Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 12 of 121
Found at i:1800858 original size:100 final size:101
Alignment explanation
Indices: 1800678--1800858 Score: 240
Period size: 100 Copynumber: 1.8 Consensus size: 101
1800668 TTATTGAATA
* * ** *
1800678 AGATTATTCAAGGCACTTTTGGCTAAAAACACATTGAATAACCCCATTCAATTTTTTGTAAAGAT
1 AGATTATTCAAAGCAATTTTGGCTAAAAACACATTGAATAACCCCACACAATTTTTTGTAAAGAC
*
1800743 TATTCAAGGCGTTTTTAGCCTCATAAACATTAAAGG
66 TATTCAAGGCATTTTTAGCCTCATAAACATTAAAGG
* * * *
1800779 AGATTATTCAAAG-AATTTTGGCTAGAAACACCTTGAATAATCCTACACAATTTTTT-TAAAAGA
1 AGATTATTCAAAGCAATTTTGGCTAAAAACACATTGAATAACCCCACACAATTTTTTGT-AAAGA
*
1800842 CTATTCAAGGTATTTTT
65 CTATTCAAGGCATTTTT
1800859 CTAGCCAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
99 1 0.01
100 55 0.81
101 12 0.18
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (101 bp):
AGATTATTCAAAGCAATTTTGGCTAAAAACACATTGAATAACCCCACACAATTTTTTGTAAAGAC
TATTCAAGGCATTTTTAGCCTCATAAACATTAAAGG
Found at i:1800999 original size:62 final size:62
Alignment explanation
Indices: 1800879--1801046 Score: 161
Period size: 62 Copynumber: 2.8 Consensus size: 62
1800869 ATGCAACGCA
* **
1800879 TTGAATAATCTCTTTATAAAAATTGAAGGGGATTATTCAAGGTGTTTCTGACTAAAAATGCC
1 TTGAATAATCCCTTTATAAAAATTGAAGGGGATTATTCAAGGCATTTCTGACTAAAAATGCC
* * *
1800941 TTGAATAATCCCTTTCA-AAAAATTGGATA-GGG-TTATTCAAGGCATTTTTTACTGAAAATGCC
1 TTGAATAATCCCTTT-ATAAAAATT-GA-AGGGGATTATTCAAGGCATTTCTGACTAAAAATGCC
* * * *
1801003 ---AATAATACCC-TCATAAAAATTGAAAGTGATTATTGAAGGCATTT
1 TTGAATAAT-CCCTTTATAAAAATTGAAGGGGATTATTCAAGGCATTT
1801047 TTTGCCAGAA
Statistics
Matches: 90, Mismatches: 9, Indels: 17
0.78 0.08 0.15
Matches are distributed among these distances:
57 1 0.01
58 5 0.06
59 28 0.31
60 3 0.03
62 46 0.51
63 6 0.07
64 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (62 bp):
TTGAATAATCCCTTTATAAAAATTGAAGGGGATTATTCAAGGCATTTCTGACTAAAAATGCC
Found at i:1801859 original size:144 final size:145
Alignment explanation
Indices: 1801514--1801915 Score: 388
Period size: 145 Copynumber: 2.8 Consensus size: 145
1801504 TTAAAATATT
* * * * * * * * *
1801514 AAAAATCATGAAATATTATAAAATTGATATCTAAAAAGCT-TCATAAAAA-TCTAAGCTTGGGAA
1 AAAAATAATGAAATATTATGAAATTAAGATATGAAAAG-TATCATAAAAATTC-GAGCTCGAGAA
* * * * * * *
1801577 -GGTCAAATTATGAAAATACCCTTCTAGGGATATTTTGGTAATTTTACACTTTTTGAGGTATTGT
64 TGGTCAAATTATGAAAATA-CCTTATAGGGGTATTTTGATAATTTCACACATTTTAAGGTACTGT
1801641 AGTGATTTCAAATGCACC
128 AGTGATTTCAAATGCACC
* * * * *
1801659 AAAAATCATGAAGTATTATGAAATTAAGATTTGAAAAGTTTCATGAAAATTCGAGCTCGA-AATG
1 AAAAATAATGAAATATTATGAAATTAAGATATGAAAAGTATCATAAAAATTCGAGCTCGAGAATG
* *
1801723 GTCAAATTATGAAAATACCATTTTAGGGGTATTTTGATAATTTCACA-ATTTTAAGGTCCTGCT-
66 GTCAAATTATGAAAATACC-TTATAGGGGTATTTTGATAATTTCACACATTTTAAGGTACTG-TA
* *
1801786 GTGGTTTCAAATGCACT
129 GTGATTTCAAATGCACC
* * * *
1801803 AGAAATAATGAAATATTATGAAATTGAGATATG-TAAGATATCATAAAAATTTGAGCTCGAGAAT
1 AAAAATAATGAAATATTATGAAATTAAGATATGAAAAG-TATCATAAAAATTCGAGCTCGAGAAT
** *
1801867 -GTCAAATTACAAAAATATCTCTCATAGGGGTATTTTGATAATTTCACAC
65 GGTCAAATTATGAAAATA-C-CTTATAGGGGTATTTTGATAATTTCACAC
1801916 TTCCAAATAC
Statistics
Matches: 214, Mismatches: 33, Indels: 19
0.80 0.12 0.07
Matches are distributed among these distances:
143 3 0.01
144 92 0.43
145 116 0.54
146 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (145 bp):
AAAAATAATGAAATATTATGAAATTAAGATATGAAAAGTATCATAAAAATTCGAGCTCGAGAATG
GTCAAATTATGAAAATACCTTATAGGGGTATTTTGATAATTTCACACATTTTAAGGTACTGTAGT
GATTTCAAATGCACC
Found at i:1809535 original size:21 final size:20
Alignment explanation
Indices: 1809511--1809553 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1809501 TCGAAAAATA
1809511 AATTCAAATAACTTTTTATAC
1 AATTC-AATAACTTTTTATAC
* *
1809532 AATTCTATAATTTTTTATAC
1 AATTCAATAACTTTTTATAC
1809552 AA
1 AA
1809554 AGCTAACAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTCAATAACTTTTTATAC
Found at i:1811870 original size:734 final size:732
Alignment explanation
Indices: 1810418--1811872 Score: 2264
Period size: 734 Copynumber: 2.0 Consensus size: 732
1810408 GAAAAAATAA
1810418 TTTACATAATACTATATTTTTTGGAATTCTTAGATAAAGTGCTTAATAAAGGTTTTTGTTATCAT
1 TTTACATAATACTATATTTTTTGGAATTCTTAGATAAAGTGCTTAATAAAGGTTTTTGTTATCAT
* * * * *
1810483 GTTTCAGGAAAAGTGATTCTGTTTTTTTAAATAAATAGGCATTTATTATTAAAAATGTTTCAAGA
66 GTTTCAGGAAAAGTGATTCTGTTTTATTAAATAAAAAAGCATTTAATATTAAAAATGTGTCAAGA
* * *
1810548 AAAAAATGTTGCTAACATTAAAATATAAGTTAGATAGAAGGAAGGCGTAAGGAAATTTCGTCCGA
131 AAAAAATGTTGCTAACAGTAAAACATAAGTTAGATAGAAGGAAGGCGCAAGGAAATTTCGTCCGA
* * * * * * *
1810613 AATTATCTGTGTAAACTTGTCAGTGCGTATTGGCCTCCGTTCAAAAGTCAAAACGCATGATAGTC
196 AAATATCAGTGCAAACTTGTCAGTGCGCAGTGGCCTCCCTTCAAAAGTCAAAACACATGATAGTC
1810678 AAGTCTAAAAGGTCTATCAATTAGCAAAGCACAGAAATTAATAAAACTTGTTAGAGGCGATACTA
261 AAGTCTAAAAGGTCTATCAATTAGCAAAGCACAGAAATTAATAAAACTTGTTAGAGGCGATACTA
*
1810743 ATTGGATAAGCCTCCATTAGATTATTAAAACGTCATTTGAAGTCGAACAATTTATATATGGTACT
326 ATCGGATAAGCCTCCATTAGATTATTAAAACGTCATTTGAAGTCGAACAATTTATATATGGTACT
* * * * * *
1810808 AAGGACAGCGATTCTGATTGATTTATCAAAGGTGATCATCTTAGCCCTCTTTTTCTCCATTCACC
391 AAGGAAAGCGATTCTGATCGACTTAGCAAAGGTGATCATCTGAGCCCTCTCTTTCTCCATTCACC
* *
1810873 TTAACATCATTGTCTTTTCTTTCTTTCAGATCTTCCTTCCATTAAACTCTCAAAGCATTTTGTCA
456 TTAACATCATTCTCTTTTCTTTCTTTCAGATCTTCCTTCCATTAAACTCTCAAAGAATTTTGTCA
1810938 CTGTCTTAACTATTAGTTGAACCACAAATGGCTGGAGCTTTCATCGGTGCTATCGTAGAACTGGC
521 CTGTCTTAACTATTAGTTGAACCACAAATGGCTGGAGCTTTCATCGGTGCTATCGTAGAACTGGC
*
1811003 ACTGTCCAAGGCTATCTCCATCATTGAGAAGCAGATCAACCTCGCATGGGGTTTTCAGGACGAGC
586 ACGGTCCAAGGCTATCTCCATCATTGAGAAGCAGATCAACCTCGCATGGGGTTTTCAGGACGAGC
*
1811068 TAAACAAGCTACGCGCCTCACTAGATATGGCTTTAGCTTTCTTGCGAGATGCCGAAAGGAGGCAA
651 TAAACAAGCTACGCGCCTCACTAGATATGGCTCTAGCTTTCTTGCGAGATGCCGAAAGGAGGCAA
1811133 GTTGATATCTCAAAAGG
716 GTTGATATCTCAAAAGG
* * * *
1811150 TTTACATAATACTATATTTTTTGGAATTCTTAG-TACAGTGCTTAA-CAA-TTTTTTTTTATCAT
1 TTTACATAATACTATATTTTTTGGAATTCTTAGATAAAGTGCTTAATAAAGGTTTTTGTTATCAT
* *
1811212 GTTTCAGGAAAATTGATTC-GAATTTTATTAAATAAAAAATCTATTTAATATTAAAAAATGTGTC
66 GTTTCAGGAAAAGTGATTCTG--TTTTATTAAATAAAAAAGC-ATTTAATATT-AAAAATGTGTC
* * *
1811276 AAG-AAAAAATGTTGGTAACAGTAAAACATAAGTTAGATAGAAGGAAGGCGCGAGGACATTTCGT
127 AAGAAAAAAATGTTGCTAACAGTAAAACATAAGTTAGATAGAAGGAAGGCGCAAGGAAATTTCGT
*
1811340 CCGAAAATATCAGTGCAAACTTGTCAGTGGGCAGTGGCCTCCCTTCAAAAGTCAAAACACATGAT
192 CCGAAAATATCAGTGCAAACTTGTCAGTGCGCAGTGGCCTCCCTTCAAAAGTCAAAACACATGAT
* * * * * *
