Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 73 of 770
Found at i:21474755 original size:222 final size:222
Alignment explanation
Indices: 21474410--21474927 Score: 808
Period size: 222 Copynumber: 2.3 Consensus size: 222
21474400 AAATTTGGCT
* * * * *
21474410 TGTTACCCTACTGCTTAGGGTGATAAGATCTGTAGATCTTCAGCCTGTTTCCCTACTGCTTAGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
* * *
21474475 GGTTAAGGCTTGGTGGTTTGAATCTACTTCACTGTAACTTCAGGAGGGTAAGATTCACCGTCTTT
66 GTTTAAGGCTTGGTGGTTTGAATCTACTTCACTGCAACTTCAGGAGGGCAAGATTCACCGTCTTT
*
21474540 TGATCTGCTTCCCTACTGCTTAGGGTGATAAGATCTTTAAAATTCAGCTTCTTACCCTACTACTT
131 TGATCTACTTCCCTACTGCTTAGGGTGATAAGATCTTTAAAATTCAGCTTCTTACCCTACTACTT
21474605 AGGGGGTTAAAGCTTGTTGCCTTCGATC
196 A-GGGGTTAAAGCTTGTTGCCTTCGATC
* * *
21474633 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAAT-GT-AACCTGTTACCCTACTACTTAGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * *
21474696 GGTTTAAGGTTTGGTGGTTTGAATCTGCTTCACTGCAATTTCAGGAGGGCAAGATTCACCGTCTT
65 GGTTTAAGGCTTGGTGGTTTGAATCTACTTCACTGCAACTTCAGGAGGGCAAGATTCACCGTCTT
* * * *
21474761 TTGATCTACTTCCCTATTGCTTAGGGTGATAAGATCTTTAAAATTCAGCTTGTTACTCTACTATT
130 TTGATCTACTTCCCTACTGCTTAGGGTGATAAGATCTTTAAAATTCAGCTTCTTACCCTACTACT
*
21474826 TAGGGGTTAAAGCTTGTTGCTTTCGATC
195 TAGGGGTTAAAGCTTGTTGCCTTCGATC
*
21474854 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTACATCTTCAGCCTGTTACCCTACTGCTTAGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
21474919 GTTT-AGGCT
66 GTTTAAGGCT
21474928 CACCATCCTC
Statistics
Matches: 267, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
220 6 0.02
221 60 0.22
222 167 0.63
223 28 0.10
224 6 0.02
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (222 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
GTTTAAGGCTTGGTGGTTTGAATCTACTTCACTGCAACTTCAGGAGGGCAAGATTCACCGTCTTT
TGATCTACTTCCCTACTGCTTAGGGTGATAAGATCTTTAAAATTCAGCTTCTTACCCTACTACTT
AGGGGTTAAAGCTTGTTGCCTTCGATC
Found at i:21474908 original size:45 final size:44
Alignment explanation
Indices: 21474853--21475009 Score: 128
Period size: 43 Copynumber: 3.6 Consensus size: 44
21474843 TGCTTTCGAT
*
21474853 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTACATCTTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-TACATCTTCAGC
* * * * *
21474898 CTGTTACCCTACTGCTTA-GGGGTTTAG-GCTCACCATCCTC-GAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTA-CATCTTCAG-C
** * *
21474941 CTGTTTTCCTACTGCTTAGGGGTTTAAGATCTATA-A-ATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-TACATCTTCAGC
* *
21474984 TTGTTACCCTA-AGCTTAGGGGGTTAA
1 CTGTTACCCTACTGCTTAGGGGGTTAA
21475010 AGCTTGTGAA
Statistics
Matches: 86, Mismatches: 20, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
42 15 0.17
43 34 0.40
44 17 0.20
45 19 0.22
46 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTACATCTTCAGC
Found at i:21476515 original size:15 final size:16
Alignment explanation
Indices: 21476448--21476517 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 16
21476438 TCTTTAAGAA
21476448 TATAAAAT-CATATCT
1 TATAAAATACATATCT
*
21476463 TCTAAAATTACATATCT
1 TATAAAA-TACATATCT
* **
21476480 TATCTAAGATATGTAATCT
1 TA--TAAAATACAT-ATCT
21476499 TATAAAATA-ATATCT
1 TATAAAATACATATCT
21476514 TATA
1 TATA
21476518 TTTGTCTAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
15 14 0.33
16 2 0.05
17 14 0.33
18 3 0.07
19 10 0.23
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.41
Consensus pattern (16 bp):
TATAAAATACATATCT
Found at i:21483078 original size:44 final size:45
Alignment explanation
Indices: 21482981--21483086 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
21482971 GAACGAAATG
* * * * *
21482981 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTAGAGAAAGGAATA
*
21483027 AGCCATGTAAGTCCATATT-ATATATGGCATTAGAGAAAGGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTAGAGAAAGGAATA
**
21483071 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
21483087 GTCAAAGACA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 33 0.63
46 19 0.37
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTAGAGAAAGGAATA
Found at i:21495038 original size:22 final size:22
Alignment explanation
Indices: 21495007--21495060 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
21494997 CATAGTATAT
21495007 ATATATACAT-ATATATAAAAAA
1 ATATATACATAATATAT-AAAAA
*
21495029 ATGTATACATAATATATAAAAA
1 ATATATACATAATATATAAAAA
21495051 ATATATACAT
1 ATATATACAT
21495061 GCATATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 23 0.79
23 6 0.21
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATATACATAATATATAAAAA
Found at i:21495142 original size:22 final size:21
Alignment explanation
Indices: 21495117--21495159 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
21495107 ATATGTGTAG
*
21495117 CATGGGATATAAAAAGTATATA
1 CATGGGACATAAAAA-TATATA
* *
21495139 CATGTGACATACAAATATATA
1 CATGGGACATAAAAATATATA
21495160 TTAACGAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (21 bp):
CATGGGACATAAAAATATATA
Found at i:21495339 original size:13 final size:13
Alignment explanation
Indices: 21495321--21495345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21495311 ATTAAAATTT
21495321 AAAAAAACAAAAC
1 AAAAAAACAAAAC
21495334 AAAAAAACAAAA
1 AAAAAAACAAAA
21495346 AATAGTAAAA
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:21496757 original size:2 final size:2
Alignment explanation
Indices: 21496750--21496775 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21496740 AAAGGAAGAT
21496750 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
21496776 CCGGTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21498578 original size:19 final size:22
Alignment explanation
Indices: 21498536--21498578 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
21498526 TTAAAGTACA
21498536 ATTATTTTATAAAATAAATCAT
1 ATTATTTTATAAAATAAATCAT
21498558 ATTATTTTA-AAAA-AAAT-AT
1 ATTATTTTATAAAATAAATCAT
21498577 AT
1 AT
21498579 GATAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 4 0.19
21 4 0.19
22 9 0.43
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTATTTTATAAAATAAATCAT
Found at i:21499312 original size:25 final size:26
Alignment explanation
Indices: 21499257--21499312 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
21499247 TTTAACTTTT
* **
21499257 ATAAAAATAAACTATAATTTTTCTAC
1 ATAAAAATAAAATATAATTACTCTAC
*
21499283 A-AAAAATAAAATATAGTTACT-TAC
1 ATAAAAATAAAATATAATTACTCTAC
21499307 ATAAAA
1 ATAAAA
21499313 TAATTTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 4 0.16
25 20 0.80
26 1 0.04
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (26 bp):
ATAAAAATAAAATATAATTACTCTAC
Found at i:21499549 original size:5 final size:5
Alignment explanation
Indices: 21499539--21499567 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
21499529 AGACTTACCT
21499539 TTTTC TTTTC TTTTC TTTTC TTTT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
21499568 CAAAAATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:21501124 original size:75 final size:75
Alignment explanation
Indices: 21501001--21501147 Score: 258
Period size: 75 Copynumber: 2.0 Consensus size: 75
21500991 ACAATCCATG
* *
21501001 TTACATTCCCAATTACTTAGATCCAATTATGGCTTTGATCCCTCTGCAATGCTCATGTTTAGGAT
1 TTACATTCCAAATTACTTAGATCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
21501066 TTAGTTCTTA
66 TTAGTTCTTA
* *
21501076 TTACATTCTAAATTACTTAGATCCAATTATGTCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
1 TTACATTCCAAATTACTTAGATCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
21501141 TTAGTTC
66 TTAGTTC
21501148 CTATAATTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (75 bp):
TTACATTCCAAATTACTTAGATCCAATTATGGCTTTGATCCCTCTGCAATGCTCATATTTAGGAT
TTAGTTCTTA
Found at i:21504738 original size:22 final size:22
Alignment explanation
Indices: 21504695--21504738 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21504685 TTTTTCACTT
**
21504695 TCCATAACATTTAAAATTGTCA
1 TCCATAACATTTAAAAGCGTCA
*
21504717 TCCATAACATTTCAAAGCGTCA
1 TCCATAACATTTAAAAGCGTCA
21504739 CAAAAACCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (22 bp):
TCCATAACATTTAAAAGCGTCA
Found at i:21506685 original size:48 final size:49
Alignment explanation
Indices: 21506633--21506754 Score: 115
Period size: 49 Copynumber: 2.5 Consensus size: 49
21506623 ACCAATGAAT
* *
21506633 TAAATAATATATATAAC-AATTTAAAAAAAATTATAAAGCAAA-TTAAAA
1 TAAATAATATATAAAACAAATTTAAAAAAAATAATAAA-CAAATTTAAAA
* * * ** *
21506681 TAAATAAAATGTAAAACAAATTTTAAAACGATAATAAATAAATTTAAAA
1 TAAATAATATATAAAACAAATTTAAAAAAAATAATAAACAAATTTAAAA
* *
21506730 TAAATAATGTGA-AAAAGAAATTTAA
1 TAAATAATAT-ATAAAACAAATTTAA
21506755 TATCAACAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
48 17 0.29
49 41 0.71
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (49 bp):
TAAATAATATATAAAACAAATTTAAAAAAAATAATAAACAAATTTAAAA
Found at i:21506750 original size:27 final size:26
Alignment explanation
Indices: 21506720--21506813 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
21506710 GATAATAAAT
21506720 AAATTTAAAATAAATAATGTGAAAAAG
1 AAATTTAAAATAAATAATGT-AAAAAG
* * *
21506747 AAATTTAATATCAACAATGTACAAAA-
1 AAATTTAAAATAAATAATGTA-AAAAG
* *
21506773 CAATTTAAAAATAGAGTATATGT-AAAAG
1 AAATTT-AAAATA-AATA-ATGTAAAAAG
21506801 AAATTTTAAAATA
1 AAA-TTTAAAATA
21506814 GGTAATATAC
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
26 6 0.12
27 29 0.56
28 10 0.19
29 7 0.13
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.29
Consensus pattern (26 bp):
AAATTTAAAATAAATAATGTAAAAAG
Found at i:21507047 original size:2 final size:2
Alignment explanation
Indices: 21507040--21507073 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21507030 AAGATAGATA
21507040 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
21507074 GCATACACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21507828 original size:131 final size:130
Alignment explanation
Indices: 21507577--21507908 Score: 410
Period size: 131 Copynumber: 2.6 Consensus size: 130
21507567 AAAAAATCAA
* * * *
21507577 AACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATC-AGACATTACCTT-ATTTT-A
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAA-TTCCAAACATCGA-ACATTACCTTCGTTTTAA
* * *
21507638 -GA-ATTTAAAGAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAAAT
63 GGATTTTTAAAGAACATGAGCGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAAT
21507701 CGC
128 CGC
*
21507704 AACCCAGCACGATAGGGCACGATTCCCCGAATTGGCAAACATCGAACATTACCTTCGTTTTGAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATT-CCAAACATCGAACATTACCTTCGTTTT-AAG
*
21507769 GATTTTTAAAG-ACATGAGCGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACAGGAAATC
64 GATTTTTAAAGAACATGAGCGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATC
21507833 GC
129 GC
* * ** *
21507835 AACCCAACACGATAGGGCACGATT-CCTGAATTACCAAACATCGAGTATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATT-CCAAACATCGAACATTACCTTCGTTTT-AAG
*
21507899 AATTTTTAAA
64 GATTTTTAAA
