Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 18 of 344
Found at i:6390186 original size:60 final size:59
Alignment explanation
Indices: 6390057--6390193 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
6390047 CTATGATTTT
* * * * *
6390057 TTTCCTTTTCGGTCACTCAACTATGAAAAGTTACAAAATGGCCATCCAGCTATTAGTAAA
1 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTA-CAAA
* *
6390117 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGTCA-CTCAACTATT-CAAT
1 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGCCATC-CAACTATTACAAA
6390175 TTTCTCTTTTTTGGTCACC
1 TTTC-C-TTTTTGGTCACC
6390194 TTACTATTGA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
58 6 0.09
59 2 0.03
60 59 0.88
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (59 bp):
TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTACAAA
Found at i:6396847 original size:46 final size:49
Alignment explanation
Indices: 6396797--6396955 Score: 121
Period size: 51 Copynumber: 3.2 Consensus size: 49
6396787 TAGCTTTGCC
*
6396797 ATGGTCTTACACGGATCACA-TA-ACAT-ACCGATACCATATCCCAGAT
1 ATGGTCTTACACGGATCACATTACACATCACCGATACCATAGCCCAGAT
* * * *
6396843 ATGGTCTTATATGGAATCACATTATCACATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTACACGG-ATCACATTA-CACAT--CACCGATACCATAGCCCAGAT
* * * * *
6396896 ATGGTCTTACAGGGATCTCGAAT-CACATTGTACCGATGCCATAGCCCA-ACT
1 ATGGTCTTACACGGATCAC-ATTACACA-T-CACCGATACCATAGCCCAGA-T
6396947 ATGGTCTTA
1 ATGGTCTTA
6396956 TATGGAAGTA
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
46 12 0.13
47 6 0.07
48 2 0.02
50 4 0.04
51 31 0.34
52 5 0.05
53 31 0.34
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
ATGGTCTTACACGGATCACATTACACATCACCGATACCATAGCCCAGAT
Found at i:6396893 original size:53 final size:52
Alignment explanation
Indices: 6396823--6396962 Score: 151
Period size: 51 Copynumber: 2.7 Consensus size: 52
6396813 CACATAACAT
* *
6396823 ACCGATACCATATCCCAGATATGGTCTTATATGGAATCAC-ATTATCACATCAC
1 ACCGATGCCATAGCCCAGATATGGTCTTATATGGAATCACGA--ATCACATCAC
* * * * ***
6396876 ACCGATGCCATAGCCCAGCTATGGTCTTACA-GGGATCTCGAATCACATTGT
1 ACCGATGCCATAGCCCAGATATGGTCTTATATGGAATCACGAATCACATCAC
6396927 ACCGATGCCATAGCCCA-ACTATGGTCTTATATGGAA
1 ACCGATGCCATAGCCCAGA-TATGGTCTTATATGGAA
6396963 GTACATAACA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
51 35 0.49
52 9 0.12
53 28 0.39
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAGATATGGTCTTATATGGAATCACGAATCACATCAC
Found at i:6405480 original size:52 final size:52
Alignment explanation
Indices: 6405318--6405483 Score: 185
Period size: 52 Copynumber: 3.2 Consensus size: 52
6405308 TCTTGCACGG
* * *
6405318 ATCACATAACGTACCGAT-CCAAATCCCAGATATGGTCTTATACGGAATCACATT
1 ATCACAT--CGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-T
** * * *
6405372 ATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATATGGGATCTCGA-
1 ATCACATCGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-AT
*
6405424 ATCACATTGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGT-ACAT
1 ATCACATCGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA-TCACAT
6405476 ATCACATC
1 ATCACATC
6405484 TTTTTCGTCA
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
51 1 0.01
52 56 0.60
53 28 0.30
54 8 0.09
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
ATCACATCGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAT
Found at i:6408687 original size:25 final size:25
Alignment explanation
Indices: 6408659--6408710 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6408649 TAATAGTTAG
*
6408659 TTCAAGAATGAGTAATTATAAATAT
1 TTCAAGAACGAGTAATTATAAATAT
6408684 TTCAAGAACGAGTAATTATAAATAT
1 TTCAAGAACGAGTAATTATAAATAT
6408709 TT
1 TT
6408711 AAAACCTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (25 bp):
TTCAAGAACGAGTAATTATAAATAT
Found at i:6410479 original size:54 final size:54
Alignment explanation
Indices: 6410397--6410506 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
6410387 AACGGTGAAT
6410397 GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCACTTA
1 GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCACTTA
*
6410451 GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCGCTTA
1 GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCACTTA
6410505 GA
1 GA
6410507 TAAACAATTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.18
Consensus pattern (54 bp):
GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCACTTA
Found at i:6415825 original size:27 final size:27
Alignment explanation
Indices: 6415794--6415847 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6415784 AAAGTATTGT
6415794 TAGATGAAAAAGACCCTAGAATTGCTA
1 TAGATGAAAAAGACCCTAGAATTGCTA
*
6415821 TAGATGAAAAGGACCCTAGAATTGCTA
1 TAGATGAAAAAGACCCTAGAATTGCTA
6415848 CTTCAGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGATGAAAAAGACCCTAGAATTGCTA
Found at i:6419049 original size:14 final size:15
Alignment explanation
Indices: 6419030--6419059 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6419020 ATATTTAATT
6419030 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
6419044 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
6419059 T
1 T
6419060 TTTGATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:6428406 original size:30 final size:29
Alignment explanation
Indices: 6428366--6428429 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
6428356 TGATGGTGAA
6428366 TTTTTTGACCCAACACTCACTTGGCGAAT
1 TTTTTTGACCCAACACTCACTTGGCGAAT
*
6428395 TTTTATTGACCCAACACTCACTTGGTGAAT
1 TTTT-TTGACCCAACACTCACTTGGCGAAT
6428425 TTTTT
1 TTTTT
6428430 GGAATTTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (29 bp):
TTTTTTGACCCAACACTCACTTGGCGAAT
Found at i:6434811 original size:14 final size:14
Alignment explanation
Indices: 6434792--6434839 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
6434782 GTCGATTTTT
* *
6434792 TTGAAAGGCAAAAA
1 TTGAAAAGCAGAAA
*
6434806 TTGAAAAACAGAAA
1 TTGAAAAGCAGAAA
6434820 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
6434834 TTGAAA
1 TTGAAA
6434840 TTAACTCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.58, C:0.06, G:0.19, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:6434941 original size:74 final size:73
Alignment explanation
Indices: 6434824--6435045 Score: 284
Period size: 74 Copynumber: 3.0 Consensus size: 73
6434814 CAGAAATTGA
* * * * *
6434824 AAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTG
1 AAAGCAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
6434889 ATTTTTTG
66 ATTTTTTG
* * * **
6434897 AAAGGCAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATATCTCGCAATATGAGTT
1 AAA-GCAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6434962 GATTTTTTTTT
65 GA--TTTTTTG
*
6434973 ACAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6435037 GAATTTTTT
65 G-ATTTTTT
6435046 TTGAAAAATA
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
73 3 0.02
74 59 0.46
75 55 0.43
76 8 0.06
77 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (73 bp):
AAAGCAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:6435013 original size:75 final size:74
Alignment explanation
Indices: 6434824--6435284 Score: 283
Period size: 74 Copynumber: 6.0 Consensus size: 74
6434814 CAGAAATTGA
* * * *
6434824 AAAGCAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAGCAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6434888 GA-TTTTTTG
65 GATTTTTTTT
* * * * **
6434897 AAAGGCAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATATCTCGCAATATGAGTT
1 AAA-GCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6434962 GATTTTTTTTT
65 GA-TTTTTTTT
6434973 ACAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6435037 GAATTTTTTTT
65 G-ATTTTTTTT
** * * ** *** * * * * * *
6435048 GAAAAATATAAATTGAAA--AGCAGAAATTGAAATTACCTAAACCTGCCTTGAGCTCAACTCAC-
1 --AAAGCAGAAATTGAAATTACCTCAGCGTG----T-CCT-GA---GGC-TCAACTCACCTCTCG
* *
6435110 C--TCTCGCAATATGAGTTGATTTTTT
54 CAATAT-G-AGT-TGA-TT--TTTTTT
* * * * * **
6435135 GAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 -AAAG-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
6435200 TGATTTTTTTG
64 TGATTTTTTTT
*
6435211 ACAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6435275 GAATTTTTTT
65 GATTTTTTTT
6435285 GAAAAATATA
Statistics
Matches: 293, Mismatches: 63, Indels: 63
0.70 0.15 0.15
Matches are distributed among these distances:
73 3 0.01
74 111 0.38
75 70 0.24
76 17 0.06
77 13 0.04
78 2 0.01
79 13 0.04
80 8 0.03
81 2 0.01
82 4 0.01
83 2 0.01
84 8 0.03
85 15 0.05
86 3 0.01
87 17 0.06
89 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (74 bp):
AAAGCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTT
Found at i:6435200 original size:74 final size:74
Alignment explanation
Indices: 6435071--6436643 Score: 650
Period size: 75 Copynumber: 20.1 Consensus size: 74
6435061 TGAAAAGCAG
* * * * *
6435071 AAATTGAAATTACCTAAACCTGCCTTGA-GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
6435134 TGAAAGATAA
66 TGAAA-ATAA
**
6435144 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
6435209 TGACAACAG
66 TGAAAATAA
* * * *
6435218 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
*
6435283 TTGAAAAATAT
65 TTG-AAAATAA
* * ** * * * * * *
6435294 AAATTG-AAA-A--GCAGAAATTGAAATT-A-CCTCAACGTGCCTTGAGGCTCAACTCACCTCTC
1 AAATTGAAAATACCTCAG-CA-TG-TCTTGAGGCTCAAC-T--C---A-CCTC-TCGCA-ATAT-
* * *
6435353 GCAATATGAGTTGATTTTTGACAAACAG
53 G-AGT-TGA-TT--TTTTTGA-AAATAA
* * * * ** *
6435381 AAATTCAAATTACCTCAGCTTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGA--TTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
6435444 TGAAAA-AT
66 TGAAAATAA
* * ** * ** * * * * * * *
6435452 AGATTGAAACACAAAAAT-TGACACTACCTCAGCGTGCCCCGAGGCTCAACTCAC-C--TCTCGT
1 AAATTG-AA-A-ATACCTCAG-CA-TGTCT-TGAG-G-CTC-A-ACTCACCTCTCGCAATAT-G-
*
6435513 AATATGAGTTGATTTTTGAAAA-ACA
54 AGT-TGA-TT--TTTTTGAAAATA-A
* *
6435538 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 -AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
***
6435603 GAAAAACATAAATTGAACA
65 ----TTGA-AAA-T--A-A
* * * **
6435622 GAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 -AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TT
*
6435687 TTTTTGAAAGACAA
62 TTTTTGAAA-ATAA
**
6435701 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
6435766 TGAAAGACAA
66 TGAAA-ATAA
**
6435776 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
6435841 T-ACAACAG
66 TGAAAATAA
* * * *
6435849 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTGTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
*
6435914 TTGAAAAATAT
65 TTG-AAAATAA
* ** * * ** * * * *
6435925 AAATTGAAAAGCAAAAAT-TGAAAT-TACCTCAACGTGCCTCGAGGCTCAACTCAC-C--TCTCG
1 AAATTG-AAA--ATACCTCAG-CATGT--CTTGA-G-G-CTC-A-ACTCACCTCTCGCAATAT-G
* * *
6435985 CAATATGAGTTGATTTTTGACAAACAG
54 -AGT-TGA-TT--TTTTTGA-AAATAA
* * *
6436012 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
***
6436077 AAAAACATAAATTGAACA
65 ---TTGA-AAA-T--A-A
* * * **
6436095 GAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 -AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
*
6436160 TTTTGAAAGACAA
63 TTTTGAAA-ATAA
**
6436173 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
6436238 TGAAAGACAA
66 TGAAA-ATAA
* **
6436248 AAATTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* * * *
6436313 TTTACAACAG
65 TTGAAAATAA
* * * *
6436323 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTGTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
*
6436388 TTGAAAAATAT
65 TTG-AAAATAA
* ** * * ** * * * *
6436399 AAATTGGAAAGCAAAAAT-TGAAAT-TACCTCAACGTGCCTCGAGGCTCAACTCAC-C--TCTCG
1 AAATT-GAAA--ATACCTCAG-CATGT--CTTGA-G-G-CTC-A-ACTCACCTCTCGCAATAT-G
* * *
6436459 CAATATGAGTTGATTTTTGACAAACAG
54 -AGT-TGA-TT--TTTTTGA-AAATAA
* * * ** *
6436486 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGA--TTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
6436549 TGAAAA-ACA
66 TGAAAATA-A
* * *
6436558 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 -AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
6436623 TTGAAAAATAT
65 TTG-AAAATAA
*
6436634 AAATTTAAAA
1 AAATTGAAAA
6436644 GCAGAAATTA
Statistics
