Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 68 of 182
Found at i:21694687 original size:29 final size:30
Alignment explanation
Indices: 21694645--21695133 Score: 482
Period size: 30 Copynumber: 16.4 Consensus size: 30
21694635 GAACTTCTTC
21694645 AAAATTACATTTTTAACCCTAAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
*
21694675 AAAATTACATTTTT-ACCCTCAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* * *
21694704 AAAATTCCATTTTTAACCCCAAAACTTCAAAA
1 AAAATTACATTTTTAACCCTAAAACTTC--CA
* * * *
21694736 AAAAATACATTTTTATCCC-CAAACTTCTCC
1 AAAATTACATTTTTAACCCTAAAACTTC-CA
* *
21694766 AAAATTACATTTTTGACCC-CAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
*
21694795 AAAATTACATTTTT-ACCCTCAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* *
21694824 AAAATTCCATTTTTAACCCCAAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* * * *
21694854 AGAATTACATTTTTATCCAC-GAACCTCTCC-
1 AAAATTACATTTTTAACC-CTAAAACT-TCCA
* * *
21694884 AAAATTACATTTTTGACCTTAAAACTTCTA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
**
21694914 AAAATTACATTTTT-ACCCTCGAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* **
21694943 AAAATTAAATTTTT-ACCCCCAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* * *
21694972 AAAATTCCATTTTAAACCCCAAAACTTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* *
21695002 AAAATTACATTTTTATCCCT-AAACTTGCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
*
21695031 AAAATT-CTATTTTTAA-CCTCAAAACATCCA
1 AAAATTAC-ATTTTTAACCCT-AAAACTTCCA
* *
21695061 AAAATTACTTTTTTACCCCTAAAA-TTCCA
1 AAAATTACATTTTTAACCCTAAAACTTCCA
* * *
21695090 AAAATTTCATTTTTTA-CCTCAAAACTTGCA
1 AAAATTACATTTTTAACCCT-AAAACTTCCA
21695120 AAAATTACCATTTT
1 AAAATTA-CATTTT
21695134 ACCCCGGGAT
Statistics
Matches: 382, Mismatches: 59, Indels: 35
0.80 0.12 0.07
Matches are distributed among these distances:
28 11 0.03
29 156 0.41
30 177 0.46
31 21 0.05
32 17 0.04
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAATTACATTTTTAACCCTAAAACTTCCA
Found at i:21694728 original size:59 final size:60
Alignment explanation
Indices: 21694645--21695133 Score: 529
Period size: 59 Copynumber: 8.2 Consensus size: 60
21694635 GAACTTCTTC
*
21694645 AAAATTACATTTTTAACCCTAAAACTTCCAAAAATTACATTTTTACCCTC-AAACTTCCA
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAAACTTCCA
* * * *
21694704 AAAATTCCATTTTTAACCCCAAAACTTCAAAAAAAAATACATTTTTATCCC-C-AAACTTCTCC
1 AAAATTACATTTTTAACCCCAAAACTTC--CAAAAATTACATTTTTA-CCCTCAAAACTTC-CA
*
21694766 AAAATTACATTTTTGACCCC-AAACTTCCAAAAATTACATTTTTACCCTC-AAACTTCCA
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAAACTTCCA
* * * * * *
21694824 AAAATTCCATTTTTAACCCCAAAACTTCCAAGAATTACATTTTTATCCACGAACCTCTCC-
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAAACT-TCCA
* ** * *
21694884 AAAATTACATTTTTGACCTTAAAACTTCTAAAAATTACATTTTTACCCTC-GAACTTCCA
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAAACTTCCA
* * * *
21694943 AAAATTAAATTTTT-ACCCCCAAACTTCCAAAAATTCCATTTTAAACCC-CAAAACTTCCA
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACATTTT-TACCCTCAAAACTTCCA
* * * * *
21695002 AAAATTACATTTTT-ATCCCTAAACTTGCAAAAATT-CTATTTTTAACCTCAAAACATCCA
1 AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTAC-ATTTTTACCCTCAAAACTTCCA
* * *
21695061 AAAATTAC-TTTTTTACCCCTAAAA-TTCCAAAAATTTCATTTTTTA-CCTCAAAACTTGCA
1 AAAATTACATTTTTAACCCC-AAAACTTCCAAAAATTACA-TTTTTACCCTCAAAACTTCCA
21695120 AAAATTACCATTTT
1 AAAATTA-CATTTT
21695134 ACCCCGGGAT
Statistics
Matches: 365, Mismatches: 46, Indels: 36
0.82 0.10 0.08
Matches are distributed among these distances:
58 58 0.16
59 191 0.52
60 57 0.16
61 37 0.10
62 22 0.06
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.34
Consensus pattern (60 bp):
AAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAAACTTCCA
Found at i:21695149 original size:59 final size:58
Alignment explanation
Indices: 21694611--21695162 Score: 268
Period size: 59 Copynumber: 9.3 Consensus size: 58
21694601 CCTTAAACTG
* ** *
21694611 TCCAAAAATTTTA-TTTTAACCTCCGAACTTCTTC-AAAATTA-CATTTTTAACCCTAAA-A
1 TCCAAAAATTTCATTTTTAACCTCAAAACTTC--CAAAAATTACCA-TTTT-ACCCCAAATA
* *
21694669 CTTCCAAAAATTACATTTTTACCCTC-AAACTTCCAAAAATT-CCATTTTTAACCCCAAA-A
1 --TCCAAAAATTTCATTTTTAACCTCAAAACTTCCAAAAATTACCA-TTTT-ACCCCAAATA
* * * * * *
21694728 CTTCAAAAAAAAATACATTTTTATCC-CCAAACTTCTCCAAAATTA-CATTTTTGACCCCAAACT
1 --TC--CAAAAATTTCATTTTTAACCTCAAAACTTC-CAAAAATTACCA-TTTT-ACCCCAAA-T
21694791 -
58 A
* *
21694791 TCCAAAAATTACATTTTTACCCTC-AAACTTCCAAAAATT-CCATTTTTAACCCCAAA-A
1 TCCAAAAATTTCATTTTTAACCTCAAAACTTCCAAAAATTACCA-TTTT-ACCCCAAATA
* * * * * * **
21694848 CTTCCAAGAATTACATTTTTATCCACGAACCTCTCC-AAAATTA-CATTTTTGACCTTAAA-A
1 --TCCAAAAATTTCATTTTTAACCTCAAAACT-TCCAAAAATTACCA-TTTT-ACCCCAAATA
* * * * *
21694908 CTTCTAAAAATTACATTTTTACCCTC-GAACTTCCAAAAATTA-AATTTTTACCCCCAAACT-
1 --TCCAAAAATTTCATTTTTAACCTCAAAACTTCCAAAAATTACCA-TTTTA-CCCCAAA-TA
* * * *
21694968 TCCAAAAATTCCATTTTAAACCCCAAAACTTCCAAAAATTA-CATTTTTATCCCTAAACT-
1 TCCAAAAATTTCATTTTTAACCTCAAAACTTCCAAAAATTACCA-TTTTA-CCCCAAA-TA
* * **
21695027 TGCAAAAA-TTCTATTTTTAACCTCAAAACATCCAAAAATTACTTTTTTACCCCTAAA-A
1 TCCAAAAATTTC-ATTTTTAACCTCAAAACTTCCAAAAATTACCATTTTACCCC-AAATA
* * **
21695085 TTCCAAAAATTTCATTTTTTACCTCAAAACTTGCAAAAATTACCATTTTACCCCGGGATA
1 -TCCAAAAATTTCATTTTTAACCTCAAAACTTCCAAAAATTACCATTTTACCCC-AAATA
*
21695145 TCCAAAAATTTCGTTTTT
1 TCCAAAAATTTCATTTTT
21695163 GATCCTGATT
Statistics
Matches: 404, Mismatches: 58, Indels: 61
0.77 0.11 0.12
Matches are distributed among these distances:
58 51 0.13
59 224 0.55
60 69 0.17
61 38 0.09
62 22 0.05
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.34
Consensus pattern (58 bp):
TCCAAAAATTTCATTTTTAACCTCAAAACTTCCAAAAATTACCATTTTACCCCAAATA
Found at i:21696444 original size:18 final size:18
Alignment explanation
Indices: 21696423--21696464 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
21696413 GAGTTCGCGT
*
21696423 CTTTTGATGAGCTCGTAG
1 CTTTTGATAAGCTCGTAG
21696441 CTTTTGATAAGCTCGTAG
1 CTTTTGATAAGCTCGTAG
*
21696459 TTTTTG
1 CTTTTG
21696465 TTTGAGCCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.45
Consensus pattern (18 bp):
CTTTTGATAAGCTCGTAG
Found at i:21701110 original size:17 final size:17
Alignment explanation
Indices: 21701088--21701122 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21701078 TAAATGAGTT
21701088 AATTAGG-ATTAAATTGG
1 AATTAGGTA-TAAATTGG
21701105 AATTAGGTATAAATTGG
1 AATTAGGTATAAATTGG
21701122 A
1 A
21701123 TGGAAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (17 bp):
AATTAGGTATAAATTGG
Found at i:21709572 original size:20 final size:19
Alignment explanation
Indices: 21709549--21709594 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
21709539 AATATGTTAA
* *
21709549 TGAATTGATTATGATTTATG
1 TGAATTGAGTAT-AATTATG
21709569 TGAATTTGAGTATAATTATG
1 TGAA-TTGAGTATAATTATG
21709589 TGAATT
1 TGAATT
21709595 CGAGGGTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 14 0.61
21 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (19 bp):
TGAATTGAGTATAATTATG
Found at i:21723929 original size:29 final size:30
Alignment explanation
Indices: 21723861--21723936 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
21723851 GATTTTTTAC
* *
21723861 AAAATAAAATATATTAAATACATTAAAAACT
1 AAAATAAAA-ATATTTAAGACATTAAAAACT
*
21723892 AAAATAAAAATTTTTAAGACATTAAAAA-T
1 AAAATAAAAATATTTAAGACATTAAAAACT
* *
21723921 ATATTAAAAATATTTA
1 AAAATAAAAATATTTA
21723937 TATTAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 14 0.36
30 16 0.41
31 9 0.23
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (30 bp):
AAAATAAAAATATTTAAGACATTAAAAACT
Found at i:21724135 original size:33 final size:33
Alignment explanation
Indices: 21724074--21724142 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 33
21724064 ATTGCTATTA
21724074 AATTATTAATTTAATATAAATATAAATATATAT
1 AATTATTAATTTAATATAAATATAAATATATAT
*
21724107 AATTATT-ATTTAATAT--ATATAATTA-ATAT
1 AATTATTAATTTAATATAAATATAAATATATAT
21724136 AATTATT
1 AATTATT
21724143 TTTATAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
29 11 0.31
30 8 0.23
32 9 0.26
33 7 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
AATTATTAATTTAATATAAATATAAATATATAT
Found at i:21724155 original size:26 final size:29
Alignment explanation
Indices: 21724074--21724155 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 29
21724064 ATTGCTATTA
*
21724074 AATTATTAATTTAATATAAATATAAATATATAT
1 AATTATT-ATTT-A-AT-AATATAATTATATAT
21724107 AATTATTATTTAATATATATAATTA-ATAT
1 AATTATTATTTAATA-ATATAATTATATAT
21724136 AATTATT-TTT-ATAATATAAT
1 AATTATTATTTAATAATATAAT
21724156 ACATTCTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
26 7 0.15
27 3 0.06
28 3 0.06
29 12 0.26
30 10 0.21
31 1 0.02
32 4 0.09
33 7 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
AATTATTATTTAATAATATAATTATATAT
Found at i:21724332 original size:19 final size:20
Alignment explanation
Indices: 21724308--21724346 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21724298 TAAAAAATGA
21724308 ATATGA-ATATTTTAAAATT
1 ATATGATATATTTTAAAATT
* *
21724327 ATATGATATGTTTTATAATT
1 ATATGATATATTTTAAAATT
21724347 CATTCAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATATGATATATTTTAAAATT
Found at i:21726874 original size:3 final size:3
Alignment explanation
Indices: 21726866--21726912 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
21726856 GGGGAGGCGT
21726866 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21726913 TAGGGTATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21728765 original size:12 final size:13
Alignment explanation
Indices: 21728748--21728781 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
21728738 GTTACTAAAT
21728748 TTAAATTTT-TTA
1 TTAAATTTTGTTA
21728760 TTAAATTTTGTTA
1 TTAAATTTTGTTA
*
21728773 TTCAATTTT
1 TTAAATTTT
21728782 AATTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (13 bp):
TTAAATTTTGTTA
Found at i:21734038 original size:6 final size:6
Alignment explanation
Indices: 21734013--21734051 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
21734003 ACAATTCATA
* * *
21734013 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
21734052 ATTTTGATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:21742280 original size:12 final size:12
Alignment explanation
Indices: 21742263--21742287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21742253 TTGTTATATG
21742263 ATGAATGCTATT
1 ATGAATGCTATT
21742275 ATGAATGCTATT
1 ATGAATGCTATT
21742287 A
1 A
21742288 ATTCTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:21745412 original size:21 final size:21
Alignment explanation
Indices: 21745362--21745427 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
21745352 TATTTAAAAA
21745362 ATATTTAATATATATATAAAT
1 ATATTTAATATATATATAAAT
21745383 AT-TTATAATATCA-A-ATAAAT
1 ATATT-TAATAT-ATATATAAAT
* *
21745403 GATATTTAATAAAT-TTTAAAT
1 -ATATTTAATATATATATAAAT
21745424 ATAT
1 ATAT
21745428 AATATTTGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
20 13 0.35
21 21 0.57
22 3 0.08
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATTTAATATATATATAAAT
Found at i:21745432 original size:25 final size:23
Alignment explanation
Indices: 21745373--21745434 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
21745363 TATTTAATAT
21745373 ATATATAAATATTTATAATATCAA
1 ATATAT-AATATTTATAATATCAA
* * * *
21745397 ATAAATGATATTTAATAAATTTTAA
1 ATATATAATATTT-AT-AATATCAA
21745422 ATATATAATATTT
1 ATATATAATATTT
