Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 50
Found at i:9915501 original size:2 final size:2
Alignment explanation
Indices: 9915494--9915526 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9915484 GTAAGAAAGA
9915494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9915527 ATTTAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9916449 original size:27 final size:27
Alignment explanation
Indices: 9916412--9916485 Score: 132
Period size: 27 Copynumber: 2.8 Consensus size: 27
9916402 GTATCGTTTA
9916412 TATCACAAAACTTTTAATTTTGCTAAT
1 TATCACAAAACTTTTAATTTTGCTAAT
9916439 TATCACAAAACTTTTAATTTTGCTAAT
1 TATCACAAAACTTTTAATTTTGCTAAT
*
9916466 TATCACTAAACTTTT-ATTTT
1 TATCACAAAACTTTTAATTTT
9916486 CGTTTCAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 5 0.11
27 41 0.89
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (27 bp):
TATCACAAAACTTTTAATTTTGCTAAT
Found at i:9916983 original size:64 final size:65
Alignment explanation
Indices: 9916860--9916984 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 65
9916850 GAATGTATTT
* *
9916860 CATGCATCGATGCACTCAGAGTTTTATGAAAACATCGAATGCATTTGAAGCATTGATGCACCAGC
1 CATGCATCGATACACTCAGAGTTTTATGAAAACATCGAATGCATTTGAAGCATCGATGCACCAGC
* *
9916925 CATGCATCGATACACTCAG-GCTATTT-TG-AAACATCGAATGCATTTTATGCATCGATGCAC
1 CATGCATCGATACACTCAGAG-T-TTTATGAAAACATCGAATGCATTTGAAGCATCGATGCAC
9916985 TCTTAGTGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
64 30 0.56
65 21 0.39
66 3 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (65 bp):
CATGCATCGATACACTCAGAGTTTTATGAAAACATCGAATGCATTTGAAGCATCGATGCACCAGC
Found at i:9920996 original size:13 final size:13
Alignment explanation
Indices: 9920978--9921002 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9920968 ATATCGAAAA
9920978 TCTAAATTTGATT
1 TCTAAATTTGATT
9920991 TCTAAATTTGAT
1 TCTAAATTTGAT
9921003 GTTTTTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
TCTAAATTTGATT
Found at i:9927710 original size:38 final size:38
Alignment explanation
Indices: 9927659--9927740 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
9927649 ATTGAATGAA
*
9927659 GAGGTTAGAAAAGGTCTCAGGGTTTTACATCATAATCT
1 GAGGTTAGAAAAGGTCTCAGGGTTTTACATCACAATCT
9927697 GAGGTTAGAAAAGGTCTCAGGGTTTTACATCACAATCT
1 GAGGTTAGAAAAGGTCTCAGGGTTTTACATCACAATCT
9927735 GAGGTT
1 GAGGTT
9927741 TGGTTACCGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (38 bp):
GAGGTTAGAAAAGGTCTCAGGGTTTTACATCACAATCT
Found at i:9932874 original size:12 final size:12
Alignment explanation
Indices: 9932843--9932876 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9932833 ACTATAATGT
* *
9932843 ATGAACAATACT
1 ATGAACAGTACC
9932855 ATGAACAGTACC
1 ATGAACAGTACC
9932867 ATGAACAGTA
1 ATGAACAGTA
9932877 AAAAATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.21
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:9933690 original size:31 final size:31
Alignment explanation
Indices: 9933655--9933725 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
9933645 CCGAAGAACC
* **
9933655 TAGGTAAACAGTTCATATGTCCTGAACAACA
1 TAGGTAAACAGTCCATATGTCCCAAACAACA
*
9933686 TAGGTAAACAGTCCATATGTCCCAAAGAACA
1 TAGGTAAACAGTCCATATGTCCCAAACAACA
9933717 TAGGTAAAC
1 TAGGTAAAC
9933726 CCTCGACCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (31 bp):
TAGGTAAACAGTCCATATGTCCCAAACAACA
Found at i:9939189 original size:221 final size:220
Alignment explanation
Indices: 9938766--9939201 Score: 748
Period size: 221 Copynumber: 2.0 Consensus size: 220
9938756 ATTTAGTGAC
* * *
9938766 TAAATTGTAGCTTTCAAAAATTGTAAGGGAAAAGGTAGAAAGTGGATTTTTATTTGTTTATCTTT
1 TAAATTGTAGCTTTCAAAAATTGCAAGGGAAAAGGTAGAAAGTGGATTTTTATTTGTTCATATTT
* * *
9938831 GACTATGAAGATGATATAGATAACATGGTGTCATGAATTATGTTATAGCAATTTCAAAGTGGAAA
66 GACTATGAAGATGATATAGATAACATGGTGTCATGAATGATGTTATAGCAATGTCAAACTGGAAA
9938896 TTATCATATTTTAGTAAGGTTAAAATGATAATTTCTAATTAAATGAATTTTAAATTTATTTATAA
131 TTATCATATTTTAGTAAGGTTAAAATGATAATTTCTAATTAAATGAATTTTAAATTTATTTATAA
9938961 TAATTAATAAAAGTGTCATATTTGAA
196 TAATTAATAAAAGTGT-ATATTTGAA
* *
9938987 TAAATTGTAGCTTTCAAAAATTGCAATGGAAAAGGTATAAAGTGGATTTTTATTTGTTCATATTT
1 TAAATTGTAGCTTTCAAAAATTGCAAGGGAAAAGGTAGAAAGTGGATTTTTATTTGTTCATATTT
*
9939052 GACTATGAAGATGATATAGATAAGATGGTGTCATGAATGATGTTATAGCAATGTCAAACTGG-AA
66 GACTATGAAGATGATATAGATAACATGGTGTCATGAATGATGTTATAGCAATGTCAAACTGGAAA
* *
9939116 TTATCATATTTTAGTAAGGTTAAAATGGTAATTTCTAATTAAATGAATTTTAAATTTATTTATAT
131 TTATCATATTTTAGTAAGGTTAAAATGATAATTTCTAATTAAATGAATTTTAAATTTATTTATAA
9939181 TAAATTAATAAAAGTGTATAT
196 T-AATTAATAAAAGTGTATAT
9939202 GTTAATTATG
Statistics
Matches: 203, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
220 70 0.34
221 133 0.66
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (220 bp):
TAAATTGTAGCTTTCAAAAATTGCAAGGGAAAAGGTAGAAAGTGGATTTTTATTTGTTCATATTT
GACTATGAAGATGATATAGATAACATGGTGTCATGAATGATGTTATAGCAATGTCAAACTGGAAA
TTATCATATTTTAGTAAGGTTAAAATGATAATTTCTAATTAAATGAATTTTAAATTTATTTATAA
TAATTAATAAAAGTGTATATTTGAA
Found at i:9941580 original size:32 final size:32
Alignment explanation
Indices: 9941543--9941611 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
9941533 TTGCCATTGA
9941543 AGTGCATCTTATGATGACGATTGACACCGTGT
1 AGTGCATCTTATGATGACGATTGACACCGTGT
*
9941575 AGTGCATCTTATGATGACGATTGACACTGTGT
1 AGTGCATCTTATGATGACGATTGACACCGTGT
9941607 AGTGC
1 AGTGC
9941612 CTAGTGCACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (32 bp):
AGTGCATCTTATGATGACGATTGACACCGTGT
Found at i:9944481 original size:18 final size:18
Alignment explanation
Indices: 9944460--9944494 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9944450 TAATATTGAG
9944460 TTATAATAAAATATATTT
1 TTATAATAAAATATATTT
* *
9944478 TTATTATAATATATATT
1 TTATAATAAAATATATT
9944495 ATTTTACATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATAATAAAATATATTT
Found at i:9944573 original size:2 final size:2
Alignment explanation
Indices: 9944566--9944625 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
9944556 ATTTCTTTTA
9944566 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9944608 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
9944626 TAATATTTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9945066 original size:26 final size:26
Alignment explanation
Indices: 9945030--9945093 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
9945020 TTTAAAATCT
* *
9945030 CACTTTTAAAAGTTA-TTTTCTACAA
1 CACTTTTAAAAATCACTTTTCTACAA
9945055 CACTTTTAAAAATCACTTTTCTACAA
1 CACTTTTAAAAATCACTTTTCTACAA
*
9945081 CATTTTTCAAAAA
1 CACTTTT-AAAAA
9945094 CAATGTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 13 0.38
26 16 0.47
27 5 0.15
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.41
Consensus pattern (26 bp):
CACTTTTAAAAATCACTTTTCTACAA
Found at i:9947820 original size:16 final size:14
Alignment explanation
Indices: 9947778--9947812 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9947768 AGGGCAATGT
*
9947778 TTTGAAAAA-ACTA
1 TTTGAAAAATAATA
9947791 TTTGAAAAATAATA
1 TTTGAAAAATAATA
9947805 TTTGAAAA
1 TTTGAAAA
9947813 TCATAATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (14 bp):
TTTGAAAAATAATA
Found at i:9948315 original size:22 final size:21
Alignment explanation
Indices: 9948245--9948327 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 21
9948235 AGAACCCGTG
*
9948245 GGGGGTATCGATTCCC-TCAA
1 GGGGGAATCGATTCCCTTCAA
9948265 GGAGGGAATCGATTCCCATTCAAA
1 GG-GGGAATCGATTCCC-TTC-AA
*
9948289 GGGGGAATCGTTTCCTCTTCAA
1 GGGGGAATCGATTCC-CTTCAA
*
9948311 GGGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
9948328 CTGCACTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.04
21 15 0.28
22 15 0.28
23 17 0.31
24 5 0.09
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (21 bp):
GGGGGAATCGATTCCCTTCAA
Found at i:9948329 original size:23 final size:22
Alignment explanation
Indices: 9948245--9948326 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
9948235 AGAACCCGTG
*
9948245 GGGGGTATCGATT-CCC-TCAA
1 GGGGGAATCGATTCCCCTTCAA
*
9948265 GGAGGGAATCGATTCCCATTCAAA
1 GG-GGGAATCGATTCCCCTTC-AA
* *
9948289 GGGGGAATCGTTTCCTCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
9948311 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
9948327 TCTGCACTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
20 2 0.04
21 10 0.20
22 17 0.34
23 17 0.34
24 4 0.08
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:9952090 original size:22 final size:21
Alignment explanation
Indices: 9952048--9952087 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9952038 AAGACTATTT
9952048 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
9952069 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
9952088 ATAGAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:9954916 original size:22 final size:22
Alignment explanation
Indices: 9954889--9954930 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9954879 TATATTTTTA
9954889 ATATTTCTAATAATATAATATT
1 ATATTTCTAATAATATAATATT
* *
9954911 ATATTTTTAATATTATAATA
1 ATATTTCTAATAATATAATA
9954931 AAATAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATTTCTAATAATATAATATT
Found at i:9954917 original size:31 final size:30
Alignment explanation
