Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008736.1 Hibiscus syriacus cultivar Beakdansim tig00111810_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2478687
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 13
Found at i:1740209 original size:42 final size:40
Alignment explanation
Indices: 1740141--1740218 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 40
1740131 ATATTTTTAA
1740141 ATAAATAAATATTTTTATATATAATTTTGAAATAATAGGATT
1 ATAAATAAATATTTTTATATATAATTTT--AATAATAGGATT
*
1740183 ATAAATTAAATATATTTT-TTTA-AATTTTAATAATAG
1 ATAAA-TAAATAT-TTTTATATATAATTTTAATAATAG
1740219 AGACAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
40 8 0.24
42 11 0.33
43 10 0.30
44 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (40 bp):
ATAAATAAATATTTTTATATATAATTTTAATAATAGGATT
Found at i:1745698 original size:116 final size:115
Alignment explanation
Indices: 1745459--1745689 Score: 308
Period size: 116 Copynumber: 2.0 Consensus size: 115
1745449 TCATTTCAAT
1745459 AAAAATATCAATTTAATTTATAACGGGACAATGATTCCGCCAGAAATTTTGTTCAACTTTAATTA
1 AAAAATATCAATTTAATTTATAACGGGACAATGATTCCGCCAGAAATTTTGTTCAACTTTAATTA
* * *
1745524 AAATATACTAATTTAATTTGTGATGGAATAATCATTCTATCGGAAATAAAA
66 AAACATACTAATTTAATTTGTGAT-GAATAATCATTCCATCAGAAATAAAA
* * ** * *
1745575 AAAAATATCAATTTACTTTATGACGGGACAATGATTTTG-CGGAGATTTTGTTCAACTTTAATTA
1 AAAAATATCAATTTAATTTATAACGGGACAATGATTCCGCCAGAAATTTTGTTCAACTTTAATTA
* * * *
1745639 AAACATACT-ATTT-ATTTGTGAT-AATAGTTATTCCGTCATAAATAAAA
66 AAACATACTAATTTAATTTGTGATGAATAATCATTCCATCAGAAATAAAA
1745686 AAAA
1 AAAA
1745690 CTTTAATATT
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
111 23 0.23
113 9 0.09
114 4 0.04
115 31 0.30
116 35 0.34
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (115 bp):
AAAAATATCAATTTAATTTATAACGGGACAATGATTCCGCCAGAAATTTTGTTCAACTTTAATTA
AAACATACTAATTTAATTTGTGATGAATAATCATTCCATCAGAAATAAAA
Found at i:1745936 original size:38 final size:39
Alignment explanation
Indices: 1745885--1745966 Score: 96
Period size: 41 Copynumber: 2.1 Consensus size: 39
1745875 ATAAGAAATT
*
1745885 CACTCTTTCAAA-TCTCTGTGAGACCACACCAACAAAGC
1 CACTCTTTCAAATTCTCTGCGAGACCACACCAACAAAGC
* *
1745923 CACTC-TTCTAAATCTTCTCTGCGGGACTACACCAACAAAGC
1 CACTCTTTC-AAA--TTCTCTGCGAGACCACACCAACAAAGC
1745964 CAC
1 CAC
1745967 ACTAGAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 3 0.08
38 8 0.22
41 26 0.70
ACGTcount: A:0.32, C:0.35, G:0.11, T:0.22
Consensus pattern (39 bp):
CACTCTTTCAAATTCTCTGCGAGACCACACCAACAAAGC
Found at i:1753971 original size:20 final size:21
Alignment explanation
Indices: 1753932--1753971 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1753922 ATATAAAAAT
*
1753932 ATTCTTTCCAAAATACTTGTC
1 ATTCATTCCAAAATACTTGTC
*
1753953 ATTCATTCCAATA-ACTTGT
1 ATTCATTCCAAAATACTTGT
1753972 AAGCTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTCATTCCAAAATACTTGTC
Found at i:1754183 original size:59 final size:59
Alignment explanation
Indices: 1754091--1754219 Score: 195
Period size: 59 Copynumber: 2.2 Consensus size: 59
1754081 CGTAGTGCTT
* **
1754091 TCCCGAATATGACACATAAGGTCGTGCCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
1754150 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
1754209 TCCCGAATATG
1 TCCCGAATATG
1754220 CAGCCTGCTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:1754944 original size:29 final size:29
Alignment explanation
Indices: 1754901--1754964 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
1754891 AATCCCTCTA
* * *
1754901 TTTTCCAAAATTTACGAATTGATCTCCAAC
1 TTTT-CAAAACTTACGAAATGATCCCCAAC
*
1754931 TTTTCAAAACTTACGAAATGATCCCCAAT
1 TTTTCAAAACTTACGAAATGATCCCCAAC
1754960 TTTTC
1 TTTTC
1754965 TAAGACTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (29 bp):
TTTTCAAAACTTACGAAATGATCCCCAAC
Found at i:1762504 original size:31 final size:31
Alignment explanation
Indices: 1762466--1762532 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
1762456 AAAAGTTTTT
* *
1762466 AAATTTGTGATGGAATATGTGGACCTATCAC
1 AAATTTGTGATAGAATATATGGACCTATCAC
* * *
1762497 AAATTTGTGATATAATATATGGATCTGTCAC
1 AAATTTGTGATAGAATATATGGACCTATCAC
1762528 AAATT
1 AAATT
1762533 CCTGACAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (31 bp):
AAATTTGTGATAGAATATATGGACCTATCAC
Found at i:1767939 original size:11 final size:10
Alignment explanation
Indices: 1767925--1767957 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
1767915 TTTTCGAACA
1767925 TTTTTTCTTC
1 TTTTTTCTTC
1767935 TTTTTTCTT-
1 TTTTTTCTTC
1767944 TTTTTT-TTC
1 TTTTTTCTTC
1767953 TTTTT
1 TTTTT
1767958 CAATCAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 11 0.50
10 9 0.41
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:1782933 original size:22 final size:20
Alignment explanation
Indices: 1782905--1782945 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1782895 TTTTAATTAT
1782905 ATAAATAAAAAAATCAATAATA
1 ATAAAT-AAAAAAT-AATAATA
*
1782927 ATAAATAGAAAATAATAAT
1 ATAAATAAAAAATAATAAT
1782946 CAATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
ATAAATAAAAAATAATAATA
Found at i:1785207 original size:84 final size:85
Alignment explanation
Indices: 1785117--1785280 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 85
1785107 GCAATTGTGC
* * * *
1785117 GTCATAAATCTATGGCGCGCATTTATGAC-GAGCATTGCGCGTCATTGAAG-CCCCGTCATAAAT
1 GTCATAAATCTATGACACGCATGTATGACTGA-CATTGCGCGTCATTGAAGCCCCCATCATAAAT
1785180 GAAAATGACACACATTTTTGT
65 GAAAATGACACACATTTTTGT
* * *
1785201 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGTGTCATTGAAGCCCCCATCATAAATG
1 GTCATAAATCTATGACACGCATGTATGACTGACATTGCGCGTCATTGAAGCCCCCATCATAAATG
*
1785266 AAGATGACACACATT
66 AAAATGACACACATT
1785281 CGTGTGTCGT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 42 0.60
85 28 0.40
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (85 bp):
GTCATAAATCTATGACACGCATGTATGACTGACATTGCGCGTCATTGAAGCCCCCATCATAAATG
AAAATGACACACATTTTTGT
Found at i:1789648 original size:37 final size:36
Alignment explanation
Indices: 1789607--1789694 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 36
1789597 GGATTTTTAT
*
1789607 TATATAGTATATAAATATAT-ATATAGTTTTTGAAAAA
1 TATATAGTATATAAATATATAATAT-GATTTTG-AAAA
* *
1789644 TATATAGTGTATATATATATAATATGATTTTGAAAA
1 TATATAGTATATAAATATATAATATGATTTTGAAAA
1789680 TATATAATGTATATA
1 TATAT-A-GTATATA
1789695 GTTTTTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
36 9 0.20
37 25 0.57
38 10 0.23
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (36 bp):
TATATAGTATATAAATATATAATATGATTTTGAAAA
Found at i:1789691 original size:36 final size:39
Alignment explanation
Indices: 1789613--1789694 Score: 116
Period size: 36 Copynumber: 2.2 Consensus size: 39
1789603 TTATTATATA
* *
1789613 GTATATAAATATATATATAGTTTTTGAAAAATATATAGT
1 GTATATAAATATATATATAGATTTTGAAAAATATATAAT
*
1789652 GTATATATATATA-ATAT-GATTTTG-AAAATATATAAT
1 GTATATAAATATATATATAGATTTTGAAAAATATATAAT
1789688 GTATATA
1 GTATATA
1789695 GTTTTTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 18 0.45
37 6 0.15
38 4 0.10
39 12 0.30
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (39 bp):
GTATATAAATATATATATAGATTTTGAAAAATATATAAT
Found at i:1789805 original size:79 final size:79
Alignment explanation
Indices: 1789722--1789873 Score: 295
Period size: 79 Copynumber: 1.9 Consensus size: 79
1789712 GTTTTCATAT
1789722 ATATATATATATATATTTGGCCACTTCAACCCTAAATCGAGAAATGATCCTCTTCACATGATCTT
1 ATATATATATATATATTTGGCCACTTCAACCCTAAATCGAGAAATGATCCTCTTCACATGATCTT
1789787 ATCTACTCCGAGAG
66 ATCTACTCCGAGAG
*
1789801 ATATATATATATATATTTGGCCACTTCAACCCTAAATCGAGAAATGATCCTCTTCACATTATCTT
1 ATATATATATATATATTTGGCCACTTCAACCCTAAATCGAGAAATGATCCTCTTCACATGATCTT
1789866 ATCTACTC
66 ATCTACTC
1789874 ATGATCTTAC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (79 bp):
ATATATATATATATATTTGGCCACTTCAACCCTAAATCGAGAAATGATCCTCTTCACATGATCTT
ATCTACTCCGAGAG
Found at i:1793346 original size:15 final size:15
Alignment explanation
Indices: 1793326--1793359 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1793316 TAGCTAGTGA
1793326 GCAGGCGAATGTGGG
1 GCAGGCGAATGTGGG
1793341 GCAGGCGAATGTGGG
1 GCAGGCGAATGTGGG
1793356 GCAG
1 GCAG
1793360 ACAATGTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.53, T:0.12
Consensus pattern (15 bp):
GCAGGCGAATGTGGG
Found at i:1795791 original size:12 final size:12
Alignment explanation
Indices: 1795774--1795798 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1795764 TTAGGGGTGG
1795774 TAGAGATGAAAA
1 TAGAGATGAAAA
1795786 TAGAGATGAAAA
1 TAGAGATGAAAA
1795798 T
1 T
1795799 TAGGTTTGCT
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:0.56, C:0.00, G:0.24, T:0.20
Consensus pattern (12 bp):
TAGAGATGAAAA
Found at i:1797728 original size:60 final size:60
Alignment explanation
Indices: 1797659--1797779 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
1797649 TTTTATGAGG
1797659 AGTTGAACAATTTATTAACGTTAATATAAAAATTCAAAGATACCAATTGTCAATTTCATA
1 AGTTGAACAATTTATTAACGTTAATATAAAAATTCAAAGATACCAATTGTCAATTTCATA
1797719 AGTTGAACAATTTATTAACGTTAATATAAAAATTCAAAGATACCAATTGTCAATTTCATA
1 AGTTGAACAATTTATTAACGTTAATATAAAAATTCAAAGATACCAATTGTCAATTTCATA
1797779 A
1 A
1797780 ATTCATGATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (60 bp):
AGTTGAACAATTTATTAACGTTAATATAAAAATTCAAAGATACCAATTGTCAATTTCATA
Found at i:1798128 original size:22 final size:22
Alignment explanation
Indices: 1798100--1798147 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1798090 TAATATTTTA
1798100 AATTTTAAGATATAAAA-AT-ATT
1 AATTTT-A-ATATAAAATATCATT
1798122 AATTTTAATATAAAATATCATT
1 AATTTTAATATAAAATATCATT
1798144 AATT
1 AATT
1798148 ATTAGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
21 3 0.12
22 13 0.54
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AATTTTAATATAAAATATCATT
Found at i:1799778 original size:41 final size:42
Alignment explanation
Indices: 1799694--1799778 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
1799684 TGGAAACTAA
1799694 TTGGGGGGATTTCTATCACTGAATTGGGTGCTAGTAGATTTT
1 TTGGGGGGATTTCTATCACTGAATTGGGTGCTAGTAGATTTT
1799736 TTGGGGGGATTTCTATCACTGAATTGGGTGCTAGTAGATTTT
1 TTGGGGGGATTTCTATCACTGAATTGGGTGCTAGTAGATTTT
1799778 T
1 T
1799779 ATTTCGGTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.19, C:0.09, G:0.31, T:0.41
Consensus pattern (42 bp):
TTGGGGGGATTTCTATCACTGAATTGGGTGCTAGTAGATTTT
Found at i:1802840 original size:26 final size:26
Alignment explanation
Indices: 1802785--1802847 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
1802775 ACATACCATG
* * **
1802785 CATCGATGCACTTAGTGCATTTGATG
1 CATCGATGCACTCAGTGCATTTCAAA
1802811 CATCGATGCACTCAG-GCTATTTCAAA
1 CATCGATGCACTCAGTGC-ATTTCAAA
1802837 CATCGAATGCA
1 CATCG-ATGCA
1802848 TTTATGCATC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 2 0.06
26 24 0.77
27 5 0.16
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (26 bp):
CATCGATGCACTCAGTGCATTTCAAA
Found at i:1813782 original size:42 final size:41
Alignment explanation
Indices: 1813729--1813969 Score: 192
Period size: 41 Copynumber: 5.9 Consensus size: 41
1813719 AAAATGAAAC
* * *
1813729 TTTAGCGGCGTTTTT-TCAACAAACGCCGCAATAGGGTGGTAA
1 TTTAGCGGCGTTTTTAT--ATAAACGCCGCAATAGAGTAGTAA
* *
1813771 TTTAGCTGCGTTTTTATATAAACGCCGCAATAGAGTTGT--
1 TTTAGCGGCGTTTTTATATAAACGCCGCAATAGAGTAGTAA
* * * * *
1813810 TTATAGTGACGTTTTCTAAAAAAACACCGCAATAGAGTAGTAA
1 TT-TAGCGGCGTTTT-TATATAAACGCCGCAATAGAGTAGTAA
*
1813853 TTTAGCGGCGTTTTTATATAAACGCCGCAATAGAGTTGT--
1 TTTAGCGGCGTTTTTATATAAACGCCGCAATAGAGTAGTAA
* * * * *
1813892 TTATAGTGGCG-TTTTACAAGAAACGCCGCAA-ATGGGTCGTACA
1 TT-TAGCGGCGTTTTTA-TATAAACGCCGCAATA-GAGTAGTA-A
* *
1813935 -TTAGTGGCGTTTTTATATAAATGCCGCAATAGAGT
1 TTTAGCGGCGTTTTTATATAAACGCCGCAATAGAGT
1813970 TGCTTATAGT
Statistics
Matches: 160, Mismatches: 26, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
39 10 0.06
40 33 0.21
41 83 0.52
42 31 0.19
43 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATATAAACGCCGCAATAGAGTAGTAA
Found at i:1813971 original size:81 final size:81
Alignment explanation
Indices: 1813735--1814045 Score: 373
Period size: 81 Copynumber: 3.8 Consensus size: 81
1813725 AAACTTTAGC
* * *
1813735 GGCGTTTTTTCAACAAACGCCGCAATAGGGTGGTAATTTAGCT-GCGTTTTTATATAAACGCCGC
1 GGCG-TTTTACAAGAAACGCCGCAATAGGGTCGTAATTTAG-TGGCGTTTTTATATAAACGCCGC
1813799 AATAGAGTTGTTTATAGT
64 AATAGAGTTGTTTATAGT
* * * * * *
1813817 GACGTTTT-CTAAAAAAACACCGCAATAGAGTAGTAATTTAGCGGCGTTTTTATATAAACGCCGC
1 GGCGTTTTAC--AAGAAACGCCGCAATAGGGTCGTAATTTAGTGGCGTTTTTATATAAACGCCGC
1813881 AATAGAGTTGTTTATAGT
64 AATAGAGTTGTTTATAGT
*
1813899 GGCGTTTTACAAGAAACGCCGCAA-ATGGGTCGTACA-TTAGTGGCGTTTTTATATAAATGCCGC
1 GGCGTTTTACAAGAAACGCCGCAATA-GGGTCGTA-ATTTAGTGGCGTTTTTATATAAACGCCGC
*
1813962 AATAGAGTTGCTTATAGT
64 AATAGAGTTGTTTATAGT
* * * *
1813980 GTCGTTTTACAAGAAACGCCGCAA-ATGGGTCGTACA-TTAGTAGCGTTTTTCTGTAAACGCCGC
1 GGCGTTTTACAAGAAACGCCGCAATA-GGGTCGTA-ATTTAGTGGCGTTTTTATATAAACGCCGC
1814043 AAT
64 AAT
1814046 TGATTTTAAC
Statistics
Matches: 204, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
80 2 0.01
81 125 0.61
82 76 0.37
83 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (81 bp):
GGCGTTTTACAAGAAACGCCGCAATAGGGTCGTAATTTAGTGGCGTTTTTATATAAACGCCGCAA
TAGAGTTGTTTATAGT
Found at i:1814038 original size:41 final size:40
Alignment explanation
Indices: 1813912--1814044 Score: 112
Period size: 41 Copynumber: 3.3 Consensus size: 40
1813902 GTTTTACAAG
* *