21745435 GTCAATTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 6 0.20
24 7 0.23
25 17 0.57
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATATATAATATTTATAATATCAA
Found at i:21745625 original size:14 final size:14
Alignment explanation
Indices: 21745608--21745635 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21745598 TGAGTTTTTT
21745608 TTATTATATTTTAA
1 TTATTATATTTTAA
21745622 TTATTATATTTTAA
1 TTATTATATTTTAA
21745636 ATGTGATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTATATTTTAA
Found at i:21747508 original size:18 final size:17
Alignment explanation
Indices: 21747491--21747545 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
21747481 GTTTATTTAT
21747491 AATTTATAATTTAATT-
1 AATTTATAATTTAATTA
*
21747507 ATTTTAAATAATTTAATTA
1 AATTT--ATAATTTAATTA
* *
21747526 AAGTTA-AATTAAATTA
1 AATTTATAATTTAATTA
21747542 AATT
1 AATT
21747546 GAAAAAGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 16 0.52
17 1 0.03
18 11 0.35
19 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
AATTTATAATTTAATTA
Found at i:21750554 original size:18 final size:17
Alignment explanation
Indices: 21750512--21750554 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
21750502 AAGTTAAGTT
*
21750512 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
21750529 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
21750547 TATAATTT
1 TATAATTT
21750555 AGAATACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:21751054 original size:15 final size:14
Alignment explanation
Indices: 21751029--21751071 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
21751019 TACTCTCAAT
* *
21751029 TTTTACCAAAATTG
1 TTTTACTAAAATTA
21751043 TTTTGACTAAAA-TA
1 TTTT-ACTAAAATTA
21751057 TTTTACTAAAATTA
1 TTTTACTAAAATTA
21751071 T
1 T
21751072 GATTTAGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 7 0.28
14 12 0.48
15 6 0.24
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (14 bp):
TTTTACTAAAATTA
Found at i:21768867 original size:24 final size:24
Alignment explanation
Indices: 21768834--21768882 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
21768824 AAAATTAAAT
* *
21768834 ATTTTGAATTTTTAGTTTTTTTAA
1 ATTTTAAATTTTAAGTTTTTTTAA
*
21768858 ATTTTAAATTTTAATTTTTTTTAA
1 ATTTTAAATTTTAAGTTTTTTTAA
21768882 A
1 A
21768883 AATATGTTAA
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:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTAAATTTTAAGTTTTTTTAA
Found at i:21769317 original size:9 final size:9
Alignment explanation
Indices: 21769265--21769317 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
21769255 TAATTGTTAT
21769265 ATTTTTTAA
1 ATTTTTTAA
21769274 ATATTTTGTAA
1 AT-TTTT-TAA
21769285 ATTTTGTTAA
1 ATTTT-TTAA
21769295 A-TTTTT-A
1 ATTTTTTAA
*
21769302 ATATTTTAA
1 ATTTTTTAA
21769311 ATTTTTT
1 ATTTTTT
21769318 CTTAATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 2 0.05
8 6 0.16
9 12 0.32
10 11 0.30
11 6 0.16
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:21769324 original size:27 final size:28
Alignment explanation
Indices: 21769267--21769346 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 28
21769257 ATTGTTATAT
*
21769267 TTTTTAAATATTTTGTAAATTTTGT-TAAA
1 TTTTTAAATA-TTT-TAAATTTTTTCTAAA
*
21769296 TTTTT-AATATTTTAAATTTTTTCTTAA
1 TTTTTAAATATTTTAAATTTTTTCTAAA
* **
21769323 TTTTTCAA-ATTTTAGTTTTTTTCT
1 TTTTTAAATATTTTAAATTTTTTCT
21769347 CTTTTATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.20
27 25 0.56
28 6 0.13
29 5 0.11
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTTAAATATTTTAAATTTTTTCTAAA
Found at i:21769370 original size:28 final size:27
Alignment explanation
Indices: 21769339--21769408 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
21769329 AAATTTTAGT
*
21769339 TTTTTTC-TCTTTTATAATATTTTTATA
1 TTTTTTCAT-TTTTATAAAATTTTTATA
*
21769366 GTTTTTTCATTTTTCTAAAATTTTTATA
1 -TTTTTTCATTTTTATAAAATTTTTATA
*
21769394 TTTTTCTAATTTTTA
1 TTTTT-TCATTTTTA
21769409 ATGATTTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.14
28 30 0.83
29 1 0.03
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.69
Consensus pattern (27 bp):
TTTTTTCATTTTTATAAAATTTTTATA
Found at i:21769415 original size:19 final size:18
Alignment explanation
Indices: 21769374--21769435 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
21769364 TAGTTTTTTC
21769374 ATTTTTCTAAAATTTTTAT
1 ATTTTTCT-AAATTTTTAT
21769393 ATTTTTCT-AATTTTTA-
1 ATTTTTCTAAATTTTTAT
*
21769409 ATGATTTTCTTAAATTTTTTT
1 AT--TTTTC-TAAATTTTTAT
21769430 ATTTTT
1 ATTTTT
21769436 AATGCAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 2 0.05
17 8 0.22
18 5 0.14
19 13 0.35
20 7 0.19
21 2 0.05
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTTTCTAAATTTTTAT
Found at i:21770452 original size:19 final size:18
Alignment explanation
Indices: 21770422--21770457 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21770412 ATATTTTTTT
21770422 AAATTATAAAAAAATATA
1 AAATTATAAAAAAATATA
*
21770440 AAATTACTAAAAATATAT
1 AAATTA-TAAAAAAATAT
21770458 GTTTAGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATTATAAAAAAATATA
Found at i:21774346 original size:24 final size:21
Alignment explanation
Indices: 21774294--21774370 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 21
21774284 CTTGCAACTT
21774294 CTACCGATACATGCATACAAA
1 CTACCGATACATGCATACAAA
*
21774315 CTATCGATACAT-CAATACACATAA
1 CTACCGATACATGC-AT--ACA-AA
* *
21774339 CTACCGATACTTGCA-ATCCAA
1 CTACCGATACATGCATA-CAAA
*
21774360 CTACCAATACA
1 CTACCGATACA
21774371 ACTCAAGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
20 1 0.02
21 25 0.57
22 1 0.02
23 3 0.07
24 13 0.30
25 1 0.02
ACGTcount: A:0.42, C:0.30, G:0.06, T:0.22
Consensus pattern (21 bp):
CTACCGATACATGCATACAAA
Found at i:21775992 original size:27 final size:25
Alignment explanation
Indices: 21775948--21776000 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
21775938 TTCAATTATT
21775948 TTTACCTATTATCACTTAATTACTAAA
1 TTTACCTATTATCACTT-ATTAC-AAA
*
21775975 TTTACCTATT-TACCCTTATTACAAA
1 TTTACCTATTAT-CACTTATTACAAA
21776000 T
1 T
21776001 CATCAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 6 0.25
27 14 0.58
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTACCTATTATCACTTATTACAAA
Found at i:21781372 original size:758 final size:758
Alignment explanation
Indices: 21779524--21784010 Score: 5347
Period size: 763 Copynumber: 6.0 Consensus size: 758
21779514 ACAAAACCTA
* * * ** *
21779524 ACTCAAAAGTAAAGGATTGTTCCTTTCCCTTAGAATATAC-AGAAAGCTTAAAATATAAAACAAT
1 ACTCAAAGGTAAAAGATTGTTCCCTTCCCCAAGAATATACTA-AAAGCTTAAAATATAAAACAAC
* * **
21779588 ACAAAATCAGAATCTGTATAACATTAAGAAGAAAA-AGACAAAAACAAATGGCTATTTACCGTAC
65 ACAAAATCAGAATCTATATAACATTAGGAAGAAAAGAGACAAAAACAAATGGCTATTTGTCGTAC
* * *
21779652 TATTCTTTCATTTACAGGAAATAAAACCCACATTACAAGATTTGCTCTAGTTGAACCAGATTAAA
130 TATTCTTTCATTTACAGGAAACAAAACTCACATTACAAGATTTGCTCGAGTTGAACCAGATTAAA
* ** * * *
21779717 ACCAAACAAATAGCATATAGTCCCCCCCAA-AACACTAAAAGTTTAAAGTAAAAACACACCCCAA
195 ACCAACCAAA-A-CATATAGT--TTCCCAAGAATACTAAAAGCTTAAAGTAAAAACACAACCCAA
* *
21779781 AATCCATTACATCTTTATTTTTCGATTCTTTTTTTTATCTTGTTTCTAATGCAAAAAGAGAACCA
256 AATCCATTACCTCTTTATTTTTCGATTC--TTTTTTATCTTGTTTCTAATGCAAAAATAGAACCA
* * *
21779846 TTGATTTTTTTGCTTTAATAGTAGGGGTTGAAATTTGGGAATGGGATGTAGAGGAGGGTTGGAGA
319 TTGATTTTTTTGCTTTAACAGTAGGGGTTGGAATTTGGGAATGGGATGTAGGGGAGGGTTGGAGA
* * *
21779911 AGTAAAAAAGTTAGAGATGAAGAGGGAATAAATGAAAGCATTTTTATTTTCTGCTTTTCTTTTTC
384 AGTAAAAAAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTCTGC--TT-TTTTTC
* * * *
21779976 TTTCCTATTAAGAAACTTCAGTCGAAAACATAAGCAAACGTATTCGTTTTGATATTCCTATTTTC
446 TTTCCTATTATGAAACTTCAGTCGAAAACGTAAGCAAACGTATTCGTATTGGTATTCCTATTTTC
* * * * *
21780041 AACGAAAGCATAATTGTACTAATTTCAAAAATTTTCAAAATTGTTCAGCCAAAATGCCCATATGG
511 AACGAATGCATAATTGTACTAATTCCCAAAATTTTCAAAATTATTCAGCCCAAATGCCCATATGG
* * *
21780106 ACATGGTTCATCTAAGTTGAACAGTTATGCCCAATAATGAGTTATGTTGGATGGTCGCCCTAAAT
576 ACATGGTTCATCTAAGTTGAACAGTT-GGCCCAATAATGAGTTATGTTGGATGGTTGCCCTTAAT
* * *
21780171 CATTCATTGGTTATTCTATTGTTAATGAGAAAAGTTGAATTTTTTTTCAAAAATAATGGACCCCT
640 CATTCATTGGTTATTTTATTGTTAATGAGAAAAGCTGAA-TTTTTTTCAAAAATAATGGGCCCC-
* * ** * **
21780236 TTCC-GTTTTGGGCCATGGACGGTTGCACTCCTAGACTACCCTCAAGGTTAGGCCTG
703 TTCCAATTTTGGGCCTTGGGTGGTTGCACTCCTGGACTA-CCTCAAGGTCGGGCCTG
*
21780292 ACTCAAAGGTAAAAGATTGTTCCCTTTCCCAAGAATATACTAAAAGCTTAAAATATAAAACAACA
1 ACTCAAAGGTAAAAGATTGTTCCCTTCCCCAAGAATATACTAAAAGCTTAAAATATAAAACAACA
* * *
21780357 TAAAATCAAAATCTATATAACATTAGGAAG-AAA-AGTCAAAAACAAATGGCTATTTGTCGTACT
66 CAAAATCAGAATCTATATAACATTAGGAAGAAAAGAGACAAAAACAAATGGCTATTTGTCGTACT
* * * * *
21780420 ATTCTTTCATTTACAAGAAACAAAACCCACATTACAAAATTTGCTCGAGCTGAGCCAGATTAAAA
131 ATTCTTTCATTTACAGGAAACAAAACTCACATTACAAGATTTGCTCGAGTTGAACCAGATTAAAA
*
21780485 CCAACCAAACAACATATAG-TTCCACAAGAATACAAAAAGCTTAAAGTAAAAACACAACCCAAAA
196 CCAACC-AA-AACATATAGTTTCC-CAAGAATACTAAAAGCTTAAAGTAAAAACACAACCCAAAA
* * * *
21780549 TCCATTACCTCTTTATTTTTTGATTATTTTTTATTTTGTTCCTAATGCAAAAATAGAACCATTGA
258 TCCATTACCTCTTTATTTTTCGATTCTTTTTTATCTTGTTTCTAATGCAAAAATAGAACCATTGA
* * **
21780614 -TTTCTTGCTTTAACAGTAAGGGTTGGAATTTGGGAATGGGATGTAGGGGAGAATTGGAGAAGTA
323 TTTTTTTGCTTTAACAGTAGGGGTTGGAATTTGGGAATGGGATGTAGGGGAGGGTTGGAGAAGTA
*
21780678 AAAAAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTCTG-TTTTTTTCTTTTCTA
388 AAAAAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTCTGCTTTTTTTCTTTCCTA
* * * *
21780742 TTATGAAACTTCAGTCGAAATCATAAGCACACGTATTCGTATTGGTATTCCTATTTTCAAAGAAT
453 TTATGAAACTTCAGTCGAAAACGTAAGCAAACGTATTCGTATTGGTATTCCTATTTTCAACGAAT
* * *
21780807 GTATAATTGTACTAATTCCCAAAATTTTCAAAATTTTTCAGCCCAAATGCCCATATGAACATGGT
518 GCATAATTGTACTAATTCCCAAAATTTTCAAAATTATTCAGCCCAAATGCCCATATGGACATGGT
* * *
21780872 TCATATAAGTTGAACAGTTAGGCCCAATAATAAGTTATGTTGGATTGTTGCCCTTAATCATTCAT
583 TCATCTAAGTTGAACAGTT-GGCCCAATAATGAGTTATGTTGGATGGTTGCCCTTAATCATTCAT
* * * * *
21780937 TGGTTATTTTATTGTTAATAAAAAAAGCTGATTTTTTTTCAAAAATATTGAGCCCCTTCCAATTT
647 TGGTTATTTTATTGTTAATGAGAAAAGCTGAATTTTTTTCAAAAATAATGGGCCCCTTCCAATTT
* * *
21781002 TGGGCTTTGGGCGGTTGCACTCTTGGACTACCTCAAGGTCGGGCCTG
712 TGGGCCTTGGGTGGTTGCACTCCTGGACTACCTCAAGGTCGGGCCTG
* * * * * *
21781049 ACTCAAAGATAAAAGGTTATTCTCTTCCCCAAGAATATACTAAAAACTTAAAATATAAAGCAACA
1 ACTCAAAGGTAAAAGATTGTTCCCTTCCCCAAGAATATACTAAAAGCTTAAAATATAAAACAACA
* * *
21781114 CAAAATCAGAATCTATATAACATTAGGAAGAAAAGA-ACAAAATCAAATAGCTATTTGTCGTATT
66 CAAAATCAGAATCTATATAACATTAGGAAGAAAAGAGACAAAAACAAATGGCTATTTGTCGTACT
* *
21781178 ATTCTTTCATTTACAGGAAACAAAATTCACATTACAAGATTTGCTCGAGTTGAACCAGAATAAAA
131 ATTCTTTCATTTACAGGAAACAAAACTCACATTACAAGATTTGCTCGAGTTGAACCAGATTAAAA
* * *
21781243 CCAACCAAATAGCATATAGTTTCCCAAGAATACTAGAAGCTAAAAGTACAAACACAACCCAAAAT
196 CCAACCAAA-A-CATATAGTTTCCCAAGAATACTAAAAGCTTAAAGTAAAAACACAACCCAAAAT
* ** *
21781308 CTATTACCTCTTTATTTACCGATTCTTTTTTATCTTGTTTCTAATGTAAAAATAGAACCATTGAT
259 CCATTACCTCTTTATTTTTCGATTCTTTTTTATCTTGTTTCTAATGCAAAAATAGAACCATTGAT
* *
21781373 TTTTTT-CTTTAACGGTAGGGGTTGGAATTTGGGAATGGGATGTAAGGGAGGGTTGGAGAAGTAA
324 TTTTTTGCTTTAACAGTAGGGGTTGGAATTTGGGAATGGGATGTAGGGGAGGGTTGGAGAAGTAA
21781437 AAAAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTCTGCTTTTTGTTCTTTCCTA
389 AAAAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTCTGCTTTTT-TTCTTTCCTA
*
21781502 -TATGAAACTTCAGTCGAAAACGTAAGGAAACGTATTCGTATTGGTATTCCTATTTTCAACGAAT
453 TTATGAAACTTCAGTCGAAAACGTAAGCAAACGTATTCGTATTGGTATTCCTATTTTCAACGAAT
* * * * * * *