Indices: 9954879--9954977 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
9954869 ATATTTAAAA
* *
9954879 TATATTTTTAATATTTCTAATAATATAATAT
1 TATATTTTTAATA-TTATAATAAAATAATAT
9954910 TATATTTTTAATATTATAATAAAATAATCAAT
1 TATATTTTTAATATTATAATAAAATAAT--AT
* * * * *
9954942 TATA-ATATAATAATATAATATAA-GATAT
1 TATATTTTTAATATTATAATAAAATAATAT
9954970 TATATTTT
1 TATATTTT
9954978 ATTTTAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
28 6 0.11
29 1 0.02
30 15 0.27
31 28 0.50
32 6 0.11
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (30 bp):
TATATTTTTAATATTATAATAAAATAATAT
Found at i:9954958 original size:8 final size:8
Alignment explanation
Indices: 9954896--9954961 Score: 50
Period size: 8 Copynumber: 8.6 Consensus size: 8
9954886 TTAATATTTC
9954896 TAATAATA
1 TAATAATA
*
9954904 TAATATTA
1 TAATAATA
* *
9954912 T-AT-TTT
1 TAATAATA
*
9954918 TAATATTA
1 TAATAATA
*
9954926 TAATAAAA
1 TAATAATA
9954934 TAATCAAT-
1 TAAT-AATA
9954942 T-ATAATA
1 TAATAATA
9954949 TAATAATA
1 TAATAATA
9954957 TAATA
1 TAATA
9954962 TAAGATATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
6 6 0.13
7 7 0.15
8 32 0.68
9 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (8 bp):
TAATAATA
Found at i:9954973 original size:23 final size:23
Alignment explanation
Indices: 9954920--9954973 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
9954910 TATATTTTTA
**
9954920 ATATTATAATAAAATAATCAATT
1 ATATTATAATAAAATAATCAAAG
* *
9954943 ATAATATAATAATATAAT-ATAAG
1 ATATTATAATAAAATAATCA-AAG
9954966 ATATTATA
1 ATATTATA
9954974 TTTTATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATTATAATAAAATAATCAAAG
Found at i:9955453 original size:12 final size:13
Alignment explanation
Indices: 9955436--9955464 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9955426 TTTAATTGCG
9955436 AAAATTAAAA-TT
1 AAAATTAAAATTT
9955448 AAAATTAAAATTT
1 AAAATTAAAATTT
9955461 AAAA
1 AAAA
9955465 ATCCGATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:9958516 original size:85 final size:85
Alignment explanation
Indices: 9958405--9958879 Score: 522
Period size: 85 Copynumber: 5.6 Consensus size: 85
9958395 AGCTAAGATG
* * * * * * *
9958405 TAAATTTAACATGCCCTTT-AGCTGAATGGAATCAAACTCGTAGGTATTTGTTGATAGATAACCC
1 TAAATTTGATATG-CCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
9958469 TTCTCGCCTTGAGTTATGCTA
65 TTCTCGCCTTGAGTTATGCTA
* * * * * *
9958490 TAAATTTGATGTGTCTTTGAGCTGAATGTAATCAAACTCAAAGGTTTTTATTGACAGATAACCCT
1 TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
* * *
9958555 TATCGCCTTGAGTTTTGCTG
66 TCTCGCCTTGAGTTATGCTA
* * * * *
9958575 TAAATTTGATATGCCTTTGAGCTTAATGTAATCGAACTCGGAGGTCTTTGCTGGCAAATAACCCT
1 TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
* * * *
9958640 TTTTGCCTTCAGTTATGCAA
66 TCTCGCCTTGAGTTATGCTA
* * *
9958660 TAAATTTGATATGTCC-TTGAGATGAATGTAATTGAACTCGAAGGTCTTGGTTGACAGATAACCC
1 TAAATTTGATATG-CCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
* * *
9958724 TTCTCGCGTTGAGATATGCTG
65 TTCTCGCCTTGAGTTATGCTA
* * *
9958745 TAAATTTGACATGCCATTGAGCTAAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
1 TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
* * * * * **
9958810 TATTGACTTAAGTTATACCG
66 TCTCGCCTTGAGTTATGCTA
* * *
9958830 TAAATTTGACATGCCTTTGAGTTGAATGTAATTGAACTCGAAGGTCTTTG
1 TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTG
9958880 CTATAAATTT
Statistics
Matches: 325, Mismatches: 62, Indels: 6
0.83 0.16 0.02
Matches are distributed among these distances:
84 6 0.02
85 317 0.98
86 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (85 bp):
TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
TCTCGCCTTGAGTTATGCTA
Found at i:9958995 original size:139 final size:137
Alignment explanation
Indices: 9958761--9959017 Score: 325
Period size: 139 Copynumber: 1.9 Consensus size: 137
9958751 TGACATGCCA
* * *
9958761 TTGAGCTAAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTATTGACTTAAGTTAT
1 TTGAGCTAAATGAAATCGAACTCGAAGGTCTTTGCTGACAGATAACCCTTATTGACTTAAGCTAT
* * * * * *
9958826 ACCGTAAATTTGACATGCCTTTGAGTTGAATGTAATTGAACTCGAAGGTCTTTGCTATAAATTTG
66 ACCGCAAATTTGACATGCCCTTGAGCTGAATATAATCGAACTCAAAGGT-TTTGCTATAAATTTG
9958891 ATAGGTCC
130 ATAGGTCC
* * * * * *
9958899 TTGAGCTGAATGAAATCGAACTCGAAGGTTTTTTGCTGGCAGATAACCCTTCTTGCCTTGAGCTA
1 TTGAGCTAAATGAAATCGAACTCGAAGG-TCTTTGCTGACAGATAACCCTTATTGACTTAAGCTA
*** *
9958964 TGTTGCAAATTTGATATGCCCTTGAGCTGAATATAATCGAACTCAAAGGTTTTG
65 TACCGCAAATTTGACATGCCCTTGAGCTGAATATAATCGAACTCAAAGGTTTTG
9959018 GTTGACAGAT
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
138 30 0.30
139 69 0.70
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (137 bp):
TTGAGCTAAATGAAATCGAACTCGAAGGTCTTTGCTGACAGATAACCCTTATTGACTTAAGCTAT
ACCGCAAATTTGACATGCCCTTGAGCTGAATATAATCGAACTCAAAGGTTTTGCTATAAATTTGA
TAGGTCC
Found at i:9960694 original size:84 final size:85
Alignment explanation
Indices: 9960605--9960821 Score: 256
Period size: 95 Copynumber: 2.4 Consensus size: 85
9960595 CCATAAAGTT
*
9960605 GGGGCGTTTAACCAATTTCTCTAGAGGGCCATCTCAA-TATTATAATCACCTTTATCAGGCTAGC
1 GGGGCGTTTAACCAATTTCTCTAGAGGGCCAGCTCAAGTATTATAATCACCTTTATCAGGCTAGC
9960669 TGAATCTTATCCATAAACCC
66 TGAATCTTATCCATAAACCC
*
9960689 GGGGCGTTTAACCAATTTCTCTAGAGGGACAACTCAAGCTTTATTATGTATTATAATCACCTTTA
1 GGGGCGTTTAACCAATTTCTCTAGAGGG----C-C-AGC-TCA--A-GTATTATAATCACCTTTA
**
9960754 TCAGGCTAGCTGAATCTTATCCATAAAGTC
56 TCAGGCTAGCTGAATCTTATCCATAAACCC
* * * * *
9960784 GAGGTGTTTAACCAATTGCTTTAGAGGGGCAGCTCAAG
1 GGGGCGTTTAACCAATTTCTCTAGAGGGCCAGCTCAAG
9960822 CTTTATTGTA
Statistics
Matches: 112, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
84 28 0.25
85 1 0.01
86 1 0.01
88 3 0.03
89 4 0.04
90 3 0.03
91 2 0.02
93 1 0.01
95 69 0.62
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (85 bp):
GGGGCGTTTAACCAATTTCTCTAGAGGGCCAGCTCAAGTATTATAATCACCTTTATCAGGCTAGC
TGAATCTTATCCATAAACCC
Found at i:9960809 original size:95 final size:95
Alignment explanation
Indices: 9960642--9960828 Score: 302
Period size: 95 Copynumber: 2.0 Consensus size: 95
9960632 GCCATCTCAA
* *
9960642 TATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAACCCGGGGCGTTTAACCAATTT
1 TATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAACCCGAGGCGTTTAACCAATTG
9960707 CTCTAGAGGGACAACTCAAGCTTTATTATG
66 CTCTAGAGGGACAACTCAAGCTTTATTATG
** *
9960737 TATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCGAGGTGTTTAACCAATTG
1 TATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAACCCGAGGCGTTTAACCAATTG
* * *
9960802 CTTTAGAGGGGCAGCTCAAGCTTTATT
66 CTCTAGAGGGACAACTCAAGCTTTATT
9960829 GTATATATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (95 bp):
TATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAACCCGAGGCGTTTAACCAATTG
CTCTAGAGGGACAACTCAAGCTTTATTATG
Found at i:9964804 original size:20 final size:20
Alignment explanation
Indices: 9964767--9964852 Score: 52
Period size: 20 Copynumber: 4.2 Consensus size: 20
9964757 AATATCGAAT
* *
9964767 AAAAATTAATTGAATAAA-A
1 AAAAAATAAATGAATAAATA
*
9964786 AGAAAAATAAATGAGTAAATA
1 A-AAAAATAAATGAATAAATA
*
9964807 AAAAAATCAAA-GAAGAAA-A
1 AAAAAAT-AAATGAATAAATA
* * *
9964826 AAATAAAAAAATGTTATATATA
1 AAA-AAATAAATG-AATAAATA
9964848 AAAAA
1 AAAAA
9964853 GTTTAAAAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
19 8 0.16
20 29 0.57
21 10 0.20
22 4 0.08
ACGTcount: A:0.71, C:0.01, G:0.08, T:0.20
Consensus pattern (20 bp):
AAAAAATAAATGAATAAATA
Found at i:9970161 original size:2 final size:2
Alignment explanation
Indices: 9970154--9970192 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9970144 TTTTATCCTA
9970154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9970193 CTATTAACGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9971535 original size:36 final size:35
Alignment explanation
Indices: 9971495--9971593 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
9971485 GATTGATTTT
* *
9971495 CTTCACTACTCTTATATGAAGGCTTTG-ATCGCTTTG
1 CTTCACTACTCTTTTATGAAGGC--TGAATCGCATTG
* * **
9971531 CTTCATTACTCTTTTGTGAAGGCTGAATTTCATTG
1 CTTCACTACTCTTTTATGAAGGCTGAATCGCATTG
*
9971566 CTTCACTACTCTTTTATGAAGACTGAAT
1 CTTCACTACTCTTTTATGAAGGCTGAAT
9971594 TTCTTTACTA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
34 2 0.04
35 31 0.58
36 20 0.38
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.42
Consensus pattern (35 bp):
CTTCACTACTCTTTTATGAAGGCTGAATCGCATTG
Found at i:9971576 original size:35 final size:35
Alignment explanation
Indices: 9971528--9971654 Score: 129
Period size: 35 Copynumber: 3.8 Consensus size: 35
9971518 TTTGATCGCT
*
9971528 TTGCTTCATTACTCTTTTGTGAAGGCTGAATTTCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGAATTTCA
* *
9971563 TTGCTTCACTACTCTTTTATGAAGACTGAATTTC-
1 TTGCTTCACTACTCTTTTGTGAAGGCTGAATTTCA
** * * * * *
9971597 -T--TT-ACTACTCTACTGTAAATGTTGGATTACA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGAATTTCA
9971628 TTGCTTCACTACTCTTTTGTGAAGGCT
1 TTGCTTCACTACTCTTTTGTGAAGGCT
9971655 AGATAAGAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
30 18 0.26
31 2 0.03
32 1 0.01
33 1 0.01
34 2 0.03
35 46 0.66
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (35 bp):
TTGCTTCACTACTCTTTTGTGAAGGCTGAATTTCA
Found at i:9979689 original size:16 final size:17
Alignment explanation
