Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 62 of 125
Found at i:19016510 original size:15 final size:15
Alignment explanation
Indices: 19016478--19016542 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
19016468 TCATCCATGC
*
19016478 TCGCAACA-CGAGTAT
1 TCGCAACATC-AGTGT
19016493 TCGCAACATCAGTGT
1 TCGCAACATCAGTGT
*
19016508 TCGCAGC-TCCAGTGT
1 TCGCAACAT-CAGTGT
* *
19016523 TTGCAACATGAGTGT
1 TCGCAACATCAGTGT
19016538 TCGCA
1 TCGCA
19016543 TCTTCCAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
14 1 0.02
15 38 0.93
16 2 0.05
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (15 bp):
TCGCAACATCAGTGT
Found at i:19023338 original size:17 final size:17
Alignment explanation
Indices: 19023318--19023350 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19023308 TTTAAGGACT
19023318 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTAGTTTAAG
19023335 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
19023351 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Found at i:19023634 original size:50 final size:52
Alignment explanation
Indices: 19023540--19023695 Score: 146
Period size: 50 Copynumber: 3.1 Consensus size: 52
19023530 TGATATCCAT
* * *
19023540 TAACTCTCATGATTAGTT-AAGTTTGCATCA-TAAA-CAATGACATGCATTAAG
1 TAACTCACATG-TTAGTTAAAGTATGCATCATTAAATCAA-GTCATGCATTAAG
* * *
19023591 TAACAT-ATATGTTAGTTAAA-TATGCATCA-TAAATCCTA-TCATGCATTATG
1 TAAC-TCACATGTTAGTTAAAGTATGCATCATTAAAT-CAAGTCATGCATTAAG
* * *
19023641 TAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATCAAGTCATGCATTTAG
1 TAACTCACATGTTAGTTAAAGTATGCATCATTAAATCAAGTCATGCATTAAG
19023693 TAA
1 TAA
19023696 TCCATTAGTT
Statistics
Matches: 85, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
49 1 0.01
50 44 0.52
51 19 0.22
52 21 0.25
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (52 bp):
TAACTCACATGTTAGTTAAAGTATGCATCATTAAATCAAGTCATGCATTAAG
Found at i:19031803 original size:17 final size:17
Alignment explanation
Indices: 19031783--19031815 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19031773 TTTAAGGACT
19031783 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTAGTTTAAG
19031800 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
19031816 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Found at i:19031867 original size:31 final size:31
Alignment explanation
Indices: 19031816--19031878 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
19031806 TTTAGTTTAA
* *
19031816 TAAGTGTTTGCATATTTAATTATGTCTTTCAT
1 TAAGTGTTTGCA-ATTTAATTAAGTCATTCAT
19031848 TAAGTGTTTTGC-ATTTAATTAAGTCATTCAT
1 TAAGTG-TTTGCAATTTAATTAAGTCATTCAT
19031879 AAAAGCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 6 0.21
33 5 0.18
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.51
Consensus pattern (31 bp):
TAAGTGTTTGCAATTTAATTAAGTCATTCAT
Found at i:19032104 original size:50 final size:52
Alignment explanation
Indices: 19032034--19032165 Score: 148
Period size: 50 Copynumber: 2.6 Consensus size: 52
19032024 AGCTAAGTTA
* *
19032034 GCATCA-TAAAT-AATGACATGCATTAAGTAACTTACATGTTAGTTAAA-TAT
1 GCATCATTAAATCAA-GTCATGCATTAAGTAACTCACATGTTAGTTAAAGTAT
* * * *
19032084 GCATCA-TAAATCCTA-TCATGCATTATGTAACTCCCATGTTAGTTAAAGTTT
1 GCATCATTAAAT-CAAGTCATGCATTAAGTAACTCACATGTTAGTTAAAGTAT
*
19032135 GCATCATTAAATCAAGTCATGCATTTAGTAA
1 GCATCATTAAATCAAGTCATGCATTAAGTAA
19032166 TTCATTAGTT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
50 39 0.57
51 10 0.15
52 19 0.28
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (52 bp):
GCATCATTAAATCAAGTCATGCATTAAGTAACTCACATGTTAGTTAAAGTAT
Found at i:19045483 original size:5 final size:5
Alignment explanation
Indices: 19045473--19045497 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19045463 TGTGAGGATA
19045473 TTTCT TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT
19045498 GGTTTGAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:19046764 original size:60 final size:60
Alignment explanation
Indices: 19046673--19046880 Score: 353
Period size: 60 Copynumber: 3.5 Consensus size: 60
19046663 ACCAATAATT
* * * *
19046673 CCAAGATTTGGATTCTTGGTTTTCCTAATTTCTAAAATCTCCCCAAATGGCATAATTAGA
1 CCAAGATTTGGTTTCTTGATTTTCTTGATTTCTAAAATCTCCCCAAATGGCATAATTAGA
19046733 CCAAGATTTGGTTTCTTGATTTTCTTGATTTCTAAAATCTCCCCAAATGGCATAATTAGA
1 CCAAGATTTGGTTTCTTGATTTTCTTGATTTCTAAAATCTCCCCAAATGGCATAATTAGA
* **
19046793 CCAAGATTTTGTTTCTTGATTTTCTTGATTTCTAAAATCTCCCCAAATGTAATAATTAGA
1 CCAAGATTTGGTTTCTTGATTTTCTTGATTTCTAAAATCTCCCCAAATGGCATAATTAGA
19046853 CCAAGATTTGGTTTCTTGATTTTCTTGA
1 CCAAGATTTGGTTTCTTGATTTTCTTGA
19046881 AAACAAGAAA
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 140 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (60 bp):
CCAAGATTTGGTTTCTTGATTTTCTTGATTTCTAAAATCTCCCCAAATGGCATAATTAGA
Found at i:19051344 original size:24 final size:23
Alignment explanation
Indices: 19051316--19051365 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
19051306 GAGGAAGAAT
*
19051316 TGGTGGCTTCGTCCACAACCTACA
1 TGGTGG-TTCATCCACAACCTACA
* *
19051340 TGGTGGTTTATCCATAACCTACA
1 TGGTGGTTCATCCACAACCTACA
19051363 TGG
1 TGG
19051366 CCGCTTGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (23 bp):
TGGTGGTTCATCCACAACCTACA
Found at i:19064712 original size:13 final size:14
Alignment explanation
Indices: 19064694--19064734 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
19064684 TTTCTACTTA
19064694 TTTTTCTTTTTCT-
1 TTTTTCTTTTTCTC
19064707 TTTTTCTTTTTCTC
1 TTTTTCTTTTTCTC
*
19064721 TATTTTCTTATTCT
1 T-TTTTCTTTTTCT
19064735 GGATAGACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 1 0.04
15 11 0.44
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTCTTTTTCTC
Found at i:19065162 original size:67 final size:67
Alignment explanation
Indices: 19065080--19065221 Score: 232
Period size: 67 Copynumber: 2.1 Consensus size: 67
19065070 AATTATAATT
*
19065080 TATCATATATACTAGCATGCTAATTTCCTCATATATCGCACATCACTTGGTATTAATAATACCTT
1 TATCCTATATACTAGCATGCTAATTTCCTCATATATCGCACATCACTTGGTATTAATAATACCTT
19065145 TG
66 TG
** *
19065147 TATCCTATATACTAGCATGCTTGTTTCCTCATATATCTCACATCACTTGGTATTAATAATACCTT
1 TATCCTATATACTAGCATGCTAATTTCCTCATATATCGCACATCACTTGGTATTAATAATACCTT
*
19065212 TT
66 TG
19065214 TAT-CTATA
1 TATCCTATA
19065222 CTTTAATATA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
66 5 0.07
67 65 0.93
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.42
Consensus pattern (67 bp):
TATCCTATATACTAGCATGCTAATTTCCTCATATATCGCACATCACTTGGTATTAATAATACCTT
TG
Found at i:19065686 original size:24 final size:22
Alignment explanation
Indices: 19065659--19065713 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
19065649 ATATAAGTCT
19065659 AAAATAAAAACAAGAAATTATCCA
1 AAAATAAAAA-AAGAAATTAT-CA
* *
19065683 AAAATTACAAAAATGAAATTGTCA
1 AAAA-TA-AAAAAAGAAATTATCA
19065707 AAAATAA
1 AAAATAA
19065714 CTATTCCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 10 0.37
25 10 0.37
26 4 0.15
ACGTcount: A:0.65, C:0.09, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAATAAAAAAAGAAATTATCA
Found at i:19068912 original size:3 final size:3
Alignment explanation
Indices: 19068904--19068943 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
19068894 CTATAGCCTA
19068904 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19068944 CGAAAATTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:19072124 original size:77 final size:77
Alignment explanation
Indices: 19072006--19072164 Score: 318
Period size: 77 Copynumber: 2.1 Consensus size: 77
19071996 AGGGCCTCGA
19072006 AAAATATTTTTAAAATTAAAATATGGGAGTCGCCACCAATCTTTTATTCAATGTGATTGGATCAC
1 AAAATATTTTTAAAATTAAAATATGGGAGTCGCCACCAATCTTTTATTCAATGTGATTGGATCAC
19072071 CACAAAACGTTT
66 CACAAAACGTTT
19072083 AAAATATTTTTAAAATTAAAATATGGGAGTCGCCACCAATCTTTTATTCAATGTGATTGGATCAC
1 AAAATATTTTTAAAATTAAAATATGGGAGTCGCCACCAATCTTTTATTCAATGTGATTGGATCAC
19072148 CACAAAACGTTT
66 CACAAAACGTTT
19072160 AAAAT
1 AAAAT
19072165 TCGTTTTGAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (77 bp):
AAAATATTTTTAAAATTAAAATATGGGAGTCGCCACCAATCTTTTATTCAATGTGATTGGATCAC
CACAAAACGTTT
Found at i:19072962 original size:30 final size:29
Alignment explanation
Indices: 19072903--19073232 Score: 301
Period size: 29 Copynumber: 11.2 Consensus size: 29
19072893 TTTTGGAGAA
* *
19072903 TTTAGGGTTAAAATATAATTTT-GAAAAAG
1 TTTAGGGTTAAAATGTAATTTTAG-GAAAG
* *
19072932 TTTAAGAGTAAAAATGTAATTTTAGGAAAG
1 TTT-AGGGTTAAAATGTAATTTTAGGAAAG
*
19072962 TTTGGGGTTAAAATGTAATTTTAGGAAAG
1 TTTAGGGTTAAAATGTAATTTTAGGAAAG
*
19072991 TTTAGGGTTAAAATGTGATTTTA-GATAAG
1 TTTAGGGTTAAAATGTAATTTTAGGA-AAG
* ** * *
19073020 TTTAGGGTTAAAATATGGTTTTAAGAAGG
1 TTTAGGGTTAAAATGTAATTTTAGGAAAG
*
19073049 TTTAGGGGTCAAAATGTAATTTTA-GAGAAG
1 TTTA-GGGTTAAAATGTAATTTTAGGA-AAG
* * *
19073079 TTTAGGGTCATAATATAATTTT-GGAAAGG
1 TTTAGGGTTAAAATGTAATTTTAGGAAA-G
* *
19073108 TTTACGGGTTAAAATGTGATTTTAGGGAAG
1 TTTA-GGGTTAAAATGTAATTTTAGGAAAG
* *
19073138 TTTGGGGTTAAAATGTAATTGTA-GAGAAG
1 TTTAGGGTTAAAATGTAATTTTAGGA-AAG
* *
19073167 TTTGAGGGTTAAAATATAATTTTAGAAAAG
1 TTT-AGGGTTAAAATGTAATTTTAGGAAAG
* * * *
19073197 TTTGGGGGTCAAAATATAATTTTTGGAAAAG
1 TTT-AGGGTTAAAATGTAATTTTAGG-AAAG
19073228 TTTAG
1 TTTAG
19073233 AAACCCCTGA
Statistics
Matches: 250, Mismatches: 37, Indels: 27
0.80 0.12 0.09
Matches are distributed among these distances:
28 5 0.02
29 125 0.50
30 107 0.43
31 13 0.05
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (29 bp):
TTTAGGGTTAAAATGTAATTTTAGGAAAG
Found at i:19072972 original size:59 final size:58
Alignment explanation
Indices: 19072907--19073219 Score: 299
Period size: 59 Copynumber: 5.3 Consensus size: 58
19072897 GGAGAATTTA
* *
19072907 GGGTTAAAATATAATTTTGAAAAAGTTTAAGAGTAAAAATGTAATTTTAGGAAAGTTTG
1 GGGTTAAAATATAATTTT-AAAAAGTTTAAGGGTTAAAATGTAATTTTAGGAAAGTTTG
* * * *
19072966 GGGTTAAAATGTAATTTTAGGAAAGTTT-AGGGTTAAAATGTGATTTTA-GATAAGTTTA
1 GGGTTAAAATATAATTTTA-AAAAGTTTAAGGGTTAAAATGTAATTTTAGGA-AAGTTTG
** * * * *
19073024 GGGTTAAAATATGGTTTTAAGAAGGTTTAGGGGTCAAAATGTAATTTTA-GAGAAGTTTA
1 GGGTTAAAATATAATTTTAA-AAAGTTTAAGGGTTAAAATGTAATTTTAGGA-AAGTTTG
* * * * * * *
19073083 GGGTCATAATATAATTTTGGAAAGGTTTACGGGTTAAAATGTGATTTTAGGGAAGTTTG
1 GGGTTAAAATATAATTTT-AAAAAGTTTAAGGGTTAAAATGTAATTTTAGGAAAGTTTG
* * * * * *
19073142 GGGTTAAAATGTAATTGTAGAGAAGTTTGAGGGTTAAAATATAATTTTAGAAAAGTTTGG
1 GGGTTAAAATATAATTTTA-AAAAGTTTAAGGGTTAAAATGTAATTTTAGGAAAGTTT-G
*
19073202 GGGTCAAAATATAATTTT
1 GGGTTAAAATATAATTTT
19073220 TGGAAAAGTT
Statistics
Matches: 205, Mismatches: 41, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
57 2 0.01
58 46 0.22
59 139 0.68
60 18 0.09
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (58 bp):
GGGTTAAAATATAATTTTAAAAAGTTTAAGGGTTAAAATGTAATTTTAGGAAAGTTTG
Found at i:19072996 original size:88 final size:88
Alignment explanation
Indices: 19072893--19073199 Score: 379
Period size: 88 Copynumber: 3.5 Consensus size: 88
19072883 GAAAATAAAG
* * * *
19072893 TTTTGGAGAA-TTTAGGGTTAAAATATAATTTT-GAAAAAGTTTAAGAGTAAAAATGTAATTTTA
1 TTTTAGAGAAGTTTAGGGTTAAAATATAATTTTAG-AAAAGTTTAAGGGTTAAAATGTGATTTTA
19072956 GGAAAGTTTGGGGTTAAAATGTAA
65 GGAAAGTTTGGGGTTAAAATGTAA
* * * * *
19072980 TTTTAG-GAAAGTTTAGGGTTAAAATGTGATTTTAGATAAGTTT-AGGGTTAAAATATGGTTTTA
1 TTTTAGAG-AAGTTTAGGGTTAAAATATAATTTTAGAAAAGTTTAAGGGTTAAAATGTGATTTTA
* * *
19073043 AGAAGGTTTAGGGGTCAAAATGTAA
65 GGAAAGTTT-GGGGTTAAAATGTAA
* * * * *
19073068 TTTTAGAGAAGTTTAGGGTCATAATATAATTTTGGAAAGGTTTACGGGTTAAAATGTGATTTTAG
1 TTTTAGAGAAGTTTAGGGTTAAAATATAATTTTAGAAAAGTTTAAGGGTTAAAATGTGATTTTAG
*
19073133 GGAAGTTTGGGGTTAAAATGTAA
66 GAAAGTTTGGGGTTAAAATGTAA
*
19073156 TTGTAGAGAAGTTTGAGGGTTAAAATATAATTTTAGAAAAGTTT
1 TTTTAGAGAAGTTT-AGGGTTAAAATATAATTTTAGAAAAGTTT
19073200 GGGGGTCAAA
Statistics
Matches: 182, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
86 1 0.01
87 29 0.16
88 102 0.56
89 50 0.27
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (88 bp):
TTTTAGAGAAGTTTAGGGTTAAAATATAATTTTAGAAAAGTTTAAGGGTTAAAATGTGATTTTAG
GAAAGTTTGGGGTTAAAATGTAA
Found at i:19075149 original size:70 final size:70
Alignment explanation
Indices: 19075017--19075153 Score: 204
Period size: 70 Copynumber: 2.0 Consensus size: 70
19075007 AAGAGATTTA
* * * *
19075017 TTTTTTTTCATGATTGGGGTTAGAGATTGGATGGTTGCAATCTACCTCTGTCTCAGGGTAAGAGA
1 TTTTTTTTAATGATTGGGGTAAGAGATTGGATGGTTGCAATCTACCTCTGTCACAGGATAAGAGA
19075082 TTAGT
66 TTAGT
* *
19075087 TTTTTTTTAATGATTGGGGTAAGAGATTGGATGGTTGCAATCTGCC-CTTGTCACTGGATAAGAG
1 TTTTTTTTAATGATTGGGGTAAGAGATTGGATGGTTGCAATCTACCTC-TGTCACAGGATAAGAG
19075151 ATT
65 ATT
19075154 GGCTGACGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 1 0.02
70 59 0.98