21781566 GCATATTTGCACTGAA-TCCCAAAATTTTCAAAGTTATTCAGCCTAAATACCCGTATGGACATGT
518 GCATAATTGTACT-AATTCCCAAAATTTTCAAAATTATTCAGCCCAAATGCCCATATGGACATGG
* * * * *
21781630 TTCATCTAAGTTGAATAGTTGGGTCCAATAATGAGTTATGTTTGATGGTTACCCTTAATCGTTCA
582 TTCATCTAAGTTGAACAGTT-GGCCCAATAATGAGTTATGTTGGATGGTTGCCCTTAATCATTCA
* * *
21781695 TTGGTTATTTTCTTGTTAATGAGAAAAGCTAAATATTTTTTTTCAGAAATAATGGGCCCCTTCCA
646 TTGGTTATTTTATTGTTAATGAGAAAAGCT-GA-A-TTTTTTTCAAAAATAATGGGCCCCTTCCA
* *
21781760 ATTTTGGGCCCTT-GGTGGTTGGACTCCTGGACTACCCCTAAGGTCGGGCCTG
708 ATTTTGGG-CCTTGGGTGGTTGCACTCCTGGACTACCTC-AAGGTCGGGCCTG
* * * *
21781812 ACTCAAAGGTAAAAGATTGTTCCTTTCCCCCAA-AACATACTAAAAGCTTATAATATAAAACAAT
1 ACTCAAAGGTAAAAGATTGTTCCCTT-CCCCAAGAATATACTAAAAGCTTAAAATATAAAACAAC
* * * * * * * *
21781876 GCGAAATGTA-AATATGTACAACATTAGGAAGAAAAGA-ACAAAAACAAATGGTTATTTGTCATA
65 ACAAAAT-CAGAATCTATATAACATTAGGAAGAAAAGAGACAAAAACAAATGGCTATTTGTCGTA
* * **
21781939 CCATTCTTTCATTTATAGGAAACAAAACTCATGTTACAAGATTTG--C---TTG----AG-TT--
129 CTATTCTTTCATTTACAGGAAACAAAACTCACATTACAAGATTTGCTCGAGTTGAACCAGATTAA
* * *
21781992 ---GAA-C----CA-A-A--TT----A-AA-AC-AAAAGCTTAAAGTAAAGACGCAACCCAAAAT
194 AACCAACCAAAACATATAGTTTCCCAAGAATACTAAAAGCTTAAAGTAAAAACACAACCCAAAAT
* * * *
21782038 CTATTACCTCTTTATTTGTCAATTCTTTTTTATCATGTTTCTAATGCAAAAATAG-ACCTATTGA
259 CCATTACCTCTTTATTTTTCGATTCTTTTTTATCTTGTTTCTAATGCAAAAATAGAACC-ATTGA
* * *
21782102 TTTTTTTTTGCTTTAACAGTAGGGGTTGGAATTTAGGAATGGGATGTAAGGGAGGGTTAGAGAAG
323 --TTTTTTTGCTTTAACAGTAGGGGTTGGAATTTGGGAATGGGATGTAGGGGAGGGTTGGAGAAG
* *
21782167 TAAAAAAGTTAGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTATGCTTTTTTTCTTTCC
386 TAAAAAAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTCTGCTTTTTTTCTTTCC
* * *
21782232 TATTATGAAACTTCAGTCGAAAACGTAAGCAAATGTATTCGTATTGGTATTCCTATTTTTAATGA
451 TATTATGAAACTTCAGTCGAAAACGTAAGCAAACGTATTCGTATTGGTATTCCTATTTTCAACGA
* * * * * *
21782297 ATGCATAATTTTACTGATTCCAAAAATTTTAAAAATTGTTTAGCCCAAATGCCCATATGGACATG
516 ATGCATAATTGTACTAATTCCCAAAATTTTCAAAATTATTCAGCCCAAATGCCCATATGGACATG
* *
21782362 GTTCATCTAAGTTGAACAATTGAGCTCAATAATGAGTTATGTTGGATGGTTGCCCTTAATCATTC
581 GTTCATCTAAGTTGAACAGTTG-GCCCAATAATGAGTTATGTTGGATGGTTGCCCTTAATCATTC
* * * * ***** * *
21782427 ATTAGTTATTTCATTGTTACTGAGAAAAGCTAAAAAAAATTCAGAAATAATGGGCCCTTTCCAAT
645 ATTGGTTATTTTATTGTTAATGAGAAAAGCTGAATTTTTTTCAAAAATAATGGGCCCCTTCCAAT
* ** * * * *
21782492 TTTTGG-CTCTCAGTGGTTGCACTCCTTGACTGCCTTC-AGGGCTGGCCCTG
710 TTTGGGCCT-TGGGTGGTTGCACTCCTGGACTACC-TCAAGGTC-GGGCCTG
* * * *
21782542 ACTCAAAGGTAAAAGATTGTTCCCTTCCTCAAGAATATACTAAAAGCTTACATTATTAAACAACA
1 ACTCAAAGGTAAAAGATTGTTCCCTTCCCCAAGAATATACTAAAAGCTTAAAATATAAAACAAC-
* * * *
21782607 AAAAAATCAGAATCTATATAACATTAGGAAGAACA-AGATAAAAACAACTGGCTATTTGAT-GTA
65 ACAAAATCAGAATCTATATAACATTAGGAAGAAAAGAGACAAAAACAAATGGCTATTTG-TCGTA
21782670 CTATTCTTTCATTTACAGGAAACAAAACTCACATTACAAGATTTGCTCGAGTTGAACCAGATTAA
129 CTATTCTTTCATTTACAGGAAACAAAACTCACATTACAAGATTTGCTCGAGTTGAACCAGATTAA
* * ** *
21782735 AACCAACAAAACAACATATAGTTGCCCAAGAATACTGGAAGCTTAAAGTAAAAAACACAATCC-A
194 AACCAAC-CAA-AACATATAGTTTCCCAAGAATACTAAAAGCTTAAAGT-AAAAACACAACCCAA
* * * * **
21782799 AATCCATTACCTCTTTATTTTCCGATTCTTTTTTATCTTGTTTCTAATACAAAAGTAAAACTGTT
256 AATCCATTACCTCTTTATTTTTCGATTCTTTTTTATCTTGTTTCTAATGCAAAAATAGAACCATT
* * *
21782864 GAGTTTTTTTGCTTTAACAGTAGGGGTTGGGATTTGGGAATGGAATGTAGGGGAGAGTTGGAGAA
321 GA-TTTTTTTGCTTTAACAGTAGGGGTTGGAATTTGGGAATGGGATGTAGGGGAGGGTTGGAGAA
* * *
21782929 GTAAAAAAGTTGGAAATGAAAAGGGAAGAAATGAAAGCATTTGT-TTTTCTTCTTTTGTTTCTTT
385 GTAAAAAAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTCTGCTTTT-TTTCTTT
* * * * *
21782993 CTTATTATGAAACTTTAGTCGAAAACGTAAGCAAACGTATTTGTATTGGTATTCTTATTTTCAAA
449 CCTATTATGAAACTTCAGTCGAAAACGTAAGCAAACGTATTCGTATTGGTATTCCTATTTTCAAC
* * * *
21783058 GAATGCATAATTGTATTGATTCCCAAAATTTTCAAAATTATTCAGCCCAAATGTCCGTATGGACA
514 GAATGCATAATTGTACTAATTCCCAAAATTTTCAAAATTATTCAGCCCAAATGCCCATATGGACA
* * *
21783123 TAGTTCATCTAAGTTGAACAGTTGGGCCCAATAATGAGTTATGTTGGATGGTTGTCGTTAATCAT
579 TGGTTCATCTAAGTTGAACAGTT-GGCCCAATAATGAGTTATGTTGGATGGTTGCCCTTAATCAT
* *
21783188 TCATTGGTTATTTTATTGTTAATGAGAAAAGCTGAAAATATTTTTCAAAAATAATAGGCCCCTTC
643 TCATTGGTTATTTTATTGTTAATGAGAAAAGCTG--AATTTTTTTCAAAAATAATGGGCCCCTTC
* * * *
21783253 CAGTTTTGGGCC-----T-G--G-A---CT--AC--CC-CAAGGTTGGACTTG
706 CAATTTTGGGCCTTGGGTGGTTGCACTCCTGGACTACCTCAAGGTCGGGCCTG
* *
21783289 ACTCAAAGGTAAAAGATTGTTCCCTTCTCTAAGAATATACTAAAAGCTTAAAATATAAAACAACA
1 ACTCAAAGGTAAAAGATTGTTCCCTTCCCCAAGAATATACTAAAAGCTTAAAATATAAAACAACA
* *
21783354 CAAAATCAAAATCTGTATAACATTAGGAAGAAAA-AGACAAAAACAAATGGCTATTTGTCGTACT
66 CAAAATCAGAATCTATATAACATTAGGAAGAAAAGAGACAAAAACAAATGGCTATTTGTCGTACT
* * * *
21783418 ATACTTTCATTT------------A--CA-A-GA-AAGTTTTACTCGAGTTGAACCAGATTAAAA
131 ATTCTTTCATTTACAGGAAACAAAACTCACATTACAAGATTTGCTCGAGTTGAACCAGATTAAAA
* * *
21783466 CCAACCAACAACATATA-ATTCCCTAATAATACTAAAAGCTTAAAGTAAAAACATAACCCAAAAT
196 CCAACCAA-AACATATAGTTTCCC-AAGAATACTAAAAGCTTAAAGTAAAAACACAACCCAAAAT
* ** * * * *
21783530 TCATTACCTCTTTATTAGTCGATTCTTTTTTATCTTGTTTCTAATGCAAAAACAAAACCGTCGAT
259 CCATTACCTCTTTATTTTTCGATTCTTTTTTATCTTGTTTCTAATGCAAAAATAGAACCATTGAT
* * * *
21783595 TTTTTTGCTTTAGCAGTAGGGGTTGGAATTTGGGAATGAGATGTA---G-GGGTTAGAGAAGTCA
324 TTTTTTGCTTTAACAGTAGGGGTTGGAATTTGGGAATGGGATGTAGGGGAGGGTTGGAGAAGTAA
* *
21783656 AAAAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTA-GTTCTGC-TTTTTT-TTCCCTAT
389 AAAAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTCTGCTTTTTTTCTTTCCTAT
* *
21783718 TATGAAACTTTAGTTGAAAACGTAAGCAAACGTATTCGTATTGGTATTCCTATTTTCAACGAATG
454 TATGAAACTTCAGTCGAAAACGTAAGCAAACGTATTCGTATTGGTATTCCTATTTTCAACGAATG
* * * * * ***
21783783 CATAATTGTACTGATTCCCATAATTTTTAGAAA-TGTTCATCCCAAATGCTTGTATGGACATGGT
519 CATAATTGTACTAATTCCCAAAATTTTCA-AAATTATTCAGCCCAAATGCCCATATGGACATGGT
* * * ** * *
21783847 TCAACTAAGTTGAATAGTTGGACCCAATAATGAGTTATGTAGGATGGTTAACCTAAATCATTCTT
583 TCATCTAAGTTGAACAGTTGG-CCCAATAATGAGTTATGTTGGATGGTTGCCCTTAATCATTCAT
* * * * * *
21783912 TGGTTATTTTCTTCTTAATGTGAAAAGCTGAATTTTTTTCAAAAATAATGGGTCCCTTCTAGTTT
647 TGGTTATTTTATTGTTAATGAGAAAAGCTGAATTTTTTTCAAAAATAATGGGCCCCTTCCAATTT
* * * *
21783977 TGGGCCCTGGGTAGTTGCACTCGTAGACTACCTC
712 TGGGCCTTGGGTGGTTGCACTCCTGGACTACCTC
21784011 CAAGACTAGG
Statistics
Matches: 3212, Mismatches: 405, Indels: 237
0.83 0.11 0.06
Matches are distributed among these distances:
718 37 0.01
719 2 0.00
720 199 0.06
721 6 0.00
722 3 0.00
723 56 0.02
724 2 0.00
726 1 0.00
727 58 0.02
728 91 0.03
729 46 0.01
730 191 0.06
731 91 0.03
732 28 0.01
733 300 0.09
734 3 0.00
735 1 0.00
736 3 0.00
737 2 0.00
739 1 0.00
740 3 0.00
741 4 0.00
745 1 0.00
746 70 0.02
747 65 0.02
748 5 0.00
749 2 0.00
751 2 0.00
753 5 0.00
754 3 0.00
755 1 0.00
756 2 0.00
757 110 0.03
758 344 0.11
759 424 0.13
760 15 0.00
761 2 0.00
762 67 0.02
763 565 0.18
764 112 0.03
765 45 0.01
766 56 0.02
767 101 0.03
768 85 0.03
769 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (758 bp):
ACTCAAAGGTAAAAGATTGTTCCCTTCCCCAAGAATATACTAAAAGCTTAAAATATAAAACAACA
CAAAATCAGAATCTATATAACATTAGGAAGAAAAGAGACAAAAACAAATGGCTATTTGTCGTACT
ATTCTTTCATTTACAGGAAACAAAACTCACATTACAAGATTTGCTCGAGTTGAACCAGATTAAAA
CCAACCAAAACATATAGTTTCCCAAGAATACTAAAAGCTTAAAGTAAAAACACAACCCAAAATCC
ATTACCTCTTTATTTTTCGATTCTTTTTTATCTTGTTTCTAATGCAAAAATAGAACCATTGATTT
TTTTGCTTTAACAGTAGGGGTTGGAATTTGGGAATGGGATGTAGGGGAGGGTTGGAGAAGTAAAA
AAGTTGGAGATGAAAAGGGAAGAAATGAAAGCATTTTTATTTTCTGCTTTTTTTCTTTCCTATTA
TGAAACTTCAGTCGAAAACGTAAGCAAACGTATTCGTATTGGTATTCCTATTTTCAACGAATGCA
TAATTGTACTAATTCCCAAAATTTTCAAAATTATTCAGCCCAAATGCCCATATGGACATGGTTCA
TCTAAGTTGAACAGTTGGCCCAATAATGAGTTATGTTGGATGGTTGCCCTTAATCATTCATTGGT
TATTTTATTGTTAATGAGAAAAGCTGAATTTTTTTCAAAAATAATGGGCCCCTTCCAATTTTGGG
CCTTGGGTGGTTGCACTCCTGGACTACCTCAAGGTCGGGCCTG
Found at i:21788078 original size:59 final size:60
Alignment explanation
Indices: 21788009--21788125 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 60
21787999 ATCACTTTAA
* * * * *
21788009 TATTAAATTAATATAATATTTATC-AAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTATCTAAAATAAACATTAAATTAAATTAAATATTAAATCT
21788068 TATTAAATTAATAGAATATTTATCTATAAAATAAACATTAAATTAAATTAAATATTAA
1 TATTAAATTAATAGAATATTTATC--TAAAATAAACATTAAATTAAATTAAATATTAA
21788126 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 23 0.46
62 27 0.54
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (60 bp):
TATTAAATTAATAGAATATTTATCTAAAATAAACATTAAATTAAATTAAATATTAAATCT
Found at i:21788788 original size:17 final size:16
Alignment explanation
Indices: 21788762--21788796 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
21788752 ATATTATGGG
21788762 AATATCATTAAATTGTT
1 AATATCATTAAATT-TT
*
21788779 AATATGATTAAATTTT
1 AATATCATTAAATTTT
21788795 AA
1 AA
21788797 ATTTTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (16 bp):
AATATCATTAAATTTT
Found at i:21789247 original size:54 final size:53
Alignment explanation
Indices: 21789127--21789288 Score: 218
Period size: 55 Copynumber: 3.0 Consensus size: 53
21789117 GTAATTTATG
* * *
21789127 TATTTGGAAAAAAATTATTAACATTTAATTAGTTTTTTATGATTCTAAAATTTAAA
1 TATTTTGAAAAAAA--ATTAA-AGTTAATTAGTTTTTTATGATTTTAAAATTTAAA
*
21789183 TATTTTTGAAAAAAAATTAAAGTTAATTAGATTTTATATGATTTTAAAATTTAAA
1 TA-TTTTGAAAAAAAATTAAAGTTAATTAG-TTTTTTATGATTTTAAAATTTAAA
*
21789238 TATTTTGAAAAAAAAATT-AAGTTAATTAGTTTTTTATGATTTTAAATTTTA
1 TATTTTG-AAAAAAAATTAAAGTTAATTAGTTTTTTATGATTTTAAAATTTA
21789289 TTATTTTATT
Statistics
Matches: 97, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
53 20 0.21
54 25 0.26
55 39 0.40
56 2 0.02
57 11 0.11
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (53 bp):
TATTTTGAAAAAAAATTAAAGTTAATTAGTTTTTTATGATTTTAAAATTTAAA
Found at i:21809330 original size:15 final size:16
Alignment explanation
Indices: 21809299--21809331 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21809289 TAGTTTAGGT
*
21809299 TTTTGGGTTTGTGGGC
1 TTTTGGGTATGTGGGC
21809315 TTTTGGGTAT-TGGGC
1 TTTTGGGTATGTGGGC
21809330 TT
1 TT
21809332 AAGGCTTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.03, C:0.06, G:0.39, T:0.52
Consensus pattern (16 bp):
TTTTGGGTATGTGGGC
Found at i:21809997 original size:50 final size:49
Alignment explanation
Indices: 21809816--21810281 Score: 172
Period size: 50 Copynumber: 9.6 Consensus size: 49
21809806 TTCAATCCGA
* * ** * *
21809816 TCCACTACAACTTTAGGGATATAGGATTTAATGTTGTAACTTCATCTTAC
1 TCCACTACAACTTCAGGGATATAAGATTTGCTGTTGTAGC-TCATCTTGC
* * *
21809866 TTCACTACAACTCCAGGGAGATAAGATTTGCT-TCTGTAG---ATC-TG-
1 TCCACTACAACTTCAGGGATATAAGATTTGCTGT-TGTAGCTCATCTTGC
* * * *
21809910 ACCACTACAACTTCAAGG-TATAGGATTTGGTGTTGTAGCCTCATCTTGC
1 TCCACTACAACTTCAGGGATATAAGATTTGCTGTTGTAG-CTCATCTTGC
* * * *
21809959 TCCACTACAACTTTAGGGAAATAAGATTTGCTTTTGTAGCTTCAATC-CGAC
1 TCCACTACAACTTCAGGGATATAAGATTTGCTGTTGTAGC-TC-ATCTTG-C
** * ** *
21810010 -CCACTGTAACTTCAGGCG-TATAAGATTTGATGTCATAACTTCATCTTGC
1 TCCACTACAACTTCAGG-GATATAAGATTTGCTGTTGTAGC-TCATCTTGC
* ** ** **
21810059 T---CTGCAACTTCAAAGAGGTAAGATTTGCT-TCCATAGCTTCAATC-TGAC
1 TCCACTACAACTTCAGGGATATAAGATTTGCTGT-TGTAGC-TC-ATCTTG-C
* * * * *
21810107 -CCACTACAACTTCCGGGGTATAGGATTTGGTGTTGTAACTTCATCTTGC
1 TCCACTACAACTTCAGGGATATAAGATTTGCTGTTGTAGC-TCATCTTGC
* * *
21810156 TCCACTGCAAC-TCTAGGGAGATAAGATTTGCT-TCTGTAG---ATCTTAC
1 TCCACTACAACTTC-AGGGATATAAGATTTGCTGT-TGTAGCTCATCTTGC
* * * * * *
21810202 T--ACTGCAACTTAAAGGG-TATAGGATTTGGTTTTGTAGCTTCATCTTTC
1 TCCACTACAACTT-CAGGGATATAAGATTTGCTGTTGTAGC-TCATCTTGC
21810250 TCTCTACTACAACTTCAGAGAGATA-AAGATTT
1 TC-C-ACTACAACTTCAG-G-GATATAAGATTT