Indices: 9979660--9979698 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9979650 GTTCATATTT
* *
9979660 TTTTTAGTTAGCTTTAC
1 TTTTTACTTAGCTTTAA
9979677 TTTTTACTT-GCTTTAA
1 TTTTTACTTAGCTTTAA
9979693 TTTTTA
1 TTTTTA
9979699 TTCATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (17 bp):
TTTTTACTTAGCTTTAA
Found at i:9985706 original size:168 final size:168
Alignment explanation
Indices: 9985422--9985753 Score: 558
Period size: 168 Copynumber: 2.0 Consensus size: 168
9985412 CTTTTGACCG
*
9985422 AATCTCCATTTTGTTTGTATCTTCTATTCCCTTTTTACTTTAACTTTCTTTCATCTTCTTCCTCC
1 AATCTCCATTTTGTTTGTATCTTCTATTCACTTTTTACTTTAACTTTCTTTCATCTTCTTCCTCC
* *
9985487 CTTCCTTTTGACCGAACCTCCATAGCCGGCCAAACCAAGTTTTTCTTCTTAGTTCATTTATGTGT
66 ATTCCTTTTGACCGAACCTCCATAGCCGGCCAAACCAAGTTTTTATTCTTAGTTCATTTATGTGT
* *
9985552 TCTCATCATGGTACGATCACGTCCCCCTGCGCCACAAA
131 TCTCATCATGATACGATCACGTCCCACTGCGCCACAAA
*
9985590 AATCTTCATTTTGTTTGTATCTTC-ATTTCACTTTTTACTTTAACTTTCTTTCATCTTCTTCCTC
1 AATCTCCATTTTGTTTGTATCTTCTA-TTCACTTTTTACTTTAACTTTCTTTCATCTTCTTCCTC
* *
9985654 CATTCCTTTTGATCGAACCTCCATAGCCGGCCAAACTAAGTTTTTATTCTTAGTTCATTTATGTG
65 CATTCCTTTTGACCGAACCTCCATAGCCGGCCAAACCAAGTTTTTATTCTTAGTTCATTTATGTG
* *
9985719 TTCTCATCATGATATGATCACGTCCTACTGCGCCA
130 TTCTCATCATGATACGATCACGTCCCACTGCGCCA
9985754 TCTTCGCCAC
Statistics
Matches: 153, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 1 0.01
168 152 0.99
ACGTcount: A:0.19, C:0.28, G:0.10, T:0.43
Consensus pattern (168 bp):
AATCTCCATTTTGTTTGTATCTTCTATTCACTTTTTACTTTAACTTTCTTTCATCTTCTTCCTCC
ATTCCTTTTGACCGAACCTCCATAGCCGGCCAAACCAAGTTTTTATTCTTAGTTCATTTATGTGT
TCTCATCATGATACGATCACGTCCCACTGCGCCACAAA
Found at i:10008711 original size:17 final size:18
Alignment explanation
Indices: 10008684--10008718 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
10008674 AGCACACTTA
10008684 TAATAAACTCTAACAGCC
1 TAATAAACTCTAACAGCC
10008702 TAAT-AACTCTAACAGCC
1 TAATAAACTCTAACAGCC
10008719 AAACAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.23
Consensus pattern (18 bp):
TAATAAACTCTAACAGCC
Found at i:10011638 original size:20 final size:20
Alignment explanation
Indices: 10011610--10011647 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10011600 ACACGTTAAC
10011610 AATGCATATTCTAGAATGCA
1 AATGCATATTCTAGAATGCA
* *
10011630 AATGTATATTCTGGAATG
1 AATGCATATTCTAGAATG
10011648 TATATTCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
AATGCATATTCTAGAATGCA
Found at i:10011829 original size:35 final size:35
Alignment explanation
Indices: 10011773--10011886 Score: 149
Period size: 35 Copynumber: 3.3 Consensus size: 35
10011763 TAGTAAATCA
* * *
10011773 TCCGCTCTAGTTGAATCGAAAGTGTGATGCTTCCT
1 TCCGTTCTAATTGAATCGAAAGTGCGATGCTTCCT
10011808 TCCGTTCTAATTGAATCGAAAGTGCGATGCTTCCT
1 TCCGTTCTAATTGAATCGAAAGTGCGATGCTTCCT
* ** *
10011843 TTCGTTCTTCTTGAATCGAAAGTGCGATGCATCCCT
1 TCCGTTCTAATTGAATCGAAAGTGCGATGC-TTCCT
10011879 T-CGTTCTA
1 TCCGTTCTA
10011887 CTATAGACGA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
35 65 0.93
36 5 0.07
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (35 bp):
TCCGTTCTAATTGAATCGAAAGTGCGATGCTTCCT
Found at i:10012533 original size:13 final size:13
Alignment explanation
Indices: 10012515--10012541 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10012505 TCAAGGAACC
10012515 AGATTCAGATATG
1 AGATTCAGATATG
10012528 AGATTCAGATATG
1 AGATTCAGATATG
10012541 A
1 A
10012542 AATAGAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (13 bp):
AGATTCAGATATG
Found at i:10013371 original size:14 final size:14
Alignment explanation
Indices: 10013354--10013394 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
10013344 CTAGAATGCA
*
10013354 AATGTATATTCCGG
1 AATGTATATTCCAG
10013368 AATGTATATTCCAG
1 AATGTATATTCCAG
*
10013382 AATGCATATTCCA
1 AATGTATATTCCA
10013395 ATAAAGATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (14 bp):
AATGTATATTCCAG
Found at i:10015418 original size:54 final size:56
Alignment explanation
Indices: 10015344--10015448 Score: 178
Period size: 54 Copynumber: 1.9 Consensus size: 56
10015334 CATTTATGTA
*
10015344 TTGTTTAATCGTGTTGATTTCAGGAACTTTTCTATGTGATTGAATGATCCAAGTTC
1 TTGTTTAATCGTGTTGATTTCAGGAACTTTCCTATGTGATTGAATGATCCAAGTTC
*
10015400 TTGTTTTATCGT-TT-ATTTCAGGAACTTTCCTATGTGATTGAATGATCCA
1 TTGTTTAATCGTGTTGATTTCAGGAACTTTCCTATGTGATTGAATGATCCA
10015449 GGAGGAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
54 34 0.72
55 2 0.04
56 11 0.23
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (56 bp):
TTGTTTAATCGTGTTGATTTCAGGAACTTTCCTATGTGATTGAATGATCCAAGTTC
Found at i:10021312 original size:41 final size:41
Alignment explanation
Indices: 10021267--10021350 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
10021257 CATCTTCGAG
**
10021267 ACTAACAAAATGTCAATGACTTCAATGGAGCCTATACTGTA
1 ACTAACAAAATGTCAATGACTTCAATAAAGCCTATACTGTA
10021308 ACTAACAAAATGTCAATGACTTCAATAAAGCCTATACTGTA
1 ACTAACAAAATGTCAATGACTTCAATAAAGCCTATACTGTA
10021349 AC
1 AC
10021351 CTACAAGCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (41 bp):
ACTAACAAAATGTCAATGACTTCAATAAAGCCTATACTGTA
Found at i:10021986 original size:14 final size:15
Alignment explanation
Indices: 10021967--10021995 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10021957 TCGCTCGGAT
10021967 TTAATTAAA-AAATA
1 TTAATTAAATAAATA
10021981 TTAATTAAATAAATA
1 TTAATTAAATAAATA
10021996 ATATTGACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTAAATAAATA
Found at i:10023090 original size:13 final size:13
Alignment explanation
Indices: 10023046--10023090 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
10023036 AAAAACACAG
10023046 AAAAAATAAA-TT
1 AAAAAATAAAGTT
**
10023058 AAAAAATTTAGTT
1 AAAAAATAAAGTT
10023071 AAAAAATAAAGTT
1 AAAAAATAAAGTT
*
10023084 AATAAAT
1 AAAAAAT
10023091 GACCTTGCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (13 bp):
AAAAAATAAAGTT
Found at i:10026640 original size:13 final size:13
Alignment explanation
Indices: 10026622--10026649 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10026612 ATGCTTAAAT
10026622 TATGTCAAAACTA
1 TATGTCAAAACTA
10026635 TATGTCAAAACTA
1 TATGTCAAAACTA
10026648 TA
1 TA
10026650 ATACATGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (13 bp):
TATGTCAAAACTA
Found at i:10037894 original size:28 final size:26
Alignment explanation
Indices: 10037853--10037912 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
10037843 TTATGATAAT
* *
10037853 TTTTTTGGGCTTTT-TAGGAATTTATGAG
1 TTTTTTGAGATTTTCTA-GAATTTA--AG
10037881 TTTTTTGAGATTTTCTAGAATTTAAG
1 TTTTTTGAGATTTTCTAGAATTTAAG
10037907 TTTTTT
1 TTTTTT
10037913 TTGGGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.28
28 19 0.66
29 2 0.07
ACGTcount: A:0.20, C:0.03, G:0.18, T:0.58
Consensus pattern (26 bp):
TTTTTTGAGATTTTCTAGAATTTAAG
Found at i:10038287 original size:11 final size:11
Alignment explanation
Indices: 10038271--10038308 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
10038261 GTTGTTTTTT
*
10038271 TTTAATTATTA
1 TTTAATTAATA
10038282 TTTAATTAATA
1 TTTAATTAATA
10038293 TTTAATTAAT-
1 TTTAATTAATA
10038303 TTTAAT
1 TTTAAT
10038309 CAACTAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 6 0.23
11 20 0.77
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTAATTAATA
Found at i:10044333 original size:151 final size:153
Alignment explanation
Indices: 10044119--10044428 Score: 507
Period size: 151 Copynumber: 2.0 Consensus size: 153
10044109 AAGACAAATT
*
10044119 TATAATTCAAATCTTAAAATTTTAAAATCCTTTTGAAGACAAAAATTTAAGATTTGAATTATAAA
1 TATAATTCAAATCTTAAAATTTTAAAATCCTTTTGAAGACAAAAATTTAAGAGTTGAATTATAAA
* * * * *
10044184 TTTGCCTTGTGATTTAAGTTGTGTTTGTAACTTTTGATTCATTAAATAAACTTTTAATATAATTT
66 TTTGCCTTGTGATTTAAATTGTGTATGCAACTTTTGATTCATTAAACAAAATTTTAATATAATTT
* * *
10044249 AATTTTTTAATATATAATTTATA
131 AATTATTTAAAATATAATTCATA
10044272 TATAATTCAAATCTT-AAATTTTAAAATCCTTTTGAAGA-AAAAATTTAAGAGTTGAATTATAAA
1 TATAATTCAAATCTTAAAATTTTAAAATCCTTTTGAAGACAAAAATTTAAGAGTTGAATTATAAA
* *
10044335 TTTGTCTTGTGATTTAAATTGTGTATGCAACTTTTGATTCGTTAAACAAAATTTTAATATAATTT
66 TTTGCCTTGTGATTTAAATTGTGTATGCAACTTTTGATTCATTAAACAAAATTTTAATATAATTT
10044400 AATTATTTAAAATATAATTCATA
131 AATTATTTAAAATATAATTCATA
10044423 TATAAT
1 TATAAT
10044429 AATTGAAAAA
Statistics
Matches: 146, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
151 108 0.74
152 23 0.16
153 15 0.10
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (153 bp):
TATAATTCAAATCTTAAAATTTTAAAATCCTTTTGAAGACAAAAATTTAAGAGTTGAATTATAAA
TTTGCCTTGTGATTTAAATTGTGTATGCAACTTTTGATTCATTAAACAAAATTTTAATATAATTT
AATTATTTAAAATATAATTCATA
Found at i:10045869 original size:2 final size:2
Alignment explanation
Indices: 10045862--10045913 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
10045852 ATTTATACGT
10045862 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10045904 TA TA TA TA TA
1 TA TA TA TA TA
10045914 GTATTCTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10050659 original size:11 final size:10
Alignment explanation
Indices: 10050643--10050681 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
10050633 AACAAAAAAG
10050643 AAAAGAAGCAA
1 AAAAGAA-CAA
*
10050654 AAAAGAAAAA
1 AAAAGAACAA
10050664 AACAAGAACAA
1 AA-AAGAACAA