21507909 TGAATAATTA
Statistics
Matches: 179, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
126 2 0.01
127 44 0.25
128 6 0.03
130 43 0.24
131 77 0.43
132 7 0.04
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (130 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTCCAAACATCGAACATTACCTTCGTTTTAAGGA
TTTTTAAAGAACATGAGCGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGC
Found at i:21508887 original size:2 final size:2
Alignment explanation
Indices: 21508880--21508905 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21508870 TAATACAACG
21508880 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
21508906 ATAGTGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21510394 original size:28 final size:27
Alignment explanation
Indices: 21510332--21510394 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
21510322 AGAGTTTAAC
21510332 ATAAGATATATAAAACAATTTTAAAATA
1 ATAA-ATATATAAAACAATTTTAAAATA
**
21510360 A-ATAATATATAAGTCAATTTTAAAAATA
1 ATA-AATATATAAAACAATTTT-AAAATA
21510388 ATAAATA
1 ATAAATA
21510395 AGAATCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 16 0.53
28 13 0.43
29 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (27 bp):
ATAAATATATAAAACAATTTTAAAATA
Found at i:21511719 original size:44 final size:44
Alignment explanation
Indices: 21511656--21512335 Score: 249
Period size: 44 Copynumber: 14.7 Consensus size: 44
21511646 ATCCACAAAC
* *
21511656 CTTATCTCCCTGAAGTTGCATTGGAGTAGGTTGAAGTTACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGT
* * * **
21511700 CTTATCTCCCTGAAGTTGCAGTGGGGCAGACT-ACAAATAGC-AGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGA-AGTTA-CTAG-T
** * ** * * * *
21511745 CTTATCTCTTTAAAGTTATAGTAGAGTAGATCAAAGCTACAGATTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGAT---TG--A-AG-TTACTAGT
* * *
21511796 CTTATCTCCTTGAAATTGCAGTGGAGTAGGTTGAAGTTACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGT
* * **
21511840 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGTTACAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC---T----AGT
* * * *
21511891 CTTATCTCCCTGAAGCTGCAGTGGAGCAGACTGAAGTTACAAATACT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC---TAGT
* *
21511938 AAACCTTATCTCCCTGAAGTTGCACTGGAGTAGGTTGAAGTTACTAGT
1 ----CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGT
* * * **
21511986 CTTATCTCCCTGAAGTTGCAGTGGGGAAGACT-ACAAATAGC-AGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGA-AGTTA-CTAG-T
* * * ** * *
21512031 CTTATCTCTCTGAAGTTACAGTAGAGTAGATCAAAGCTACATATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC-TAGT
* * *
21512076 ACAAATGTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTCACTAGT
1 -C-----TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGT
* * * ** * * * * *
21512126 CTTATCTCTCTAAAGTTACAACGGAGCAGA-TCAA-ATACGGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA---CTAGT
* * * * * ***
21512171 CTTATTTTCTTGAAGTTGCAGCGAAGTAGATTGAAACCACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGT
* * * ** * *
21512215 CTTATCTCCCTAAAGTTGAAATGGAACAGGTTAAAGTTA-TAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACT-AGT
* * * * * *
21512259 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA-CTAGT
* * * *
21512304 CTTATCTCTCGGAAGTTGCAGTAGAGCAGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
21512336 AAAGCTATAA
Statistics
Matches: 465, Mismatches: 129, Indels: 83
0.69 0.19 0.12
Matches are distributed among these distances:
42 1 0.00
43 6 0.01
44 190 0.41
45 111 0.24
46 7 0.02
47 3 0.01
48 4 0.01
49 1 0.00
50 3 0.01
51 136 0.29
52 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGT
Found at i:21511919 original size:51 final size:51
Alignment explanation
Indices: 21511840--21511981 Score: 214
Period size: 51 Copynumber: 2.8 Consensus size: 51
21511830 AGTTACTAGT
*
21511840 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGTTACAAATCAC-AAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAAT-ACTAAAC
* *
21511891 CTTATCTCCCTGAAGCTGCAGTGGAGCAGACTGAAGTTACAAATACTAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATACTAAAC
* * *
21511942 CTTATCTCCCTGAAGTTGCACTGGAGTAGGTTGAAGTTAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
21511982 TAGTCTTATC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 2 0.02
51 80 0.98
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (51 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATACTAAAC
Found at i:21512109 original size:140 final size:140
Alignment explanation
Indices: 21511650--21512342 Score: 643
Period size: 140 Copynumber: 5.0 Consensus size: 140
21511640 CGGTGAATCC
* * *
21511650 ACAAACCTTATCTCCCTGAAGTTGCATTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTGAAG
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTGAAG
* * **
21511715 TTGCAGTGGGGCAGACTACAAATAGCAGATCTTATCTCTTTAAAGTTATAGTAGAGTAGATCAAA
66 TTGCAGTGGGGCAGACTACAAATAGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCAAA
*
21511780 GCTACAGATT
131 GCTACATATT
*
21511790 ACAAATCTTATCTCCTTGAAA-TTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTGAA
1 ACAAATCTTATCTCCCT-AAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTGAA
** * * * * * * *
21511854 GTTGCAGTGAAGCAGATTGAAGTTACAAATCA-CAAACCTTATCTCCCTGAAGCTGCAGTGGAGC
65 GTTGCAGTGGGGC--A--G-A-CTACAAAT-AGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGT
* * *
21511918 AGA-CTGAAGTTACA-AAT
123 AGATC-AAAGCTACATATT
* * *
21511935 ACTAAACCTTATCTCCCTGAAGTTGCACTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTGAA
1 AC-AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTGAA
* *
21512000 GTTGCAGTGGGGAAGACTACAAATAGCAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCAA
65 GTTGCAGTGGGGCAGACTACAAATAGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCAA
21512065 AGCTACATATT
130 AGCTACATATT
* * * *
21512076 ACAAATGTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTCACTAGTCTTATCTCTCTAAAG
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTGAAG
* ** * * *
21512141 TTACAACGGAGCAGA-T-CAAATACGGC-GAATCTTAT-TTTCTTGAAGTTGCAG-CGAAGTAGA
66 TTGCAGTGGGGCAGACTACAAATA--GCAG-ATCTTATCTCTC-TGAAGTTGCAGTAG-AGTAGA
*
21512201 TTGAAA-C--C-----
126 -TCAAAGCTACATATT
* * * * ** *
21512209 ACTAGTCTTATCTCCCTAAAGTTGAAATGGAACAGGTTAAAGTTA-TAAGTCTTATCTCCCTGAA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTACT-AGTCTTATCTCCCTGAA
* * * *
21512273 GTTGCAGTGGAGCAGACT-CAAGATAGC-GAATCTTATCTCTCGGAAGTTGCAGTAGAGCAGATT
65 GTTGCAGTGGGGCAGACTACAA-ATAGCAG-ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATC
21512336 AAAGCTA
128 AAAGCTA
21512343 TAAATCCTAT
Statistics
Matches: 452, Mismatches: 73, Indels: 61
0.77 0.12 0.10
Matches are distributed among these distances:
132 5 0.01
133 91 0.20
134 8 0.02
135 3 0.01
138 7 0.02
139 7 0.02
140 202 0.45
141 12 0.03
142 2 0.00
144 2 0.00
145 8 0.02
146 104 0.23
147 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (140 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTGAAG
TTGCAGTGGGGCAGACTACAAATAGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCAAA
GCTACATATT
Found at i:21512436 original size:227 final size:230
Alignment explanation
Indices: 21512167--21512800 Score: 633
Period size: 227 Copynumber: 2.8 Consensus size: 230
21512157 CAAATACGGC
* * ** *
21512167 GAATCTTAT-TTTCTTGAAGTTGCAG-CGAAGTAGATTGAAACCACTAGTCTTATCTCCCTAAAG
1 GAATCTTATCTCTC-TGAAGTTGCAGTAGAA-TAGA-TGAAACCACTAACCTTATCTCCCTGAAG
* * * * * *
21512230 TTGAAATGGAACAGGTTAAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG
63 TTGAAATGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAT
*
21512295 ATAGCGAATCTTATCTCTCGGAAGTTGCAGTAGAGCAGATTAAAGCT-A-TA-AA-TCCTATACC
128 ATAGCAAATCTTATCTCTCGGAAGTTGCAGTAGAGCAGATTAAAGCTAAGTACAAGTCCTATACC
**
21512356 TCTGAAGTTGCAGCAGGTCGGATCAAATCTACCATGAT
193 TCTGAAGTCACAGCAGGTCGGATCAAATCTACCATGAT
*
21512394 GAATCTTATCTCTCTGAAGTTGCAGTGGAATAGATCGAAACCACTAACCTTATCTCCCTGAAGTT
1 GAATCTTATCTCTCTGAAGTTGCAGTAGAATAGAT-GAAACCACTAACCTTATCTCCCTGAAGTT
* * * * * * * *
21512459 GCAGTAGAGCAGGTTGAAGTTACAAGTCTTAGCCCCCCGAAATTACAGTAGG-GTAGACTGAATA
65 GAAATGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT-GGAGTAGACTGAATA
* * * * ** *
21512523 TAGTAAATCTTAT-TTTCCTGAAGTTGCAGTGGAATAGGTTAAAGCTACGAGTTACAAGTCCTAT
129 TAGCAAATCTTATCTCT-CGGAAGTTGCAGTAGAGCAGATTAAAGCTA--AG-TACAAGTCCTAT
** * *
21512587 ACCTCTGAAGTCACAGTGGGTCGGATCAAATCTATCATGGT
190 ACCTCTGAAGTCACAGCAGGTCGGATCAAATCTACCATGAT
* * * * * * *** *
21512628 GAATTTTATCTCCCTAAAATTTCA-TAGAGTAGATGTAGGTCATTAACCTTATCTCCCTGAAGTT
1 GAATCTTATCTCTCTGAAGTTGCAGTAGAATAGATG-AAACCACTAACCTTATCTCCCTGAAGTT
* * * *
21512692 -ACAATGGAGTAGGTTGAAGATGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAATAGACTGAATA
65 GA-AATGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAATA
* *
21512756 TAGCAAATCTTATCTCT-GTGAAGTTGTAGTAGAGCAGATTGAAGC
129 TAGCAAATCTTATCTCTCG-GAAGTTGCAGTAGAGCAGATTAAAGC
21512801 CACAAACCTT
Statistics
Matches: 325, Mismatches: 65, Indels: 28
0.78 0.16 0.07
Matches are distributed among these distances:
226 3 0.01
227 132 0.41
228 8 0.02
230 1 0.00
232 5 0.02
233 114 0.35
234 62 0.19
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (230 bp):
GAATCTTATCTCTCTGAAGTTGCAGTAGAATAGATGAAACCACTAACCTTATCTCCCTGAAGTTG
AAATGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAATATA
GCAAATCTTATCTCTCGGAAGTTGCAGTAGAGCAGATTAAAGCTAAGTACAAGTCCTATACCTCT
GAAGTCACAGCAGGTCGGATCAAATCTACCATGAT
Found at i:21512723 original size:44 final size:45
Alignment explanation
Indices: 21512675--21512780 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
21512665 GGTCATTAAC
* ** *
21512675 CTTATCTCCCTGAAGTTACAATGGAGTAGGTTGAAGAT-GCAAGT
1 CTTATCTCCCTGAAGTTACAATGGAATAGACTGAAGATAGCAAAT
* * *
21512719 CTTATCTCCCTGAAGTTGCAGTGGAATAGACTGAATATAGCAAAT
1 CTTATCTCCCTGAAGTTACAATGGAATAGACTGAAGATAGCAAAT
**
21512764 CTTATCTCTGTGAAGTT
1 CTTATCTCCCTGAAGTT
21512781 GTAGTAGAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
44 32 0.62
45 20 0.38
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTACAATGGAATAGACTGAAGATAGCAAAT
Found at i:21512751 original size:233 final size:228
Alignment explanation
Indices: 21512197--21512800 Score: 603
Period size: 233 Copynumber: 2.6 Consensus size: 228
21512187 TGCAGCGAAG
* ** * * * *
21512197 TAGATTGAAACCACTAGTCTTATCTCCCTAAAGTTGA-AATGGAACAGGTTAAAGTTATAAGTCT
1 TAGATCGAAACCACTAACCTTATCTCCCTGAAGTT-ACAATGGAGCAGGTTGAAGTTACAAGTCT
* * * *
21512261 TATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATAGCGAATCTTA-TCTCTCGGAAGTTGCAG
65 TATCTCCCTGAAGTTGCAGTGGAGTAGACTGAATATAGCAAATCTTATTCTCTCGGAAGTTGCAG
* **
21512325 TAGAGCAGATTAAAGCTATAAATCCTATACCTCTGAAGTTGCAGCAGGTCGGATCAAATCTACCA
130 TAGAACAGATTAAAGCTATAAATCCTATACCTCTGAAGTCACAGCAGGTCGGATCAAATCTACCA
* * * *
21512390 TGATGAATCTTATCTCTCTGAAGTTGCAGTGGAA
195 TGATGAATCTTATCTCCCTAAAATTGCAGTAGAA
* * *
21512424 TAGATCGAAACCACTAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACAAGTCTT
1 TAGATCGAAACCACTAACCTTATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACAAGTCTT
* * * * * * * *
21512489 AGCCCCCCGAAATTACAGTAGG-GTAGACTGAATATAGTAAATCTTATTTTC-CTGAAGTTGCAG
66 ATCTCCCTGAAGTTGCAGT-GGAGTAGACTGAATATAGCAAATCTTATTCTCTCGGAAGTTGCAG
* * * **
21512552 TGGAATAGGTTAAAGCTACGAGTTACAAGTCCTATACCTCTGAAGTCACAGTGGGTCGGATCAAA
130 TAGAACAGATTAAAGCT---A--TA-AA-TCCTATACCTCTGAAGTCACAGCAGGTCGGATCAAA
* * * * *
21512617 TCTATCATGGTGAATTTTATCTCCCTAAAATTTCA-TAGAG
188 TCTACCATGATGAATCTTATCTCCCTAAAATTGCAGTAGAA
*** * * * *
21512657 TAGAT-GTAGGTCATTAACCTTATCTCCCTGAAGTTACAATGGAGTAGGTTGAAGATGCAAGTCT
1 TAGATCG-AAACCACTAACCTTATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACAAGTCT
* *
21512721 TATCTCCCTGAAGTTGCAGTGGAATAGACTGAATATAGCAAATCTTA-TCTCT-GTGAAGTTGTA
65 TATCTCCCTGAAGTTGCAGTGGAGTAGACTGAATATAGCAAATCTTATTCTCTCG-GAAGTTGCA
* *
21512784 GTAGAGCAGATTGAAGC
129 GTAGAACAGATTAAAGC
21512801 CACAAACCTT
Statistics
Matches: 299, Mismatches: 64, Indels: 22
0.78 0.17 0.06
Matches are distributed among these distances:
227 111 0.37
228 5 0.02
230 1 0.00
232 8 0.03
233 114 0.38
234 60 0.20
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (228 bp):
TAGATCGAAACCACTAACCTTATCTCCCTGAAGTTACAATGGAGCAGGTTGAAGTTACAAGTCTT
ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAATATAGCAAATCTTATTCTCTCGGAAGTTGCAGT
AGAACAGATTAAAGCTATAAATCCTATACCTCTGAAGTCACAGCAGGTCGGATCAAATCTACCAT
GATGAATCTTATCTCCCTAAAATTGCAGTAGAA
Found at i:21513247 original size:38 final size:38
Alignment explanation
Indices: 21513199--21513277 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
21513189 GGATACCCCT
21513199 CTTTCCATTTTCTTTTCTCTGCTAGGGTTAGGAGAACC
1 CTTTCCATTTTCTTTTCTCTGCTAGGGTTAGGAGAACC
*
21513237 CTTTCTATTTTCTTTTCTCTGCTAGGGTTAGGAGAACC
1 CTTTCCATTTTCTTTTCTCTGCTAGGGTTAGGAGAACC
21513275 CTT
1 CTT
21513278 CATTGCCGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (38 bp):
CTTTCCATTTTCTTTTCTCTGCTAGGGTTAGGAGAACC
Found at i:21514039 original size:19 final size:20
Alignment explanation
Indices: 21514001--21514041 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
21513991 GGACTTTTTA
*
21514001 TTATTTGGGCTTTTAATTGT
1 TTATTTGGGCATTTAATTGT
*
21514021 TTATTTGGG-ATTTAGTTGT
1 TTATTTGGGCATTTAATTGT
21514040 TT
1 TT
21514042 GGGCCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.15, C:0.02, G:0.22, T:0.61
Consensus pattern (20 bp):
TTATTTGGGCATTTAATTGT
Found at i:21514364 original size:45 final size:44
Alignment explanation
Indices: 21514313--21514436 Score: 158
Period size: 45 Copynumber: 2.8 Consensus size: 44
21514303 GGTTTGTGGC
* * *
21514313 TTCAATCTGTTCTACTGCAACTTCAGAGAGATAAGATTTGCTATA
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTG-TATA
* *
21514358 TTCAATCTGCTCTACTGCAACTTAAGGGAGATAAGACTTGTATC
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTATA
* * * *
21514402 TTCAACCTGCTCCATTGTAACTTCAGGGAGATAAG
1 TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAG
21514437 GTTAATGGTT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
44 33 0.48
45 36 0.52
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTATA
Found at i:21514424 original size:44 final size:45
Alignment explanation
Indices: 21514326--21514436 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 45
21514316 AATCTGTTCT
* * * *
21514326 ACTGCAACTTCAGAGAGATAAGATTTGCTATATTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGACTTGCTATATTCAACCTGCTCC
* *
21514371 ACTGCAACTTAAGGGAGATAAGACTTG-TATCTTCAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGCTATATTCAACCTGCTCC
* *
21514415 ATTGTAACTTCAGGGAGATAAG
1 ACTGCAACTTCAGGGAGATAAG
21514437 GTTAATGGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
44 33 0.58
45 24 0.42
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (45 bp):
ACTGCAACTTCAGGGAGATAAGACTTGCTATATTCAACCTGCTCC
Found at i:21517508 original size:46 final size:46
Alignment explanation
Indices: 21517433--21517917 Score: 709
Period size: 46 Copynumber: 10.7 Consensus size: 46
21517423 TGGCAACCTG
*
21517433 TGTGTAAGACCATGGTTGAAAAATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
21517479 TGTGTAAGACCATGGTTGAAAGATGCCATGGCAACC-----T---A
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
21517517 TGTGTAAGACCATGGTTGAAAAATACCATGGCAACCTAATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
21517563 TGTGTAAGATCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
21517609 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
21517655 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
21517701 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
21517747 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * * *
21517793 TATGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
21517839 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
21517885 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
21517918 TCACGTCAAA
Statistics
Matches: 403, Mismatches: 27, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
38 35 0.09
41 1 0.00
43 1 0.00
45 1 0.00
46 365 0.91
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:21520861 original size:11 final size:11
Alignment explanation
Indices: 21520847--21520891 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
21520837 AGATAAATAT
21520847 TATTTTATTAA
1 TATTTTATTAA
*
21520858 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
21520871 TATTTTATTAT
1 TATTTTATTAA
21520882 TATTTTATTA
1 TATTTTATTA
21520892 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:21523066 original size:38 final size:39
Alignment explanation
Indices: 21523016--21523137 Score: 174
Period size: 38 Copynumber: 3.0 Consensus size: 39
21523006 CTGATATGAA
21523016 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
21523055 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
21523098 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
21523138 AATTGAAAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 14
0.84 0.00 0.16
Matches are distributed among these distances:
38 36 0.48
41 1 0.01
43 2 0.03
46 36 0.48
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:21523122 original size:46 final size:45
Alignment explanation
Indices: 21523055--21523145 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 45
21523045 TGGCAACCTG
*
21523055 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT-TGAAA
21523101 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAA
21523146 GATACCATGG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 5 0.11
46 39 0.89
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.24
Consensus pattern (45 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAA
Found at i:21523171 original size:24 final size:24
Alignment explanation
Indices: 21523116--21523161 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
21523106 AAGACCATGG
21523116 TTGAAAGATACCATGGCAACCTAA
1 TTGAAAGATACCATGGCAACCTAA
21523140 TTGAAAGATACCATGGCAACCT
1 TTGAAAGATACCATGGCAACCT
21523162 GTGTGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (24 bp):
TTGAAAGATACCATGGCAACCTAA
Found at i:21523214 original size:46 final size:46
Alignment explanation
Indices: 21523163--21523425 Score: 420
Period size: 46 Copynumber: 5.7 Consensus size: 46
21523153 TGGCAACCTG
21523163 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
21523209 TGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
21523255 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
21523301 TGTGTAAGACCATGGTTGAAATATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
21523347 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
21523393 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
21523426 TCACGTCAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:21523225 original size:108 final size:108
Alignment explanation
Indices: 21523032--21523245 Score: 419
Period size: 108 Copynumber: 2.0 Consensus size: 108
21523022 AAGACCATGG
21523032 TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
21523097 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAA
66 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAA
21523140 TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
*
21523205 GAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCT
66 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
21523246 GATATGAGAT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (108 bp):
TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAA
Found at i:21523283 original size:108 final size:105
Alignment explanation
Indices: 21523043--21523425 Score: 415
Period size: 92 Copynumber: 3.9 Consensus size: 105
21523033 TGAAAGATAC
* *
21523043 CATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
21523108 GACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAGAT
66 GACCATGGTTGAAAGATACCATGGCAACCTAATTG-AAGAT
* *
21523149 ACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
1 --CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
*
21523214 AAGACCGTGGTTGAAAGATACCATGGCAACC----T---GAT
64 AAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAGAT
* *
21523249 -AT-GAGA--TGTGT--AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAA
1 CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
*
21523308 GACCATGGTTGAAATATACCATGGCAACC----T---GAT
66 GACCATGGTTGAAAGATACCATGGCAACCTAATTGAAGAT
* * *
21523341 -AT-GAGA--TGTGT--AAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGAGTA
1 CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTA
* * *
21523399 AGACCATAGTTGAAAGACACTATGGCA
65 AGACCATGGTTGAAAGATACCATGGCA
21523426 TCACGTCAAA
Statistics
Matches: 263, Mismatches: 11, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
91 1 0.00
92 156 0.59
94 5 0.02
96 2 0.01
97 2 0.01
100 3 0.01
104 1 0.00
108 93 0.35
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (105 bp):
CATGGAAACCTGTGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
GACCATGGTTGAAAGATACCATGGCAACCTAATTGAAGAT
Found at i:21523289 original size:154 final size:146
Alignment explanation
Indices: 21523017--21523289 Score: 456
Period size: 154 Copynumber: 1.8 Consensus size: 146
21523007 TGATATGAAA
21523017 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
21523082 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAG
66 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAG
21523147 ATACCATGGCAACCTG
131 ATACCATGGCAACCTG
*
21523163 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCGTGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---TGTGTAAGACCATGGTTGA
*
21523228 AAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
58 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
21523290 ATGATATGAA
Statistics
Matches: 117, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
146 36 0.31
151 2 0.02
154 79 0.68
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (146 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAG
ATACCATGGCAACCTG
Found at i:21523329 original size:154 final size:143
Alignment explanation
Indices: 21523017--21523425 Score: 423