21810282 TCTACTGTTA
Statistics
Matches: 306, Mismatches: 69, Indels: 79
0.67 0.15 0.17
Matches are distributed among these distances:
43 15 0.05
44 38 0.12
45 7 0.02
46 12 0.04
47 33 0.11
48 13 0.04
49 28 0.09
50 133 0.43
51 8 0.03
52 10 0.03
53 7 0.02
54 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (49 bp):
TCCACTACAACTTCAGGGATATAAGATTTGCTGTTGTAGCTCATCTTGC
Found at i:21810096 original size:97 final size:97
Alignment explanation
Indices: 21809980--21810157 Score: 248
Period size: 97 Copynumber: 1.8 Consensus size: 97
21809970 TTTAGGGAAA
*** **
21809980 TAAGATTTGCTTTTGTAGCTTCAATCCGACCCACTGTAACTTCAGGCGTATAAGATTTGATGTCA
1 TAAGATTTGCTTCCATAGCTTCAATCCGACCCACTACAACTTCAGGCGTATAAGATTTGATGTCA
21810045 TAACTTCATCTTGCTCTGCAACTTCAAAGAGG
66 TAACTTCATCTTGCTCTGCAACTTCAAAGAGG
* * * * * **
21810077 TAAGATTTGCTTCCATAGCTTCAATCTGACCCACTACAACTTCCGGGGTATAGGATTTGGTGTTG
1 TAAGATTTGCTTCCATAGCTTCAATCCGACCCACTACAACTTCAGGCGTATAAGATTTGATGTCA
21810142 TAACTTCATCTTGCTC
66 TAACTTCATCTTGCTC
21810158 CACTGCAACT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
97 69 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (97 bp):
TAAGATTTGCTTCCATAGCTTCAATCCGACCCACTACAACTTCAGGCGTATAAGATTTGATGTCA
TAACTTCATCTTGCTCTGCAACTTCAAAGAGG
Found at i:21811259 original size:17 final size:17
Alignment explanation
Indices: 21811237--21811301 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
21811227 TGAATTTAAA
*
21811237 TTTAAACTTAAACTTGT
1 TTTAAATTTAAACTTGT
*
21811254 TTTAAATTTAAATTTAG-
1 TTTAAATTTAAACTT-GT
* * *
21811271 TTTAGATTTAAAGTGGT
1 TTTAAATTTAAACTTGT
21811288 TTTAAATTTAAACT
1 TTTAAATTTAAACT
21811302 AAATTTGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 1 0.03
17 37 0.95
18 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (17 bp):
TTTAAATTTAAACTTGT
Found at i:21812556 original size:30 final size:29
Alignment explanation
Indices: 21812520--21812576 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
21812510 CCCTAAAGGT
21812520 CCCTAAACTATCCATAAATTATATTTTTAC
1 CCCTAAACTATCCA-AAATTATATTTTTAC
* *
21812550 CCCTAAACTTTCCAAAATTCTATTTTT
1 CCCTAAACTATCCAAAATTATATTTTT
21812577 GACCTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (29 bp):
CCCTAAACTATCCAAAATTATATTTTTAC
Found at i:21812624 original size:30 final size:30
Alignment explanation
Indices: 21812520--21812752 Score: 141
Period size: 29 Copynumber: 8.0 Consensus size: 30
21812510 CCCTAAAGGT
* * *
21812520 CCCT-AAACTATCCATAAATTATATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
21812549 CCC-CTAAACTTTCC-AAAATT-CTATTTTTGA
1 CCCTC-AAACTTTCCAAAAATTAC-ATTTTT-A
* ** * *
21812579 -CCT-TATTTTTTCAAAAAATACATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
*
21812607 CCCTCAAACTTTCC-AAAATTTCATTTTTAA
1 CCCTCAAACTTTCCAAAAATTACATTTTT-A
**
21812637 CCC-CAATTTTTCCAAAAATTACATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* *
21812666 CCCTCGAACTTTCC-AAAATTCCATTTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTT-A
* ** * *
21812696 -CCTCGATTTTTCCAAAAATGACCA-GTTTA
1 CCCTCAAACTTTCCAAAAATTA-CATTTTTA
*
21812725 CCCTCGAAC-TTCCAAAAATT-CTATTTTT
1 CCCTCAAACTTTCCAAAAATTAC-ATTTTT
21812753 GACAATGATC
Statistics
Matches: 156, Mismatches: 30, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
27 1 0.01
28 7 0.04
29 92 0.59
30 54 0.35
31 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.40
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATTACATTTTTA
Found at i:21812676 original size:59 final size:60
Alignment explanation
Indices: 21812530--21812755 Score: 250
Period size: 59 Copynumber: 3.9 Consensus size: 60
21812520 CCCTAAACTA
* * **
21812530 TCCATAAATTATATTTTTACCC-CTAAACTTTCCAAAA-TTCTATTTTTGA-CCTTATTTT
1 TCCAAAAATTACATTTTTACCCTC-AAACTTTCCAAAATTTCTATTTTTGACCCCAATTTT
* * *
21812588 TTCAAAAAATACATTTTTACCCTCAAACTTTCCAAAATTTC-ATTTTTAACCCCAATTTT
1 TCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTTCTATTTTTGACCCCAATTTT
* * * *
21812647 TCCAAAAATTACATTTTTACCCTCGAACTTTCCAAAA-TTCCATTTTTGACCTCGATTTT
1 TCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTTCTATTTTTGACCCCAATTTT
* * * *
21812706 TCCAAAAATGACCA-GTTTACCCTCGAAC-TTCCAAAAATTCTATTTTTGAC
1 TCCAAAAATTA-CATTTTTACCCTCAAACTTTCCAAAATTTCTATTTTTGAC
21812756 AATGATCCTT
Statistics
Matches: 146, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
58 49 0.34
59 95 0.65
60 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.41
Consensus pattern (60 bp):
TCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTTCTATTTTTGACCCCAATTTT
Found at i:21812768 original size:59 final size:59
Alignment explanation
Indices: 21812555--21812785 Score: 168
Period size: 59 Copynumber: 3.9 Consensus size: 59
21812545 TTTACCCCTA
* * * ** * * * *
21812555 AACTTTCCAAAATTCTATTTTTGACCT-TATTTTTTCAAAAAATA-CATTTTTACCCTCA
1 AACTTTCCAAAATTCCATTTTTGACATCGATCCTTCCAAAAAGTACCA-GTTTACCCTCG
* * ** * ** * *
21812613 AACTTTCCAAAATTTCATTTTTAACCCCAATTTTTCCAAAAATTA-CATTTTTACCCTCG
1 AACTTTCCAAAATTCCATTTTTGACATCGATCCTTCCAAAAAGTACCA-GTTTACCCTCG
* **
21812672 AACTTTCCAAAATTCCATTTTTGACCTCGATTTTTCCAAAAA-TGACCAGTTTACCCTCG
1 AACTTTCCAAAATTCCATTTTTGACATCGATCCTTCCAAAAAGT-ACCAGTTTACCCTCG
* *
21812731 AAC-TTCCAAAAATTCTATTTTTGACAAT-GATCCTTCCAAAAAGTACCATTTTACC
1 AACTTTCC-AAAATTCCATTTTTGAC-ATCGATCCTTCCAAAAAGTACCAGTTTACC
21812786 TCTAAATGTC
Statistics
Matches: 149, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
58 28 0.19
59 117 0.79
60 4 0.03
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.39
Consensus pattern (59 bp):
AACTTTCCAAAATTCCATTTTTGACATCGATCCTTCCAAAAAGTACCAGTTTACCCTCG
Found at i:21819495 original size:48 final size:49
Alignment explanation
Indices: 21819356--21820142 Score: 781
Period size: 48 Copynumber: 16.3 Consensus size: 49
21819346 AATGGCAAAC
* * **
21819356 CCAGT-CCACGAAG-CATGAAGGGAAAGATCTAAGCTGGGACGGCGGAT
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
*
21819403 CCAGTACCACGAAGACCA-CAAGGGAAAGATCTAAGCTGCAACGGCGGAT
1 CCAGTACCACGAAGA-CATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * *
21819452 CCAGTACCACGAAG-CATGAAGGGAAAGATATAAGCCGCGACGGCGGAT
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * * *
21819500 CCAATACCACGAAGACA-CAAGGGAAAGATCTAAGCTGCAACGGTGAAT
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * * ***
21819548 CCAGTACCACAAAG-CATGAAGGGAAATATCTAAGCCATGACGGCGGAT
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
*
21819596 CCAGTACCACGAAGACAT-AAGGGAAAGATCTAAGCCGCAACGGCAGAT
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * * * *
21819644 CCAATACCACGAAG-CATGAAGGGAAATATCTAAGCCGCGACGACGGAT
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
21819692 CCAGTACCACGAAGACA-CAAGGGAAAGATCTAAGCCGCAACGGCGGAT
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * * **
21819740 CTAGTACCACGAA-ACATGAAGGGAAAGATCTAAGCCGCAATGATGGAT
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * * *
21819788 CCAGTACCACGAAGACA-CAATGGAAAGATTTAAGCCGCAACGGAGAAT
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * ** *
21819836 CCAGTACCACGAAGACA-CAAGGGAAAGGTTTAAGTTGCAACGGC-GAA
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* *
21819883 CCTAGTACCTCACG-AGACATGAATGGAAAGATCTAAGCCGCAACGGCGGAT
1 CC-AGTA-C-CACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * ** * *
21819934 CCAGTACCACGAAGACA-CAAGGGAAAGGTCTAGGTTGCAATGGC-GAA
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * *
21819981 CCTAGTACCTTA-G-AGACATGAAGGGAAAGATCTAAGTCGCAACGGAGGAT
1 CC-AGTACC--ACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * * * * *
21820031 CCAGTACCACGAAGACA-CAAGGGAAAGGTTTAAGTCGCGACGAC-GAA
1 CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * * * * *
21820078 CCTTGGACCTCAGAA-ACA-CAAAGGGAAAGATTTATGCCGCAACGGCGAAT
1 CC-AGTACCAC-GAAGACATC-AAGGGAAAGATCTAAGCCGCAACGGCGGAT
21820128 CCAGTACCACGAAGA
1 CCAGTACCACGAAGA
21820143 TTTGAACGGA
Statistics
Matches: 609, Mismatches: 102, Indels: 56
0.79 0.13 0.07
Matches are distributed among these distances:
47 27 0.04
48 412 0.68
49 127 0.21
50 39 0.06
51 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.13
Consensus pattern (49 bp):
CCAGTACCACGAAGACATCAAGGGAAAGATCTAAGCCGCAACGGCGGAT
Found at i:21820517 original size:39 final size:39
Alignment explanation
Indices: 21820424--21820523 Score: 96
Period size: 39 Copynumber: 2.6 Consensus size: 39
21820414 TCTGATCTTT
* * *
21820424 TTACCTCGAGCTTGGGGCAGATCACCATTTACCGATCTT
1 TTACCCCGAGCTTGGGGCAGATCACCATTTACCAATCTA
*
21820463 TTACCCCGAGTTTGGGGCAGAAT-ACCA-TTAGCCAATCTA
1 TTACCCCGAGCTTGGGGCAG-ATCACCATTTA-CCAATCTA
*** *
21820502 TTACTTTGAGCTTGGGGTAGAT
1 TTACCCCGAGCTTGGGGCAGAT
21820524 TGCAGCCATC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
38 5 0.10
39 43 0.86
40 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (39 bp):
TTACCCCGAGCTTGGGGCAGATCACCATTTACCAATCTA
Found at i:21822613 original size:59 final size:57
Alignment explanation
Indices: 21822518--21822715 Score: 240
Period size: 59 Copynumber: 3.4 Consensus size: 57
21822508 CCTTAAACTG
* * *
21822518 TCCAAAATTA-CATTTTTACCCTTGAACTTTCAAAAATTCCATTTTTGACCTCGATTTT
1 TCCAAAAATACCA-TTTTACCCCTGAACTTTCCAAAATTCCATTTTTGACCT-GATTTT
* *
21822576 TCTAAAAATCACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTTGATTTT
1 TCCAAAAAT-ACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTGACC-TGATTTT
**
21822635 TCCAAAAATGACCATTTTACTCCC-GAAC-TTCCAAAAATTCCATTTTTGACCTGATCCT
1 TCCAAAAAT-ACCATTTTAC-CCCTGAACTTTCC-AAAATTCCATTTTTGACCTGATTTT
21822693 TCCAAAAAGTACCATTTTACCCC
1 TCCAAAAA-TACCATTTTACCCC
21822716 CGAATATCTA
Statistics
Matches: 124, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
57 3 0.02
58 34 0.27
59 81 0.65
60 6 0.05
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (57 bp):
TCCAAAAATACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTGACCTGATTTT
Found at i:21822694 original size:29 final size:29
Alignment explanation
Indices: 21822518--21822710 Score: 117
Period size: 29 Copynumber: 6.6 Consensus size: 29
21822508 CCTTAAACTG
* *
21822518 TCCAAAATTA-CATTTTT-ACCCTTGAACTT
1 TCCAAAAATACCATTTTTCA-CC-TGATCTT
* * *
21822547 T-CAAAAATTCCATTTTTGACCTCGATTTT
1 TCCAAAAATACCATTTTTCACCT-GATCTT
* * * *
21822576 TCTAAAAATCACCATTTTACCCCTGAACTT
1 TCCAAAAAT-ACCATTTTTCACCTGATCTT
* * *
21822606 TCC-AAAATTCCATTTTTAACCTTGATTTT
1 TCCAAAAATACCATTTTTCACC-TGATCTT
* * * *
21822635 TCCAAAAATGACCATTTTACTCCCGAAC-T
1 TCCAAAAAT-ACCATTTTTCACCTGATCTT
* * *
21822664 TCCAAAAATTCCATTTTTGACCTGATCCT
1 TCCAAAAATACCATTTTTCACCTGATCTT
21822693 TCCAAAAAGTACCATTTT
1 TCCAAAAA-TACCATTTT
21822711 ACCCCCGAAT
Statistics
Matches: 122, Mismatches: 32, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
28 28 0.23
29 47 0.39
30 28 0.23
31 19 0.16
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.38
Consensus pattern (29 bp):
TCCAAAAATACCATTTTTCACCTGATCTT
Found at i:21826602 original size:26 final size:25
Alignment explanation
Indices: 21826565--21826616 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
21826555 CTAAAACAAC
*
21826565 TTCTAAAAAAAAAACTC-AAGAGTAA
1 TTCTTAAAAAAAAACTCAAAGAG-AA
*
21826590 TTCTTAAAGAAAAACTCAAAGAGAA
1 TTCTTAAAAAAAAACTCAAAGAGAA
21826615 TT
1 TT
21826617 ATTATTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.56, C:0.12, G:0.10, T:0.23
Consensus pattern (25 bp):
TTCTTAAAAAAAAACTCAAAGAGAA
Found at i:21827576 original size:50 final size:50
Alignment explanation
Indices: 21827515--21827701 Score: 178
Period size: 50 Copynumber: 3.7 Consensus size: 50