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (70 bp):
TTTTTTTTAATGATTGGGGTAAGAGATTGGATGGTTGCAATCTACCTCTGTCACAGGATAAGAGA
TTAGT
Found at i:19075386 original size:78 final size:78
Alignment explanation
Indices: 19075102--19076130 Score: 904
Period size: 78 Copynumber: 13.2 Consensus size: 78
19075092 TTTAATGATT
* * ** * * * * *
19075102 GGGGTAAGAGATTGGATGGTTGCAATCTGCCCTTGTCACTGGATAAGAGATTGGCTGACGGTGAT
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGAT
* * *
19075167 CTGCCCCAAGATC
66 CTGCCCTAGGCTC
* * * * * *
19075180 GGGATAAAAGATCGAATGGTTACAATCTACCCCAGGCTCGAGG-AAGAGATTGG-TCGATTGTGA
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCT-GATGGTGA
19075243 TCTGCCCCTA-GCTC
65 TCTG-CCCTAGGCTC
* **
19075257 TGGGG-AAAAGATCAGATGACT-CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGA
1 -GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGA
*
19075320 TTTGCCCTAGGCTC
65 TCTGCCCTAGGCTC
* * * * * * *
19075334 GAGCTAAAAGATCGGATGGTTACAATCTGCCTCAGACTCGAGGTAAGAGATTGGTTGATGGTGAT
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGAT
* *
19075399 CTGCCCCAAGCTC
66 CTGCCCTAGGCTC
* * ** * * * *
19075412 GGGGTAAAAGATCGAATGGTTACAAAATGCCCCTA-TCGCGGGGTAAGAGATTGGCTAACGGTGA
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCC-AGGCTCGGGGTAAGAGATTGGCTGATGGTGA
* * * *
19075476 TCTGCCCCATGATA
65 TCTGCCCTAGGCTC
* * * * * * *
19075490 GGAGTAAAAGATCGGATGGTTGCAATCTACCCCTGTCACGGGGTAAGAGATTGGCTAATAGTGAT
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGAT
*
19075555 CT-ACCTAAGGCTC
66 CTGCCCT-AGGCTC
* * * * *
19075568 GGGGTAAAAGATCGGATGGTTGCAATATACCTCTA---TCGTGAGGTAAGAGATTGGTTGACGGT
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCC-CCAGGCTCG-G-GGTAAGAGATTGGCTGATGGT
* * *
19075630 GATCTG-CCTCATGATT
63 GATCTGCCCT-AGGCTC
* * * * **
19075646 GGGGTAAAATATCGAATGGTTGCAATCTGCCCCTGTCGT-GGGGTAAGAGATTGGCTGACAGTGA
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGC-TCGGGGTAAGAGATTGGCTGATGGTGA
* * *
19075710 TCTATCCC-ATGATC
65 TCT-GCCCTAGGCTC
* * *
19075724 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCTA-GCACGGGGTAAGAGATTGGCTAACGGTGA
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCC-AGGCTCGGGGTAAGAGATTGGCTGATGGTGA
* * *
19075788 TCTGCCCCATGATC
65 TCTGCCCTAGGCTC
* * * * * * *
19075802 GGGGTAAAATATCAGATAGTTGCAATCTGCCCCTGTCGCGGGGTAAGAGATTGGCTGACGGTGAT
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGAT
19075867 CTGTCCC-AGGCTC
66 CTG-CCCTAGGCTC
* * * * * * *
19075880 GTGGTAAAAGATCGAACGGCTACAATCTACCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGAT
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGAT
* * *
19075945 CTGCCCCAAGCTT
66 CTGCCCTAGGCTC
* * * *
19075958 GGGGTAAAAGATCGGATGGCTGAAATCT-ACCCAGGAC-CGGGGTAAGAGATTGGTTGATGGTGA
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGG-CTCGGGGTAAGAGATTGGCTGATGGTGA
19076021 TCTGCCCTAGGCTC
65 TCTGCCCTAGGCTC
** * * * *
19076035 AAGGTAAAAGATCGGATGGCTGCAATCTTCTCCAGGCTTGGGGTAAGAGATTGGCTGATGGTGAT
1 GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGAT
19076100 CTGCCCTAGGCTC
66 CTGCCCTAGGCTC
19076113 GGGGTAAAAGATCGGATG
1 GGGGTAAAAGATCGGATG
19076131 ACTATGATCT
Statistics
Matches: 777, Mismatches: 144, Indels: 60
0.79 0.15 0.06
Matches are distributed among these distances:
76 29 0.04
77 149 0.19
78 589 0.76
79 6 0.01
80 3 0.00
81 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (78 bp):
GGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGAT
CTGCCCTAGGCTC
Found at i:19075401 original size:39 final size:38
Alignment explanation
Indices: 19075280--19075423 Score: 108
Period size: 39 Copynumber: 3.7 Consensus size: 38
19075270 AGATGACTCA
* *
19075280 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTG-CCCAGGCTCGAGGTAAGAGATTGGATGATGGTG
* * * * * ****
19075319 ATTTGCCCTAGGCTCGAGCTAAAAGATCGGATGGTTACA
1 ATCTGCCC-AGGCTCGAGGTAAGAGATTGGATGATGGTG
* *
19075358 ATCTGCCTCAGACTCGAGGTAAGAGATTGGTTGATGGTG
1 ATCTGCC-CAGGCTCGAGGTAAGAGATTGGATGATGGTG
* * *
19075397 ATCTGCCCCAAGCTCGGGGTAAAAGAT
1 ATCTG-CCCAGGCTCGAGGTAAGAGAT
19075424 CGAATGGTTA
Statistics
Matches: 76, Mismatches: 26, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
38 3 0.04
39 70 0.92
40 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (38 bp):
ATCTGCCCAGGCTCGAGGTAAGAGATTGGATGATGGTG
Found at i:19075613 original size:234 final size:234
Alignment explanation
Indices: 19075104--19076126 Score: 1032
Period size: 234 Copynumber: 4.4 Consensus size: 234
19075094 TAATGATTGG
* * * * *
19075104 GGTAAGAGATTGGATGGTTGCAATCTGCC-CTTGTCACTG-GATAAGAGATTGGCTGACGGTGAT
1 GGTAAAAGATCGGATGGTTGCAATCTGCCTCTAGTC-GTGAGGTAAGAGATTGGCTGACGGTGAT
* * *
19075167 CTGCCCCAAGATCGGGATAAAAGATCGAATGGTTACAATCTACCCCAGGCTCGAGG-AAGAGATT
65 CTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTTACAATCTACCCCAGGCGCGAGGTAAGAGATT
** * * * * *
19075231 GG-TCGATTGTGATCTGCCCC-TAGCTCTGGGG-AAAAGATCAGATGACT-CAATCTGCCCCAGG
130 GGCT-GACGGTGATCTGCCCCAT-GAT-TGGGGTAAAAGATCGGATGGCTGCAATCTACCCC-TG
* * *
19075292 CTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCCTAGGCTCGA
191 CACGGGGTAAGAGATTGGCTAATGGTGATCTGCCCTAGGCTCGA
* * * * *
19075336 GCTAAAAGATCGGATGGTTACAATCTGCCTC-AGAC-TCGAGGTAAGAGATTGGTTGATGGTGAT
1 GGTAAAAGATCGGATGGTTGCAATCTGCCTCTAGTCGT-GAGGTAAGAGATTGGCTGACGGTGAT
** * * *
19075399 CTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTTACAAAATGCCCCTA-TCGCGGGGTAAGAGAT
65 CTGCCCCAAGCTCGGGGTAAAAGATCGAATGGTTACAATCTACCCC-AGGCGCGAGGTAAGAGAT
* * * *
19075463 TGGCTAACGGTGATCTGCCCCATGATAGGAGTAAAAGATCGGATGGTTGCAATCTACCCCTGTCA
129 TGGCTGACGGTGATCTGCCCCATGATTGGGGTAAAAGATCGGATGGCTGCAATCTACCCCTG-CA
* * *
19075528 CGGGGTAAGAGATTGGCTAATAGTGATCT-ACCTAAGGCTCGG
193 CGGGGTAAGAGATTGGCTAATGGTGATCTGCCCT-AGGCTCGA
* * *
19075570 GGTAAAAGATCGGATGGTTGCAATATACCTCTA-TCGTGAGGTAAGAGATTGGTTGACGGTGATC
1 GGTAAAAGATCGGATGGTTGCAATCTGCCTCTAGTCGTGAGGTAAGAGATTGGCTGACGGTGATC
* * * * * * * * * * *
19075634 TGCCTCATGATTGGGGTAAAATATCGAATGGTTGCAATCTGCCCCTGTCGTGGGGTAAGAGATTG
66 TGCCCCAAGCTCGGGGTAAAAGATCGAATGGTTACAATCTACCCCAGGCGCGAGGTAAGAGATTG
* ** * * *
19075699 GCTGACAGTGATCTATCCCATGATCGGGGTAAAAGATCGGATGGTTGCAATCTGCCCCTAGCACG
131 GCTGACGGTGATCTGCCCCATGATTGGGGTAAAAGATCGGATGGCTGCAATCTACCCCT-GCACG
* * * * *
19075764 GGGTAAGAGATTGGCTAACGGTGATCTGCCCCATGATCGG
195 GGGTAAGAGATTGGCTAATGGTGATCTGCCCTAGGCTCGA
* * * * * *
19075804 GGTAAAATATCAGATAGTTGCAATCTGCCCCT-GTCGCGGGGTAAGAGATTGGCTGACGGTGATC
1 GGTAAAAGATCGGATGGTTGCAATCTGCCTCTAGTCGTGAGGTAAGAGATTGGCTGACGGTGATC
* * * * * *
19075868 TGTCCCAGGCTCGTGGTAAAAGATCGAACGGCTACAATCTACCCCAGGCTCGAGGTAAGAGATTG
66 TGCCCCAAGCTCGGGGTAAAAGATCGAATGGTTACAATCTACCCCAGGCGCGAGGTAAGAGATTG
* * * * * *
19075933 GCTGATGGTGATCTGCCCCAAGCTTGGGGTAAAAGATCGGATGGCTGAAATCTA-CCCAGGACCG
131 GCTGACGGTGATCTGCCCCATGATTGGGGTAAAAGATCGGATGGCTGCAATCTACCCCTGCA-CG
* * *
19075997 GGGTAAGAGATTGGTTGATGGTGATCTGCCCTAGGCTCAA
195 GGGTAAGAGATTGGCTAATGGTGATCTGCCCTAGGCTCGA
* * * * * * *
19076037 GGTAAAAGATCGGATGGCTGCAATCT-TCTCCAGGCTTGGGGTAAGAGATTGGCTGATGGTGATC
1 GGTAAAAGATCGGATGGTTGCAATCTGCCTCTAGTCGTGAGGTAAGAGATTGGCTGACGGTGATC
* *
19076101 TGCCCTAGGCTCGGGGTAAAAGATCG
66 TGCCCCAAGCTCGGGGTAAAAGATCG
19076127 GATGACTATG
Statistics
Matches: 650, Mismatches: 122, Indels: 37
0.80 0.15 0.05
Matches are distributed among these distances:
230 1 0.00
231 1 0.00
232 101 0.16
233 154 0.24
234 388 0.60
235 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (234 bp):
GGTAAAAGATCGGATGGTTGCAATCTGCCTCTAGTCGTGAGGTAAGAGATTGGCTGACGGTGATC
TGCCCCAAGCTCGGGGTAAAAGATCGAATGGTTACAATCTACCCCAGGCGCGAGGTAAGAGATTG
GCTGACGGTGATCTGCCCCATGATTGGGGTAAAAGATCGGATGGCTGCAATCTACCCCTGCACGG
GGTAAGAGATTGGCTAATGGTGATCTGCCCTAGGCTCGA
Found at i:19075805 original size:39 final size:39
Alignment explanation
Indices: 19075609--19075808 Score: 107
Period size: 39 Copynumber: 5.1 Consensus size: 39
19075599 TCTATCGTGA
* * * *
19075609 GGTAAGAGATTGGTTGACGGTGATCTGCCTCATGATTGG
1 GGTAAGAGATTGGCTAACGGTGATCTGCCCCATGATCGG
* *
19075648 GGTAA-A-ATAT--CGAATGGTTGCAATCTGCCCC-TG-TCGTGG
1 GGTAAGAGAT-TGGCTAACGG-TG--ATCTGCCCCATGATC--GG
* * **
19075687 GGTAAGAGATTGGCTGACAGTGATCTATCCCATGATCGG
1 GGTAAGAGATTGGCTAACGGTGATCTGCCCCATGATCGG
* * *
19075726 GGTAAAAGATCGG---ATGGTTGCAATCTGCCCC-TAGCA-CGG
1 GGTAAGAGATTGGCTAACGG-TG--ATCTGCCCCAT-G-ATCGG
19075765 GGTAAGAGATTGGCTAACGGTGATCTGCCCCATGATCGG
1 GGTAAGAGATTGGCTAACGGTGATCTGCCCCATGATCGG
19075804 GGTAA
1 GGTAA
19075809 AATATCAGAT
Statistics
Matches: 118, Mismatches: 21, Indels: 44
0.64 0.11 0.24
Matches are distributed among these distances:
36 5 0.04
37 7 0.06
38 6 0.05
39 80 0.68
40 6 0.05
41 8 0.07
42 6 0.05
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (39 bp):
GGTAAGAGATTGGCTAACGGTGATCTGCCCCATGATCGG
Found at i:19075886 original size:39 final size:38
Alignment explanation
Indices: 19075685--19076144 Score: 166
Period size: 39 Copynumber: 11.8 Consensus size: 38
19075675 CCCCTGTCGT
* * * * *
19075685 GGGGTAAGAGATTGGCTGACAGTGATCTATCCCATGATC
1 GGGGTAAAAGATTGGCTGACGGTGATCT-GCCCAGGCTC
* * * *
19075724 GGGGTAAAAGATCGGATG--GTTGCAATCTGCCCCTA-GCAC
1 GGGGTAAAAGATTGGCTGACGGTG--ATCTG-CCC-AGGCTC
* * * *
19075763 GGGGTAAGAGATTGGCTAACGGTGATCTGCCCCATGATC
1 GGGGTAAAAGATTGGCTGACGGTGATCTG-CCCAGGCTC
* ** * * * * *
19075802 GGGGTAAAATATCAGAT-A-GTTGCAATCTGCCCCTGTCGC
1 GGGGTAAAAGATTGGCTGACGGTG--ATCTG-CCCAGGCTC
*
19075841 GGGGTAAGAGATTGGCTGACGGTGATCTGTCCCAGGCTC
1 GGGGTAAAAGATTGGCTGACGGTGATCTG-CCCAGGCTC
* * *
19075880 GTGGTAAAAGA-T--C-GAACGGCTACAATCTACCCCAGGCTC
1 GGGGTAAAAGATTGGCTG-ACGG-T--GATCT-GCCCAGGCTC
* * * * *
19075919 GAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTT
1 GGGGTAAAAGATTGGCTGACGGTGATCTG-CCCAGGCTC
* * * * ** *
19075958 GGGGTAAAAGATCGGATGGCTGAAATCTACCCAGGAC-C
1 GGGGTAAAAGATTGGCTGACGGTGATCTGCCCAGG-CTC
* * *
19075996 GGGGTAAGAGATTGGTTGATGGTGATCTGCCCTAGGCTC
1 GGGGTAAAAGATTGGCTGACGGTGATCTGCCC-AGGCTC
** * * * * ** * *
19076035 AAGGTAAAAGATCGGATGGCTGCAATCTTCTCCAGGCTT
1 GGGGTAAAAGATTGGCTGACGGTGATCTGC-CCAGGCTC
* *
19076074 GGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTC
1 GGGGTAAAAGATTGGCTGACGGTGATCTGCCC-AGGCTC
* * **
19076113 GGGGTAAAAGATCGGATGACTATGATCTGCCC
1 GGGGTAAAAGATTGGCTGACGGTGATCTGCCC
19076145 CATGATTGGG
Statistics
Matches: 297, Mismatches: 98, Indels: 52
0.66 0.22 0.12
Matches are distributed among these distances:
35 1 0.00
36 5 0.02
37 6 0.02
38 34 0.11
39 234 0.79
40 5 0.02
41 7 0.02
42 4 0.01
43 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (38 bp):
GGGGTAAAAGATTGGCTGACGGTGATCTGCCCAGGCTC
Found at i:19076506 original size:50 final size:49
Alignment explanation
Indices: 19076417--19076529 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 49
19076407 CGTAATTGTG
* ** * *
19076417 GCCTCAATCTTTCCCATCATGTTTTTAAGGTACCGGGTTCGTCGTTGCA
1 GCCTCAACCTTTCCCATCACATTTTTAAGGTACCGGGTTCGCCGTTACA
*
19076466 GCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTACG
1 GCCTCAACCTTTCCCATCACAT-TTTTAAGGTACCGGGTTCGCCGTTACA
19076516 GCCTCAACCTTTCC
1 GCCTCAACCTTTCC
19076530 TTTCAAATCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 19 0.33
50 38 0.67
ACGTcount: A:0.17, C:0.33, G:0.18, T:0.33
Consensus pattern (49 bp):
GCCTCAACCTTTCCCATCACATTTTTAAGGTACCGGGTTCGCCGTTACA
Found at i:19076556 original size:50 final size:50
Alignment explanation
Indices: 19076417--19076556 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
19076407 CGTAATTGTG
* ** * * *
19076417 GCCTCAATCTTTCCCATCATGT-TTTTAAGGTACCGGGTTCGTCGTTGCA
1 GCCTCAACCTTTCCCATCAAATCTTTCAAGGTACCGGGTTCGCCGTTACA
* * *
19076466 GCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTACG
1 GCCTCAACCTTTCCCATCAAATCTTTCAAGGTACCGGGTTCGCCGTTACA
** *
19076516 GCCTCAACCTTTCCTTTCAAATC-TTCATGGTACCGCGGTTC
1 GCCTCAACCTTTCCCATCAAATCTTTCAAGGTACCG-GGTTC
19076557 ATTTCACCAT
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 29 0.37
50 49 0.63
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.34
Consensus pattern (50 bp):
GCCTCAACCTTTCCCATCAAATCTTTCAAGGTACCGGGTTCGCCGTTACA
Found at i:19077517 original size:14 final size:14
Alignment explanation
Indices: 19077498--19077535 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
19077488 CCTCTCCTTT
19077498 TTTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
19077512 TTTTTC-T-TTTTC
1 TTTTTCTTCTTTTC
19077524 TTTTT-TTCTTTT
1 TTTTTCTTCTTTT
19077536 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:19077523 original size:20 final size:20
Alignment explanation
Indices: 19077498--19077536 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19077488 CCTCTCCTTT
19077498 TTTTTCTTCTTTTCTTTTTC
1 TTTTTCTTCTTTTCTTTTTC
*
19077518 TTTTTCTTTTTTTCTTTTT