Period size: 138 Copynumber: 2.8 Consensus size: 143
21523007 TGATATGAAA
*
21523017 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
1 TGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
*
21523082 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATTGAAAG
66 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAATTGAAAG
21523147 ATACCATGGCAACCTG
131 ATA-CA-GG-AACCTG
* *
21523163 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCGTGGTTGA
1 TGTGAAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---TGTGTAAGACCATGGTTGA
*
21523228 AAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC---
58 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATA
* *
21523290 A-T----GAT--ATGAA-ATG
123 ATTGAAAGATACAGGAACCTG
*
21523303 TGT--AAGACCATGGTTGAAATATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGA
1 TGTGAAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAGACCATGGTTGA
* * * * *
21523366 AAGATACCATGGCAACATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
58 AAGATACCATGGCAACCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
21523426 TCACGTCAAA
Statistics
Matches: 240, Mismatches: 12, Indels: 30
0.85 0.04 0.11
Matches are distributed among these distances:
137 1 0.00
138 107 0.45
140 6 0.03
141 2 0.01
142 1 0.00
143 1 0.00
146 39 0.16
150 1 0.00
151 3 0.01
154 79 0.33
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (143 bp):
TGTGAAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAATTGAAAG
ATACAGGAACCTG
Found at i:21524165 original size:35 final size:35
Alignment explanation
Indices: 21524119--21524255 Score: 247
Period size: 35 Copynumber: 3.9 Consensus size: 35
21524109 CACTTGCCTC
21524119 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
21524154 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
*
21524189 TTCCCACTCACCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
21524224 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCA
21524256 TCATCACACA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 98 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:21524714 original size:14 final size:15
Alignment explanation
Indices: 21524697--21524732 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
21524687 TCCAGCACCA
21524697 AAAAAAATTTCCAG-
1 AAAAAAATTTCCAGT
21524711 AAAAAAATTTCCAGT
1 AAAAAAATTTCCAGT
21524726 AAAAAAA
1 AAAAAAA
21524733 CCAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.64, C:0.11, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAAAATTTCCAGT
Found at i:21524732 original size:32 final size:30
Alignment explanation
Indices: 21524660--21524732 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 30
21524650 AAAGAGGGGA
*
21524660 AGCAAAAAAAAAAATCCAGTAAAAAATTCC
1 AGCAAAAAAAAAAATCCAGAAAAAAATTCC
**
21524690 AGCACCAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA--AAAAAAAAAATCCAGAAAAAAA-TTCC
*
21524723 AGTAAAAAAA
1 AGCAAAAAAA
21524733 CCAAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 4 0.11
31 6 0.17
32 19 0.53
33 7 0.19
ACGTcount: A:0.62, C:0.16, G:0.07, T:0.15
Consensus pattern (30 bp):
AGCAAAAAAAAAAATCCAGAAAAAAATTCC
Found at i:21525021 original size:11 final size:11
Alignment explanation
Indices: 21524992--21525041 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
21524982 CGACCGGATT
* *
21524992 TCCCTTCCCCC
1 TCCCTTCTCTC
21525003 TCCCTTCTCTC
1 TCCCTTCTCTC
21525014 TCCCTTCTCTC
1 TCCCTTCTCTC
21525025 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
21525036 TTCCTT
1 TCCCTT
21525042 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:21525604 original size:20 final size:21
Alignment explanation
Indices: 21525557--21525608 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
21525547 TCATTTCTAA
21525557 TATGTA-TATATATATAATAT
1 TATGTATTATATATATAATAT
21525577 TATGTGTATTATATATAT-ATAT
1 TA--TGTATTATATATATAATAT
21525599 TATGTATTAT
1 TATGTATTAT
21525609 GCCATTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 10 0.34
22 10 0.34
23 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (21 bp):
TATGTATTATATATATAATAT
Found at i:21525790 original size:2 final size:2
Alignment explanation
Indices: 21525773--21525809 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
21525763 GTGTATATTT
* *
21525773 TA TA TA CA TA TG 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
21525810 TTGCACATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:21541566 original size:20 final size:20
Alignment explanation
Indices: 21541536--21541581 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
21541526 GATAATGTTA
21541536 AAGTTGGGAAAAACTATGGT
1 AAGTTGGGAAAAACTATGGT
* * *
21541556 ATGTTGTGAAAGACTATGGT
1 AAGTTGGGAAAAACTATGGT
21541576 AAGTTG
1 AAGTTG
21541582 CAAGTTGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.30
Consensus pattern (20 bp):
AAGTTGGGAAAAACTATGGT
Found at i:21552695 original size:42 final size:42
Alignment explanation
Indices: 21552649--21552757 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
21552639 GATTACGTGT
** *
21552649 AAGACCATATCT-GGAATATGGCATCGATATGAGATTTCGTAC
1 AAGACCATATCTAGG-ATATGGCATCGATATGAGATCCCATAC
* * * **
21552691 AAGACCATAGCTAGGCTATTGGCATCTATATGAGATCCCATGT
1 AAGACCATATCTAGGATA-TGGCATCGATATGAGATCCCATAC
21552734 AAGACCATATCTAGGATATGGCAT
1 AAGACCATATCTAGGATATGGCAT
21552758 TGGTATGGTA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 19 0.35
43 36 0.65
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (42 bp):
AAGACCATATCTAGGATATGGCATCGATATGAGATCCCATAC
Found at i:21552871 original size:20 final size:20
Alignment explanation
Indices: 21552841--21552886 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
21552831 GGCAATGTTA
*
21552841 AAGTTGGGAAAGGCTATGGT
1 AAGTTGGGAAAGACTATGGT
* *
21552861 ATGTTGTGAAAGACTATGGT
1 AAGTTGGGAAAGACTATGGT
21552881 AAGTTG
1 AAGTTG
21552887 CAGGTTGGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.04, G:0.35, T:0.30
Consensus pattern (20 bp):
AAGTTGGGAAAGACTATGGT
Found at i:21556825 original size:45 final size:45
Alignment explanation
Indices: 21556761--21556864 Score: 165
Period size: 45 Copynumber: 2.3 Consensus size: 45
21556751 TGAGATATGA
**
21556761 TATTGAGATAGCTTCGGCTATGTATTAG-CACTTTGGTGCAAGATT
1 TATTGAGATAGCTTCGGCTATGTATT-GTCACTTCAGTGCAAGATT
21556806 TATTGAGATAGCTTCGGCTATGTATTGTCACTTCAGTGCAAGATT
1 TATTGAGATAGCTTCGGCTATGTATTGTCACTTCAGTGCAAGATT
*
21556851 TATTAAGATAGCTT
1 TATTGAGATAGCTT
21556865 TGACTATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 1 0.02
45 54 0.98
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.38
Consensus pattern (45 bp):
TATTGAGATAGCTTCGGCTATGTATTGTCACTTCAGTGCAAGATT
Found at i:21560328 original size:27 final size:28
Alignment explanation
Indices: 21560280--21560392 Score: 135
Period size: 27 Copynumber: 4.2 Consensus size: 28
21560270 AGCATGGCTG
* * *
21560280 CCAGA-ACAGATA-TTGCGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
21560306 CAAGATACAAATA-TTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
21560333 CCAGAAACAGATATTTGTGGCAAAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
21560361 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
21560388 CCAGA
1 CCAGA
21560393 ACGTTTCCTC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
26 4 0.05
27 52 0.70
28 18 0.24
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:21563452 original size:27 final size:27
Alignment explanation
Indices: 21563422--21563558 Score: 206
Period size: 27 Copynumber: 5.1 Consensus size: 27
21563412 GGAAGCGTCT
* * *
21563422 TGGTGGCTATACCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGTTC
21563449 TGGTGGCTCTGCCAC-ATATATCTGTTC
1 TGGTGGCTCTGCCACAAT-TATCTGTTC
21563476 TGGTGGCTCTGCCACAATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
*
21563503 TAGTGGCTCTGCCACAATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
*
21563530 TGGTGGCTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
21563556 TGG
1 TGG
21563559 CAGCCATGTT
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
26 16 0.16
27 84 0.82
28 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGTTC
Found at i:21571018 original size:27 final size:27
Alignment explanation
Indices: 21570979--21571088 Score: 116
Period size: 27 Copynumber: 4.0 Consensus size: 27
21570969 TGGCTGCTAG
* *
21570979 AACAGATATTGTGACAGAGTCAGCAGA
1 AACAGATATTGTGACAGAGCCACCAGA
* *
21571006 TACAGATATTGTGGCAGAGCCACCAGA
1 AACAGATATTGTGACAGAGCCACCAGA
21571033 AACAGATATT-TGCAGCAGAGCCACCAG-
1 AACAGATATTGTG-A-CAGAGCCACCAGA
** *
21571060 ATTAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATA-TTGTGACAGAGCCACCAGA
21571088 A
1 A
21571089 CGCTTCCTCC
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
26 2 0.03
27 50 0.72
28 15 0.22
29 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
AACAGATATTGTGACAGAGCCACCAGA
Found at i:21571067 original size:54 final size:55
Alignment explanation
Indices: 21570979--21571088 Score: 154
Period size: 55 Copynumber: 2.0 Consensus size: 55
21570969 TGGCTGCTAG
* *
21570979 AACAGATATTGTGACAGAGTCAGCAGATACAGATA-TTGTGGCAGAGCCACCAGA
1 AACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCACCAGA
*
21571033 AACAGATATT-TGCAGCAGAGCCACCAGAT-TAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATATTGTG-A-CAGAGCCACCAGATACAGATATTTGTGGCAGAGCCACCAGA
21571088 A
1 A
21571089 CGCTTCCTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
53 2 0.04
54 16 0.32
55 32 0.64
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (55 bp):
AACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCACCAGA
Found at i:21574618 original size:28 final size:29
Alignment explanation
Indices: 21574520--21574617 Score: 132
Period size: 28 Copynumber: 3.5 Consensus size: 29
21574510 AATGAGATTG
21574520 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
21574548 GCACTAAGTGTGCAAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
* *
21574577 GCAC-AAGTGTGCGGGTTTGAACAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAA-TTGTATA
21574604 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
21574618 GACTTACTGT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
27 5 0.08
28 44 0.70
29 14 0.22
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.31
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:21579266 original size:40 final size:40
Alignment explanation
Indices: 21579202--21579337 Score: 173
Period size: 40 Copynumber: 3.4 Consensus size: 40
21579192 GGCCTACGGA
* * * *
21579202 CTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* *
21579242 CTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* * * *
21579282 CTTAGCCCGGATATAGCTACTAGCACAATTGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
*
21579322 CTTAACCCGGATATAA
1 CTTAGCCCGGATATAA
21579338 TTTTCAGCAT
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
Found at i:21579352 original size:40 final size:40
Alignment explanation
Indices: 21579224--21579375 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