1813912 AAACGCCGCAAATGGGTCGTACATTAGTGGCGTTTTTATAT
1 AAACGCCGCAAATGGGTCGTACATTAGT-GCGTTTTTCTGT
* * * * * *
1813953 AAATGCCGC-AATAGAGT--TGCTTATAGTGTCGTTTTACAAG-
1 AAACGCCGCAAAT-GGGTCGTACAT-TAGTG-CGTTTTTC-TGT
1813993 AAACGCCGCAAATGGGTCGTACATTAGTAGCGTTTTTCTGT
1 AAACGCCGCAAATGGGTCGTACATTAGT-GCGTTTTTCTGT
1814034 AAACGCCGCAA
1 AAACGCCGCAA
1814045 TTGATTTTAA
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
39 4 0.06
40 25 0.36
41 36 0.52
42 4 0.06
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (40 bp):
AAACGCCGCAAATGGGTCGTACATTAGTGCGTTTTTCTGT
Found at i:1815716 original size:43 final size:43
Alignment explanation
Indices: 1815559--1815796 Score: 214
Period size: 43 Copynumber: 5.5 Consensus size: 43
1815549 CTAAAATTTT
* *
1815559 GTTTGT-AGGAAAACGCCGCTAAATATCAACATCT-TCTGCGGC
1 GTTTGTCAGAAAAACGCCGCTAAATATCAACACCTAT-TGCGGC
* * * * *
1815601 GTTTGT-AGGAAAAACGCCGGTAAAAATAAACATCTACTGCGGC
1 GTTTGTCA-GAAAAACGCCGCTAAATATCAACACCTATTGCGGC
* * * *
1815644 GTTTGTGA-AGAAAACGTCGCTAAACATCAACGCCTATTGCGGC
1 GTTTGTCAGA-AAAACGCCGCTAAATATCAACACCTATTGCGGC
* ** * *
1815687 GTTTGTCTGCCAAATGCCGTTAAATATCAACACCTATTGCGGGC
1 GTTTGTCAGAAAAACGCCGCTAAATATCAACACCTATTGC-GGC
* * *
1815731 GTTTTTCAGAAAAACGCCGCTAAATATCAATACCTTTTGCGGC
1 GTTTGTCAGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
**
1815774 GTTTGTTTGAACAAACGCCGCTA
1 GTTTGTCAGAA-AAACGCCGCTA
1815797 TATGTTGTCA
Statistics
Matches: 157, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
42 8 0.05
43 102 0.65
44 47 0.30
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (43 bp):
GTTTGTCAGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
Found at i:1817701 original size:19 final size:19
Alignment explanation
Indices: 1817677--1817724 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
1817667 AATTTTAAGA
1817677 AAAAAAATCAAGTTAAAAG
1 AAAAAAATCAAGTTAAAAG
1817696 AAAAAAATCAAGTTAAAAG
1 AAAAAAATCAAGTTAAAAG
*
1817715 ATAAAAATCA
1 AAAAAAATCA
1817725 GCCTAGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (19 bp):
AAAAAAATCAAGTTAAAAG
Found at i:1819315 original size:37 final size:36
Alignment explanation
Indices: 1819259--1819339 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 36
1819249 CTAATCGGTG
*
1819259 TTGAACCTATATAAGGAATTACCAACTTGATCATAA
1 TTGAACCTAAATAAGGAATTACCAACTTGATCATAA
***
1819295 TTGAACCTACAATAAGGAATTACTTGCTTGATCATAA
1 TTGAACCTA-AATAAGGAATTACCAACTTGATCATAA
*
1819332 CTGAACCT
1 TTGAACCT
1819340 GTAGAGACTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 9 0.23
37 30 0.77
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (36 bp):
TTGAACCTAAATAAGGAATTACCAACTTGATCATAA
Found at i:1819887 original size:56 final size:56
Alignment explanation
Indices: 1819819--1819935 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
1819809 GCTACTTTAG
1819819 ATTTTAGATATGACATGAGTGATTTCATTATTCAGGCAATCAGAGAAATTTTAGAA
1 ATTTTAGATATGACATGAGTGATTTCATTATTCAGGCAATCAGAGAAATTTTAGAA
*
1819875 ATTTTAGATATGACATGAGTGATTTCATTATTCAGGCAATCAGAGAAATTTTAGGA
1 ATTTTAGATATGACATGAGTGATTTCATTATTCAGGCAATCAGAGAAATTTTAGAA
1819931 ATTTT
1 ATTTT
1819936 GGTTTCTCAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (56 bp):
ATTTTAGATATGACATGAGTGATTTCATTATTCAGGCAATCAGAGAAATTTTAGAA
Found at i:1822031 original size:14 final size:14
Alignment explanation
Indices: 1822012--1822040 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1822002 CTCCCCCTTA
1822012 CTTTAACACTTCTC
1 CTTTAACACTTCTC
1822026 CTTTAACACTTCTC
1 CTTTAACACTTCTC
1822040 C
1 C
1822041 CCCTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (14 bp):
CTTTAACACTTCTC
Found at i:1829669 original size:21 final size:21
Alignment explanation
Indices: 1829619--1829670 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1829609 GAAGCTTTAA
*
1829619 GATCATCAATTTCCTTTTGAT
1 GATCATCATTTTCCTTTTGAT
1829640 GATCATCATTTTCCTTTTGAT
1 GATCATCATTTTCCTTTTGAT
1829661 GATCATCATT
1 GATCATCATT
1829671 GACCTTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (21 bp):
GATCATCATTTTCCTTTTGAT
Found at i:1829676 original size:21 final size:21
Alignment explanation
Indices: 1829631--1829677 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
1829621 TCATCAATTT
**
1829631 CCTTTTGATGATCATCATTTT
1 CCTTTTGATGATCATCATTGA
1829652 CCTTTTGATGATCATCATTGA
1 CCTTTTGATGATCATCATTGA
1829673 CCTTT
1 CCTTT
1829678 GAAAGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (21 bp):
CCTTTTGATGATCATCATTGA
Found at i:1832787 original size:20 final size:20
Alignment explanation
Indices: 1832758--1832800 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1832748 ATTCCACCAC
1832758 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGCTCCTAA
* * *
1832778 ATGCATCTATGTGGTCCTAA
1 ATGCAACTATATGCTCCTAA
1832798 ATG
1 ATG
1832801 AGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGCTCCTAA
Found at i:1840843 original size:22 final size:23
Alignment explanation
Indices: 1840818--1840862 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1840808 AAGCATGACC
*
1840818 AAAATCATA-CCTAAAAAATATA
1 AAAATAATATCCTAAAAAATATA
1840840 AAAATAATATCCTAAAAAATATA
1 AAAATAATATCCTAAAAAATATA
1840863 TAATATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.24
Consensus pattern (23 bp):
AAAATAATATCCTAAAAAATATA
Found at i:1840929 original size:25 final size:24
Alignment explanation
Indices: 1840882--1840929 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
1840872 AAATCCTAAT
** *
1840882 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACAAATATAAAC
1840906 TAAAATACCTAAAACAAATATAAA
1 TAAAATA-CTAAAACAAATATAAA
1840930 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAATATAAAC
Found at i:1845506 original size:16 final size:15
Alignment explanation
Indices: 1845480--1845509 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1845470 AAAGGGAAAA
1845480 TAATATAATAAATAG
1 TAATATAATAAATAG
1845495 TAATAGTAATAAATA
1 TAATA-TAATAAATA
1845510 TAAAAGGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
TAATATAATAAATAG
Found at i:1846257 original size:64 final size:63
Alignment explanation
Indices: 1846181--1846299 Score: 186
Period size: 64 Copynumber: 1.9 Consensus size: 63
1846171 AACATCTTAG
1846181 ATCCTAATTAAAACACTTAAAA-CTATCTAAACTAAAATACCTAAAAAATAATATAATATTCTAA
1 ATCCTAATTAAAACAC-TAAAACCTATCTAAACTAAAATACCTAAAAAA-AATATAATATTCTAA
* * *
1846245 ATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAATAAATATAA
1 ATCCTAATTAAAACACTAAAACCTATCTAAACTAAAATACCTAAAAAAAATATAA
1846300 AATATAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
63 12 0.24
64 39 0.76
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.29
Consensus pattern (63 bp):
ATCCTAATTAAAACACTAAAACCTATCTAAACTAAAATACCTAAAAAAAATATAATATTCTAA
Found at i:1846269 original size:19 final size:19
Alignment explanation
Indices: 1846213--1846354 Score: 60
Period size: 19 Copynumber: 7.4 Consensus size: 19
1846203 CTATCTAAAC
**
1846213 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
1846233 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
1846253 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
*
1846272 TAAACTA--AAATACCTAA-
1 TAAAATACTAAA-ACCTAAT
* **
1846289 AATAAATA-TAAAATATAA-
1 TA-AAATACTAAAACCTAAT
* *
1846307 AAATAATATCCTAAAACTTAAT
1 TAA-AATA--CTAAAACCTAAT
* *
1846329 TAAAATACTAATACCTATT
1 TAAAATACTAAAACCTAAT
1846348 TAAAATA
1 TAAAATA
1846355 AAATACAAAG
Statistics
Matches: 92, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
17 5 0.05
18 19 0.21
19 40 0.43
20 9 0.10
21 17 0.18
22 2 0.02
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:1846384 original size:76 final size:75
Alignment explanation
Indices: 1846222--1846396 Score: 210
Period size: 76 Copynumber: 2.3 Consensus size: 75
1846212 CTAAAATACC
* * * * *
1846222 TAAAAAATAATATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT
1 TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAAATAAAATACCT
1846287 AAAATAAATA
66 AAAATAAATA
* *
1846297 TAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAATACCTATTTAAAATAAAATA-C
1 TAAAATAT-AAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAAATAAAATACC
1846361 -AAAGATAAAATA
65 TAAA-AT-AAATA
** * *
1846373 TAATGTTTAAAATATTATCCTAAA
1 TAAAATATAAAATAATATCCTAAA
1846397 CTTGAGTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
74 3 0.03
75 25 0.29
76 58 0.67
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.31
Consensus pattern (75 bp):
TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAAATAAAATACCT
AAAATAAATA
Found at i:1852367 original size:15 final size:15
Alignment explanation
Indices: 1852343--1852373 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1852333 TAAGAGGAAA
1852343 AGAAAAAAAGTGAAG
1 AGAAAAAAAGTGAAG
*
1852358 AGAAACAAAGTGAAG
1 AGAAAAAAAGTGAAG
1852373 A
1 A
1852374 AAAGTGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.26, T:0.06
Consensus pattern (15 bp):
AGAAAAAAAGTGAAG
Found at i:1854273 original size:35 final size:36
Alignment explanation
Indices: 1854178--1854277 Score: 130
Period size: 36 Copynumber: 2.8 Consensus size: 36
1854168 AGAAGAACGA
* *
1854178 AAGGAAACATCGACACTTTCGATTCAAGTCGAACAG
1 AAGGAAGCATCGACACTTTCGATTCAAGTCAAACAG
*
1854214 AAGGAAGCATCGACACTTTCGATTCAAGTCAAACGG
1 AAGGAAGCATCGACACTTTCGATTCAAGTCAAACAG
* ** *
1854250 AAGGAGGTGTC-TCACTTTCGATTCAAGT
1 AAGGAAGCATCGACACTTTCGATTCAAGT
1854278 GTTCATCTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
35 16 0.28
36 41 0.72
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (36 bp):
AAGGAAGCATCGACACTTTCGATTCAAGTCAAACAG
Found at i:1854946 original size:23 final size:23
Alignment explanation
Indices: 1854928--1854988 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1854918 CTCGTATAAA
1854928 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
1854951 TACACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
1854974 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
1854989 TATAAGATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:1855780 original size:64 final size:63
Alignment explanation
Indices: 1855631--1855790 Score: 189
Period size: 63 Copynumber: 2.5 Consensus size: 63
1855621 CCCTTAACGG
* * * * *
1855631 GTGCATCGATGCACTATCTATGCATCGGTGCA-TAAATCCCATTCGATGTTTGTATTTAATGGA
1 GTGCATCGATGCACT-TCTGTGCATCGATACACTAAATCACATTCGATGTTTGTATTTAAAGGA
* * *
1855694 GTGCATCGATGCACTACTTGTGCATCGATACACT-AATGACATTCGATGTTTTTATTTTAAAGGA
1 GTGCATCGATGCACTTC-TGTGCATCGATACACTAAATCACATTCGATGTTTGTA-TTTAAAGGA
*
1855758 GTGCATCGATGCACTTCATGTGCATCAATACAC
1 GTGCATCGATGCACTTC-TGTGCATCGATACAC
1855791 CTTGAACGAT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
62 1 0.01
63 43 0.52
64 39 0.47
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTTCTGTGCATCGATACACTAAATCACATTCGATGTTTGTATTTAAAGGA
Found at i:1861909 original size:23 final size:23
Alignment explanation
Indices: 1861879--1861951 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1861869 CGTATAAATA
*
1861879 CACCGAAGTGCCATGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTG
1861902 CACCGAAGTGCCACGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTG
**
1861925 CACCGAAGTGCTGCGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTG
1861948 CACC
1 CACC
1861952 CACGTAGACA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAATTG
Found at i:1862720 original size:64 final size:63
Alignment explanation
Indices: 1862571--1862730 Score: 189
Period size: 63 Copynumber: 2.5 Consensus size: 63
1862561 TCCCTTCAAG
* * * * *
1862571 GTGCATCGATGCACTATCTATGCATCGGTGCA-TAAATCACATTCGATGTTTGTATCTAATGGG
1 GTGCATCGATGCACT-TCTGTGCATCGATACACTAAATCACATTCGATGTTTGTATCTAAAGGA
* * * *
1862634 GTGCATCGATGCACTACTTGTGCATCGATACACT-AATGACATTCGATGTTTTTATTTTAAAGGA
1 GTGCATCGATGCACTTC-TGTGCATCGATACACTAAATCACATTCGATGTTTGTA-TCTAAAGGA
1862698 GTGCATCGATGCACTTCATGTGCATCGATACAC
1 GTGCATCGATGCACTTC-TGTGCATCGATACAC
1862731 CTTGAACGAT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
62 1 0.01
63 44 0.53
64 38 0.46
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTTCTGTGCATCGATACACTAAATCACATTCGATGTTTGTATCTAAAGGA
Found at i:1863266 original size:13 final size:13
Alignment explanation
Indices: 1863248--1863273 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1863238 GTCTCACGGT
1863248 GAAGAAGAAGAAA
1 GAAGAAGAAGAAA
1863261 GAAGAAGAAGAAA
1 GAAGAAGAAGAAA
1863274 TCTGGAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAA
Found at i:1865436 original size:82 final size:80
Alignment explanation
Indices: 1865298--1865531 Score: 290
Period size: 82 Copynumber: 2.9 Consensus size: 80
1865288 TATAAACTCA
* * *
1865298 AACTTTAGTGGCGTTTATTTAAAAAAGCGTCGCTATAGCCAGATATGTAGTGGCATTTTTGTGAA
1 AACTTTAGTGGCGTTTATGTAAAAAAGC--CGCTATAGCTAGATATATAGTGGCATTTTTGTGAA
*
1865363 AACACTTCTAAAAGCACGC
64 AACACTGCTAAAA--ACGC
* *
1865382 -ACTTTAGTGGCGGTTATGTAAAAAATGCCGCTATAGCTAGATATATAGTGGCATTTTTGGGAAA
1 AACTTTAGTGGCGTTTATGTAAAAAA-GCCGCTATAGCTAGATATATAGTGGCATTTTTGTGAAA
*
1865446 ACGCTGCTAAAAACGC
65 ACACTGCTAAAAACGC
* * ** *
1865462 ATACTTTAGTGACGTTTATGTAAAAAAAGCCGTTATAGCTAGATATATAGTGGTGTTTTTGTGTA
1 A-ACTTTAGTGGCGTTTATGT-AAAAAAGCCGCTATAGCTAGATATATAGTGGCATTTTTGTGAA
1865527 AACAC
64 AACAC
1865532 CACTAAAGTA
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
80 4 0.03
82 96 0.73
83 29 0.22
84 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (80 bp):
AACTTTAGTGGCGTTTATGTAAAAAAGCCGCTATAGCTAGATATATAGTGGCATTTTTGTGAAAA