1811405 TGTCAAGTCTAAAAGG-CGTATTAATTTGCAAATCAGAGAAATTAATAAAA-TTGTTAGAGTCGA
257 AGTCAAGTCTAAAAGGTC-TATCAATTAGCAAAGCACAGAAATTAATAAAACTTGTTAGAGGCGA
1811468 TACTAATCGGAT-AGCCTCCATTAGATTATTAAAACGTCATTTGAAGTCGAACAATTTATATATG
321 TACTAATCGGATAAGCCTCCATTAGATTATTAAAACGTCATTTGAAGTCGAACAATTTATATATG
* * *
1811532 GTACTAAGGAAAGTGATTTTGATCGACTT-GCAAAGTTGATCATCTGAGCCCTCTCTTTCTCCA-
386 GTACTAAGGAAAGCGATTCTGATCGACTTAGCAAAGGTGATCATCTGAGCCCTCTCTTTCTCCAT
* *
1811595 TCACCTTAACACTTAACACCATTCTCTTTTCTTTCTTTCAGATCTTCCTTTCATTGAACTCTCAA
451 TCACCTTAACA--T-----CATTCTCTTTTCTTTCTTTCAGATCTTCCTTCCATTAAACTCTCAA
1811660 AGAATTTTGTCACTGTCTTAACTATTAGTTGAACCACAAATGGCTGGAGCTTTCATCGGTGCTAT
509 AGAATTTTGTCACTGTCTTAACTATTAGTTGAACCACAAATGGCTGGAGCTTTCATCGGTGCTAT
*
1811725 CGTAGAACTGGCACGGTCCAAGGCTATCTCCATCATTGAGGAGCAGATCAACCTCGCATGGGGTT
574 CGTAGAACTGGCACGGTCCAAGGCTATCTCCATCATTGAGAAGCAGATCAACCTCGCATGGGGTT
* *
1811790 TTCAGGACGAGCTGAGCAAGCTACGCGCCTCACTAGATATGGCTCTAGCTTTCTTGCGAGATGCC
639 TTCAGGACGAGCTAAACAAGCTACGCGCCTCACTAGATATGGCTCTAGCTTTCTTGCGAGATGCC
* *
1811855 GAGAGGAGTCAAGTTGAT
704 GAAAGGAGGCAAGTTGAT
1811873 GGGCTTGTCA
Statistics
Matches: 659, Mismatches: 52, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
727 11 0.02
728 31 0.05
729 107 0.16
730 41 0.06
731 175 0.27
732 46 0.07
734 248 0.38
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (732 bp):
TTTACATAATACTATATTTTTTGGAATTCTTAGATAAAGTGCTTAATAAAGGTTTTTGTTATCAT
GTTTCAGGAAAAGTGATTCTGTTTTATTAAATAAAAAAGCATTTAATATTAAAAATGTGTCAAGA
AAAAAATGTTGCTAACAGTAAAACATAAGTTAGATAGAAGGAAGGCGCAAGGAAATTTCGTCCGA
AAATATCAGTGCAAACTTGTCAGTGCGCAGTGGCCTCCCTTCAAAAGTCAAAACACATGATAGTC
AAGTCTAAAAGGTCTATCAATTAGCAAAGCACAGAAATTAATAAAACTTGTTAGAGGCGATACTA
ATCGGATAAGCCTCCATTAGATTATTAAAACGTCATTTGAAGTCGAACAATTTATATATGGTACT
AAGGAAAGCGATTCTGATCGACTTAGCAAAGGTGATCATCTGAGCCCTCTCTTTCTCCATTCACC
TTAACATCATTCTCTTTTCTTTCTTTCAGATCTTCCTTCCATTAAACTCTCAAAGAATTTTGTCA
CTGTCTTAACTATTAGTTGAACCACAAATGGCTGGAGCTTTCATCGGTGCTATCGTAGAACTGGC
ACGGTCCAAGGCTATCTCCATCATTGAGAAGCAGATCAACCTCGCATGGGGTTTTCAGGACGAGC
TAAACAAGCTACGCGCCTCACTAGATATGGCTCTAGCTTTCTTGCGAGATGCCGAAAGGAGGCAA
GTTGATATCTCAAAAGG
Found at i:1815851 original size:137 final size:135
Alignment explanation
Indices: 1815607--1815887 Score: 352
Period size: 137 Copynumber: 2.1 Consensus size: 135
1815597 TTATTATAGG
* * * *
1815607 TGTTTCACTTTATCCTAATGACAAATTAATGGCTTTCTTTGTACTGTTTAGATTTTATGAAAAAC
1 TGTTTCACTTTATCATAATGACAAATTAATGACTTTCTTTGTACTATTTAGATTTAATGAAAAAC
*** *
1815672 CCATTGGACCACATGGGGGCCAATGTAGCATCAGAATTTCAAATCACACTGCAAAAGTTCTTTGT
66 CCATTGGACCACATGGGAAACAATGTAGCATCAGAATTTCAAATCACACTGCAAAAGTTCGTTGT
1815737 CCCTC
131 CCCTC
* * * *
1815742 TGTTTCACTTTATGATAATGACAACAATTGATGACTTTCTTTGTATTATTTAG-TTCTAATGAAG
1 TGTTTCACTTTATCATAATGAC-A-AATTAATGACTTTCTTTGTACTATTTAGATT-TAATGAAA
* * *
1815806 AACCCAGTT-GACCAGATGGGAAACAATGTGGCATCA-AATTTTCAAATGACACTGCAAAAGTTC
63 AACCCA-TTGGACCACATGGGAAACAATGTAGCATCAGAA-TTTCAAATCACACTGCAAAAGTTC
*
1815869 GTTGTCCCTT
126 GTTGTCCCTC
1815879 TGTTTCACT
1 TGTTTCACT
1815888 CCATAAATTT
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
135 20 0.16
136 5 0.04
137 98 0.78
138 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (135 bp):
TGTTTCACTTTATCATAATGACAAATTAATGACTTTCTTTGTACTATTTAGATTTAATGAAAAAC
CCATTGGACCACATGGGAAACAATGTAGCATCAGAATTTCAAATCACACTGCAAAAGTTCGTTGT
CCCTC
Found at i:1819960 original size:31 final size:31
Alignment explanation
Indices: 1819920--1820038 Score: 186
Period size: 31 Copynumber: 3.8 Consensus size: 31
1819910 GACATGATTA
*
1819920 CCAGAATCTAGATATATTGATTAAGAGATTG
1 CCAGAATCTAGATATATTGATTAAGAAATTG
* *
1819951 CGAGAATCTAGATATATTAATTAAGAAATTG
1 CCAGAATCTAGATATATTGATTAAGAAATTG
1819982 CCAGAAT-TCAGATATATTGATTAAGAAATTG
1 CCAGAATCT-AGATATATTGATTAAGAAATTG
*
1820013 CCAGAATCCAGATATATTGATTAAGA
1 CCAGAATCTAGATATATTGATTAAGA
1820039 GAATACTGAG
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
30 1 0.01
31 79 0.99
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (31 bp):
CCAGAATCTAGATATATTGATTAAGAAATTG
Found at i:1831170 original size:30 final size:29
Alignment explanation
Indices: 1831110--1831172 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
1831100 AAAAAATTTG
* *
1831110 AATTATTTAATATTTTAAAATTAATCAAT
1 AATTATTAAATATTTTAAAATAAATCAAT
1831139 AATTATTAAATTATTTTAAAATCAAAT-AAT
1 AATTATTAAA-TATTTTAAAAT-AAATCAAT
1831169 AATT
1 AATT
1831173 TTATTAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 9 0.30
30 18 0.60
31 3 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (29 bp):
AATTATTAAATATTTTAAAATAAATCAAT
Found at i:1831942 original size:12 final size:12
Alignment explanation
Indices: 1831925--1831953 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1831915 AACTTTTGTG
1831925 ATATTTATTTTA
1 ATATTTATTTTA
1831937 ATATTTATTTTA
1 ATATTTATTTTA
1831949 ATATT
1 ATATT
1831954 CTACAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTTATTTTA
Found at i:1842263 original size:135 final size:135
Alignment explanation
Indices: 1842021--1842266 Score: 402
Period size: 135 Copynumber: 1.8 Consensus size: 135
1842011 AAGTTAGATG
* * *
1842021 TTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTGCAAGCTTGTCAGTGG
1 TTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTACAAACCTGTCAGTGG
* *
1842086 TCTTCACGCTTCAATATTGCTATCAGTTGTCGTGCATTTCTACTCACGTCAAGTCATTGTGAGTC
66 GCTTCACGCTTCAATATTGCTATCAATTGTCGTGCATTTCTACTCACGTCAAGTCATTGTGAGTC
1842151 GGATA
131 GGATA
* * *
1842156 TTTAACGTATGGAAGAAGTTGAGAGGAAGTTTCATCCGAAAATATCAGTACAAACCTGTCAGTGG
1 TTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTACAAACCTGTCAGTGG
* *
1842221 GCTTCACGCTTTAATATTGCTATCAATTGTTGTGCATTTCTACTCA
66 GCTTCACGCTTCAATATTGCTATCAATTGTCGTGCATTTCTACTCA
1842267 TGCCAGGTCT
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
135 101 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (135 bp):
TTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTACAAACCTGTCAGTGG
GCTTCACGCTTCAATATTGCTATCAATTGTCGTGCATTTCTACTCACGTCAAGTCATTGTGAGTC
GGATA
Found at i:1845292 original size:24 final size:23
Alignment explanation
Indices: 1845265--1845310 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
1845255 TATCTTAAAA
1845265 ATATTAACTTAATATATATTTTAT
1 ATATTAACTTAATATA-ATTTTAT
* * *
1845289 ATATTTATTTAATTTAATTTTA
1 ATATTAACTTAATATAATTTTA
1845311 ATACTTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
ATATTAACTTAATATAATTTTAT
Found at i:1845642 original size:44 final size:44
