGTATTG
Found at i:38379402 original size:19 final size:19
Alignment explanation
Indices: 38379368--38379404 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38379358 ATAGGAATTA
* *
38379368 GATTTGTGCTCTTTGGAAC
1 GATTTGTGCACCTTGGAAC
38379387 GATTTGTGCACCTTGGAA
1 GATTTGTGCACCTTGGAA
38379405 TGAATATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (19 bp):
GATTTGTGCACCTTGGAAC
Found at i:38382127 original size:9 final size:9
Alignment explanation
Indices: 38382113--38382138 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
38382103 CTAATATCAT
38382113 TTATAAAAA
1 TTATAAAAA
38382122 TTATAAAAA
1 TTATAAAAA
38382131 TTATAAAA
1 TTATAAAA
38382139 CCATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:38385049 original size:129 final size:129
Alignment explanation
Indices: 38384818--38385074 Score: 469
Period size: 129 Copynumber: 2.0 Consensus size: 129
38384808 AGCGACGCCT
38384818 TAGGAGGATCGACTCCAAGGATCGGTAGTCGAAAACCGAAGGGTTTCGTGCTTCATTCGCATTTT
1 TAGGAGGATCGACTCCAAGGATCGGTAGTCGAAAACCGAAGGGTTTCGTGCTTCATTCGCATTTT
*
38384883 CTGAGGGTTTTCAAGAAACTTCAAACTCAAATCGGGGTTTAAAAAGGTCAGAGGGACCGATTGG
66 CTGAGGATTTTCAAGAAACTTCAAACTCAAATCGGGGTTTAAAAAGGTCAGAGGGACCGATTGG
* * *
38384947 TAGGAGGATCGACTCCGAGGATCGGTAGTCGGAAACCGAAGGGTTTCGTGCTTCATTTGCATTTT
1 TAGGAGGATCGACTCCAAGGATCGGTAGTCGAAAACCGAAGGGTTTCGTGCTTCATTCGCATTTT
*
38385012 CTGAGGATTTTCAAGAAACTTCAAACTCAAATTGGGGTTTAAAAAGGTCAGAGGGACCGATTG
66 CTGAGGATTTTCAAGAAACTTCAAACTCAAATCGGGGTTTAAAAAGGTCAGAGGGACCGATTG
38385075 CAGAATTTTT
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (129 bp):
TAGGAGGATCGACTCCAAGGATCGGTAGTCGAAAACCGAAGGGTTTCGTGCTTCATTCGCATTTT
CTGAGGATTTTCAAGAAACTTCAAACTCAAATCGGGGTTTAAAAAGGTCAGAGGGACCGATTGG
Found at i:38385778 original size:98 final size:98
Alignment explanation
Indices: 38385609--38385875 Score: 509
Period size: 98 Copynumber: 2.7 Consensus size: 98
38385599 AGTTTTTTTT
*
38385609 TAAAGGAATTGTGTCC-TAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGTGGATGTTCTT
1 TAAAGGAATCGTG-CCTTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGTGGATGTTCTT
38385673 TTAAAGTAAAGGAAATATTCTGAGTTTGGGATTC
65 TTAAAGTAAAGGAAATATTCTGAGTTTGGGATTC
38385707 TAAAGGAATCGTGCCTTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGTGGATGTTCTTT
1 TAAAGGAATCGTGCCTTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGTGGATGTTCTTT
38385772 TAAAGTAAAGGAAATATTCTGAGTTTGGGATTC
66 TAAAGTAAAGGAAATATTCTGAGTTTGGGATTC
38385805 TAAAGGAATCGTGCCTTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGTGGATGTTCTTT
1 TAAAGGAATCGTGCCTTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGTGGATGTTCTTT
38385870 TAAAGT
66 TAAAGT
38385876 TTTATTGTAC
Statistics
Matches: 167, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
97 2 0.01
98 165 0.99
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (98 bp):
TAAAGGAATCGTGCCTTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGTGGATGTTCTTT
TAAAGTAAAGGAAATATTCTGAGTTTGGGATTC
Found at i:38397555 original size:44 final size:43
Alignment explanation
Indices: 38397272--38397785 Score: 222
Period size: 44 Copynumber: 11.8 Consensus size: 43
38397262 ATCGAAGATG
* * * *
38397272 GCAAGTCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCC
1 GCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* * * *
38397316 GATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATGAAAACCT
1 G-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CT
* * * *** *
38397361 -CAGATCTTATCTCTCTGAAGTTGTAG-AGAGCAGATCGCATCT
1 GCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* * * * **
38397403 --AGTCATATC-CTCCTGAGGTTGTAGTGGAG-A-A-TACTACGT