CACTGCTAAAAACGC
Found at i:1865538 original size:82 final size:81
Alignment explanation
Indices: 1865258--1865538 Score: 287
Period size: 82 Copynumber: 3.4 Consensus size: 81
1865248 GATATCCTAC
* * * ** * * *
1865258 TATATAGTGTCGTGTTTGTGAAAACGTCACTATAAACTCAAACTTTAGTGGCGTTTAT-TTAAAA
1 TATATAGTGGCATTTTTGTGAAAACACCACTAAAAACGC-AACTTTAGTGGCGTTTATGTAAAAA
*
1865322 AAGCGTCGCTATAGCCAGA
65 AAGC--CGCTATAGCTAGA
* ** *
1865341 TATGTAGTGGCATTTTTGTGAAAACACTTCTAAAAGCACGC-ACTTTAGTGGCGGTTATGTAAAA
1 TATATAGTGGCATTTTTGTGAAAACACCACTAAAA--ACGCAACTTTAGTGGCGTTTATGTAAAA
*
1865405 AATGCCGCTATAGCTAGA
64 AAAGCCGCTATAGCTAGA
* * ** *
1865423 TATATAGTGGCATTTTTGGGAAAACGCTGCTAAAAACGCATACTTTAGTGACGTTTATGTAAAAA
1 TATATAGTGGCATTTTTGTGAAAACACCACTAAAAACGCA-ACTTTAGTGGCGTTTATGTAAAAA
*
1865488 AAGCCGTTATAGCTAGA
65 AAGCCGCTATAGCTAGA
** *
1865505 TATATAGTGGTGTTTTTGTGTAAACACCACTAAA
1 TATATAGTGGCATTTTTGTGAAAACACCACTAAA
1865539 GTACGTGTGC
Statistics
Matches: 164, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
80 4 0.02
82 107 0.65
83 42 0.26
84 8 0.05
85 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (81 bp):
TATATAGTGGCATTTTTGTGAAAACACCACTAAAAACGCAACTTTAGTGGCGTTTATGTAAAAAA
AGCCGCTATAGCTAGA
Found at i:1865571 original size:82 final size:82
Alignment explanation
Indices: 1865258--1865571 Score: 258
Period size: 82 Copynumber: 3.8 Consensus size: 82
1865248 GATATCCTAC
* * * * ** * * * * *
1865258 TATATAGTGTCGTGTTTGTGAAAACGTCACTATAAACTCAAACTTTAGTGGCGTTTATTTAAAAA
1 TATATAGTGGCATTTTTGGGAAAACACCACTAAAAACGCATACTTTAGTGGAGTTTATGTAAAAA
*
1865323 A-GCGTCGCTATAGCCAGA
66 ATGC--CGCTATAGCTAGA
* * ** * *
1865341 TATGTAGTGGCATTTTTGTGAAAACACTTCTAAAAGCACGC--ACTTTAGTGGCGGTTATGTAAA
1 TATATAGTGGCATTTTTGGGAAAACACCACTAAAA--ACGCATACTTTAGTGGAGTTTATGTAAA
1865404 AAATGCCGCTATAGCTAGA
64 AAATGCCGCTATAGCTAGA
* **
1865423 TATATAGTGGCATTTTTGGGAAAACGCTGCTAAAAACGCATACTTTAGT-GACGTTTATGTAAAA
1 TATATAGTGGCATTTTTGGGAAAACACCACTAAAAACGCATACTTTAGTGGA-GTTTATGTAAAA
* *
1865487 AAAGCCGTTATAGCTAGA
65 AATGCCGCTATAGCTAGA
** * * * ** * *
1865505 TATATAGTGGTGTTTTTGTGTAAACACCACTAAAGTACGTGTGCTTTAGTGGAGTTTATGTCAAA
1 TATATAGTGGCATTTTTGGGAAAACACCACTAAA-AACGCATACTTTAGTGGAGTTTATGTAAAA
1865570 AA
65 AA
1865572 CATCGCGATA
Statistics
Matches: 190, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
80 4 0.02
81 1 0.01
82 105 0.55
83 73 0.38
84 4 0.02
85 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (82 bp):
TATATAGTGGCATTTTTGGGAAAACACCACTAAAAACGCATACTTTAGTGGAGTTTATGTAAAAA
ATGCCGCTATAGCTAGA
Found at i:1869986 original size:19 final size:19
Alignment explanation
Indices: 1869921--1870004 Score: 62
Period size: 19 Copynumber: 4.3 Consensus size: 19
1869911 AAATAAAATG
*
1869921 AAAATAAATAAATAGTATAAA
1 AAAATATATAAA-A-TATAAA
*
1869942 TAAAATA-ATAAAATATATA
1 -AAAATATATAAAATATAAA
* *
1869961 TACATATATAAAATATAAA
1 AAAATATATAAAATATAAA
* * * *
1869980 AATATATGTATAATATAAT
1 AAAATATATAAAATATAAA
1869999 AAAATA
1 AAAATA
1870005 CTAAATAGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
18 4 0.08
19 35 0.69
20 1 0.02
21 5 0.10
22 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATATATAAAATATAAA
Found at i:1870028 original size:56 final size:58
Alignment explanation
Indices: 1869936--1870090 Score: 138
Period size: 59 Copynumber: 2.6 Consensus size: 58
1869926 AAATAAATAG
* **
1869936 TATAAATAAAATAATA-AAATATATATACATATATAAAATATAAAAATATATGTATA-ATATAA
1 TATAAATAAAA-AATAGTAATA-ATATA-A-A-ATAAAATATAAAAA-ATAAATATACATATAA
** * *
1869998 TA-AAATACTAAATAGTAATAATA-ATAATAAATAAATAAAAAATAAATATACATATAA
1 TATAAATAAAAAATAGTAATAATATAAAATAAA-ATATAAAAAATAAATATACATATAA
*
1870055 TATTAACTAAAAAATAGTAATAATATAAAATAAAAT
1 TA-TAAATAAAAAATAGTAATAATATAAAATAAAAT
1870091 GAAGTAAGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
56 12 0.16
57 17 0.23
59 20 0.27
60 14 0.19
61 10 0.13
62 2 0.03
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (58 bp):
TATAAATAAAAAATAGTAATAATATAAAATAAAATATAAAAAATAAATATACATATAA
Found at i:1870041 original size:21 final size:21
Alignment explanation
Indices: 1869882--1870042 Score: 53
Period size: 21 Copynumber: 7.4 Consensus size: 21
1869872 TTAAAAAAAG
**
1869882 AAAAATAATAATAAGAGCAA-A
1 AAAAATAATAATAA-ATAAATA
* *
1869903 AAAACTAAAAATAAAATGAAAATA
1 AAAAATAATAAT-AAAT--AAATA
*
1869927 AATAAATAGT-ATAAATAAAATA
1 AA-AAATAATAATAAAT-AAATA
* *
1869949 ATAAAAT-ATATATACATATATA
1 A-AAAATAATA-ATAAATAAATA
* * * **
1869971 AAATATAAAAATATATGTATA
1 AAAAATAATAATAAATAAATA
* *
1869992 ATATAATAA-AAT-ACTAAATA
1 A-AAAATAATAATAAATAAATA
*
1870012 GTAATAATAATAATAAATAAATA
1 --AAAAATAATAATAAATAAATA
1870035 AAAAATAA
1 AAAAATAA
1870043 ATATACATAT
Statistics
Matches: 104, Mismatches: 22, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
20 4 0.04
21 43 0.41
22 29 0.28
23 19 0.18
24 5 0.05
25 4 0.04
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
AAAAATAATAATAAATAAATA
Found at i:1870107 original size:2 final size:2
Alignment explanation
Indices: 1870100--1870207 Score: 121
Period size: 2 Copynumber: 54.5 Consensus size: 2
1870090 TGAAGTAAGA
1870100 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * *
1870142 A- AA AA AT AT AT AT AGT AA AC AT AG AT A- AA AA AA AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
1870183 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1870208 ATAGGAAAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
1 2 0.02
2 92 0.96
3 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:1870289 original size:2 final size:2
Alignment explanation
Indices: 1870282--1870312 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1870272 ATATAATTAA
1870282 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1870313 ATAAGGGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1870811 original size:37 final size:37
Alignment explanation
Indices: 1870758--1870859 Score: 138
Period size: 34 Copynumber: 2.8 Consensus size: 37
1870748 ATGATTGTGG
* * * *
1870758 ATCCTATCTTTGGGAGTTTGAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTAT
*
1870795 ATCCTATTTTTAGGAGTTTGAATCCTA--A-AATTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTAT
1870829 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1870860 GACGAAAAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
34 31 0.54
35 1 0.02
36 1 0.02
37 24 0.42
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTAT
Found at i:1871626 original size:83 final size:83
Alignment explanation
Indices: 1871392--1871669 Score: 335
Period size: 83 Copynumber: 3.3 Consensus size: 83
1871382 TGAATGTAAA
* * * * * *
1871392 CGAACTCGAAGGTCTTTGATGACAGGTCA-CCCTTCTAGCCTTGAGTTATGTTGCAAATGATATG
1 CGAACTCGAAGGTCTTTGTTGACAGAT-AGCCCTTCTATCCTTGAGCTATGTTGTAAATGATGTG
* * *
1871456 TCTTGGAGTTAAGCGTAGT
65 CCTTGGAGCTGAGCGTAGT
* * *
1871475 CGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCT-TGCCTTGAGCTATGTTGTAAATAATGT
1 CGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTAT-CCTTGAGCTATGTTGTAAATGATGT
*
1871539 GCCTTCGAGCTGAGCGTAGT
64 GCCTTGGAGCTGAGCGTAGT
* * * * *
1871559 CGAACTCGAAGGTCTTTGCTGACAGATAGCCCTTCTATCCTTGAGCCATGCTATAAATGATGCGC
1 CGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTATCCTTGAGCTATGTTGTAAATGATGTGC
* *
1871624 CTTGGAGCTGAGTGTAAT
66 CTTGGAGCTGAGCGTAGT
1871642 CGAACTCGAAGGTCTTTGTTGACAGATA
1 CGAACTCGAAGGTCTTTGTTGACAGATA
1871670 CTCATTCTTT
Statistics
Matches: 166, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
83 98 0.59
84 68 0.41
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (83 bp):
CGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTATCCTTGAGCTATGTTGTAAATGATGTGC
CTTGGAGCTGAGCGTAGT
Found at i:1872284 original size:106 final size:106
Alignment explanation
Indices: 1871857--1872388 Score: 807
Period size: 106 Copynumber: 5.0 Consensus size: 106
1871847 GTACTGTTCT
* * * * * * *
1871857 GAGTCCAATATCCTCCACCGTGAAGTTGAAATTGGTTCTGGAACTGGGAATTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1871922 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * *
1871963 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGGAAGTTATTTG-TGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
1872027 CCAGCCATCCCTTCATTGTAAAGTTGAACTTGTGTTGTCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* *
1872068 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1872132 CCAGCAGTCACTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * *
1872173 GAGTCCAATATCCTTCGCTGTGAACTTGAAACTGGCTCTAAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1872238 CCAGGCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* *
1872279 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1872344 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
1872385 GAGT
1 GAGT
1872389 GGCACGATAT
Statistics
Matches: 382, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
104 3 0.01
105 180 0.47
106 199 0.52
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
Found at i:1873349 original size:22 final size:22
Alignment explanation
Indices: 1873324--1873374 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1873314 TTGTGTTTGG
*
1873324 TCAAAGTTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
1873346 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1873368 TCAAAGG
1 TCAAAGG
1873375 ATTGATGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1874001 original size:9 final size:8
Alignment explanation
Indices: 1873979--1874039 Score: 72
Period size: 8 Copynumber: 7.5 Consensus size: 8
1873969 TTTTTGTCCC
1873979 TTTTTC-T
1 TTTTTCTT
1873986 TTTTTCTT
1 TTTTTCTT
1873994 TTTGTTC-T
1 TTT-TTCTT
*
1874002 TGTTTCTCT
1 TTTTTCT-T
1874011 TTTTTCTT
1 TTTTTCTT
1874019 TTTTTGCTT
1 TTTTT-CTT
1874028 TTTTTCTT
1 TTTTTCTT
1874036 TTTT
1 TTTT
1874040 GTTCTTGATT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
7 9 0.19
8 20 0.43
9 18 0.38
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1877459 original size:18 final size:19
Alignment explanation
Indices: 1877433--1877468 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1877423 GCAGATGATG
*
1877433 GAAATAAAAT-AAAAGAGA
1 GAAAAAAAATGAAAAGAGA
1877451 GAAAAAAAATGAAAAGAG
1 GAAAAAAAATGAAAAGAG
1877469 TTAGTAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.08
Consensus pattern (19 bp):
GAAAAAAAATGAAAAGAGA
Found at i:1878775 original size:17 final size:16
Alignment explanation
Indices: 1878746--1878797 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 16
1878736 AATATAATGA
1878746 AAATAAATAAATAGTAT
1 AAATAAATAAATA-TAT
1878763 AAATAAAATAATATATAT
1 AAAT-AAATAA-ATATAT
* * *
1878781 ATATATATATATATAT
1 AAATAAATAAATATAT
1878797 A
1 A
1878798 TATATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 7 0.23
17 8 0.27
18 12 0.40
19 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AAATAAATAAATATAT
Found at i:1878780 original size:2 final size:2
Alignment explanation
Indices: 1878773--1878803 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1878763 AAATAAAATA
1878773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1878804 AAATGTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1878995 original size:2 final size:2
Alignment explanation
Indices: 1878988--1879016 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1878978 ATAGATAAAA
1878988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1879017 GGAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1879087 original size:2 final size:2
Alignment explanation
Indices: 1879075--1879113 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
1879065 AATAAATAAA
1879075 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1879114 AGGGTTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1879611 original size:37 final size:37
Alignment explanation
Indices: 1879558--1879660 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
1879548 ATGCTTGTAG
* * *
1879558 ATCCTATCTTTGGGAGTTTGAATCATAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTATAACTCT
*
1879595 ATCCTATTTTTAGGAGTTTGAATCCTA--A-AATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTATAACTCT
*
1879629 ATCTTATTTTTTAGGAGTTTGAATCCTAGTAT
1 ATCCTA-TTTTTAGGAGTTTGAATCCTAGTAT
1879661 GACGAAAAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
34 10 0.18
35 22 0.39
37 25 0.44
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.45
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTATAACTCT
Found at i:1884927 original size:41 final size:39
Alignment explanation
Indices: 1884878--1884970 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 39
1884868 AAAGATATAG
* * *
1884878 AGCGGTGTTT-TTCAACAACGTCGCTAAATATCATAACCTTT
1 AGCGGTGTTTATGCAA-AACATCGCTAAAAAT-A-AACCTTT
*
1884919 AGCGGTGTTTATGGAAAACATCGCTAAAAATAAACCTTT
1 AGCGGTGTTTATGCAAAACATCGCTAAAAATAAACCTTT
*
1884958 AGCGATGTTTATG
1 AGCGGTGTTTATG
1884971 GACAATAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 19 0.41
40 1 0.02
41 23 0.50
42 3 0.07
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (39 bp):
AGCGGTGTTTATGCAAAACATCGCTAAAAATAAACCTTT
Found at i:1886541 original size:36 final size:36
Alignment explanation
Indices: 1886501--1886734 Score: 263
Period size: 36 Copynumber: 6.5 Consensus size: 36
1886491 TGGGTAAGAG
* * *
1886501 ATCATGCATATAACCACCAGTAACAAGCACATGTAT
1 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
* * * *
1886537 ATCATGCATATTATCATTAATAGCAAGCACATTTAT
1 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