Matches: 1137, Mismatches: 227, Indels: 270
0.70 0.14 0.17
Matches are distributed among these distances:
71 6 0.01
72 11 0.01
73 155 0.14
74 100 0.09
75 261 0.23
76 46 0.04
77 71 0.06
78 99 0.09
79 29 0.03
80 33 0.03
81 18 0.02
82 19 0.02
83 19 0.02
84 136 0.12
85 43 0.04
86 17 0.01
87 57 0.05
88 3 0.00
89 5 0.00
90 6 0.01
91 3 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (74 bp):
AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAATAA
Found at i:6435391 original size:73 final size:73
Alignment explanation
Indices: 6435297--6435449 Score: 220
Period size: 73 Copynumber: 2.1 Consensus size: 73
6435287 AAAATATAAA
*
6435297 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCAGAAATTCAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
6435361 AGTTGATTT
65 AGTTGATTT
* * ** *
6435370 TTGACAAA-CAGAAATTCAAATTACCTCAGCTTGTCCTGAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAAGCAGAAATTCAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
6435434 AGTTGATTT
65 AGTTGATTT
6435443 TTGAAAA
1 TTGAAAA
6435450 ATAGATTGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
72 3 0.04
73 64 0.89
74 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (73 bp):
TTGAAAAGCAGAAATTCAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:6435971 original size:163 final size:161
Alignment explanation
Indices: 6435133--6436567 Score: 1696
Period size: 163 Copynumber: 9.0 Consensus size: 161
6435123 AGTTGATTTT
* * *
6435133 TTGAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAG-CAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
6435198 GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTC
65 GTTGATTTTTTT-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
6435263 GCAATATGAGTTGAATTTTTTTGAAAAATATAAA
129 GCAATATGAGTTG-ATTTTTTTGAAAAACATAAA
* * * **
6435297 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTG-AAAGCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* * * **
6435362 GTTGA-TTTTTGACAAACAGAAATTCAAATTACCTCAGCTTGTCCTGAGGCTCAACTCATTTCTC
65 GTTGATTTTTTTAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* *
6435426 GTAATATGAGTTGA--TTTTTG-AAAA-ATAGA
129 GCAATATGAGTTGATTTTTTTGAAAAACATAAA
* * * * * ** ** *
6435455 TTGAAACACAAAAATTGACACTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGA
1 TTGAAA-GCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
** * *
6435520 GTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
65 GTTGATTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
6435585 CAATATGAGTTGA--TTTTTGAAAAACATAAA
130 CAATATGAGTTGATTTTTTTGAAAAACATAAA
* *
6435615 TTG-AA-CAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAGCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* * * * * **
6435678 TTGATTTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTT
66 TTGA---TTTTTTT-ACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
6435743 CTCGCAATATGAGTTGATTTTTTTG--------AAA
126 CTCGCAATATGAGTTGATTTTTTTGAAAAACATAAA
* *
6435771 --G--A-CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAGCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
6435831 TTGATTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTGTCGC
66 TTGATTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
*
6435896 AATATGAGTTGAATTTTTTTGAAAAATATAAA
131 AATATGAGTTG-ATTTTTTTGAAAAACATAAA
* * * **
6435928 TTGAAAAGCAAAAATTGAAATTACCTCAACGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTG-AAAGCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
6435993 GTTGA-TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
65 GTTGATTTTTTTAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
6436057 GCAATATGAGTTGA--TTTTTGAAAAACATAAA
129 GCAATATGAGTTGATTTTTTTGAAAAACATAAA
* *
6436088 TTG-AA-CAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAGCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* * * * * **
6436151 TTGATTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTC
66 TTGA--TTTTTTT-ACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
6436216 TCGCAATATGAGTTGATTTTTTTG--------AAA
127 TCGCAATATGAGTTGATTTTTTTGAAAAACATAAA
* * *
6436243 --G--A-CAAAAATTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAGCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
6436303 TTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTGTC
66 TTGA--TTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
6436368 GCAATATGAGTTGAATTTTTTTGAAAAATATAAA
129 GCAATATGAGTTG-ATTTTTTTGAAAAACATAAA
* * * **
6436402 TTGGAAAGCAAAAATTGAAATTACCTCAACGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGA
1 TT-GAAAGCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* **
6436467 GTTGA-TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTC
65 GTTGATTTTTTTAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* *
6436531 GTAATATGAGTTGA--TTTTTGAAAAACAGAAA
129 GCAATATGAGTTGATTTTTTTGAAAAACATAAA
6436562 TTGAAA
1 TTGAAA
6436568 ATACCTCAGC
Statistics
Matches: 1105, Mismatches: 114, Indels: 109
0.83 0.09 0.08
Matches are distributed among these distances:
148 55 0.05
149 11 0.01
150 62 0.06
151 11 0.01
152 67 0.06
153 60 0.05
154 1 0.00
155 3 0.00
156 3 0.00
157 115 0.10
158 128 0.12
159 23 0.02
160 60 0.05
161 61 0.06
162 79 0.07
163 244 0.22
164 64 0.06
165 58 0.05
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (161 bp):
TTGAAAGCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGATTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTTTGAAAAACATAAA
Found at i:6436477 original size:474 final size:465
Alignment explanation
Indices: 6435060--6436789 Score: 2239
Period size: 474 Copynumber: 3.7 Consensus size: 465
6435050 AAAATATAAA
* * *
6435060 TTGA-AAAGCAGAAATTGAAATTACCTAAACCTG-CCTTGA-GCTCAACTCACCTCTCGCAATAT
1 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATAT
* * *
6435122 GAGTTGATTTTTTGAAAGAT-A-A-AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCAT
64 GAGTTGA-TTTTTGAAAAATAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAT
* * * * *
6435184 TTCTCGCAATATGAGTTGA---TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGA
128 TTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGTCTTGA
* *
6435246 GGCTCAACTCGCCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAA
193 GGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG--------AAA--G---AGCAAAAA
* * * *
6435311 TTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAC
244 TTGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAC
* * ** * *
6435375 AAACAGAAATTCAAATTACCTCAGCTTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTG-
309 -AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTGTCGCAATATGAGTTGA
* * * * * *
6435439 A--TTTTTG-AAAA-ATAGATT-GAAACACAAAAATTGACACTACCTCAGCGTGCCCCGAGGCTC
373 ATTTTTTTGAAAAATATAAATTGGAAA-GCAAAAATTGAAATTACCTCAACGTGCCTCGAGGCTC
*
6435499 AACTCACCTCTCGTAATATGAGTTGATTT
437 AACTCACCTCTCGCAATATGAGTTGATTT
* *
6435528 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
6435593 GTTGATTTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAA
66 GTTGATTTTTG----A-A-AAA-T-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
6435658 CTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATG
123 CTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAA-ACAAAAATTGAAAATACCTCAGCATG
**
6435723 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGA-CAAAAATTGAAAAT
187 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGAGCAAAAATTGAAAAT
* **
6435787 ACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTACAACAGAAA
252 ACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACAACAGAAA
6435852 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTGTCGCAATATGAGTTGAATTTTTTTG
317 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTGTCGCAATATGAGTTGAATTTTTTTG
*
6435917 AAAAATATAAATTGAAAAGCAAAAATTGAAATTACCTCAACGTGCCTCGAGGCTCAACTCACCTC
382 AAAAATATAAATTGGAAAGCAAAAATTGAAATTACCTCAACGTGCCTCGAGGCTCAACTCACCTC
6435982 TCGCAATATGAGTTGATTT
447 TCGCAATATGAGTTGATTT
6436001 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
6436066 GTTGATTTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAA
66 GTTGATTTTTG----A-A-AAA-T-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
6436131 CTCATTTCTCGCAATATGAGTTGA-TTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATG
123 CTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAA-ACAAAAATTGAAAATACCTCAGCATG
**
6436195 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGA-CAAAAATTGAAAAT
187 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGAGCAAAAATTGAAAAT
* * **
6436259 ACCTCAGCATGTCTTGAAGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGA
252 ACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTACAACAGA
6436324 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTGTCGCAATATGAGTTGAATTTTTT
315 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTGTCGCAATATGAGTTGAATTTTTT
6436389 TGAAAAATATAAATTGGAAAGCAAAAATTGAAATTACCTCAACGTGCCTCGAGGCTCAACTCACC
380 TGAAAAATATAAATTGGAAAGCAAAAATTGAAATTACCTCAACGTGCCTCGAGGCTCAACTCACC
6436454 TCTCGCAATATGAGTTGATTT
445 TCTCGCAATATGAGTTGATTT
** *
6436475 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * **
6436540 GTTGATTTTTG--AAA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
66 GTTGATTTTTGAAAAATAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
* * *
6436602 TCGCAATATGAGTTGAATTTTTTGAAAAATATAAATTTAAAAGCAGAAATT-AAAATTACCTCAA
131 TCGCAATATGAGTTG-ATTTTTT------T-T---TTGAAAA-CAAAAATTGAAAA-TACCTCAG
* * * * * *
6436666 CGTGCCTTGAGGCTCAACTTACCCCTCGCAGTATGAGTTGATTGTTTTTGAAA-AGCAGAAATTG
183 CATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTTGAAAGAGCAAAAATTG
**
6436730 AAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
247 AAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
6436790 GAAATAGAAA
Statistics
Matches: 1152, Mismatches: 67, Indels: 80
0.89 0.05 0.06
Matches are distributed among these distances:
463 58 0.05
464 1 0.00
465 5 0.00
466 3 0.00
468 146 0.13
469 44 0.04
471 7 0.01
472 158 0.14
473 219 0.19
474 258 0.22
475 57 0.05
476 64 0.06
477 1 0.00
478 1 0.00
479 56 0.05
482 19 0.02
483 55 0.05
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (465 bp):
TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAATAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
TCGCAATATGAGTTGATTTTTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGAGCAAAAATTGAAAATACCTCAACA
TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACAACAGAAATTGAAATTA
CCTCAGCGTGTCCTGAGGCTCAACTCACCTGTCGCAATATGAGTTGAATTTTTTTGAAAAATATA
AATTGGAAAGCAAAAATTGAAATTACCTCAACGTGCCTCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTT
Found at i:6436770 original size:76 final size:75
Alignment explanation
Indices: 6436640--6436793 Score: 238
Period size: 76 Copynumber: 2.0 Consensus size: 75
6436630 ATATAAATTT
* *
6436640 AAAAGCAGAAATTAAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCCCTCGCAGTATGAGTT
1 AAAAGCAGAAATTAAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCCCTCGCAATATGAGTT
6436705 GATTGTTTTTG
66 GATT-TTTTTG
* * *
6436716 AAAAGCAGAAATTGAAAA-TACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAGCAGAAATT-AAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCCCTCGCAATATGAGT
6436780 TGATTTTTTTG
65 TGATTTTTTTG
6436791 AAA
1 AAA
6436794 TAGAAATAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
75 9 0.12
76 59 0.82
77 4 0.06
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (75 bp):
AAAAGCAGAAATTAAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCCCTCGCAATATGAGTT
GATTTTTTTG
Found at i:6452118 original size:16 final size:16
Alignment explanation
Indices: 6452097--6452136 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
6452087 CTCCCTAAAT
6452097 ACCTAAGAGAGATGAA
1 ACCTAAGAGAGATGAA
6452113 ACCTAAGAGAGATGAA
1 ACCTAAGAGAGATGAA
6452129 ACCTAAGA
1 ACCTAAGA
6452137 CGAATGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.23, T:0.12
Consensus pattern (16 bp):
ACCTAAGAGAGATGAA
Found at i:6454328 original size:8 final size:8
Alignment explanation
Indices: 6454315--6454345 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
6454305 TTGTTTTAAT
6454315 TATAATAA
1 TATAATAA