10050675 AAAAGAA
1 AAAAGAA
10050682 AAGAAGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAGAACAA
Found at i:10050662 original size:21 final size:21
Alignment explanation
Indices: 10050638--10050686 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
10050628 TCAAGAACAA
10050638 AAAAGAA-AAGAAGCAAAAAAG
1 AAAAGAACAAGAA-CAAAAAAG
*
10050659 AAAAAAACAAGAACAAAAAAG
1 AAAAGAACAAGAACAAAAAAG
10050680 AAAAGAA
1 AAAAGAA
10050687 GCAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAAGAACAAGAACAAAAAAG
Found at i:10050670 original size:22 final size:22
Alignment explanation
Indices: 10050636--10050692 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
10050626 AATCAAGAAC
10050636 AAAAAAGAAAAGAAGCAAAAAAG
1 AAAAAAGAAAAGAA-CAAAAAAG
*
10050659 AAAAAA-ACAAGAACAAAAAAG
1 AAAAAAGAAAAGAACAAAAAAG
10050680 AAAAGAAGCAAAA
1 AAAA-AAG-AAAA
10050693 ATCAAAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 12 0.41
22 8 0.28
23 6 0.21
24 3 0.10
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAAAGAACAAAAAAG
Found at i:10050686 original size:15 final size:15
Alignment explanation
Indices: 10050630--10050681 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
10050620 AGATTCAATC
10050630 AAGAACAAAAAAGAA
1 AAGAACAAAAAAGAA
10050645 AAGAAGCAAAAAAGAA
1 AAGAA-CAAAAAAGAA
*
10050661 AAAAACAAGAACAA-AA
1 AAGAACAA-AA-AAGAA
10050677 AAGAA
1 AAGAA
10050682 AAGAAGCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 8 0.25
16 22 0.69
17 2 0.06
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAA
Found at i:10050699 original size:22 final size:22
Alignment explanation
Indices: 10050638--10050699 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
10050628 TCAAGAACAA
* *
10050638 AAAAGAAA-AGAAGCAAAAAAG
1 AAAAGAAACAAAAACAAAAAAG
*
10050659 AAAA-AAACAAGAACAAAAAAG
1 AAAAGAAACAAAAACAAAAAAG
*
10050680 AAAAGAAGCAAAAATCAAAA
1 AAAAGAAACAAAAA-CAAAA
10050700 GGAAAAGGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 3 0.09
21 18 0.55
22 7 0.21
23 5 0.15
ACGTcount: A:0.77, C:0.08, G:0.13, T:0.02
Consensus pattern (22 bp):
AAAAGAAACAAAAACAAAAAAG
Found at i:10050700 original size:21 final size:19
Alignment explanation
Indices: 10050636--10050693 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
10050626 AATCAAGAAC
10050636 AAAAAAGAAAAGAAGCAAA
1 AAAAAAGAAAAGAAGCAAA
* *
10050655 AAAGAAA-AAAACAAG-AAC
1 AAA-AAAGAAAAGAAGCAAA
10050673 AAAAAAGAAAAGAAGCAAA
1 AAAAAAGAAAAGAAGCAAA
10050692 AA
1 AA
10050694 TCAAAAGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 3 0.09
18 12 0.38
19 14 0.44
20 3 0.09
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAGAAGCAAA
Found at i:10050716 original size:37 final size:37
Alignment explanation
Indices: 10050629--10050699 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
10050619 AAGATTCAAT
*
10050629 CAAGAACAAAAAAGAAAAGAAGCAAAAAAGAAAAAAA
1 CAAGAACAAAAAAGAAAAGAAGCAAAAAACAAAAAAA
*
10050666 CAAGAACAAAAAAGAAAAGAAGCAAAAATCAAAA
1 CAAGAACAAAAAAGAAAAGAAGCAAAAAACAAAA
10050700 GGAAAAGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.76, C:0.10, G:0.13, T:0.01
Consensus pattern (37 bp):
CAAGAACAAAAAAGAAAAGAAGCAAAAAACAAAAAAA
Found at i:10052547 original size:37 final size:37
Alignment explanation
Indices: 10052478--10052548 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
10052468 GGAACTAAGA
* * *
10052478 TTTGTCTCTCTTGAGACAATTTTTCTTAAAACAAAAT
1 TTTGTCTCCCTTGAGACAATTTCTCATAAAACAAAAT
** *
10052515 TTTGTCTCCCTTGAGACCGTTTCTCATGAAACAA
1 TTTGTCTCCCTTGAGACAATTTCTCATAAAACAA
10052549 CAGATATCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (37 bp):
TTTGTCTCCCTTGAGACAATTTCTCATAAAACAAAAT
Found at i:10053365 original size:98 final size:98
Alignment explanation
Indices: 10053166--10053416 Score: 301
Period size: 98 Copynumber: 2.6 Consensus size: 98
10053156 ATCGTTCCAT
* * **
10053166 TCGAGACAACACTAGTTCAACTTCACAACGAAGGGACGGCTGGTTATCAAC-AA-ATTTTCAGAG
1 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCAGAG
* * *
10053229 TCAATTTCAACTTCACAACGAATGATATTAGAC
66 CCAATTTAAACTTCACAACGAAGGATATTAGAC
* * * * **
10053262 TCGAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCAGAG
1 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCAGAG
* *
10053327 CCAATTTAAACTTCACAGC-AGAGGATATTGGAC
66 CCAATTTAAACTTCACAACGA-AGGATATTAGAC
* * * *
10053360 TCGAGACAACAAAAGTTTAAATTCACAACGAAGGGATGGCTGGTTGTCAACAAACAA
1 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA
10053417 TTTCCAAGTT
Statistics
Matches: 127, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
96 43 0.34
97 3 0.02
98 81 0.64
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (98 bp):
TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCAGAG
CCAATTTAAACTTCACAACGAAGGATATTAGAC
Found at i:10055687 original size:2 final size:2
Alignment explanation
Indices: 10055682--10055760 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
10055672 TTTATTATTT
10055682 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10055724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10055761 TTTCTATCTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10058043 original size:14 final size:14
Alignment explanation
Indices: 10058024--10058053 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10058014 TGTGCGTACC
*
10058024 CAATCCTTCCACCT
1 CAATCCCTCCACCT
10058038 CAATCCCTCCACCT
1 CAATCCCTCCACCT
10058052 CA
1 CA
10058054 CATCTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.53, G:0.00, T:0.23
Consensus pattern (14 bp):
CAATCCCTCCACCT
Found at i:10059917 original size:64 final size:63
Alignment explanation
Indices: 10059771--10059929 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
10059761 GAATTAAATT
*
10059771 GAACATCGAATGCATTCCATGCATCGATGCA-CACCATGCACCAATGCACTGAGGATTTTATAA
1 GAACATCGAATGCATT-GATGCATCGATGCACCACCATGCACCAATGCACTGAGGATTTTATAA
* * *
10059834 GAACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCG-GGCTATTT-T
1 GAACATCGAATGCA-TTGATGCATCGATGCACCA-CCATGCACCAATGCACT-GAGGAT-TTTAT
10059897 AA
62 AA
*
10059899 -AACATCGAATGTACTTGATGCATCGATGCAC
1 GAACATCGAATGCA-TTGATGCATCGATGCAC
10059930 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 27 0.32
64 33 0.39
65 21 0.25
66 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (63 bp):
GAACATCGAATGCATTGATGCATCGATGCACCACCATGCACCAATGCACTGAGGATTTTATAA
Found at i:10059945 original size:64 final size:61
Alignment explanation
Indices: 10059771--10059949 Score: 168
Period size: 64 Copynumber: 2.8 Consensus size: 61
10059761 GAATTAAATT
* *
10059771 GAACATCGAATGCATTCCATGCATCGATGCACACCA-TGCACCAATGCACTGAGGATTTTATAA
1 GAACATCGAATGCATT-GATGCATCGATG--CACCAGTGCACCGATGCACTGAGGATTTTATAA
* *
10059834 GAACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCG-GGCTATTT-T
1 GAACATCGAATGCA-TTGATGCATCGATGCACCAG---TGCACCGATGCACT-GAGGAT-TTTAT
10059897 AA
60 AA
*
10059899 -AACATCGAATGTACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 GAACATCGAATGCA-TTGATGCATCGATGCAC-C--AGTGCACCGATGCACT
10059950 AAGGTTCCAA
Statistics
Matches: 99, Mismatches: 7, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
61 5 0.05
63 25 0.25
64 44 0.44
65 19 0.19
66 4 0.04
67 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (61 bp):
GAACATCGAATGCATTGATGCATCGATGCACCAGTGCACCGATGCACTGAGGATTTTATAA
Found at i:10067645 original size:19 final size:19
Alignment explanation
Indices: 10067621--10067658 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10067611 AAAGGGGGAG
*
10067621 AAATGTTAAGTGTTGAAAT
1 AAATGTTAAGTGCTGAAAT
10067640 AAATGTTAAGTGCTGAAAT
1 AAATGTTAAGTGCTGAAAT
10067659 GTTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (19 bp):
AAATGTTAAGTGCTGAAAT
Found at i:10068067 original size:19 final size:20
Alignment explanation
Indices: 10068032--10068077 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
10068022 GTGATGAACA
*
10068032 GATGCACCAATCCATGCATC
1 GATGCACCAAGCCATGCATC
10068052 GATGCACC-AGCCATGCATC
1 GATGCACCAAGCCATGCATC
10068071 GATGCAC
1 GATGCAC
10068078 TGAGGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.28, C:0.35, G:0.20, T:0.17
Consensus pattern (20 bp):
GATGCACCAAGCCATGCATC
Found at i:10068131 original size:65 final size:64
Alignment explanation
Indices: 10068045--10068187 Score: 218
Period size: 65 Copynumber: 2.2 Consensus size: 64
10068035 GCACCAATCC
*
10068045 ATGCATCGATGCACCAGCCATGCATCGATGCACT-GAGGAT-TTTATAAGAACATCGAATCCATT
1 ATGCATCGATGCACCAGCCATGCATCGATGCACTCG-GGATATTT-TAA-AACATCGAATCCACT
10068108 TG
63 TG
* *
10068110 ATGCATCGATGCACCAGCCATGCATCGATGCACTCGGGCTATTTTAAAACATCGAATGCACTTG
1 ATGCATCGATGCACCAGCCATGCATCGATGCACTCGGGATATTTTAAAACATCGAATCCACTTG
10068174 ATGCATCGATGCAC
1 ATGCATCGATGCAC
10068188 TCTTAGTGCA
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
64 29 0.40
65 40 0.55
66 4 0.05
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (64 bp):
ATGCATCGATGCACCAGCCATGCATCGATGCACTCGGGATATTTTAAAACATCGAATCCACTTG
Found at i:10068187 original size:17 final size:19
Alignment explanation
Indices: 10068159--10068207 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
10068149 TATTTTAAAA
10068159 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
10068177 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