Alignment explanation
Indices: 1845587--1845677 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
1845577 AATTAGGAGT
* * *
1845587 AATTATCGATAACTTAATAGTTAA-TAAGTAGTAATTTAATAATA
1 AATTATAGATAACTTAATAGTAAATTAA-TAATAATTTAATAATA
* *
1845631 AATTATAGATAATTTAGTAGTAAATTAATAATAATTTAATAATA
1 AATTATAGATAACTTAATAGTAAATTAATAATAATTTAATAATA
1845675 AAT
1 AAT
1845678 GAATAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 38 0.93
45 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (44 bp):
AATTATAGATAACTTAATAGTAAATTAATAATAATTTAATAATA
Found at i:1845671 original size:11 final size:11
Alignment explanation
Indices: 1845618--1845695 Score: 77
Period size: 11 Copynumber: 7.1 Consensus size: 11
1845608 TAATAAGTAG
1845618 TAATTTAATAA
1 TAATTTAATAA
*
1845629 TAAATT-ATAGA
1 TAATTTAATA-A
* *
1845640 TAATTTAGTAG
1 TAATTTAATAA
*
1845651 TAAATTAATAA
1 TAATTTAATAA
1845662 TAATTTAATAA
1 TAATTTAATAA
* *
1845673 TAAATGAATAA
1 TAATTTAATAA
*
1845684 TAATTTAGTAA
1 TAATTTAATAA
1845695 T
1 T
1845696 CAATGATTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
10 3 0.06
11 47 0.90
12 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (11 bp):
TAATTTAATAA
Found at i:1845687 original size:44 final size:43
Alignment explanation
Indices: 1845618--1845744 Score: 137
Period size: 44 Copynumber: 2.9 Consensus size: 43
1845608 TAATAAGTAG
* *
1845618 TAATTTAATAATAAATTATAGATAATTTAGTAGTAAATTAATAA
1 TAATTTAATAATAAATAATA-ATAATTTAGTAGTAAATGAATAA
* * *
1845662 TAATTTAATAATAAATGAATAATAATTTAGTAATCAATGATTAA
1 TAATTTAATAATAAAT-AATAATAATTTAGTAGTAAATGAATAA
* * * * *
1845706 TAACTTAGTAGTAAATAAGTAATAATATAATAGTAAATG
1 TAATTTAATAATAAATAA-TAATAATTTAGTAGTAAATG
1845745 TGTAATAACT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.03
44 64 0.93
45 3 0.04
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (43 bp):
TAATTTAATAATAAATAATAATAATTTAGTAGTAAATGAATAA
Found at i:1845688 original size:66 final size:66
Alignment explanation
Indices: 1845618--1845744 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
1845608 TAATAAGTAG
* * *
1845618 TAATTTAATAATAAATTA-TAGATAATTTAGTAGTAAATTAA-TAATAATTTAATAATAAATGAA
1 TAATTTAATAATAAATGATTA-ATAACTTAGTAGTAAA-TAAGTAATAATATAATAATAAATGAA
1845681 TAA
64 TAA
* * *
1845684 TAATTTAGTAATCAATGATTAATAACTTAGTAGTAAATAAGTAATAATATAATAGTAAATG
1 TAATTTAATAATAAATGATTAATAACTTAGTAGTAAATAAGTAATAATATAATAATAAATG
1845745 TGTAATAACT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 3 0.06
66 48 0.91
67 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (66 bp):
TAATTTAATAATAAATGATTAATAACTTAGTAGTAAATAAGTAATAATATAATAATAAATGAATA
A
Found at i:1845749 original size:22 final size:22
Alignment explanation
Indices: 1845595--1845765 Score: 107
Period size: 22 Copynumber: 7.8 Consensus size: 22
1845585 GTAATTATCG
*
1845595 ATAACTTAATAGTTAATAAGTA
1 ATAACTTAATAGTAAATAAGTA
* * * *
1845617 GTAATTTAATAATAAATTA-TA
1 ATAACTTAATAGTAAATAAGTA
* *
1845638 GATAATTTAGTAGTAAATTAA-TA
1 -ATAACTTAATAGTAAA-TAAGTA
* *
1845661 ATAATTTAATAATAAATGAA-TA
1 ATAACTTAATAGTAAAT-AAGTA
* * * * * *
1845683 ATAATTTAGTAATCAATGATTA
1 ATAACTTAATAGTAAATAAGTA
*
1845705 ATAACTTAGTAGTAAATAAGTA
1 ATAACTTAATAGTAAATAAGTA
**
1845727 ATAA-TATAATAGTAAATGTGTA
1 ATAACT-TAATAGTAAATAAGTA
*
1845749 ATAACTTAGTAGTAAAT
1 ATAACTTAATAGTAAAT
1845766 CAAATTTAAT
Statistics
Matches: 120, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
21 5 0.04
22 110 0.92
23 5 0.04
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAAGTA
Found at i:1845789 original size:44 final size:44
Alignment explanation
Indices: 1845659--1845778 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 44
1845649 AGTAAATTAA
* * * * * * * *
1845659 TAATAATTTAATAATAAATGAATAATAATTTAGTAATCAATGAT-
1 TAATAACTTAGTAGTAAATAAATAATAATATAATAGTAAATG-TG
*
1845703 TAATAACTTAGTAGTAAATAAGTAATAATATAATAGTAAATGTG
1 TAATAACTTAGTAGTAAATAAATAATAATATAATAGTAAATGTG
*
1845747 TAATAACTTAGTAGTAAATCAAAT-TTAATATA
1 TAATAACTTAGTAGTAAAT-AAATAATAATATA
1845779 GTTATAAATG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 59 0.94
45 3 0.05
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (44 bp):
TAATAACTTAGTAGTAAATAAATAATAATATAATAGTAAATGTG
Found at i:1845875 original size:11 final size:11
Alignment explanation
Indices: 1845856--1845905 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
1845846 TTAATTATTG
*
1845856 ATAATTTAATA
1 ATAAATTAATA
1845867 ATAAATTAATA
1 ATAAATTAATA
*
1845878 GTAAATTAATA
1 ATAAATTAATA
*
1845889 ATAATTTAATA
1 ATAAATTAATA
1845900 ATAAAT
1 ATAAAT
1845906 CAGTTTTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:1846023 original size:11 final size:11
Alignment explanation
Indices: 1846009--1846099 Score: 53
Period size: 11 Copynumber: 8.4 Consensus size: 11
1845999 AACTTAAAAG
1846009 TAAATTAATAA
1 TAAATTAATAA
*
1846020 TAAATTATTAA
1 TAAATTAATAA
* **
1846031 TAATTTAATTG
1 TAAATTAATAA
* *
1846042 TTAA-TAAGTGA
1 TAAATTAA-TAA
*
1846053 TAACTTAATAA
1 TAAATTAATAA
1846064 TAAATT-ATAAA
1 TAAATTAAT-AA
*
1846075 TAATTTAAT-A
1 TAAATTAATAA
**
1846085 TAAATCCATAA
1 TAAATTAATAA
1846096 TAAA
1 TAAA
1846100 ATGATAGTAA
Statistics
Matches: 58, Mismatches: 17, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
10 12 0.21
11 41 0.71
12 5 0.09
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:1846045 original size:15 final size:14
Alignment explanation
Indices: 1846012--1846078 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
1846002 TTAAAAGTAA
1846012 ATTAATAATAAATT
1 ATTAATAATAAATT
*
1846026 ATTAATAATTTAATT
1 ATTAATAA-TAAATT
* * *
1846041 GTTAATAAGT-GATA
1 ATTAATAA-TAAATT
1846055 ACTTAATAATAAATT
1 A-TTAATAATAAATT
*
1846070 ATAAATAAT
1 ATTAATAAT
1846079 TTAATATAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 18 0.44
15 23 0.56
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (14 bp):
ATTAATAATAAATT
Found at i:1846077 original size:55 final size:55
Alignment explanation
Indices: 1845964--1846070 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 55
1845954 TTTTCATACT
* *
1845964 ATAAATAATTGATAATTTAATAGTTAATTAGTGAAAACTTAAAAGTAAATTAATA
1 ATAAATAATTAATAATTTAATAGTTAATAAGTGAAAACTTAAAAGTAAATTAATA
* * *
1846019 ATAAATTATTAATAATTTAATTGTTAATAAGTGATAACTTAATAA-TAAATTA
1 ATAAATAATTAATAATTTAATAGTTAATAAGTGAAAACTTAA-AAGTAAATTA
1846071 TAAATAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 44 0.96
56 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (55 bp):
ATAAATAATTAATAATTTAATAGTTAATAAGTGAAAACTTAAAAGTAAATTAATA