6454323 TATAATAA
1 TATAATAA
6454331 TATAATAA
1 TATAATAA
6454339 TA-AATAA
1 TATAATAA
6454346 ATGTATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TATAATAA
Found at i:6454473 original size:15 final size:15
Alignment explanation
Indices: 6454453--6454483 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6454443 CACTTTTCTC
6454453 TAATCTATAATTCAA
1 TAATCTATAATTCAA
6454468 TAATCTATAATTCAA
1 TAATCTATAATTCAA
6454483 T
1 T
6454484 TTTTACTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATCTATAATTCAA
Found at i:6462660 original size:35 final size:35
Alignment explanation
Indices: 6462608--6462770 Score: 220
Period size: 35 Copynumber: 4.7 Consensus size: 35
6462598 TTTCCTCATT
* *
6462608 GAATTGCCATACCTACATTTCACAACTCAGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
* * * *
6462643 GAAATACCATACCTACATTTCACAACTTGGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
*
6462678 GAATTGCCACACCTA-GTTTCACAACTCGGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
* * **
6462712 GAATTGCCACACTTGTGTTTCACAACTCGGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
6462747 GAATTGCCATACCTACGTTTCACA
1 GAATTGCCATACCTACGTTTCACA
6462771 CTTTTCCATG
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
34 30 0.27
35 82 0.73
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (35 bp):
GAATTGCCATACCTACGTTTCACAACTCGGTATGG
Found at i:6462733 original size:69 final size:70
Alignment explanation
Indices: 6462608--6462770 Score: 220
Period size: 69 Copynumber: 2.3 Consensus size: 70
6462598 TTTCCTCATT
* * *
6462608 GAATTGCCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACTTGG
1 GAATTGCCATACCTACGTTTCACAACTCAGTATGGGAAATACCACACCTACATTTCACAACTCGG
6462673 TATGG
66 TATGG
* * * * * ***
6462678 GAATTGCCACACCTA-GTTTCACAACTCGGTATGGGAATTGCCACACTTGTGTTTCACAACTCGG
1 GAATTGCCATACCTACGTTTCACAACTCAGTATGGGAAATACCACACCTACATTTCACAACTCGG
6462742 TATGG
66 TATGG
6462747 GAATTGCCATACCTACGTTTCACA
1 GAATTGCCATACCTACGTTTCACA
6462771 CTTTTCCATG
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 58 0.73
70 22 0.28
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (70 bp):
GAATTGCCATACCTACGTTTCACAACTCAGTATGGGAAATACCACACCTACATTTCACAACTCGG
TATGG
Found at i:6463696 original size:21 final size:21
Alignment explanation
Indices: 6463672--6463713 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6463662 CTTCAAATAC
6463672 ATGTTAAT-TCAGCATAAAAAA
1 ATGTT-ATCTCAGCATAAAAAA
*
6463693 ATGTTATCTCATCATAAAAAA
1 ATGTTATCTCAGCATAAAAAA
6463714 CCAACACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (21 bp):
ATGTTATCTCAGCATAAAAAA
Found at i:6465504 original size:433 final size:433
Alignment explanation
Indices: 6464693--6465555 Score: 1232
Period size: 433 Copynumber: 2.0 Consensus size: 433
6464683 TAATCGGAAC
* * * *
6464693 GAATTAGATAATAGTGTCTGGTCACCCATTAGGGTTGAACCTACATAACAAATAGCCTGGCCAGG
1 GAATCAGATAATAGTGTCTGGTCACCCATTAGGGTTGAACCTACACAACAAATAGCCTGGCAAAG
* * * * * *
6464758 GCTTAATAAACCTATATTGTCGAGTCTACAACATATGTTGGAGCTCGAAACATGTGGGCAATAAT
66 GCTTAATAAACCTATATTCTCGAGTCTACAACACATGCTGAAGCTCGAAACATGCGGGCAATAAC
* *
6464823 CTGTAACCTCGTATACAAGACTTTTACTAATTTCGTCAGGATTTATCTCACATTATAACATAATT
131 CCGTAACCTCGTATACAAGACTTTTACTAATTTCATCAGGATTTATCTCACATTATAACATAATT
6464888 CCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATTAT
196 CCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATTAT
* ** * *
6464953 ATTGTATGAGTTTACATGAAAAAACTGTAGCCGTTTAGCTAATAAGGAATAGTCGACAATTTTTC
261 ACTGTATGAACTTACATGAAAAAACTATAGCCGTTTAACTAATAAGGAATAGTCGACAATTTTTC
* * ** *
6465018 CTTTTCCTCATACATCATTTTATTGTTGAAATTCTTAATCTAAATCATAATTTGTCTCAATTAAC
326 CTTTTCCTCATACATCATCTGATAATTAAAATTCTTAATCTAAATCATAATTTGTCTCAATTAAC
6465083 TAATCCAATTATCATTTAACAACATATAGAAATCATACTACAT
391 TAATCCAATTATCATTTAACAACATATAGAAATCATACTACAT
* * * *
6465126 GAATCAGATAATAGTGTCTGGTTATCCGTTAGGGTTGAACCTACACAACAAATAGCTTGGCAAAG
1 GAATCAGATAATAGTGTCTGGTCACCCATTAGGGTTGAACCTACACAACAAATAGCCTGGCAAAG
* * *
6465191 GCTTAATAAACCTGTATTC-CTGAGT-TCACAACACATGCTGAAGCTCGGAACTTGCGGGCAATA
66 GCTTAATAAACCTATATTCTC-GAGTCT-ACAACACATGCTGAAGCTCGAAACATGCGGGCAATA
* * *
6465254 GCCCGTAACCTTGTATACAAGACTTTTACTAATTTCATCGGGATTTATCTCACATTATAACATAA
129 ACCCGTAACCTCGTATACAAGACTTTTACTAATTTCATCAGGATTTATCTCACATTATAACATAA
* *
6465319 TTCTAATCACCAACAATCATCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATT
194 TTCCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATT
* * * * * *
6465384 ATACTGTATGAACTTACTTGACAAAA-TCATAGCGGTTTAACTAAT-AGTAACTAGTTGGCAATT
259 ATACTGTATGAACTTACATGAAAAAACT-ATAGCCGTTTAACTAATAAGGAA-TAGTCGACAATT
* * * * *
6465447 TTTCCTTTTCCTCGA-ACGTCCTCTGGTAATTAAAATTCTTGATCTAAGTCATAATTTGTCTCAA
322 TTTCCTTTTCCTC-ATACATCATCTGATAATTAAAATTCTTAATCTAAATCATAATTTGTCTCAA
*
6465511 TTAACTAATCCAATTATCATTTAACAACTTATAGAAATCATACTA
386 TTAACTAATCCAATTATCATTTAACAACATATAGAAATCATACTA
6465556 TATCTCAATT
Statistics
Matches: 379, Mismatches: 46, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
432 7 0.02
433 371 0.98
434 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (433 bp):
GAATCAGATAATAGTGTCTGGTCACCCATTAGGGTTGAACCTACACAACAAATAGCCTGGCAAAG
GCTTAATAAACCTATATTCTCGAGTCTACAACACATGCTGAAGCTCGAAACATGCGGGCAATAAC
CCGTAACCTCGTATACAAGACTTTTACTAATTTCATCAGGATTTATCTCACATTATAACATAATT
CCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATTAT
ACTGTATGAACTTACATGAAAAAACTATAGCCGTTTAACTAATAAGGAATAGTCGACAATTTTTC
CTTTTCCTCATACATCATCTGATAATTAAAATTCTTAATCTAAATCATAATTTGTCTCAATTAAC
TAATCCAATTATCATTTAACAACATATAGAAATCATACTACAT
Found at i:6467422 original size:2 final size:2
Alignment explanation
Indices: 6467410--6467454 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
6467400 ATGTTTAATC
6467410 CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6467451 CT CT
1 CT CT
6467455 TAAGATAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:6480202 original size:12 final size:12
Alignment explanation
Indices: 6480185--6480216 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6480175 ACCCCCTAAC
6480185 CAAGCCTCACTA
1 CAAGCCTCACTA
6480197 CAAGCCTCACTA
1 CAAGCCTCACTA
*
6480209 CAACCCTC
1 CAAGCCTC
6480217 TAAAGACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.47, G:0.06, T:0.16
Consensus pattern (12 bp):
CAAGCCTCACTA
Found at i:6490773 original size:29 final size:29
Alignment explanation
Indices: 6490738--6490794 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
6490728 AAAATATAAT
* *
6490738 TTTTAAAAGATTAAATTAAAATTTTATCA
1 TTTTAAAAGATCAAAGTAAAATTTTATCA
* *
6490767 TTTTAAAAGGTCAAAGTATAATTTTATC
1 TTTTAAAAGATCAAAGTAAAATTTTATC
6490795 TTTATTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTTAAAAGATCAAAGTAAAATTTTATCA
Found at i:6505852 original size:21 final size:22
Alignment explanation
Indices: 6505823--6505869 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6505813 CAGAAGGAGT
*
6505823 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6505845 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6505866 GAGT
1 GAGT
6505870 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6508248 original size:19 final size:17
Alignment explanation
Indices: 6508207--6508252 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
6508197 TTTTAATAAA
*
6508207 TTATATATTTTTATATT
1 TTATATATTTTTAAATT
*
6508224 TAATATATTTTCTAAATTT
1 TTATATATTTT-TAAA-TT
6508243 TTATATATTT
1 TTATATATTT
6508253 AATTATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 3 0.12
19 11 0.46
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATATTTTTAAATT
Found at i:6510260 original size:22 final size:22
Alignment explanation
Indices: 6510232--6510282 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
6510222 TAATAGGAAA
6510232 ATGATAAATTATATTTCTTC-TC
1 ATGATAAATTA-ATTTCTTCATC
*
6510254 ATGAT-AATTAATTTTTTCATC
1 ATGATAAATTAATTTCTTCATC
*
6510275 CTGATAAA
1 ATGATAAA
6510283 ATTTAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 7 0.28
21 11 0.44
22 7 0.28
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (22 bp):
ATGATAAATTAATTTCTTCATC
Found at i:6510480 original size:12 final size:12
Alignment explanation
Indices: 6510463--6510492 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
6510453 TTGTTATATT
6510463 TTTAACATTATA
1 TTTAACATTATA
6510475 TTTAACATTATA
1 TTTAACATTATA
6510487 TGTTAA
1 T-TTAA
6510493 ATATTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (12 bp):
TTTAACATTATA
Found at i:6513830 original size:17 final size:17
Alignment explanation
Indices: 6513808--6513842 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6513798 TAATGGAATT
6513808 ATAAATTATGAGATATA
1 ATAAATTATGAGATATA
* *
6513825 ATAAATTTTGTGATATA
1 ATAAATTATGAGATATA
6513842 A
1 A
6513843 GGTCAGAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (17 bp):
ATAAATTATGAGATATA
Found at i:6517209 original size:24 final size:24
Alignment explanation
Indices: 6517147--6517217 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
6517137 TGTAAACAGA
* * * *
6517147 AAGCTCATGTGAGCTATGTAACCGG
1 AAGCTCATATGAGCCA-ATAACGGG
* *
6517172 AAGCTCCAGA-GAGCCACTAACGGG
1 AAGCT-CATATGAGCCAATAACGGG
6517196 AAGCTCATATGAGCCAATAACG
1 AAGCTCATATGAGCCAATAACG
6517218 AGAATGTTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 3 0.08
24 22 0.59
25 10 0.27
26 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (24 bp):
AAGCTCATATGAGCCAATAACGGG
Found at i:6518290 original size:33 final size:33
Alignment explanation
Indices: 6518248--6518314 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
6518238 CCCTACTGAG
* *
6518248 TACATGTTAAGCGTGCCT-ACTGCTAGTGTTGAA
1 TACATGTTAAGCATG-CTGACTGCTAATGTTGAA
*
6518281 TACATGTTAAGCATGTTGACTGCTAATGTTGAA
1 TACATGTTAAGCATGCTGACTGCTAATGTTGAA
6518314 T
1 T
6518315 TGTTCTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (33 bp):
TACATGTTAAGCATGCTGACTGCTAATGTTGAA
Found at i:6521012 original size:11 final size:11
Alignment explanation
Indices: 6520996--6521020 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6520986 TTCAGCTGAT
6520996 GAAAATGAAGA
1 GAAAATGAAGA
6521007 GAAAATGAAGA
1 GAAAATGAAGA
6521018 GAA
1 GAA
6521021 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:6523017 original size:15 final size:17
Alignment explanation
Indices: 6522993--6523026 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6522983 ATTATTTACG
6522993 TAGATAAATTTTA-AAA
1 TAGATAAATTTTATAAA
6523009 TAGAT-AATTTTATAAA
1 TAGATAAATTTTATAAA
6523025 TA
1 TA
6523027 ATTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TAGATAAATTTTATAAA
Found at i:6524321 original size:15 final size:16
Alignment explanation
Indices: 6524282--6524331 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 16
6524272 TTAAGTATGG
6524282 TAAAAAATAAGAAATTA
1 TAAAAAATAA-AAATTA
*
6524299 TAATAAAATAAATATT-
1 TAA-AAAATAAAAATTA
6524315 TAAAAAATAAAACATTA
1 TAAAAAATAAAA-ATTA
6524332 GAAATATGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 8 0.29
16 6 0.21
17 7 0.25
18 7 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
TAAAAAATAAAAATTA
Found at i:6533677 original size:26 final size:27
Alignment explanation
Indices: 6533648--6533708 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
6533638 ATCCTCTCTC
6533648 GAGCCATATAAT-AAGAAGCTCACAAA
1 GAGCCATATAATCAAGAAGCTCACAAA
** *
6533674 GAGCCAT-TAATCGGGAAGCTCACAGA
1 GAGCCATATAATCAAGAAGCTCACAAA
*
6533700 GAACCATAT
1 GAGCCATAT
6533709 CGGGAAGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.14
26 24 0.83
27 1 0.03
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (27 bp):
GAGCCATATAATCAAGAAGCTCACAAA
Found at i:6533710 original size:24 final size:26
Alignment explanation
Indices: 6533662--6533717 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
6533652 CATATAATAA
*
6533662 GAAGCTCACAAAGAGCCATTAATCGG
1 GAAGCTCACAAAGAACCATTAATCGG
*
6533688 GAAGCTCACAGAGAACCA-T-ATCGG
1 GAAGCTCACAAAGAACCATTAATCGG
6533712 GAAGCT
1 GAAGCT
6533718 TATTCGGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 11 0.39
25 1 0.04
26 16 0.57
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (26 bp):
GAAGCTCACAAAGAACCATTAATCGG
Found at i:6533804 original size:24 final size:23
Alignment explanation