21827505 TTTAATCTGA
* *
21827515 TCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTTACTCCAT
1 TCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAGCTTTACTCCAT
* * * * * ** * * *
21827565 TCCACTACAACTTTAGGGAGATTGAGATCTGCTACTGTTAGTTTTAATCTGA-
1 TCCACTACAACTTCAGGGATATAG-GATTTGGTGTTG-TAGCTTTACTC-CAT
* *
21827617 TCCACTACAAGTTCAGGGATATAGGATTTGGTGTTGTAGCTTCACTCCAT
1 TCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAGCTTTACTCCAT
* * * *
21827667 TCCACTGCAACTTCAGGAATATAGGAGTTGTTGTT
1 TCCACTACAACTTCAGGGATATAGGATTTGGTGTT
21827702 TTATTGATCT
Statistics
Matches: 104, Mismatches: 29, Indels: 8
0.74 0.21 0.06
Matches are distributed among these distances:
49 1 0.01
50 58 0.56
51 16 0.15
52 28 0.27
53 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (50 bp):
TCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAGCTTTACTCCAT
Found at i:21827634 original size:102 final size:101
Alignment explanation
Indices: 21827462--21827683 Score: 347
Period size: 102 Copynumber: 2.2 Consensus size: 101
21827452 ATTCGTATCA
* *
21827462 ATTCCACTATAACTTCAGGGAGATTGAGATTCGCTACTATAGTTTTAATCTGATCCACTGCAACT
1 ATTCCACTACAACTTCAGGGAGATTGAGATTCGCTACTATAGTTTTAATCTGATCCACTACAACT
*
21827527 TCAGGGATATAGGATTTGGTGTTGTAACTTTACTCC
66 TCAGGGATATAGGATTTGGTGTTGTAACTTCACTCC
* *
21827563 ATTCCACTACAACTTTAGGGAGATTGAGA-TCTGCTACTGTTAGTTTTAATCTGATCCACTACAA
1 ATTCCACTACAACTTCAGGGAGATTGAGATTC-GCTACT-ATAGTTTTAATCTGATCCACTACAA
* *
21827627 GTTCAGGGATATAGGATTTGGTGTTGTAGCTTCACTCC
64 CTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCC
*
21827665 ATTCCACTGCAACTTCAGG
1 ATTCCACTACAACTTCAGG
21827684 AATATAGGAG
Statistics
Matches: 110, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
100 2 0.02
101 33 0.30
102 75 0.68
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (101 bp):
ATTCCACTACAACTTCAGGGAGATTGAGATTCGCTACTATAGTTTTAATCTGATCCACTACAACT
TCAGGGATATAGGATTTGGTGTTGTAACTTCACTCC
Found at i:21836524 original size:18 final size:17
Alignment explanation
Indices: 21836501--21836538 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
21836491 GGATTTTTAA
21836501 ATAATTATTAATATTTTT
1 ATAATTATTAA-ATTTTT
*
21836519 ATAATTTTTAAATTTTT
1 ATAATTATTAAATTTTT
21836536 ATA
1 ATA
21836539 GTTTTTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATTATTAAATTTTT
Found at i:21836527 original size:9 final size:9
Alignment explanation
Indices: 21836513--21836545 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
21836503 AATTATTAAT
21836513 ATTTTTATA
1 ATTTTTATA
21836522 ATTTTTA-A
1 ATTTTTATA
21836530 ATTTTTATA
1 ATTTTTATA
*
21836539 GTTTTTA
1 ATTTTTA
21836546 ACTTATCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:21836544 original size:18 final size:17
Alignment explanation
Indices: 21836466--21836546 Score: 72
Period size: 17 Copynumber: 4.5 Consensus size: 17
21836456 TTTTTTCAAT
*
21836466 ATTTTTAAATTTTCATA
1 ATTTTTAAATTTTTATA
* *
21836483 GTCTTTTAGGATTTTTAAATA
1 AT-TTTTA-AATTTTT--ATA
*
21836504 ATTATTAATATTTTTATA
1 ATTTTTAA-ATTTTTATA
21836522 ATTTTTAAATTTTTATA
1 ATTTTTAAATTTTTATA
*
21836539 GTTTTTAA
1 ATTTTTAA
21836547 CTTATCTAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 17 0.33
18 15 0.29
19 5 0.10
20 10 0.20
21 4 0.08
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTTTAAATTTTTATA
Found at i:21838890 original size:10 final size:9
Alignment explanation
Indices: 21838863--21839107 Score: 74
Period size: 9 Copynumber: 26.0 Consensus size: 9
21838853 TCATATTAAC
21838863 TTATAAAAAA
1 TTAT-AAAAA
* *
21838873 TCAAAAAAA
1 TTATAAAAA
21838882 TTATCAAAAA
1 TTAT-AAAAA
21838892 -TATAAAAAA
1 TTAT-AAAAA
* *
21838901 ATATTAAATA
1 TTA-TAAAAA
21838911 TT-TAAAAA
1 TTATAAAAA
21838919 -TATAAAAA
1 TTATAAAAA
*
21838927 TTGATATAAA
1 TT-ATAAAAA
*
21838937 CT-TAAAAA
1 TTATAAAAA
* * *
21838945 TTCTAATTAG
1 TTATAA-AAA
*
21838955 TTA-AATATA
1 TTATAA-AAA
*
21838964 TAATAAAAA
1 TTATAAAAA
21838973 -TATATAAAA
1 TTATA-AAAA
21838982 TTAATAAAGCATA
1 TT-ATAAA--A-A
*
21838995 TT-TATAATA
1 TTATA-AAAA
21839004 TT-TAAAAA
1 TTATAAAAA
21839012 TTTATAAAAA
1 -TTATAAAAA
* *
21839022 ATATTAAAAT
1 TTA-TAAAAA
21839032 TCTATAAAAA
1 T-TATAAAAA
*
21839042 TCATAAAAA
1 TTATAAAAA
*
21839051 GTATAAAAA
1 TTATAAAAA
* *
21839060 GTATTAAAA
1 TTATAAAAA
*
21839069 TTGATATAAAC
1 TT-ATA-AAAA
*
21839080 TTATAAAAT
1 TTATAAAAA
21839089 TTATAAAAAA
1 TTAT-AAAAA
*
21839099 TCATAAAAA
1 TTATAAAAA
21839108 CTTGAATTGG
Statistics
Matches: 175, Mismatches: 37, Indels: 47
0.68 0.14 0.18
Matches are distributed among these distances:
7 1 0.01
8 23 0.13
9 74 0.42
10 58 0.33
11 13 0.07
12 3 0.02
13 3 0.02
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (9 bp):
TTATAAAAA
Found at i:21838918 original size:19 final size:20
Alignment explanation
Indices: 21838863--21838902 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21838853 TCATATTAAC
21838863 TTAT-AAAAA-ATCAAAAAAA
1 TTATCAAAAATAT-AAAAAAA
21838882 TTATCAAAAATATAAAAAAA
1 TTATCAAAAATATAAAAAAA
21838902 T
1 T
21838903 ATTAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 13 0.68
21 2 0.11
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
TTATCAAAAATATAAAAAAA
Found at i:21839104 original size:19 final size:18
Alignment explanation
Indices: 21839008--21839106 Score: 83
Period size: 19 Copynumber: 5.2 Consensus size: 18
21838998 ATAATATTTA
21839008 AAAATTTATAAAAAATATT
1 AAAATTTATAAAAAATA-T
21839027 AAAATTCTAT-AAAAATCAT
1 AAAATT-TATAAAAAAT-AT
** *
21839046 AAAAAGTATAAAAAGTATT
1 AAAATTTATAAAAAATA-T
* **
21839065 AAAATTGATATAAACTTAT
1 AAAATTTATA-AAAAATAT
21839084 AAAATTTATAAAAAATCAT
1 AAAATTTATAAAAAAT-AT
21839103 AAAA
1 AAAA
21839107 ACTTGAATTG
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
18 8 0.13
19 46 0.73
20 9 0.14
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATTTATAAAAAATAT
Found at i:21839106 original size:38 final size:38
Alignment explanation
Indices: 21839008--21839099 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
21838998 ATAATATTTA
*
21839008 AAAATTTATAAAAAATATTAAAATTCTATAAAAATCAT
1 AAAATTTATAAAAAATATTAAAATTATATAAAAATCAT
** * * *
21839046 AAAAAGTATAAAAAGTATTAAAATTGATAT-AAACTTAT
1 AAAATTTATAAAAAATATTAAAATT-ATATAAAAATCAT
21839084 AAAATTTATAAAAAAT
1 AAAATTTATAAAAAAT
21839100 CATAAAAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 41 0.93
39 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (38 bp):
AAAATTTATAAAAAATATTAAAATTATATAAAAATCAT
Found at i:21839518 original size:9 final size:9
Alignment explanation
Indices: 21839506--21839755 Score: 62
Period size: 10 Copynumber: 25.8 Consensus size: 9
21839496 TCAATTATTT
21839506 TTTTTATAA
1 TTTTTATAA
*
21839515 TTTTTGA-AG
1 TTTTT-ATAA
*
21839524 TTTATATCAA
1 TTTTTAT-AA
* *
21839534 TTTTAATAT
1 TTTTTATAA
21839543 TTTTTATAA
1 TTTTTATAA
*
21839552 TTTTTTTTACCA
1 -TTTTTATA--A
*
21839564 TTTTTATTA
1 TTTTTATAA
*
21839573 TTTTTAAGAA
1 TTTTT-ATAA
* *
21839583 TTTTAATAGG
1 TTTTTATA-A
*
21839593 TTTTT-TTA
1 TTTTTATAA
21839601 -TTTTA-AA
1 TTTTTATAA
21839608 TATTTTACATAA
1 T-TTTT--ATAA
*
21839620 GTTTTATTAA
1 TTTTTA-TAA
* *
21839630 TTCTATAAAA
1 TT-TTTATAA
21839640 TTTTTGATAA
1 TTTTT-ATAA
*
21839650 TTTATTAGAA
1 TTT-TTATAA
21839660 TTTATTATATTA
1 TTT-TTATA--A
* *
21839672 TATTTATTTTA
1 T-TTT-TATAA
21839683 TTTTTATAA
1 TTTTTATAA
*
21839692 TATTTATAA
1 TTTTTATAA
*
21839701 GTTTTTATTA
1 -TTTTTATAA
21839711 TATTTTAT-A
1 T-TTTTATAA
21839720 TTTTTAATAA
1 TTTTT-ATAA
*
21839730 GTTTGTATCAA
1 -TTTTTAT-AA
*
21839741 TTTTAAT-A
1 TTTTTATAA
21839749 TTTTTAT
1 TTTTTAT
21839756 TTTTTATGGA
Statistics
Matches: 174, Mismatches: 39, Indels: 57
0.64 0.14 0.21
Matches are distributed among these distances:
7 5 0.03
8 12 0.07
9 50 0.29
10 73 0.42
11 24 0.14
12 6 0.03
13 4 0.02
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:21839596 original size:28 final size:28
Alignment explanation
Indices: 21839565--21839628 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
21839555 TTTTTACCAT
*
21839565 TTTTATTATTTTTAAGA-ATTTTA-ATAGG
1 TTTTATTA-TTTTAA-ATATTTTACATAAG
*
21839593 TTTTTTTATTTTAAATATTTTACATAAG
1 TTTTATTATTTTAAATATTTTACATAAG
21839621 TTTTATTA
1 TTTTATTA
21839629 ATTCTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 12 0.39
28 18 0.58
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (28 bp):
TTTTATTATTTTAAATATTTTACATAAG
Found at i:21839604 original size:27 final size:30
Alignment explanation
Indices: 21839564--21839628 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 30
21839554 TTTTTTACCA
*
21839564 TTTTTATTATTTTTAAGA-ATTTTA-ATAGG
1 TTTTTATTATTTTTAA-ATATTTTACATAAG
21839593 TTTTT-TTA-TTTTAAATATTTTACATAAG
1 TTTTTATTATTTTTAAATATTTTACATAAG
21839621 -TTTTATTA
1 TTTTTATTA
21839629 ATTCTATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 10 0.31
29 5 0.16
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.62
Consensus pattern (30 bp):
TTTTTATTATTTTTAAATATTTTACATAAG
Found at i:21839729 original size:29 final size:29
Alignment explanation
Indices: 21839674--21839754 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
21839664 TTATATTATA
* *
21839674 TTTATTTTATTTTTATAATATTT-ATAAGTT
1 TTTATTATA-TTTTAT-ATTTTTAATAAGTT
21839704 TTTATTATATTTTATATTTTTAATAAGTT
1 TTTATTATATTTTATATTTTTAATAAGTT
* *
21839733 TGTATCA-ATTTTAATATTTTTA
1 TTTATTATATTTT-ATATTTTTA
21839755 TTTTTTATGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 10 0.22
29 27 0.60
30 8 0.18
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (29 bp):
TTTATTATATTTTATATTTTTAATAAGTT
Found at i:21844166 original size:32 final size:32
Alignment explanation
Indices: 21844130--21844201 Score: 144
Period size: 32 Copynumber: 2.2 Consensus size: 32
21844120 TTAACATGAA
21844130 AAGATGAAAAAGTGTGCTGATGGATGAGGATG
1 AAGATGAAAAAGTGTGCTGATGGATGAGGATG
21844162 AAGATGAAAAAGTGTGCTGATGGATGAGGATG
1 AAGATGAAAAAGTGTGCTGATGGATGAGGATG
21844194 AAGATGAA
1 AAGATGAA
21844202 GTGAGCCTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.40, C:0.03, G:0.36, T:0.21
Consensus pattern (32 bp):
AAGATGAAAAAGTGTGCTGATGGATGAGGATG
Found at i:21844754 original size:22 final size:24
Alignment explanation
Indices: 21844712--21844756 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
21844702 TATCCTATAA
*
21844712 AAATATATTAAAATATTAAAAAAT
1 AAATATATTAAAATATAAAAAAAT
21844736 AAATAT-TTAAAATA-AAAAAAA
1 AAATATATTAAAATATAAAAAAA
21844757 CACAAACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATATATTAAAATATAAAAAAAT
Found at i:21845598 original size:17 final size:17
Alignment explanation
Indices: 21845576--21845614 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
21845566 CTCCACCTTG
* *
21845576 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
21845593 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
21845610 ACAAG
1 ACAAG
21845615 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:21849616 original size:51 final size:51
Alignment explanation
Indices: 21849521--21849660 Score: 156
Period size: 51 Copynumber: 2.7 Consensus size: 51
21849511 TCGAGTTATA
* * *
21849521 AATGAAAGGGGTCCGTTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACG
1 AATGAAA--GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACG
* * * * *
21849574 GATTAAAGTTCCGATGACTAAGTTTCATCGTGAGTAAGTGAATCCATGACG
1 AATGAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACG
* *
21849625 AATGAAAGGTCCGATGA-TAATATGTCATCATGAGTA
1 AATGAAAGGTCCGATGACTAA-GTGTCATCGTGAGTA
21849661 TTAAATGAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