Found at i:1846097 original size:21 final size:21
Alignment explanation
Indices: 1846013--1846279 Score: 106
Period size: 22 Copynumber: 12.2 Consensus size: 21
1846003 TAAAAGTAAA
* *
1846013 TTAATAATAAATTATTAATAAT
1 TTAATAGTAAATCA-TAATAAT
* * * * *
1846035 TTAATTGTTAATAAGTGATAAC
1 TTAATAGTAAATCA-TAATAAT
* *
1846057 TTAATAATAAATTATAAATAAT
1 TTAATAGTAAATCAT-AATAAT
*
1846079 TTAATA-TAAATCCATAATAAA
1 TTAATAGTAAAT-CATAATAAT
* *
1846100 ATGATAGTAAATCATAGATAAT
1 TTAATAGTAAATCATA-ATAAT
* * *
1846122 TTAGTTGTAAATCAAAAATAAT
1 TTAATAGTAAATC-ATAATAAT
** * *
1846144 TTTGTCGTAAATAATCAA-AAT
1 TTAATAGTAAATCAT-AATAAT
* * *
1846165 TAAATTGTAAATCAATTATAAT
1 TTAATAGTAAATC-ATAATAAT
** *
1846187 AAAATAGTAAACACATAATAAT
1 TTAATAGTAAA-TCATAATAAT
* * * *
1846209 ATAATAATAAATTATTGATAAT
1 TTAATAGTAAATCA-TAATAAT
* *
1846231 TTAATAATAAATTACTAATAAT
1 TTAATAGTAAATCA-TAATAAT
* * *
1846253 ATAATAATAAATTATTAATAAT
1 TTAATAGTAAATCA-TAATAAT
1846275 TTAAT
1 TTAAT
1846280 TTATAAATTA
Statistics
Matches: 187, Mismatches: 48, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
21 33 0.18
22 151 0.81
23 3 0.02
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (21 bp):
TTAATAGTAAATCATAATAAT
Found at i:1846217 original size:11 final size:11
Alignment explanation
Indices: 1846201--1846305 Score: 58
Period size: 11 Copynumber: 9.5 Consensus size: 11
1846191 TAGTAAACAC
1846201 ATAATAATATA
1 ATAATAATATA
1846212 ATAATAA-ATTA
1 ATAATAATA-TA
* * *
1846223 TTGATAATTTA
1 ATAATAATATA
1846234 ATAATAA-ATTA
1 ATAATAATA-TA
*
1846245 CTAATAATATA
1 ATAATAATATA
1846256 ATAATAA-ATTA
1 ATAATAATA-TA
* *
1846267 TTAATAATTTA
1 ATAATAATATA
*
1846278 ATTTATAA-ATTA
1 A-TAATAATA-TA
1846290 ATTAATAAT-TA
1 A-TAATAATATA
1846301 ATAAT
1 ATAAT
1846306 TATTCATAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 19
0.68 0.13 0.18
Matches are distributed among these distances:
10 6 0.08
11 50 0.70
12 15 0.21
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
ATAATAATATA
Found at i:1846229 original size:22 final size:22
Alignment explanation
Indices: 1846202--1846349 Score: 141
Period size: 22 Copynumber: 7.0 Consensus size: 22
1846192 AGTAAACACA
1846202 TAATAATATAATAATAAATTAT
1 TAATAATATAATAATAAATTAT
* * *
1846224 TGATAATTTAATAATAAATTAC
1 TAATAATATAATAATAAATTAT
1846246 TAATAATATAATAATAAATTAT
1 TAATAATATAATAATAAATTAT
* *
1846268 TAATAATTTAATTTATAAATTAAT
1 TAATAATATAA-TAATAAATT-AT
1846292 TAAT-A-AT--TAAT-AATTAT
1 TAATAATATAATAATAAATTAT
*
1846309 TCATAA-AT-A-AATAAATTAT
1 TAATAATATAATAATAAATTAT
* * *
1846328 AAAAAATTTAATAATAAATTAT
1 TAATAATATAATAATAAATTAT
1846350 CCATAACTCT
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
17 5 0.05
18 10 0.10
19 12 0.12
20 1 0.01
21 1 0.01
22 59 0.57
23 9 0.09
24 6 0.06
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (22 bp):
TAATAATATAATAATAAATTAT
Found at i:1846230 original size:44 final size:44
Alignment explanation
Indices: 1846182--1846274 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
1846172 TAAATCAATT
* *
1846182 ATAATAAAATAGTAAA-CACATAATAATATAATAATAAATTATTG
1 ATAATAAAATAATAAATCAC-TAATAATATAATAATAAATTATTA
** *
1846226 ATAATTTAATAATAAATTACTAATAATATAATAATAAATTATTA
1 ATAATAAAATAATAAATCACTAATAATATAATAATAAATTATTA
1846270 ATAAT
1 ATAAT
1846275 TTAATTTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (44 bp):
ATAATAAAATAATAAATCACTAATAATATAATAATAAATTATTA
Found at i:1846275 original size:44 final size:46
Alignment explanation
Indices: 1846202--1846305 Score: 160
Period size: 44 Copynumber: 2.3 Consensus size: 46
1846192 AGTAAACACA
*
1846202 TAATAATATAATAATAAATTATTGATAATTTAA-TAATAAATT-AC
1 TAATAATATAATAATAAATTATTAATAATTTAATTAATAAATTAAC
* *
1846246 TAATAATATAATAATAAATTATTAATAATTTAATTTATAAATTAAT
1 TAATAATATAATAATAAATTATTAATAATTTAATTAATAAATTAAC
1846292 TAATAAT-TAATAAT
1 TAATAATATAATAAT
1846306 TATTCATAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
44 32 0.58
45 15 0.27
46 8 0.15
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (46 bp):
TAATAATATAATAATAAATTATTAATAATTTAATTAATAAATTAAC
Found at i:1846364 original size:17 final size:17
Alignment explanation
Indices: 1846342--1846374 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1846332 AATTTAATAA
1846342 TAAATTATCCATAACTC
1 TAAATTATCCATAACTC
*
1846359 TAAATTATTCATAACT
1 TAAATTATCCATAACT
1846375 TAATGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTATCCATAACTC
Found at i:1849330 original size:141 final size:141
Alignment explanation
Indices: 1849163--1849470 Score: 431
Period size: 141 Copynumber: 2.2 Consensus size: 141
1849153 ATGCATTTGG
* * * *
1849163 GAATGCCCTAAGCTGACATCCATTCCTCTAAACGGTGGATCTCAATCTCTTTGGAACTTT-ACAG
1 GAATGTCCTAATCTGAAATCCATTCCTATAAACGGTGGATCTCAATCTCTTTGGAACTTTGA-AG
** * * *
1849227 TTGGAAAGTGTGAAGAATTACAGGAGATAGGGGGTGGACTATCTGCTTGTACCAGGCTGGAAAAA
65 TAAGAAAGTGTGAAAAATTACAGGAGATAGAGGGTGGACTATCTGCTTGCACCAGGCTGGAAAAA
1849292 TTA-ATGATAGAA
130 TTAGA-GATAGAA
* *
1849304 GAATGTCCTAATCTGAAATCCATTCCTATAAACGGTGGATCTCAATCTCTTTTGAGCTTTGAAGT
1 GAATGTCCTAATCTGAAATCCATTCCTATAAACGGTGGATCTCAATCTCTTTGGAACTTTGAAGT
** *
1849369 AAGAAAGTGTGAAAAATTAGGGGAGATAGAGGGTGGACTATCTGCTTGCACCAGGCTGGAAACAT
66 AAGAAAGTGTGAAAAATTACAGGAGATAGAGGGTGGACTATCTGCTTGCACCAGGCTGGAAAAAT
1849434 TAGAGATAGAA
131 TAGAGATAGAA
* **
1849445 GAATGTTCTAATCTGATTTCCATTCC
1 GAATGTCCTAATCTGAAATCCATTCC
1849471 CAGTATAGAT
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
141 146 0.99
142 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (141 bp):
GAATGTCCTAATCTGAAATCCATTCCTATAAACGGTGGATCTCAATCTCTTTGGAACTTTGAAGT
AAGAAAGTGTGAAAAATTACAGGAGATAGAGGGTGGACTATCTGCTTGCACCAGGCTGGAAAAAT
TAGAGATAGAA
Found at i:1863856 original size:8 final size:9
Alignment explanation
Indices: 1863836--1863867 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1863826 CGCTCTGACT
1863836 CCCTGGACC
1 CCCTGGACC
1863845 CCCTGG-CC
1 CCCTGGACC
1863853 CCCTGGACC
1 CCCTGGACC
1863862 CCCTGG
1 CCCTGG
1863868 CCTCACGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.06, C:0.56, G:0.25, T:0.12
Consensus pattern (9 bp):
CCCTGGACC
Found at i:1863858 original size:17 final size:17
Alignment explanation
Indices: 1863836--1863869 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1863826 CGCTCTGACT
1863836 CCCTGGACCCCCTGGCC
1 CCCTGGACCCCCTGGCC
1863853 CCCTGGACCCCCTGGCC
1 CCCTGGACCCCCTGGCC
1863870 TCACGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.59, G:0.24, T:0.12