Indices: 6533776--6533838 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 23
6533766 TCACAAAGAA
*
6533776 CCATATCGGGAAGCTCATAGATAG
1 CCATATCGGGAAGCTC-CAGATAG
*
6533800 CCATATAACGGGAAGCTCCGGATAG
1 CCATAT--CGGGAAGCTCCAGATAG
6533825 CCAATATCGGGAAG
1 CC-ATATCGGGAAG
6533839 TTTAAACAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 13 0.38
25 7 0.21
26 14 0.41
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.17
Consensus pattern (23 bp):
CCATATCGGGAAGCTCCAGATAG
Found at i:6533813 original size:26 final size:24
Alignment explanation
Indices: 6533782--6533838 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
6533772 AGAACCATAT
*
6533782 CGGGAAGCTCATAGATAGCCATATAA
1 CGGGAAGCTC-CAGATAGCCA-ATAA
* *
6533808 CGGGAAGCTCCGGATAGCCAATAT
1 CGGGAAGCTCCAGATAGCCAATAA
6533832 CGGGAAG
1 CGGGAAG
6533839 TTTAAACAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.36
25 8 0.29
26 10 0.36
ACGTcount: A:0.33, C:0.21, G:0.30, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCCAGATAGCCAATAA
Found at i:6533840 original size:74 final size:73
Alignment explanation
Indices: 6533648--6533840 Score: 174
Period size: 74 Copynumber: 2.6 Consensus size: 73
6533638 ATCCTCTCTC
*** * * *
6533648 GAGCCATATAATAAGAAGCTCACAAAGAGCCATTAATCGGGAAGCTCACAGAGAACCATATCGGG
1 GAGCCATATAACGGGAAGCTCAGAAA-AGCCA-TAATCGGGAAGTTCACAAAGAACCATATCGGG
* *
6533713 AAGCTTATTC
64 AAGCTCATTA
* * * * **
6533723 GGGCTATATAACGGGAAGCTCATAAAAGCCATAATTGATAAGTTCACAAAGAACCATATCGGGAA
1 GAGCCATATAACGGGAAGCTCAGAAAAGCCATAATCGGGAAGTTCACAAAGAACCATATCGGGAA
6533788 GCTCA-TA
66 GCTCATTA
* * *
6533795 GATAGCCATATAACGGGAAGCTCCGGATAGCCA-ATATCGGGAAGTT
1 G--AGCCATATAACGGGAAGCTCAGAAAAGCCATA-ATCGGGAAGTT
6533841 TAAACAAGCA
Statistics
Matches: 93, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
72 2 0.02
73 34 0.37
74 37 0.40
75 20 0.22
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (73 bp):
GAGCCATATAACGGGAAGCTCAGAAAAGCCATAATCGGGAAGTTCACAAAGAACCATATCGGGAA
GCTCATTA
Found at i:6537442 original size:20 final size:19
Alignment explanation
Indices: 6537413--6537471 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
6537403 AAAATTACAA
*
6537413 AAAAAATCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
6537432 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
6537452 AAAAATTCAAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
6537470 AA
1 AA
6537472 TAGTTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 8 0.22
19 16 0.43
20 13 0.35
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:6537460 original size:27 final size:27
Alignment explanation
Indices: 6537430--6537483 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
6537420 CAAAATAATT
6537430 TTCAAAAATTCAAAATA-TTTATAAAAA
1 TTCAAAAATTCAAAATAGTTT-TAAAAA
* *
6537457 TTCAAAAATTTATAATAGTTTTAAAAA
1 TTCAAAAATTCAAAATAGTTTTAAAAA
6537484 AAATTCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (27 bp):
TTCAAAAATTCAAAATAGTTTTAAAAA
Found at i:6551925 original size:24 final size:25
Alignment explanation
Indices: 6551893--6551965 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
6551883 AGAAAAATGA
*
6551893 AAAATTAAAGGTTAAAAGGTTAAAG
1 AAAATAAAAGGTTAAAAGGTTAAAG
*
6551918 AAAATAAAAGG-TGAAAGGTT-AAG
1 AAAATAAAAGGTTAAAAGGTTAAAG
* * *
6551941 AGAGATGAAAGGTTTAAAGGTTAAA
1 A-AAATAAAAGGTTAAAAGGTTAAA
6551966 CATCTACTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.10
24 16 0.40
25 18 0.45
26 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (25 bp):
AAAATAAAAGGTTAAAAGGTTAAAG
Found at i:6552177 original size:22 final size:21
Alignment explanation
Indices: 6552148--6552190 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
6552138 ATTGTTAAAA
*
6552148 TAAAAAATTAA-AATACAAATT
1 TAAAAAATGAAGAA-ACAAATT
6552169 TAAAGAAATGAAGAAACAAATT
1 TAAA-AAATGAAGAAACAAATT
6552191 AGAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 13 0.68
23 2 0.11
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
TAAAAAATGAAGAAACAAATT
Found at i:6557680 original size:18 final size:19
Alignment explanation
Indices: 6557636--6557683 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
6557626 TATCATATGC
* *
6557636 AATAAAATTTTTAAATATT
1 AATAAAATTATTAAATATA
*
6557655 AAT-TAATTATTAAATA-A
1 AATAAAATTATTAAATATA
6557672 AATAAAATTATT
1 AATAAAATTATT
6557684 CTTAGATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAAAATTATTAAATATA
Found at i:6571121 original size:16 final size:16
Alignment explanation
Indices: 6571100--6571156 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
6571090 TTTGGTTCGC
*
6571100 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
6571116 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
6571132 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
6571148 TGTAATGGA
1 TGTAATGGA
6571157 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:6571423 original size:18 final size:17
Alignment explanation
Indices: 6571402--6571436 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6571392 TTATTATTAA
*
6571402 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6571420 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6571437 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6571573 original size:16 final size:16
Alignment explanation
Indices: 6571536--6571577 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6571526 TTAATCATAT
*
6571536 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
6571552 TT-AAATATATTATAA
1 TTAAAATATATTATAA
6571567 TTAAAATATAT
1 TTAAAATATAT
6571578 AATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:6571575 original size:154 final size:156
Alignment explanation
Indices: 6571289--6571586 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
6571279 TAGAATACCC
6571289 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
6571354 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
6571419 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
6571446 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
6571509 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
6571574 ATATAATTTAATA
131 ATATAATTTAATA
6571587 TGAATTTACT
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:6571584 original size:14 final size:15
Alignment explanation
Indices: 6571545--6571679 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
6571535 TTTAAACATA
*
6571545 ATTATTATTAAATAT
1 ATTATAATTAAATAT
6571560 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
6571574 A-TATAATTTAATAT
1 ATTATAATTAAATAT
*
6571588 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
6571610 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
6571625 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
6571638 ATTATTATTAAATAT
1 ATTATAATTAAATAT
6571653 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
6571667 A-TATAATTTAATA
1 ATTATAATTAAATA
6571680 AAATTCTTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
12 3 0.03
13 22 0.24
14 16 0.17
15 30 0.33
16 5 0.05
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:6571643 original size:154 final size:155
Alignment explanation
Indices: 6571328--6571643 Score: 401
Period size: 154 Copynumber: 2.0 Consensus size: 155
6571318 ATTGTTATTG
6571328 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
6571393 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
6571458 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
6571485 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
* * *
6571548 ATTATTAAATATATTATAATTAAAATATATAATTTAATATGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAATA-AAATTCTTAAT-AATAGCATAA-AT
6571610 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
6571639 TTATT
1 TTATT
6571644 ATTAAATATA
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.11
154 92 0.66
155 3 0.02
157 23 0.16
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:6571694 original size:44 final size:43
Alignment explanation
Indices: 6571605--6571695 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
6571595 CTCAAATCAT
* * *
6571605 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
6571648 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
6571692 AATA
1 AATA
6571696 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:6571720 original size:120 final size:119
Alignment explanation
Indices: 6571585--6571803 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
6571575 TATAATTTAA
* * *
6571585 TATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATTA
6571648 AATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
64 AATATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
6571705 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
*
6571770 TATGATTTAATTAAATATATGATTTAATAAAATT
66 TATGATTTAATTAAATATATAATTTAATAAAATT
6571804 TAAAATTATT
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 24 0.26
120 63 0.68
121 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
TATGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
Found at i:6571784 original size:15 final size:15
Alignment explanation
Indices: 6571764--6571802 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
6571754 AATAATTAAT
6571764 ATTAAATATGATTTA
1 ATTAAATATGATTTA
6571779 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
6571796 ATAAAAT
1 ATTAAAT
6571803 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:6571789 original size:17 final size:17
Alignment explanation
Indices: 6571769--6571802 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6571759 TTAATATTAA
*
6571769 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
6571786 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
6571803 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:6571881 original size:21 final size:21
Alignment explanation
Indices: 6571857--6571904 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
6571847 TAATTTAAAA
* *
6571857 TAATAATTATTACATATAATT
1 TAATAATAATAACATATAATT
*
6571878 TAATAATAATAATATATAATT
1 TAATAATAATAACATATAATT
*
6571899 TCATAA
1 TAATAA
6571905 AATTCTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATAATAATAACATATAATT
Found at i:6572010 original size:93 final size:95
Alignment explanation
Indices: 6571835--6572032 Score: 287
Period size: 96 Copynumber: 2.1 Consensus size: 95
6571825 GATTATAGTT
* * *
6571835 TATGAATTTGTATAATTTAAAATAATAATTATTACATATAATTTAATAATAATAATATATAATTT
1 TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATAATAATATATAATTT
* *
6571900 CATAAAATTCTTGATAATAAAAATTTTCTTA
66 CATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
6571931 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAA-TT-AT-ATAGTGATATATAATT
1 TATGAATTTATACAATTTAAAATAA-TAATTATTAAATATAATTTAATAATAATAATATATAATT
6571992 TCATAAAATTCTTAATAATAAAATGTTCTTA
65 TCATAAAATTCTTAATAATAAAATGTTCTTA
6572023 TATGAATTTA
1 TATGAATTTA
6572033 CTAAAATCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
92 21 0.22
93 32 0.34
94 2 0.02
95 2 0.02
96 34 0.36
97 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (95 bp):
TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATAATAATATATAATTT
CATAAAATTCTTAATAATAAAATGTTCTTA
Found at i:6573632 original size:34 final size:34
Alignment explanation
Indices: 6573594--6573661 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
6573584 TCTGAAATTC
6573594 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
6573628 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
6573662 CTACATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
Found at i:6573934 original size:78 final size:78
Alignment explanation
Indices: 6573805--6573961 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
6573795 TATTAGTCAA
* * *
6573805 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
6573870 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
6573883 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
6573948 GACAGCAACACTC
66 GACAGCAACACTC
6573961 G
1 G
6573962 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:6577590 original size:6 final size:6
Alignment explanation
Indices: 6577579--6577608 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6577569 GCTTTTTTGT