* * * **
1886573 ATCATACATATAATCATCAGTTGGAAGTGCATGTAT
1 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
*
1886609 ATCATGCATATAATCATCATTAGCAAGCACATGTAT
1 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
* * * *
1886645 ATCATGCATATAATCATCAATACCAATCACGTGTAT
1 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
* * **
1886681 GTCATGCATAT-ATCATCAGTAGTAAGTGCATGTAT
1 ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
*
1886716 ATCAAGCATATAATCATCA
1 ATCATGCATATAATCATCA
1886735 CCAACAAGAA
Statistics
Matches: 161, Mismatches: 36, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
35 26 0.16
36 135 0.84
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (36 bp):
ATCATGCATATAATCATCAGTAGCAAGCACATGTAT
Found at i:1886636 original size:108 final size:107
Alignment explanation
Indices: 1886501--1886773 Score: 332
Period size: 108 Copynumber: 2.5 Consensus size: 107
1886491 TGGGTAAGAG
* * * * *
1886501 ATCATGCATATAACCACCAGTAACAAGCACATGTATATCATGCATATTATCATTAATAGCAAGCA
1 ATCATGCATATAATCATCAGTAACAAGCACATGTATATCATGCATATAATCATCAATACCAAGCA
* *
1886566 CATTTATATCATACATATAATCATCAGTTGGAAGTGCATGTAT
66 CATGTATATCATACATAT-ATCATCAGTAGGAAGTGCATGTAT
* * *
1886609 ATCATGCATATAATCATCATTAGCAAGCACATGTATATCATGCATATAATCATCAATACCAATCA
1 ATCATGCATATAATCATCAGTAACAAGCACATGTATATCATGCATATAATCATCAATACCAAGCA
* * * *
1886674 CGTGTATGTCATGCATATATCATCAGTAGTAAGTGCATGTAT
66 CATGTATATCATACATATATCATCAGTAGGAAGTGCATGTAT
* ** * * * *
1886716 ATCAAGCATATAATCATCACCAACAAGAATATATATACCATGCATATAGAT-ATCAATA
1 ATCATGCATATAATCATCAGTAACAAGCACATGTATATCATGCATATA-ATCATCAATA
1886774 TTGATGTATC
Statistics
Matches: 142, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
107 69 0.49
108 73 0.51
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (107 bp):
ATCATGCATATAATCATCAGTAACAAGCACATGTATATCATGCATATAATCATCAATACCAAGCA
CATGTATATCATACATATATCATCAGTAGGAAGTGCATGTAT
Found at i:1886758 original size:71 final size:71
Alignment explanation
Indices: 1886522--1886763 Score: 198
Period size: 72 Copynumber: 3.4 Consensus size: 71
1886512 AACCACCAGT
* * * * *
1886522 AACAAGCACATGTATATCATGCATATTATCATTAATAGCAAGCACATTTATATCATA-CATATAA
1 AACAAGAACATATATATCATGCATA-TATCATCAGTAGCAAGCACATGTATATCA-AGCATATAA
**
1886586 TCATCAGT
64 TCATCAAC
*** ** * * *
1886594 TGGAAGTGCATGTATATCATGCATATAATCATCATTAGCAAGCACATGTATATCATGCATATAAT
1 AACAAGAACATATATATCATGCATAT-ATCATCAGTAGCAAGCACATGTATATCAAGCATATAAT
*
1886659 CATCAAT
65 CATCAAC
* ** * * * * **
1886666 ACCAATCACGTGTATGTCATGCATATATCATCAGTAGTAAGTGCATGTATATCAAGCATATAATC
1 AACAAGAACATATATATCATGCATATATCATCAGTAGCAAGCACATGTATATCAAGCATATAATC
*
1886731 ATCACC
66 ATCAAC
* *
1886737 AACAAGAATATATATACCATGCATATA
1 AACAAGAACATATATATCATGCATATA
1886764 GATATCAATA
Statistics
Matches: 135, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
71 58 0.43
72 77 0.57
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (71 bp):
AACAAGAACATATATATCATGCATATATCATCAGTAGCAAGCACATGTATATCAAGCATATAATC
ATCAAC
Found at i:1886758 original size:107 final size:108
Alignment explanation
Indices: 1886522--1886773 Score: 301
Period size: 107 Copynumber: 2.3 Consensus size: 108
1886512 AACCACCAGT
* * * * * *
1886522 AACAAGCACATGTATATCATGCATATTATCATTAATAGCAAGCACATTTATATCATACATATAAT
1 AACAAGAACATATATATCATGCATATAATCATCAATACCAAGCACATGTATATCATACATATAAT
* * **
1886587 CATCAGTTGGAAGTGCATGTATATCATGCATATAATCATCATT
66 CATCAGTAGGAAGTGCATGTATATCAAGCATATAATCATCACC
* * * * * * *
1886630 AGCAAGCACATGTATATCATGCATATAATCATCAATACCAATCACGTGTATGTCATGCATAT-AT
1 AACAAGAACATATATATCATGCATATAATCATCAATACCAAGCACATGTATATCATACATATAAT
*
1886694 CATCAGTAGTAAGTGCATGTATATCAAGCATATAATCATCACC
66 CATCAGTAGGAAGTGCATGTATATCAAGCATATAATCATCACC
* *
1886737 AACAAGAATATATATACCATGCATATAGAT-ATCAATA
1 AACAAGAACATATATATCATGCATATA-ATCATCAATA
1886774 TTGATGTATC
Statistics
Matches: 124, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
107 69 0.56
108 55 0.44
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (108 bp):
AACAAGAACATATATATCATGCATATAATCATCAATACCAAGCACATGTATATCATACATATAAT
CATCAGTAGGAAGTGCATGTATATCAAGCATATAATCATCACC
Found at i:1887162 original size:36 final size:36
Alignment explanation
Indices: 1887115--1887191 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
1887105 CAGTATAATC
1887115 AACCATCAATAGAAATAATCAGGATAACTTACCTCA
1 AACCATCAATAGAAATAATCAGGATAACTTACCTCA
1887151 AACCATCAATAGAAATAATCAGGATAACTTACCTCA
1 AACCATCAATAGAAATAATCAGGATAACTTACCTCA
1887187 AACCA
1 AACCA
1887192 CCCTATCATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.21
Consensus pattern (36 bp):
AACCATCAATAGAAATAATCAGGATAACTTACCTCA
Found at i:1889072 original size:51 final size:51
Alignment explanation
Indices: 1889010--1889259 Score: 272
Period size: 51 Copynumber: 4.9 Consensus size: 51
1889000 ATTTCAGTAG
* * *
1889010 TGAACTTATCACAGACTTACACAAGTAAAATTTAACACATTATTCTAGCAA
1 TGAACTTATCACTGACTTACACAAGTAAAATTTAACACATTATTCCAACAA
* * * * * * *
1889061 TTAACTTATCACTAACTTACACCAGTTAAATTTAATACATTATTCTAGCAA
1 TGAACTTATCACTGACTTACACAAGTAAAATTTAACACATTATTCCAACAA
* * *
1889112 TGAACTTATCACTGACTTACACCAGTTAAATTTAACACA-TATTCCAATAA
1 TGAACTTATCACTGACTTACACAAGTAAAATTTAACACATTATTCCAACAA
* * * * *
1889162 TGAACTTATCATTGACTTACACTAGTGAAATTTAACACCTAATTCCAACAA
1 TGAACTTATCACTGACTTACACAAGTAAAATTTAACACATTATTCCAACAA
* * *
1889213 TGAACTTATCATTGACTTACGCCAA-TGAAAA-TTAACACAATATTCCA
1 TGAACTTATCACTGACTTAC-ACAAGT-AAAATTTAACACATTATTCCA
1889260 GAGGTGATAC
Statistics
Matches: 172, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 43 0.25
51 124 0.72
52 5 0.03
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (51 bp):
TGAACTTATCACTGACTTACACAAGTAAAATTTAACACATTATTCCAACAA
Found at i:1889195 original size:101 final size:101
Alignment explanation
Indices: 1889010--1889259 Score: 295
Period size: 101 Copynumber: 2.5 Consensus size: 101
1889000 ATTTCAGTAG
* * * * *
1889010 TGAACTTATCACAGACTTACACAAGTAAAATTTAACACATTATTCTAGCAATTAACTTATCACTA
1 TGAACTTATCACTGACTTACACCAGTAAAATTTAACACA-TATTCCAACAATGAACTTATCACTA
* * * * *
1889075 ACTTACACCAGTTAAATTTAATACATTATTCTAGCAA
65 ACTTACACCAGTGAAATTTAACACATAATTCCAACAA
* * * *
1889112 TGAACTTATCACTGACTTACACCAGTTAAATTTAACACATATTCCAATAATGAACTTATCATTGA
1 TGAACTTATCACTGACTTACACCAGTAAAATTTAACACATATTCCAACAATGAACTTATCACTAA
* *
1889177 CTTACACTAGTGAAATTTAACACCTAATTCCAACAA
66 CTTACACCAGTGAAATTTAACACATAATTCCAACAA
* * *
1889213 TGAACTTATCATTGACTTACGCCAATGAAAA-TTAACACAATATTCCA
1 TGAACTTATCACTGACTTACACCAGT-AAAATTTAACAC-ATATTCCA
1889260 GAGGTGATAC
Statistics
Matches: 126, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
101 79 0.63
102 47 0.37
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (101 bp):
TGAACTTATCACTGACTTACACCAGTAAAATTTAACACATATTCCAACAATGAACTTATCACTAA
CTTACACCAGTGAAATTTAACACATAATTCCAACAA
Found at i:1889296 original size:51 final size:51
Alignment explanation
Indices: 1889165--1889459 Score: 217
Period size: 51 Copynumber: 5.8 Consensus size: 51
1889155 CCAATAATGA
* * * * **
1889165 ACTTATCATTGACTTACACTAGTGAAATTTAACACCTAATTCCA-ACAATGA-
1 ACTTAACATAGACTTACACTGGTGAAA-TTAACACTTAATTCCAGA-GGTGAT
* * * *** *
1889216 ACTTATCATTGACTTACGCCAATGAAAATTAACAC-AATATTCCAGAGGTGAT
1 ACTTAACATAGACTTACACTGGTG-AAATTAACACTTA-ATTCCAGAGGTGAT
* * *
1889268 ACTTAACATACACTTACACTGGTGAAATTAACTCTTAATTCCA-ACGGTGGT
1 ACTTAACATAGACTTACACTGGTGAAATTAACACTTAATTCCAGA-GGTGAT
* ** *
1889319 ACTTAACATAGACTTACA-TCGGTTAAATTAACTTTTAATTCCAGTGGT-AGT
1 ACTTAACATAGACTTACACT-GGTGAAATTAACACTTAATTCCAGAGGTGA-T
* ** * * *
1889370 ACTTGACATAGACTTACACCAGTGGAATTAA-ATCTTAATTCCAGCGGTGGT
1 ACTTAACATAGACTTACACTGGTGAAATTAACA-CTTAATTCCAGAGGTGAT
* *
1889421 ACTTAACATAGACTTACACTGATGAAATTAACTCTTAAT
1 ACTTAACATAGACTTACACTGGTGAAATTAACACTTAAT
1889460 ATATTCATGA
Statistics
Matches: 195, Mismatches: 36, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
50 3 0.02
51 170 0.87
52 22 0.11
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (51 bp):
ACTTAACATAGACTTACACTGGTGAAATTAACACTTAATTCCAGAGGTGAT
Found at i:1889299 original size:152 final size:152
Alignment explanation
Indices: 1889010--1889296 Score: 317
Period size: 152 Copynumber: 1.9 Consensus size: 152
1889000 ATTTCAGTAG
* * * *
1889010 TGAACTTATCACAGACTTACACAAGTAAAATTTAACACATTATTCTAGCAATTAACTTATCACTA
1 TGAACTTATCACAGACTTACACAAGTAAAATTTAACACATAATTCCAACAATGAACTTATCACTA
* * * * * * * * *
1889075 ACTTACACCAGTTAAATTTAATACATTATTCTAGCAATGAACTTATCACTGACTTACACCAGTTA
66 ACTTACACCAATGAAAATTAACACAATATTCCAGCAATGAACTTAACACTCACTTACACCAGTGA
1889140 AATTTAACACATATTCCAATAA
131 AATTTAACACATATTCCAATAA
** * * * * *
1889162 TGAACTTATCATTGACTTACACTAGTGAAATTTAACACCTAATTCCAACAATGAACTTATCATTG
1 TGAACTTATCACAGACTTACACAAGTAAAATTTAACACATAATTCCAACAATGAACTTATCACTA
* * **
1889227 ACTTACGCCAATGAAAATTAACACAATATTCCAG-AGGTGATACTTAACA-TACACTTACACTGG
66 ACTTACACCAATGAAAATTAACACAATATTCCAGCA-ATGA-ACTTAACACT-CACTTACACCAG
1889290 TGAAATT
128 TGAAATT
1889297 AACTCTTAAT
Statistics
Matches: 108, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
151 1 0.01
152 85 0.79
153 22 0.20
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (152 bp):
TGAACTTATCACAGACTTACACAAGTAAAATTTAACACATAATTCCAACAATGAACTTATCACTA
ACTTACACCAATGAAAATTAACACAATATTCCAGCAATGAACTTAACACTCACTTACACCAGTGA
AATTTAACACATATTCCAATAA
Found at i:1889360 original size:102 final size:102
Alignment explanation
Indices: 1889254--1889438 Score: 282
Period size: 102 Copynumber: 1.8 Consensus size: 102
1889244 TTAACACAAT
** *
1889254 ATTCCAGAGGT-GATACTTAACATACACTTACACTGGTGAAATTAACTCTTAATTCCAACGGTGG
1 ATTCCAGAGGTAG-TACTTAACATACACTTACACCAGTGAAATTAAATCTTAATTCCAACGGTGG
1889318 TACTTAACATAGACTTACATCGGTTAAATTAACTTTTA
65 TACTTAACATAGACTTACATCGGTTAAATTAACTTTTA
* * * * *
1889356 ATTCCAGTGGTAGTACTTGACATAGACTTACACCAGTGGAATTAAATCTTAATTCCAGCGGTGGT
1 ATTCCAGAGGTAGTACTTAACATACACTTACACCAGTGAAATTAAATCTTAATTCCAACGGTGGT
1889421 ACTTAACATAGACTTACA
66 ACTTAACATAGACTTACA
1889439 CTGATGAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 73 0.99
103 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (102 bp):
ATTCCAGAGGTAGTACTTAACATACACTTACACCAGTGAAATTAAATCTTAATTCCAACGGTGGT
ACTTAACATAGACTTACATCGGTTAAATTAACTTTTA
Found at i:1889449 original size:102 final size:102
Alignment explanation
Indices: 1889254--1889459 Score: 281
Period size: 102 Copynumber: 2.0 Consensus size: 102
1889244 TTAACACAAT
** *
1889254 ATTCCAGAGGTGATACTTAACATACACTTACACTGGTGAAATTAACTCTTAATTCCAACGGTGGT
1 ATTCCAGAGGTGATACTTAACATACACTTACACCAGTGAAATTAAATCTTAATTCCAACGGTGGT
* * *
1889319 ACTTAACATAGACTTACATCGGTTAAATTAACTTTTA
66 ACTTAACATAGACTTACATCGATGAAATTAACTCTTA
* * * * *
1889356 ATTCCAGTGGT-AGTACTTGACATAGACTTACACCAGTGGAATTAAATCTTAATTCCAGCGGTGG
1 ATTCCAGAGGTGA-TACTTAACATACACTTACACCAGTGAAATTAAATCTTAATTCCAACGGTGG
1889420 TACTTAACATAGACTTACA-CTGATGAAATTAACTCTTA
65 TACTTAACATAGACTTACATC-GATGAAATTAACTCTTA
1889458 AT
1 AT
1889460 ATATTCATGA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
101 2 0.02
102 89 0.98
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (102 bp):
ATTCCAGAGGTGATACTTAACATACACTTACACCAGTGAAATTAAATCTTAATTCCAACGGTGGT
ACTTAACATAGACTTACATCGATGAAATTAACTCTTA
Found at i:1891200 original size:19 final size:19
Alignment explanation
Indices: 1891176--1891219 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
1891166 TTTAAGGAGG
1891176 CTCTTCCTCATTCTTATAT
1 CTCTTCCTCATTCTTATAT
1891195 CTCTTCCTCATTCTTATAT
1 CTCTTCCTCATTCTTATAT
1891214 CTCTTC
1 CTCTTC
1891220 TTCTCATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.14, C:0.34, G:0.00, T:0.52
Consensus pattern (19 bp):
CTCTTCCTCATTCTTATAT
Found at i:1891227 original size:21 final size:21
Alignment explanation
Indices: 1891177--1891227 Score: 79
Period size: 19 Copynumber: 2.5 Consensus size: 21
1891167 TTAAGGAGGC
1891177 TCTTCCTCATTCTTATATCTCT
1 TCTT-CTCATTCTTATATCTCT
1891199 TC--CTCATTCTTATATCTCT
1 TCTTCTCATTCTTATATCTCT
1891218 TCTTCTCATT
1 TCTTCTCATT
1891228 GTCTCGTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 19 0.70
21 6 0.22
22 2 0.07
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.55
Consensus pattern (21 bp):
TCTTCTCATTCTTATATCTCT
Found at i:1891256 original size:20 final size:20
Alignment explanation
Indices: 1891215--1891268 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1891205 TTCTTATATC
*
1891215 TCTTCTTCTCATTGTCTCGT
1 TCTTCTTCTTATTGTCTCGT
* *
1891235 TCTTCTTCTTATTGTTTTGT
1 TCTTCTTCTTATTGTCTCGT
*
1891255 TCTTTCTTTTTATT
1 TC-TTCTTCTTATT
1891269 ATTAAGCTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.06, C:0.20, G:0.07, T:0.67
Consensus pattern (20 bp):
TCTTCTTCTTATTGTCTCGT
Found at i:1892759 original size:170 final size:170
Alignment explanation
Indices: 1892477--1892816 Score: 680
Period size: 170 Copynumber: 2.0 Consensus size: 170
1892467 AATGGCACGA
1892477 GGGGTCGTTGGAAATGTGTTAGAGGTTTCAATGGTCTAGTGCTCTCAAGTTCTTTATTTGGCCAA
1 GGGGTCGTTGGAAATGTGTTAGAGGTTTCAATGGTCTAGTGCTCTCAAGTTCTTTATTTGGCCAA
1892542 AATTCAAGTGTCTTCATTTCCATTTTCTTTTCTTTTCTTTTTCTGACATTAACTACTGTATAAAC
66 AATTCAAGTGTCTTCATTTCCATTTTCTTTTCTTTTCTTTTTCTGACATTAACTACTGTATAAAC
1892607 ACATATATTATTGTGTATTCCATCACACAAATGTTCATTT
131 ACATATATTATTGTGTATTCCATCACACAAATGTTCATTT
1892647 GGGGTCGTTGGAAATGTGTTAGAGGTTTCAATGGTCTAGTGCTCTCAAGTTCTTTATTTGGCCAA
1 GGGGTCGTTGGAAATGTGTTAGAGGTTTCAATGGTCTAGTGCTCTCAAGTTCTTTATTTGGCCAA
1892712 AATTCAAGTGTCTTCATTTCCATTTTCTTTTCTTTTCTTTTTCTGACATTAACTACTGTATAAAC