Consensus pattern (17 bp):
CCCTGGACCCCCTGGCC
Found at i:1864004 original size:74 final size:74
Alignment explanation
Indices: 1863883--1864028 Score: 292
Period size: 74 Copynumber: 2.0 Consensus size: 74
1863873 CGGTTTTGTA
1863883 GTTTTGTTCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTATACCCCAGGGAC
1 GTTTTGTTCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTATACCCCAGGGAC
1863948 CCTCCTACG
66 CCTCCTACG
1863957 GTTTTGTTCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTATACCCCAGGGAC
1 GTTTTGTTCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTATACCCCAGGGAC
1864022 CCTCCTA
66 CCTCCTA
1864029 TTTATGGGTG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (74 bp):
GTTTTGTTCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTATACCCCAGGGAC
CCTCCTACG
Found at i:1864051 original size:41 final size:40
Alignment explanation
Indices: 1863994--1864070 Score: 127
Period size: 41 Copynumber: 1.9 Consensus size: 40
1863984 AGGCGGAGGT
1863994 GGTGTGAACCCTTTTATACCCCAGGGACCCTCCTATTTATG
1 GGTGTGAACCCTTTTATACCCCA-GGACCCTCCTATTTATG
* *
1864035 GGTGTGAACCCTTTTATAGCCCAGGACCTTCCTATT
1 GGTGTGAACCCTTTTATACCCCAGGACCCTCCTATT
1864071 CGAATGAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 12 0.35
41 22 0.65
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.32
Consensus pattern (40 bp):
GGTGTGAACCCTTTTATACCCCAGGACCCTCCTATTTATG
Found at i:1866825 original size:112 final size:110
Alignment explanation
Indices: 1866626--1866850 Score: 301
Period size: 112 Copynumber: 2.0 Consensus size: 110
1866616 ATATATTTAA
** *
1866626 ACAAGTGGTCCCAGTCCTATCTAATCATACAACGAAAATGATTTATCAGAGGAATCAGGAAAGCT
1 ACAAGTGGTCCCAGTCCTATCTAATCATACAAAAAAAAAGATTTATCAGAGGAATCAGGAAAGCT
* * * * * *
1866691 ATACATGGAAATTCCACTGGGCAGCAGTC-GATACTAACAACAAAC
66 ACACATGGAAATGCCACCGGGCAGAAG-CACAAACTAACAACAAAC
1866736 ACAAGTGGTCCCAGTCCTATCTAATCATA-AAAAAAAGGGAAGATTTATCAGAGGAATCAGGAAA
1 ACAAGTGGTCCCAGTCCTATCTAATCATACAAAAAAA---AAGATTTATCAGAGGAATCAGGAAA
* *
1866800 GCTACACTTGGAAATGCTACCGGGCAGAAGCACAAACTAACAACAAAC
63 GCTACACATGGAAATGCCACCGGGCAGAAGCACAAACTAACAACAAAC
1866848 ACA
1 ACA
1866851 TTTCAAAAGT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
109 5 0.05
110 29 0.29
111 1 0.01
112 65 0.65
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (110 bp):
ACAAGTGGTCCCAGTCCTATCTAATCATACAAAAAAAAAGATTTATCAGAGGAATCAGGAAAGCT
ACACATGGAAATGCCACCGGGCAGAAGCACAAACTAACAACAAAC
Found at i:1873694 original size:14 final size:14
Alignment explanation
Indices: 1873675--1873704 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1873665 ACGCACAATG
*
1873675 AAACATTTACTGGC
1 AAACATTTAATGGC
1873689 AAACATTTAATGGC
1 AAACATTTAATGGC
1873703 AA
1 AA
1873705 GCCAGGGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (14 bp):
AAACATTTAATGGC
Found at i:1879392 original size:17 final size:18
Alignment explanation
Indices: 1879350--1879393 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
1879340 ATAAAATAAA
1879350 AATATTTAAAATATTAATT
1 AATATTT-AAATATTAATT
1879369 -ATAATTTAAAT-TTAATT
1 AAT-ATTTAAATATTAATT
1879386 AATATTTA
1 AATATTTA
1879394 TTAAACGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.48
18 8 0.35
19 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATTTAAATATTAATT
Found at i:1891945 original size:35 final size:35
Alignment explanation
Indices: 1891906--1892007 Score: 98
Period size: 35 Copynumber: 3.2 Consensus size: 35
1891896 CATGACATGG
1891906 TGACATGATTCGAAAATGATAATAAAAAACGAAGA
1 TGACATGATTCGAAAATGATAATAAAAAACGAAGA
* * *
1891941 TGACATGGTT-TAAAAT--T-AT-----AC-AAGG
1 TGACATGATTCGAAAATGATAATAAAAAACGAAGA
*
1891966 TGACATGATTCGAAAATGATAATAAAAAATGAAGA
1 TGACATGATTCGAAAATGATAATAAAAAACGAAGA
1892001 TGACATG
1 TGACATG
1892008 GTTTAAAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 20
0.65 0.09 0.26
Matches are distributed among these distances:
25 12 0.24
26 7 0.14
28 1 0.02
29 2 0.04
31 2 0.04
32 1 0.02
34 6 0.12
35 19 0.38
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.25
Consensus pattern (35 bp):
TGACATGATTCGAAAATGATAATAAAAAACGAAGA
Found at i:1891982 original size:60 final size:60
Alignment explanation
Indices: 1891904--1892020 Score: 225
Period size: 60 Copynumber: 1.9 Consensus size: 60
1891894 AACATGACAT
1891904 GGTGACATGATTCGAAAATGATAATAAAAAACGAAGATGACATGGTTTAAAATTATACAA
1 GGTGACATGATTCGAAAATGATAATAAAAAACGAAGATGACATGGTTTAAAATTATACAA
*
1891964 GGTGACATGATTCGAAAATGATAATAAAAAATGAAGATGACATGGTTTAAAATTATA
1 GGTGACATGATTCGAAAATGATAATAAAAAACGAAGATGACATGGTTTAAAATTATA
1892021 GCAAAAACCC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (60 bp):
GGTGACATGATTCGAAAATGATAATAAAAAACGAAGATGACATGGTTTAAAATTATACAA
Found at i:1893648 original size:20 final size:20
Alignment explanation
Indices: 1893623--1893661 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1893613 TAATATTAAT
* *
1893623 TATTTTTATTAATTTTGATC
1 TATTTTAATAAATTTTGATC
1893643 TATTTTAATAAATTTTGAT
1 TATTTTAATAAATTTTGAT
1893662 GAAATAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (20 bp):
TATTTTAATAAATTTTGATC
Found at i:1893802 original size:7 final size:7
Alignment explanation
Indices: 1893790--1893824 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
1893780 TAAATTGAGT
1893790 TTTTTTA
1 TTTTTTA
1893797 TTTTTTA
1 TTTTTTA
1893804 TTTTTTA
1 TTTTTTA
**
1893811 TAGTTTA
1 TTTTTTA
1893818 TTTTTTA
1 TTTTTTA
1893825 AAACTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:1902846 original size:139 final size:139
Alignment explanation
Indices: 1902591--1902870 Score: 488
Period size: 139 Copynumber: 2.0 Consensus size: 139
1902581 TGCCATCTGC
* *
1902591 CACCTGACTGTAGAGCCACAAACTCAGATACCTATGTCTCCAGAGAATGTTTTCTCACCTGAAAT
1 CACCCGACTGTAGAGCCACAAACTCAGATACCCATGTCTCCAGAGAATGTTTTCTCACCTGAAAT
*
1902656 GTTGATCTCCTACATGGTTTCATTAGCCTGGAAGAGAAGTAGATGACAAGGATGAAAGCAAACTC
66 GTTGATCTCCTACATAGTTTCATTAGCCTGGAAGAGAAGTAGATGACAAGGATGAAAGCAAACTC
1902721 AAAAATCAT
131 AAAAATCAT
* * * *
1902730 CACCCGACTGTAGAGCCAGAAGCTCAGATACCCATGTCTCCGGAGACTGTTTTCTCACCTGAAAT
1 CACCCGACTGTAGAGCCACAAACTCAGATACCCATGTCTCCAGAGAATGTTTTCTCACCTGAAAT
1902795 GTTGATCTCCTACATAGTTTCATTAGCCTGGAAGAGAAGTAGATGACAAGGATGAAAGCAAACTC
66 GTTGATCTCCTACATAGTTTCATTAGCCTGGAAGAGAAGTAGATGACAAGGATGAAAGCAAACTC
*
1902860 AAAAGTCAT
131 AAAAATCAT
1902869 CA
1 CA
1902871 TATAAAGAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
139 133 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (139 bp):