6577579 TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC
1 TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC
6577609 CATCCTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
TTCCCC
Found at i:6582460 original size:39 final size:38
Alignment explanation
Indices: 6582332--6582483 Score: 126
Period size: 39 Copynumber: 3.8 Consensus size: 38
6582322 AGCGGCGCTT
**
6582332 TTAGCGGCGATTGGACAACAAACGCCGCTAAAAATTAAGCA
1 TTAGCGGCGATTTTACAA-AAACGCCGCT-AAAA-TAAGCA
* * * * *
6582373 TTAGCGGCGATTTAAAAAAAAATGCCGCTAAATATCAGTA
1 TTAGCGGCGATTT-TACAAAAACGCCGCTAAA-ATAAGCA
* * *
6582413 TTACCGGCGCTTTTACAAAAACGCCGCTAATAATGAGCA
1 TTAGCGGCGATTTTACAAAAACGCCGCTAA-AATAAGCA
* *
6582452 TTAGCGGCGTTTCTTA-AAAAGCGCCGCTAAAA
1 TTAGCGGCGATT-TTACAAAAACGCCGCTAAAA
6582484 ACCTAAACCA
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
38 2 0.02
39 42 0.46
40 22 0.24
41 22 0.24
42 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (38 bp):
TTAGCGGCGATTTTACAAAAACGCCGCTAAAATAAGCA
Found at i:6582774 original size:114 final size:114
Alignment explanation
Indices: 6582452--6582778 Score: 390
Period size: 113 Copynumber: 2.9 Consensus size: 114
6582442 ATAATGAGCA
* * *
6582452 TTAGCGGCGTTTCTTAAAAAGCGCCGCTAAAAACCTAAA-CCAAACGACGTCGTTTTTCTTAGTT
1 TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACC-AAAGCCCAACGACATCGTTTTTCTTAGTT
* * * **
6582516 TTCGAGGCTTTGGTGGCGTTTTTGGAGAAGCGCAAG-TAATTCTCGGGGCT
65 TTCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGC-CGCTAATGCTCAAGGCT
* * * *
6582566 TTAGCAGCGTTTCTTAAAAAGCGCCGCAAAAGACCTAAGCCCAACGACATC-ATTTTCTTAGTTT
1 TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCAAAGCCCAACGACATCGTTTTTCTTAGTTT
* * * *
6582630 TCGAGGCTTTGGTGGCGTTTTCGGGAAAGCGCCGCTAATGCTCAATGTT
66 TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAAGGCT
* * * * *
6582679 TTAGCGGCATTTTTTAAAAATCGCCACAAAAAATCAAAGCCCAACGACATCGTTTTTCTTAGTTT
1 TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCAAAGCCCAACGACATCGTTTTTCTTAGTTT
** * *
6582744 GGGAGGCTTTAGTGGCGTTTTTGTAAAAGCGCCGC
66 TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGCCGC
6582779 AAAAAGCCTA
Statistics
Matches: 179, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
112 1 0.01
113 95 0.53
114 83 0.46
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (114 bp):
TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCAAAGCCCAACGACATCGTTTTTCTTAGTTT
TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAAGGCT
Found at i:6583280 original size:7 final size:7
Alignment explanation
Indices: 6583247--6583427 Score: 65
Period size: 7 Copynumber: 26.1 Consensus size: 7
6583237 TGCAAATTAT
6583247 GGGTTTA
1 GGGTTTA
* *
6583254 GTGATTA
1 GGGTTTA
*
6583261 TGGTTTA
1 GGGTTTA
**
6583268 CAGTTTA
1 GGGTTTA
6583275 GGGTTTA
1 GGGTTTA
* *
6583282 CGAG-TTG
1 -GGGTTTA
6583289 GGGTTTA
1 GGGTTTA
*
6583296 AGGTTTA
1 GGGTTTA
6583303 CGGG-TT-
1 -GGGTTTA
* *
6583309 GGGGTTG
1 GGGTTTA
6583316 GGGTTTA
1 GGGTTTA
*
6583323 AGGTTTA
1 GGGTTTA
*
6583330 CGGG-TTG
1 -GGGTTTA
*
6583337 GGGTTCA
1 GGGTTTA
*
6583344 GGGTCTA
1 GGGTTTA
*
6583351 -GG-CTA
1 GGGTTTA
6583356 -GGTTTA
1 GGGTTTA
*
6583362 GGGATTA
1 GGGTTTA
* *
6583369 TGATTT-
1 GGGTTTA
6583375 GGGTTTA
1 GGGTTTA
6583382 GGGTTTA
1 GGGTTTA
6583389 GGGTTTAA
1 GGGTTT-A
6583397 GGGATTTAA
1 GGG-TTT-A
6583406 GGG-TTA
1 GGGTTTA
*
6583412 TGTGTTTA
1 -GGGTTTA
6583420 GGGTTTA
1 GGGTTTA
6583427 G
1 G
6583428 ATTGATTAGT
Statistics
Matches: 127, Mismatches: 33, Indels: 28
0.68 0.18 0.15
Matches are distributed among these distances:
5 8 0.06
6 16 0.13
7 82 0.65
8 13 0.10
9 8 0.06
ACGTcount: A:0.17, C:0.04, G:0.39, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:6583294 original size:21 final size:21
Alignment explanation
Indices: 6583270--6583322 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
6583260 ATGGTTTACA
6583270 GTTTAGGGTTTACGAGTTGGG
1 GTTTAGGGTTTACGAGTTGGG
* *
6583291 GTTTAAGGTTTACGGGTTGGG
1 GTTTAGGGTTTACGAGTTGGG
*
6583312 G-TTGGGGTTTA
1 GTTTAGGGTTTA
6583323 AGGTTTACGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.13, C:0.04, G:0.43, T:0.40
Consensus pattern (21 bp):
GTTTAGGGTTTACGAGTTGGG
Found at i:6583322 original size:27 final size:27
Alignment explanation
Indices: 6583285--6583341 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
6583275 GGGTTTACGA
6583285 GTTGGGGTTTAAGGTTTACGGGTTGGG
1 GTTGGGGTTTAAGGTTTACGGGTTGGG
6583312 GTTGGGGTTTAAGGTTTACGGGTTGGG
1 GTTGGGGTTTAAGGTTTACGGGTTGGG
6583339 GTT
1 GTT
6583342 CAGGGTCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.11, C:0.04, G:0.47, T:0.39
Consensus pattern (27 bp):
GTTGGGGTTTAAGGTTTACGGGTTGGG
Found at i:6583998 original size:75 final size:74
Alignment explanation
Indices: 6583875--6584020 Score: 177
Period size: 75 Copynumber: 1.9 Consensus size: 74
6583865 ATTTAAAGGA
* * *
6583875 ATTTTGTTTCAATAAAAACGGCAGTGTTCTATAGGATATATTAGTGGCGTTTTGGGTAAAACACC
1 ATTTTGTTTCAATAAAAACGGCA-CGTTCTATAAGATATATTACTGGCGTTTTGGGTAAAACACC
6583940 GCAAAATGTG
65 GCAAAATGTG
* * * * *
6583950 ATTTTGTTTCAATAAAAACGTTGC-CGTTCTGTAAGATTTCTTACTGGCGTTTTTGGTAAAACGC
1 ATTTTGTTTCAATAAAAACG--GCACGTTCTATAAGATATATTACTGGCGTTTTGGGTAAAACAC
*
6584014 CGGAAAA
64 CGCAAAA
6584021 GATCATCCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
75 58 0.97
77 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (74 bp):
ATTTTGTTTCAATAAAAACGGCACGTTCTATAAGATATATTACTGGCGTTTTGGGTAAAACACCG
CAAAATGTG
Found at i:6584191 original size:113 final size:114
Alignment explanation
Indices: 6583979--6584194 Score: 256
Period size: 113 Copynumber: 1.9 Consensus size: 114
6583969 GTTGCCGTTC
* * *
6583979 TGTAAGATTTCTTACTGGCGTTTTTGGTAAAACGCCGGAAAAGATCATCCTTTAGCGGCGCTATG
1 TGTAAGATTTATTACTGGCGTTTTTGGTAAAACGCCGGAAAAGATCAGCCTTTAGCGGCGCTACG
* * * * *
6584044 TCAAAAACGCCGCAAAATGTGATTCTGTTTTAATAAAACGCTGTCGTGG
66 TCAAAAACGCCACAAAATGTCAATCGGTTATAATAAAACGCTGTCGTGG
* * * *
6584093 TGTAGGATTTATTAGTGGCGTTTTTTGTAAAACGCC-GAAAACG-TCAGCCTTTAGCGGCGCTGC
1 TGTAAGATTTATTACTGGCGTTTTTGGTAAAACGCCGGAAAA-GATCAGCCTTTAGCGGCGCTAC
*** * *
6584156 GTTGGAAACGCCACAAAATTTCAATGGGTTATAATAAAA
65 GTCAAAAACGCCACAAAATGTCAATCGGTTATAATAAAA
6584195 ACGTTGCCGT
Statistics
Matches: 84, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
113 51 0.61
114 33 0.39
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (114 bp):
TGTAAGATTTATTACTGGCGTTTTTGGTAAAACGCCGGAAAAGATCAGCCTTTAGCGGCGCTACG
TCAAAAACGCCACAAAATGTCAATCGGTTATAATAAAACGCTGTCGTGG
Found at i:6584446 original size:189 final size:189
Alignment explanation
Indices: 6584213--6584591 Score: 562
Period size: 189 Copynumber: 2.0 Consensus size: 189
6584203 GTTTTGTTGG
* * * *
6584213 ATTTTGTGTTGACCGAAACGAAATCGTTTTTATGTTTTTAGTGGCGTTTTTGTTAAAACGCCGGA
1 ATTTTGTGTTGACCAAAACGAAACCGTTTTTATGTATTTAGTGGCGTTTTTGTTAAAACGCCGCA
* * * *
6584278 AAAGATCTTGCTTTAGCGGCGCTTATCTTAAAACGCCGCAAGAATGTTATTTTGTGTTTACCAAA
66 AAAGATCTTACTTTAGCGGCGCTTATCTTAAAACGCCACAAAAATGTTATTATGTGTTTACCAAA
6584343 AAGTGACCGTTTTTTTATGTATTTAGTGGCGTTTTTATTAAAACGCCGCAAAA-ATGTT
131 AAGTGACCGTTTTTTTATGTATTTAGTGGCGTTTTTATTAAAACGCCGCAAAATATGTT
* **
6584401 ATTTTGTGTTTACCAAAACGTGACCGTTTTTTATGTATTTAGTGGCGTTTTTGTTAAAACGCCGC
1 ATTTTGTGTTGACCAAAACGAAACCG-TTTTTATGTATTTAGTGGCGTTTTTGTTAAAACGCCGC
* * * *
6584466 AAAAGATGTTACTTTAGCGGCGCTTCTTTTAAAATGCCACAAAAATGTTATTATGTGTTTACCAA
65 AAAAGATCTTACTTTAGCGGCGCTTATCTTAAAACGCCACAAAAATGTTATTATGTGTTTACCAA
* * * * *
6584531 AACGTGGCCGTTTTTTTATGTATTTAGTGGCGTTTTTGTTAAAATGTCGCAAAATATGTT
130 AAAGTGACCGTTTTTTTATGTATTTAGTGGCGTTTTTATTAAAACGCCGCAAAATATGTT
6584591 A
1 A
6584592 CTTTAGCGGC
Statistics
Matches: 169, Mismatches: 20, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
188 21 0.12
189 142 0.84
190 6 0.04
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (189 bp):
ATTTTGTGTTGACCAAAACGAAACCGTTTTTATGTATTTAGTGGCGTTTTTGTTAAAACGCCGCA
AAAGATCTTACTTTAGCGGCGCTTATCTTAAAACGCCACAAAAATGTTATTATGTGTTTACCAAA
AAGTGACCGTTTTTTTATGTATTTAGTGGCGTTTTTATTAAAACGCCGCAAAATATGTT
Found at i:6584468 original size:74 final size:75
Alignment explanation
Indices: 6584305--6584476 Score: 301
Period size: 75 Copynumber: 2.3 Consensus size: 75
6584295 GGCGCTTATC
*
6584305 TTAAAACGCCGCAAGAATGTTATTTTGTGTTTACCAAAAAGTGACCGTTTTTTTATGTATTTAGT
1 TTAAAACGCCGCAAAAATGTTATTTTGTGTTTACCAAAAAGTGACCGTTTTTTTATGTATTTAGT
6584370 GGCGTTTTTA
66 GGCGTTTTTA
*
6584380 TTAAAACGCCGCAAAAATGTTATTTTGTGTTTACCAAAACGTGACCG-TTTTTTATGTATTTAGT
1 TTAAAACGCCGCAAAAATGTTATTTTGTGTTTACCAAAAAGTGACCGTTTTTTTATGTATTTAGT
*
6584444 GGCGTTTTTG
66 GGCGTTTTTA
6584454 TTAAAACGCCGCAAAAGATGTTA
1 TTAAAACGCCGCAAAA-ATGTTA
6584477 CTTTAGCGGC
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
74 42 0.45
75 51 0.55
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (75 bp):
TTAAAACGCCGCAAAAATGTTATTTTGTGTTTACCAAAAAGTGACCGTTTTTTTATGTATTTAGT
GGCGTTTTTA
Found at i:6584596 original size:115 final size:114
Alignment explanation
Indices: 6584380--6584696 Score: 535
Period size: 115 Copynumber: 2.8 Consensus size: 114
6584370 GGCGTTTTTA
6584380 TTAAAACGCCGCAAAAATGTTATTTTGTGTTTACCAAAACGTGACCGTTTTTTATGTATTTAGTG
1 TTAAAACGCCGCAAAAATGTTATTTTGTGTTTACCAAAACGTGACCGTTTTTTATGTATTTAGTG
* *
6584445 GCGTTTTTGTTAAAACGCCGCAAAAGATGTTACTTTAGCGGCGCTTCTT
66 GCGTTTTTGTTAAAACGCCGCAAAAGATGTTACTTTAGCGGCGCTTATC
* * * *
6584494 TTAAAATGCCACAAAAATGTTATTATGTGTTTACCAAAACGTGGCCGTTTTTTTATGTATTTAGT
1 TTAAAACGCCGCAAAAATGTTATTTTGTGTTTACCAAAACGTGACCG-TTTTTTATGTATTTAGT
* * *
6584559 GGCGTTTTTGTTAAAATGTCGCAAAATATGTTACTTTAGCGGCGCTTATC
65 GGCGTTTTTGTTAAAACGCCGCAAAAGATGTTACTTTAGCGGCGCTTATC
6584609 TTAAAACGCCGCAAAAAATGTTATTTTGTGTTTACCAAAACGTGACCGTTTTTTATGTATTTAGT
1 TTAAAACGCCGC-AAAAATGTTATTTTGTGTTTACCAAAACGTGACCGTTTTTTATGTATTTAGT
6584674 GGCGTTTTTGTTAAAACGCCGCA
65 GGCGTTTTTGTTAAAACGCCGCA
6584697 GGTGTTTATT
Statistics
Matches: 186, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
114 43 0.23
115 110 0.59
116 33 0.18
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (114 bp):
TTAAAACGCCGCAAAAATGTTATTTTGTGTTTACCAAAACGTGACCGTTTTTTATGTATTTAGTG
GCGTTTTTGTTAAAACGCCGCAAAAGATGTTACTTTAGCGGCGCTTATC
Found at i:6587487 original size:17 final size:17
Alignment explanation
Indices: 6587465--6587508 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
6587455 GTTAAATTTA
6587465 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
6587482 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
6587499 TTACTAAAAT
1 TTACTAAAAT
6587509 TTGTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:6587531 original size:13 final size:13
Alignment explanation
Indices: 6587513--6587555 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
6587503 TAAAATTTGT
6587513 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
6587526 TTAAATATGTTAC
1 TTAAATTTATTAC
6587539 TTAAATTTATTAC
1 TTAAATTTATTAC
6587552 TTAA
1 TTAA
6587556 TGACATGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:6589593 original size:21 final size:21
Alignment explanation
Indices: 6589567--6589637 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
6589557 CTACAACTTA
* *
6589567 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
6589588 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
6589609 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
6589630 AAGCAGAG
1 AAGCAGAG
6589638 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:6589880 original size:14 final size:14
Alignment explanation
Indices: 6589861--6589894 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6589851 ATTGCTATTG
6589861 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
6589875 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
6589889 TTTGCT
1 GTTGCT
6589895 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:6590061 original size:43 final size:42
Alignment explanation
Indices: 6589947--6590291 Score: 333
Period size: 42 Copynumber: 8.2 Consensus size: 42
6589937 CAAAAATAGT
* * *
6589947 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGC
1 GGCGTTTTT-T-TAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
6589991 GGCG--TTTGTAAAAATGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
***** *
6590031 GGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGC
1 GGCG-TTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* *
6590074 GGCGTTTTCCCTT--AAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTT--TTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** ** * *
6590116 GGCGTTTTTTTCTAAGTGCCGCTAAAGAACATGGTCTTTAGT
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* *
6590158 GGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * *
6590200 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
6590242 GGCGTTTTTTCT--AAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTT-TAAAAACGCCGCTAAAGAACATGTTCTTTAGC
6590283 GGCGTTTTT
1 GGCGTTTTT
6590292 GTTTGTAAAC
Statistics
Matches: 256, Mismatches: 37, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
40 35 0.14
41 36 0.14
42 148 0.58
43 33 0.13
44 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
Found at i:6590112 original size:42 final size:41
Alignment explanation
Indices: 6590048--6590291 Score: 335
Period size: 42 Copynumber: 5.9 Consensus size: 41
6590038 AGAAAAAAAA
**
6590048 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTTAAG
*
6590090 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TAAG
* * * * * *
6590132 TGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TAAG
*
6590174 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TAAG
*
6590216 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAG
* *
6590257 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
6590292 GTTTGTAAAC
Statistics
Matches: 180, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
41 38 0.21
42 142 0.79
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAG
Found at i:6590205 original size:126 final size:126
Alignment explanation
Indices: 6589962--6590286 Score: 422
Period size: 126 Copynumber: 2.6 Consensus size: 126
6589952 TTTTGTATAA
* * * ** * * *
6589962 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG-TTTGTAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGTGCCGCTAAAGAACATGGTCT
6590026 TTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCC-CTT
66 TTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTC-T
6590087 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGTGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCTAAGTGCCGCTAAAGAACATGGTC
* ***** * * **
6590152 TTTAGTGGC-ATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
* *
6590213 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGTGCCGCTAAAGAACATGGTCT
*
6590278 TTAACGGCG
66 TTAGCGGCG
6590287 TTTTTGTTTG
Statistics
Matches: 174, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
125 68 0.39
126 73 0.42
127 33 0.19
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (126 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGTGCCGCTAAAGAACATGGTCT
TTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
Found at i:6590481 original size:25 final size:25
Alignment explanation
Indices: 6590453--6590504 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6590443 TTCACAATTT
6590453 TTTTTAATCATAAATATAATTAATG
1 TTTTTAATCATAAATATAATTAATG
*
6590478 TTTTTAATCATAAATATAATTACTG
1 TTTTTAATCATAAATATAATTAATG
6590503 TT
1 TT
6590505 ACAAACACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTTAATCATAAATATAATTAATG
Found at i:6590939 original size:16 final size:16
Alignment explanation
Indices: 6590903--6590938 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6590893 ATTATTTTTT
6590903 ATTTTATGATTTTGGA
1 ATTTTATGATTTTGGA
*
6590919 ATTTTATGGTTTTGG-
1 ATTTTATGATTTTGGA
6590934 ATTTT
1 ATTTT
6590939 TGTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (16 bp):
ATTTTATGATTTTGGA
Found at i:6591020 original size:23 final size:24
Alignment explanation
Indices: 6590994--6591039 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
6590984 GAATACTTAA
6590994 TTAT-ATAAAAATAAAAAAAAAAG
1 TTATAATAAAAATAAAAAAAAAAG
*
6591017 TTATAAATAAAAATAAAATAAAA
1 TTAT-AATAAAAATAAAAAAAAA
6591040 TAAAATATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
25 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (24 bp):
TTATAATAAAAATAAAAAAAAAAG
Found at i:6591385 original size:14 final size:14
Alignment explanation
Indices: 6591366--6591392 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6591356 CAAAAAAAGT
6591366 AAATTATTTTCCAG
1 AAATTATTTTCCAG
6591380 AAATTATTTTCCA
1 AAATTATTTTCCA
6591393 AAAAAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:6591741 original size:31 final size:31
Alignment explanation
Indices: 6591706--6591770 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
6591696 ATATAAAATG
** *
6591706 ATTTAAACTTAATTATAATATTGAT-TATACA
1 ATTTAAACAAAATCATAA-ATTGATATATACA
*
6591737 ATTTATACAAAATCATAAATTGATATATACA
1 ATTTAAACAAAATCATAAATTGATATATACA
6591768 ATT
1 ATT
6591771 GAATTTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.42
Consensus pattern (31 bp):
ATTTAAACAAAATCATAAATTGATATATACA
Found at i:6592602 original size:31 final size:31
Alignment explanation
Indices: 6592537--6592594 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
6592527 GTTTTAAGAT
*
6592537 AATTTTAATTATACTCTTTAAAATTTTTGAA
1 AATTCTAATTATACTCTTTAAAATTTTTGAA
* *
6592568 AATTCTAATTATAC-CTTTTAATTTTTT
1 AATTCTAATTATACTCTTTAAAATTTTT
6592595 TTAAAATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (31 bp):
AATTCTAATTATACTCTTTAAAATTTTTGAA
Found at i:6594642 original size:46 final size:44
Alignment explanation
Indices: 6594572--6594661 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 44
6594562 CAAACACACC
*
6594572 AGTACGACACATTGTGCCTAAAACGATACATAGTACCTGATCAG
1 AGTACGACACATAGTGCCTAAAACGATACATAGTACCTGATCAG
*
6594616 AGTACGACACATAAAGTGCCTAAAACGATGCATAGTACCTGATCAG
1 AGTACGACACAT--AGTGCCTAAAACGATACATAGTACCTGATCAG
6594662 TAAAGCCGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 12 0.29
46 30 0.71
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (44 bp):
AGTACGACACATAGTGCCTAAAACGATACATAGTACCTGATCAG
Found at i:6595053 original size:15 final size:15
Alignment explanation
Indices: 6595028--6595085 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
6595018 TCATATATAT
6595028 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
6595044 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
6595059 AATAATTTCAATCAA
1 TATAAATTCAATCAA
6595074 TATAAATTCAAT
1 TATAAATTCAAT
6595086 AAATTCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:6605505 original size:142 final size:142
Alignment explanation
Indices: 6605243--6605794 Score: 861
Period size: 142 Copynumber: 3.9 Consensus size: 142
6605233 CAATTCGTTC
* * * * *
6605243 CCCTACGTAAGCATTGGTTTCAAGTTCATTTCATTTAGAACCGACCACATAGTTTGAGGACTGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
*
6605308 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGACCTAGATTTCAATT
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
6605373 CACTGATTCCTT
131 CACTGATTCCTT
* * * * *
6605385 CCCTACGTAAGCATCGGTTTCAGGTTCATTTCATTTAGAAGCGACCACATAGTTCGAGGACTGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
* * * *
6605450 TTAAGTAACGGCTACAATAAAACCTTGTTGGCAAGTTATGTCCAAGTGTGGCCTAGATTTCAATT
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
6605515 CACTGATTCCTT
131 CACTGATTCCTT
* * *
6605527 CCCTACCTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACTGACAATATAGTTCGAGGACCGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
* * * *
6605592 TTAAGTAACAGTTACAATAAGCCCTTCTTTGCAAGTTATGTCCAAGTGTGGCCTAGATTTCAATT
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
6605657 CACTGATTCCTT
131 CACTGATTCCTT
* *
6605669 CCCTACTTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAATATAGTTCGAGGACCGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
* * *
6605734 TTAAGTAACGGTTACAATAAGCCCTTGTTTGCAAGTAATGCCCAAATGTGGCCTAGATTTC
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTC
6605795 CTCACTTAAT
Statistics
Matches: 380, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 380 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (142 bp):
CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
CACTGATTCCTT
Found at i:6606950 original size:3 final size:3
Alignment explanation
Indices: 6606942--6606966 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6606932 AAACTATGGC
6606942 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
6606967 TTGAAGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6630100 original size:69 final size:69
Alignment explanation
Indices: 6630006--6630485 Score: 351
Period size: 69 Copynumber: 7.0 Consensus size: 69
6629996 CAAAGAGCCA
* * * ** * * *
6630006 TAGCCTTTAAAACAATTAGCAAGAGCAAAGCTCTTAATTGTGAAAATAAGGTTCACAGGCGAAGA
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
*
6630071 ATCG
66 AGCG
* * * ** * *
6630075 TAGCCTCTAAAATAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCGTAAGCAAAG-
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
6630139 AGCTG
66 AGC-G
* * ** * *
6630144 CAGCCTCTAAAACAGTTAGCGATAGCAAAGCTCCCAGGTGTGAAAACAAGGTTCACAAGCGAA-A
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
*
6630208 AGCCT
66 AG-CG
* * * * * ** *
6630213 TAGCCTCTAAAACAGTTAGCGAAAGCTAAGATCCTAGCTGTAAAAACAAGGTTTGCAGGTGAAG-
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
*
6630277 AGTTG
66 AG-CG
* * * * *
6630282 TAGGCTCTAAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTAAAAACAATGTTC-CTAGGTGAAG
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCAC-AGGCGAAG
*
6630346 -AGCC
65 AAGCG
* * * * * * **
6630350 TCAACCTCTAAAAAAGTTAGTGAGAGCAAAGCTCCCAACTGTAAAAATAAAGTTCGCATACGAA-
1 T-AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAG
6630414 AAGCCG
65 AAG-CG
* * * * * * * * * * *
6630420 CAGCTTCTAAAATAATTAACGAAAGTAAAGCTCCCAATTGTAAAAACAAAGCTCACTGGCGAAGA
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
6630485 A
66 A
6630486 TTTTATAACC
Statistics
Matches: 321, Mismatches: 80, Indels: 19
0.76 0.19 0.05
Matches are distributed among these distances:
68 4 0.01
69 312 0.97
70 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (69 bp):
TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
AGCG
Found at i:6630256 original size:138 final size:137
Alignment explanation
Indices: 6629973--6630396 Score: 388
Period size: 138 Copynumber: 3.1 Consensus size: 137
6629963 ACCTCGCTCT
* ** * * *
6629973 CAACTGTAAAAATAA-GTTGTAAGCAAAGAGCCATAGCCTTTAAAACAATTAGCAAGAGCAAAGC
1 CAACTGTAAAAACAAGGTTGTAAGCAAAGAGCTGTAGCCTCTAAAACAGTTAGCGAGAGCAAAGC
** * * * * * *
6630037 TCTTAATTGTGAAAATAAGGTTCACAGGCGAAGAATCGTAGCCTCTAAAATAGTTAGAGAGAGCA
66 TCCCAAGTGTGAAAACAAGGTTCACAAGCGAAGAACCGTAGCCTCTAAAACAGTTAGAGAAAGCA
*
6630102 AAGCTCC
131 AAGATCC
* * *
6630109 CAACGGTAAAAACAAGGTTCGTAAGCAAAGAGCTGCAGCCTCTAAAACAGTTAGCGATAGCAAAG
1 CAACTGTAAAAACAAGGTT-GTAAGCAAAGAGCTGTAGCCTCTAAAACAGTTAGCGAGAGCAAAG
* * *
6630174 CTCCCAGGTGTGAAAACAAGGTTCACAAGCGAA-AAGCCTTAGCCTCTAAAACAGTTAGCGAAAG
65 CTCCCAAGTGTGAAAACAAGGTTCACAAGCGAAGAA-CCGTAGCCTCTAAAACAGTTAGAGAAAG
*
6630238 CTAAGATCC
129 CAAAGATCC
* * * * ** * * *
6630247 TAGCTGTAAAAACAAGGTTTGCAGGTGAAGAGTTGTAGGCTCTAAAACAGTTAGTGAGAGCAAAG
1 CAACTGTAAAAACAAGG-TTGTAAGCAAAGAGCTGTAGCCTCTAAAACAGTTAGCGAGAGCAAAG
* * * * * * * * * * *
6630312 CTCTCAACTGTAAAAACAATGTTC-CTAGGTGAAGAGCC-TCAACCTCTAAAAAAGTTAGTGAGA
65 CTCCCAAGTGTGAAAACAAGGTTCAC-AAGCGAAGAACCGT-AGCCTCTAAAACAGTTAGAGAAA
*
6630375 GCAAAGCTCC
128 GCAAAGATCC
6630385 CAACTGTAAAAA
1 CAACTGTAAAAA
6630397 TAAAGTTCGC
Statistics
Matches: 231, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
136 13 0.06
137 7 0.03
138 208 0.90
139 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (137 bp):
CAACTGTAAAAACAAGGTTGTAAGCAAAGAGCTGTAGCCTCTAAAACAGTTAGCGAGAGCAAAGC
TCCCAAGTGTGAAAACAAGGTTCACAAGCGAAGAACCGTAGCCTCTAAAACAGTTAGAGAAAGCA
AAGATCC
Found at i:6630329 original size:34 final size:34
Alignment explanation
Indices: 6630290--6630396 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 34
6630280 TGTAGGCTCT
6630290 AAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTA
1 AAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTA
** * *
6630324 AAAACAATGTTCCT-AG-GTGAAGAGC-CTCAACCTCTA
1 AAAAC-A-GTTAGTGAGAG-CAA-AGCTCTCAA-CTGTA
*
6630360 AAAA-AGTTAGTGAGAGCAAAGCTCCCAACTGTA