50 3 0.04
51 64 0.89
53 5 0.07
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
AATGAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACG
Found at i:21856595 original size:51 final size:51
Alignment explanation
Indices: 21856526--21856763 Score: 368
Period size: 51 Copynumber: 4.7 Consensus size: 51
21856516 GAAAAGGGTT
* * *
21856526 CGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACATATTAAAGGCC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTC
* * *
21856577 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGGTTAATGGTC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTC
* * *
21856628 CGGTGACTAAGTGTCATCGTGAGTAAATGAATCTTTTACGGATTAAAGGTC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTC
** *
21856679 TTATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACAGATTAAAGGTC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTC
21856730 CGATGACTAAGTGTCATCGTGAGTAAATGAATCC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCC
21856764 ATGATGAATT
Statistics
Matches: 168, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 168 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (51 bp):
CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTC
Found at i:21856796 original size:102 final size:101
Alignment explanation
Indices: 21856526--21856805 Score: 323
Period size: 102 Copynumber: 2.7 Consensus size: 101
21856516 GAAAAGGGTT
* * * * *
21856526 CGATGACTAAGTGTCATCGTGAGTAAATGAAT-CATTTACATATTAAAGGCCCGATGACTAAGTG
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCATAT-GA-ATTAAAAGCTCAATGACTAAGTG
* * * *
21856590 TCATCGTGAGTAAATGAATCCTTTACGGGTTAATGGTC
64 TCATCATGAGTAAATGAATCCTTTACAGATTAAAGGTC
* ** * * * *
21856628 CGGTGACTAAGTGTCATCGTGAGTAAATGAATCTTTTACGGATT-AAAGGTCTTATGACTAAGTG
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATC-CATATGAATTAAAAGCTC-AATGACTAAGTG
21856692 TCATCATGAGTAAATGAATCCTTTACAGATTAAAGGTC
64 TCATCATGAGTAAATGAATCCTTTACAGATTAAAGGTC
* *
21856730 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGATGAATTAAAAGTTCAATGA-TAATATG
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCAT-ATGAATTAAAAGCTCAATGACTAA-GTG
21856794 TCATCATGAGTA
64 TCATCATGAGTA
21856806 TTAAATGAAA
Statistics
Matches: 149, Mismatches: 23, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
101 8 0.05
102 134 0.90
103 6 0.04
104 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (101 bp):
CGATGACTAAGTGTCATCGTGAGTAAATGAATCCATATGAATTAAAAGCTCAATGACTAAGTGTC
ATCATGAGTAAATGAATCCTTTACAGATTAAAGGTC
Found at i:21866740 original size:24 final size:24
Alignment explanation
Indices: 21866712--21866758 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
21866702 CAATTTATTT
21866712 TATTACATTTGCACTAACATTTTG
1 TATTACATTTGCACTAACATTTTG
*
21866736 TATTACATTTGCACTGACATTTT
1 TATTACATTTGCACTAACATTTT
21866759 TTACTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (24 bp):
TATTACATTTGCACTAACATTTTG
Found at i:21873350 original size:17 final size:17
Alignment explanation
Indices: 21873323--21873372 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
21873313 ATTCTTACAT
21873323 TTATGTTTATTTCTTTTC
1 TTAT-TTTATTTCTTTTC
*
21873341 TTATTTTATTTCTTTTT
1 TTATTTTATTTCTTTTC
*
21873358 TTA-TCTATTTCTTTT
1 TTATTTTATTTCTTTT
21873373 TAAATTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.37
17 15 0.50
18 4 0.13
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (17 bp):
TTATTTTATTTCTTTTC
Found at i:21873373 original size:17 final size:16
Alignment explanation
Indices: 21873322--21873373 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
21873312 CATTCTTACA
21873322 TTTATGTTTATTTCTTT
1 TTTAT-TTTATTTCTTT
21873339 TCTTATTTTATTTCTTT
1 T-TTATTTTATTTCTTT
*
21873356 TTT-TATCTATTTCTTT
1 TTTAT-TTTATTTCTTT
21873372 TT
1 TT
21873374 AAATTCTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 1 0.03
16 14 0.44
17 13 0.41
18 4 0.12
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTATTTTATTTCTTT
Found at i:21875052 original size:8 final size:8
Alignment explanation
Indices: 21875039--21875090 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
21875029 AGAAAGAGAA
21875039 AGAAGGAG
1 AGAAGGAG
21875047 AGAAGGAG
1 AGAAGGAG
21875055 -G-AGGA-
1 AGAAGGAG
21875060 A-AAGGA-
1 AGAAGGAG
*
21875066 AGAAGGAAA
1 AGAAGG-AG
21875075 AGAAGGAG
1 AGAAGGAG
21875083 AGAAGGAG
1 AGAAGGAG
21875091 GAGATTTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
6 9 0.24
7 5 0.13
8 18 0.47
9 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (8 bp):
AGAAGGAG
Found at i:21876071 original size:18 final size:18
Alignment explanation
Indices: 21876048--21876088 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21876038 GTTAAATAAA
21876048 AAAAAGAGAAAA-AGAAAG
1 AAAAAGAGAAAATA-AAAG
*
21876066 AAAAAGGGAAAATAAAAG
1 AAAAAGAGAAAATAAAAG
21876084 AAAAA
1 AAAAA
21876089 AATAATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (18 bp):
AAAAAGAGAAAATAAAAG
Found at i:21885454 original size:19 final size:17
Alignment explanation
Indices: 21885418--21885459 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
21885408 TCAATCACAT
21885418 AAAAAAAAGAGAAAAAG
1 AAAAAAAAGAGAAAAAG
*
21885435 AAAAAAAAG-GGAAAAG
1 AAAAAAAAGAGAAAAAG
21885451 AAGAAAAAA
1 AA-AAAAAA
21885460 TGTATATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAGAAAAAG
Found at i:21891844 original size:18 final size:18
Alignment explanation
Indices: 21891801--21891836 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21891791 AAATGTACTA
21891801 ACAAAT-AAAATGCAATG
1 ACAAATAAAAATGCAATG
21891818 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
21891836 A
1 A
21891837 TAACTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:21912553 original size:90 final size:89
Alignment explanation
Indices: 21912387--21912561 Score: 278
Period size: 90 Copynumber: 1.9 Consensus size: 89
21912377 AACGAGATAA
* *
21912387 AAAAAGAATTTGATATATTCCTTATCAGGTAAGGAGATAGAATTTAATTATTTAAAAGAGTTTTA
1 AAAAAGAATTTGATATATTCCTTATCAGATAAGGAAATAGAATTTAATTATTTAAAAGAGTTTTA
21912452 GATAAATAATAATTAAATTCAAAAT
66 GAT-AATAATAATTAAATTCAAAAT
*
21912477 AAAAAGGATTTGATATATTCCTTATCAGATAAGGAAATAGAATTTAATTATTATTTAAAAGAGTT
1 AAAAAGAATTTGATATATTCCTTATCAGATAAGGAAATAGAATTT-A--ATTATTTAAAAGAGTT
21912542 TTAGATAAATAATAATTAAA
63 TTAGAT-AATAATAATTAAA
21912562 ATAGAATTTA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
90 42 0.53
91 1 0.01
93 36 0.46
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (89 bp):
AAAAAGAATTTGATATATTCCTTATCAGATAAGGAAATAGAATTTAATTATTTAAAAGAGTTTTA
GATAATAATAATTAAATTCAAAAT
Found at i:21912596 original size:52 final size:50
Alignment explanation
Indices: 21912511--21912659 Score: 182
Period size: 52 Copynumber: 3.0 Consensus size: 50
21912501 TCAGATAAGG
*
21912511 AAATAGAATTTA-ATTATTATTTAAAAGAGTTTTAGATAAATAATAATTA
1 AAATAGAATTTATATTATTATTTAAAAGACTTTTAGATAAATAATAATTA
* * *
21912560 AAATAGAATTTAATTATTATTATTTAAAAGATTTTTAAATGAAA-GATAATT-
1 AAATAGAATTT-A-TATTATTATTTAAAAGACTTTTAGAT-AAATAATAATTA
*
21912611 AAATAAAATTT-TAATTATTATTTAAAA-ACTTTTAGATAAATAATAATTA
1 AAATAGAATTTAT-ATTATTATTTAAAAGACTTTTAGATAAATAATAATTA
21912660 TATTGTTATT
Statistics
Matches: 86, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
47 3 0.03
48 15 0.17
49 25 0.29
50 1 0.01
51 10 0.12
52 29 0.34
53 3 0.03
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (50 bp):
AAATAGAATTTATATTATTATTTAAAAGACTTTTAGATAAATAATAATTA
Found at i:21912669 original size:37 final size:39
Alignment explanation
Indices: 21912610--21912697 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 39
21912600 GAAAGATAAT
*
21912610 TAAATAA-AATTTTAATTATTATTTAAA-AACTTTTAGA
1 TAAATAATAATTATAATTATTATTTAAAGAACTTTTAGA
* * *
21912647 TAAATAATAATTAT-ATTGTTATTTAAAGGAGTTTTAGA
1 TAAATAATAATTATAATTATTATTTAAAGAACTTTTAGA
21912685 TAAATAATAATTA
1 TAAATAATAATTA
21912698 AAACATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
37 19 0.42
38 26 0.58
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (39 bp):
TAAATAATAATTATAATTATTATTTAAAGAACTTTTAGA
Found at i:21917710 original size:14 final size:13
Alignment explanation
Indices: 21917686--21917742 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 13
21917676 TCAGTCACTT
21917686 GAAAAAGGAAAATGA
1 GAAAAA-GAAAA-GA
21917701 GAAAAAGAAAAGA
1 GAAAAAGAAAAGA
21917714 G-AAAAGAGAAA-A
1 GAAAAAGA-AAAGA
21917726 G-AAAAGAAAAGA
1 GAAAAAGAAAAGA
21917738 -AAAAA
1 GAAAAA
21917743 TGTTTGCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
11 3 0.08
12 19 0.49
13 6 0.15
14 5 0.13
15 6 0.15
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (13 bp):
GAAAAAGAAAAGA
Found at i:21917713 original size:5 final size:5
Alignment explanation
Indices: 21917703--21917740 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
21917693 GAAAATGAGA
* *
21917703 AAAAG AAAAG AGAA- AAGAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
21917741 AATGTTTGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
4 2 0.07
5 26 0.93
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21917716 original size:7 final size:7
Alignment explanation
Indices: 21917688--21917727 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
21917678 AGTCACTTGA
21917688 AAAAG-G
1 AAAAGAG
21917694 AAAATGAG
1 AAAA-GAG
21917702 AAAA-AG
1 AAAAGAG
21917708 AAAAGAG
1 AAAAGAG
21917715 AAAAGAG
1 AAAAGAG
21917722 AAAAGA
1 AAAAGA
21917728 AAAGAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 10 0.32
7 16 0.52
8 5 0.16
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (7 bp):
AAAAGAG
Found at i:21917722 original size:20 final size:20
Alignment explanation
Indices: 21917688--21917732 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
21917678 AGTCACTTGA
21917688 AAAAG-GAAAATGAGAAAAAG
1 AAAAGAGAAAATGAG-AAAAG
21917708 AAAAGAGAAAA-GAGAAAAG
1 AAAAGAGAAAATGAGAAAAG
21917727 AAAAGA
1 AAAAGA
21917733 AAAGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.46
20 8 0.33
21 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (20 bp):
AAAAGAGAAAATGAGAAAAG
Found at i:21919628 original size:26 final size:26
Alignment explanation
Indices: 21919592--21919644 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
21919582 TTCGTGGGAT
21919592 AGATATCCGATAAAATTGTTCTATCA
1 AGATATCCGATAAAATTGTTCTATCA
* *
21919618 AGATATTCGATAGAATTGTTCTATCA
1 AGATATCCGATAAAATTGTTCTATCA
21919644 A
1 A
21919645 CTATACTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (26 bp):
AGATATCCGATAAAATTGTTCTATCA
Found at i:21923093 original size:48 final size:48
Alignment explanation
Indices: 21923001--21923124 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
21922991 TATTTATGCT
* *
21923001 TCATTAAGTGTTTTTTTTTGCTAAATGCATCTTTATTTAATAATCTGCA
1 TCATTAAGTG-TTTTGTTTGTTAAATGCATCTTTATTTAATAATCTGCA
* *
21923050 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCA
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTATTTAATAATCTGCA
* *
21923098 TTATTAACTGTTTTGTTTGTTAAATGC
1 TCATTAAGTGTTTTGTTTGTTAAATGC
21923125 TTTGTTAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
48 59 0.86
49 10 0.14
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (48 bp):
TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTATTTAATAATCTGCA
Found at i:21923683 original size:80 final size:79
Alignment explanation
Indices: 21923581--21923735 Score: 247
Period size: 80 Copynumber: 1.9 Consensus size: 79
21923571 GAGAAAGCCA
* * * * *