1 TTTTTCTTCTTTTCTTTTT
19077537 ATTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTCTTCTTTTCTTTTTC
Found at i:19077536 original size:14 final size:13
Alignment explanation
Indices: 19077495--19077536 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
19077485 CGACCTCTCC
19077495 TTTTTTTTCTTCTT
1 TTTTTTTTCTT-TT
*
19077509 TTCTTTTTCTTTT
1 TTTTTTTTCTTTT
19077522 TCTTTTTTTCTTTT
1 T-TTTTTTTCTTTT
19077536 T
1 T
19077537 ATTATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:19077547 original size:20 final size:20
Alignment explanation
Indices: 19077507--19077550 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
19077497 TTTTTTCTTC
* * *
19077507 TTTTCTTTTTCTTTTTCTTT
1 TTTTCTTTTTATTATTATTT
19077527 TTTTCTTTTTATTATTATTT
1 TTTTCTTTTTATTATTATTT
19077547 TTTT
1 TTTT
19077551 AAAATTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTCTTTTTATTATTATTT
Found at i:19078413 original size:17 final size:17
Alignment explanation
Indices: 19078393--19078435 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
19078383 TCATCTTGAC
19078393 TTTCTTTT-TTCTTCCTT
1 TTTCTTTTCTTCTT-CTT
19078410 TTTCTTTTCTTCTTCTT
1 TTTCTTTTCTTCTTCTT
*
19078427 CTTCTTTTC
1 TTTCTTTTC
19078436 CTTTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTCTTCTTCTT
Found at i:19083176 original size:29 final size:29
Alignment explanation
Indices: 19083135--19083427 Score: 247
Period size: 30 Copynumber: 9.9 Consensus size: 29
19083125 TAATTTTGAA
* *
19083135 AAAGTTTAGGGGTAAAAATGCAATTTTAGG
1 AAAGTTTA-GGGTCAAAATGTAATTTTAGG
*
19083165 AAAGTTTAGGGT-AAAATGTAATTTTAGA
1 AAAGTTTAGGGTCAAAATGTAATTTTAGG
* * *
19083193 AAAGTTTAGGGTTAAAATATGATTTT-GG
1 AAAGTTTAGGGTCAAAATGTAATTTTAGG
* * *
19083221 AGAAGTTTAAGGTCAAAACGTGATTTTAGG
1 A-AAGTTTAGGGTCAAAATGTAATTTTAGG
* *
19083251 AAGGTTT-GGAGATCAAAATGTGATTTT-GG
1 AAAGTTTAGG-G-TCAAAATGTAATTTTAGG
*
19083280 AGAAGTTTAGGGGTCATAATGTAATTTT-GG
1 A-AAGTTTA-GGGTCAAAATGTAATTTTAGG
* *
19083310 AAAGGTTTAGAGGTTAAAATGTAATTTTGGG
1 AAA-GTTTAG-GGTCAAAATGTAATTTTAGG
* *
19083341 AAAGTTTAGGGTCAAAATATAATTTTA-A
1 AAAGTTTAGGGTCAAAATGTAATTTTAGG
* * * *
19083369 AGAAGTTCAAAGGTCAAAATATAATTTTAGA
1 A-AAGTT-TAGGGTCAAAATGTAATTTTAGG
* *
19083400 AAAATTTGAGGGTCAAAATATAATTTTA
1 AAAGTTT-AGGGTCAAAATGTAATTTTA
19083428 AAAAAATTTA
Statistics
Matches: 222, Mismatches: 26, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
28 30 0.14
29 68 0.31
30 114 0.51
31 8 0.04
32 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (29 bp):
AAAGTTTAGGGTCAAAATGTAATTTTAGG
Found at i:19084109 original size:31 final size:29
Alignment explanation
Indices: 19084049--19084117 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
19084039 TTGTTTTTAC
* *
19084049 ATATATAAAAATAATAAAAATCAATATAT
1 ATATATATAAATAATAAAAATCAAGATAT
19084078 ATATATATAAATAA-AAATAAGGTCAAGATAT
1 ATATATATAAATAATAAA-AA--TCAAGATAT
*
19084109 ATATTTATA
1 ATATATATA
19084118 TATATATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.09
29 15 0.44
31 16 0.47
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.33
Consensus pattern (29 bp):
ATATATATAAATAATAAAAATCAAGATAT
Found at i:19085153 original size:12 final size:14
Alignment explanation
Indices: 19085126--19085157 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19085116 AAAGATGAAC
19085126 AAAATTCGATTCAA
1 AAAATTCGATTCAA
19085140 AAAATTCGA-T-AA
1 AAAATTCGATTCAA
19085152 AAAATT
1 AAAATT
19085158 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 1 0.06
14 9 0.50
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAATTCGATTCAA
Found at i:19094436 original size:29 final size:27
Alignment explanation
Indices: 19094391--19094466 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 27
19094381 CTAAATTTTT
19094391 ATTTTTTTTAAATTTTTAAAGAGTTTAA
1 ATTTTTTTTAAATTTTTAAA-AGTTTAA
* *
19094419 ATTTTTTTTACCAATTTTTAAATGTTTTA
1 ATTTTTTTTA--AATTTTTAAAAGTTTAA
* *
19094448 ATTTTTTTTTAGTTTTTAA
1 ATTTTTTTTAAATTTTTAA
19094467 GGGTCCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.19
28 10 0.24
29 14 0.33
30 10 0.24
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (27 bp):
ATTTTTTTTAAATTTTTAAAAGTTTAA
Found at i:19097415 original size:17 final size:17
Alignment explanation
Indices: 19097400--19097442 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
19097390 CCGATCCAAT
19097400 TAAAAATTAAATCCAAAA
1 TAAAAA-TAAATCCAAAA
19097418 TAAAAATAAAT-CAATAA
1 TAAAAATAAATCCAA-AA
19097435 TAATAAAT
1 TAA-AAAT
19097443 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.13
17 10 0.43
18 10 0.43
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAATAAATCCAAAA
Found at i:19099003 original size:19 final size:18
Alignment explanation
Indices: 19098975--19099014 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
19098965 TTTTAAGTTA
19098975 TTTGTCTATTTACATATTG
1 TTTGTCTATTTA-ATATTG
* *
19098994 TTTGTTTATTTAATTTTG
1 TTTGTCTATTTAATATTG
19099012 TTT
1 TTT
19099015 TTGTAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.68
Consensus pattern (18 bp):
TTTGTCTATTTAATATTG
Found at i:19104511 original size:41 final size:41
Alignment explanation
Indices: 19104391--19104609 Score: 206
Period size: 41 Copynumber: 5.2 Consensus size: 41
19104381 GGTGTACAAA
* * * * *
19104391 AAGGAAGATTCATGTCTCGGGTTGAGCATGAGAATT-TGTAT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAG-ATTATGAAT
* * * *
19104432 AAATGGAAGACTCGTGACTCGAAAATGAGCATGAGATTATGAAT
1 -AA-GGAAGACTCATGTCTCG-AGATGAGAATGAGATTATGAAT
*
19104476 AAGGAAGACTCATATCTCGAGATGAGAATGAGATTATGAAT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
* * * * *
19104517 AAGGAAGAATCATGTTTCGAGGTGAGAATGAGATTAAGATT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
* * * **
19104558 AAGGAAGACTCATGTCTCGAGAAGTGAATGAGAATATGGTT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
19104599 AAAGGAAGACT
1 -AAGGAAGACT
19104610 TATGAGTCGA
Statistics
Matches: 147, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
41 88 0.60
42 26 0.18
43 19 0.13
44 14 0.10
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.25
Consensus pattern (41 bp):
AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
Found at i:19111615 original size:41 final size:41
Alignment explanation
Indices: 19111565--19111716 Score: 205
Period size: 41 Copynumber: 3.7 Consensus size: 41
19111555 TGAAATGAAC
* *
19111565 ATGAGATTATGAATAAGGAAGACTCATATCTCGAGATGAGA
1 ATGAGATTATGAATAAGGAAGACTTATGTCTCGAGATGAGA
* *
19111606 ATTAGATTATGAATAAGGAAGTCTTATGTCTCGAGATGAGA
1 ATGAGATTATGAATAAGGAAGACTTATGTCTCGAGATGAGA
* * *
19111647 ATGAGATTAAGATTAAGGACGACTTATGTCTCGAGATGAGA
1 ATGAGATTATGAATAAGGAAGACTTATGTCTCGAGATGAGA
* **
19111688 ATGAGAATATGGTTAAAGGAAGACTTATG
1 ATGAGATTATGAAT-AAGGAAGACTTATG
19111717 AGTCGATAGA
Statistics
Matches: 97, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 84 0.87
42 13 0.13
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.28
Consensus pattern (41 bp):
ATGAGATTATGAATAAGGAAGACTTATGTCTCGAGATGAGA
Found at i:19111679 original size:82 final size:83
Alignment explanation
Indices: 19111494--19111716 Score: 207
Period size: 82 Copynumber: 2.7 Consensus size: 83
19111484 GGTGTATAAA
* * * * * * * ** * * *
19111494 AAGGAAGACTCATGTCTCGGGTTGAGCATGAGAATTTGTATAAATGAAAGACTCGTGACTTTGAA
1 AAGGAAGACTCATATCTCGAGATGAGAATGAGAATATGAATAAA-GGAAGACTTATGTC-TCGAG
*
19111559 ATGA-ACATGAGATTATGAAT
64 ATGAGA-ATGAGATTAAGAAT
* * *
19111579 AAGGAAGACTCATATCTCGAGATGAGAATTAGATTATGAAT-AAGGAAGTCTTATGTCTCGAGAT
1 AAGGAAGACTCATATCTCGAGATGAGAATGAGAATATGAATAAAGGAAGACTTATGTCTCGAGAT
*
19111643 GAGAATGAGATTAAGATT
66 GAGAATGAGATTAAGAAT
* * * **
19111661 AAGGACGACTTATGTCTCGAGATGAGAATGAGAATATGGTTAAAGGAAGACTTATG
1 AAGGAAGACTCATATCTCGAGATGAGAATGAGAATATGAATAAAGGAAGACTTATG
19111717 AGTCGATAGA
Statistics
Matches: 111, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
82 53 0.48
83 23 0.21
84 2 0.02
85 33 0.30
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.27
Consensus pattern (83 bp):
AAGGAAGACTCATATCTCGAGATGAGAATGAGAATATGAATAAAGGAAGACTTATGTCTCGAGAT
GAGAATGAGATTAAGAAT
Found at i:19115790 original size:10 final size:9
Alignment explanation
Indices: 19115770--19115799 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
19115760 CAAAGAAAAG
19115770 AAAAAACAA
1 AAAAAACAA
19115779 AAAAAACAA
1 AAAAAACAA
*
19115788 AAAAAAGAA
1 AAAAAACAA
19115797 AAA
1 AAA
19115800 GAAGAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAACAA
Found at i:19115804 original size:9 final size:9
Alignment explanation
Indices: 19115786--19115824 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
19115776 CAAAAAAAAC
*
19115786 AAAAAAAAG
1 AAAAAGAAG
19115795 AAAAAGAAG
1 AAAAAGAAG
*
19115804 AAAAAGAGG
1 AAAAAGAAG
19115813 AAAAAGAA-
1 AAAAAGAAG
19115821 AAAA
1 AAAA
19115825 GAGGGGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 4 0.15
9 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:19115807 original size:15 final size:15
Alignment explanation
Indices: 19115761--19115824 Score: 67
Period size: 16 Copynumber: 4.1 Consensus size: 15
19115751 CTTAAAACCC
19115761 AAAG-AAAAGAAAAA
1 AAAGAAAAAGAAAAA
* *
19115775 ACAAAAAAAACAAAAA
1 A-AAGAAAAAGAAAAA
19115791 AAAGAAAAAGAAGAAA
1 AAAGAAAAAGAA-AAA
19115807 AAGAGGAAAAAGAAAAA
1 AA-A-GAAAAAGAAAAA
19115824 A
1 A
19115825 GAGGGGTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
14 1 0.02
15 11 0.27
16 15 0.37
17 5 0.12
18 9 0.22
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAAAA
Found at i:19115807 original size:18 final size:17
Alignment explanation
Indices: 19115761--19115824 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
19115751 CTTAAAACCC
*
19115761 AAAGAAAAGAAAAAACAA
1 AAAGAAAA-AAAAAAGAA
*
19115779 AAAAAACAAAAAAAAGAA
1 AAAGAA-AAAAAAAAGAA
* *
19115797 AAAGAAGAAAAAGAGGAA
1 AAAGAA-AAAAAAAAGAA
19115815 AAAGAAAAAA
1 AAAGAAAAAA
19115825 GAGGGGTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
17 4 0.10
18 33 0.85
19 2 0.05
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAAGAA
Found at i:19115824 original size:25 final size:25
Alignment explanation
Indices: 19115760--19115826 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
19115750 TCTTAAAACC
* *
19115760 CAAAGAAAAGAAAAAACAAAAAAAA
1 CAAAAAAAAGAAAAAAGAAAAAAAA
*
19115785 CAAAAAAAAG-AAAAAGAAGAAAAA
1 CAAAAAAAAGAAAAAAGAAAAAAAA
* **
19115809 GAGGAAAAAGAAAAAAGA
1 CAAAAAAAAGAAAAAAGA
19115827 GGGGTCAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (25 bp):
CAAAAAAAAGAAAAAAGAAAAAAAA
Found at i:19122036 original size:21 final size:21
Alignment explanation
Indices: 19122010--19122069 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
19122000 CCTTGATTCG
*
19122010 TGGTTGTCGCGATATCGAATA
1 TGGTTGTCGCGACATCGAATA
*
19122031 TGGTTGTCGCGACATCGAATG
1 TGGTTGTCGCGACATCGAATA
* *
19122052 TGGTCGTTGCGACATCGA
1 TGGTTGTCGCGACATCGA
19122070 GACCAGTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (21 bp):
TGGTTGTCGCGACATCGAATA
Found at i:19134022 original size:37 final size:37
Alignment explanation
Indices: 19133981--19134056 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
19133971 CTCCAATTAT
19133981 TAATCAATACAATTCAAATCAATCATACCAAACATAC
1 TAATCAATACAATTCAAATCAATCATACCAAACATAC
19134018 TAATCAATACAATTCAAATCAATCATACCAAACATAC
1 TAATCAATACAATTCAAATCAATCATACCAAACATAC
19134055 TA
1 TA
19134057 TTCACAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (37 bp):
TAATCAATACAATTCAAATCAATCATACCAAACATAC
Found at i:19135310 original size:19 final size:20
Alignment explanation
Indices: 19135278--19135317 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
19135268 TTCAATTCTA
19135278 ATTTTGACCCAAAA-TATTT
1 ATTTTGACCCAAAATTATTT
19135297 ATTTT-ACCCAAAAATTATTT
1 ATTTTGACCC-AAAATTATTT
19135317 A
1 A
19135318 AAACTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (20 bp):
ATTTTGACCCAAAATTATTT
Found at i:19139166 original size:61 final size:62
Alignment explanation
Indices: 19139055--19139171 Score: 218
Period size: 61 Copynumber: 1.9 Consensus size: 62
19139045 ATGACTTAGA
*
19139055 GTCATTGTGAGTATTGAATGAGAAATGAATCCTATTATGGATTAAAGGTCCGATGATTTTGT
1 GTCATTGTGAGTATTAAATGAGAAATGAATCCTATTATGGATTAAAGGTCCGATGATTTTGT
19139117 GTCATTGTGAGTATTAAATGAG-AATGAATCCTATTATGGATTAAAGGTCCGATGA
1 GTCATTGTGAGTATTAAATGAGAAATGAATCCTATTATGGATTAAAGGTCCGATGA
19139172 CTCTATGTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
61 33 0.61
62 21 0.39
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (62 bp):
GTCATTGTGAGTATTAAATGAGAAATGAATCCTATTATGGATTAAAGGTCCGATGATTTTGT
Found at i:19141602 original size:61 final size:61
Alignment explanation
Indices: 19141450--19141603 Score: 202