1 AAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTA
6630393 AAAA
1 AAAA
6630397 TAAAGTTCGC
Statistics
Matches: 56, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
33 15 0.27
34 15 0.27
35 11 0.20
36 15 0.27
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (34 bp):
AAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTA
Found at i:6630464 original size:207 final size:208
Alignment explanation
Indices: 6630007--6630486 Score: 504
Period size: 207 Copynumber: 2.3 Consensus size: 208
6629997 AAAGAGCCAT
* * * * *
6630007 AGCCTTTAAAACAATTAGC-AAGAGC-AAAGCTCTTAATTGTGAAAATAAGGTTCACAGGCGAAG
1 AGCCTCTAAAACAATTAACGAA-AGCTAAAGCTCCTAATTGTAAAAACAAGGTTCACAGGCGAAG
* *
6630070 AATCGTAGCCTCTAAAATAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCGTAAGC
65 AATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCCTAAGC
* * * ** * *
6630135 AAAGAGCTGCAGCCTCTAAAACAGTTAGCGATAGCAAAGCTCCCAGGTGTGAAAACAAGGTTCAC
130 AAAGAGCTGCAACCTCTAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAAGTTCAC
**
6630200 AAGCGAAAAGCCTT
195 AAGCGAAAAGCCGC
* * * ** ** *
6630214 AGCCTCTAAAACAGTTAGCGAAAGCT-AAGATCCTAGCTGTAAAAACAAGGTTTGCAGGTGAAGA
1 AGCCTCTAAAACAATTAACGAAAGCTAAAGCTCCTAATTGTAAAAACAAGGTTCACAGGCGAAGA
* * * * * * * * **
6630278 GTTGTAGGCTCTAAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTAAAAACAATGTTCCTAGGTG
66 ATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCCTAAGCA
* * *
6630343 AAGAGCCT-CAACCTCTAAAAAAGTTAGTGAGAGCAAAGCTCCCAACTGTAAAAATAAAGTTCGC
131 AAGAG-CTGCAACCTCTAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAAGTTCAC
6630407 ATA-CGAAAAGCCGC
195 A-AGCGAAAAGCCGC
* * * * * *
6630421 AGCTTCTAAAATAATTAACGAAAG-TAAAGCTCCCAATTGTAAAAACAAAGCTCACTGGCGAAGA
1 AGCCTCTAAAACAATTAACGAAAGCTAAAGCTCCTAATTGTAAAAACAAGGTTCACAGGCGAAGA
6630485 AT
66 AT
6630487 TTTATAACCT
Statistics
Matches: 218, Mismatches: 50, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
206 1 0.00
207 212 0.97
208 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (208 bp):
AGCCTCTAAAACAATTAACGAAAGCTAAAGCTCCTAATTGTAAAAACAAGGTTCACAGGCGAAGA
ATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCCTAAGCA
AAGAGCTGCAACCTCTAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAAGTTCACA
AGCGAAAAGCCGC
Found at i:6634618 original size:12 final size:12
Alignment explanation
Indices: 6634601--6634625 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6634591 ACTCAATGAG
6634601 AATAATATGTAT
1 AATAATATGTAT
6634613 AATAATATGTAT
1 AATAATATGTAT
6634625 A
1 A
6634626 TAAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AATAATATGTAT
Found at i:6636406 original size:42 final size:42
Alignment explanation
Indices: 6636359--6636508 Score: 191
Period size: 42 Copynumber: 3.6 Consensus size: 42
6636349 GTGTTTTTAG
**
6636359 TCTGCTCCACTACTATTTAGGGAGATAAGATCTGTGGTTTCT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCT
* * * * *
6636401 TCTGCTCCGCTACTGCTTAAGGAGATAAGA-CT-T-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTC-T
6636441 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTT-T
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCT
6636482 GTCTGCTCCACTACTGCTTAGGGAGAT
1 -TCTGCTCCACTACTGCTTAGGGAGAT
6636509 GAGTTATCGG
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
39 3 0.03
40 29 0.32
41 4 0.04
42 53 0.58
43 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (42 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTCT
Found at i:6636741 original size:44 final size:44
Alignment explanation
Indices: 6636637--6637452 Score: 674
Period size: 44 Copynumber: 18.5 Consensus size: 44
6636627 CAAATACAGG
* * * * *
6636637 GACAAGATCTGCTTTCTTCGATCCACTTCACCACCAGTATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAA
* *
6636682 GACAAGATCTG-TATCTT-GAATCCACTTCCTATCAATATAGGAA
1 GACAAGATCTGCTATCTTCG-ATCTACTTCCTACCAATATAGGAA
* * * * * *
6636725 GATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAA
* * *
6636769 GACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCT-TCGATCTACTTC-CTACCAATATAGGAA
*
6636814 GACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAA
* * * * *
6636857 GATAGGATCTGCTACCTTCGATCTACTT-C-ACGCTAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCCTAC-C-AATATAGGAA
* * *
6636901 GACAAGATTTGCTTTCTTCGATCTACTTTGCC-ACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTAC-TT-CCTACCAATATAGGAA
*
6636946 GACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAA
* * * * * *
6636989 GATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAA
* * * * * *
6637033 GACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAA
* * *
6637078 GACAAGATTTGC-GTCTTCGATCCACTTCCTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAA
* * * * *
6637121 GATAAGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAA
* * * * * *
6637165 GACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAA
*
6637210 GACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAA
* * * * * * *
6637253 GATAGGACCTGCTATCTTCGATCTATTTCAC-GCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAA
* * * * * *
6637297 GACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAA
* * * * *
6637342 GACAAGATCTAC-GTCCTCAATCCACTTCCTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAA
* * * * * *
6637385 GATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAA
*
6637429 GACAAGATCTGCTTTCTTCGATCT
1 GACAAGATCTGCTATCTTCGATCT
6637453 CAATCCATCC
Statistics
Matches: 603, Mismatches: 143, Indels: 51
0.76 0.18 0.06
Matches are distributed among these distances:
42 4 0.01
43 131 0.22
44 350 0.58
45 114 0.19
46 1 0.00
47 3 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
GACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAA
Found at i:6636850 original size:132 final size:132
Alignment explanation
Indices: 6636637--6637452 Score: 1382
Period size: 132 Copynumber: 6.2 Consensus size: 132
6636627 CAAATACAGG
* * * *
6636637 GACAAGATCTGCTTTCTTCGATCCACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTT-GA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCG-
*
6636701 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
65 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
6636766 GAA
130 GAA
* *
6636769 GACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGA
* * *
6636834 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCTAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
6636899 AA
131 AA
* * * *
6636901 GACAAGATTTGCTTTCTTCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGA
6636966 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
6637031 AA
131 AA
* * *
6637033 GACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGCGTCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGA
*
6637098 TCCACTTCCTACCAATATAGGAAGATAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
6637163 AA
131 AA
*
6637165 GACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGA
*
6637230 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTATTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
6637295 AA
131 AA
* * * * *
6637297 GACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACGTCCTCAA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGA
6637362 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
6637427 AA
131 AA
*
6637429 GACAAGATCTGCTTTCTTCGATCT
1 GACAAGATCTGCTTTCTGCGATCT
6637453 CAATCCATCC
Statistics
Matches: 647, Mismatches: 36, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
132 646 1.00
133 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:6642896 original size:266 final size:266
Alignment explanation
Indices: 6642422--6642952 Score: 1026
Period size: 266 Copynumber: 2.0 Consensus size: 266
6642412 GCGGATACAT
*
6642422 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCGTTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
6642487 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
* *
6642552 TTGCTCACTAAACCTCATGGTTCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCGAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
6642617 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
6642682 TCCTTC
261 TCCTTC
6642688 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
6642753 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
*
6642818 TTGCTCACTAAACCTCATGGTGCTTGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
6642883 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
6642948 TCCTT
261 TCCTT
6642953 TTCTTATCAC
Statistics
Matches: 261, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 261 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (266 bp):
ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
TCCTTC
Found at i:6645257 original size:12 final size:12
Alignment explanation
Indices: 6645240--6645264 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6645230 ACTCAATGAG
6645240 AATAATATGTAT
1 AATAATATGTAT
6645252 AATAATATGTAT
1 AATAATATGTAT
6645264 A
1 A
6645265 TAAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AATAATATGTAT
Found at i:6654334 original size:32 final size:32
Alignment explanation
Indices: 6654293--6654362 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
6654283 TATGCGCTAC
6654293 AATTATGAGGTAAAAAATTAAAATTATATTAT
1 AATTATGAGGTAAAAAATTAAAATTATATTAT
6654325 AATTATGAGGTAAAAAATTAAAATTATATTAT
1 AATTATGAGGTAAAAAATTAAAATTATATTAT
*
6654357 TATTAT
1 AATTAT
6654363 ATTATGTTCG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (32 bp):
AATTATGAGGTAAAAAATTAAAATTATATTAT
Found at i:6657020 original size:2 final size:2
Alignment explanation
Indices: 6657013--6657038 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6657003 GTAGCCAAAA
6657013 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6657039 GAAGTTTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6661970 original size:44 final size:45
Alignment explanation
Indices: 6661917--6662021 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 45
6661907 TACTGTAACT
* * *
6661917 TCAAAGAGATAAGATCCT-TTAT-TTTAATCCACTCCATTGTAATC
1 TCAAGGAGATAAGAT-CTACTATCTTCAATCCACTCCATTGTAATC
* * **
6661961 TTAAGGAGATAGGAT-TACTATCTTCAATCTGCTCCATTGTAATC
1 TCAAGGAGATAAGATCTACTATCTTCAATCCACTCCATTGTAATC
*
6662005 TCAGGGAGATAAGATCT
1 TCAAGGAGATAAGATCT
6662022 GAAATTTTTC
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
42 1 0.02
43 3 0.06
44 43 0.90
45 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (45 bp):
TCAAGGAGATAAGATCTACTATCTTCAATCCACTCCATTGTAATC
Found at i:6662136 original size:41 final size:41
Alignment explanation
Indices: 6662079--6662159 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
6662069 TGGCTTCAAT
*
6662079 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGAC
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAC
*
6662120 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGA
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
6662160 TCCTTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (41 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAC
Found at i:6693189 original size:30 final size:30
Alignment explanation
Indices: 6693155--6693214 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6693145 ACTTAACAAG
* *
6693155 CAAATATCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
6693185 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
6693215 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:6695947 original size:19 final size:21
Alignment explanation
Indices: 6695913--6695951 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
6695903 CCATTAAAAT
6695913 AAAAATAGAAATTAAAAAACC
1 AAAAATAGAAATTAAAAAACC
6695934 AAAAATA-AAA-TAAAAAAC
1 AAAAATAGAAATTAAAAAAC
6695952 ACACAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.13
Consensus pattern (21 bp):
AAAAATAGAAATTAAAAAACC
Found at i:6699053 original size:17 final size:17
Alignment explanation
Indices: 6699033--6699079 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
6699023 TATTGAAATT
*
6699033 AAAATAAAATAATGAGG
1 AAAATAAAATAAGGAGG
*
6699050 AAAAGTAAAA-AAGGATG
1 AAAA-TAAAATAAGGAGG
6699067 AAAATCAAAATAA
1 AAAAT-AAAATAA