1 GCAATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAAC-T
* * * *
38397442 AAGCAAGTTTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAATA-T
1 --GCAA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACT
* *
38397488 GGCAAATCTTATCTCCCTCAAGTTACAGTGGAGCAGATTAAAACT
1 -GC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* * *
38397533 GACAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATCT
1 G-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CT
* * *** *
38397578 -CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCATCT
1 GCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* *
38397620 --AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAA--
1 GCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACT
* ** *
38397661 GCAAGTCTTATCTTCCTGAAGTTGCAGT-GAGGCAGACTGGAGA-T
1 GCAA-TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGA-TTAAAACT
* * * *
38397705 GGCAAAACTTATCTCCCCGAAGTTGCAGTGGAGCAGATTAAATCC
1 -GC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
* *
38397750 GACAAT-TCTATCTCCCTCAAGTTGTAGTGGAGCAGA
1 G-CAATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGA
38397786 CTAATGAGGC
Statistics
Matches: 352, Mismatches: 80, Indels: 76
0.69 0.16 0.15
Matches are distributed among these distances:
38 2 0.01
39 3 0.01
40 39 0.11
41 12 0.03
42 4 0.01
43 28 0.08
44 189 0.54
45 61 0.17
46 11 0.03
48 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
GCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT
Found at i:38397648 original size:217 final size:217
Alignment explanation
Indices: 38397265--38397782 Score: 752
Period size: 217 Copynumber: 2.4 Consensus size: 217
38397255 AGAGCAGATC
* * * * * *
38397265 GAAGATGGCAAGTCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTC
1 GAAGATGGCAAATCTTATCTCCCTCAAGTTGCAGTGGAGCAGATTAAAACCGACAATCCTATCTC
*
38397330 CCTGAAGTTGCAGTGGAGCGGATGAAAACCTCAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGA
66 CCTGAAGTTGCAGTGGAGCGGATGAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
* * * * *
38397395 TCGCATCTAGTCATATCCTCCTGAGGTTGTAGTGGAGAATACTACGTAAGCAAGTTTTATCCTCC
131 TCGCATCTAGTCATATCCTCCTGAAGTTGCAGTGGAGAAGACTAAGTAAGCAAGTCTTATCCTCC
*
38397460 TGAAGTTGTAGTGAGGCAGACT
196 TGAAGTTGCAGTGAGGCAGACT
* * *
38397482 GAATATGGCAAATCTTATCTCCCTCAAGTTACAGTGGAGCAGATTAAAACTGACAATCCTATCTC
1 GAAGATGGCAAATCTTATCTCCCTCAAGTTGCAGTGGAGCAGATTAAAACCGACAATCCTATCTC
* * *
38397547 CCTGAAGTTGCGGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
66 CCTGAAGTTGCAGTGGAGCGGATGAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
* * *
38397612 TCGCATCTAGTCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTTC
131 TCGCATCTAGTCATATCCT-CCTGAAGTTGCAGTGGAGAAGACTAAGTAAGCAAGTCTTATCCTC
38397676 CTGAAGTTGCAGTGAGGCAGACT
195 CTGAAGTTGCAGTGAGGCAGACT
* * * *
38397699 GGAGATGGCAAAACTTATCTCCC-CGAAGTTGCAGTGGAGCAGATTAAATCCGACAATTCTATCT
1 GAAGATGGCAAATCTTATCTCCCTC-AAGTTGCAGTGGAGCAGATTAAAACCGACAATCCTATCT
* *
38397763 CCCTCAAGTTGTAGTGGAGC
65 CCCTGAAGTTGCAGTGGAGC
38397783 AGACTAATGA
Statistics
Matches: 267, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
216 3 0.01
217 264 0.99
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (217 bp):
GAAGATGGCAAATCTTATCTCCCTCAAGTTGCAGTGGAGCAGATTAAAACCGACAATCCTATCTC
CCTGAAGTTGCAGTGGAGCGGATGAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
TCGCATCTAGTCATATCCTCCTGAAGTTGCAGTGGAGAAGACTAAGTAAGCAAGTCTTATCCTCC
TGAAGTTGCAGTGAGGCAGACT
Found at i:38397670 original size:84 final size:88
Alignment explanation
Indices: 38397541--38397746 Score: 210
Period size: 84 Copynumber: 2.4 Consensus size: 88
38397531 CTGACAATCC
* * * * *