Period size: 61 Copynumber: 2.5 Consensus size: 61
19141440 GTAAATGCAA
* * * *
19141450 AAAGGTCCGATGACTTAGAGTCATCGTGAGTATTGAATGAGAAATGAATCCTATTATGGATT
1 AAAGGTCCGATGACTT-GTGTCATCGTGAGTATTAAAAGAGAAATGAATCCTATTATAGATT
* * *
19141512 AAAGGTCCGGTGATTTTGTGCCATCGTGAGTATTAAAAGAG-AATGAATCCTATTATAGATT
1 AAAGGTCCGATGA-CTTGTGTCATCGTGAGTATTAAAAGAGAAATGAATCCTATTATAGATT
*
19141573 AAAGGTCCGATGACTCTGTGTCATTGTGAGT
1 AAAGGTCCGATGACT-TGTGTCATCGTGAGT
19141604 TATCAAATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
60 1 0.01
61 44 0.56
62 32 0.41
63 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (61 bp):
AAAGGTCCGATGACTTGTGTCATCGTGAGTATTAAAAGAGAAATGAATCCTATTATAGATT
Found at i:19145401 original size:272 final size:272
Alignment explanation
Indices: 19144915--19145459 Score: 1027
Period size: 272 Copynumber: 2.0 Consensus size: 272
19144905 ATGAAGATCA
*
19144915 ACGCATAAGTGAGTTGGTTCAAGAACTCAAAATTGATGAACTTTAAGAGTCAACTCATGTTGAAA
1 ACGCATAAGTGAGTTGGTTCAAGAACTCAAAATTGATGAACTTCAAGAGTCAACTCATGTTGAAA
*
19144980 AAGAATCTAGTCACCCAAGAGAGCTTTCATATGTTAAGGATGGACAAATCACTGGTGATCCATCA
66 AAGAATCTAGTCACCCAAGAGAGCTTTCATATGTTAAGGATGGACAAATCACTGATGATCCATCA
19145045 AAAGGGGTAATTACTAGATCATCTCTTAGAAATACTTGTACCTATGTTGCATTTATCTCATGCAT
131 AAAGGGGTAATTACTAGATCATCTCTTAGAAATACTTGTACCTATGTTGCATTTATCTCATGCAT
19145110 TGAACCTAAAAATATCAAAGAAGCATTAAATGATGAATATTGGATTTTGACCATGCAAAAAGAGT
196 TGAACCTAAAAATATCAAAGAAGCATTAAATGATGAATATTGGATTTTGACCATGCAAAAAGAGT
19145175 TAAATCAATTTG
261 TAAATCAATTTG
19145187 ACGCATAAGTGAGTTGGTTCAAGAACTCAAAATTGATGAACTTCAAGAGTCAACTCATGTTGAAA
1 ACGCATAAGTGAGTTGGTTCAAGAACTCAAAATTGATGAACTTCAAGAGTCAACTCATGTTGAAA
*
19145252 AAGAATCTAGTCACCCAAGAGAGCTTTCATATGTTAAGGATGGACAAATCATTGATGATCCATCA
66 AAGAATCTAGTCACCCAAGAGAGCTTTCATATGTTAAGGATGGACAAATCACTGATGATCCATCA
*
19145317 AAAGGGGTAATTACTAGATCTTCTCTTAGAAATACTTGTACCTATGTTGCATTTATCTCATGCAT
131 AAAGGGGTAATTACTAGATCATCTCTTAGAAATACTTGTACCTATGTTGCATTTATCTCATGCAT
* *
19145382 TGAACCTAAAAATATCAAAGAAGCATTAAATGATGAATATTGGATTTTGGCCATGCAAGAAGAGT
196 TGAACCTAAAAATATCAAAGAAGCATTAAATGATGAATATTGGATTTTGACCATGCAAAAAGAGT
*
19145447 TAATTCAATTTG
261 TAAATCAATTTG
19145459 A
1 A
19145460 GAGAAGTAAA
Statistics
Matches: 266, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
272 266 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (272 bp):
ACGCATAAGTGAGTTGGTTCAAGAACTCAAAATTGATGAACTTCAAGAGTCAACTCATGTTGAAA
AAGAATCTAGTCACCCAAGAGAGCTTTCATATGTTAAGGATGGACAAATCACTGATGATCCATCA
AAAGGGGTAATTACTAGATCATCTCTTAGAAATACTTGTACCTATGTTGCATTTATCTCATGCAT
TGAACCTAAAAATATCAAAGAAGCATTAAATGATGAATATTGGATTTTGACCATGCAAAAAGAGT
TAAATCAATTTG
Found at i:19153206 original size:16 final size:17
Alignment explanation
Indices: 19153160--19153206 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
19153150 TAAGTTCTAA
*
19153160 TAAAATTATATTGTTTGT
1 TAAAAATATATT-TTTGT
* *
19153178 TAAAAGTAAATTTTT-T
1 TAAAAATATATTTTTGT
19153194 TAAAAATATATTT
1 TAAAAATATATTT
19153207 ATTTCTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 3 0.12
18 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
TAAAAATATATTTTTGT
Found at i:19156163 original size:32 final size:31
Alignment explanation
Indices: 19156048--19156163 Score: 120
Period size: 31 Copynumber: 3.9 Consensus size: 31
19156038 TTAATATAAT
** *
19156048 ATTTGGTATATAAACTTGACAC-TTTTTCTA
1 ATTTGGTACCTAAACTTGACACTTTTTTCCA
19156078 ATTTGGTACCTAAATCTT-----TTTTTTCCA
1 ATTTGGTACCTAAA-CTTGACACTTTTTTCCA
*
19156105 ATTTGATA-CTCAAACTTGACACTTTTTTCCA
1 ATTTGGTACCT-AAACTTGACACTTTTTTCCA
*
19156136 ATTTGGTACCTAAACTTGATACTTTTTT
1 ATTTGGTACCTAAACTTGACACTTTTTT
19156164 TTTAAGTTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
26 5 0.07
27 17 0.24
30 12 0.17
31 35 0.49
32 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTTCCA
Found at i:19156174 original size:32 final size:31
Alignment explanation
Indices: 19156058--19156184 Score: 97
Period size: 31 Copynumber: 4.2 Consensus size: 31
19156048 ATTTGGTATA
* *
19156058 TAAACTTGACAC-TTTTTCTAATTTGGTACC
1 TAAACTTGACACTTTTTTCCAAGTTGGTACC
* *
19156088 TAAATCTT-----TTTTTTCCAATTTGATA-C
1 TAAA-CTTGACACTTTTTTCCAAGTTGGTACC
*
19156114 TCAAACTTGACACTTTTTTCCAATTTGGTACC
1 T-AAACTTGACACTTTTTTCCAAGTTGGTACC
* ** *
19156146 TAAACTTGATACTTTTTTTTTAAGTTGGTACT
1 TAAACTTGACAC-TTTTTTCCAAGTTGGTACC
19156178 TAAACTT
1 TAAACTT
19156185 TTGGGGGTCT
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
26 5 0.06
27 17 0.22
30 4 0.05
31 29 0.37
32 24 0.30
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (31 bp):
TAAACTTGACACTTTTTTCCAAGTTGGTACC
Found at i:19156459 original size:31 final size:30
Alignment explanation
Indices: 19156421--19156520 Score: 82
Period size: 31 Copynumber: 3.3 Consensus size: 30
19156411 AAAAGATTAT
19156421 GTACCAAATTAGTAAAAAATGCCAAGTTCAA
1 GTACCAAATTAGTAAAAAATG-CAAGTTCAA
* * *
19156452 GTACCAAATTGGATCAAAAAAT---A-TTTAG
1 GTACCAAATTAG-T-AAAAAATGCAAGTTCAA
* *
19156480 GTATCAAATTAGGAAAAAATGTCAAGTTCAA
1 GTACCAAATTAGTAAAAAATG-CAAGTTCAA
*
19156511 GTATCAAATT
1 GTACCAAATT
19156521 GGGTCAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
26 7 0.13
28 13 0.24
29 1 0.02
30 1 0.02
31 24 0.44
32 1 0.02
33 7 0.13
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (30 bp):
GTACCAAATTAGTAAAAAATGCAAGTTCAA
Found at i:19156539 original size:58 final size:59
Alignment explanation
Indices: 19156391--19156577 Score: 234
Period size: 59 Copynumber: 3.2 Consensus size: 59
19156381 TTAAATTTAG
* * * * * * *
19156391 GTACCAAATTGAATCTAAAAAAAAGATTATGTACCAAATTAGTAAAAAATGCCAAGTTCAA
1 GTACCAAATTGGATC-AAAAAATA-TTTAGGTAGCAAATTAGGAAAAAATGTCAAGTTCAA
*
19156452 GTACCAAATTGGATCAAAAAATATTTAGGTATCAAATTAGGAAAAAATGTCAAGTTCAA
1 GTACCAAATTGGATCAAAAAATATTTAGGTAGCAAATTAGGAAAAAATGTCAAGTTCAA
* * *
19156511 GTATCAAATTGGGTCAAAAAA-ATTTAGGTAGCAAATTA-GAAAAAAGTGTCAAATTCAA
1 GTACCAAATTGGATCAAAAAATATTTAGGTAGCAAATTAGGAAAAAA-TGTCAAGTTCAA
19156569 GTACCAAAT
1 GTACCAAAT
19156578 GTTATATTAA
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
57 7 0.06
58 35 0.31
59 50 0.44
60 7 0.06
61 14 0.12
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (59 bp):
GTACCAAATTGGATCAAAAAATATTTAGGTAGCAAATTAGGAAAAAATGTCAAGTTCAA
Found at i:19159928 original size:43 final size:43
Alignment explanation
Indices: 19159880--19160165 Score: 236
Period size: 43 Copynumber: 6.9 Consensus size: 43
19159870 CCGGTATAGT
* * * *
19159880 ACATGATCTTTAGCGGCACTTATCTCATAAACGTCGCTAAAGA
1 ACATGATCTTTAACGGCACTTATCCCACAAACGCCGCTAAAGA
*
19159923 ACATGATCTTTAACGGCACTT-TTCCACAAACGCCGCTAAAGA
1 ACATGATCTTTAACGGCACTTATCCCACAAACGCCGCTAAAGA
* * * * * *
19159965 CCATGGTCTTTAGCGGCGCTTATCCCATAAACGTCGCTAAAGA
1 ACATGATCTTTAACGGCACTTATCCCACAAACGCCGCTAAAGA
* * * *
19160008 ACATGGTCTTTAATGGCGCTTATCCCACAAACGCCGTTAAA-A
1 ACATGATCTTTAACGGCACTTATCCCACAAACGCCGCTAAAGA
* *
19160050 ACATGGTC--T-------CTTATCCCACAAACGCCGTTAAA-A
1 ACATGATCTTTAACGGCACTTATCCCACAAACGCCGCTAAAGA
* ** * * *
19160083 ACATGGTCTTTGGCGGCGCTTTTCCCATAAACGCCGCTAAAGA
1 ACATGATCTTTAACGGCACTTATCCCACAAACGCCGCTAAAGA
* * * * *
19160126 ACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
1 ACATGATCTTTAACGGCACTTATCCCACAAACGCCGCTAA
19160166 CATTAACAAA
Statistics
Matches: 208, Mismatches: 24, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
33 32 0.15
35 1 0.00
40 1 0.00
42 63 0.30
43 111 0.53
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
ACATGATCTTTAACGGCACTTATCCCACAAACGCCGCTAAAGA
Found at i:19159994 original size:85 final size:85
Alignment explanation
Indices: 19159880--19160158 Score: 310
Period size: 85 Copynumber: 3.4 Consensus size: 85
19159870 CCGGTATAGT
* * * * * *
19159880 ACATGATCTTTAGCGGCACTTATCTCATAAACGTCGCTAAAGAACATGATCTTTAACGGCACTTT
1 ACATGGTCTTTAGCGGCGCTTATCCCACAAACGTCGCTAAAGAACATGGTCTTTAACGGCGCTTT
19159945 TCCACAAACGCCGCTAAAGA
66 TCCACAAACGCCGCTAAAGA
* * *
19159965 CCATGGTCTTTAGCGGCGCTTATCCCATAAACGTCGCTAAAGAACATGGTCTTTAATGGCGCTTA
1 ACATGGTCTTTAGCGGCGCTTATCCCACAAACGTCGCTAAAGAACATGGTCTTTAACGGCGCTT-
* *
19160030 TCCCACAAACGCCGTTAAA-A
65 TTCCACAAACGCCGCTAAAGA
* * **
19160050 ACATGGTC--T-------CTTATCCCACAAACGCCGTTAAA-AACATGGTCTTTGGCGGCGCTTT
1 ACATGGTCTTTAGCGGCGCTTATCCCACAAACGTCGCTAAAGAACATGGTCTTTAACGGCGCTTT
*
19160105 TCCCATAAACGCCGCTAAAGA
66 T-CCACAAACGCCGCTAAAGA
*
19160126 ACATGGTCTTTAGCGGCGCTTTTCCCACAAACG
1 ACATGGTCTTTAGCGGCGCTTATCCCACAAACG
19160159 CCACTAACAT
Statistics
Matches: 162, Mismatches: 20, Indels: 24
0.79 0.10 0.12
Matches are distributed among these distances:
74 1 0.01
75 34 0.21
76 29 0.18
78 1 0.01
83 1 0.01
85 79 0.49
86 17 0.10
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (85 bp):
ACATGGTCTTTAGCGGCGCTTATCCCACAAACGTCGCTAAAGAACATGGTCTTTAACGGCGCTTT
TCCACAAACGCCGCTAAAGA
Found at i:19160068 original size:33 final size:33
Alignment explanation
Indices: 19160026--19160091 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
19160016 TTTAATGGCG
19160026 CTTATCCCACAAACGCCGTTAAAAACATGGTCT
1 CTTATCCCACAAACGCCGTTAAAAACATGGTCT
19160059 CTTATCCCACAAACGCCGTTAAAAACATGGTCT
1 CTTATCCCACAAACGCCGTTAAAAACATGGTCT
19160092 TTGGCGGCGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.24
Consensus pattern (33 bp):
CTTATCCCACAAACGCCGTTAAAAACATGGTCT
Found at i:19160109 original size:75 final size:77
Alignment explanation
Indices: 19159983--19160134 Score: 209
Period size: 75 Copynumber: 2.0 Consensus size: 77
19159973 TTTAGCGGCG
* * * *
19159983 CTTATCCCATAAACGTCGCTAAAGAACATGGTCTTTAATGGCGCTTATCCCACAAACGCCGTTAA
1 CTTATCCCACAAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTATCCCACAAACGCCGCTAA
19160048 A-AACATGGTCT
66 AGAACATGGTCT
* ** * *
19160059 CTTATCCCACAAACGCCGTTAAA-AACATGGTCTTTGGCGGCGCTTTTCCCATAAACGCCGCTAA
1 CTTATCCCACAAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTATCCCACAAACGCCGCTAA
19160123 AGAACATGGTCT
66 AGAACATGGTCT
19160135 TTAGCGGCGC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 36 0.55
76 30 0.45
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (77 bp):
CTTATCCCACAAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTATCCCACAAACGCCGCTAA
AGAACATGGTCT
Found at i:19165960 original size:41 final size:41
Alignment explanation
Indices: 19165914--19166059 Score: 177
Period size: 41 Copynumber: 3.6 Consensus size: 41
19165904 GAAAGCACAT
*
19165914 CTATTGTTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCG
1 CTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCG
* * * * * *
19165955 TTATTGCTCTGACCTTTAGTGGCTCTTGCCAAAAAGCACCG
1 CTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCG
* * * *
19165996 CTATTTCTCTAACCTTTAGCGGCGCTTTCCCATAAACGCCG
1 CTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCG
*
19166037 CTATTGCTCT-ACCTTTTGCGGCG
1 CTATTGCTCTGACCTTTAGCGGCG
19166060 TTTATGTAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
40 12 0.14
41 74 0.86
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.32
Consensus pattern (41 bp):
CTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCG
Found at i:19172806 original size:12 final size:12
Alignment explanation
Indices: 19172789--19172829 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
19172779 AAAAATTCCT
19172789 TCTTTTCTTTTC
1 TCTTTTCTTTTC
*
19172801 TCTTTTTTTTTC
1 TCTTTTCTTTTC
*
19172813 TCATTT-TTTTC
1 TCTTTTCTTTTC
19172824 T-TTTTC
1 TCTTTTC
19172830 AAGTGACTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
10 3 0.12
11 6 0.24
12 16 0.64
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (12 bp):
TCTTTTCTTTTC
Found at i:19194329 original size:7 final size:6
Alignment explanation
Indices: 19194305--19194346 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
19194295 GTTGAATGAT
19194305 AAAAAG -AAAAG AAAAAG AGAAAAG AGAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG A-AAAAG A-AAAAG AAAAAG AAAAA
19194347 TTGCTATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.15
6 16 0.47
7 13 0.38
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:19194334 original size:20 final size:18
Alignment explanation
Indices: 19194305--19194346 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
19194295 GTTGAATGAT
19194305 AAAAAGAAAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
19194323 GAAAAGAGAAAAGAAAAAGA
1 -AAAA-AGAAAAGAAAAAGA
19194343 AAAA
1 AAAA
19194347 TTGCTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:19199649 original size:12 final size:13
Alignment explanation
Indices: 19199632--19199699 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 13
19199622 AGGTATTGAG
19199632 GAAGAG-AAAGAA
1 GAAGAGAAAAGAA
* *
19199644 GAAGAG-AAGGAT
1 GAAGAGAAAAGAA
*
19199656 G-AGGGAAAAGAA
1 GAAGAGAAAAGAA
*