CACCCGACTGTAGAGCCACAAACTCAGATACCCATGTCTCCAGAGAATGTTTTCTCACCTGAAAT
GTTGATCTCCTACATAGTTTCATTAGCCTGGAAGAGAAGTAGATGACAAGGATGAAAGCAAACTC
AAAAATCAT
Found at i:1903637 original size:137 final size:136
Alignment explanation
Indices: 1903366--1903638 Score: 447
Period size: 137 Copynumber: 2.0 Consensus size: 136
1903356 AAAATCCGCT
* * *
1903366 AACAAATAAATCTTTACAATTGTATACTTTTAAAATGAGAAAAGTCTCATAAAACTTCTTACTCA
1 AACAAATAAATATTTACAACTGTAGACTTTTAAAATGAGAAAAGTCTCATAAAACTTCTTACTCA
*
1903431 AAACTTAACCCAAAACTCAATTACACTCTTTAATAGCCTACTCACTTAGCCATTCTCTTTGTGTC
66 AAACTTAACCCAAAACTCAATTACACTCTTTAATAGCCTACTCACTTAGCCATTCTCTTGGTGTC
1903496 TAACTC
131 TAACTC
* * *
1903502 AACAAATAAATATTTGCAACTGTAAGACTTTTAGAATGAGAAAAGTCTCCTAAAACTTCTTACTC
1 AACAAATAAATATTTACAACTGT-AGACTTTTAAAATGAGAAAAGTCTCATAAAACTTCTTACTC
* **
1903567 AAAACTTAACCCAAAACTCAATTACACTTTTTAATAGCCTACTCACTTAGTTATTCTCTTGGTGT
65 AAAACTTAACCCAAAACTCAATTACACTCTTTAATAGCCTACTCACTTAGCCATTCTCTTGGTGT
1903632 CTAACTC
130 CTAACTC
1903639 TTTGAGATTT
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
136 20 0.16
137 106 0.84
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (136 bp):
AACAAATAAATATTTACAACTGTAGACTTTTAAAATGAGAAAAGTCTCATAAAACTTCTTACTCA
AAACTTAACCCAAAACTCAATTACACTCTTTAATAGCCTACTCACTTAGCCATTCTCTTGGTGTC
TAACTC
Found at i:1904932 original size:168 final size:168
Alignment explanation
Indices: 1904652--1904983 Score: 556
Period size: 168 Copynumber: 2.0 Consensus size: 168
1904642 CTTCATCTTT
* * **
1904652 TAACTCATCAACAGAAATTGCTAGCAATTGAAAAATTAATCTATTAAACTCATTCAGGTGATTAT
1 TAACTCATCAACAGAAATCGCTAGAAATTGAAAAACCAATCTATTAAACTCATTCAGGTGATTAT
* *
1904717 GAAGACTCATACCTTCTTCCATCTTCAGAGAATACAGATCCATCTTCAAACATAATCTATTAGTC
66 GAAGACTCATACATTCTTCCATCTTCAGAGAATACAAATCCATCTTCAAACATAATCTATTAGTC
*
1904782 AACGACTTCGATGCATAAATACTTTCAAGCTTATCCCA
131 AACGACTTCGATGCATAAATACCTTCAAGCTTATCCCA
*
1904820 TAACTCATCAACAGAAATCGCTAGAAATTGAGAAACCAATCTATTAAACTCATTCAGGTGATTAT
1 TAACTCATCAACAGAAATCGCTAGAAATTGAAAAACCAATCTATTAAACTCATTCAGGTGATTAT
* * * *
1904885 GAAGACTCATACATTCTTTCATCTTCAGATAATATAAATCTATCTTCAAACATAATCTATTAGTC
66 GAAGACTCATACATTCTTCCATCTTCAGAGAATACAAATCCATCTTCAAACATAATCTATTAGTC
1904950 AACGACTTCGATGCATAAATACCTTCAAGCTTAT
131 AACGACTTCGATGCATAAATACCTTCAAGCTTAT
1904984 TCCACAAATT
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
168 152 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (168 bp):
TAACTCATCAACAGAAATCGCTAGAAATTGAAAAACCAATCTATTAAACTCATTCAGGTGATTAT
GAAGACTCATACATTCTTCCATCTTCAGAGAATACAAATCCATCTTCAAACATAATCTATTAGTC
AACGACTTCGATGCATAAATACCTTCAAGCTTATCCCA
Found at i:1911768 original size:14 final size:14
Alignment explanation
Indices: 1911746--1911800 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
1911736 AACTATTATT
*
1911746 AATTATAATTAAAA
1 AATTTTAATTAAAA
1911760 AATTTTAA-TAAAA
1 AATTTTAATTAAAA
1911773 AA-TTTATATTAAATA
1 AATTTTA-ATTAAA-A
1911788 AATTTT-ATTAAAA
1 AATTTTAATTAAAA
1911801 TTAATATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 4 0.11
13 9 0.25
14 17 0.47
15 3 0.08
16 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTTTAATTAAAA
Found at i:1911808 original size:28 final size:29
Alignment explanation
Indices: 1911743--1911813 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
1911733 AATAACTATT
1911743 ATTAATTATAATTAAA-AAATTTTAATAAA
1 ATTAATTAT-ATTAAATAAATTTTAATAAA
*
1911772 A--AATTTATATTAAATAAATTTTATTAAA
1 ATTAA-TTATATTAAATAAATTTTAATAAA
1911800 ATTAA-TATA-TAAAT
1 ATTAATTATATTAAAT
1911814 TTCGGTGCGG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
27 13 0.35
28 21 0.57
29 1 0.03
30 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTAATTATATTAAATAAATTTTAATAAA
Found at i:1912215 original size:65 final size:65
Alignment explanation
Indices: 1912106--1912232 Score: 195
Period size: 65 Copynumber: 2.0 Consensus size: 65
1912096 GTGTGAATCT
* *
1912106 TTTTGTACTCCAATAACCCTCTTATTATGCTTAATGTAGGATTCAAGACTCTCCTTTAGGTCACC
1 TTTTATACTCCAATAACCCTCTTATTATGCTTAATGTAGGATTCAAGACTCTCCCTTAGGTCACC
*
1912171 TTTTATACTCCAGTAACCCT-TCTATTATGCTTAATGT-GAGATTCAAGACTCTCCCTTAGGTC
1 TTTTATACTCCAATAACCCTCT-TATTATGCTTAATGTAG-GATTCAAGACTCTCCCTTAGGTC
1912233 CGTGATATTC
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
64 2 0.04
65 55 0.96
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (65 bp):
TTTTATACTCCAATAACCCTCTTATTATGCTTAATGTAGGATTCAAGACTCTCCCTTAGGTCACC
Found at i:1913590 original size:21 final size:20
Alignment explanation
Indices: 1913534--1913590 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 20
1913524 CATAAATTAC
*
1913534 TTAAATTATATATAA-AAATAT
1 TTAAATTAT-T-TAATAAATAA
1913555 TTAAATTCAATTTAATAAATAAA
1 TTAAATT--ATTTAATAAAT-AA
1913578 TTAAATTATTTAA
1 TTAAATTATTTAA
1913591 ATTTAAACTC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 16 0.52
22 5 0.16
23 10 0.32
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAATTATTTAATAAATAA
Found at i:1915030 original size:22 final size:21
Alignment explanation
Indices: 1915005--1915045 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
1914995 TTTGTATTTG
1915005 AATTTT-ATTAAATTTCGATTAA
1 AATTTTGATT-AATTT-GATTAA
1915027 AATTTTGATTAATTTGATT
1 AATTTTGATTAATTTGATT
1915046 TTGAAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 11 0.61
23 3 0.17
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (21 bp):
AATTTTGATTAATTTGATTAA
Found at i:1917323 original size:13 final size:13
Alignment explanation
Indices: 1917304--1917334 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1917294 TCCTACAGAG
1917304 CTTCAAACTCGAT
1 CTTCAAACTCGAT
*
1917317 TTTCAAACTCGAT
1 CTTCAAACTCGAT
1917330 CTTCA
1 CTTCA
1917335 CCATTCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (13 bp):
CTTCAAACTCGAT
Found at i:1926748 original size:15 final size:15
Alignment explanation
Indices: 1926709--1926765 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
1926699 ATAAAATAAT
*
1926709 TTTCATTTTCCTT-C
1 TTTCATTTTTCTTCC
*
1926723 TTCTCAATTTTCTTCC
1 TT-TCATTTTTCTTCC
1926739 TTTCATTTTTCGTCTCC
1 TTTCATTTTTC-T-TCC
*
1926756 TTTAATTTTT
1 TTTCATTTTT
1926766 ATTAAATGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.06
15 17 0.49
16 4 0.11
17 12 0.34
ACGTcount: A:0.11, C:0.25, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTCATTTTTCTTCC
Found at i:1927026 original size:19 final size:18
Alignment explanation
Indices: 1927002--1927038 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1926992 TTCATTAAAT