66 AATTCAAGTGTCTTCATTTCCATTTTCTTTTCTTTTCTTTTTCTGACATTAACTACTGTATAAAC
1892777 ACATATATTATTGTGTATTCCATCACACAAATGTTCATTT
131 ACATATATTATTGTGTATTCCATCACACAAATGTTCATTT
1892817 TCATTTTCCT
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (170 bp):
GGGGTCGTTGGAAATGTGTTAGAGGTTTCAATGGTCTAGTGCTCTCAAGTTCTTTATTTGGCCAA
AATTCAAGTGTCTTCATTTCCATTTTCTTTTCTTTTCTTTTTCTGACATTAACTACTGTATAAAC
ACATATATTATTGTGTATTCCATCACACAAATGTTCATTT
Found at i:1893453 original size:37 final size:39
Alignment explanation
Indices: 1893363--1893458 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
1893353 GAAGTCAAAA
* *
1893363 GAAATAATTTGAGAAA-T-AG--TTTAGATTGTTAGGGT
1 GAAATAATTTAAGAAATTAAGAATTTAAATTGTTAGGGT
1893398 GAAATAATTTAAGAAATTAAGAATTTAAATTGTTAGGGT
1 GAAATAATTTAAGAAATTAAGAATTTAAATTGTTAGGGT
* *
1893437 GAAA-ATTTTTAG-AATTAAGAAT
1 GAAATAATTTAAGAAATTAAGAAT
1893459 AGAAAGTCTA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
35 15 0.28
36 1 0.02
37 12 0.23
38 6 0.11
39 19 0.36
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (39 bp):
GAAATAATTTAAGAAATTAAGAATTTAAATTGTTAGGGT
Found at i:1894166 original size:23 final size:23
Alignment explanation
Indices: 1894140--1894210 Score: 106
Period size: 23 Copynumber: 3.1 Consensus size: 23
1894130 AATAATATAT
1894140 TAGGTAACGCTTATATAATGAAA
1 TAGGTAACGCTTATATAATGAAA
* *
1894163 TAGGTAACACTTATATAATGTAA
1 TAGGTAACGCTTATATAATGAAA
* *
1894186 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAACGCTTATATAATGAAA
1894209 TA
1 TA
1894211 AGTATTTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.32
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATGAAA
Found at i:1894636 original size:199 final size:196
Alignment explanation
Indices: 1894289--1894985 Score: 767
Period size: 199 Copynumber: 3.5 Consensus size: 196
1894279 AAGTAAATCA
* *
1894289 GTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCGATTTCAATGTTTT
1 GTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTT
* * * * * * * *
1894354 TTGGATCGACACTTTTTATAAATGTATCGACACTATATGTGTTCACCCTTTTGGGCATTCACTAT
66 TGGGATCGATAC-TTTTAAAAATGTATCGACACTTTATGAGTGCACCCGTTTGGGCATTCATTAT
* * *
1894419 GGAAAAAAGTATCGACACAACATTCAAAAGTGTCAACACATTATGTAGACATATTCTCACATAAA
130 GG-AAAAAGTATCGACACAA-ATTCAAAAGTGTCAATACATTATGTAGACCTATTTTCACATAAA
1894484 ACCG
193 ACCG
** * * * * *
1894488 GTATAAATATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
1 GTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTT
*
1894553 TGGGATTGATACATTTTAAAAATGTATCGACACTTTATGAGTGCACCCGTTT-GGCATTCATTAT
66 TGGGATCGATAC-TTTTAAAAATGTATCGACACTTTATGAGTGCACCCGTTTGGGCATTCATTAT
* * * * *
1894617 GGACAAAATGTATCGACACAAATTTAATAATTGTCGATACTTTATG-ATGACCTATTTTCTCATA
130 GGA-AAAA-GTATCGACACAAATTCAA-AAGTGTCAATACATTATGTA-GACCTATTTTCACATA
1894681 AAACCG
191 AAACCG
* * * * * * *
1894687 GTATATTTTTATCAGTTACATTGTAAATTTACATATTATATTATAATTATCAGTTTCAAT-TTTA
1 GTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTT-
* * * *
1894751 TTGGGATCGATACTTCTAATAATTTTATCGACACTTTATGCGTGCACCCCGTTTGGGCATTCATT
65 TTGGGATCGATACTTTTAA-AAATGTATCGACACTTTATGAGTGCA-CCCGTTTGGGCATTCATT
* * *
1894816 ATGGATAATAAGTATCGACACAAATTACACAAGTGTCAATACATTAGGTTGACCTATTTTCTA-A
128 ATGGA-AA-AAGTATCGACACAAATT-CAAAAGTGTCAATACATTATGTAGACCTATTTTC-ACA
*
1894880 T-TAACCG
189 TAAAACCG
** * * **
1894887 GTATATTTATACCGGTTACATTGTTAATTTATCTATTACATTATAATTATTGGTTTTTGATGTTT
1 GTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGG-TTTCAATG-TT
1894952 TTTGGG-TCGATACTTTTAGAAAATGTATCGACAC
64 TTTGGGATCGATACTTTTA-AAAATGTATCGACAC
1894986 ATATTTAGGT
Statistics
Matches: 412, Mismatches: 70, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
197 1 0.00
198 31 0.08
199 225 0.55
200 56 0.14
201 87 0.21
202 9 0.02
203 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (196 bp):
GTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTT
TGGGATCGATACTTTTAAAAATGTATCGACACTTTATGAGTGCACCCGTTTGGGCATTCATTATG
GAAAAAGTATCGACACAAATTCAAAAGTGTCAATACATTATGTAGACCTATTTTCACATAAAACC
G
Found at i:1895844 original size:201 final size:200
Alignment explanation
Indices: 1895473--1897943 Score: 2782
Period size: 201 Copynumber: 12.3 Consensus size: 200
1895463 GAATGTCAAT
* * * *
1895473 ATTAT-ATTTTGGATTTCGATGTTTCTGGGACCGATACTTTTTAAAACTGTATTGACACTTTATG
1 ATTATAATTATGGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
* * * * *
1895537 GGTGCACCCTTTTTGG-ATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCATAAGTGTCGA
66 CGTGCACCCTTTTTGGTA-TCTCATTATGGA-CAAAAGTATCGACACAAATTCAACAAGTGTCGA
* * * * ** * ** *
1895601 TACATTATGTATATCTATT-TTATCAAAAAACCAATTTATTTATACCGGTTACATTGTAAATTTA
129 CACATTATGTAGACCTATTCTCA-CAAAAAACCGGTATATTTATACCGGTTACATTACAAAATTA
1895665 CCTATTAC
193 CCTATTAC
* * *
1895673 ATTATAATTATCGG-TTTCGATGTTTTTGGGATCGATACTTTTTATAATTGTATCTACACTTTAT
1 ATTATAATTAT-GGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTAT
* *
1895737 GCGTTCACCCTTTTTTGGTCAT-TCATTATGGA-AAAACGTATCGACGCAACATT-AACAAGTGT
65 GCGTGCACCC-TTTTTGGT-ATCTCATTATGGACAAAA-GTATCGACACAA-ATTCAACAAGTGT
* * *
1895799 CGACACATTATGTAGACCTATTCTCACATAAAACCGATATATTTATACCGGTTATATTACAAAAT
126 CGACACATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAAT
*
1895864 TATCTATTAC
191 TACCTATTAC
* *
1895874 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
1 ATTATAATTATGGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
* * * * * *
1895939 GGTGCACTCTTTTTGG-ATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTTTCGA
66 CGTGCACCCTTTTTGGTA-TCTCATTATGGA-CAAAAGTATCGACACAAATTCAACAAGTGTCGA
* * * * * * * ** ** *
1896003 TACATTATGTATATCTATTTTCTCAAAAAACCAGTTTATTTATTTCGGTTACATTGTAAATTTAC
129 CACATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAATTAC
*
1896068 TTATTAC
194 CTATTAC
* * *
1896075 ATTATAATTATCGG-TTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACACTTTAT
1 ATTATAATTAT-GGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTAT
*
1896139 GCGTTCACCCTTTTTTGGTCAT-TCATTATGG-CAAAACGTATCGACACAACATT-AACAAGTGT
65 GCGTGCACCC-TTTTTGGT-ATCTCATTATGGACAAAA-GTATCGACACAA-ATTCAACAAGTGT
* * *
1896201 CGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCAGTTATATTACAAAAT
126 CGACACATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAAT
*
1896266 TATCTATTAC
191 TACCTATTAC
* *
1896276 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
1 ATTATAATTATGGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
* * * * * *
1896341 GGTGCACCCTTTTTAG-ATTCTCCTTGTGGACCAAAAGTATCGAAACAAATTCCACAAGTGTCGA
66 CGTGCACCCTTTTTGGTA-TCTCATTATGGA-CAAAAGTATCGACACAAATTCAACAAGTGTCGA
* * * * * * * ** *
1896405 TACATTATGTATATCTATTTTCTCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTAC
129 CACATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAATTAC
*
1896470 TTATTAC
194 CTATTAC
* * * * *
1896477 ATTATAATTATCGG-TTTCGATATTTTTAGGATTGATACTTTTTATAATTGTATCGACACTTTAT
1 ATTATAATTAT-GGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTAT
* * * *
1896541 GCATTCACCATTTTTTTGTCAT-TCATTATGG-CAAAACGTATCGACACAACATT-AACAAGTGT
65 GCGTGCACC-CTTTTTGGT-ATCTCATTATGGACAAAA-GTATCGACACAA-ATTCAACAAGTGT
* *
1896603 CGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
126 CGACACATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAAT
1896668 TACCTATTAC
191 TACCTATTAC
* * *
1896678 ATTATATTTATGGATTTCGATGTTTTTGGGACCGATACTTTTTAAAACTGTATTGACACTTTATG
1 ATTATAATTATGGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
* * * *
1896743 GGTGCACCCTTTTTGG-ATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGA
66 CGTGCACCCTTTTTGGTA-TCTCATTATGGA-CAAAAGTATCGACACAAATTCAACAAGTGTCGA
* * * * * * * * * * * *
1896807 TACATTATGTATATCTATT-TTATTAAAAAACTGGTTTTTTTATATCGGTTACACTATAAATTTA
129 CACATTATGTAGACCTATTCTCA-CAAAAAACCGGTATATTTATACCGGTTACATTACAAAATTA
1896871 CCTATTAC
193 CCTATTAC
* * *
1896879 ATTATAATTATCGG-TTTCGATGTTTTTGGGATCGATATTTTTTATAATTGTATCGACACTTTAT
1 ATTATAATTAT-GGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTAT
*
1896943 GCGTTCACCCTTTTTGGTCAT-TCATTATGG-CAAAACGTATCGACACAACATT-AACAAGTGTC
65 GCGTGCACCCTTTTTGGT-ATCTCATTATGGACAAAA-GTATCGACACAA-ATTCAACAAGTGTC
* *
1897005 GACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAATT
127 GACACATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAATT
*
1897070 ATCTATTAC
192 ACCTATTAC
* * * *
1897079 ATTATATTTATGGATTTCGATGTTTCTGGGATCGCTACTTTTTAAAACTATATCGACACTTTATG
1 ATTATAATTATGGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
* * * *
1897144 GGTGCACCCTTTTTGG-ATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGA
66 CGTGCACCCTTTTTGGTA-TCTCATTATGGA-CAAAAGTATCGACACAAATTCAACAAGTGTCGA
* * * * * * * ** *
1897208 TACATTATGTATATCTATTTTCTCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTAC
129 CACATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAATTAC
*
1897273 TTATTAC
194 CTATTAC
* * *
1897280 ATTATAATTATCGG-TTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACACTTTAT
1 ATTATAATTAT-GGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTAT
* * *
1897344 GCGTTCACGC-TTTTGGTCAT-TCATTATGG-CAAAATGTATTGACACAACATT-AACAAGTGTC
65 GCGTGCACCCTTTTTGGT-ATCTCATTATGGACAAAA-GTATCGACACAA-ATTCAACAAGTGTC
* *
1897405 GACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAATT
127 GACACATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAATT
1897470 ACCTATTAC
192 ACCTATTAC
* * * *
1897479 ATTATATTTATGGATTTCGATGTTTCTGGGACCGATACTTTTTAAAACTGTATTGACACTTTATG
1 ATTATAATTATGGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
* * *
1897544 -GATGCACCCTTTTTGG-ATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCG
66 CG-TGCACCCTTTTTGGTA-TCTCATTATGGA-CAAAAGTATCGACACAAATTCAACAAGTGTCG
* * * * * * * * * * *
1897607 ATACATTATGTATATCTATT-TTATCAAAAAAACTGGTTTTTTTATATCGGTTACACTATAAATT
128 ACACATTATGTAGACCTATTCTCA-C-AAAAAACCGGTATATTTATACCGGTTACATTACAAAAT
1897671 TACCTATTAC
191 TACCTATTAC
* *
1897681 ATTATAATTATCGG-TTTCGATGTTTTTGGGATCGATACTTTTTATAATTGTATCGACACTTTAT
1 ATTATAATTAT-GGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTAT
* *
1897745 GCGTTCACCCTTTTTGGTCAT-TCATTATGG-CAAAACGTATCCACACAACATT-AACAAGTGTC
65 GCGTGCACCCTTTTTGGT-ATCTCATTATGGACAAAA-GTATCGACACAA-ATTCAACAAGTGTC
* *
1897807 GACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAATT
127 GACACATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAATT
* *
1897872 ATCTATTAT
192 ACCTATTAC
* *
1897881 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTA
1 ATTATAATTATGGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTA
1897944 CAAATTCACA
Statistics
Matches: 1891, Mismatches: 306, Indels: 148
0.81 0.13 0.06
Matches are distributed among these distances:
198 13 0.01
199 155 0.08
200 365 0.19
201 1137 0.60
202 209 0.11
203 8 0.00
204 4 0.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (200 bp):
ATTATAATTATGGATTTCGATGTTTTTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
CGTGCACCCTTTTTGGTATCTCATTATGGACAAAAGTATCGACACAAATTCAACAAGTGTCGACA
CATTATGTAGACCTATTCTCACAAAAAACCGGTATATTTATACCGGTTACATTACAAAATTACCT
ATTAC
Found at i:1896226 original size:402 final size:401
Alignment explanation
Indices: 1895473--1897943 Score: 4370
Period size: 402 Copynumber: 6.2 Consensus size: 401
1895463 GAATGTCAAT
* *
1895473 ATTATATTT-TGGATTTCGATGTTTCTGGGACCGATACTTTTTAAAACTGTATTGACACTTTATG
1 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
*
1895537 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCATAAGTGTCGAT
66 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
*
1895602 ACATTATGTATATCTATTTTATCAAAAAACCAATTTATTTATACCGGTTACATTGTAAATTTACC
131 ACATTATGTATATCTATTTTATCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACC
* *
1895667 TATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTATAATTGTATCTACAC
196 TATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACAC
* *
1895732 TTTATGCGTTCACCCTTTTTTGGTCATTCATTATGGAAAAACGTATCGACGCAACATTAACAAGT
261 TTTATGCGTTCACCC-TTTTTGGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGT
*
1895797 GTCGACACATTATGTAGACCTATTCTCACATAAAACCGATATATTTATACCGGTTATATTACAAA
325 GTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAA
1895862 ATTATCTATTAC
390 ATTATCTATTAC
1895874 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
1 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
* *
1895939 GGTGCACTCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTTTCGAT
66 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
* ** *
1896004 ACATTATGTATATCTATTTTCTCAAAAAACCAGTTTATTTATTTCGGTTACATTGTAAATTTACT
131 ACATTATGTATATCTATTTTATCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACC
1896069 TATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACAC
196 TATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACAC
1896134 TTTATGCGTTCACCCTTTTTTGGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGT
261 TTTATGCGTTCACCC-TTTTTGGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGT
*
1896199 GTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCAGTTATATTACAAA
325 GTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAA
1896264 ATTATCTATTAC
390 ATTATCTATTAC
1896276 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
1 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
* *
1896341 GGTGCACCCTTTTTAGATTCTCCTTGTGGACCAAAAGTATCGAAACAAATTCCACAAGTGTCGAT
66 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
* *
1896406 ACATTATGTATATCTATTTTCTCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACT
131 ACATTATGTATATCTATTTTATCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACC
* *
1896471 TATTACATTATAATTATCGGTTTCGATATTTTTAGGATTGATACTTTTTATAATTGTATCGACAC
196 TATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACAC
* * *
1896536 TTTATGCATTCACCATTTTTTTGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGT
261 TTTATGCGTTCACC-CTTTTTGGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGT
1896601 GTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAA
325 GTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAA
*
1896666 ATTACCTATTAC
390 ATTATCTATTAC
* * *
1896678 ATTATATTTATGGATTTCGATGTTTTTGGGACCGATACTTTTTAAAACTGTATTGACACTTTATG
1 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
1896743 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
66 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
* ** * * * *
1896808 ACATTATGTATATCTATTTTATTAAAAAACTGGTTTTTTTATATCGGTTACACTATAAATTTACC
131 ACATTATGTATATCTATTTTATCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACC
* *
1896873 TATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATATTTTTTATAATTGTATCGACAC
196 TATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACAC
1896938 TTTATGCGTTCACCCTTTTTGGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGTG
261 TTTATGCGTTCACCCTTTTTGGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGTG
1897003 TCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAA
326 TCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAA
1897068 TTATCTATTAC
391 TTATCTATTAC
* *
1897079 ATTATATTTATGGATTTCGATGTTTCTGGGATCGCTACTTTTTAAAACTATATCGACACTTTATG
1 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
1897144 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
66 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
* *
1897209 ACATTATGTATATCTATTTTCTCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACT
131 ACATTATGTATATCTATTTTATCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACC
1897274 TATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACAC
196 TATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACAC
* * *
1897339 TTTATGCGTTCACGC-TTTTGGTCATTCATTATGGCAAAATGTATTGACACAACATTAACAAGTG
261 TTTATGCGTTCACCCTTTTTGGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGTG
1897403 TCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAA
326 TCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAA
*
1897468 TTACCTATTAC
391 TTATCTATTAC
* *
1897479 ATTATATTTATGGATTTCGATGTTTCTGGGACCGATACTTTTTAAAACTGTATTGACACTTTATG
1 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
*
1897544 GATGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
66 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
** * * * *
1897609 ACATTATGTATATCTATTTTATCAAAAAAACTGGTTTTTTTATATCGGTTACACTATAAATTTAC
131 ACATTATGTATATCTATTTTATC-AAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTAC
*
1897674 CTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTATAATTGTATCGACA
195 CTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACA
*
1897739 CTTTATGCGTTCACCCTTTTTGGTCATTCATTATGGCAAAACGTATCCACACAACATTAACAAGT
260 CTTTATGCGTTCACCCTTTTTGGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGT
1897804 GTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAA
325 GTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAA
*
1897869 ATTATCTATTAT
390 ATTATCTATTAC
1897881 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTA
1 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTA
1897944 CAAATTCACA
Statistics
Matches: 1973, Mismatches: 93, Indels: 7
0.95 0.04 0.00
Matches are distributed among these distances:
400 269 0.14
401 504 0.26
402 1200 0.61
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (401 bp):
ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
ACATTATGTATATCTATTTTATCAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACC
TATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTTATAATTGTATCGACAC
TTTATGCGTTCACCCTTTTTGGTCATTCATTATGGCAAAACGTATCGACACAACATTAACAAGTG
TCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAA
TTATCTATTAC
Found at i:1898091 original size:154 final size:154
Alignment explanation
Indices: 1897789--1898097 Score: 390
Period size: 154 Copynumber: 2.0 Consensus size: 154
1897779 ACGTATCCAC
* *
1897789 ACAACATTAACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATAC
1 ACAACATTAACAAGTGTCGACACATTATGTAGACCTATTATCACAAAAAACCGGTATATTTATAC
* * * * *
1897854 CGGTTATATTACAAAATTATCTATTATATTATATTTATGGATTTCGATGTTTCTGGGATCGATAC
66 CGGTTACACTACAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTCTGGGATCGATAC
1897919 TTTTTAAAACTGTATCGACACTTT
131 TTTTTAAAACTGTATCGACACTTT
* * * * * * *
1897943 ACAA-ATTCACAAGTGTCGATACCATTATGTATATCTATTTATCA-AAAAAACTGGTTTTTTTAT
1 ACAACATTAACAAGTGTCGACA-CATTATGTAGACCTA-TTATCACAAAAAACCGGTATATTTAT
* * * *
1898006 ATCGGTTACACTATAAATTTACCTATTACATTATAATTATCGG-TTTCGATGTTTTTGGGATCGA
64 ACCGGTTACACTACAAAATTACCTATTACATTATAATTAT-GGATTTCGATGTTTCTGGGATCGA
* *
1898070 TACTTTTTATAATTGTATCGACACTTT
128 TACTTTTTAAAACTGTATCGACACTTT
1898097 A
1 A
1898098 TGCGTTCACC
Statistics
Matches: 132, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
153 15 0.11
154 110 0.83
155 7 0.05
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.40
Consensus pattern (154 bp):
ACAACATTAACAAGTGTCGACACATTATGTAGACCTATTATCACAAAAAACCGGTATATTTATAC
CGGTTACACTACAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTCTGGGATCGATAC
TTTTTAAAACTGTATCGACACTTT
Found at i:1898557 original size:199 final size:200
Alignment explanation
Indices: 1898137--1898601 Score: 539
Period size: 199 Copynumber: 2.3 Consensus size: 200
1898127 GGCAAACGTT
*
1898137 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
1 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAATTGTATCGACACTTTATG
* * * * *
1898202 GGTGCACCCTTTTTGGATTCTCCTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGAT
66 CGTGCACCCTTTTTGGATTCTCATTATGGA-CAAAAGTATCGACACAAATTCAACAAGTGTCGAC
* * * ** * * * ** * *
1898267 ACATTATGTATATCTATTTTCTCAAAAAACCAGTTTATTTATATCGGTTACATTGTAAATTTACT
130 ACATTATATAGACCTATGCTCACAAAAAACCAGTATATTTATACCGGTTACATTACAAAATTACC
*
1898332 TATTAC
195 TATTAA
* * * * *
1898338 ATTATAATTATCGG-TTTCGATATATT-TGGGTTTGATACTTTTTATAATTGTATCGACACTTTA
1 ATTATATTTAT-GGATTTCGATGT-TTCTGGGATCGATACTTTTTAAAATTGTATCGACACTTTA
* * *
1898401 TGCGTTCACGC-TTTTGG--TCATTCATTATGGA-AAAATGTATTGACACAACATT-AACAAGTG
64 TGCGTGCACCCTTTTTGGATTC--TCATTATGGACAAAA-GTATCGACACAA-ATTCAACAAGTG
* ** *
1898461 TCGACACATTATATAGACCTATGCTCACATAAAACTGGTATATTTATACCGGTTATATTACAAAA
125 TCGACACATTATATAGACCTATGCTCACAAAAAACCAGTATATTTATACCGGTTACATTACAAAA
1898526 TTACCTATTAA
190 TTACCTATTAA
1898537 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAATTGTATCGACACTTTATG
1 ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAATTGTATCGACACTTTATG
1898602 GGAAACTTTA
Statistics
Matches: 220, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
198 10 0.05
199 130 0.59
200 17 0.08
201 59 0.27
202 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (200 bp):
ATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTTTTTAAAATTGTATCGACACTTTATG
CGTGCACCCTTTTTGGATTCTCATTATGGACAAAAGTATCGACACAAATTCAACAAGTGTCGACA
CATTATATAGACCTATGCTCACAAAAAACCAGTATATTTATACCGGTTACATTACAAAATTACCT
ATTAA
Found at i:1899155 original size:21 final size:21
Alignment explanation
Indices: 1899131--1899182 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1899121 GTTATACCTA
*
1899131 AAGCATTGTCTACCGAATGGG
1 AAGCATTGTCGACCGAATGGG
1899152 AAGCATTGTCGACCGAATGGG
1 AAGCATTGTCGACCGAATGGG
1899173 AAGCATTGTC
1 AAGCATTGTC
1899183 AAGGGAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (21 bp):
AAGCATTGTCGACCGAATGGG
Found at i:1899989 original size:18 final size:18
Alignment explanation
Indices: 1899953--1899989 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1899943 ATAATTATTA
*
1899953 TCATCTTCATTGTCATCT
1 TCATCTTCATTGACATCT
*
1899971 TCATCTTCATTGACCTCT
1 TCATCTTCATTGACATCT
1899989 T
1 T
1899990 GGTTGTCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.30, G:0.05, T:0.49
Consensus pattern (18 bp):
TCATCTTCATTGACATCT
Found at i:1901815 original size:198 final size:199
Alignment explanation
Indices: 1901473--1902589 Score: 663
Period size: 200 Copynumber: 5.8 Consensus size: 199
1901463 TTTAAAATGG
* * * * * *
1901473 TATCGACACAAATTTAACAATTGTCGATACTTTATGATGACATATTTTCTCATAAAACCGATATA
1 TATCGACACAAATTCAACAAGTGTCGACACATTATGATGACATATTCTCACATAAAACCGATATA
** *
1901538 TTTATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTATTAGGA
66 TTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTATTAGGA
*
1901603 TTGACACATTTTAAAAATGTATCGACACTTTATGCGTGCA-ACTTTTGGCATTCATTCTAGACAA
131 TCGACACATTTTAAAAATGTATCGACACTTTATGCGTGCACACTTTTGGCATTCATTCTAGACAA
1901667 AAAA
196 AAAA
* * *
1901671 TATCGACACAAATTCCACAAGTGTCGACACATTATG-TAGACCTATTCTCACATAAAACCGGTAT
1 TATCGACACAAATTCAACAAGTGTCGACACATTATGAT-GACATATTCTCACATAAAACCGATAT
* * * *
1901735 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTAT-GGATTTCGATGTT-TCTG
65 ATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGG-TTTCGATGTTAT-TA
* * ** * * *
1901798 GGATCGACACTTTTTAAAATTGTATCGACACTTTATTTGTTCATCATTTTTGGCATTCATTCTGG
128 GGATCGACACATTTTAAAAATGTATCGACACTTTATGCGTGCA-CACTTTTGGCATTCATTCTAG
*
1901863 ACAAAAAG
192 ACAAAAAA
* * * * ** * *
1901871 TGTCGATAC--ATT-----A-TGTAGAC-CTATTCT--T-ACATAAAAC-CAGGATATTTATACC
1 TATCGACACAAATTCAACAAGTGTCGACAC-ATTATGATGACAT-ATTCTCA-CATA---AAACC
* * * * *
1901923 GAT-TA-TAATA-CA---AAATTAC---A-T----ATTACATTATAATTATCTGTTTCAATGTTT
60 GATATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTA
* * * * *
1901974 TTGGGATCGACAC--TTT-----T-TAT----A---TATTCGTTCATCATTTTTGGCATTTATTC
125 TTAGGATCGACACATTTTAAAAATGTATCGACACTTTATGCGTGCA-CACTTTTGGCATTCATTC
* *
1902024 TGGACAAAAAG
189 TAGACAAAAAA
* * * * * * * * * *
1902035 TAGCGACACAAAATAAAAAAGTGGCGATACATTATG-TAGACCTATTCTTACATAAAACCGGTCT
1 TATCGACACAAATTCAACAAGTGTCGACACATTATGAT-GACATATTCTCACATAAAACCGATAT
* * * * * *
1902099 AATTATATCAGTTATATTACAAAATTACCTATTACATTATATTTAT-GGATTTTGATATT-TCT-
65 ATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGG-TTTCGATGTTAT-TA
* * * * ** * *
1902161 GTAATCGACACTTTTTAACACTGTATCGACACTTTATTTGTTCATCA-TTTATGGCATTCACTCT
128 G-GATCGACACATTTTAAAAATGTATCGACACTTTATGCGTGCA-CACTTT-TGGCATTCATTCT
* *
1902225 GGACAAAAAG
190 AGACAAAAAA
* * * * * * * *
1902235 TATCGACACAAAATAAAAAAGTGTCGATATATTATG-TAGACCTATTCTTAAATAAAACCGATAT
1 TATCGACACAAATTCAACAAGTGTCGACACATTATGAT-GACATATTCTCACATAAAACCGATAT
* * ** * *
1902299 ATTTATACCATTTATATTACAAAATTACCTATTACATTATAATTATCTATTTCGATGTTTTTGGG
65 ATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTATTAGG
* * * * * * * * *
1902364 AGCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGAATTCATTCTGGAC
130 ATCGACACATTTTAAAAATGTATCGACACTTTATGCGTGCA-CACTTTTGGCATTCATTCTAGAC
*
1902429 AAAAAG
194 AAAAAA
* * * * * * *
1902435 TATCGAAACAAAATAAAAAAGTGTTGATACATTATG-TAGACCTATTCTCACATAAAACC-AGTA
1 TATCGACACAAATTCAACAAGTGTCGACACATTATGAT-GACATATTCTCACATAAAACCGA-TA
* * * *
1902498 TATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATCTGTTTCGATGTT-TGT-
64 TATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTAT-TA
* *
1902561 GAGATCGACACTTTTTATAAATGTATCGA
128 G-GATCGACACATTTTAAAAATGTATCGA
1902590 TACATATGCT
Statistics
Matches: 750, Mismatches: 103, Indels: 130
0.76 0.10 0.13
Matches are distributed among these distances:
164 44 0.06
166 2 0.00
167 1 0.00
171 10 0.01
172 11 0.01
173 6 0.01
174 7 0.01
175 4 0.01
177 9 0.01
179 36 0.05
180 3 0.00
181 1 0.00
183 1 0.00
184 4 0.01
185 31 0.04
187 9 0.01
189 5 0.01
190 6 0.01
191 6 0.01
192 13 0.02
193 10 0.01
197 5 0.01
198 144 0.19
199 6 0.01
200 371 0.49
201 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (199 bp):
TATCGACACAAATTCAACAAGTGTCGACACATTATGATGACATATTCTCACATAAAACCGATATA
TTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTATTAGGA
TCGACACATTTTAAAAATGTATCGACACTTTATGCGTGCACACTTTTGGCATTCATTCTAGACAA
AAAA
Found at i:1902122 original size:185 final size:190
Alignment explanation
Indices: 1901865--1902575 Score: 853
Period size: 200 Copynumber: 3.7 Consensus size: 190
1901855 CATTCTGGAC
1901865 AAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCAGG-ATATTTATACC-GATTA
1 AAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACC-GGTATATTTATACCAG-TTA
* * *
1901928 TAATACAAAATTACATATTACATTATAATTATCTGTTTCAATGTTTTTGGGATCGACAC-TTT-T
64 TATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTAT
* *
1901991 -TAT-A-TATTCGTTCATCATTTTTGGCATTTATTCTGGACAAAAAGTAGCGACACAAAATA
129 GTATCATTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATA
* * * *
1902050 AAAAAGTGGCGATACATTATGTAGACCTATTCTTACATAAAACCGGTCTAATTATATCAGTTATA
1 AAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCAGTTATA
* * * * * **
1902115 TTACAAAATTACCTATTACATTATATTTAT-GGATTTTGATATTTCTGTAATCGACACTTTTTAA
66 TTACAAAATTACCTATTACATTATAATTATCTG-TTTCGATGTTTTTGGGATCGACAC-TTTT--
* * *
1902179 CACTGTATCGACACTTTATTTGTTCATCATTTATGGCATTCACTCTGGACAAAAAGTATCGACAC
127 -A-TGTAT---CA--TTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACAC
1902244 AAAATA
185 AAAATA
* * * *
1902250 AAAAAGTGTCGATATATTATGTAGACCTATTCTTAAATAAAACCGATATATTTATACCATTTATA
1 AAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCAGTTATA
* *