21923581 TGCCTTTTCAGCTACATTAGATCCTAATGAAGAGATATGACTCATTGGCTTTCCTACAAGAGTTA
1 TGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCTACAAGAGTT-
21923646 AAAATGAAATTGCCC
65 AAAATGAAATTGCCC
*
21923661 TGCCTTTTTAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCTACAAGAGTTA
1 TGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCTACAAGAGTTA
21923726 AAATGAAATT
66 AAATGAAATT
21923736 AGTGCTTGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 11 0.16
80 58 0.84
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (79 bp):
TGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCTACAAGAGTTA
AAATGAAATTGCCC
Found at i:21943456 original size:52 final size:52
Alignment explanation
Indices: 21943370--21943613 Score: 278
Period size: 52 Copynumber: 4.7 Consensus size: 52
21943360 ATTTCACTTC
* * * * * *
21943370 ATTCATATACTCATGATGACACATAGCCACCGGACCT-TATAATCCGTAAGGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCT-TAATCCATAAAGG
** * ** *
21943422 ATTCGCATACTCACAATGACACAGAGTCATCGGACCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCATAAAGG
*
21943474 A-TCTATATACTCACGATGACACTTAGTCATCAGACCTCTTAATCCATAAAGG
1 ATTC-ATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCATAAAGG
* ** *
21943526 ATTCATATACTCACGAGGACACTTAGTCATCGGTGCT-TATAATCCATGAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCT-TAATCCATAAAGG
*
21943578 ATTCATATACTCACGATAACACTTAGTCATCGGACC
1 ATTCATATACTCACGATGACACTTAGTCATCGGACC
21943614 CTTTTTCATT
Statistics
Matches: 164, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
51 3 0.02
52 158 0.96
53 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCATAAAGG
Found at i:21947292 original size:21 final size:21
Alignment explanation
Indices: 21947266--21947308 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
21947256 TACTCACATC
21947266 TGATAATAACCCGATCAGAGA
1 TGATAATAACCCGATCAGAGA
*
21947287 TGATAATAACCTGATCAGAGA
1 TGATAATAACCCGATCAGAGA
21947308 T
1 T
21947309 CTATTTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (21 bp):
TGATAATAACCCGATCAGAGA
Found at i:21950522 original size:52 final size:52
Alignment explanation
Indices: 21950390--21950638 Score: 228
Period size: 52 Copynumber: 4.8 Consensus size: 52
21950380 ATTTCACTTC
* * * * * *** *
21950390 ATTCATATACTCACGATGACACATAGCCACCGGACGTTATAATCTGCAAGGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCATAAAGG
** * ** *
21950442 ATTCGCATACTCACAATGACACAAAGTCATCAGACCTTTTAATCCATAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCATAAAGG
* * * * * *
21950494 ATTCATATACTCACGATGAAACTTAGTCACCGAACCTCTTAATTCGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCATAAAGG
* * * * * * **
21950546 ATTCATATACTCATGAGGACACTTAGTCATTGGAGCTTATAATCTATGGAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCATAAAGG
21950598 ATTCATATACTCACGATGACACTTAGTCATCGGACCCTTTT
1 ATTCATATACTCACGATGACACTTAGTCATCGGA-CCTTTT
21950639 TCATTTACGG
Statistics
Matches: 152, Mismatches: 44, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
52 148 0.97
53 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCATAAAGG
Found at i:21963424 original size:3 final size:3
Alignment explanation
Indices: 21963416--21963450 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21963406 CCCACAAGTT
21963416 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21963451 TTCCACTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21964251 original size:23 final size:22
Alignment explanation
Indices: 21964221--21964263 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
21964211 GTAACATTTC
*
21964221 AATTTTAACTAAAATTTGTTAA
1 AATTTTAACGAAAATTTGTTAA
*
21964243 AATTATTAACGAAATTTTGTT
1 AATT-TTAACGAAAATTTGTT
21964264 TTAACAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (22 bp):
AATTTTAACGAAAATTTGTTAA
Found at i:21975939 original size:20 final size:20
Alignment explanation
Indices: 21975890--21975940 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
21975880 CTCTATTTTT
21975890 TCTT-TTCTTCTCTTTCTCA
1 TCTTCTTCTTCTCTTTCTCA
* * *
21975909 TCTTCTCCTTCTTTTTCTCT
1 TCTTCTTCTTCTCTTTCTCA
*
21975929 TTTTCTTCTTCT
1 TCTTCTTCTTCT
21975941 ACTACCTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (20 bp):
TCTTCTTCTTCTCTTTCTCA
Found at i:21978312 original size:39 final size:39
Alignment explanation
Indices: 21978268--21978348 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
21978258 AATTTTGAAA
* *
21978268 TTTTTGTACTGCTTTATTTTGGGCAATCTTTTGATAGGC
1 TTTTTGTACTGCTTCATTCTGGGCAATCTTTTGATAGGC
* ** *
21978307 TTTTTGTGCTGCTTCATTCTGGGCTCTCTTTTGATGGGC
1 TTTTTGTACTGCTTCATTCTGGGCAATCTTTTGATAGGC
21978346 TTT
1 TTT
21978349 CCAGACGGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.10, C:0.16, G:0.22, T:0.52
Consensus pattern (39 bp):
TTTTTGTACTGCTTCATTCTGGGCAATCTTTTGATAGGC
Found at i:21979958 original size:20 final size:20
Alignment explanation
Indices: 21979933--21979974 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
21979923 CTTCTGTTTC
21979933 TTGGCCAAATGGAATTGCAG
1 TTGGCCAAATGGAATTGCAG
21979953 TTGGCCAAATGGAATTGCAG
1 TTGGCCAAATGGAATTGCAG
21979973 TT
1 TT
21979975 TTCTTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (20 bp):
TTGGCCAAATGGAATTGCAG
Found at i:21987833 original size:26 final size:25
Alignment explanation
Indices: 21987763--21987833 Score: 58
Period size: 26 Copynumber: 2.9 Consensus size: 25
21987753 TTGTTAAATT
21987763 ATATATT--ATTATTT-TTATTAAA
1 ATATATTAAATTATTTATTATTAAA
* * * * *
21987785 TTATATTTAATAATAATAATATTAAA
1 ATATATTAAATTAT-TTATTATTAAA
21987811 ATATGATTAAATTATTTATTATT
1 ATAT-ATTAAATTATTTATTATT
21987834 TTTTTCTTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
22 6 0.17
24 4 0.11
25 1 0.03
26 16 0.46
27 8 0.23
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
ATATATTAAATTATTTATTATTAAA
Found at i:21987845 original size:60 final size:62
Alignment explanation
Indices: 21987730--21987863 Score: 186
Period size: 60 Copynumber: 2.2 Consensus size: 62
21987720 TAATTTAATA
* *
21987730 TTAA-AATAATTATATTAAAGATGTTGTTAAATTATATATTATTATTTTTATTAAATTATAT
1 TTAATAATAATAATATTAAAGATGATGTTAAATTATATATTATTATTTTTATTAAATTATAT
* *
21987791 TTAATAATAATAATATTAAA-AT-ATGATTAAATTATTTATTATT-TTTTTCTTAAATTATAT
1 TTAATAATAATAATATTAAAGATGATG-TTAAATTATATATTATTATTTTTATTAAATTATAT
*
21987851 TTAATAACAATAA
1 TTAATAATAATAA
21987864 CAATAATCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
60 30 0.45
61 22 0.33
62 14 0.21
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (62 bp):
TTAATAATAATAATATTAAAGATGATGTTAAATTATATATTATTATTTTTATTAAATTATAT
Found at i:21988040 original size:16 final size:16
Alignment explanation
Indices: 21988016--21988069 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
21988006 TGAATTACTG
* *
21988016 ATTACAGCTTTATTTC
1 ATTATAGCTCTATTTC
*
21988032 ATTATAGCTCTATTCC
1 ATTATAGCTCTATTTC
* *
21988048 ATTAAAACTCTATTTC
1 ATTATAGCTCTATTTC
21988064 ATTATA
1 ATTATA
21988070 AACTTATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTATAGCTCTATTTC
Found at i:21988077 original size:16 final size:17
Alignment explanation
Indices: 21988026--21988078 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 17
21988016 ATTACAGCTT
*
21988026 TATTTCATTAT-AGCTC
1 TATTTCATTATAAACTC
*
21988042 TATTCCATTA-AAACTC
1 TATTTCATTATAAACTC
21988058 TATTTCATTATAAACT-
1 TATTTCATTATAAACTC
21988074 TATTT
1 TATTT
21988079 AATTTCAGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 27 0.84
17 5 0.16
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTTCATTATAAACTC
Found at i:21992913 original size:39 final size:40
Alignment explanation
Indices: 21992821--21993072 Score: 264
Period size: 39 Copynumber: 6.3 Consensus size: 40
21992811 AAGACCATTT
*
21992821 AATCTTTTACCCCGA-TCATGGGGCAGATGGAAGACATCATCC
1 AATCTTTTACCCCGACT-ATGGGGCAGATTGAAGACA--ATCC
* *
21992863 AATCTCTTACCCCGACCATGGGGCAGATTGAAG-CAATCC
1 AATCTTTTACCCCGACTATGGGGCAGATTGAAGACAATCC
** *
21992902 AATCTTTTACCCTAACTA-GAGGGCAGATTGAAGACCATCC
1 AATCTTTTACCCCGACTATG-GGGCAGATTGAAGACAATCC
* * * * *
21992942 GATCTCTTATCCCGATTATGGGGCAGATTGAAG-TAATCC
1 AATCTTTTACCCCGACTATGGGGCAGATTGAAGACAATCC
** * *
21992981 AATCTTTTACCCTAACTA-GAGGGCAGATTGAAGACCATCT
1 AATCTTTTACCCCGACTATG-GGGCAGATTGAAGACAATCC
* *
21993021 GATCTCTTACCCCGACTATGGGGCAGATTGAA-ACAATCC
1 AATCTTTTACCCCGACTATGGGGCAGATTGAAGACAATCC
21993060 AATCTTTTACCCC
1 AATCTTTTACCCC
21993073 TAAAGCTATA
Statistics
Matches: 170, Mismatches: 33, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
38 2 0.01
39 76 0.45
40 59 0.35
41 4 0.02
42 29 0.17
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (40 bp):
AATCTTTTACCCCGACTATGGGGCAGATTGAAGACAATCC
Found at i:21992966 original size:79 final size:79
Alignment explanation
Indices: 21992841--21993071 Score: 372
Period size: 79 Copynumber: 2.9 Consensus size: 79
21992831 CCCGATCATG
* * *
21992841 GGGCAGATGGAAGACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATC
1 GGGCAGATTGAAGAC--CATCCGATCTCTTACCCCGACTATGGGGCAGATTGAAGCAATCCAATC
21992906 TTTTACCCTAACTAGA
64 TTTTACCCTAACTAGA
* * *
21992922 GGGCAGATTGAAGACCATCCGATCTCTTATCCCGATTATGGGGCAGATTGAAGTAATCCAATCTT
1 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACTATGGGGCAGATTGAAGCAATCCAATCTT
21992987 TTACCCTAACTAGA
66 TTACCCTAACTAGA
* *
21993001 GGGCAGATTGAAGACCATCTGATCTCTTACCCCGACTATGGGGCAGATTGAAACAATCCAATCTT
1 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACTATGGGGCAGATTGAAGCAATCCAATCTT
21993066 TTACCC
66 TTACCC
21993072 CTAAAGCTAT
Statistics
Matches: 139, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
79 125 0.90
81 14 0.10
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (79 bp):
GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACTATGGGGCAGATTGAAGCAATCCAATCTT
TTACCCTAACTAGA
Found at i:21994751 original size:30 final size:30
Alignment explanation
Indices: 21994643--21994751 Score: 125
Period size: 30 Copynumber: 3.6 Consensus size: 30
21994633 TAAACTTTTT
21994643 AAAAATTCGAAA-TTGACCTCC-AATTTTTCC
1 AAAAATTC-AAATTTGACC-CCTAATTTTTCC
** * *
21994673 AAAAATTTGAATTTGTCCTCTAATTTTTCC
1 AAAAATTCAAATTTGACCCCTAATTTTTCC
*
21994703 AAAAATTCAAATTTGACCCCTAAAGTTTT-C
1 AAAAATTCAAATTTGACCCCT-AATTTTTCC
21994733 AAAAATTCAAATTTGACCC
1 AAAAATTCAAATTTGACCC
21994752 ATTTTTAATG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.04
30 58 0.87
31 6 0.09
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAATTCAAATTTGACCCCTAATTTTTCC
Found at i:21994831 original size:9 final size:10
Alignment explanation
Indices: 21994797--21994845 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
21994787 TATATGAATA
*
21994797 TGTATATTAT
1 TGTATTTTAT
*
21994807 TTTATTTTAT
1 TGTATTTTAT
21994817 TGTATTTTA-
1 TGTATTTTAT
21994826 TGTA-TTTAT
1 TGTATTTTAT
21994835 TGCT-TTTTAT
1 TG-TATTTTAT
21994845 T
1 T
21994846 ATGTATACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 4 0.12
9 6 0.18
10 23 0.70
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.69
Consensus pattern (10 bp):
TGTATTTTAT
Found at i:21995790 original size:7 final size:8
Alignment explanation
Indices: 21995773--21995799 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21995763 AATCCTCTAC
21995773 TTTTTATT
1 TTTTTATT
21995781 TTTTTATT
1 TTTTTATT
21995789 TTTTTATT
1 TTTTTATT
21995797 TTT
1 TTT
21995800 CGTAATTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTATT
Found at i:21997474 original size:20 final size:20
Alignment explanation
Indices: 21997451--21997490 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21997441 TTAATTAACA