*
1927002 ATTTTAATTATGTTTTTTA
1 ATTTTAATT-TATTTTTTA
1927021 ATTTTAATTTATTTTTTA
1 ATTTTAATTTATTTTTTA
1927039 TGAGTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
ATTTTAATTTATTTTTTA
Found at i:1930427 original size:17 final size:17
Alignment explanation
Indices: 1930381--1930429 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
1930371 TATATATTTT
1930381 TAATATATATTTAAAAA
1 TAATATATATTTAAAAA
* *
1930398 TAAAAAATAATTTAAAAA
1 TAATATAT-ATTTAAAAA
1930416 TAATATATATTTAA
1 TAATATATATTTAA
1930430 TTCACTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATATATATTTAAAAA
Found at i:1931083 original size:2 final size:2
Alignment explanation
Indices: 1931076--1931107 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1931066 TTTAGTTGTA
1931076 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
1931108 GGTATTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1939544 original size:5 final size:5
Alignment explanation
Indices: 1939534--1939581 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
1939524 ATATGGTATA
*
1939534 ATAAT ATAAT ATAAT ATAAT ATAA- ATTAAT AT-AT A-AAA ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT
1939582 TTAAAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 6 0.16
5 30 0.81
6 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:1939554 original size:15 final size:14
Alignment explanation
Indices: 1939534--1939586 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
1939524 ATATGGTATA
1939534 ATAATATAATATAAT
1 ATAATATAA-ATAAT
1939549 ATAATATAAATTAAT
1 ATAATATAAA-TAAT
*
1939564 AT-ATAAAAATAAT
1 ATAATATAAATAAT
*
1939577 ATAATTTAAA
1 ATAATATAAA
1939587 ATTTTAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 6 0.18
14 12 0.36
15 15 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATAAATAAT
Found at i:1946027 original size:13 final size:13
Alignment explanation
Indices: 1946006--1946035 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1945996 TAATTAATTA
1946006 AATTATTTTGATT
1 AATTATTTTGATT
*
1946019 AATTTTTTTGATT
1 AATTATTTTGATT
1946032 AATT
1 AATT
1946036 GAATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
AATTATTTTGATT
Found at i:1946793 original size:18 final size:18
Alignment explanation
Indices: 1946767--1946824 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
1946757 ATCGTATAAA
1946767 ATATTATATTTATATTAT
1 ATATTATATTTATATTAT
* ** *
1946785 ATTTTATATAAAAATTAT
1 ATATTATATTTATATTAT
1946803 ATATTATAATTTATATTA-
1 ATATTAT-ATTTATATTAT
1946821 ATAT
1 ATAT
1946825 AAAAATATAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 24 0.77
19 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTATATTTATATTAT
Found at i:1946806 original size:31 final size:31
Alignment explanation
Indices: 1946761--1946830 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
1946751 CATCGTATCG
*
1946761 TATAAAATATTATAT-TTAT-A-TTATATTTTA
1 TATAAAA-ATTATATATTATAATTTATA-TTAA
1946791 TATAAAAATTATATATTATAATTTATATTAA
1 TATAAAAATTATATATTATAATTTATATTAA
1946822 TATAAAAAT
1 TATAAAAAT
1946831 ATAAAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 7 0.19
30 11 0.31
31 13 0.36
32 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
TATAAAAATTATATATTATAATTTATATTAA
Found at i:1949270 original size:89 final size:89
Alignment explanation
Indices: 1949170--1949404 Score: 241
Period size: 89 Copynumber: 2.6 Consensus size: 89
1949160 TTAAAACGAT
* *
1949170 ATTTTTAAGATTAAAAATATAATTTCTTTTGAAAATATATTGTGAAAAAAATTATTTTTCCT-TT
1 ATTTTTAAGATTAAAAATATAATTTCTTTTGAAAATATATTAT-AAAAAAATTATTTTTCCTCTC
1949234 GATTTTATAATT-TCAACAAAAATTAC
65 G-TTTTATAATTAT-AACAAAAATTAC
* *
1949260 A-TTTTAAGATTAAAAA-ATAATTT-TTGTTGAAAACATATTATAAAATAATTTTATTTTTCCTC
1 ATTTTTAAGATTAAAAATATAATTTCTT-TTGAAAATATATTATAAAA-AA-ATTATTTTTCCTC
* * *
1949322 TCGTTTTGTAGTTATAACAAAATTTAC
63 TCGTTTTATAATTATAACAAAAATTAC
* * * *
1949349 ATTTTTAAAATAAAAAATTTAA--TCTTTATTAAAATTATATTATTAAAAAAATTATT
1 ATTTTTAAGATTAAAAATATAATTTCTTT-TGAAAA-TATATTA-TAAAAAAATTATT
1949405 CTTCAAAATT
Statistics
Matches: 121, Mismatches: 13, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
87 6 0.05
88 22 0.18
89 48 0.40
90 29 0.24
91 11 0.09
92 5 0.04
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (89 bp):
ATTTTTAAGATTAAAAATATAATTTCTTTTGAAAATATATTATAAAAAAATTATTTTTCCTCTCG
TTTTATAATTATAACAAAAATTAC
Found at i:1949636 original size:37 final size:37
Alignment explanation
Indices: 1949568--1949660 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 37
1949558 AAATGCCTTT
*
1949568 ACTTAATATTA-TAGTATATAAAACTTGAAATACT-TTC
1 ACTTAATATTATTAG-ATATAAAACTTAAAATA-TATTC
* *
1949605 ATTTAATATTATTAGATATAAAA-TCTAAAATATATTT
1 ACTTAATATTATTAGATATAAAACT-TAAAATATATTC
*
1949642 ACTTAATATTATTATATAT
1 ACTTAATATTATTAGATAT
1949661 TAAAGTTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
36 2 0.04
37 43 0.90
38 3 0.06
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
ACTTAATATTATTAGATATAAAACTTAAAATATATTC
Found at i:1950433 original size:21 final size:21
Alignment explanation
Indices: 1950400--1950442 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1950390 ATAAATAGCA
*
1950400 AAATAAATTAAC-ATGTTAAAT
1 AAATAAATAAACAAT-TTAAAT
*
1950421 AAATAAGTAAACAATTTAAAT
1 AAATAAATAAACAATTTAAAT
1950442 A
1 A
1950443 TAATTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
AAATAAATAAACAATTTAAAT
Found at i:1950651 original size:18 final size:16
Alignment explanation
Indices: 1950611--1950644 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1950601 TCATTTTCTT
* *
1950611 TTAATATAATTTTTTC
1 TTAAAATAACTTTTTC
1950627 TTAAAATAACTTTTTC
1 TTAAAATAACTTTTTC
1950643 TT
1 TT
1950645 CCAAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAAAATAACTTTTTC
Found at i:1950702 original size:14 final size:13
Alignment explanation
Indices: 1950677--1950701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1950667 CGGCACACTT
1950677 TTTTATTTTTTTG
1 TTTTATTTTTTTG
1950690 TTTTATTTTTTT
1 TTTTATTTTTTT
1950702 TTGGTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:1951591 original size:194 final size:195
Alignment explanation
Indices: 1951260--1951611 Score: 501
Period size: 194 Copynumber: 1.8 Consensus size: 195
1951250 TTTTAGCTTT
* *
1951260 TGGATCTGGTGACTACAGTGTTTTTTTCTTAATAAAATTCGCTATGGCAATTTAGCCCCTTTTGC
1 TGGATCTGGTGACTACAGTG-TTTTTTCTTAATAAAACTAGCTATGGCAATTTAGCCCCTTTTGC
* * * * **
1951325 AGGAACCCTAATTCACAAAATTCCCTCTTTTTCCTCACTCCCCCCAAAGTAATCTCAATTCTTTC