38397541 TATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATCTCAGATCTTATC-TCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCTAAGATCTTATCTTC-CTGAAGTTGCAGA
* **
38397605 GA-GCAGA-TCG-CAT-CTAGTCT
65 GAGGCAGACTCGACATGCAAAACT
38397625 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAG-TCTTATCTTCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCTAAGATCTTATCTTCCTGAAGTTGCAG
* * *
38397688 TGAGGCAGACTGGAGATGGCAAAACT
64 AGAGGCAGACTCGACAT-GCAAAACT
* *
38397714 TATCTCCCCGAAGTTGCAGTGGAGCAGATTAAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
38397747 TCCGACAATT
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
84 50 0.50
85 9 0.09
86 5 0.05
87 3 0.03
89 34 0.34
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (88 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCTAAGATCTTATCTTCCTGAAGTTGCAGAG
AGGCAGACTCGACATGCAAAACT
Found at i:38397762 original size:89 final size:89
Alignment explanation
Indices: 38397623--38397787 Score: 217
Period size: 89 Copynumber: 1.9 Consensus size: 89
38397613 CGCATCTAGT
* * * *
38397623 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTTCCTGAAGTTGCAG
1 CTTATCTCCCCGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTCCCTCAAGTTGCAG
38397688 T-GAGGCAGACTGGAGATGGCAAAA
66 TGGA-GCAGACTGGAGATGGCAAAA
* ** * *
38397712 CTTATCTCCCCGAAGTTGCAGTGGAGCAGATTAAATCCGACAATTC-TATCTCCCTCAAGTTGTA
1 CTTATCTCCCCGAAGTTGCAGTGGAGCAGACTAAATAAG-CAAGTCTTATCTCCCTCAAGTTGCA
38397776 GTGGAGCAGACT
65 GTGGAGCAGACT
38397788 AATGAGGCAG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 58 0.89
90 7 0.11
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (89 bp):
CTTATCTCCCCGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTCCCTCAAGTTGCAG
TGGAGCAGACTGGAGATGGCAAAA
Found at i:38400092 original size:98 final size:98
Alignment explanation
Indices: 38399963--38400168 Score: 369
Period size: 98 Copynumber: 2.1 Consensus size: 98
38399953 ATGAAGATTT
* *
38399963 TTTTAATAATAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAAT-TGTGCCCTAACGTATTGG
1 TTTTAA-AGTAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCT-TGCCCTAACGTATTGG
38400027 GTGTGATTTCTTAAATCTTGGATAAGTGGATGTTC
64 GTGTGATTTCTTAAATCTTGGATAAGTGGATGTTC
38400062 TTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCTTGCCCTAACGTATTGGGT
1 TTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCTTGCCCTAACGTATTGGGT
38400127 GTGATTTCTTAAATCTTGGATAAGTGGATGTTC
66 GTGATTTCTTAAATCTTGGATAAGTGGATGTTC
38400160 TTTTAAAGT
1 TTTTAAAGT
38400169 TTTATTGTAC
Statistics
Matches: 104, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
98 97 0.93
99 7 0.07
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (98 bp):
TTTTAAAGTAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCTTGCCCTAACGTATTGGGT
GTGATTTCTTAAATCTTGGATAAGTGGATGTTC
Found at i:38404759 original size:105 final size:104
Alignment explanation
Indices: 38404545--38404759 Score: 236
Period size: 105 Copynumber: 2.0 Consensus size: 104
38404535 TGTCAGCCCG
* * *
38404545 TGTGAAAACTTCACCTATACTGTTTTGAAACACATTTAGGGTACACGCCCGTGTGAGTTGCCTGT
1 TGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGAGTTGCCTGT
* * * * *
38404610 GCATATCACACGATCGTGTGACAGCCCATGACCCAGGCCG
66 GCA-ATCACACGACCGAGTAACAGCCCATGACCCAAGCCA
* * * *
38404650 TGTGAAAACTAT-ATCTATATTGTTTTGAAACACATTCAGGGCACAGGCCCATGTGTGTTGCCCG
1 TGTGAAAACT-TCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGAGTTG-CC-
* * * *
38404714 TGTGC-ATCACACGACCGAGTAATAGTCCGTGTCCCAAGCCA
63 TGTGCAATCACACGACCGAGTAACAGCCCATGACCCAAGCCA
38404755 TGTGA
1 TGTGA
38404760 GCACAAAAAT
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
105 83 0.91
106 3 0.03