6699080 AAAAAGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 17 0.68
18 7 0.28
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAGGAGG
Found at i:6700118 original size:16 final size:16
Alignment explanation
Indices: 6700097--6700145 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
6700087 TTTTTTTATG
*
6700097 TTGGGCTAGTTGAGTA-
1 TTGGGCTAGGTG-GTAT
6700113 TTGGGCT-GGTGGTAT
1 TTGGGCTAGGTGGTAT
6700128 TTGGGCTAGG-GG-AT
1 TTGGGCTAGGTGGTAT
6700142 TTGG
1 TTGG
6700146 TTTGTTGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 9 0.30
15 12 0.40
16 9 0.30
ACGTcount: A:0.12, C:0.06, G:0.45, T:0.37
Consensus pattern (16 bp):
TTGGGCTAGGTGGTAT
Found at i:6700920 original size:88 final size:87
Alignment explanation
Indices: 6700763--6700971 Score: 200
Period size: 88 Copynumber: 2.4 Consensus size: 87
6700753 ACGTGAGCAA
* * * *
6700763 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTGAAAATAGAATTTGCCAAACAAATTT
1 AGGCTCAACTCACCTCTC-TAATATGAGTTGATTTTTTTGAAAATAGAATTTGCAAAAAAAATTT
* * *
6700826 TGAAAATACCTTGGCATGTGACCT-G
65 TAAAAATAACTCGGC--GTG-CCTCG
6700851 AGGCTCAACTCACCTCTCTAATATGAGTTGATTTTTTTGAAAA-A-AA-TTG-AAAAAAATATTA
1 AGGCTCAACTCACCTCTCTAATATGAGTTGATTTTTTTGAAAATAGAATTTGCAAAAAAA-ATT-
*
6700912 ATTAAAAATAACTCGGCGTGTCTCG
64 -TTAAAAATAACTCGGCGTGCCTCG
*
6700937 AGGCTCAACTCACCTCT-TGCAATGTGAGTTGATTT
1 AGGCTCAACTCACCTCTCT--AATATGAGTTGATTT
6700972 GACGAACAGA
Statistics
Matches: 104, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
85 8 0.08
86 27 0.26
87 28 0.27
88 31 0.30
89 10 0.10
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCTAATATGAGTTGATTTTTTTGAAAATAGAATTTGCAAAAAAAATTTT
AAAAATAACTCGGCGTGCCTCG
Found at i:6701086 original size:73 final size:73
Alignment explanation
Indices: 6700927--6701119 Score: 259
Period size: 73 Copynumber: 2.6 Consensus size: 73
6700917 AAATAACTCG
* * *
6700927 GCGTGT-CTCGAGGCTCAACTCACCTCTTGCAATGTGAGTTGA--TTTGACGAACAGAAATTGAA
1 GCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAA
*
6700989 AAGACCTTA
65 AAGACCTCA
*
6700998 GCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTG
1 GC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTG
**
6701062 AAATTACCTCA
63 AAAAGACCTCA
6701073 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6701120 TTTTGAAGAG
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
71 2 0.02
72 2 0.02
73 75 0.70
75 28 0.26
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (73 bp):
GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
AGACCTCA
Found at i:6701248 original size:241 final size:238
Alignment explanation
Indices: 6700937--6701593 Score: 930
Period size: 241 Copynumber: 2.8 Consensus size: 238
6700927 GCGTGTCTCG
* * *
6700937 AGGCTCAACTCACCTCTTGCAATGTGAGTTGA--TTTGACGAACAGAAATTGAAAAGACCTTAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAACAGAAATTGAAAAGACCTCAGC
6701000 ATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
66 ATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
6701065 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAGAG
131 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT-AAGAG
* *
6701130 TAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGCATGCCCTC
195 CAGAAATTGGAAAGCAGAAATCGAAAATACATCAGCATGCCCTC
6701174 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACGAACAGAAATTGAAAAGACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACGAACAGAAATTGAAAAGACCTCA
* * *
6701239 GCATGTGAGCCGATGCTCAACTCACCTCTTGCGATATGAGTTGATTTTTGACAAACAGAAATTGA
64 GCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGA
* * *
6701304 AATTACCTTAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAGA
129 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAGA
* * * *
6701369 GCAGACATTGGAAAGCAGAAATCGAAAATACATTAGCGTGCCCTG
194 GCAGAAATTGGAAAGCAGAAATCGAAAATACATCAGCATGCCCTC
* * * * * *
6701414 GGGCTCAACTCACCTCTGGCAGTATGAGTTGATTTTTGACAAACA-ACGATTGAAAATACCTCA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAACAGA-AATTGAAAAGACCTCAG
* ** * * *
6701477 C-CGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGA-AAAAAGAATTTG
65 CATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAGAAATTG
* * * **
6701540 AAAATACCTCAGCATGTTCTGAGGCTCAACTCACCTCTCGCCCTATGAGTTGAT
128 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
6701594 CTTTGGAACA
Statistics
Matches: 375, Mismatches: 38, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
236 34 0.09
237 88 0.23
238 33 0.09
240 72 0.19
241 148 0.39
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (238 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAACAGAAATTGAAAAGACCTCAGC
ATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAGAGC
AGAAATTGGAAAGCAGAAATCGAAAATACATCAGCATGCCCTC
Found at i:6701362 original size:75 final size:76
Alignment explanation
Indices: 6701174--6701593 Score: 281
Period size: 73 Copynumber: 5.4 Consensus size: 76
6701164 GCATGCCCTC
*
6701174 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACGAACAGAAATTGAAAAGACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAGACCTCA
*
6701239 GCATGTGAGCCG
66 -CACGTGAGCCG
* * * ** *
6701251 ATGCTCAACTCACCTCTTGCGATATGAGTTGA--TTTTTGACAAACAGAAATTGAAATTACCTTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAGACCTCA
* *
6701314 -ACGTG-TCTTG
66 CACGTGAGC-CG
* * *
6701324 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTA-AGAGCAGACATTGGAAAGCAGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGACA-AACAGAAATT-GAAA--AG-
* * *
6701388 AATCGAAAATACATTAGCGTG-CCCTG
60 -A-C----CT-CA-CA-CGTGAGCC-G
* * * * *
6701414 GGGCTCAACTCACCTCTGGCAGTATGAGTTGA--TTTTTGACAAACA-ACGATTGAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGA-AATTGAAAAGACCTC
**
6701476 AC-CGTGCCCCG
65 ACACGTGAGCCG
* * * *
6701487 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGA-AAAAAGAATTTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAGACCTCA
** *
6701551 GCA--TGTTCTG
66 -CACGTGAGCCG
**
6701561 AGGCTCAACTCACCTCTCGCCCTATGAGTTGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT
6701594 CTTTGGAACA
Statistics
Matches: 271, Mismatches: 44, Indels: 59
0.72 0.12 0.16
Matches are distributed among these distances:
72 1 0.00
73 67 0.25
74 55 0.20
75 37 0.14
76 16 0.06
77 34 0.13
81 2 0.01
82 2 0.01
84 1 0.00
86 6 0.02
87 13 0.05
88 1 0.00
89 1 0.00
90 35 0.13
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAGACCTCA
CACGTGAGCCG
Found at i:6701567 original size:74 final size:74
Alignment explanation
Indices: 6701415--6701593 Score: 213
Period size: 74 Copynumber: 2.4 Consensus size: 74
6701405 CGTGCCCTGG
* *
6701415 GGCTCAACTCACCTCTGGCAGTATGAGTTGA-TTTTTGACAAACAACGATTGAAAATACCTCACC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAACGATTGAAAATACCTCACC
*
6701479 GTGCCCCGA
66 ATGCCCCGA
*
6701488 GGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGA-AAA-AA-GAATTTGAAAATACCTC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACAACG-A-TTGAAAATACCTC
* ** *
6701550 AGCATGTTCTGA
63 ACCATGCCCCGA
**
6701562 GGCTCAACTCACCTCTCGCCCTATGAGTTGAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGAT
6701594 CTTTGGAACA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
72 1 0.01
73 32 0.35
74 51 0.56
75 7 0.08
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (74 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAACGATTGAAAATACCTCACC
ATGCCCCGA
Found at i:6715478 original size:16 final size:16
Alignment explanation
Indices: 6715457--6715505 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
6715447 TTTTTTTATG
*
6715457 TTGGGCTAGTTGAGTA-
1 TTGGGCTAGGTG-GTAT
6715473 TTGGGCT-GGTGGTAT
1 TTGGGCTAGGTGGTAT
6715488 TTGGGCTAGG-GG-AT
1 TTGGGCTAGGTGGTAT
6715502 TTGG
1 TTGG
6715506 TTTGTTGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 9 0.30
15 12 0.40
16 9 0.30
ACGTcount: A:0.12, C:0.06, G:0.45, T:0.37
Consensus pattern (16 bp):
TTGGGCTAGGTGGTAT
Found at i:6719842 original size:53 final size:54
Alignment explanation
Indices: 6719757--6719858 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 54
6719747 CCCCTAGTTA
*
6719757 AATGCATTGAACGTGTGAAAGTATTCTAATAAATCATAATAT-TGCAATAGCTG
1 AATGCATTGAACGTGTAAAAGTATTCTAATAAATCATAATATATGCAATAGCTG
* *
6719810 AATGTATTGAACGTGTAAAAGTATTCTAATAAATGATAATATATGCAAT
1 AATGCATTGAACGTGTAAAAGTATTCTAATAAATCATAATATATGCAAT
6719859 GGACCTTGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 39 0.87
54 6 0.13
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (54 bp):
AATGCATTGAACGTGTAAAAGTATTCTAATAAATCATAATATATGCAATAGCTG
Found at i:6727197 original size:24 final size:22
Alignment explanation
Indices: 6727170--6727229 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
6727160 TGGTATTTGG
*
6727170 ATTTTCTTGTTTGTGTGTTTTTTT
1 ATTTTATT-TTTGTG-GTTTTTTT
*
6727194 ATTTTATTTTTTTGGTTTTTTTT
1 ATTTTATTTTTGTGG-TTTTTTT
6727217 AATTTCTATTTTT
1 -ATTT-TATTTTT
6727230 TATTCTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 1 0.03
23 12 0.39
24 11 0.35
25 7 0.23
ACGTcount: A:0.10, C:0.03, G:0.10, T:0.77
Consensus pattern (22 bp):
ATTTTATTTTTGTGGTTTTTTT
Found at i:6729128 original size:3 final size:3
Alignment explanation
Indices: 6729120--6729149 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
6729110 TTTTCAATAT
6729120 TTA TTA TTA TTA TTA TTA TTA TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
6729150 GTATATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6729239 original size:34 final size:33
Alignment explanation
Indices: 6729161--6729240 Score: 83
Period size: 34 Copynumber: 2.5 Consensus size: 33
6729151 TATATTTATT
*
6729161 CTCCCTTAA-TTT-TATTTATATTTTAAATTCG
1 CTCCCTTAATTTTATATTTATATATTAAATTCG
** * * *
6729192 CTCTTTTATTTTTAATATTTTTATATTAAATTTG
1 CTCCCTTAATTTT-ATATTTATATATTAAATTCG
6729226 CTCCCTTAATTTTAT
1 CTCCCTTAATTTTAT
6729241 TTACATTTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
31 6 0.16
32 3 0.08
33 2 0.05
34 26 0.70
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.59
Consensus pattern (33 bp):
CTCCCTTAATTTTATATTTATATATTAAATTCG
Found at i:6731499 original size:47 final size:46
Alignment explanation
Indices: 6731411--6731525 Score: 106
Period size: 47 Copynumber: 2.4 Consensus size: 46
6731401 TTAGTAAGGC
* ** *
6731411 AAGGATTCCGTGTAAGACCATGTCAAGACATGGCATCGGCATT-GATT
1 AAGGA-TCCATGTAAGACCACATCAAGACATGACATCGGCATTAGA-T
* ** *
6731458 CAGGACTCCATGTAAGACCACATCAAGATGTGACATTGGCATTAAGAT
1 AAGGA-TCCATGTAAGACCACATCAAGACATGACATCGGCATT-AGAT
6731506 AAGGATACCATGTAAGACCA
1 AAGGAT-CCATGTAAGACCA
6731526 TGTTTGGAAC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
47 35 0.64
48 18 0.33
49 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (46 bp):
AAGGATCCATGTAAGACCACATCAAGACATGACATCGGCATTAGAT
Found at i:6731682 original size:55 final size:54
Alignment explanation
Indices: 6731553--6731760 Score: 224
Period size: 53 Copynumber: 3.9 Consensus size: 54
6731543 TTGGTAACAT
* *
6731553 AAGGATATCATGTAAGACCATGCCAATG-CATGGCGTTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCATTGATAAGTTCTATAAGGC
* * * * *
6731607 AAGGAAATCATGTAAGACCATGTCAAGACATGGTATTGATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
6731662 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
6731715 AAGGATACCACGTAAGACCATGTCAAGACATGTCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
6731761 AAAAAGGAAA
Statistics
Matches: 129, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 40 0.31
55 40 0.31
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:6731758 original size:108 final size:109
Alignment explanation
Indices: 6731561--6731759 Score: 294
Period size: 108 Copynumber: 1.8 Consensus size: 109
6731551 ATAAGGATAT
* * * *
6731561 CATGTAAGACCATGCCAATGCATGGCGTTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
6731626 ATGTCAAGACATGGTATTGATAAGTTACTATAAGACAAAGGTCC
66 ATGTCAAGACATGGTAATGATAAGTTACTATAAGACAAAGGTCC
* * *
6731670 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
6731734 ATGTCAAGACAT-GTCAATGGTAAGTT
66 ATGTCAAGACATGGT-AATGATAAGTT
6731760 CAAAAAGGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 2 0.03
108 44 0.55
109 34 0.43
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGTAATGATAAGTTACTATAAGACAAAGGTCC
Done.