19199668 G-AGGGAAAAGAA
1 GAAGAGAAAAGAA
19199680 GAAG-GAAAAGAA
1 GAAGAGAAAAGAA
*
19199692 GGAGAGAA
1 GAAGAGAA
19199700 GGAAGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
11 3 0.06
12 39 0.83
13 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.40, T:0.01
Consensus pattern (13 bp):
GAAGAGAAAAGAA
Found at i:19199704 original size:24 final size:24
Alignment explanation
Indices: 19199638--19199706 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
19199628 TGAGGAAGAG
* * *
19199638 AAAGAAGAAGAGAAGGATGAGGGA
1 AAAGAAGGAGAGAAGGAAGAAGGA
* *
19199662 AAAGAA-GAGGGAAAAGAAGAAGGA
1 AAAGAAGGAGAG-AAGGAAGAAGGA
19199686 AAAGAAGGAGAGAAGGAAGAA
1 AAAGAAGGAGAGAAGGAAGAA
19199707 ATTTTTATCG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 3 0.08
24 29 0.81
25 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.01
Consensus pattern (24 bp):
AAAGAAGGAGAGAAGGAAGAAGGA
Found at i:19210128 original size:26 final size:26
Alignment explanation
Indices: 19210087--19210137 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
19210077 TTCTGGGCCC
*
19210087 AATTCTGGTCACGTTCATGCAGCGAT
1 AATTCTGGACACGTTCATGCAGCGAT
*
19210113 AATTCTGGACATGTTCATGCAGCGA
1 AATTCTGGACACGTTCATGCAGCGA
19210138 CATTCCTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
AATTCTGGACACGTTCATGCAGCGAT
Found at i:19210759 original size:16 final size:16
Alignment explanation
Indices: 19210729--19210758 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19210719 ACACATATAT
19210729 ATTTTTTCTTCTTTTC
1 ATTTTTTCTTCTTTTC
19210745 ATTTTTT-TTCTTTT
1 ATTTTTTCTTCTTTT
19210759 TTTATGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (16 bp):
ATTTTTTCTTCTTTTC
Found at i:19211359 original size:17 final size:17
Alignment explanation
Indices: 19211320--19211368 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
19211310 ATATATATGG
* **
19211320 AAATGCAATGACAATGT
1 AAATGCAGTGACAATAA
*
19211337 AGATGCAGTGACAATAA
1 AAATGCAGTGACAATAA
*
19211354 AAATGCAGAGACAAT
1 AAATGCAGTGACAAT
19211369 TATACTACAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.18
Consensus pattern (17 bp):
AAATGCAGTGACAATAA
Found at i:19214495 original size:26 final size:26
Alignment explanation
Indices: 19214459--19214511 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
19214449 ATTTTAGGCG
19214459 CAATTTTGGACACGTTCATGTAGCGA
1 CAATTTTGGACACGTTCATGTAGCGA
*
19214485 CAATTTTGGACATGTTCATGTAGCGA
1 CAATTTTGGACACGTTCATGTAGCGA
19214511 C
1 C
19214512 TTTCCTGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (26 bp):
CAATTTTGGACACGTTCATGTAGCGA
Found at i:19221127 original size:28 final size:28
Alignment explanation
Indices: 19221069--19221135 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
19221059 ATGTTGCTAT
* *
19221069 TTTATCTAGATAAATCTATTTTAACGAA
1 TTTATATAAATAAATCTATTTTAACGAA
* *
19221097 TTTAT-TAAATAAATCTATTTTATCTAGA
1 TTTATATAAATAAATCTATTTTAACGA-A
19221125 TTTATATAAAT
1 TTTATATAAAT
19221136 TGATATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.53
28 11 0.32
29 5 0.15
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.48
Consensus pattern (28 bp):
TTTATATAAATAAATCTATTTTAACGAA
Found at i:19223162 original size:32 final size:35
Alignment explanation
Indices: 19223075--19223164 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 35
19223065 GATTATCTTT
*
19223075 ATATTAAATTAAATTTAATGTTTATCATGTAGATAA
1 ATATTAAATT-AATTTAATATTTATCATGTAGATAA
*
19223111 ATATTAAATTTAATCTAATATTTATC-T-T-GATAA
1 ATATTAAA-TTAATTTAATATTTATCATGTAGATAA
*
19223144 ATATTATATTAATTTAATATT
1 ATATTAAATTAATTTAATATT
19223165 AAAGTGATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
32 12 0.24
33 12 0.24
34 1 0.02
35 1 0.02
36 21 0.43
37 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (35 bp):
ATATTAAATTAATTTAATATTTATCATGTAGATAA
Found at i:19227090 original size:59 final size:58
Alignment explanation
Indices: 19226928--19227092 Score: 170
Period size: 60 Copynumber: 2.8 Consensus size: 58
19226918 TTTTGATATA
* * * * *
19226928 TTTTTTTTAATTTGATACTTAAATTATTTTTTGATTTAATTTTGTACTTGAATTTGACAC
1 TTTTTTTTAATTTGATACCTAAA-T-TTTTTTAATTCAATTTGGTACTTGAACTTGACAC
* ** * *
19226988 TTTTTTTTAATTTGATATCTAAATTTTTTTGAACCCAAATTGGTACTTGAACTTGAC-T
1 TTTTTTTTAATTTGATACCTAAATTTTTTT-AATTCAATTTGGTACTTGAACTTGACAC
* *
19227046 TTTTTTTCCTAATTTGGTACCTAAGTTTTTTTAATTCAATTTGGTAC
1 TTTTTTT--TAATTTGATACCTAAATTTTTTTAATTCAATTTGGTAC
19227093 ATAAATTTAT
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
58 13 0.15
59 32 0.37
60 41 0.48
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (58 bp):
TTTTTTTTAATTTGATACCTAAATTTTTTTAATTCAATTTGGTACTTGAACTTGACAC
Found at i:19227373 original size:90 final size:89
Alignment explanation
Indices: 19227260--19227547 Score: 274
Period size: 90 Copynumber: 3.3 Consensus size: 89
19227250 ATCGAATTAG
* *
19227260 AAAAAAG-AGTCAAGTTTAGGTATCAAATTGGGCCCCAAAAAGTTTATGTATCAACTTAAAAAAA
1 AAAAAAGTA-TCAAGTTTAAGTATCAAATTGGGCCACAAAAAGTTTATGTATCAACTTAAAAAAA
19227324 AGTATCAAATTTAGATACCAAAATAA
65 AGTATCAAATTTAGATA-CAAAATAA
* * * ** * **
19227350 AAAAAAGTATCAAGTTTAAGTATCAAA-T-GGACAAAAAAAGTTAAAATACCAAC--GCAAAAAA
1 AAAAAAGTATCAAGTTTAAGTATCAAATTGGGCCACAAAAAGTTTATGTATCAACTTAAAAAAAA
* ** * * ** *
19227411 G-ATTAGGTATCG--A-ATTAGAA
66 GTATCAAATTTAGATACAAAATAA
* * *
19227431 AAAAAAG--TCAAGTTCAAGTGTCAAATTGGGCCTCAAAAAGTTTATGTATCAACTTAAAAAAAA
1 AAAAAAGTATCAAGTTTAAGTATCAAATTGGGCCACAAAAAGTTTATGTATCAACTTAAAAAAAA
19227494 GTATCAAATTTAGATACTAAAATAA
66 GTATCAAATTTAGATAC-AAAATAA
*
19227519 AAAAAAGTATCAAGTTTAAGTACCAAATT
1 AAAAAAGTATCAAGTTTAAGTATCAAATT
19227548 AGAAAAAAAA
Statistics
Matches: 146, Mismatches: 40, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
79 16 0.11
80 1 0.01
81 29 0.20
83 8 0.05
84 6 0.04
85 6 0.04
86 8 0.05
88 29 0.20
89 1 0.01
90 41 0.28
91 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (89 bp):
AAAAAAGTATCAAGTTTAAGTATCAAATTGGGCCACAAAAAGTTTATGTATCAACTTAAAAAAAA
GTATCAAATTTAGATACAAAATAA
Found at i:19227518 original size:169 final size:171
Alignment explanation
Indices: 19227236--19227574 Score: 574
Period size: 169 Copynumber: 2.0 Consensus size: 171
19227226 ACTAATATTA
* * *
19227236 AAAAAAGATTACGTATCGAATTAGAAAAAAGAGTCAAGTTTAGGTATCAAATTGGGCCCCAAAAA
1 AAAAAAGATTACGTATCGAATTAGAAAAAAAAGTCAAGTTCAAGTATCAAATTGGGCCCCAAAAA
19227301 GTTTATGTATCAACTTAAAAAAAAGTATCAAATTTAGATACCAAAATAAAAAAAAGTATCAAGTT
66 GTTTATGTATCAACTTAAAAAAAAGTATCAAATTTAGATACCAAAATAAAAAAAAGTATCAAGTT
* * *
19227366 TAAGTATCAAA-T-GGACAAAAAAAGTTAAAATACCAACGC
131 TAAGTACCAAATTAGAAAAAAAAAAGTTAAAATACCAACGC
* * *
19227405 AAAAAAGATTAGGTATCGAATTAGAAAAAAAAGTCAAGTTCAAGTGTCAAATTGGGCCTCAAAAA
1 AAAAAAGATTACGTATCGAATTAGAAAAAAAAGTCAAGTTCAAGTATCAAATTGGGCCCCAAAAA
*
19227470 GTTTATGTATCAACTTAAAAAAAAGTATCAAATTTAGATACTAAAATAAAAAAAAGTATCAAGTT
66 GTTTATGTATCAACTTAAAAAAAAGTATCAAATTTAGATACCAAAATAAAAAAAAGTATCAAGTT
19227535 TAAGTACCAAATTAGAAAAAAAAAAGTTAAAATACCAACG
131 TAAGTACCAAATTAGAAAAAAAAAAGTTAAAATACCAACG
19227575 GATTTTCATC
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
169 133 0.84
170 1 0.01
171 24 0.15
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (171 bp):
AAAAAAGATTACGTATCGAATTAGAAAAAAAAGTCAAGTTCAAGTATCAAATTGGGCCCCAAAAA
GTTTATGTATCAACTTAAAAAAAAGTATCAAATTTAGATACCAAAATAAAAAAAAGTATCAAGTT
TAAGTACCAAATTAGAAAAAAAAAAGTTAAAATACCAACGC
Found at i:19227554 original size:31 final size:31
Alignment explanation
Indices: 19227468--19227556 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 31
19227458 GGGCCTCAAA
* * *
19227468 AAGTTTATGTATCAACTTAAAAAAAAGTATC
1 AAGTTTAAGTACCAAATTAAAAAAAAGTATC
* * *
19227499 AAATTT-AGATACTAAAATAAAAAAAAGTATC
1 AAGTTTAAG-TACCAAATTAAAAAAAAGTATC
19227530 AAGTTTAAGTACCAAATTAGAAAAAAA
1 AAGTTTAAGTACCAAATTA-AAAAAAA
19227557 AAAGTTAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
30 1 0.02
31 36 0.78
32 9 0.20
ACGTcount: A:0.56, C:0.08, G:0.09, T:0.27
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAAAAAAAGTATC
Found at i:19231781 original size:22 final size:19
Alignment explanation
Indices: 19231754--19231806 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 19
19231744 ATAAATGGAA
19231754 AAAAACATAAAAAATAACATT
1 AAAAACATAAAAAAT-ACA-T
19231775 AACAAACA-AATAAAATACAT
1 AA-AAACATAA-AAAATACAT
19231795 AAAAACAATAAA
1 AAAAAC-ATAAA
19231807 TAACTAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 4 0.14
20 5 0.18
21 9 0.32
22 10 0.36
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAACATAAAAAATACAT
Found at i:19231874 original size:18 final size:18
Alignment explanation
Indices: 19231833--19231899 Score: 70
Period size: 17 Copynumber: 3.8 Consensus size: 18
19231823 TATAAACAAC
*
19231833 ATAAATAAATAAAATATCA
1 ATAAATAAA-AAAATATAA
19231852 ATAAATAAAAAAAT-TAA
1 ATAAATAAAAAAATATAA
19231869 ATTAAAT-AAAAAATA-AA
1 A-TAAATAAAAAAATATAA
*
19231886 AT-AATACAAAAATA
1 ATAAATAAAAAAATA
19231900 AAAAAGTGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
15 3 0.07
16 8 0.19
17 13 0.30
18 10 0.23
19 9 0.21
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAATAAAAAAATATAA
Found at i:19231887 original size:17 final size:16
Alignment explanation
Indices: 19231835--19231902 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
19231825 TAAACAACAT
*
19231835 AAATAAATAAAATAT-
1 AAATAAATAAAAAATA
*
19231850 CAATAAATAAAAAAATTA
1 AAATAAAT-AAAAAA-TA
*
19231868 AATTAAATAAAAAATA
1 AAATAAATAAAAAATA
19231884 AAAT-AATACAAAAATA
1 AAATAAATA-AAAAATA
19231900 AAA
1 AAA
19231903 AAGTGAGATC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.25
16 20 0.45
17 7 0.16
18 6 0.14
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAATAAAAAATA
Found at i:19231897 original size:33 final size:32
Alignment explanation
Indices: 19231834--19231898 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
19231824 ATAAACAACA
* *
19231834 TAAATAAATAAAATATCAATAAATAAAAAAAT
1 TAAATAAATAAAAAATAAATAAATAAAAAAAT
*
19231866 TAAATTAAATAAAAAATAAA-ATAATACAAAAAT
1 TAAA-TAAATAAAAAATAAATA-AATAAAAAAAT
19231899 AAAAAAGTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (32 bp):
TAAATAAATAAAAAATAAATAAATAAAAAAAT
Found at i:19231899 original size:8 final size:7
Alignment explanation
Indices: 19231833--19231904 Score: 54
Period size: 8 Copynumber: 9.1 Consensus size: 7
19231823 TATAAACAAC
19231833 ATAAATAA
1 ATAAA-AA
*
19231841 ATAAAAT
1 ATAAAAA
*
19231848 ATCAATAA
1 AT-AAAAA
19231856 ATAAAAAA
1 AT-AAAAA
19231864 ATTAAATTAA
1 A-TAAA--AA
19231874 ATAAAAA
1 ATAAAAA
19231881 ATAAAATA
1 ATAAAA-A
19231889 ATACAAAA
1 ATA-AAAA
19231897 ATAAAAA
1 ATAAAAA
19231904 A
1 A
19231905 GTGAGATCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
7 16 0.30
8 26 0.49
9 8 0.15
10 3 0.06
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (7 bp):
ATAAAAA
Found at i:19231927 original size:40 final size:42
Alignment explanation
Indices: 19231834--19231927 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 42
19231824 ATAAACAACA
* *
19231834 TAAATAAATAA-AATATCAATAAATAAAAAAATTAAATTAAAT
1 TAAATAAA-AATAATATCAATAAATAAAAAAATGAAATCAAAT
* * * *
19231876 AAAAAATAAAATAATA-CAA-AAATAAAAAAGTGAGATCAAAT
1 TAAATA-AAAATAATATCAATAAATAAAAAAATGAAATCAAAT
19231917 TAAATAAAAAT
1 TAAATAAAAAT
19231928 GAAAAACAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
40 5 0.12
41 22 0.52
42 9 0.21
43 6 0.14
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (42 bp):
TAAATAAAAATAATATCAATAAATAAAAAAATGAAATCAAAT
Found at i:19233153 original size:20 final size:19
Alignment explanation
Indices: 19233112--19233151 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
19233102 CTTGTAAAAA
19233112 TTGGGTTGAAATATTAGGT
1 TTGGGTTGAAATATTAGGT
19233131 TTGGGCTTG-AATATTAGGT
1 TTGGG-TTGAAATATTAGGT
19233150 TT
1 TT
19233152 TGTATTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.45
Consensus pattern (19 bp):
TTGGGTTGAAATATTAGGT
Found at i:19233811 original size:51 final size:49
Alignment explanation
Indices: 19233696--19234020 Score: 180
Period size: 51 Copynumber: 6.4 Consensus size: 49
19233686 ATGTAACCTC
* * * * * *
19233696 AATCCAATCCACTGCAACTTCAAGGATAT-AGGATTTGATATTGTAGTTT
1 AATCCGATCCACTGCAACTTCAGGGAGATAAGGATTTGCTTTTG-ACTTT
* * * *
19233745 CATCTTGCTCCACTGCAACTTCAGGGAGATAAGGATTTACTTTCATGACTTT
1 AATC-CGATCCACTGCAACTTCAGGGAGATAAGGATTTGCTTT--TGACTTT
*
19233797 AATCCGATCCACTGCAACGTCAGGG-G-TATAGGATTTTG-TTTTGTAAC-TT
1 AATCCGATCCACTGCAACTTCAGGGAGATA-AGGA-TTTGCTTTTG--ACTTT
* * ** **
19233846 CATCCTACTTTACTGCAACTTCAAAGAGATAAGGATTCT-CTTTTGTAGCTTT
1 AATCCGA-TCCACTGCAACTTCAGGGAGATAAGGATT-TGCTTTTG-A-CTTT
* * *
19233898 AATCCGATCCACTGCAACTTTAGGGATAT-AGGATTTGGTTTTGTAGCTTT