21579214 ATCACGATTT
* * * * *
21579224 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
21579264 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
21579304 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
21579344 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
21579376 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:21587388 original size:40 final size:40
Alignment explanation
Indices: 21587314--21587459 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
21587304 CCGCACCAAG
* * * * * *
21587314 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
21587354 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
21587394 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
21587434 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
21587460 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:21587474 original size:40 final size:40
Alignment explanation
Indices: 21587346--21587497 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
21587336 ATCACGATTT
* * * * *
21587346 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
21587386 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
21587426 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
21587466 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
21587498 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:21598165 original size:40 final size:40
Alignment explanation
Indices: 21598108--21598378 Score: 366
Period size: 40 Copynumber: 6.8 Consensus size: 40
21598098 GGATATAACT
* * * *
21598108 ACTCGCTCAAATGCCTTCGGGACATAGCTCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
21598148 ACTCCCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
21598188 ACTCACACAAATGCCTTCGGGACTTAGCTCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
21598228 ACTCGCACAAATGCCTTCGGGACTTAGCTCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
21598268 ATTCGCACAAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
21598308 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** * *
21598347 ACTAGTGCAGATGCCTTGGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
21598379 TTATCATCCA
Statistics
Matches: 209, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 32 0.15
40 175 0.84
41 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:21601704 original size:29 final size:29
Alignment explanation
Indices: 21601643--21601771 Score: 181
Period size: 29 Copynumber: 4.5 Consensus size: 29
21601633 TACCTATATC
* * *
21601643 TGGCCCATTAAGCCC-ATTCATATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
21601671 TGGCCTATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
21601700 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
21601729 TGGCCCGTTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
21601758 TGGCCCGTTAGGCC
1 TGGCCCATTAGGCC
21601772 TAGTCACATT
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
28 15 0.16
29 75 0.82
30 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:21601740 original size:58 final size:57
Alignment explanation
Indices: 21601643--21601786 Score: 182
Period size: 58 Copynumber: 2.5 Consensus size: 57
21601633 TACCTATATC
* * * *
21601643 TGGCCCATTAAGCCCATTCATATTTATATGGCCTATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCACATT-TATA
*
21601700 TGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTTATATGGCCCATTAGGCCCAAATCACATTTATA
* * * *
21601758 TGGCCCGTTAGGCCTAGTCACATTCATAT
1 TGGCCCATTAGGCCCAATCACATTTATAT
21601787 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
57 26 0.34
58 48 0.63
59 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (57 bp):
TGGCCCATTAGGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCACATTTATA
Found at i:21602029 original size:8 final size:8
Alignment explanation
Indices: 21601998--21602048 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
21601988 ATAGCTAAAC
21601998 TTTCGGCT
1 TTTCGGCT
**
21602006 TTTTAGCAT
1 TTTCGGC-T
21602015 TTT-GGCT
1 TTTCGGCT
21602022 TTTCGGCT
1 TTTCGGCT
*
21602030 TTTCGGCA
1 TTTCGGCT
*
21602038 TTTCAGCT
1 TTTCGGCT
21602046 TTT
1 TTT
21602049 GTTGATACAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 4 0.11
8 27 0.77
9 4 0.11
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.53
Consensus pattern (8 bp):
TTTCGGCT
Found at i:21602046 original size:24 final size:24
Alignment explanation
Indices: 21601998--21602048 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
21601988 ATAGCTAAAC
* **
21601998 TTTCGGCTTTTTAGCATTTTGGCT
1 TTTCGGCTTTTCAGCATTTCAGCT
*
21602022 TTTCGGCTTTTCGGCATTTCAGCT
1 TTTCGGCTTTTCAGCATTTCAGCT
21602046 TTT
1 TTT
21602049 GTTGATACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.53
Consensus pattern (24 bp):
TTTCGGCTTTTCAGCATTTCAGCT
Found at i:21606844 original size:27 final size:27
Alignment explanation
Indices: 21606814--21607012 Score: 238
Period size: 27 Copynumber: 7.3 Consensus size: 27
21606804 TACTGAAATG
*
21606814 CCCTCGATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
21606841 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
21606868 CCATCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
21606895 CCCTCGATTTATAGAATTAGCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* **
21606922 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
21606949 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
21606976 CCCTC-ATTTTAAAAAAATTACCGTTTTA
1 CCCTCGA-TTT-ATAAAATTACCATTTTA
21607004 CCCTCGATT
1 CCCTCGATT
21607013 GTGAAATTAC
Statistics
Matches: 145, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 121 0.83
28 22 0.15
29 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:21606929 original size:81 final size:81
Alignment explanation
Indices: 21606814--21607012 Score: 274
Period size: 81 Copynumber: 2.4 Consensus size: 81
21606804 TACTGAAATG
* * *
21606814 CCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCATCGATTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCATCGATTTA
*
21606879 CAAAATTACTATTTTA
66 CAAAATTACCATTTTA
* * * * *
21606895 CCCTCGATTTATAGAATTAGCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCATCGATTTA
21606960 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* *
21606976 CCCTC-ATTTTAAAAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTT-ATAAAATTACCATTTTACCCTCGATT
21607013 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 80 0.78
82 22 0.21
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCATCGATTTA
CAAAATTACCATTTTA
Found at i:21607074 original size:27 final size:27
Alignment explanation
Indices: 21607044--21607181 Score: 116
Period size: 27 Copynumber: 5.1 Consensus size: 27
21607034 TGTAAGATAG
* *
21607044 AATTATCAAAATACCCCTAGTTTCTAA
1 AATTACCAAAATACCCCTAATTTCTAA
* ** * *
21607071 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTCTAA
* * *
21607098 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTCTAA
*
21607125 AATTACCAAAATACCCCTAAATTAC-AA
1 AATTACCAAAATACCCCT-AATTTCTAA
** * *
21607152 AATTATAAAAATACCCTTGACTTTCTAA
1 AATTACCAAAATACCCCT-AATTTCTAA
21607180 AA
1 AA
21607182 ATTATAGAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
27 80 0.91
28 8 0.09
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTCTAA
Found at i:21607154 original size:81 final size:81
Alignment explanation
Indices: 21607011--21607166 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
21607001 TTACCCTCGA
* * * * *
21607011 TTGTGAAATTACTGAAATACCCCTGTAAGATAGAATTATCAAAATACCCCTAGTTTCTAAAATTA
1 TTGTGAAATTACCGAAATACCCCTGTAAGATAAAATTACCAAAATACCCCTAATTACTAAAATTA
*
21607076 CCAAAATACCACTGGT
66 CAAAAATACCACTGGT
21607092 TTGTGAAATTACCGAAATA-CCCT-TAATTTG-TAAAATTACCAAAATACCCCTAAATTAC-AAA
1 TTGTGAAATTACCGAAATACCCCTGTAA---GATAAAATTACCAAAATACCCCT-AATTACTAAA
*
21607153 ATTATAAAAATACC
62 ATTACAAAAATACC
21607167 CTTGACTTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
79 3 0.05
80 4 0.06
81 52 0.81
82 5 0.08
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACCGAAATACCCCTGTAAGATAAAATTACCAAAATACCCCTAATTACTAAAATTA
CAAAAATACCACTGGT
Found at i:21607218 original size:27 final size:27
Alignment explanation
Indices: 21607150--21607230 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
21607140 CCTAAATTAC
* * * *
21607150 AAAATTATAAAAATACCCTTGACTTTCT
1 AAAATTATAGAAATACCATTG-GTTTAT
21607178 AAAAATTATAGAAATACCATTGGTTTAT
1 -AAAATTATAGAAATACCATTGGTTTAT
*
21607206 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
21607231 GTAGATTTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.48
28 5 0.11
29 19 0.41
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.36
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAT
Found at i:21607219 original size:110 final size:108
Alignment explanation
Indices: 21607044--21607250 Score: 263
Period size: 110 Copynumber: 1.9 Consensus size: 108
21607034 TGTAAGATAG
* * * *
21607044 AATTATCAAAATACCCCTAGTTTCTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 AATTATAAAAATACCCCTACTTTCTAAAATTACCAAAATACCACTGGTTTATAAAATTACCGAAA
*
21607109 TACCCTTAATTTGTAAAATTACCAAAATACCCCTAAATTACAA
66 TACCCTTAATTTGTAAAATTACCAAAACACCCCTAAATTACAA
* * * *
21607152 AATTATAAAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTATAAAATTACTG
1 AATTATAAAAATACCCCT-ACTTTCT-AAAATTACCA-AAATACCACTGGTTTATAAAATTACCG
** * *
21607216 AAATACCCTTGGTTTGTAGATTTACCAAAACACCC
63 AAATACCCTTAATTTGTAAAATTACCAAAACACCC
21607251 TTGTAGGATG
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
108 16 0.19
109 7 0.08
110 60 0.72
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (108 bp):
AATTATAAAAATACCCCTACTTTCTAAAATTACCAAAATACCACTGGTTTATAAAATTACCGAAA
TACCCTTAATTTGTAAAATTACCAAAACACCCCTAAATTACAA
Found at i:21608932 original size:27 final size:27
Alignment explanation
Indices: 21608902--21609100 Score: 229
Period size: 27 Copynumber: 7.3 Consensus size: 27
21608892 TACTGAAATG
** *
21608902 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
21608929 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
21608956 CCATCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
**
21608983 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
**
21609010 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
21609037 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
21609064 CCCTC-AGTTTAAGAAAATTATCGTTTTA
1 CCCTCGA-TTT-ACAAAATTACCATTTTA
21609092 CCCTCGATT
1 CCCTCGATT
21609101 GTGAAATTAC
Statistics
Matches: 153, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 130 0.85
28 21 0.14
29 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:21609090 original size:28 final size:27
Alignment explanation
Indices: 21608924--21609100 Score: 232
Period size: 27 Copynumber: 6.5 Consensus size: 27
21608914 AGAATTACCA
* * *
21608924 TTTTACCCTCGATTTATAGAATTACCG
1 TTTTACCCTCGATTTACAAAATTACTG
* * *
21608951 TTTCACCATCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTG
21608978 TTTTACCCTCGATTTACAAAATTACTG
1 TTTTACCCTCGATTTACAAAATTACTG