10068196 CACCGATGCACT
1 CATCGATGCACT
10068208 AAAGTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:10073635 original size:91 final size:91
Alignment explanation
Indices: 10073480--10073731 Score: 468
Period size: 91 Copynumber: 2.8 Consensus size: 91
10073470 AAGCATTGGA
*
10073480 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATCGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAAC
10073545 TCTTCATTGAAAATACTGATGCAAGG
66 TCTTCATTGAAAATACTGATGCAAGG
*
10073571 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAAC
*
10073636 TCTTCATTGGAAATACTGATGCAAGG
66 TCTTCATTGAAAATACTGATGCAAGG
*
10073662 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAAC
10073727 TCTTC
66 TCTTC
10073732 TGGAAATATT
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 156 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (91 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAAC
TCTTCATTGAAAATACTGATGCAAGG
Found at i:10074017 original size:136 final size:135
Alignment explanation
Indices: 10073773--10074166 Score: 535
Period size: 136 Copynumber: 2.9 Consensus size: 135
10073763 AATTTGAAAG
* *
10073773 GAACAAGTTCTTCTCATTATGAAC--TTTCT-CCT-TTAGGACGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTTAGGATGAGTTCTTCTCATTATGAACTC
* * * * *
10073834 TCCATTAGAAATGTTAATTCCTCAAGCGATGCGTCACTGATTCGAAATGCCGTGAATCGAGTGAT
66 TCAATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGAT
10073899 AGGTC
131 AGGTC
*
10073904 GAACAAGCTCTTCTCATTATGAACTTTTTATCCCTCTGTAGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCT-TAGGATGAGTTCTTCTCATTATGAACT
* * * * *
10073969 CTCAATTAAAAATGGCAATCCCTCAGGCGAGGCGTCACTGATTTGAAATGTCGTGAATCAAGTGA
65 CTCAATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGA
*
10074034 TATGTC
130 TAGGTC
* *
10074040 AAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCT-TAGGATGAGTTCTTCTCATTATGAACT
* * * ** * *
10074105 CTTAATTGGAAATGTCAACCCCTCAAGCGAGAAGTCATTGATTCAAAATGTCGTGAATCGAG
65 CTCAATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCGAG
10074167 CAACGAAAAT
Statistics
Matches: 228, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
131 23 0.10
133 4 0.02
134 3 0.01
135 1 0.00
136 197 0.86
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTTAGGATGAGTTCTTCTCATTATGAACTC
TCAATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGAT
AGGTC
Found at i:10074319 original size:83 final size:83
Alignment explanation
Indices: 10074180--10074430 Score: 385
Period size: 90 Copynumber: 2.9 Consensus size: 83
10074170 CGAAAATGTC
* * *
10074180 GAAAACATCCAGCACTGAAGGTCTTATAGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGA
1 GAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGA
10074245 AGGCTTAGTTTCTCATTT
66 AGGCTTAGTTTCTCATTT
* *
10074263 GAAAATATCCTGCACTGAAGGTCTTATGGATGGCCCGAAAGACTTACAAATCAAGAAACCCCCGA
1 GAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGA
10074328 AGGCTTAGTTTCTAAAATCTCATTT
66 AGGCTTAG--T-T----TCTCATTT
*
10074353 GAAAACATCTTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGA
1 GAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGA
10074418 AGGCTTAGTTTCT
66 AGGCTTAGTTTCT
10074431 AGAAACACTT
Statistics
Matches: 153, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
83 71 0.46
85 1 0.01
86 1 0.01
87 1 0.01
88 1 0.01
90 78 0.51
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (83 bp):
GAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGA
AGGCTTAGTTTCTCATTT
Found at i:10074444 original size:90 final size:90
Alignment explanation
Indices: 10074258--10074453 Score: 313
Period size: 90 Copynumber: 2.2 Consensus size: 90
10074248 CTTAGTTTCT
*
10074258 CATTTGAAAATATCCTGCACTGAAGGTCTTATGGATGGCCCGAAAGACTTACAAATCAAGAAACC
1 CATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAAGACTTACAAATCAAGAAACC
*
10074323 CCCGAAGGCTTAGTTTCTAAAATCT
66 CCCGAAGGCTTAGTTTCTAAAATCA
* *
10074348 CATTTGAAAACATCTTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACC
1 CATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAAGACTTACAAATCAAGAAACC
10074413 CCCGAAGGCTTAGTTTCTAGAAA-CA
66 CCCGAAGGCTTAGTTTCTA-AAATCA
* *
10074438 CTTTTGAGAAAAATCC
1 CATTTGA-AAACATCC
10074454 CTAAAAATTA
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
90 88 0.91
91 9 0.09
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (90 bp):
CATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAAGACTTACAAATCAAGAAACC
CCCGAAGGCTTAGTTTCTAAAATCA
Found at i:10076377 original size:2 final size:2
Alignment explanation
Indices: 10076366--10076418 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
10076356 TTGTATACAC
10076366 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10076407 AT AT AT AT AT AT
1 AT AT AT AT AT AT
10076419 GTTGGTATAC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:10082126 original size:15 final size:15
Alignment explanation
Indices: 10082102--10082140 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
10082092 TGTTGTGTTG
*
10082102 TGGAGATGGCTATAA
1 TGGAGGTGGCTATAA
10082117 TGGAGGTGGCTATAA
1 TGGAGGTGGCTATAA
10082132 TGGAGGTGG
1 TGGAGGTGG
10082141 ACTTGTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.05, G:0.44, T:0.26
Consensus pattern (15 bp):
TGGAGGTGGCTATAA
Found at i:10082259 original size:45 final size:45
Alignment explanation
Indices: 10082210--10082351 Score: 126
Period size: 45 Copynumber: 3.2 Consensus size: 45
10082200 TTCTTTATGA
* *
10082210 AGATGGATGTAATAGAGGTGGACTTGTAGAAGTAGTGATATGTGG
1 AGATGAATGTAATAGAGGTGGATTTGTAGAAGTAGTGATATGTGG
* * * ** * * * * *
10082255 AGATGAAAG-AGATGGAGATCAATTTGTGGAAGT-TTTATTTTGTGA
1 AGATGAATGTA-ATAGAGGTGGATTTGTAGAAGTAGTGA-TATGTGG
* *
10082300 AGATGAATGTAATTGAGGTGGTTTTGTAGAAGTAGTGATATGTGG
1 AGATGAATGTAATAGAGGTGGATTTGTAGAAGTAGTGATATGTGG
10082345 AGATGAA
1 AGATGAA
10082352 GGAGATGGAT
Statistics
Matches: 70, Mismatches: 23, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
44 3 0.04
45 64 0.91
46 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.34, T:0.32
Consensus pattern (45 bp):
AGATGAATGTAATAGAGGTGGATTTGTAGAAGTAGTGATATGTGG
Found at i:10082287 original size:90 final size:90
Alignment explanation
Indices: 10082129--10082360 Score: 313
Period size: 90 Copynumber: 2.6 Consensus size: 90
10082119 GAGGTGGCTA
* * * * * * *
10082129 TAATGGAGGTGGACTTGTGGAAGTAATGATATGTAGATATGGAAGAGATGGAGATGAACTTGTGG
1 TAATAGAGGTGGACTTGTAGAAGTAGTGATATGTGGAGATGAAAGAGATGGAGATCAACTTGTGG
*
10082194 AAGTGTTT-CTTTATGAAGATGGATG
66 AAGT-TTTACTTTATGAAGATGAATG
*
10082219 TAATAGAGGTGGACTTGTAGAAGTAGTGATATGTGGAGATGAAAGAGATGGAGATCAATTTGTGG
1 TAATAGAGGTGGACTTGTAGAAGTAGTGATATGTGGAGATGAAAGAGATGGAGATCAACTTGTGG
* *
10082284 AAGTTTTATTTTGTGAAGATGAATG
66 AAGTTTTACTTTATGAAGATGAATG
* ** *
10082309 TAATTGAGGTGGTTTTGTAGAAGTAGTGATATGTGGAGATGAAGGAGATGGA
1 TAATAGAGGTGGACTTGTAGAAGTAGTGATATGTGGAGATGAAAGAGATGGA
10082361 TGTAATAGAG
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
89 3 0.02
90 123 0.98
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.31
Consensus pattern (90 bp):
TAATAGAGGTGGACTTGTAGAAGTAGTGATATGTGGAGATGAAAGAGATGGAGATCAACTTGTGG
AAGTTTTACTTTATGAAGATGAATG
Found at i:10087365 original size:39 final size:39
Alignment explanation
Indices: 10087306--10087396 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
10087296 CTATGACTTA
* * * * *
10087306 TAAGACCTTACCACATGCTCCTATTCTTTGTTTACAGGG
1 TAAGTCCTTACCGCAAGCTCCTATACTTTGTGTACAGGG
* *
10087345 TAAGTCCTTACCGCAAGCTCCTCTACTTTGTGTATAGGG
1 TAAGTCCTTACCGCAAGCTCCTATACTTTGTGTACAGGG
10087384 TAAGTCCTTACCG
1 TAAGTCCTTACCG
10087397 TAGGATCATA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (39 bp):
TAAGTCCTTACCGCAAGCTCCTATACTTTGTGTACAGGG
Found at i:10088792 original size:41 final size:41
Alignment explanation
Indices: 10088731--10088853 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
10088721 ATCGGGGAAA
**
10088731 TTCAGTGGATTCACTATTCGGGATGAATTTCACTTCAGATT
1 TTCAGTGGATTCACCCTTCGGGATGAATTTCACTTCAGATT
* * *
10088772 TTGAGTGGATTCACCCTTCGGGATGAATTTTACTTCGGATT
1 TTCAGTGGATTCACCCTTCGGGATGAATTTCACTTCAGATT
* * *
10088813 TTCAGCGGATTCACCCTTCAGGATGAATTTCACTTCCGATT
1 TTCAGTGGATTCACCCTTCGGGATGAATTTCACTTCAGATT
10088854 ATCAATGACT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (41 bp):
TTCAGTGGATTCACCCTTCGGGATGAATTTCACTTCAGATT
Found at i:10095708 original size:24 final size:24
Alignment explanation
Indices: 10095668--10095747 Score: 60
Period size: 24 Copynumber: 3.4 Consensus size: 24
10095658 TTTATAATTT
*
10095668 TTAAA-ATAAAAAGTATTTAAAACA
1 TTAAATATAAATA-TATTTAAAACA
10095692 TTAAATATAAATATA-TTAAAA-A
1 TTAAATATAAATATATTTAAAACA
* * **
10095714 ATAAAAATTAAAT-TACTCAAAAACA
1 TTAAATA-TAAATATA-TTTAAAACA
10095739 TTAAATATA
1 TTAAATATA
10095748 TTTACTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
22 8 0.18
23 11 0.25
24 13 0.30
25 12 0.27
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.31
Consensus pattern (24 bp):
TTAAATATAAATATATTTAAAACA
Found at i:10095744 original size:23 final size:22
Alignment explanation
Indices: 10095686--10095765 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 22
10095676 AAAAGTATTT
*
10095686 AAAACATTAAATATAAATATATTA
1 AAAACATTAAAT-TAAAT-TACTA
*
10095710 AAAA-ATAAAAATTAAATTACTCA