1 AATCCGATCCACTGCAACTTCAGGGAGATAAGGATTTGCTTTTG-A-CTTT
* * *** * * *
19233948 -ATCCTACTCTACCATAACTTCAGAGAGATAAGGATTTGCTTTGGTAACTTC
1 AATCCGA-TCCACTGCAACTTCAGGGAGATAAGGATTTGCTTT--TGACTTT
*
19233999 AATCCGATCCACTGTAACTTCA
1 AATCCGATCCACTGCAACTTCA
19234021 AGGGTATAGG
Statistics
Matches: 208, Mismatches: 47, Indels: 40
0.71 0.16 0.14
Matches are distributed among these distances:
48 2 0.01
49 18 0.09
50 79 0.38
51 84 0.40
52 22 0.11
53 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (49 bp):
AATCCGATCCACTGCAACTTCAGGGAGATAAGGATTTGCTTTTGACTTT
Found at i:19233943 original size:50 final size:50
Alignment explanation
Indices: 19233667--19234047 Score: 247
Period size: 50 Copynumber: 7.6 Consensus size: 50
19233657 CTATATCTTT
* * ** * * *
19233667 AGGGAGATAGGACTTGCTAATGTAACCTCAATCCAATCCACTGCAACTTC
1 AGGGATATAGGATTTGCTTTTGTAACTTTAATCCGATCCACTGCAACTTC
* * * * * * *
19233717 AAGGATATAGGATTTGATATTGT-AGTTTCATCTTGCTCCACTGCAACTTC
1 AGGGATATAGGATTTGCTTTTGTAACTTTAATC-CGATCCACTGCAACTTC
* * ** * *
19233767 AGGGAGATAAGGATTTACTTTCATGACTTTAATCCGATCCACTGCAACGTC
1 AGGGATAT-AGGATTTGCTTTTGTAACTTTAATCCGATCCACTGCAACTTC
* * * **
19233818 AGGGGTATAGGATTTTG-TTTTGTAAC-TTCATCCTACTTTACTGCAACTTC
1 AGGGATATAGGA-TTTGCTTTTGTAACTTTAATCCGA-TCCACTGCAACTTC
* * *
19233868 AAAGAGATA-AGGATTCT-CTTTTGTAGCTTTAATCCGATCCACTGCAACTTT
1 --AGGGATATAGGATT-TGCTTTTGTAACTTTAATCCGATCCACTGCAACTTC
* * * * ***
19233919 AGGGATATAGGATTTGGTTTTGTAGCTTT-ATCCTACTCTACCATAACTTC
1 AGGGATATAGGATTTGCTTTTGTAACTTTAATCCGA-TCCACTGCAACTTC
* * *
19233969 AGAGAGATA-AGGATTTGCTTTGGTAACTTCAATCCGATCCACTGTAACTTC
1 AG-G-GATATAGGATTTGCTTTTGTAACTTTAATCCGATCCACTGCAACTTC
* *
19234020 AAGGG-TATAGGATTTGGTTTCGTAACTT
1 -AGGGATATAGGATTTGCTTTTGTAACTT
19234048 CACTCCATTC
Statistics
Matches: 252, Mismatches: 61, Indels: 36
0.72 0.17 0.10
Matches are distributed among these distances:
49 26 0.10
50 109 0.43
51 87 0.35
52 30 0.12
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (50 bp):
AGGGATATAGGATTTGCTTTTGTAACTTTAATCCGATCCACTGCAACTTC
Found at i:19234036 original size:101 final size:100
Alignment explanation
Indices: 19233636--19234068 Score: 399
Period size: 101 Copynumber: 4.3 Consensus size: 100
19233626 AGATTCGATA
* * * * * * * *
19233636 TTGTAGCTTTATCCTACCCCACTATATCTTTAGGGAGAT-AGGACTTGCTAATGTAACCTCAATC
1 TTGTAGCTTTATCCTACTCCACTACAACTTCAGAGAGATAAGGATTTGCT-TTGTAACTTCAATC
* * * *
19233700 CAATCCACTGCAACTTCAAGGATATAGGATTTGATA
65 CGATCCACTGCAACTTCAAGGGTATAGGATTTGGTT
* * * * * * * *
19233736 TTGTAG-TTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGGATTTACTTTCATGACTTTAAT
1 TTGTAGCTTT-ATCCTACTCCACTACAACTTCAGAGAGATAAGGATTTGCTTT-GTAACTTCAAT
* * *
19233800 CCGATCCACTGCAACGTCAGGGGTATAGGATTTTGTT
64 CCGATCCACTGCAACTTCAAGGGTATAGGATTTGGTT
* * ** * * * *
19233837 TTGTAACTTCATCCTACTTTACTGCAACTTCAAAGAGATAAGGATTCT-CTTTTGTAGCTTTAAT
1 TTGTAGCTTTATCCTACTCCACTACAACTTCAGAGAGATAAGGATT-TGC-TTTGTAACTTCAAT
*
19233901 CCGATCCACTGCAACTT-TAGGGATATAGGATTTGGTT
64 CCGATCCACTGCAACTTCAAGGG-TATAGGATTTGGTT
* * *
19233938 TTGTAGCTTTATCCTACTCTACCATAACTTCAGAGAGATAAGGATTTGCTTTGGTAACTTCAATC
1 TTGTAGCTTTATCCTACTCCACTACAACTTCAGAGAGATAAGGATTTGCTTT-GTAACTTCAATC
*
19234003 CGATCCACTGTAACTTCAAGGGTATAGGATTTGGTT
65 CGATCCACTGCAACTTCAAGGGTATAGGATTTGGTT
* * * *
19234039 TCGTAACTTCACTCC-ATTCCACTACAACTT
1 TTGTAGCTTTA-TCCTACTCCACTACAACTT
19234069 TAAGGAGATT
Statistics
Matches: 268, Mismatches: 54, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
99 3 0.01
100 36 0.13
101 216 0.81
102 13 0.05
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (100 bp):
TTGTAGCTTTATCCTACTCCACTACAACTTCAGAGAGATAAGGATTTGCTTTGTAACTTCAATCC
GATCCACTGCAACTTCAAGGGTATAGGATTTGGTT
Found at i:19239149 original size:82 final size:82
Alignment explanation
Indices: 19239012--19239171 Score: 275
Period size: 82 Copynumber: 2.0 Consensus size: 82
19239002 ATTGATGCTC
19239012 AGGTTTTCCATTATTCCCACCATCCTATTTTCTGTCAGCTTTCACTCGGGGTTAATAATACCTCC
1 AGGTTTTCCATTATTCCCACCATCCTATTTTCTGTCAGCTTTCACTCGGGGTTAATAATACCTCC
**
19239077 TGACACGAATGTCACTT
66 CAACACGAATGTCACTT
* * *
19239094 AGGTTTTCCATTATTCTCACCATCTTATTTTCTGTTAGCTTTCACTCGGGGTTAATAATACCTCC
1 AGGTTTTCCATTATTCCCACCATCCTATTTTCTGTCAGCTTTCACTCGGGGTTAATAATACCTCC
19239159 CAACACGAATGTC
66 CAACACGAATGTC
19239172 TTCGATATAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.38
Consensus pattern (82 bp):
AGGTTTTCCATTATTCCCACCATCCTATTTTCTGTCAGCTTTCACTCGGGGTTAATAATACCTCC
CAACACGAATGTCACTT
Found at i:19239714 original size:15 final size:15
Alignment explanation
Indices: 19239694--19239730 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
19239684 TGCGCCTGAT
19239694 GTCCATCACCAAAAA
1 GTCCATCACCAAAAA
19239709 GTCCATCACCAAAAA
1 GTCCATCACCAAAAA
19239724 GTCCATC
1 GTCCATC
19239731 TCATACGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.35, G:0.08, T:0.16
Consensus pattern (15 bp):
GTCCATCACCAAAAA
Found at i:19241042 original size:33 final size:33
Alignment explanation
Indices: 19241004--19241071 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
19240994 TTACGCTCGC
*
19241004 TAGCTTGTACACGTTTATGCTCGTCAACTTATT
1 TAGCTTGCACACGTTTATGCTCGTCAACTTATT
*
19241037 TAGCTTGCACACGTTTATGCTCGTCAGCTTATT
1 TAGCTTGCACACGTTTATGCTCGTCAACTTATT
19241070 TA
1 TA
19241072 TGCGTTTACG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (33 bp):
TAGCTTGCACACGTTTATGCTCGTCAACTTATT
Found at i:19241078 original size:26 final size:26
Alignment explanation
Indices: 19241048--19241182 Score: 91
Period size: 26 Copynumber: 5.3 Consensus size: 26
19241038 AGCTTGCACA
*
19241048 CGTTTATGCTCGTCAGCTTATTTATG
1 CGTTTACGCTCGTCAGCTTATTTATG
** * ****
19241074 CGTTTACGCTCACCAACTTGCACAT-
1 CGTTTACGCTCGTCAGCTTATTTATG
* *
19241099 -GTTTATGCTCATCAGCTTATTTATG
1 CGTTTACGCTCGTCAGCTTATTTATG
** **
19241124 CGTTTACGCTCG-CTAGC-T-TGCACA
1 CGTTTACGCTCGTC-AGCTTATTTATG
*
19241148 CGTTTACGCTCGTCAGCTTAATTATG
1 CGTTTACGCTCGTCAGCTTATTTATG
19241174 CGTTTACGC
1 CGTTTACGC
19241183 ATCATAATTC
Statistics
Matches: 77, Mismatches: 26, Indels: 12
0.67 0.23 0.10
Matches are distributed among these distances:
24 34 0.44
25 4 0.05
26 39 0.51
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.38
Consensus pattern (26 bp):
CGTTTACGCTCGTCAGCTTATTTATG
Found at i:19241097 original size:50 final size:50
Alignment explanation
Indices: 19241040--19241182 Score: 223
Period size: 50 Copynumber: 2.9 Consensus size: 50
19241030 ACTTATTTAG
19241040 CTTGCACACGTTTATGCTCGTCAGCTTATTTATGCGTTTACGCTCACCAA
1 CTTGCACACGTTTATGCTCGTCAGCTTATTTATGCGTTTACGCTCACCAA
* * * * *
19241090 CTTGCACATGTTTATGCTCATCAGCTTATTTATGCGTTTACGCTCGCTAG
1 CTTGCACACGTTTATGCTCGTCAGCTTATTTATGCGTTTACGCTCACCAA
* *
19241140 CTTGCACACGTTTACGCTCGTCAGCTTAATTATGCGTTTACGC
1 CTTGCACACGTTTATGCTCGTCAGCTTATTTATGCGTTTACGC
19241183 ATCATAATTC
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (50 bp):
CTTGCACACGTTTATGCTCGTCAGCTTATTTATGCGTTTACGCTCACCAA
Found at i:19241165 original size:24 final size:24
Alignment explanation
Indices: 19241038--19241166 Score: 71
Period size: 24 Copynumber: 5.2 Consensus size: 24
19241028 CAACTTATTT
*
19241038 AGCTTGCACACGTTTATGCTCGTC
1 AGCTTGCACACGTTTACGCTCGTC
** ** **
19241062 AGCTTATTTATGCGTTTACGCTCACC
1 AGC-T-TGCACACGTTTACGCTCGTC
* * * *
19241088 AACTTGCACATGTTTATGCTCATC
1 AGCTTGCACACGTTTACGCTCGTC
** **
19241112 AGCTTATTTATGCGTTTACGCTCG-C
1 AGC-T-TGCACACGTTTACGCTCGTC
19241137 TAGCTTGCACACGTTTACGCTCGTC
1 -AGCTTGCACACGTTTACGCTCGTC
19241162 AGCTT
1 AGCTT
19241167 AATTATGCGT
Statistics
Matches: 72, Mismatches: 27, Indels: 12
0.65 0.24 0.11
Matches are distributed among these distances:
24 37 0.51
25 6 0.08
26 29 0.40
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (24 bp):
AGCTTGCACACGTTTACGCTCGTC
Found at i:19241721 original size:131 final size:131
Alignment explanation
Indices: 19241487--19241749 Score: 517
Period size: 131 Copynumber: 2.0 Consensus size: 131
19241477 CAAGAATTTA
*
19241487 ATACCAAACCATTTCATATATGCACAATTTCAACGAGAATTTCACCCTTCATCAATAGCTCCAAA
1 ATACCAAAACATTTCATATATGCACAATTTCAACGAGAATTTCACCCTTCATCAATAGCTCCAAA
19241552 CAATTACTACCATATATCTTTTCAAAACATAGCAACACTTTCATACATGCCCATAAATAACTCTC
66 CAATTACTACCATATATCTTTTCAAAACATAGCAACACTTTCATACATGCCCATAAATAACTCTC
19241617 T
131 T
19241618 ATACCAAAACATTTCATATATGCACAATTTCAACGAGAATTTCACCCTTCATCAATAGCTCCAAA
1 ATACCAAAACATTTCATATATGCACAATTTCAACGAGAATTTCACCCTTCATCAATAGCTCCAAA
19241683 CAATTACTACCATATATCTTTTCAAAACATAGCAACACTTTCATACATGCCCATAAATAACTCTC
66 CAATTACTACCATATATCTTTTCAAAACATAGCAACACTTTCATACATGCCCATAAATAACTCTC
19241748 T
131 T
19241749 A
1 A
19241750 CTAAACATGA
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.30
Consensus pattern (131 bp):
ATACCAAAACATTTCATATATGCACAATTTCAACGAGAATTTCACCCTTCATCAATAGCTCCAAA
CAATTACTACCATATATCTTTTCAAAACATAGCAACACTTTCATACATGCCCATAAATAACTCTC
T
Found at i:19245261 original size:49 final size:49
Alignment explanation
Indices: 19245087--19245709 Score: 362
Period size: 49 Copynumber: 12.7 Consensus size: 49
19245077 CCTTCATATC
* * * * *
19245087 TCTAAGGTATAAAGTTCGCCATTGCGACTTCAACCTTTCCCATCATTTT
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATTATTTT
* * * *
19245136 T-TAAGGTACATGGTTCACTGTTGCGGCTTCAACCTTT-CC-TTCCATATCT
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATT--AT-TTT
* * * *
19245185 TC-ATGGTA-AATGATTTGCCG-TGTCGGCTTCAATCTTTCCCATTATTTT
1 TCTAAGGTACAA-GGTTCGCCGTTG-CGGCTTCAACCTTTCCCATTATTTT
* * * *
19245233 TCTAAAGTACAAGGCTCGCTGTTGCGGCTTCAACCTTTCCC-TCCATATTT
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCAT-TAT-TTT
* * **
19245283 TC-ATGGTAC-AGGATTCGCCGTTGCAGCTTCAATTTTTCCCATTATTTT
1 TCTAAGGTACAAGG-TTCGCCGTTGCGGCTTCAACCTTTCCCATTATTTT
* * * * * *
19245331 TCTAAGTTTCAAGGTTCACCGTTGCAGCTTCAACCTTTCCC-TCCATATAT
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCAT-TAT-TTT
* * * **
19245381 TCT-TGGTACAAGATTCGCTGTTGCGGCTTCAATATTTCCCATTATTTT
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATTATTTT
* * * *
19245429 TCTAAGGTACAAGGTTTGCCGTTGTGGCTTCAACCTTTCCC-TCCATATCT
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCAT-TAT-TTT
* * * * * *
19245479 TC-ATGGTACAAGATTCTCCGTTGCGACTTCAACCATTCCC-TCTATATCT
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCAT-TAT-TTT
** * * * * *
19245528 TC-ATTGTACAAGATTCACCGTTACGACTTCAATCTTTCCCATTATTTT
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATTATTTT
* * * * * *
19245576 TCTAAGGTATAAGGTTCGTCGTTACGGCTTCAACCTTTCCC-TCCATATC
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCAT-TATTTT
* * * * ** ** * * ** *
19245625 TCCATGATATC-AGATTCGCTATTGTAGCTTCAATCTTTCCCATCAAGTC
1 TCTAAGGTA-CAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATTATTTT
*
19245674 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTTAACCT
1 TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCT
19245710 CATTCCCTCC
Statistics
Matches: 435, Mismatches: 110, Indels: 58
0.72 0.18 0.10
Matches are distributed among these distances:
46 1 0.00
47 2 0.00
48 60 0.14
49 343 0.79
50 27 0.06
51 2 0.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (49 bp):
TCTAAGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCATTATTTT
Found at i:19245278 original size:98 final size:97
Alignment explanation
Indices: 19245096--19245567 Score: 497
Period size: 98 Copynumber: 4.8 Consensus size: 97
19245086 CTCTAAGGTA
* * * * * * *
19245096 TAAAG-TTCGCCATTGCGACTTCAACCTTTCCCATCATTTTT-TAAGGTACATGGTTCACTGTTG
1 TAAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTATTTTTCTAAAGTACAAGGTTCACCGTTG
*
19245159 CGGCTTCAACCTTTCCTTCCATATCTTCATGG
66 CGGCTTCAACCTTTCCCTCCATATCTTCATGG
* * * *
19245191 TAAATGATTTGCCG-TGTCGGCTTCAATCTTTCCCATTATTTTTCTAAAGTACAAGGCTCGCTGT
1 TAAA-GATTCGCCGTTG-CGGCTTCAATCTTTCCCATTATTTTTCTAAAGTACAAGGTTCACCGT
*
19245255 TGCGGCTTCAACCTTTCCCTCCATATTTTCATGG
64 TGCGGCTTCAACCTTTCCCTCCATATCTTCATGG
* * * *
19245289 TACAGGATTCGCCGTTGCAGCTTCAATTTTTCCCATTATTTTTCT-AAGTTTCAAGGTTCACCGT
1 TA-AAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTATTTTTCTAAAG-TACAAGGTTCACCGT
* * *
19245353 TGCAGCTTCAACCTTTCCCTCCATATATTCTTGG
64 TGCGGCTTCAACCTTTCCCTCCATATCTTCATGG
* * * **
19245387 TACAAGATTCGCTGTTGCGGCTTCAATATTTCCCATTATTTTTCTAAGGTACAAGGTTTGCCGTT
1 TA-AAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTATTTTTCTAAAGTACAAGGTTCACCGTT
*
19245452 GTGGCTTCAACCTTTCCCTCCATATCTTCATGG
65 GCGGCTTCAACCTTTCCCTCCATATCTTCATGG
* * * * * ** *
19245485 TACAAGATTCTCCGTTGCGACTTCAACCATTCCC-TCTATATCTTC-ATTGTACAAGATTCACCG
1 TA-AAGATTCGCCGTTGCGGCTTCAATCTTTCCCAT-TAT-TTTTCTAAAGTACAAGGTTCACCG
* * *
19245548 TTACGACTTCAATCTTTCCC
63 TTGCGGCTTCAACCTTTCCC
19245568 ATTATTTTTC
Statistics