107 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (104 bp):
TGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGGCACACGCCCATGTGAGTTGCCTGT
GCAATCACACGACCGAGTAACAGCCCATGACCCAAGCCA
Found at i:38408623 original size:30 final size:30
Alignment explanation
Indices: 38408587--38408649 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
38408577 ACTTATTTTA
*
38408587 TTGTTAATTTTGTTGTTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
38408617 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
38408647 TTG
1 TTG
38408650 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:38410245 original size:20 final size:20
Alignment explanation
Indices: 38410222--38410283 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
38410212 GTTTTTAGAT
38410222 AATTATG-TTTATTTTCTTTA
1 AATTATGATTTATTTT-TTTA
* *
38410242 AATTAAGAGTTATTTTTTTA
1 AATTATGATTTATTTTTTTA
*
38410262 ACTTCATGATTTATTTATTTTA
1 AATT-ATGATTTATTT-TTTTA
38410284 TTATTTTCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 13 0.38
21 16 0.47
22 5 0.15
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (20 bp):
AATTATGATTTATTTTTTTA
Found at i:38418628 original size:16 final size:17
Alignment explanation
Indices: 38418599--38418630 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38418589 AATTTTAGGG
38418599 GGAAAATAAAAAGTTTT
1 GGAAAATAAAAAGTTTT
38418616 GGAAAAT-AAAAGTTT
1 GGAAAATAAAAAGTTT
38418631 GAGGGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (17 bp):
GGAAAATAAAAAGTTTT
Found at i:38418947 original size:30 final size:31
Alignment explanation
Indices: 38418886--38418944 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
38418876 GAGGTTGGGA
* **
38418886 TGGGAAGAGAGTAAAAGTTTTGATTAGAAAG
1 TGGGAAGAGAGTAAAAATTTTGAGGAGAAAG
38418917 TGGGAAG-GAGTAAAAATTTTGAGG-GAAA
1 TGGGAAGAGAGTAAAAATTTTGAGGAGAAA
38418945 AGTAAAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 14 0.56
31 7 0.28
ACGTcount: A:0.42, C:0.00, G:0.34, T:0.24
Consensus pattern (31 bp):
TGGGAAGAGAGTAAAAATTTTGAGGAGAAAG
Found at i:38424285 original size:24 final size:27
Alignment explanation
Indices: 38424244--38424293 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 27
38424234 ACTTTCTTTT
*
38424244 TATAAATTGTTTATAATTTTT-TAAAA
1 TATAAATTGTTTAGAATTTTTATAAAA
38424270 TATAAA-T-TTTAGAATTTTTATAAA
1 TATAAATTGTTTAGAATTTTTATAAA
38424294 TATTTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 5 0.23
26 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (27 bp):
TATAAATTGTTTAGAATTTTTATAAAA
Found at i:38425076 original size:27 final size:27
Alignment explanation
Indices: 38425046--38425099 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
38425036 GCTTGCGGGG
*
38425046 ATGTTAGTTTTC-GAGTTTCGTTACCAC
1 ATGTTAGTTTCCAG-GTTTCGTTACCAC
38425073 ATGTTAGTTTCCAGGTTTCGTTACCAC
1 ATGTTAGTTTCCAGGTTTCGTTACCAC
38425100 CCGTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (27 bp):
ATGTTAGTTTCCAGGTTTCGTTACCAC
Found at i:38431253 original size:17 final size:17
Alignment explanation
Indices: 38431231--38431282 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
38431221 ATGGAAACAT
* *
38431231 AATCTTCAAGGATATGC
1 AATCTTGAAAGATATGC
*
38431248 AATCTTAGATATGATATGC
1 AATCTT-GA-AAGATATGC
38431267 AATCTTGAAAGATATG
1 AATCTTGAAAGATATG
38431283 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.43
18 3 0.10
19 14 0.47
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (17 bp):
AATCTTGAAAGATATGC
Found at i:38431301 original size:22 final size:22
Alignment explanation
Indices: 38431241--38431284 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
38431231 AATCTTCAAG