1 AAAACAT-TAAATTAAATTACT-A
*
10095733 AAAACATTAAA-TATATTTACTA
1 AAAACATTAAATTA-AATTACTA
*
10095755 AAAATATTAAA
1 AAAACATTAAA
10095766 CATACTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
22 16 0.34
23 21 0.45
24 10 0.21
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAACATTAAATTAAATTACTA
Found at i:10095779 original size:22 final size:19
Alignment explanation
Indices: 10095754--10095794 Score: 55
Period size: 22 Copynumber: 2.0 Consensus size: 19
10095744 TATATTTACT
10095754 AAAAATATTAAACATACTATTA
1 AAAAAT-TTAAA-ATA-TATTA
10095776 AAAAATTTAAAATATATTA
1 AAAAATTTAAAATATATTA
10095795 TACTCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 3 0.16
21 5 0.26
22 6 0.32
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTTAAAATATATTA
Found at i:10100215 original size:21 final size:20
Alignment explanation
Indices: 10100129--10100286 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
10100119 AAATGACCAA
**
10100129 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
10100148 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
10100168 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
10100188 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
10100209 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
10100230 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
10100250 ACAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
10100271 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
10100287 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:10100277 original size:20 final size:20
Alignment explanation
Indices: 10100253--10100523 Score: 292
Period size: 20 Copynumber: 13.5 Consensus size: 20
10100243 CGATTTTACA
* ** *
10100253 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
10100273 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
10100293 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
10100313 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
10100333 TAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
10100353 AAATCGCAACGATAATACAT
1 AAATCGCAACGAGAATCCGT
* *
10100373 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGAGAATCCGT
*
10100394 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
10100414 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
10100434 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
10100454 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
10100474 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
10100494 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
10100514 AAATCACAAC
1 AAATCGCAAC
10100524 ACTGAAATTT
Statistics
Matches: 214, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
20 198 0.93
21 16 0.07
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:10100384 original size:101 final size:101
Alignment explanation
Indices: 10100272--10100523 Score: 282
Period size: 101 Copynumber: 2.5 Consensus size: 101
10100262 CGCGAATATG
* * * *
10100272 AAAATCGCAACGCG-AACACATAAATCGCAACGCGT-ATCCGTAAATCGCAACGTGTATCCGTTA
1 AAAATCGCAACGCGTAAC-CATAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCCGTAA
*
10100335 ATCGCAACGCGT-ATCCGTAAATCGCAACGATAATACAT
64 ATCGCAACG-ATAATCCGTAAATCGCAACGATAATACAT
* * *
10100373 AAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAAT
1 AAAATCGCAACGCGTAACCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAAT
*
10100438 CGCAACGATAATCCGTAAATCGCAACGAGAAT-C-T
66 CGCAACGATAATCCGTAAATCGCAACGATAATACAT
* * * * * *
10100472 GTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
1 -AAAATCGCAACGCGTAA-CCATAAATCGCAACGATAATCCGTAAATCGCAAC
10100524 ACTGAAATTT
Statistics
Matches: 131, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
99 3 0.02
100 45 0.34
101 81 0.62
102 2 0.02
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (101 bp):
AAAATCGCAACGCGTAACCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAAT
CGCAACGATAATCCGTAAATCGCAACGATAATACAT
Found at i:10101245 original size:24 final size:24
Alignment explanation
Indices: 10101206--10101252 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10101196 AAATTTGGTC
10101206 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
10101230 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
10101253 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:10103769 original size:33 final size:34
Alignment explanation
Indices: 10103732--10103882 Score: 143
Period size: 33 Copynumber: 4.4 Consensus size: 34
10103722 CGGAAATTAC
10103732 AATCGCAA-CGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAAGCGAGAGAATCGCAATGCGAAATGAA
* * *
10103765 AATCGCAATGCG-GA-AAT-GAAAAT-CGCAACGAGA
1 AATCGCAA-GCGAGAGAATCG-CAATGCGAAATGA-A
*
10103798 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAA-GCG--A-GAGAATCGCAATGCGAAATGAA
10103837 AATCGCAA-CGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAAGCGAGAGAATCGCAATGCGAAATGAA
10103870 AATCGCAATGCGA
1 AATCGCAA-GCGA
10103883 AATGAAAATC
Statistics
Matches: 97, Mismatches: 7, Indels: 26
0.75 0.05 0.20
Matches are distributed among these distances:
32 7 0.07
33 44 0.45
34 15 0.15
35 5 0.05
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (34 bp):
AATCGCAAGCGAGAGAATCGCAATGCGAAATGAA
Found at i:10103770 original size:19 final size:19
Alignment explanation
Indices: 10103746--10103934 Score: 219
Period size: 19 Copynumber: 10.7 Consensus size: 19
10103736 GCAACGAGAG
10103746 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10103765 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
10103785 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
10103799 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10103818 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
10103837 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
10103851 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10103870 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
10103889 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
10103903 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
10103922 AATCGCATTGCGA
1 AATCGCAATGCGA
10103935 TTCTCCCGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 32
0.78 0.04 0.17
Matches are distributed among these distances:
14 30 0.21
15 3 0.02
16 6 0.04
17 5 0.03
18 4 0.03
19 82 0.56
20 16 0.11
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:10103855 original size:52 final size:52
Alignment explanation
Indices: 10103732--10103934 Score: 379
Period size: 52 Copynumber: 3.9 Consensus size: 52
10103722 CGGAAATTAC
10103732 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAA
10103785 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
10103837 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
10103889 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
10103935 TTCTCCCGTT
Statistics
Matches: 148, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 104 0.70
53 44 0.30
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:10103907 original size:33 final size:33
Alignment explanation
Indices: 10103765--10103928 Score: 163
Period size: 33 Copynumber: 4.8 Consensus size: 33
10103755 GCGAAATGAA
10103765 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
* *
10103799 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
10103831 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
10103870 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
10103903 AATCGCAATGCGAAATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
10103929 TTGCGATTCT
Statistics
Matches: 107, Mismatches: 12, Indels: 23
0.75 0.08 0.16
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 54 0.50
34 12 0.11
35 1 0.01
36 2 0.02
38 10 0.09
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:10103983 original size:19 final size:19
Alignment explanation
Indices: 10103943--10104040 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
10103933 GATTCTCCCG
10103943 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
10103963 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
10103982 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
10103996 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
10104015 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
10104034 TTGCGAT
1 TTGCGAT
10104041 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:10104037 original size:52 final size:53
Alignment explanation
Indices: 10103924--10104040 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
10103914 GAAATTAAAA
10103924 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
10103977 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
10104029 TCGCATTGCGAT
1 TCGCATTGCGAT
10104041 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:10104166 original size:14 final size:14
Alignment explanation
Indices: 10104147--10104183 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10104137 CATCAATTAC
10104147 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
10104161 ACAAATCATCTTTT
1 ACAAATCAACTTTT
10104175 ACAAATCAA
1 ACAAATCAA
10104184 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:10105355 original size:14 final size:14
Alignment explanation