1902315 TTACAAAATTACCTATTACATTATAATTATCTATTTCGATGTTTTTGGGAGCGACACTTTTTATA
66 TTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACAC---TT-T-
* *
1902380 TATGTATCGACACTTTATTCGTTCATCATTTTTGGAATTCATTCTGGACAAAAAGTATCGAAACA
126 TATGTAT---CA--TTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACA
1902445 AAATA
186 AAATA
* * * *
1902450 AAAAAGTGTTGATACATTATGTAGACCTATTCTCACATAAAACCAGTATATTTATACCGGTTATA
1 AAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCAGTTATA
* * *
1902515 TTATAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTGTGAGATCGACACTTTT
66 TTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTT
1902576 TATAAATGTA
Statistics
Matches: 449, Mismatches: 54, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
184 3 0.01
185 101 0.22
186 1 0.00
187 3 0.01
192 1 0.00
193 3 0.01
195 1 0.00
196 1 0.00
197 3 0.01
200 326 0.73
201 1 0.00
202 3 0.01
203 1 0.00
204 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (190 bp):
AAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTATATTTATACCAGTTATA
TTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGGATCGACACTTTTATGT
ATCATTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATA
Found at i:1902176 original size:364 final size:376
Alignment explanation
Indices: 1901645--1902589 Score: 1159
Period size: 364 Copynumber: 2.5 Consensus size: 376
1901635 TGCGTGCAAC
* * * ** * *
1901645 TTTTGGCATTCATTCTAGACAAAAAATATCGACACAAATTCCACAAGTGTCGACACATTATGTAG
1 TTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAG
1901710 ACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTAT
66 ACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTAT
*
1901775 ATTTATGGATTTCGATGTTTCTGGGATCGACACTTTTTAAAATTGTATCGACACTTTATTTGTTC
131 ATTTATGGATTTCGATGTTTCT-GAATCGACACTTTTTAAAA-TGTATCGACACTTTATTTGTTC
* *
1901840 ATCATTTTTGGCATTCA-T-T-C-T-G-GAC-AAAAAGTGTCGATACATTATGTAGACCTATTCT
194 ATCATTTATGGCATTCACTCTGCATCGACACAAAAAAGTGTCGATACATTATGTAGACCTATTCT
*
1901898 TACATAAAACC-AGGATATTTATACCGA-TTATAATACAAAATTACATATTACATTATAATTATC
259 TAAATAAAACCGA-GATATTTATACC-ATTTATAATACAAAATTACATATTACATTATAATTATC
* *
1901961 TGTTTCAATGTTTTTGGGATCGACAC-T-T-T-T-TAT-A-TATTCGTTCATCAT
322 TATTTCAATGTTTTTGGGAGCGACACTTATATATGTATCATTATTCGTTCATCAT
* * *
1902009 TTTTGGCATTTATTCTGGACAAAAAGTAGCGACACAAAATAAAAAAGTGGCGATACATTATGTAG
1 TTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAG
* * * * *
1902074 ACCTATTCTTACATAAAACCGGTCTAATTATATCAGTTATATTACAAAATTACCTATTACATTAT
66 ACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTAT
* * *
1902139 ATTTATGGATTTTGATATTTCTGTAATCGACACTTTTTAACACTGTATCGACACTTTATTTGTTC
131 ATTTATGGATTTCGATGTTTCTG-AATCGACACTTTTTAA-AATGTATCGACACTTTATTTGTTC
*
1902204 ATCATTTATGGCATTCACTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATATATTA
194 ATCATTTATGGCATTCACTCT-G-C-------ATCGACAC-----AAAAAAGTGTCGATACATTA
* * *
1902269 TGTAGACCTATTCTTAAATAAAACCGATATATTTATACCATTTATATTACAAAATTACCTATTAC
245 TGTAGACCTATTCTTAAATAAAACCGAGATATTTATACCATTTATAATACAAAATTACATATTAC
*
1902334 ATTATAATTATCTATTTCGATGTTTTTGGGAGCGACACTTTTTATATATGTATCGACACTTTATT
310 ATTATAATTATCTATTTCAATGTTTTTGGGAGCGACAC---TTATATATGTAT---CA--TTATT
1902399 CGTTCATCAT
367 CGTTCATCAT
* * *
1902409 TTTTGGAATTCATTCTGGACAAAAAGTATCGAAACAAAATAAAAAAGTGTTGATACATTATGTAG
1 TTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAG
* *
1902474 ACCTATTCTCACATAAAACCAGTATATTTATACCGGTTATATTATAAAATTACCTATTACATTAT
66 ACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTAT
* * *
1902539 AATTATCTG-TTTCGATGTTTGTGAGATCGACACTTTTTATAAATGTATCGA
131 ATTTAT-GGATTTCGATGTTTCTGA-ATCGACACTTTTTA-AAATGTATCGA
1902590 TACATATGCT
Statistics
Matches: 490, Mismatches: 48, Indels: 50
0.83 0.08 0.09
Matches are distributed among these distances:
363 1 0.00
364 188 0.38
365 2 0.00
366 1 0.00
369 1 0.00
377 1 0.00
378 1 0.00
379 2 0.00
384 1 0.00
385 110 0.22
386 1 0.00
389 1 0.00
390 1 0.00
391 1 0.00
392 1 0.00
393 3 0.01
397 1 0.00
399 1 0.00
400 170 0.35
401 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (376 bp):
TTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAG
ACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTAT
ATTTATGGATTTCGATGTTTCTGAATCGACACTTTTTAAAATGTATCGACACTTTATTTGTTCAT
CATTTATGGCATTCACTCTGCATCGACACAAAAAAGTGTCGATACATTATGTAGACCTATTCTTA
AATAAAACCGAGATATTTATACCATTTATAATACAAAATTACATATTACATTATAATTATCTATT
TCAATGTTTTTGGGAGCGACACTTATATATGTATCATTATTCGTTCATCAT
Found at i:1902372 original size:200 final size:200
Alignment explanation
Indices: 1901995--1902589 Score: 863
Period size: 200 Copynumber: 3.0 Consensus size: 200
1901985 ACTTTTTATA
* * *
1901995 TATTCGTTCATCATTTTTGGCATTTATTCTGGACAAAAAGTAGCGACACAAAATAAAAAAGTGGC
1 TATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTC
* * * *
1902060 GATACATTATGTAGACCTATTCTTACATAAAACCGGTCTAATTATATCAGTTATATTACAAAATT
66 GATACATTATGTAGACCTATTCTTACATAAAACCGATATATTTATACCAGTTATATTACAAAATT
* ** * *
1902125 ACCTATTACATTATATTTATGGATTTTGATATTTCTGTA-ATCGACACTTTTTA-ACACTGTATC
131 ACCTATTACATTATAATTATCTATTTCGATGTTTCTG-AGATCGACACTTTTTATACA-TGTATC
1902188 GACACTT
194 GACACTT
* * *
1902195 TATTTGTTCATCATTTATGGCATTCACTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTC
1 TATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTC
* * *
1902260 GATATATTATGTAGACCTATTCTTAAATAAAACCGATATATTTATACCATTTATATTACAAAATT
66 GATACATTATGTAGACCTATTCTTACATAAAACCGATATATTTATACCAGTTATATTACAAAATT
* * * *
1902325 ACCTATTACATTATAATTATCTATTTCGATGTTTTTGGGAGCGACACTTTTTATATATGTATCGA
131 ACCTATTACATTATAATTATCTATTTCGATGTTTCTGAGATCGACACTTTTTATACATGTATCGA
1902390 CACTT
196 CACTT
* * *
1902395 TATTCGTTCATCATTTTTGGAATTCATTCTGGACAAAAAGTATCGAAACAAAATAAAAAAGTGTT
1 TATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTC
* * *
1902460 GATACATTATGTAGACCTATTCTCACATAAAACC-AGTATATTTATACCGGTTATATTATAAAAT
66 GATACATTATGTAGACCTATTCTTACATAAAACCGA-TATATTTATACCAGTTATATTACAAAAT
* * *
1902524 TACCTATTACATTATAATTATCTGTTTCGATGTTTGTGAGATCGACACTTTTTATAAATGTATCG
130 TACCTATTACATTATAATTATCTATTTCGATGTTTCTGAGATCGACACTTTTTATACATGTATCG
1902589 A
195 A
1902590 TACATATGCT
Statistics
Matches: 353, Mismatches: 39, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
199 1 0.00
200 350 0.99
201 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (200 bp):
TATTCGTTCATCATTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTC
GATACATTATGTAGACCTATTCTTACATAAAACCGATATATTTATACCAGTTATATTACAAAATT
ACCTATTACATTATAATTATCTATTTCGATGTTTCTGAGATCGACACTTTTTATACATGTATCGA
CACTT
Found at i:1902880 original size:19 final size:19
Alignment explanation
Indices: 1902856--1902904 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1902846 TTACATCCAC
1902856 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1902875 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1902894 ATACAAAATTA
1 ATACAAAATTA
1902905 ACTCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1904481 original size:18 final size:18
Alignment explanation
Indices: 1904458--1904496 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1904448 TCCTCCTCAT
*
1904458 TTCCTCCCTCTTTTTTTC
1 TTCCTCCCTCTTTTCTTC
1904476 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
1904494 TTC
1 TTC
1904497 ATATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:1904723 original size:33 final size:33
Alignment explanation
Indices: 1904681--1904747 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
1904671 CCATCTTAAG
* * *
1904681 TTCATCCCTCAACACCTCTACTTTTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTATTTCACCAC
1904714 TTCACCCCTCAACACCTCAACTTATTTCACCAC
1 TTCACCCCTCAACACCTCAACTTATTTCACCAC
1904747 T
1 T
1904748 CCATTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTATTTCACCAC
Found at i:1904805 original size:21 final size:21
Alignment explanation
Indices: 1904780--1904844 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1904770 CCCATTATGC
*
1904780 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
**
1904801 CTCTCAAGTTTCTCTTTAACT
1 CTCTCAAGTTTCTCTTCGACT
1904822 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1904843 CT
1 CT
1904845 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.15, C:0.32, G:0.09, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:1909194 original size:19 final size:20
Alignment explanation
Indices: 1909151--1909195 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1909141 ATCTTTTTTT
*
1909151 TATTTTTCTTTCGAACAGCC
1 TATTTTTCGTTCGAACAGCC
*
1909171 T-TTTTTCGTTCGAACTG-C
1 TATTTTTCGTTCGAACAGCC
1909189 TATTTTT
1 TATTTTT
1909196 TTTCACATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 19 0.86
20 1 0.05
ACGTcount: A:0.16, C:0.20, G:0.11, T:0.53
Consensus pattern (20 bp):
TATTTTTCGTTCGAACAGCC
Found at i:1914912 original size:181 final size:182
Alignment explanation
Indices: 1914300--1914912 Score: 826
Period size: 182 Copynumber: 3.4 Consensus size: 182
1914290 TCATCATAGA
* * * *
1914300 GACCGATTTTATCATATTTTTACCTGTTATATCATTATGGATTGATACATTTTTATAAA-ATATC
1 GACCGATTTTATCATATTTTTATCTGTTATATCATTGTGGATCGATACATATTTATAAAGA-ATC
* * * *
1914364 GACACTTTATAAGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAA
65 GACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAA
* * *
1914429 TTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTATCTTTTT-GA
130 GTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTGT-TTTTTCGT
*
1914482 GACC-AGTTTTATCATATTTTTATCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATC
1 GACCGA-TTTTATCATATTTTTATCTGTTATATCATTGTGGATCGATACATATTTATAAAGAATC
* * *
1914546 GATACTTTATAGGCGCTAAAATTGTTTCTCCTTTAAATTCACAATGTGTCGATAATTATATTAAA
65 GACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAA
* * * *
1914611 GTATCGACACTTTCAATATATCCGGTATCTCTTTACCGATTTTGTCTTTTCCT
130 GTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTGTTTTTTCGT
*
1914664 GACCGATTTTGTCATATTTTTATCTGTTATATCATTGTGGATCGATACATATTTATAAAGAATCG
1 GACCGATTTTATCATATTTTTATCTGTTATATCATTGTGGATCGATACATATTTATAAAGAATCG
* * **
1914729 ACACTTTACAGGCGTTAAAACTGTTTCTCCTTTAAATTCAGTATGTGTCGATACTTATATTAAAG
66 ACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAG
* * ** *
1914794 TATCGAC-CGTGCAATATATCCGGTAGCGCTTTATTGGTTTTGTTTTTTCGT
131 TATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTGTTTTTTCGT
* * * *
1914845 GACCGGTTTTATCATATTTTT-TCTTGTTATATTGA-TGTGGATCGATATATTTTTATAAA-ATA
1 GACCGATTTTATCATATTTTTATC-TGTTATA-TCATTGTGGATCGATACATATTTATAAAGA-A
1914907 TCGACA
63 TCGACA
1914913 TAAACCGACA
Statistics
Matches: 382, Mismatches: 42, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
180 3 0.01
181 95 0.25
182 282 0.74
183 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
GACCGATTTTATCATATTTTTATCTGTTATATCATTGTGGATCGATACATATTTATAAAGAATCG
ACACTTTATAGGCGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAG
TATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTGTTTTTTCGT
Found at i:1915508 original size:23 final size:23
Alignment explanation
Indices: 1915478--1915521 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1915468 CCAAGAAACA
1915478 CCCATACTCGGCCACCTCCACTC
1 CCCATACTCGGCCACCTCCACTC
1915501 CCCATACTCGGCCACCTCCAC
1 CCCATACTCGGCCACCTCCAC
1915522 CGCCTCAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.57, G:0.09, T:0.16
Consensus pattern (23 bp):
CCCATACTCGGCCACCTCCACTC
Found at i:1917756 original size:84 final size:84
Alignment explanation
Indices: 1917615--1917781 Score: 334
Period size: 84 Copynumber: 2.0 Consensus size: 84
1917605 GAACGAACAG
1917615 GAGGCACCATGCCTAAAGCTAATCCCTTGAAGGCTTTGTGCAAAGCTCGCCCCATTGTGGAAGGA
1 GAGGCACCATGCCTAAAGCTAATCCCTTGAAGGCTTTGTGCAAAGCTCGCCCCATTGTGGAAGGA
1917680 ACTTTTTATTGATTGCATC
66 ACTTTTTATTGATTGCATC
1917699 GAGGCACCATGCCTAAAGCTAATCCCTTGAAGGCTTTGTGCAAAGCTCGCCCCATTGTGGAAGGA
1 GAGGCACCATGCCTAAAGCTAATCCCTTGAAGGCTTTGTGCAAAGCTCGCCCCATTGTGGAAGGA
1917764 ACTTTTTATTGATTGCAT
66 ACTTTTTATTGATTGCAT
1917782 TCTTGTATGG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (84 bp):
GAGGCACCATGCCTAAAGCTAATCCCTTGAAGGCTTTGTGCAAAGCTCGCCCCATTGTGGAAGGA
ACTTTTTATTGATTGCATC
Found at i:1917981 original size:26 final size:25
Alignment explanation
Indices: 1917933--1917981 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1917923 TCACGGGCTA
*
1917933 AAAACAAAAGTAAAAATTCTTGACG
1 AAAACAAAAGTAAAAATTATTGACG
*
1917958 AAAACAAAAGTAAAATTTTATTGA
1 AAAACAAAAGTAAAA-ATTATTGA
1917982 TTGGAACGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.24
Consensus pattern (25 bp):
AAAACAAAAGTAAAAATTATTGACG
Found at i:1918037 original size:12 final size:12
Alignment explanation
Indices: 1918022--1918046 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1918012 GCATCATCTA
1918022 TTTTATTGATTT
1 TTTTATTGATTT
1918034 TTTTATTGATTT
1 TTTTATTGATTT
1918046 T
1 T
1918047 GCCATAGCTC
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTATTGATTT
Found at i:1919986 original size:42 final size:42
Alignment explanation
Indices: 1919919--1920097 Score: 216
Period size: 43 Copynumber: 4.2 Consensus size: 42
1919909 TGTGAAATAA
* *
1919919 AAACGCCGCAAAAAGTCAAGATCTATAGAGGCTTTTTTGAAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGAGGCGTTTTTGAAAC
* *
1919962 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTAGAC
1 AAACGCCGCAAAAGGTCAGATCTATAGAGGCGTTTTTG-AAAC
* * * *
1920005 AAACGCCGCAAAAGTTCAGATTTGTAGCA-GCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAG-AGGCGTTTTT-GAAAC
* * *