38431241 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTGAAAGATAT
38431260 GATATGCAATCTTGAAAGATAT
1 GATATGCAATCTTGAAAGATAT
38431282 GAT
1 GAT
38431285 TTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.59
22 9 0.41
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (22 bp):
GATATGCAATCTTGAAAGATAT
Found at i:38436852 original size:11 final size:10
Alignment explanation
Indices: 38436838--38436880 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
38436828 ATATTCCAAA
38436838 AAAAAAGAAAG
1 AAAAAA-AAAG
38436849 AAAAAAAAAG
1 AAAAAAAAAG
*
38436859 CAAAGAAAAAG
1 -AAAAAAAAAG
38436870 AAAAGAAAAAG
1 AAAA-AAAAAG
38436881 GAGAGGCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:38436853 original size:15 final size:14
Alignment explanation
Indices: 38436835--38436877 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 14
38436825 AAAATATTCC
38436835 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAG
38436849 AAAAAAAAAGCAAAG
1 AAAAAAAAAG-AAAG
38436864 AAAAAGAAAAGAAA
1 AAAAA-AAAAGAAA
38436878 AAGGAGAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.37
15 12 0.44
16 5 0.19
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:38438273 original size:88 final size:88
Alignment explanation
Indices: 38438120--38439005 Score: 1038
Period size: 88 Copynumber: 10.2 Consensus size: 88
38438110 GAAATCACAA
* *
38438120 AGCCTTGCCTCCCTGGGTTGTAGTGGAGTAGGTTGAATATAACAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
*
38438185 CAACTCAGCAGATCGAAGATACC
66 CAACTAAGCAGATCGAAGATACC
*
38438208 AGCGTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* * *
38438273 CAGCGAAGCAGTTCGAAGATACC
66 CAACTAAGCAGATCGAAGATACC
*
38438296 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATTAACAGATCTTGCCTTCCTGCATCG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATA-TAGCAGATCTTGCCTTCCTGCATCG
* * *
38438361 ACAGCGAAGCATATCGAAGATACC
65 ACAACTAAGCAGATCGAAGATACC
*
38438385 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCA-G--G--T-T-----ATCTTGCCTTCCTGTATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* * * *
38438439 CAGCGAAGCAGATTGAAGGTACC
66 CAACTAAGCAGATCGAAGATACC
* * * *
38438462 AGTCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCTTGCATTGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* *
38438527 CAGCGAAGCAGATCGAAGATACC
66 CAACTAAGCAGATCGAAGATACC
* * * * *
38438550 AGCCTTGCCTCCCTGGGTTGTAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* *
38438615 C-AGTGAAGCAGATCGAAGATTCC
66 CAACT-AAGCAGATCGAAGATACC
* *
38438638 AGCCTTGCCTCCCTGGGTTGTAGTAGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
*
38438703 CAA-TGAAGCAGATCAAAGATACC
66 CAACT-AAGCAGATCGAAGATACC
* * *
38438726 AGCCTTG---CCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTA-CTG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATC-G
* *
38438787 A-AAGTGAAGTAGATCGAAGATACC
65 ACAACT-AAGCAGATCGAAGATACC
* ** * * * *
38438811 AGCCTTGCCTCCCTGGATCATAGTTGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
*
38438876 C-AGTGAAGCAGATCGAAGATACC
66 CAACT-AAGCAGATCGAAGATACC
* * * ** * * * *
38438899 ATCCTTGCCTCCCTGGGTTGTAGTGAAGTAGGTTGAAGGTAGTAGATCTTGCCTTCCTGTACCAA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
* * *
38438964 C-AGTGAAACAGATCAAAGATACC
66 CAACT-AAGCAGATCGAAGATACC
* *
38438987 AGTCTTGCCTCCTTGGGTT
1 AGCCTTGCCTCCCTGGGTT
38439006 ATCGTGAAGT
Statistics
Matches: 708, Mismatches: 69, Indels: 42
0.86 0.08 0.05
Matches are distributed among these distances:
77 67 0.09
78 1 0.00
80 1 0.00
82 2 0.00
83 1 0.00
84 4 0.01
85 75 0.11
86 1 0.00
88 478 0.68
89 78 0.11
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
CAACTAAGCAGATCGAAGATACC
Done.