Indices: 10105336--10105425 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
10105326 TTGAAATGAA
10105336 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
10105350 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
10105369 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
10105383 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
10105402 AATCGCAACGAGAG
1 AATCGCAACGAGAG
10105416 AATCGCAACG
1 AATCGCAACG
10105426 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:10105368 original size:33 final size:33
Alignment explanation
Indices: 10105328--10105442 Score: 230
Period size: 33 Copynumber: 3.5 Consensus size: 33
10105318 TCTTTTGGTT
10105328 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
10105361 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
10105394 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
10105427 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
10105443 TGCGATTTTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:10105374 original size:19 final size:19
Alignment explanation
Indices: 10105350--10105447 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
10105340 GCAACGAGAG
10105350 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
10105369 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
10105383 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
10105402 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
10105416 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
10105435 AATCGCAATGCGA
1 AATCGCAACGCGA
10105448 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:10105478 original size:14 final size:14
Alignment explanation
Indices: 10105459--10105515 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
10105449 TTTGGTTTCG
10105459 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
10105473 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
10105492 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
10105506 CGTTGCGATT
1 CGTTGCGATT
10105516 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:10105491 original size:33 final size:33
Alignment explanation
Indices: 10105443--10105523 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
10105433 AAAATCGCAA
**
10105443 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
10105476 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
10105509 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
10105524 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:10105526 original size:21 final size:21
Alignment explanation
Indices: 10105500--10105575 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
10105490 CGCGTTGCGA
10105500 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
10105521 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
10105541 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
10105562 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
10105576 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:10105556 original size:41 final size:41
Alignment explanation
Indices: 10105499--10105576 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
10105489 TCGCGTTGCG
*
10105499 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
10105540 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
10105577 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:10105697 original size:33 final size:33
Alignment explanation
Indices: 10105655--10105725 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
10105645 AATACTAACT
*
10105655 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
10105688 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
10105721 TGAAA
1 TGAAA
10105726 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:10105959 original size:22 final size:22
Alignment explanation
Indices: 10105907--10105961 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
10105897 TGGTTGTGAG
** **
10105907 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATAAGGAC
**
10105929 GGAAATCTTCGGAGATAAGGAC
1 GGATTTCTTCGGAGATAAGGAC
10105951 GGATTTCTTCG
1 GGATTTCTTCG
10105962 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATAAGGAC
Found at i:10106133 original size:20 final size:20
Alignment explanation
Indices: 10106108--10106261 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
10106098 CTTTAAATAT
10106108 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
10106128 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
10106150 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
10106169 CGCGTTGCGATTAACGGATA
1 CGCGTTGCGATTTACGGATA
*
10106189 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
10106209 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
10106229 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
10106249 CGCGTTGCGATTT
1 CGCGTTGCGATTT
10106262 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:10106235 original size:40 final size:40
Alignment explanation
Indices: 10106107--10106261 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
10106097 GCTTTAAATA
*
10106107 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
10106148 TATCGTTGCGATTTACGGATACGCGTTGCGATTAACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
10106188 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
10106228 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
10106262 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:10106278 original size:21 final size:21
Alignment explanation
Indices: 10106248--10106330 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
10106238 ATTTTCATAT
*
10106248 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
10106269 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
10106290 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
10106311 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
10106331 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:10106321 original size:42 final size:43
Alignment explanation
Indices: 10106228--10106326 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
10106218 ATTTATGTGT
* *
10106228 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
10106269 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
10106311 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
10106327 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:10112064 original size:22 final size:21
Alignment explanation
Indices: 10112030--10112080 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
10112020 TTTTGTTTTG
*
10112030 ATTATATTAAAAAATGAAATT
1 ATTATATTAAAAAATAAAATT
* *
10112051 ATTATTATTTAAAAATAAAATC
1 ATTA-TATTAAAAAATAAAATT
*
10112073 AGTATATT
1 ATTATATT
10112081 TGGTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTATATTAAAAAATAAAATT
Found at i:10112306 original size:18 final size:18
Alignment explanation
Indices: 10112283--10112342 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
10112273 ATGATTTATA
10112283 TTAATAATATACACTTTG
1 TTAATAATATACACTTTG
* * *** *
10112301 TTAATATTTTATTTTTTA
1 TTAATAATATACACTTTG
10112319 TTAATAATATACACTTTG
1 TTAATAATATACACTTTG
10112337 TTAATA
1 TTAATA
10112343 TTTTATTTTG
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (18 bp):
TTAATAATATACACTTTG
Found at i:10112326 original size:36 final size:36
Alignment explanation
Indices: 10112281--10112351 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
10112271 TTATGATTTA
10112281 TATTAATAATATACACTTTGTTAATATTTTATTTTT
1 TATTAATAATATACACTTTGTTAATATTTTATTTTT
10112317 TATTAATAATATACACTTTGTTAATATTTTATTTT
1 TATTAATAATATACACTTTGTTAATATTTTATTTT
10112352 GCAAAGTACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.58
Consensus pattern (36 bp):
TATTAATAATATACACTTTGTTAATATTTTATTTTT
Found at i:10114795 original size:16 final size:16
Alignment explanation
Indices: 10114772--10114826 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
10114762 GGGTCTCCAA
10114772 CGTTTATGTCCGTGTT
1 CGTTTATGTCCGTGTT
* *
10114788 CATTTATGTCCGTGCT
1 CGTTTATGTCCGTGTT
*
10114804 CGTTTATGTTCGTGTT
1 CGTTTATGTCCGTGTT
10114820 CGTTTAT
1 CGTTTAT
10114827 TTATTAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.09, C:0.18, G:0.22, T:0.51
Consensus pattern (16 bp):
CGTTTATGTCCGTGTT
Found at i:10124167 original size:11 final size:11
Alignment explanation
Indices: 10124151--10124175 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10124141 TACTCACAGC
10124151 ACACAACATAT
1 ACACAACATAT
10124162 ACACAACATAT
1 ACACAACATAT
10124173 ACA
1 ACA
10124176 GATTATTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (11 bp):
ACACAACATAT
Found at i:10136142 original size:19 final size:19
Alignment explanation
Indices: 10136118--10136161 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
10136108 TTTTTTAAAA
*
10136118 TTTTAAAGAA-ATTATAATT
1 TTTTAAA-AATATAATAATT
10136137 TTTTAAAAATATAATAATT
1 TTTTAAAAATATAATAATT
10136156 TTTTAA
1 TTTTAA
10136162 TTTTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTTAAAAATATAATAATT
Found at i:10138170 original size:16 final size:16
Alignment explanation
Indices: 10138149--10138192 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
10138139 TTTGAACTCC
10138149 TAAATAATTATATTTT
1 TAAATAATTATATTTT