*
21997451 TAATTAACCTTACTTTAATT
1 TAATAAACCTTACTTTAATT
* *
21997471 TAATAAACTTTATTTTAATT
1 TAATAAACCTTACTTTAATT
21997491 AAGTTATTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAAACCTTACTTTAATT
Found at i:22001062 original size:24 final size:24
Alignment explanation
Indices: 22001034--22001092 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
22001024 AGAAATAATC
22001034 TTTCAGTCAAACTCTGTTTATTTG
1 TTTCAGTCAAACTCTGTTTATTTG
* *
22001058 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTCAAACTCTGTTTATTTG
*
22001082 TTTGAGTCAAA
1 TTTCAGTCAAA
22001093 TTCTTATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (24 bp):
TTTCAGTCAAACTCTGTTTATTTG
Found at i:22003215 original size:24 final size:24
Alignment explanation
Indices: 22003184--22003397 Score: 277
Period size: 24 Copynumber: 8.9 Consensus size: 24
22003174 CAATGTTTCT
* * * *
22003184 TATATTAGCTGGCAAGAGTAAACA
1 TATATTAGCTGACGAGCGTAAACG
* *
22003208 TATATTAGTTGACGAGCGTAAAAG
1 TATATTAGCTGACGAGCGTAAACG
*
22003232 TATATTAGCTGATGAGCGTAAACG
1 TATATTAGCTGACGAGCGTAAACG
* *
22003256 TATATAAGCTGACGAGCGTAAATG
1 TATATTAGCTGACGAGCGTAAACG
*
22003280 TATATTAGCTGGCGAGCGTAAACG
1 TATATTAGCTGACGAGCGTAAACG
*
22003304 CATATTAGCTGACGAGCGTAAACG
1 TATATTAGCTGACGAGCGTAAACG
*
22003328 TATATTAGTTGACGAGCGTAAACG
1 TATATTAGCTGACGAGCGTAAACG
* **
22003352 CATATTAGCTGGTGAGCGTAAACG
1 TATATTAGCTGACGAGCGTAAACG
22003376 TA-ACTTAGCTGACGAGCGTAAA
1 TATA-TTAGCTGACGAGCGTAAA
22003398 TGTACTGAAC
Statistics
Matches: 163, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
23 1 0.01
24 162 0.99
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (24 bp):
TATATTAGCTGACGAGCGTAAACG
Found at i:22009614 original size:19 final size:20
Alignment explanation
Indices: 22009573--22009621 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
22009563 TTTCTAGTAG
* *
22009573 AAAATG-ATTAAAAAATCTT
1 AAAATGTATAAAAAAATCTA
*
22009592 AAAATTTATAAAAAAAT-TA
1 AAAATGTATAAAAAAATCTA
22009611 AAAATGTATAA
1 AAAATGTATAA
22009622 TTATACGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAATGTATAAAAAAATCTA
Found at i:22011255 original size:26 final size:26
Alignment explanation
Indices: 22011218--22011285 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
22011208 TTTAGCTCGA
* * *
22011218 TAAGAGCAAAATTTTGTTTGGGCTAG
1 TAAGAGCTAAATTCTGTCTGGGCTAG
*
22011244 TAAGAGCTAAATTCTGTCTGGGCTCG
1 TAAGAGCTAAATTCTGTCTGGGCTAG
*
22011270 TATGAGCTAAACTTCT
1 TAAGAGCTAAA-TTCT
22011286 AGAATGACTC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 32 0.89
27 4 0.11
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (26 bp):
TAAGAGCTAAATTCTGTCTGGGCTAG
Found at i:22018841 original size:17 final size:17
Alignment explanation
Indices: 22018821--22018874 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
22018811 ACTACAATGC
* *
22018821 AAATGTACTAACAACTA
1 AAATGTAATGACAACTA
* * *
22018838 AAATGCAGTGACAAATAA
1 AAATGTAATGACAACT-A
22018856 AAATGTAATGACAACTA
1 AAATGTAATGACAACTA
22018873 AA
1 AA
22018875 TGTTACGCAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.56, C:0.13, G:0.11, T:0.20
Consensus pattern (17 bp):
AAATGTAATGACAACTA
Found at i:22026766 original size:31 final size:31
Alignment explanation
Indices: 22026719--22026806 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
22026709 CATTGTCTCG
* *
22026719 AAATTTTTGAAAATTTTCATTAAATTATTTCA
1 AAATTTTT-AAAATTTTCATTAAATTACTCCA
* * *
22026751 AAATTTTTAAAATTTTAATTAAACTCCTCCA
1 AAATTTTTAAAATTTTCATTAAATTACTCCA
* *
22026782 AAAATTTTACAAATTCTCATTAAAT
1 AAATTTTTA-AAATTTTCATTAAAT
22026807 CTCTTAAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 26 0.57
32 20 0.43
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.44
Consensus pattern (31 bp):
AAATTTTTAAAATTTTCATTAAATTACTCCA
Found at i:22027922 original size:245 final size:244
Alignment explanation
Indices: 22027621--22028072 Score: 737
Period size: 245 Copynumber: 1.8 Consensus size: 244
22027611 AAATTCTCAC
* *
22027621 CAAAAAAGCCAATCAAATTCCTCAATTATAGATTTAAAATCAAAAGAAATAATGAGACAATAAAA
1 CAAAAAAGCCAATCAAATTCCTCAATTATAAATTTAAAATCAAAAGAAACAATGAGACAATAAAA
* *
22027686 TTACCCA-AAGAAAAATGTAGAAATTCAAGCGATGAACAAT-AAAAAAACTCTAAAAAAATGATA
66 TTACCCAGAA-AAAAATGTAGAAATTCAAGCAATGAACAATAAAAAAAACTCT-AAAAAATGACA
*
22027749 ATATAATAAAGTCCATCTCAAGTTTATACAGTAAAAAAAAAGATCACCTTCTCTTTTTCCAAAGA
129 ATATAATAAAGTCCATCTCAAATTTATACAGT-AAAAAAAAGATCACCTTCTCTTTTTCCAAAGA
22027814 GAAAAAAATCAAAGAGATAACAAGCTTTCCACAACAACAACAGAGTAATTCT
193 GAAAAAAATCAAAGAGATAACAAGCTTTCCACAACAACAACAGAGTAATTCT
* * *
22027866 CAAAAAAGCCAATCAAATTCTTCAATTATAAATTTAAAATTAAAAGAGACAATGAGACAATAAAA
1 CAAAAAAGCCAATCAAATTCCTCAATTATAAATTTAAAATCAAAAGAAACAATGAGACAATAAAA
* *
22027931 TTACCCAGAAAAAATTGTAGAAATTCAAGCAATGAACAATAAAAAAAACTCTAAAAAATGACAGT
66 TTACCCAGAAAAAAATGTAGAAATTCAAGCAATGAACAATAAAAAAAACTCTAAAAAATGACAAT
* * * *
22027996 ATAATAAAGTCCATCTCAAATTTATACAGTAAAAAAAAGCTCACTTTTTGTTTTTCCAAAGAGAA
131 ATAATAAAGTCCATCTCAAATTTATACAGTAAAAAAAAGATCACCTTCTCTTTTTCCAAAGAGAA
22028061 AAAAATCAAAGA
196 AAAAATCAAAGA
22028073 AATGCATGGA
Statistics
Matches: 191, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
244 43 0.23
245 135 0.71
246 13 0.07
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.23
Consensus pattern (244 bp):
CAAAAAAGCCAATCAAATTCCTCAATTATAAATTTAAAATCAAAAGAAACAATGAGACAATAAAA
TTACCCAGAAAAAAATGTAGAAATTCAAGCAATGAACAATAAAAAAAACTCTAAAAAATGACAAT
ATAATAAAGTCCATCTCAAATTTATACAGTAAAAAAAAGATCACCTTCTCTTTTTCCAAAGAGAA
AAAAATCAAAGAGATAACAAGCTTTCCACAACAACAACAGAGTAATTCT
Found at i:22032223 original size:2 final size:2
Alignment explanation
Indices: 22032216--22032252 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22032206 AGAGTTTTTA
22032216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22032253 GAAATATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22032621 original size:21 final size:22
Alignment explanation
Indices: 22032581--22032621 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
22032571 ACATCAGTTT
*
22032581 TTTTAAAACACTTTAATAATTC
1 TTTTAAAACAATTTAATAATTC
*
22032603 TTTTAAAA-AATTTATTAAT
1 TTTTAAAACAATTTAATAAT
22032622 GAATTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTAAAACAATTTAATAATTC
Found at i:22032762 original size:28 final size:28
Alignment explanation
Indices: 22032715--22032784 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 28
22032705 AATTATTTAA
22032715 TATT-TAATATTAAA-A-TAATAAAAAT-
1 TATTATAAT-TTAAATATTAATAAAAATG
* **
22032740 TCATTATAGTTTAAATATTAATATCAATG
1 T-ATTATAATTTAAATATTAATAAAAATG
22032769 TATTATAATTTAAATA
1 TATTATAATTTAAATA
22032785 ATATTATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
25 1 0.03
26 8 0.22
27 4 0.11
28 22 0.61
29 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (28 bp):
TATTATAATTTAAATATTAATAAAAATG
Found at i:22032796 original size:28 final size:28
Alignment explanation
Indices: 22032742--22032796 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
22032732 ATAAAAATTC
* *
22032742 ATTATAGTTTAAATATTAATATCAATGT
1 ATTATAATTTAAATAATAATATCAATGT
* *
22032770 ATTATAATTTAAATAATATTATTAATG
1 ATTATAATTTAAATAATAATATCAATG
22032797 ATTTCTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (28 bp):
ATTATAATTTAAATAATAATATCAATGT
Found at i:22033026 original size:23 final size:24
Alignment explanation
Indices: 22032984--22033033 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
22032974 TATGTGACTT
*
22032984 TTTTTATATAAAATTTTGTTAATAA
1 TTTTTATATAAAA-TGTGTTAATAA
*
22033009 TTTTTATATAAAA-GTGTTACTAA
1 TTTTTATATAAAATGTGTTAATAA
22033032 TT
1 TT
22033034 AAATGAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
25 13 0.57
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
TTTTTATATAAAATGTGTTAATAA
Found at i:22046563 original size:24 final size:24
Alignment explanation
Indices: 22046536--22046584 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22046526 AAAGCTTTCA
22046536 AGAACAAGAAATTTCAACAATGGC
1 AGAACAAGAAATTTCAACAATGGC
22046560 AGAACAAGAAATTTCAACAATGGC
1 AGAACAAGAAATTTCAACAATGGC
22046584 A
1 A
22046585 AGTTTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (24 bp):
AGAACAAGAAATTTCAACAATGGC
Found at i:22049736 original size:22 final size:24
Alignment explanation
Indices: 22049705--22049748 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
22049695 ATTAATTAAA
*
22049705 AAATAATAAAATGTA-AAAAGTTG
1 AAATAATAAAATATATAAAAGTTG
22049728 AAAT-ATAAAATATATAAAAGT
1 AAATAATAAAATATATAAAAGT
22049749 ATTGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (24 bp):
AAATAATAAAATATATAAAAGTTG
Found at i:22052902 original size:17 final size:18
Alignment explanation
Indices: 22052880--22052913 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22052870 TGCATAGATT
22052880 GAATATATTTAA-AATTG
1 GAATATATTTAATAATTG
22052897 GAATATATTTAATAATT
1 GAATATATTTAATAATT
22052914 TTACTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (18 bp):
GAATATATTTAATAATTG
Found at i:22053829 original size:16 final size:17
Alignment explanation
Indices: 22053808--22053846 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
22053798 CCCGATTCAC
22053808 AAATT-GAATATATTTA
1 AAATTGGAATATATTTA
22053824 AAATTGGAATATATTTA
1 AAATTGGAATATATTTA
22053841 ATAATT
1 A-AATT
22053847 TCACATCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 12 0.57
18 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (17 bp):
AAATTGGAATATATTTA
Found at i:22054613 original size:3 final size:3
Alignment explanation
Indices: 22054605--22054650 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
22054595 TCGATTAGAG
22054605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22054651 TATTATTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22054657 original size:3 final size:3
Alignment explanation
Indices: 22054651--22054691 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
22054641 AATAATAATA
22054651 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22054692 CTTTTAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:22059086 original size:20 final size:20
Alignment explanation
Indices: 22059040--22059092 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
22059030 TTTTGAAGTG
* *
22059040 TTAAAATGATTTTGACTTAG
1 TTAAAATCATTTTGACTTAC
* *
22059060 TTTAAATTATTTTGA-TATAC
1 TTAAAATCATTTTGACT-TAC
22059080 TTAAAATCATTTT
1 TTAAAATCATTTT
22059093 AACTCGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.51
Consensus pattern (20 bp):
TTAAAATCATTTTGACTTAC
Found at i:22059240 original size:23 final size:23
Alignment explanation
Indices: 22059202--22059262 Score: 97
Period size: 22 Copynumber: 2.7 Consensus size: 23
22059192 TTTCAACTTA
22059202 TATTTAAAAATATTTTTA-TTTT
1 TATTTAAAAATATTTTTATTTTT
22059224 TATTTAAAAATATTTTTATTTTT
1 TATTTAAAAATATTTTTATTTTT
* *
22059247 TATATCAAAATATTTT
1 TATTTAAAAATATTTT
22059263 ATCAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTAAAAATATTTTTATTTTT
Found at i:22059263 original size:22 final size:23
Alignment explanation
Indices: 22059206--22059264 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
22059196 AACTTATATT
*
22059206 TAAAAATATTTT-TATTTTTATT
1 TAAAAATATTTTATATTTTTATA
22059228 TAAAAATATTTT-TATTTTTTATA
1 TAAAAATATTTTATA-TTTTTATA
*
22059251 TCAAAATATTTTAT
1 TAAAAATATTTTAT
22059265 CAAATAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 14 0.42
23 18 0.55
24 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TAAAAATATTTTATATTTTTATA
Done.