Matches: 317, Mismatches: 50, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
95 4 0.01
96 3 0.01
97 32 0.10
98 269 0.85
99 9 0.03
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (97 bp):
TAAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATTATTTTTCTAAAGTACAAGGTTCACCGTTG
CGGCTTCAACCTTTCCCTCCATATCTTCATGG
Found at i:19245421 original size:196 final size:195
Alignment explanation
Indices: 19245101--19245510 Score: 556
Period size: 196 Copynumber: 2.1 Consensus size: 195
19245091 AGGTATAAAG
* ** * * *
19245101 TTCGCCATTGCGACTTCAACCTTTCCCATCATTTTTTAAGGTACATGGTTCACTGTTGCGGCTTC
1 TTCGCCGTTGCGACTTCAATTTTTCCCATCATTTTTTAAGGTACAAGGTTCACCGTTGCAGCTTC
* * * *
19245166 AACCTTTCCTTCCATATCTTCATGGTAAATGATTTGCCGTGTCGGCTTCAATCTTTCCCATTATT
66 AACCTTTCCCTCCATATATTCATGGTAAATGATTCGCCGTGTCGGCTTCAATATTTCCCATTATT
* * *
19245231 TTTCTAAAGTACAAGGCTCGCTGTTGCGGCTTCAACCTTTCCCTCCATATTTTCATGGTACAGGA
131 TTTCTAAAGTACAAGGCTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTTCATGGTACAAGA
* * *
19245296 TTCGCCGTTGC-AGCTTCAATTTTTCCCATTATTTTTCTAAGTTTCAAGGTTCACCGTTGCAGCT
1 TTCGCCGTTGCGA-CTTCAATTTTTCCCATCATTTTT-TAAGGTACAAGGTTCACCGTTGCAGCT
* *
19245360 TCAACCTTTCCCTCCATATATTCTTGGTACAA-GATTCGCTGT-TGCGGCTTCAATATTTCCCAT
64 TCAACCTTTCCCTCCATATATTCATGGTA-AATGATTCGCCGTGT-CGGCTTCAATATTTCCCAT
* * * *
19245423 TATTTTTCTAAGGTACAAGGTTTGCCGTTGTGGCTTCAACCTTTCCCTCCATATCTTCATGGTAC
127 TATTTTTCTAAAGTACAAGGCTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTTCATGGTAC
19245488 AAGA
192 AAGA
*
19245492 TTCTCCGTTGCGACTTCAA
1 TTCGCCGTTGCGACTTCAA
19245511 CCATTCCCTC
Statistics
Matches: 187, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
194 1 0.01
195 31 0.17
196 152 0.81
197 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.39
Consensus pattern (195 bp):
TTCGCCGTTGCGACTTCAATTTTTCCCATCATTTTTTAAGGTACAAGGTTCACCGTTGCAGCTTC
AACCTTTCCCTCCATATATTCATGGTAAATGATTCGCCGTGTCGGCTTCAATATTTCCCATTATT
TTTCTAAAGTACAAGGCTCGCCGTTGCGGCTTCAACCTTTCCCTCCATATCTTCATGGTACAAGA
Found at i:19245438 original size:147 final size:147
Alignment explanation
Indices: 19245108--19245625 Score: 430
Period size: 147 Copynumber: 3.5 Consensus size: 147
19245098 AAGTTCGCCA
* * * * * * *
19245108 TTGCGACTTCAACCTTTCCCATCATTTTT-TAAGGTACATGGTTCACTGTTGCGGCTTCAACCTT
1 TTGCGGCTTCAATCTTTCCCATTATTTTTCTAAGGTACAAGGTTCGCCGTTGCAGCTTCAACCTT
* * ** * * * * *
19245172 TCCTTCCATATCTTCATGGTA-AATGATTTGCCG-TGTCGGCTTCAATCTTTCCCAT-TAT-TTT
66 TCCCTCCATATCTTCAAGGTACAA-GATTCACCGTTG-CGACTTCAACCATTCCC-TCCATATAT
** **
19245233 TCTAAAGTACAAGGCTCGCTG
128 TC-ATTGTACAAGATTCGCTG
* * * *
19245254 TTGCGGCTTCAACCTTTCCC-TCCATATTTTC-ATGGTAC-AGGATTCGCCGTTGCAGCTTCAAT
1 TTGCGGCTTCAATCTTTCCCAT-TAT-TTTTCTAAGGTACAAGG-TTCGCCGTTGCAGCTTCAAC
* * * * * * *
19245316 TTTTCCCAT-TAT-TTTTCTAAGTTTCAAGGTTCACCGTTGC-AGCTTCAACCTTTCCCTCCATA
63 CTTTCCC-TCCATATCTTC-AAGGTACAAGATTCACCGTTGCGA-CTTCAACCATTCCCTCCATA
19245378 TATTC-TTGGTACAAGATTCGCTG
125 TATTCATT-GTACAAGATTCGCTG
* * **
19245401 TTGCGGCTTCAATATTTCCCATTATTTTTCTAAGGTACAAGGTTTGCCGTTGTGGCTTCAACCTT
1 TTGCGGCTTCAATCTTTCCCATTATTTTTCTAAGGTACAAGGTTCGCCGTTGCAGCTTCAACCTT
* * * *
19245466 TCCCTCCATATCTTCATGGTACAAGATTCTCCGTTGCGACTTCAACCATTCCCTCTATATCTTCA
66 TCCCTCCATATCTTCAAGGTACAAGATTCACCGTTGCGACTTCAACCATTCCCTCCATATATTCA
* *
19245531 TTGTACAAGATTCACCG
131 TTGTACAAGATTCGCTG
* * * * * *
19245548 TTACGACTTCAATCTTTCCCATTATTTTTCTAAGGTATAAGGTTCGTCGTTACGGCTTCAACCTT
1 TTGCGGCTTCAATCTTTCCCATTATTTTTCTAAGGTACAAGGTTCGCCGTTGCAGCTTCAACCTT
19245613 TCCCTCCATATCT
66 TCCCTCCATATCT
19245626 CCATGATATC
Statistics
Matches: 299, Mismatches: 54, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
145 1 0.00
146 35 0.12
147 243 0.81
148 20 0.07
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (147 bp):
TTGCGGCTTCAATCTTTCCCATTATTTTTCTAAGGTACAAGGTTCGCCGTTGCAGCTTCAACCTT
TCCCTCCATATCTTCAAGGTACAAGATTCACCGTTGCGACTTCAACCATTCCCTCCATATATTCA
TTGTACAAGATTCGCTG
Found at i:19245815 original size:50 final size:49
Alignment explanation
Indices: 19245659--19245815 Score: 135
Period size: 50 Copynumber: 3.1 Consensus size: 49
19245649 TAGCTTCAAT
* * * *
19245659 CTTTCCCATCAAGTC-TCTAAGGTACAAGGTTCGCCGTTGCGGCTTTAAC
1 CTTTCCCATCAA-TCTTCTATGGTACAGGGTTCGCTGTTGCGGCCTTAAC
* * * *
19245708 CTCATTCCC-TCCATATCTTC-ATAGTACCGGATTCG-TCGTTGCGGCCTCAATC
1 CT--TTCCCAT-CA-ATCTTCTATGGTACAGGGTTCGCT-GTTGCGGCCTTAA-C
19245760 C-TTCCCATCACATCTTCTATGGTACAGGGTTCGCTGTTGCGGCCTTAAC
1 CTTTCCCATCA-ATCTTCTATGGTACAGGGTTCGCTGTTGCGGCCTTAAC
19245809 CTTTCCC
1 CTTTCCC
19245816 TTTAATTTAT
Statistics
Matches: 84, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
49 17 0.20
50 31 0.37
51 31 0.37
52 5 0.06
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.32
Consensus pattern (49 bp):
CTTTCCCATCAATCTTCTATGGTACAGGGTTCGCTGTTGCGGCCTTAAC
Found at i:19245895 original size:96 final size:97
Alignment explanation
Indices: 19245781--19246011 Score: 252
Period size: 97 Copynumber: 2.4 Consensus size: 97
19245771 ATCTTCTATG
* * * * *
19245781 GTACAGGGTTCGCTGTTGCGGCCTTAACCTTTCCCTTTAATTT-ATGGTACTAGATCTACTGTTA
1 GTACAGGGTTCACCGTTGCGGCCTTAACCTTTCCCTTT-ATTTCATGCTACTAGATCCACCGTTA
* ** *
19245845 TGGCCTCGATCTTTCTGATCAT-GTC-TTCTAAA
65 CGGCCTCGATCTTTCCCATCATAATCTTTC-AAA
* * * *
19245877 GTATAGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTATTTCCATGCTACTAGATCCGCCGTTG
1 GTACAGGGTTCACCGTTGCGGCCTTAACCTTTCCCTTTATTT-CATGCTACTAGATCCACCGTTA
*
19245942 CGGCCTCGATCTTTCCCATCATAATCTTTCAAG
65 CGGCCTCGATCTTTCCCATCATAATCTTTCAAA
* * * *
19245975 GTACCGGGTTCACCGTTGTGACCTTAACCTTTTCCTT
1 GTACAGGGTTCACCGTTGCGGCCTTAACCTTTCCCTT
19246012 CATATCTTCA
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
95 4 0.04
96 34 0.31
97 35 0.32
98 35 0.32
99 3 0.03
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.37
Consensus pattern (97 bp):
GTACAGGGTTCACCGTTGCGGCCTTAACCTTTCCCTTTATTTCATGCTACTAGATCCACCGTTAC
GGCCTCGATCTTTCCCATCATAATCTTTCAAA
Found at i:19254526 original size:21 final size:22
Alignment explanation
Indices: 19254497--19254537 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19254487 ATTGGGGTAA
*
19254497 AATTGTAAAAACACATAAATTT
1 AATTGTAAAAACAAATAAATTT
*
19254519 AATT-TAAAAATAAATAAAT
1 AATTGTAAAAACAAATAAAT
19254538 AAATAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (22 bp):
AATTGTAAAAACAAATAAATTT
Found at i:19264569 original size:17 final size:17
Alignment explanation
Indices: 19264547--19264586 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
19264537 AAATGCACGG
* *
19264547 AATAAAATGCAGTGACA
1 AATAAAAAGCAATGACA
19264564 AATAAAAAGCAATGACA
1 AATAAAAAGCAATGACA
*
19264581 ACTAAA
1 AATAAA
19264587 TGCTATGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.15
Consensus pattern (17 bp):
AATAAAAAGCAATGACA
Found at i:19266865 original size:20 final size:19
Alignment explanation
Indices: 19266826--19266865 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19266816 AGAAACAGAT
* *
19266826 AAAAGAAGAAATAAAGTAA
1 AAAAAAAGAAATAAAATAA
19266845 AAAAAAAGAAATAAACATAA
1 AAAAAAAGAAATAAA-ATAA
19266865 A
1 A
19266866 TGTAAGAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAAAAAGAAATAAAATAA
Found at i:19269640 original size:9 final size:9
Alignment explanation
Indices: 19269608--19269651 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
19269598 GCTCTCCTTT
*
19269608 TTCTTTTTCT
1 TTCTTTTT-A
*
19269618 TTCCTTTT-
1 TTCTTTTTA
19269626 TTCTTTTTA
1 TTCTTTTTA
19269635 TTCTTTTTA
1 TTCTTTTTA
19269644 TTCTTTTT
1 TTCTTTTT
19269652 CCTCTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 7 0.23
9 17 0.55
10 7 0.23
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (9 bp):
TTCTTTTTA
Found at i:19269657 original size:18 final size:17
Alignment explanation
Indices: 19269605--19269662 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
19269595 TGAGCTCTCC
*
19269605 TTTTTCTTTTTCTTTCCT
1 TTTTTCTTTTTC-TTCTT
*
19269623 TTTTTCTTTTTATTCTT
1 TTTTTCTTTTTCTTCTT
*
19269640 TTTATTCTTTTTCCTCTT
1 TTT-TTCTTTTTCTTCTT
19269658 TTTTT
1 TTTTT
19269663 TGGTGAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.26
18 26 0.74
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTCTTCTT
Found at i:19270407 original size:356 final size:356
Alignment explanation
Indices: 19269752--19270456 Score: 1169
Period size: 356 Copynumber: 2.0 Consensus size: 356
19269742 CCTTCCGAAA
* *
19269752 AAGGTTTTCTTTACCTAATAAGGTCATTCCTAATTTGAAATTCATTTCCTTCAAAAATGCTTTTT
1 AAGGTTTTCTTTACCTAATAAGGACATTCCTAATTTGAAATTCATTTCCTTCAAAAATCCTTTTT
* * *
19269817 GTACAAGGAAGATTTTTTCAAGACTAGATCTCTCGCTCATGGAGTTCTCAAGGAAAGACACTTTC
66 GTACAAGGAAGATCTTTTCAAAACTAGA-CTCTCGCTCATGGAGTTCTCAAGGAAAGAAACTTTC
* *
19269882 TGTCATAAGTCCACATCATTCGCTCTTGGTACATTAGACCATAACTTTTAGCCTCATTTCATCGA
130 TATCATAAGTCCACATCATTCGCTCATGGTACATTAGACCATAACTTTTAGCCTCATTTCATCGA
*
19269947 TCAATGTTTAACTAATCAAATCTGGATTGGCTTCGTTCTATTTTGTCCAAATTCGCTTCTACCAA
195 TCAATGTTTAACTAATCAAATCTGGATTGGCTTCATTCTATTTTGTCCAAATTCGCTTCTACCAA
** *
19270012 AATTCAAATGGAAGGAATCTTAACTTCAAAAGGGTAAAATTGCCTCTGTTTTTAAACCAATGAAA
260 AATTCAAATGGAAGGAATCTTAACTTCAAAAGGGTAAAA-TAACTCTATTTTTAAACCAATGAAA
19270077 GAGATGTTGCCCCGGTGTAGGTACTTATTAGGT
324 GAGATGTTGCCCCGGTGTAGGTACTTATTAGGT
** **
19270110 AAGGTTTTCTTTACCTAATAAGGACATTCCTAATTTGGCATTCATTTCCTTTGAAAATCCTTTTT
1 AAGGTTTTCTTTACCTAATAAGGACATTCCTAATTTGAAATTCATTTCCTTCAAAAATCCTTTTT
*
19270175 GTACAAGGAAGATCTTTTCAAAACTAGA-TCTCGCTCATGGAGTTCTCAAGGACAGAAACTTTCT
66 GTACAAGGAAGATCTTTTCAAAACTAGACTCTCGCTCATGGAGTTCTCAAGGAAAGAAACTTTCT
* * *
19270239 ATCATAAGTCCACGTCATTCGCTCATGGTACATTAGACCATAGCTTTTAGCCTCCTTTCATCGAT
131 ATCATAAGTCCACATCATTCGCTCATGGTACATTAGACCATAACTTTTAGCCTCATTTCATCGAT
* * *
19270304 CAATGTTTAACTAATCCAATCTGGATTGGCTTCATTCTGTTTTGTCCAAATTCGCTTCTACCGAA
196 CAATGTTTAACTAATCAAATCTGGATTGGCTTCATTCTATTTTGTCCAAATTCGCTTCTACCAAA
* *
19270369 ATTCAAATGGAAGGAATCTTGACTTTAAAAGGGTAAAATAACTCTATTTTTAAACCAATGAAAGA
261 ATTCAAATGGAAGGAATCTTAACTTCAAAAGGGTAAAATAACTCTATTTTTAAACCAATGAAAGA
19270434 GATGTTGCCCCGGTGTAGGTACT
326 GATGTTGCCCCGGTGTAGGTACT
19270457 GATGGACGTT
Statistics
Matches: 323, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
355 47 0.15
356 191 0.59
358 85 0.26
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (356 bp):
AAGGTTTTCTTTACCTAATAAGGACATTCCTAATTTGAAATTCATTTCCTTCAAAAATCCTTTTT
GTACAAGGAAGATCTTTTCAAAACTAGACTCTCGCTCATGGAGTTCTCAAGGAAAGAAACTTTCT
ATCATAAGTCCACATCATTCGCTCATGGTACATTAGACCATAACTTTTAGCCTCATTTCATCGAT
CAATGTTTAACTAATCAAATCTGGATTGGCTTCATTCTATTTTGTCCAAATTCGCTTCTACCAAA
ATTCAAATGGAAGGAATCTTAACTTCAAAAGGGTAAAATAACTCTATTTTTAAACCAATGAAAGA
GATGTTGCCCCGGTGTAGGTACTTATTAGGT
Found at i:19270941 original size:15 final size:14
Alignment explanation
Indices: 19270923--19270968 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
19270913 CATCTTGACT
19270923 TTTTTCTTTCTTTCC
1 TTTTTCTTTCTTT-C
19270938 TTTTTCTATTC-TTC
1 TTTTTCT-TTCTTTC
19270952 TTTTT-TTTCTTT-
1 TTTTTCTTTCTTTC
19270964 TTTTT
1 TTTTT
19270969 ATTGTTGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.28
13 3 0.10
14 6 0.21
15 9 0.31
16 3 0.10
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTTCTTTC
Found at i:19279480 original size:15 final size:15
Alignment explanation
Indices: 19279460--19279502 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
19279450 TCAGTCACAT
19279460 ATAAAAAAGAAGAGAG
1 ATAAAAAAGAA-AGAG
19279476 A-AAAAAAGAAAGAG
1 ATAAAAAAGAAAGAG
19279490 ATAAAGAAAGAAA
1 ATAAA-AAAGAAA
19279503 AGTTGATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.20
15 12 0.48
16 8 0.32
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (15 bp):
ATAAAAAAGAAAGAG
Found at i:19279488 original size:16 final size:16
Alignment explanation
Indices: 19279462--19279502 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
19279452 AGTCACATAT
19279462 AAAAAAG-AAGAGAGA
1 AAAAAAGAAAGAGAGA
*
19279477 AAAAAAGAAAGAGATA
1 AAAAAAGAAAGAGAGA
*
19279493 AAGAAAGAAA
1 AAAAAAGAAA
19279503 AGTTGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (16 bp):
AAAAAAGAAAGAGAGA
Found at i:19285950 original size:50 final size:50
Alignment explanation
Indices: 19285892--19286044 Score: 139
Period size: 50 Copynumber: 3.0 Consensus size: 50
19285882 AATCCGACCT
19285892 TGTAACTTCAAGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
1 TGTAACTTCAAGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
* * ** **** * * * * *
19285942 TGTAACTTCAAGGAGAAAAATATTTGCCAATGTTAGTTTTAATC-CGATCC-T
1 TGTAACTTCAAGGA-TATAGGATTTGGTGTTG-TAG-CTTCATCTTGCTCCAC
*
19285993 TGTAACTTCAAGGATTTAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
1 TGTAACTTCAAGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