21609005 TTTTACCCTCGATTTACAAAATTACTG
1 TTTTACCCTCGATTTACAAAATTACTG
**
21609032 TTTTACCCTCGATTTACAAAATTACCA
1 TTTTACCCTCGATTTACAAAATTACTG
*
21609059 TTTTACCCTC-AGTTTAAGAAAATTA-TCG
1 TTTTACCCTCGA-TTT-ACAAAATTACT-G
21609087 TTTTACCCTCGATT
1 TTTTACCCTCGATT
21609101 GTGAAATTAC
Statistics
Matches: 132, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 110 0.83
28 20 0.15
29 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAAAATTACTG
Found at i:21609120 original size:81 final size:80
Alignment explanation
Indices: 21608924--21609120 Score: 204
Period size: 81 Copynumber: 2.4 Consensus size: 80
21608914 AGAATTACCA
* * ** * *
21608924 TTTTACCCTCGATTTATAGAATTACCG-TTTCACCATCGATTTACAAAATTACTATTTTACCCTC
1 TTTTACCCTCGATTTA-AAAATTACTGAAAT-ACCCTCGATTTACAAAATTACCATTTTACCCTC
21608988 GATTTACAAAATTACTG
64 GATTTACAAAATTACTG
***
21609005 TTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-
1 TTTTACCCTCGATTTA-AAAATTACTGAAATACCCTCGATTTACAAAATTACCATTTTACCCTCG
*
21609069 AGTTTAAGAAAATTA-TCG
65 A-TTT-ACAAAATTACT-G
*
21609087 TTTTACCCTCGATTGT-GAAATTACTGAAATACCC
1 TTTTACCCTCGATT-TAAAAATTACTGAAATACCC
21609121 CTATAAGATA
Statistics
Matches: 101, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
80 1 0.01
81 73 0.72
82 26 0.26
83 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (80 bp):
TTTTACCCTCGATTTAAAAATTACTGAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGA
TTTACAAAATTACTG
Found at i:21609122 original size:27 final size:26
Alignment explanation
Indices: 21609092--21609254 Score: 89
Period size: 27 Copynumber: 6.0 Consensus size: 26
21609082 TATCGTTTTA
* **
21609092 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
21609119 CCCT-ATAAGATAGAATTACCAAAATAC
1 CCCTGAT-TG-TAAAATTACCAAAATAC
* *
21609146 CCCTAGTTTCTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * * ***
21609173 CACTGGTTTGTGAAATTACTGGAATA-
1 CCCT-GATTGTAAAATTACCAAAATAC
*
21609199 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
*
21609227 CCCTGATT-TACAAAATTACAAAAATAC
1 CCCTGATTGT--AAAATTACCAAAATAC
21609254 C
1 C
21609255 TTTGACTTTC
Statistics
Matches: 102, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
25 3 0.03
26 6 0.06
27 88 0.86
28 4 0.04
29 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:21609184 original size:81 final size:81
Alignment explanation
Indices: 21609099--21609254 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
21609089 TTACCCTCGA
* *
21609099 TTGTGAAATTACTGAAATACCC-CTATAAGATAGAATTACCAAAATACCCCT-AGTTT-CTAAAA
1 TTGTGAAATTACTGAAATACCCTCAATAAG-TAAAATTACCAAAATACCCCTGA-TTTAC-AAAA
*
21609161 TTACCAAAATACCACTGGT
63 TTACAAAAATACCACTGGT
* **
21609180 TTGTGAAATTACTGGAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA
1 TTGTGAAATTACTGAAATACCCTCAATAAGTAAAATTACCAAAATACCCCTGATTTACAAAATTA
21609245 CAAAAATACC
66 CAAAAATACC
21609255 TTTGACTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
81 60 0.91
82 6 0.09
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATACCCTCAATAAGTAAAATTACCAAAATACCCCTGATTTACAAAATTA
CAAAAATACCACTGGT
Found at i:21609190 original size:54 final size:55
Alignment explanation
Indices: 21609132--21609254 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 55
21609122 TATAAGATAG
* * * ***
21609132 AATTACCAAAATACCCCT-AGTTTCTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACAAAAATACCCCTCAATTTCTAAAATTACCAAAATACCACTGATTTACAA
*** * *
21609186 AATTACTGGAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACAAAAATACCCCTCAATTTCTAAAATTACCAAAATACCACTGATTTACAA
21609240 AATTACAAAAATACC
1 AATTACAAAAATACC
21609255 TTTGACTTTC
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
53 4 0.07
54 49 0.91
55 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (55 bp):
AATTACAAAAATACCCCTCAATTTCTAAAATTACCAAAATACCACTGATTTACAA
Found at i:21609306 original size:27 final size:27
Alignment explanation
Indices: 21609132--21609318 Score: 117
Period size: 27 Copynumber: 6.9 Consensus size: 27
21609122 TATAAGATAG
* * * *
21609132 AATTACCAAAATACCCCTAGTTTCTAA
1 AATTACTAAAATACCCTTGGTTTATAA
* * *
21609159 AATTACCAAAATACCAC-TGGTTTGTGA
1 AATTACTAAAATACC-CTTGGTTTATAA
** *** *
21609186 AATTACTGGAATACCCTCAATTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAA
* * * *
21609213 AATTACCAAAATACCCCTGATTTACAA
1 AATTACTAAAATACCCTTGGTTTATAA
* * * *
21609240 AATTACAAAAATACCTTTGACTTTCTAAA
1 AATTACTAAAATACCCTTG-GTTTAT-AA
*
21609269 AATTA-TAGAAATACCATTGGTTTATAA
1 AATTACTA-AAATACCCTTGGTTTATAA
*
21609296 AATTACTGAAATACCCTTGGTTT
1 AATTACTAAAATACCCTTGGTTT
21609319 GTATTTTTAC
Statistics
Matches: 124, Mismatches: 30, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
26 1 0.01
27 96 0.77
28 10 0.08
29 17 0.14
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGGTTTATAA
Found at i:21609436 original size:27 final size:27
Alignment explanation
Indices: 21609372--21609436 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
21609362 ACCCCTAATA
*
21609372 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
21609399 GGTAAAGTGACCGTAGTA-CCCCTGTAT
1 GGTAAAATGACCGTA-AAGCCCCTGTAG
21609426 GGTAAAATGAC
1 GGTAAAATGAC
21609437 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:21610703 original size:20 final size:20
Alignment explanation
Indices: 21610678--21610748 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
21610668 ATTTTGATAA
*
21610678 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATAC
* * *
21610698 ACATGACATGTATGTTATCC
1 ACATGATATGTATGATATAC
21610718 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATAC
*
21610738 ACATGAGATGT
1 ACATGATATGT
21610749 TCATAAATGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATAC
Found at i:21610874 original size:25 final size:24
Alignment explanation
Indices: 21610795--21610987 Score: 252
Period size: 25 Copynumber: 8.0 Consensus size: 24
21610785 AGGAAGTGCA
21610795 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
*
21610818 AAAGGTCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
21610841 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
21610866 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
21610891 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
21610915 AAAGGGCTTTTGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
*
21610938 AAAAGGGCTTTTGCCCCAGTTAT-T
1 -AAAGGGCTTATGCCCCAGTTATAT
*
21610962 AAAAGAGGC-TAGGCCTCCAGTTATAT
1 -AAAG-GGCTTATGCC-CCAGTTATAT
21610988 GATAAAGCAG
Statistics
Matches: 157, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
23 43 0.27
24 54 0.34
25 59 0.38
26 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:21610912 original size:73 final size:72
Alignment explanation
Indices: 21610794--21610986 Score: 259
Period size: 73 Copynumber: 2.7 Consensus size: 72
21610784 GAGGAAGTGC
* *
21610794 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGTCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
21610857 AGTTATG
66 AGTTATG
*
21610864 ATAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCC
1 A-AAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCC
*
21610929 CCAGTTATT
64 CCAGTTATG
* *
21610938 AAAAGGGCTTTTGCCCCAGTTAT-TAAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATAT-AAAG-GGCTTATGCC-CCAGTTATA
21610987 TGATAAAGCA
Statistics
Matches: 110, Mismatches: 6, Indels: 11
0.87 0.05 0.09
Matches are distributed among these distances:
70 1 0.01
71 23 0.21
72 9 0.08
73 55 0.50
74 22 0.20
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
AGTTATG
Found at i:21617127 original size:2 final size:2
Alignment explanation
Indices: 21617120--21617146 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21617110 GGTTATCATG
21617120 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 A
21617147 GATGTGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21618070 original size:24 final size:24
Alignment explanation
Indices: 21618042--21618090 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
21618032 GAGGAAGAAT
*
21618042 TGGTGGCTTTACCCACAACTTACA
1 TGGTGGCTTTACCCACAACCTACA
**
21618066 TGGTGGCTTTGTCCACAACCTACA
1 TGGTGGCTTTACCCACAACCTACA
21618090 T
1 T
21618091 TGTAGCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (24 bp):
TGGTGGCTTTACCCACAACCTACA
Found at i:21620995 original size:29 final size:29
Alignment explanation
Indices: 21620905--21621064 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
21620895 ACTCGATTTC
* * **
21620905 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
21620934 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** * *
21620962 CGCACACCCAGTGCCGTAAATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
21620992 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21621021 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21621050 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
21621065 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 107 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:21622871 original size:28 final size:28
Alignment explanation
Indices: 21622831--21622894 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
21622821 TGGGAAGTAG
* *
21622831 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
21622859 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
21622887 TTGGGCCT
1 TTGGGCCT
21622895 AAAAGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:21623241 original size:27 final size:27
Alignment explanation
Indices: 21623211--21623570 Score: 357
Period size: 27 Copynumber: 13.6 Consensus size: 27
21623201 TAATAAAGAG
*
21623211 AAATTACCGAAATACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
21623238 AAATTATC-AAAGTGCCC-C-AGTTTGTA
1 AAATTACCGAAA-TACCCTCGA-TTTGTA
** *
21623264 AAATTAGTGAAATACCCTC-AGTTTGAA
1 AAATTACCGAAATACCCTCGA-TTTGTA
*
21623291 AAATTACCGAAATACTCTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
21623317 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
21623344 AAATTACC-AAATTACCCTCGA-TTGTA
1 AAATTACCGAAA-TACCCTCGATTTGTA
** *
21623370 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
21623397 AAATTACC-AAA-ATCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
** * *
21623421 AAATTACTAAAATACCCTCAATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
21623448 AAATTACTGAAACACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
*
21623475 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
21623502 AAATTATCAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
21623529 AAATTATCGAAATA-CCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
21623554 AAATGACCGACATACCC
1 AAATTACCGAAATACCC
21623571 CTATAGGGTA
Statistics
Matches: 285, Mismatches: 35, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
24 11 0.04
25 25 0.09
26 83 0.29
27 165 0.58
28 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:21623294 original size:53 final size:52
Alignment explanation
Indices: 21623211--21623544 Score: 315
Period size: 53 Copynumber: 6.3 Consensus size: 52
21623201 TAATAAAGAG
* * * * *