1920048 AAATGCCGCAAAAGGTCAGATCTGTAGTGGCGTTTTTGAAAC
1 AAACGCCGCAAAAGGTCAGATCTATAGAGGCGTTTTTGAAAC
1920090 AAACGCCG
1 AAACGCCG
1920098 TAATTACCAT
Statistics
Matches: 117, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
42 30 0.26
43 86 0.74
44 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATCTATAGAGGCGTTTTTGAAAC
Found at i:1920227 original size:18 final size:19
Alignment explanation
Indices: 1920193--1920228 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1920183 TTTATATAAA
*
1920193 TAACAACAACCATAAATTT
1 TAACAACAACAATAAATTT
1920212 TAACAACAA-AATAAATT
1 TAACAACAACAATAAATT
1920229 AAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (19 bp):
TAACAACAACAATAAATTT
Found at i:1926941 original size:14 final size:14
Alignment explanation
Indices: 1926922--1926964 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1926912 GAGGCATAAT
1926922 AATAATAATAATGA
1 AATAATAATAATGA
* *
1926936 AATAATGATAATGC
1 AATAATAATAATGA
*
1926950 CATAATAAT-ATGA
1 AATAATAATAATGA
1926963 AA
1 AA
1926965 CGTAAATGAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (14 bp):
AATAATAATAATGA
Found at i:1928936 original size:20 final size:20
Alignment explanation
Indices: 1928911--1928950 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1928901 TTTAAAATCT
1928911 CACAATTTGGTCACTAACCC
1 CACAATTTGGTCACTAACCC
1928931 CACAATTTGGTCACTAACCC
1 CACAATTTGGTCACTAACCC
1928951 GATATTGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.35, G:0.10, T:0.25
Consensus pattern (20 bp):
CACAATTTGGTCACTAACCC
Found at i:1930985 original size:8 final size:8
Alignment explanation
Indices: 1930972--1931043 Score: 65
Period size: 9 Copynumber: 8.5 Consensus size: 8
1930962 ATGTATGTAA
*
1930972 AAAATACT
1 AAAATAAT
1930980 AAAATAAT
1 AAAATAAT
1930988 AAAATAAT
1 AAAATAAT
1930996 AATAATAAAT
1 AA-AAT-AAT
*
1931006 GAAA-AAT
1 AAAATAAT
*
1931013 AGAAAAAAT
1 A-AAATAAT
1931022 AATAATAAT
1 AA-AATAAT
1931031 AATAATAAT
1 AA-AATAAT
1931040 AAAA
1 AAAA
1931044 AGAATGGAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
7 3 0.05
8 23 0.42
9 25 0.45
10 4 0.07
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (8 bp):
AAAATAAT
Found at i:1930996 original size:3 final size:3
Alignment explanation
Indices: 1930982--1931041 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
1930972 AAAATACTAA
* *
1930982 AAT AAT AA- AAT AAT AAT AAT AAAT GAAA AAT AGA- AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT A-AT AAT AAT AAT AAT
1931028 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
1931042 AAAGAATGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 3 0.06
3 40 0.82
4 6 0.12
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:1931541 original size:2 final size:2
Alignment explanation
Indices: 1931534--1931575 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1931524 CATCGTGGCG
1931534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1931576 TATTTCTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1932795 original size:36 final size:35
Alignment explanation
Indices: 1932748--1932960 Score: 192
Period size: 36 Copynumber: 6.1 Consensus size: 35
1932738 AGGTTTTTCG
* *
1932748 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-TT
***
1932784 TGTTTCAAGAGAAACAT-T-TC-A-A-AGATTGA--
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAATT
*
1932813 TGTTTCAAGAGAAGCTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAATT
* *
1932849 TGTTTCAAG-GGAACTGTCTCAAGAGAGACAAAAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATT
* * *
1932883 TGTTCCCAGGGAAACTGTCTCAAGAGAGACGTAAA-T
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC--AAATT
*
1932919 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAA-TT
1932956 TGTTT
1 TGTTT
1932961 TTGAGTAAAT
Statistics
Matches: 145, Mismatches: 18, Indels: 27
0.76 0.09 0.14
Matches are distributed among these distances:
28 1 0.01
29 15 0.10
30 2 0.01
31 1 0.01
32 4 0.03
33 3 0.02
34 13 0.09
35 42 0.29
36 54 0.37
37 10 0.07
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (35 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATT
Found at i:1932832 original size:65 final size:68
Alignment explanation
Indices: 1932715--1932857 Score: 195
Period size: 65 Copynumber: 2.1 Consensus size: 68
1932705 GAAAAGTTTG
* * *
1932715 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTCGTGTTTCAAGAGAAACTGTCTCAAGGGAGGCAA
1 TGTTTCAAGAGAAACATTTTCAAAGG-TATTCGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
*
1932780 ATTT
65 AATT
*
1932784 TGTTTCAAGAGAAACA-TTTCAAA-G-ATT-GATGTTTCAAGAGAAGCTGTCTCAAGAGAGACAA
1 TGTTTCAAGAGAAACATTTTCAAAGGTATTCG-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
1932845 AATT
65 AATT
1932849 TGTTTCAAG
1 TGTTTCAAG
1932858 GGAACTGTCT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
64 1 0.01
65 43 0.63
67 1 0.01
68 7 0.10
69 16 0.24
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (68 bp):
TGTTTCAAGAGAAACATTTTCAAAGGTATTCGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
ATT
Found at i:1932870 original size:35 final size:35
Alignment explanation
Indices: 1932813--1932952 Score: 210
Period size: 35 Copynumber: 4.0 Consensus size: 35
1932803 CAAAGATTGA
* *
1932813 TGTTTCAAGAGAAGCTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-T
1932849 TGTTTCAAGGG-AACTGTCTCAAGAGAGACAAAAT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
* * *
1932883 TGTTCCCAGGGAAACTGTCTCAAGAGAGACGTAAAT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAAT
1932919 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1932953 CTTTGTTTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
34 10 0.11
35 42 0.45
36 42 0.45
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (35 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
Found at i:1933556 original size:108 final size:108
Alignment explanation
Indices: 1933427--1933626 Score: 287
Period size: 109 Copynumber: 1.9 Consensus size: 108
1933417 TATTGTTTCA
* ** **
1933427 AGTCCATATCCTTCGCTGTGAAGTT-AAATTGGCTCTGAATAAAACTGGGAAGTTGTTTGTTGAC
1 AGTCCATATCCTTCGCTGTGAAGTTGAAATTGACTCCAAATAAAACTGAAAAGTTGTTTGTTGAC
*
1933491 AGTCAGTCGCCCATTCGCTGTAAAGTTGAGCTTGTGTTTCTCG
66 AGCCAGTCGCCCATTCGCTGTAAAGTTGAGCTTGTGTTTCTCG
*
1933534 AGTCCAATATCCTTCG-TCGTGAAGTTGAAATTGACTCCAAATGAAACTGAAAAGTTGTTTGTTG
1 AGTCC-ATATCCTTCGCT-GTGAAGTTGAAATTGACTCCAAATAAAACTGAAAAGTTGTTTGTTG
* *
1933598 ACAGCCAGTCGCCCCTTCGCTGTGAAGTT
64 ACAGCCAGTCGCCCATTCGCTGTAAAGTT
1933627 AAAATTGACT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 6 0.07
108 18 0.22
109 57 0.70
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (108 bp):
AGTCCATATCCTTCGCTGTGAAGTTGAAATTGACTCCAAATAAAACTGAAAAGTTGTTTGTTGAC
AGCCAGTCGCCCATTCGCTGTAAAGTTGAGCTTGTGTTTCTCG
Found at i:1933624 original size:67 final size:67
Alignment explanation
Indices: 1933544--1933695 Score: 234
Period size: 67 Copynumber: 2.3 Consensus size: 67
1933534 AGTCCAATAT
1933544 CCTTCG-TCGTGAAGTTGAAATTGACTCCAAATGAAACTGAAAAGTTGTTTGTTGACAGCCAGTC
1 CCTTCGCT-GTGAAGTTGAAATTGACTCCAAATGAAACTGAAAAGTTGTTTGTTGACAGCCAGTC
1933608 GCC
65 GCC
* ** * * *
1933611 CCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGATAGTCAGTTG
1 CCTTCGCTGTGAAGTTGAAATTGACTCCAAATGAAACTGAAAAGTTGTTTGTTGACAGCCAGTCG
1933676 CC
66 CC
1933678 CCTTCGCTGTGAAGTTGA
1 CCTTCGCTGTGAAGTTGA
1933696 GCTTGTGTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
67 76 0.99
68 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (67 bp):
CCTTCGCTGTGAAGTTGAAATTGACTCCAAATGAAACTGAAAAGTTGTTTGTTGACAGCCAGTCG
CC
Found at i:1933756 original size:110 final size:108
Alignment explanation
Indices: 1933611--1933911 Score: 412
Period size: 108 Copynumber: 2.8 Consensus size: 108
1933601 GCCAGTCGCC
* * *
1933611 CCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGATAGTCAGTTG
1 CCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGATAG-CAGTCG
* ** ** *
1933676 CCCCTTCGCTGTGAAGTTGAGCTTGTGTTTTCTTGAGTCTAATAT
65 CCCCTTCGCTGTGAAGTTGAGC-TATGTTGCCTCAAGTCCAATAT
* *
1933721 TCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTATTGATAGCCAGTCG
1 CCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGATAG-CAGTCG
*
1933786 -CCCTTCGCTGCGAAGTTGAGCTATGTTGCCTCAAGTCCAATAT
65 CCCCTTCGCTGTGAAGTTGAGCTATGTTGCCTCAAGTCCAATAT
*
1933829 CCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTG--A-CAGTCGC
1 CCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGATAGCAGTCGC
**
1933891 CCCTTCTTTGTGAAGTTGAGC
66 CCCTTCGCTGTGAAGTTGAGC
1933912 AAACCACCAT
Statistics
Matches: 171, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
104 6 0.04
105 18 0.11
106 1 0.01
108 67 0.39
109 20 0.12
110 59 0.35
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (108 bp):
CCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGATAGCAGTCGC
CCCTTCGCTGTGAAGTTGAGCTATGTTGCCTCAAGTCCAATAT
Found at i:1933792 original size:176 final size:175
Alignment explanation
Indices: 1933436--1933802 Score: 556
Period size: 176 Copynumber: 2.1 Consensus size: 175
1933426 AAGTCCATAT
* **
1933436 CCTTCGCTGTGAAGTTAAATTGGCTCTGAATAAAACTGGGAAGTTGTTTGTTGACAGTCAGTCGC
1 CCTTCGCTGTGAAGTTAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGC
1933501 CCATTCGCTGTAAAGTTGAGCTTGTGTTTCTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATT
66 CCATTCGCTGTAAAGTTGAGCTTGTGTTTCTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATT
*
1933566 GACTCCAAATGAAACTGAAAAGTTGTTTGTTGACAGCCAGTCGCC
131 GACTCCAAATGAAACTGAAAAGTTGTTTATTGACAGCCAGTCGCC
* * *
1933611 CCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGATAGTCAGTTG
1 CCTTCGCTGTGAAGTT-AAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGACAGTCAGTCG
* * * * * *
1933676 CCCCTTCGCTGTGAAGTTGAGCTTGTGTTTTCTTGAGTCTAATATTCTTCGTTGTGAAGTTGAAA
65 CCCATTCGCTGTAAAGTTGAGCTTGTG-TTTCTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAA
** *
1933741 TTGACTCTGAATGAAACTGAAAAGTTGTTTATTGATAGCCAGTCG-C
129 TTGACTCCAAATGAAACTGAAAAGTTGTTTATTGACAGCCAGTCGCC
*
1933787 CCTTCGCTGCGAAGTT
1 CCTTCGCTGTGAAGTT
1933803 GAGCTATGTT
Statistics
Matches: 173, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
175 16 0.09
176 83 0.48
177 74 0.43
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (175 bp):
CCTTCGCTGTGAAGTTAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGC
CCATTCGCTGTAAAGTTGAGCTTGTGTTTCTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATT
GACTCCAAATGAAACTGAAAAGTTGTTTATTGACAGCCAGTCGCC
Found at i:1938617 original size:3 final size:3
Alignment explanation
Indices: 1938611--1938722 Score: 54
Period size: 3 Copynumber: 35.0 Consensus size: 3
1938601 AAAAATAAAA
* * *
1938611 AAT AAT AAT AAT AAAT GAAA AAT AGA- AA- AAC AAT AAT AAT AAT AAA
1 AAT AAT AAT AAT -AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
1938657 AAT AAT GGAAT -AT ATAT ATAT ATAT ATAT ATAT AAT -AT ACCAT AAT
1 AAT AAT --AAT AAT A-AT A-AT A-AT A-AT A-AT AAT AAT A--AT AAT
1938703 AAT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
1938723 GTAATATATT
Statistics
Matches: 92, Mismatches: 6, Indels: 22
0.77 0.05 0.18
Matches are distributed among these distances:
2 9 0.10
3 52 0.57
4 25 0.27
5 6 0.07
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1938673 original size:2 final size:2
Alignment explanation
Indices: 1938666--1938695 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1938656 AAATAATGGA
1938666 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1938696 CCATAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1938717 original size:14 final size:14
Alignment explanation
Indices: 1938611--1938728 Score: 66
Period size: 14 Copynumber: 8.3 Consensus size: 14
1938601 AAAAATAAAA
1938611 AATAATAATAATA-
1 AATAATAATAATAT
* *
1938624 AATGA-AA-AATAG
1 AATAATAATAATAT
* *
1938636 AAAAACAATAATAAT
1 AATAATAATAAT-AT
* **
1938651 AATAAAAATAATGG
1 AATAATAATAATAT
1938665 AAT-AT-ATATATAT
1 AATAATAATA-ATAT
1938678 ATATATATATATAATAT
1 A-ATA-ATA-ATAATAT
1938695 ACCATAATAATAATAT
1 A--ATAATAATAATAT
*
1938711 AATAATAATAATGT
1 AATAATAATAATAT
1938725 AATA
1 AATA
1938729 TATTAAATAA
Statistics
Matches: 81, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
11 4 0.05
12 8 0.10
13 10 0.12
14 24 0.30
15 11 0.14
16 10 0.12
17 8 0.10
18 6 0.07
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:1938728 original size:11 final size:11
Alignment explanation
Indices: 1938643--1938720 Score: 56
Period size: 11 Copynumber: 7.1 Consensus size: 11
1938633 TAGAAAAACA
1938643 ATAATAATAAT
1 ATAATAATAAT
1938654 A-AA-AATAAT
1 ATAATAATAAT
**
1938663 GGAAT-ATATAT
1 ATAATAATA-AT
1938674 ATATATATATATAT
1 ATA-ATA-ATA-AT
**
1938688 ATAAT-ATACC
1 ATAATAATAAT
1938698 ATAATAATAAT
1 ATAATAATAAT
1938709 ATAATAATAAT
1 ATAATAATAAT
1938720 A
1 A
1938721 ATGTAATATA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
9 6 0.11
10 12 0.23
11 22 0.42
12 2 0.04
13 2 0.04
14 9 0.17
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:1940266 original size:14 final size:15
Alignment explanation
Indices: 1940229--1940268 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1940219 ATTAACTTAT
1940229 CCAAAACATTAAAGAA
1 CCAAAAC-TTAAAGAA
1940245 CCAAAACTTAAAGAA
1 CCAAAACTTAAAGAA
*
1940260 -GAAAACTTA
1 CCAAAACTTA
1940269 CATCAACCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.35
15 8 0.35
16 7 0.30
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.15
Consensus pattern (15 bp):
CCAAAACTTAAAGAA
Done.