10138165 TAAATAATTATATTTT
1 TAAATAATTATATTTT
10138181 TAAATAATTATA
1 TAAATAATTATA
10138193 CATATTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAATAATTATATTTT
Found at i:10139192 original size:27 final size:29
Alignment explanation
Indices: 10139126--10139197 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 29
10139116 AATTAATTTT
* *
10139126 AAATTAAAAATAATATAATTTTTAAAATTAT
1 AAATT-AAAATAATATAA-TTTTAAAATAAA
* *
10139157 TAATAAAAATAATATAA-TTT-AAATAAA
1 AAATTAAAATAATATAATTTTAAAATAAA
*
10139184 AAATTAAAACAATA
1 AAATTAAAATAATA
10139198 ATAAAAACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
27 16 0.47
28 3 0.09
30 12 0.35
31 3 0.09
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (29 bp):
AAATTAAAATAATATAATTTTAAAATAAA
Found at i:10139198 original size:30 final size:27
Alignment explanation
Indices: 10139126--10139200 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 27
10139116 AATTAATTTT
*
10139126 AAATT-AAAAATAATATAATTTTTAAA
1 AAATTAAAAAATAATATAATTTATAAA
*
10139152 ATTATTAATAAAAATAATATAATTTAAATAAA
1 A-AATT-A-AAAAATAATATAATTT--ATAAA
10139184 AAATTAAAACAATAATA
1 AAATTAAAA-AATAATA
10139201 AAAACTTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
26 1 0.03
27 3 0.08
29 3 0.08
30 24 0.62
31 3 0.08
32 5 0.13
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (27 bp):
AAATTAAAAAATAATATAATTTATAAA
Found at i:10140732 original size:21 final size:20
Alignment explanation
Indices: 10140698--10140739 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10140688 TTAGAGGTAA
*
10140698 TAGGGTTATGATTTAGAGTT
1 TAGGGTTATAATTTAGAGTT
*
10140718 TAGGGATTATAATTTAGGGTT
1 TAGGG-TTATAATTTAGAGTT
10140739 T
1 T
10140740 TAAGTTAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (20 bp):
TAGGGTTATAATTTAGAGTT
Found at i:10141367 original size:158 final size:158
Alignment explanation
Indices: 10141034--10141429 Score: 467
Period size: 158 Copynumber: 2.5 Consensus size: 158
10141024 AAACAGTAGA
*
10141034 AATTGAAGTTACATAGGTATTCTATTGTGGTATATGAGCATGTGGTTCAAATTTGATTAAAAAAA
1 AATTGAAGTTACATAGGTATTCTATTGTGGTATATGAGCATGTGGTTCAAATTTG-GT---AAAA
* *
10141099 AACAAACTTAAAATAAAGGATGAATTAAAGAAATGAAAAAAAGTATGAAAAATTGAGGGACTAAA
62 AACAAACTTAAAATAAAGGATGAATCAAAGAAATGAAAAAAAGTATGAAAAATTAAGGGACTAAA
* *
10141164 TTGAAAAATAAAAGTTTGTTATCAAAAAGAGG
127 TTGAAAAATAAAAGTTTGTTATAAAAAAGAAG
* * ***
10141196 AATTGAAGTTACATAGGTATTCTATTGTGGTGTACGAGCATGTGGTTCAAATTTGGTAAAAAGGG
1 AATTGAAGTTACATAGGTATTCTATTGTGGTATATGAGCATGTGGTTCAAATTTGGTAAAAAACA
* * ** * ** *
10141261 AACTTAAGATAAATGATGAATCGGATAAAT-AAGGAAATTATGAAAAATTAAGGGACTAAATTGA
66 AACTTAAAATAAAGGATGAATCAAAGAAATGAAAAAAAGTATGAAAAATTAAGGGACTAAATTGA
*
10141325 AAAATAAAAATTTTGTTATAAAAAAGAAG
131 AAAAT-AAAAGTTTGTTATAAAAAAGAAG
* * * *
10141354 AATTGAAAG-TACATATGTATTCTA-CGATGGTTTATGAGCATGTGGTT-ACATTTTGGTAAACA
1 AATTG-AAGTTACATAGGTATTCTATTG-TGGTATATGAGCATGTGGTTCA-AATTTGGTAAA-A
*
10141416 AATAAACTTAAAAT
62 AACAAACTTAAAAT
10141430 GGAGGAAGAA
Statistics
Matches: 201, Mismatches: 28, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
157 37 0.18
158 96 0.48
159 14 0.07
161 1 0.00
162 53 0.26
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (158 bp):
AATTGAAGTTACATAGGTATTCTATTGTGGTATATGAGCATGTGGTTCAAATTTGGTAAAAAACA
AACTTAAAATAAAGGATGAATCAAAGAAATGAAAAAAAGTATGAAAAATTAAGGGACTAAATTGA
AAAATAAAAGTTTGTTATAAAAAAGAAG
Found at i:10146832 original size:38 final size:38
Alignment explanation
Indices: 10146775--10146854 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
10146765 CATGGAACAT
*
10146775 ATAAATGGCATGACTGCATCAAAGAATTGGAAATTACGA
1 ATAAATAGCATGACTGCATCAAAGAATTGGAAA-TACGA
* *
10146814 ATAAATAGCA-GATTGCATCAAAGAATTGGAAATATGA
1 ATAAATAGCATGACTGCATCAAAGAATTGGAAATACGA
10146851 ATAA
1 ATAA
10146855 CACAAAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 8 0.21
38 21 0.55
39 9 0.24
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.24
Consensus pattern (38 bp):
ATAAATAGCATGACTGCATCAAAGAATTGGAAATACGA
Found at i:10149212 original size:14 final size:14
Alignment explanation
Indices: 10149193--10149219 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10149183 TGGAGAAGGT
10149193 GGCACACTTTTGTA
1 GGCACACTTTTGTA
10149207 GGCACACTTTTGT
1 GGCACACTTTTGT
10149220 TCTAAAGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (14 bp):
GGCACACTTTTGTA
Found at i:10149869 original size:12 final size:14
Alignment explanation
Indices: 10149838--10149871 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
10149828 CTCCTCAATT
10149838 CTCTCTCCTTCTTC
1 CTCTCTCCTTCTTC
10149852 CTCTCTCCTTCTTC
1 CTCTCTCCTTCTTC
10149866 CTCTCT
1 CTCTCT
10149872 AAGTTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (14 bp):
CTCTCTCCTTCTTC
Found at i:10151599 original size:32 final size:32
Alignment explanation
Indices: 10151555--10151679 Score: 173
Period size: 32 Copynumber: 3.9 Consensus size: 32
10151545 ACCATATACT
* *
10151555 AGTCAAGT-TTGCATTCAAATAATGCACTGCAG
1 AGTC-AGTGTTGCATTCAGATAATGCACAGCAG
*
10151587 AGTCAGTGTTGCATTCAGATAATGCACAACAG
1 AGTCAGTGTTGCATTCAGATAATGCACAGCAG
*
10151619 AGTCAGTGTTGCATTTAGATAATGCACAGC-G
1 AGTCAGTGTTGCATTCAGATAATGCACAGCAG
*
10151650 AAGTCAATGTTGCATTCAGATAATGCACAG
1 -AGTCAGTGTTGCATTCAGATAATGCACAG
10151680 GGGTGTCTGT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
31 4 0.05
32 80 0.95
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (32 bp):
AGTCAGTGTTGCATTCAGATAATGCACAGCAG
Found at i:10151698 original size:64 final size:64
Alignment explanation
Indices: 10151573--10151713 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 64
10151563 TTGCATTCAA
* * **
10151573 ATAATGCACTGCAGAGTCAGTGTTGCATTCAGATAATGCACAACAGAGTCAGTGTTGCATTTAG
1 ATAATGCACAGCAGAGTCAATGTTGCATTCAGATAATGCACAACAGAGTCAGTGTCACATTTAG
*** * *
10151637 ATAATGCACAGC-GAAGTCAATGTTGCATTCAGATAATGCACAGGGGTGTCTGTGTCACATTTAG
1 ATAATGCACAGCAG-AGTCAATGTTGCATTCAGATAATGCACAACAGAGTCAGTGTCACATTTAG
* *
10151701 AGAATGCATAGCA
1 ATAATGCACAGCA
10151714 ATTTCATTCG
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 1 0.02
64 63 0.98
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (64 bp):
ATAATGCACAGCAGAGTCAATGTTGCATTCAGATAATGCACAACAGAGTCAGTGTCACATTTAG
Found at i:10153383 original size:23 final size:23
Alignment explanation
Indices: 10153357--10153407 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
10153347 TACACTGAAA
10153357 TGCCACATAGAATTGCACCAG-AG
1 TGCCACATAGAATTGCACC-GTAG
* *
10153380 TGCCGCGTAGAATTGCACCGTAG
1 TGCCACATAGAATTGCACCGTAG
10153403 TGCCA
1 TGCCA
10153408 TATAATAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCCACATAGAATTGCACCGTAG
Found at i:10153594 original size:103 final size:103
Alignment explanation
Indices: 10153423--10153640 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
10153413 TAATGTCCAT
* * *
10153423 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCGTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
10153488 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
10153526 AAGGACCACATATCATTCCGTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCGTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
10153591 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
10153629 AAGGACCACATA
1 AAGGACCACATA
10153641 GACCCTCTAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCGTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:10154199 original size:64 final size:67
Alignment explanation
Indices: 10154089--10154216 Score: 210
Period size: 64 Copynumber: 2.0 Consensus size: 67
10154079 ATTTTCATCT
10154089 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
1 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
10154154 TA
66 TA
*
10154156 TTTAATGG-GG-ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTT
1 TTTAATGGAGGTATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTT
10154217 TCTTTTTAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
63 1 0.02
64 33 0.56
65 15 0.25
66 2 0.03
67 8 0.14
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (67 bp):
TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
TA
Found at i:10154234 original size:64 final size:64
Alignment explanation
Indices: 10154101--10154243 Score: 175
Period size: 64 Copynumber: 2.2 Consensus size: 64
10154091 TAATGGAGGT
* *
10154101 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* *
10154166 ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-
1 ATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATG
*
10154228 TA
63 GA
*
10154230 ATGCATTGATGCAC
1 ATGCATCGATGCAC
10154244 CTTAAACAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
63 1 0.01
64 43 0.62
65 22 0.32
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (64 bp):
ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:10160377 original size:23 final size:23
Alignment explanation
Indices: 10160351--10160404 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
10160341 CAGCTCATAT
10160351 AATTACACC-GAGGTACCACGTAG
1 AATTACACCAGA-GTACCACGTAG
* * *
10160374 AATTGCACCAGAGTGCCGCGTAG
1 AATTACACCAGAGTACCACGTAG
10160397 AATTACAC
1 AATTACAC
10160405 TGTAGTGCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (23 bp):
AATTACACCAGAGTACCACGTAG
Done.