21623211 AAATTACCGAAATACCC-CCGATTTGTAAAATTATCAAAGTGCCCCAGTTTGTA
1 AAATTACTGAAATACCCTCAGATTTGTAAAATTACCAAA-TACCCC-GATTGTA
* * *
21623264 AAATTAGTGAAATACCCTCAG-TTTGAAAAATTACCGAAATACTCTCGATTGTA
1 AAATTACTGAAATACCCTCAGATTTGTAAAATTACC-AAATAC-CCCGATTGTA
21623317 AAATTACTGAAATACCCTC-GATTTGTAAAATTACCAAATTACCCTCGATTGTA
1 AAATTACTGAAATACCCTCAGATTTGTAAAATTACCAAA-TACCC-CGATTGTA
* * *
21623370 AAATTACTAAAATACCCTCA-ATTTGTAAAATTACCAAA-ATCCTCGATTGTG
1 AAATTACTGAAATACCCTCAGATTTGTAAAATTACCAAATA-CCCCGATTGTA
* * * * *
21623421 AAATTACTAAAATACCCTCA-ATTTGTGAAATTACTGAAACACCCTCGATTTGTG
1 AAATTACTGAAATACCCTCAGATTTGTAAAATTAC-CAAATACCC-CGA-TTGTA
* * *
21623475 AAATTACCGAAACACCCTC-GATTTGTAAAATTATCAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAGATTTGTAAAATTA-CCAAATACCC-CGA-TTGTA
21623529 AAATTA-TCGAAATACC
1 AAATTACT-GAAATACC
21623545 TCGATTGTGA
Statistics
Matches: 240, Mismatches: 26, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
51 41 0.17
52 12 0.05
53 117 0.49
54 69 0.29
55 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (52 bp):
AAATTACTGAAATACCCTCAGATTTGTAAAATTACCAAATACCCCGATTGTA
Found at i:21629186 original size:40 final size:39
Alignment explanation
Indices: 21629141--21629348 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
21629131 CGGAATACAA
*
21629141 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
21629181 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
21629221 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
21629261 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
21629301 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
21629341 CCGGATAT
1 CCGGATAT
21629349 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:21629281 original size:80 final size:80
Alignment explanation
Indices: 21629141--21629347 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
21629131 CGGAATACAA
* * *
21629141 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
*
21629206 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* ** * *
21629221 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACA-ACGACTAGCACAAAT
*
21629285 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
21629301 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
21629348 TCATTCAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:21637154 original size:40 final size:39
Alignment explanation
Indices: 21637109--21637316 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
21637099 CGGAATACAA
*
21637109 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
21637149 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
21637189 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
21637229 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
21637269 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
21637309 CCGGATAT
1 CCGGATAT
21637317 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:21637249 original size:80 final size:80
Alignment explanation
Indices: 21637109--21637315 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
21637099 CGGAATACAA
* * *
21637109 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
*
21637174 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* ** * *
21637189 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACA-ACGACTAGCACAAAT
*
21637253 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
21637269 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
21637316 TCATTCAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:21640588 original size:40 final size:40
Alignment explanation
Indices: 21640529--21640736 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
21640519 CAATTGAATG
* * * *
21640529 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21640569 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
21640609 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21640649 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21640689 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
21640729 ATATCCGG
1 ATATCCGG
21640737 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:21640667 original size:80 final size:80
Alignment explanation
Indices: 21640531--21640736 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
21640521 ATTGAATGAT
* * ** * * *
21640531 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
21640595 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
21640611 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
21640676 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
21640691 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
21640737 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:21648321 original size:93 final size:93
Alignment explanation
Indices: 21648209--21648380 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21648199 GCCCATAAGT
* *
21648209 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21648274 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
21648302 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21648367 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
21648381 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21648376 original size:46 final size:46
Alignment explanation
Indices: 21648201--21648376 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
21648191 TGTAACCCGC
* * *
21648201 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
21648247 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
21648297 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
21648340 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21648377 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:21650801 original size:30 final size:30
Alignment explanation
Indices: 21650757--21650845 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
21650747 CAAAGATAAC
21650757 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
21650786 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
21650816 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
21650846 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:21650805 original size:15 final size:15
Alignment explanation
Indices: 21650757--21650836 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
21650747 CAAAGATAAC
*
21650757 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
21650771 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
21650786 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
21650801 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
21650816 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
21650831 AAGAAA
1 AAGAAA
21650837 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:21650845 original size:15 final size:15
Alignment explanation
Indices: 21650768--21650845 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
21650758 AGAAAACCGA
21650768 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
21650783 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
21650797 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
21650812 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
21650828 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
21650843 ATA
1 ATA
21650846 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:21653908 original size:93 final size:93
Alignment explanation
Indices: 21653796--21653967 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21653786 GCCCATAAGT
* *
21653796 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21653861 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
21653889 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21653954 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
21653968 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21653963 original size:46 final size:46
Alignment explanation
Indices: 21653788--21653963 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
21653778 TGTAACCCGC
* * *
21653788 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
21653834 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
21653884 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
21653927 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21653964 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:21655888 original size:40 final size:40
Alignment explanation
Indices: 21655829--21656036 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
21655819 CAATTGAATG
* * * *
21655829 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21655869 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * * **
21655909 ACATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21655949 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21655989 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
21656029 ATATCCGG
1 ATATCCGG
21656037 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:21655967 original size:80 final size:80
Alignment explanation
Indices: 21655831--21656036 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
21655821 ATTGAATGAT
* ** * * *
21655831 ATCCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 ATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
21655895 -TTGTGCTAGT-GACCAC
64 TTTGTGCAAGTCGACC-C
* * *
21655911 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
21655976 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
21655991 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
21656037 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:21657870 original size:14 final size:13
Alignment explanation
Indices: 21657851--21657881 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
21657841 TCTATCTGCC
21657851 AACTCTTGCAACTT
1 AACTCTTGCAAC-T
21657865 AACTCTTGCAACT
1 AACTCTTGCAACT
21657878 AACT
1 AACT
21657882 TTCCAATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (13 bp):
AACTCTTGCAACT
Found at i:21659758 original size:273 final size:274
Alignment explanation
Indices: 21659251--21659799 Score: 886
Period size: 273 Copynumber: 2.0 Consensus size: 274
21659241 GGGATCCATT
21659251 TACTATACGAAAACACATTTTCAAATGTCAGGAGTCATCACACTATCACAGTATAAAATATGGCA
1 TACTATACGAAAACACATTTTCAAATGTCAGGAGTCATCACACTATCACAGTATAAAATATGGCA
* * * *
21659316 TGTATAGCTAGACTCACACACGCTACGTTAGTCCTAGAACTGATTAAACGGTAGCTCTAATACCA
66 TGTATAGCTAGACTCACACACACTACGTTAGGCCTAGAACTGATTAAACCGTAGCTCTAATACAA
* * * *
21659381 ATCAAATGTAACACCCGTAACCCGTATTCGTTGCCGAAATGGGTTTACCAGGCATTACCGATCAT
131 ATCAAATGTAACACCCCTAACCCGTATCCGTCGCCGAAATGGGGTTACCAGGCATTACCGATCAT
* *
21659446 AATACAATTTAGAACAGACTTTCATTACAAATTTAATCATCTAATAAAATTTTTAAACCAAACTA
196 AATACAATTTAGAACAGACTTTCATTAAAAAGTTAATCATCTAATAAAATTTTTAAACCAAACTA
*
21659511 ACATGCTTCGATTA
261 ACATACTTCGATTA
* *
21659525 TACTATACGAAAACACATTTTCAAATGTCAGGAGTTATCACACTATCATAGTATAAAATATGGCA
1 TACTATACGAAAACACATTTTCAAATGTCAGGAGTCATCACACTATCACAGTATAAAATATGGCA
* * *
21659590 TGTATAGTTAGACTCACACACACTACGTT-GGCCTAGCA-TCGATTAAACCGTAGCTCTGATACA
66 TGTATAGCTAGACTCACACACACTACGTTAGGCCTAGAACT-GATTAAACCGTAGCTCTAATACA