19286043 TG
1 TG
19286045 CAACATCATG
Statistics
Matches: 71, Mismatches: 27, Indels: 10
0.66 0.25 0.09
Matches are distributed among these distances:
48 5 0.07
49 7 0.10
50 24 0.34
51 23 0.32
52 7 0.10
53 5 0.07
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (50 bp):
TGTAACTTCAAGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
Found at i:19286033 original size:101 final size:101
Alignment explanation
Indices: 19285723--19286218 Score: 627
Period size: 101 Copynumber: 5.0 Consensus size: 101
19285713 AATGTTATCA
* *
19285723 AGCTTCATCTTGCTTCACTGTAACTTCAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATTCGA
1 AGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATCCGA
*
19285788 TCCTTGCAACTTCAAGTATATAGGATTTGGTGTTGT
66 TCCTTGCAACTTCAAGGATATAGGATTTGGTGTTGT
* * ** *
19285824 AGCTTCATCTCGCACCACTGCGACTTCAGGGAGATAAAGATCTGCCAATGTTAGTTTTAATCCGA
1 AGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATCCGA
*
19285889 -CCTTGTAACTTCAAGGATATAGGATTTGGTGTTGT
66 TCCTTGCAACTTCAAGGATATAGGATTTGGTGTTGT
* * *
19285924 AGCTTCATCTTGCTCCACTGTAACTTCAAGGAGAAAAATATTTGCCAATGTTAGTTTTAATCCGA
1 AGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATCCGA
* *
19285989 TCCTTGTAACTTCAAGGATTTAGGATTTGGTGTTGT
66 TCCTTGCAACTTCAAGGATATAGGATTTGGTGTTGT
* * * * * * *
19286025 AGCTTCATCTTGCTCCACTGCAACATCATGGAGATAAATATTTG-CGA--CTA-CTTTAATCC-A
1 AGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATCCGA
* * *
19286085 CTTCAC-TACAACTT-AAGGAAGACAGGATTTGGTG-TG-
66 --TC-CTTGCAACTTCAAGG-ATATAGGATTTGGTGTTGT
* * *
19286121 -GCTTCATCTTGCTCTAGTGTAACTTCAGGGAGATAAAGATCTGCCAATGTTAGTTTTAATCCGA
1 AGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATCCGA
*
19286185 TCCTTGCAACTTCAAGGATATAGGATTTGTTGTT
66 TCCTTGCAACTTCAAGGATATAGGATTTGGTGTT
19286219 TCATTGATCC
Statistics
Matches: 338, Mismatches: 44, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
95 36 0.11
96 3 0.01
97 15 0.04
98 45 0.13
99 14 0.04
100 93 0.28
101 132 0.39
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (101 bp):
AGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATCCGA
TCCTTGCAACTTCAAGGATATAGGATTTGGTGTTGT
Found at i:19287144 original size:9 final size:9
Alignment explanation
Indices: 19287112--19287155 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
19287102 CCTCTCCTTT
*
19287112 TTCTTTTTCT
1 TTCTTTTT-A
*
19287122 TTCCTTTT-
1 TTCTTTTTA
19287130 TTCTTTTTA
1 TTCTTTTTA
19287139 TTCTTTTTA
1 TTCTTTTTA
19287148 TTCTTTTT
1 TTCTTTTT
19287156 CCTCTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 7 0.23
9 17 0.55
10 7 0.23
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (9 bp):
TTCTTTTTA
Found at i:19287161 original size:18 final size:17
Alignment explanation
Indices: 19287109--19287166 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
19287099 CGACCTCTCC
*
19287109 TTTTTCTTTTTCTTTCCT
1 TTTTTCTTTTTC-TTCTT
*
19287127 TTTTTCTTTTTATTCTT
1 TTTTTCTTTTTCTTCTT
*
19287144 TTTATTCTTTTTCCTCTT
1 TTT-TTCTTTTTCTTCTT
19287162 TTTTT
1 TTTTT
19287167 GGTGAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.26
18 26 0.74
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTCTTCTT
Found at i:19287910 original size:356 final size:357
Alignment explanation
Indices: 19287255--19287960 Score: 1153
Period size: 356 Copynumber: 2.0 Consensus size: 357
19287245 CCTTCCGAAA
* *
19287255 AAGGTTTTCTTTACCTAATGAGGTCATTCCTAATTTGAAATTCATTTCCTTCGAAAATCCTTTTT
1 AAGGTTTTCTTTACCTAATAAGGACATTCCTAATTTGAAATTCATTTCCTTCGAAAATCCTTTTT
* * * * **
19287320 GTACAAGGAAGATTTTTTCAAGACTAGATCTCTCGCTCATGGAGTTATCAAGGAAAGTCACTTTC
66 GTACAAGAAAGATCTTTTCAAAACCAGA-CTCTCGCTCATGGAGTTATCAAGGAAAGAAACTTTC
* *
19287385 TATCATAAGTCCACATCATTTGCTCTCGGTACATTAGACCATAGCTTTTAGCCTCCTTTCATCGA
130 TATCATAAGTCCACATCATTCGCTCTCGGTACATTAGACCATACCTTTTAGCCTCCTTTCATCGA
19287450 TCAATGTTTAACTAATCAAATCTGGATTGGCTTCGTTCTATTTTGTCCAAATTCGCTTCTACCAA
195 TCAATGTTTAACTAATCAAATCTGGATTGGCTTCGTTCTATTTTGTCCAAATTCGCTTCTACCAA
* *
19287515 AATTCAAATGGAAGGAATCTTGACTTCAAAAGGGTAAAATTGCCTCTGTTTTTAAACCAATGAAA
260 AATTCAAATGGAAGGAATCTTGACTTCAAAAGGGTAAAATTACCTCTATTTTTAAACCAATGAAA
*
19287580 GAGATGTTGCCCCGGTATAGGTACTTATTAGGT
325 GAGATGTTACCCCGGTATAGGTACTTATTAGGT
** *
19287613 AAGGTTTTCTTTACCTAATAAGGACATTCCTAATTTGGCATTCATTTCCTTTGAAAATCCTTTTT
1 AAGGTTTTCTTTACCTAATAAGGACATTCCTAATTTGAAATTCATTTCCTTCGAAAATCCTTTTT
* *
19287678 GTACAAGAAAGATCTTTTCAAAACCAGA-TCTCGCTCATGGAGTTCTCAAGGACAGAAACTTTCT
66 GTACAAGAAAGATCTTTTCAAAACCAGACTCTCGCTCATGGAGTTATCAAGGAAAGAAACTTTCT
* * *
19287742 GTCATAAGTCCACATCATTCGCTCTTGGTATATTAGACCATACCTTTTAGCCTCCTTTCATCGAT
131 ATCATAAGTCCACATCATTCGCTCTCGGTACATTAGACCATACCTTTTAGCCTCCTTTCATCGAT
* * * *
19287807 CAATGTTTAACTAATCCAATCTGGATTGGCTTTGTTCTGTTTTGTCCAAATTCGCTTCTACCGAA
196 CAATGTTTAACTAATCAAATCTGGATTGGCTTCGTTCTATTTTGTCCAAATTCGCTTCTACCAAA
*
19287872 ATTCAAATGGAAGGAATCTTGACTTCAAAAGGGTAAAATTACCTCTATTTTTAAACTAATGAAAG
261 ATTCAAATGGAAGGAATCTTGACTTCAAAAGGGTAAAATTACCTCTATTTTTAAACCAATGAAAG
*
19287937 AGATGTTACCCCGGTGTAGGTACT
326 AGATGTTACCCCGGTATAGGTACT
19287961 GATGGACGTT
Statistics
Matches: 321, Mismatches: 27, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
356 237 0.74
358 84 0.26
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (357 bp):
AAGGTTTTCTTTACCTAATAAGGACATTCCTAATTTGAAATTCATTTCCTTCGAAAATCCTTTTT
GTACAAGAAAGATCTTTTCAAAACCAGACTCTCGCTCATGGAGTTATCAAGGAAAGAAACTTTCT
ATCATAAGTCCACATCATTCGCTCTCGGTACATTAGACCATACCTTTTAGCCTCCTTTCATCGAT
CAATGTTTAACTAATCAAATCTGGATTGGCTTCGTTCTATTTTGTCCAAATTCGCTTCTACCAAA
ATTCAAATGGAAGGAATCTTGACTTCAAAAGGGTAAAATTACCTCTATTTTTAAACCAATGAAAG
AGATGTTACCCCGGTATAGGTACTTATTAGGT
Found at i:19288460 original size:15 final size:16
Alignment explanation
Indices: 19288425--19288465 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
19288415 TTCATCTTGA
19288425 CTTTTTTC-TTTCTTT
1 CTTTTTTCTTTTCTTT
*
19288440 CCTTTTTCTTTTC-TT
1 CTTTTTTCTTTTCTTT
19288455 CTTTTTT-TTTT
1 CTTTTTTCTTTT
19288466 GGTTTTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTTTCTTTTCTTT
Found at i:19296319 original size:16 final size:17
Alignment explanation
Indices: 19296298--19296342 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
19296288 TGTCATTACA
19296298 ATTTTATTGTCTCT-GC
1 ATTTTATTGTCTCTCGC
19296314 ATTTTACTTGT-TCTCGC
1 ATTTTA-TTGTCTCTCGC
19296331 ATTTTCATTGTC
1 ATTTT-ATTGTC
19296343 GTTGCGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 9 0.36
17 15 0.60
18 1 0.04
ACGTcount: A:0.13, C:0.20, G:0.11, T:0.56
Consensus pattern (17 bp):
ATTTTATTGTCTCTCGC
Found at i:19301918 original size:149 final size:147
Alignment explanation
Indices: 19301763--19302407 Score: 818
Period size: 149 Copynumber: 4.4 Consensus size: 147
19301753 TGATTAAAAC
* * *
19301763 AAAATCAGTACTTTACTTCAAAATCAAAACTTTTATTTCGAAATAGTTAAAAACAATCAAGACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAA-AATCAAAACTT
* * * * *
19301828 TGTCTAAAAATTTAAACTTTTTTCTTTAAAATCATTAAAAACATATTTTTATTTTCTAAAAATCT
65 TATTTAAAAATTTAAAC-TTTTTCTTTAAAATAACTAAAAACATATTTTTATTTT-TAAAAATAT
19301893 AAACTTTCT-TTTTTTAATG
128 AAACTTTCTCTTTTTTAATG
*
19301912 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTT-AAAAAATCAAAACTTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
*
19301976 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTATAAAACATATTTTTATTTTTAAAAATATAG
66 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTA-AAAACATATTTTTATTTTTAAAAATATAA
*
19302041 ACTTTATTTCTTTTTTAATG
130 AC-TT-TCTCTTTTTTAATG
* * *
19302061 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTAGAAATAGTTAAAAAAATCAAAACTTC
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
* * ** *
19302126 ATTTAAAAAATTAAACTTTTTCTTTAAAATAACTAAAAAAATAGATTT-TTTTT--AAATATAAT
66 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAACATATTTTTATTTTTAAAAATATAAA
* *
19302188 TTTTTTCCTTTTTTAATG
131 CTTTCT-CTTTTTTAATG
* * * *
19302206 AAAATCATTACTTT-CTTAAAAATCTAAACTTTTATTTTGAAATAGTTAAAAAAATCAAAAGTTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
* *
19302270 GTTTAAAAATTTAAAC-TTTTC--TAAAA-AAC----AA-AT-TTTTATTTTTTTAAAAATATAA
66 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAACATATTTT-TATTTTTAAAAATATAA
*
19302325 ACTTTCTCTTTTTTAAAG
130 ACTTTCTCTTTTTTAATG
* * * *
19302343 AAAATCACTATTTTACTTAAAAATCAAAGCTTTTATTTCGAAATTGTTTAAAAAATCAAAACTTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
19302408 TCCCAAATCA
Statistics
Matches: 443, Mismatches: 42, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
134 2 0.00
135 3 0.01
136 7 0.02
137 22 0.05
138 56 0.13
140 3 0.01
141 5 0.01
143 5 0.01
144 63 0.14
145 26 0.06
146 35 0.08
147 45 0.10
148 11 0.02
149 111 0.25
150 49 0.11
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (147 bp):
AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAACATATTTTTATTTTTAAAAATATAAA
CTTTCTCTTTTTTAATG
Found at i:19301982 original size:50 final size:50
Alignment explanation
Indices: 19301912--19302145 Score: 149
Period size: 50 Copynumber: 4.7 Consensus size: 50
19301902 TTTTTTAATG
** *
19301912 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAA
1 AAAATCAAAACTTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAA
* ** ** *
19301962 AAAATCAAAACTTTATTTAAAAATTTAAACTTTT-TCTTTAAAATAACTAT
1 AAAATCAAAACTTTATTTAAAAATCTAAACTTTTAT-TTCGAAATAGTTAA
* ** * * * **
19302012 AAAA-CATATTTTTATTTTTAAAAATATAGAC-TTTATTTC---TTTTTTAA
1 AAAATCAAAACTTTA--TTTAAAAATCTAAACTTTTATTTCGAAATAGTTAA
** * * *
19302059 TGAAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTAGAAATAGTTAAA
1 --AAAATCAAAACTTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTT-AA
*
19302112 AAAATCAAAACTTCATTTAAAAAAT-TAAACTTTT
1 AAAATCAAAACTTTATTT-AAAAATCTAAACTTTT
19302146 TCTTTAAAAT
Statistics
Matches: 134, Mismatches: 37, Indels: 25
0.68 0.19 0.13
Matches are distributed among these distances:
47 3 0.02
48 11 0.08
49 19 0.14
50 54 0.40
51 36 0.27
52 9 0.07
53 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.41
Consensus pattern (50 bp):
AAAATCAAAACTTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAA
Found at i:19303607 original size:75 final size:73
Alignment explanation
Indices: 19303499--19303648 Score: 246
Period size: 75 Copynumber: 2.0 Consensus size: 73
19303489 TGGAGGGATA
* * *
19303499 CAATGTTTCATTCAAGAGTTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGTTG
1 CAATGTTTCATTAAAGAGTTTTAAATGAATCAACACATTCATTTATGAATGATGAATAATGGCTG
19303564 TTCACATT
66 TTCACATT
19303572 CAATGTTTCATTAAAGAGTTTTTTAAATGAATCAACACATTCATTTATGAATGATGAATAATGGC
1 CAATGTTTCATTAAAGAG--TTTTAAATGAATCAACACATTCATTTATGAATGATGAATAATGGC
*
19303637 TGTTCACTTT
64 TGTTCACATT
19303647 CA
1 CA
19303649 TTTTGTAAAG
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
73 17 0.24
75 54 0.76
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.39
Consensus pattern (73 bp):
CAATGTTTCATTAAAGAGTTTTAAATGAATCAACACATTCATTTATGAATGATGAATAATGGCTG
TTCACATT
Found at i:19304201 original size:5 final size:5
Alignment explanation
Indices: 19304191--19304226 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
19304181 AGCTATTTGG
19304191 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA A
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA A
19304227 TTAAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:19306520 original size:10 final size:10
Alignment explanation
Indices: 19306501--19306538 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
19306491 ATTGTCTCCC
*
19306501 TTTTGCAGGA
1 TTTTGAAGGA
19306511 TTTTGAAGGA
1 TTTTGAAGGA
19306521 TTTT-AAGGAA
1 TTTTGAAGG-A
19306531 TTTTGAAG
1 TTTTGAAG
19306539 ATGTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 4 0.16
10 18 0.72
11 3 0.12
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (10 bp):
TTTTGAAGGA
Found at i:19309874 original size:75 final size:73
Alignment explanation
Indices: 19309774--19309919 Score: 247
Period size: 75 Copynumber: 2.0 Consensus size: 73
19309764 GGGATACAAG
19309774 GTTTCATTCAAGAGTTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGCTGTTCA
1 GTTTCATTCAAGAGTTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGCTGTTCA
19309839 CATTCAAT
66 CATTCAAT
* *
19309847 GTTTCATTCACGAGTTTTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGTTGTT
1 GTTTCATTCAAGAG--TTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGCTGTT
*
19309912 CACTTTCA
64 CACATTCA
19309920 TTTTGTAAAG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 13 0.19
75 55 0.81
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (73 bp):
GTTTCATTCAAGAGTTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGCTGTTCA
CATTCAAT
Done.