* ** *
21659653 AATTAAATGTAATGCCCCTAACCCGTATCCGTCGCCGGAATGGGGTTACCAGGCATTACCGATCA
130 AATCAAATGTAACACCCCTAACCCGTATCCGTCGCCGAAATGGGGTTACCAGGCATTACCGATCA
21659718 TAATACAATTTAGAACAGACTTTCATTAAAAAGTTAATCATCTAATAAAATTTTTAAACCAAACT
195 TAATACAATTTAGAACAGACTTTCATTAAAAAGTTAATCATCTAATAAAATTTTTAAACCAAACT
*
21659783 AACATATTTCGATTA
260 AACATACTTCGATTA
21659798 TA
1 TA
21659800 ACATTTATCT
Statistics
Matches: 253, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
272 1 0.00
273 162 0.64
274 90 0.36
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (274 bp):
TACTATACGAAAACACATTTTCAAATGTCAGGAGTCATCACACTATCACAGTATAAAATATGGCA
TGTATAGCTAGACTCACACACACTACGTTAGGCCTAGAACTGATTAAACCGTAGCTCTAATACAA
ATCAAATGTAACACCCCTAACCCGTATCCGTCGCCGAAATGGGGTTACCAGGCATTACCGATCAT
AATACAATTTAGAACAGACTTTCATTAAAAAGTTAATCATCTAATAAAATTTTTAAACCAAACTA
ACATACTTCGATTA
Found at i:21660324 original size:18 final size:18
Alignment explanation
Indices: 21660310--21660350 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21660300 CTCTATCACT
*
21660310 TCATATACATATATCTTA
1 TCATATACATATATCCTA
*
21660328 TCATATACATATAT-ATA
1 TCATATACATATATCCTA
21660345 TCATAT
1 TCATAT
21660351 CAGTCCATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (18 bp):
TCATATACATATATCCTA
Found at i:21661818 original size:56 final size:56
Alignment explanation
Indices: 21661732--21661855 Score: 185
Period size: 56 Copynumber: 2.2 Consensus size: 56
21661722 CATATATCTT
* *** * *
21661732 GCACACATATATTGAAGTCACATATCGATGCCAACGTGTAAAATGTGGTCTTACTC
1 GCACACATATATAGAAGTCACATATCGATGCCAACACATAAAACGTGGCCTTACTC
*
21661788 GCACACATATATAGAAGTCACATATCGATGCCAACACATAAAACGTGGCCTTGCTC
1 GCACACATATATAGAAGTCACATATCGATGCCAACACATAAAACGTGGCCTTACTC
21661844 GCACACATATAT
1 GCACACATATAT
21661856 CGATGCCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (56 bp):
GCACACATATATAGAAGTCACATATCGATGCCAACACATAAAACGTGGCCTTACTC
Found at i:21673367 original size:34 final size:34
Alignment explanation
Indices: 21673322--21673406 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
21673312 TTGCATATCT
* * *
21673322 ATACTGCTACTGTTACTGAAATGGGCTATGGCCC
1 ATACTGATACTGATACTGAAATGGGCTAAGGCCC
**
21673356 ATACTGATACTGATACTGTGATGGGCTAAGGCCC
1 ATACTGATACTGATACTGAAATGGGCTAAGGCCC
*
21673390 -TAACTGAAACTGA-ACTG
1 AT-ACTGATACTGATACTG
21673407 TTACTGATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.11
34 39 0.89
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (34 bp):
ATACTGATACTGATACTGAAATGGGCTAAGGCCC
Found at i:21675385 original size:49 final size:49
Alignment explanation
Indices: 21675309--21675437 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 49
21675299 GCACATTGAA
* ** * *
21675309 GTCGATGCCGTGTCCCAGACAATTCTTACACAAACTTTCATATATTGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACAAACTCTCATATA-TCAGT
* * * *
21675358 GAT-GATGCCATGTCCCAGACAGGTCTTAGACTAGCTCTCATCTATCAGT
1 G-TCGATGCCATGTCCCAGACAGGTCTTACACAAACTCTCATATATCAGT
*
21675407 GTCGATGCCATGTCCCAGATAGGTCTTACAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACAC
21675438 TGACACACAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 4 0.06
49 61 0.92
50 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACAAACTCTCATATATCAGT
Found at i:21675605 original size:46 final size:46
Alignment explanation
Indices: 21675499--21675625 Score: 150
Period size: 46 Copynumber: 2.8 Consensus size: 46
21675489 TATGTCCTAA
* * * *
21675499 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAT-AAT
* *
21675546 -GCCAATGCATGTCCCAGACATGTCTTACACTGGCACTCATGAT-GT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCAT-ATAAT
* *
21675591 GGCCGATGCTTGTCCTAGACATGTCTTACACTGGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGC
21675626 TCACATACCA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
45 1 0.01
46 67 0.97
47 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATATAAT
Found at i:21678525 original size:46 final size:46
Alignment explanation
Indices: 21678452--21678627 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
21678442 AATTTGGGCA
* *
21678452 TCCGCACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
21678498 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * *
21678543 CATCCGAGCTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAA-A
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
21678590 ACCCAAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21678628 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 6 0.06
46 55 0.53
47 27 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:21678607 original size:93 final size:93
Alignment explanation
Indices: 21678448--21678620 Score: 260
Period size: 93 Copynumber: 1.9 Consensus size: 93
21678438 CGGAAATTTG
* * ** * *
21678448 GGCATCCGCACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGCACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACAACCCAACTCATTGAG
21678513 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
21678541 GGCATCCG-AGCTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAA-AACCCAAGCTCATTG
1 GGCATCCGCA-CTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACAACCCAA-CTCATTG
21678604 AGTTGAGTCCGAGTTCG
64 AGTTGAGTCCGAGTTCG
21678621 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
92 5 0.07
93 67 0.93
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGCACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACAACCCAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:21684002 original size:18 final size:19
Alignment explanation
Indices: 21683981--21684016 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21683971 AATAAAGAAA
*
21683981 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
21683999 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
21684017 AAAAAGGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:21685400 original size:59 final size:58
Alignment explanation
Indices: 21685304--21685435 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
21685294 AAAATTGTAC
21685304 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
21685362 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
21685421 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
21685436 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:21685424 original size:88 final size:89
Alignment explanation
Indices: 21685274--21685435 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
21685264 GACAAGATTG
* * *
21685274 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
21685339 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
21685363 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
21685427 AAGTGTGCG
66 AAGTGTGCG
21685436 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:21685447 original size:29 final size:29
Alignment explanation
Indices: 21685304--21685435 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
21685294 AAAATTGTAC
*
21685304 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
21685333 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
21685362 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
21685392 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
21685421 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
21685436 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:21693436 original size:154 final size:154
Alignment explanation
Indices: 21693156--21693461 Score: 612
Period size: 154 Copynumber: 2.0 Consensus size: 154
21693146 TTATAAATTA
21693156 GCACCTAATTAATAAAAATCAAGGCACGAAATATTCACACATACAAATTCCACATACAATAAGCA
1 GCACCTAATTAATAAAAATCAAGGCACGAAATATTCACACATACAAATTCCACATACAATAAGCA
21693221 CAGAATATAACACCTAATTATTTTTGTGACTCGGTTTTGTGGTCCCGAAACCACTCTCCGACTAG
66 CAGAATATAACACCTAATTATTTTTGTGACTCGGTTTTGTGGTCCCGAAACCACTCTCCGACTAG
21693286 GGTCACATTAGGGGTGTCACAACT
131 GGTCACATTAGGGGTGTCACAACT
21693310 GCACCTAATTAATAAAAATCAAGGCACGAAATATTCACACATACAAATTCCACATACAATAAGCA
1 GCACCTAATTAATAAAAATCAAGGCACGAAATATTCACACATACAAATTCCACATACAATAAGCA
21693375 CAGAATATAACACCTAATTATTTTTGTGACTCGGTTTTGTGGTCCCGAAACCACTCTCCGACTAG
66 CAGAATATAACACCTAATTATTTTTGTGACTCGGTTTTGTGGTCCCGAAACCACTCTCCGACTAG
21693440 GGTCACATTAGGGGTGTCACAA
131 GGTCACATTAGGGGTGTCACAA
21693462 AAGGTCTAAC
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 152 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (154 bp):
GCACCTAATTAATAAAAATCAAGGCACGAAATATTCACACATACAAATTCCACATACAATAAGCA
CAGAATATAACACCTAATTATTTTTGTGACTCGGTTTTGTGGTCCCGAAACCACTCTCCGACTAG
GGTCACATTAGGGGTGTCACAACT
Found at i:21694009 original size:30 final size:29
Alignment explanation
Indices: 21693975--21694031 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
21693965 ATAGTATCGT
21693975 ATCTTGGATTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
* *
21694005 ATCTTTGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
21694032 TGTTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.58
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:21703709 original size:21 final size:21
Alignment explanation
Indices: 21703683--21703726 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
21703673 GATTCCCTAG
*
21703683 AGGTATTATTGAAGATGTTCT
1 AGGTATTATTGAAGATGTGCT
21703704 AGGTATTATTGAAGATGTGCT
1 AGGTATTATTGAAGATGTGCT
21703725 AG
1 AG
21703727 TTAAAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.39
Consensus pattern (21 bp):
AGGTATTATTGAAGATGTGCT
Found at i:21703735 original size:21 final size:21
Alignment explanation
Indices: 21703690--21703736 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21703680 TAGAGGTATT
* **
21703690 ATTGAAGATGTTCTAGGTATT
1 ATTGAAGATGTGCTAGGTAAA
*
21703711 ATTGAAGATGTGCTAGTTAAA
1 ATTGAAGATGTGCTAGGTAAA
21703732 ATTGA
1 ATTGA
21703737 TAAATTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (21 bp):
ATTGAAGATGTGCTAGGTAAA
Found at i:21704737 original size:55 final size:55
Alignment explanation
Indices: 21704638--21704779 Score: 160
Period size: 55 Copynumber: 2.6 Consensus size: 55
21704628 GCAATATGGA
* * * * *** *
21704638 CGTGGTCGAGCCTGCTAAAACAACACAGGCGTGCAACACACCCGTGTGGAAGAAC
1 CGTGGTCGAACCTGTTAAAATAACACGGGCGTTTGACACACCCGTGTGGAACAAC
* * *
21704693 TGTGAG-CGAACCTGTTAAAATAGCACGGGCGTTTGACACACCCGTGTGGAACACC
1 CGTG-GTCGAACCTGTTAAAATAACACGGGCGTTTGACACACCCGTGTGGAACAAC
*
21704748 CGTGGTCGAACCTGTTAAATTAACACGGGCGT
1 CGTGGTCGAACCTGTTAAAATAACACGGGCGT
21704780 GGGAGAAGCG
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 1 0.01
55 69 0.97
56 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.18
Consensus pattern (55 bp):
CGTGGTCGAACCTGTTAAAATAACACGGGCGTTTGACACACCCGTGTGGAACAAC
Found at i:21706198 original size:12 final size:12
Alignment explanation
Indices: 21706168--21706197 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21706158 TTATTAAAAC
21706168 TACTTTTATTTT
1 TACTTTTATTTT
21706180 TACTTTTATTTT
1 TACTTTTATTTT
21706192 TA-TTTT
1 TACTTTT
21706198 TTAGCAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (12 bp):
TACTTTTATTTT
Done.