65 AGAAACCCTAATTCACAAAATTCCCTCCTTTTCCTCACTCCCCCCAAAATAATCTCAATTCCTAA
1951390 TAGATATTCACTCTCAAACCTTAACAATAAGGATTTTTTTAATGCATAATTAAATTCTTGAGCCT
130 TAGATATTCACTCTCAAACCTTAACAATAAGGATTTTTTTAATGCATAATTAAATTCTTGAGCCT
1951455 C
195 C
* * * *
1951456 TGGATCTGGTGATTATAGTG-TTTTTCTTAAT-AAACTAGCTATGGCAATTTGGTCCCTTTTTGC
1 TGGATCTGGTGACTACAGTGTTTTTTCTTAATAAAACTAGCTATGGCAATTTAG-CCCCTTTTGC
* * * * * *
1951519 AGAAACCCTAATTCACCAAATTCCCTCCTTTTCCTCAGTCTCTCCAAAATCATCTCAGTTCCTAA
65 AGAAACCCTAATTCACAAAATTCCCTCCTTTTCCTCACTCCCCCCAAAATAATCTCAATTCCTAA
*
1951584 TAGATATTCACTCTCAAATCTTAACAAT
130 TAGATATTCACTCTCAAACCTTAACAAT
1951612 TGTGAAACCC
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
193 18 0.13
194 100 0.74
196 18 0.13
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (195 bp):
TGGATCTGGTGACTACAGTGTTTTTTCTTAATAAAACTAGCTATGGCAATTTAGCCCCTTTTGCA
GAAACCCTAATTCACAAAATTCCCTCCTTTTCCTCACTCCCCCCAAAATAATCTCAATTCCTAAT
AGATATTCACTCTCAAACCTTAACAATAAGGATTTTTTTAATGCATAATTAAATTCTTGAGCCTC
Found at i:1952662 original size:33 final size:34
Alignment explanation
Indices: 1952620--1952685 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
1952610 CATTATATTC
*
1952620 TGTTAGATTGAACCTATAATTGTAGGTA-TGTTT
1 TGTTAGATTGAACCTATAATTGAAGGTACTGTTT
*
1952653 TGTTAGATTGAACCTTTAATTGAAGGTACTGTT
1 TGTTAGATTGAACCTATAATTGAAGGTACTGTT
1952686 ATGCAAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (34 bp):
TGTTAGATTGAACCTATAATTGAAGGTACTGTTT
Found at i:1959525 original size:31 final size:31
Alignment explanation
Indices: 1959482--1959548 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
1959472 TTAGTCATTT
*
1959482 TGATAGAAATGATGAGAGATCTCTGCAGCAG
1 TGATAGAAATGATGAGAGACCTCTGCAGCAG
*
1959513 TGATGGAAATGATGAGAGACCTCTGCAGCAG
1 TGATAGAAATGATGAGAGACCTCTGCAGCAG
1959544 TGATA
1 TGATA
1959549 TTCGGTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.22
Consensus pattern (31 bp):
TGATAGAAATGATGAGAGACCTCTGCAGCAG
Found at i:1966419 original size:17 final size:18
Alignment explanation
Indices: 1966397--1966430 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1966387 AACGTTTTCA
1966397 ATTTTTATA-TTATATTC
1 ATTTTTATATTTATATTC
*
1966414 ATTTTTGTATTTATATT
1 ATTTTTATATTTATATT
1966431 AAATAGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTTATATTTATATTC
Found at i:1966419 original size:18 final size:18
Alignment explanation
Indices: 1966393--1966430 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1966383 GTAAAACGTT
1966393 TTCAATTTT-TATATTATA
1 TTCAATTTTGTAT-TTATA
*
1966411 TTCATTTTTGTATTTATA
1 TTCAATTTTGTATTTATA
1966429 TT
1 TT
1966431 AAATAGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCAATTTTGTATTTATA
Found at i:1966558 original size:24 final size:24
Alignment explanation
Indices: 1966531--1966578 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1966521 TATTTATGTA
* *
1966531 ATAT-TTTTATAAATGTATATTAAT
1 ATATATTTT-TAAATATATAATAAT
1966555 ATATATTTTTAAATATATAATAAT
1 ATATATTTTTAAATATATAATAAT
1966579 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATATTTTTAAATATATAATAAT
Found at i:1968745 original size:15 final size:16
Alignment explanation
Indices: 1968707--1968753 Score: 69
Period size: 15 Copynumber: 2.9 Consensus size: 16
1968697 ATAAAAATCC
1968707 ATAAATAAAATTTGAAAT
1 ATAAATAAAA-TT-AAAT
1968725 ATAAATAAAATTAAA-
1 ATAAATAAAATTAAAT
1968740 ATAAATAAAATTAA
1 ATAAATAAAATTAA
1968754 TTAATACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.48
16 3 0.10
17 2 0.07
18 10 0.34
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
ATAAATAAAATTAAAT
Found at i:1971029 original size:22 final size:23
Alignment explanation
Indices: 1970996--1971039 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1970986 ATTAGTTTAG
1970996 TATTATTATTAAA-TTTATTTTT
1 TATTATTATTAAAGTTTATTTTT
1971018 TATTATCT-TTAAAGTTTATTTT
1 TATTAT-TATTAAAGTTTATTTT
1971040 AAAAAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TATTATTATTAAAGTTTATTTTT
Found at i:1980938 original size:18 final size:18
Alignment explanation
Indices: 1980915--1980955 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1980905 TCTTCTTATT
*
1980915 TTTATTACTT-ATTTTTAA
1 TTTATTAATTAATTTTT-A
1980933 TTTATTAATTAATTTTTA
1 TTTATTAATTAATTTTTA
1980951 TTTAT
1 TTTAT
1980956 AAAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATTAATTAATTTTTA
Found at i:1981153 original size:21 final size:22
Alignment explanation
Indices: 1981127--1981171 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1981117 ATTAGTTTAG
1981127 TATTAT-TATTAA-ATTTATTTT
1 TATTATCT-TTAACATTTATTTT
*
1981148 TATTATCTTTAACGTTTATTTT
1 TATTATCTTTAACATTTATTTT
1981170 TA
1 TA
1981172 AAAAATTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTATCTTTAACATTTATTTT
Found at i:1981272 original size:14 final size:14
Alignment explanation
Indices: 1981253--1981282 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1981243 AATATGCATA
*
1981253 AATATTAATAAAAT
1 AATATTAAAAAAAT
1981267 AATATTAAAAAAAT
1 AATATTAAAAAAAT
1981281 AA
1 AA
1981283 GAAAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATTAAAAAAAT
Found at i:1981582 original size:26 final size:26
Alignment explanation
Indices: 1981517--1981589 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
1981507 TCCTCAGGGG
* *
1981517 TTGAAACGACGTCCTCTTGGGCATTA
1 TTGAAACGACGTCGTTTTGGGCATTA
*
1981543 TTGAAATGACGTCGTTTTGGGCATTA
1 TTGAAACGACGTCGTTTTGGGCATTA
1981569 TTGAAACGACGTCGTTTTGGG
1 TTGAAACGACGTCGTTTTGGG
1981590 TTTAGTCTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.34
Consensus pattern (26 bp):
TTGAAACGACGTCGTTTTGGGCATTA
Found at i:1983685 original size:2 final size:2
Alignment explanation
Indices: 1983678--1983711 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1983668 AGGATGAAGA
1983678 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
1983712 TTAGAAGCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1984078 original size:28 final size:30
Alignment explanation
Indices: 1984019--1984081 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
1984009 AATTAAAAGC
* * *
1984019 TTAATATGATTTTTTTAATTTTAAAAATTT
1 TTAATATGATTATTTAAATTATAAAAATTT
*
1984049 TTAATATGA-TATTTAAATTAT-AAATTTT
1 TTAATATGATTATTTAAATTATAAAAATTT
1984077 TTAAT
1 TTAAT
1984082 TAATGTGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 11 0.38
29 9 0.31
30 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (30 bp):
TTAATATGATTATTTAAATTATAAAAATTT
Found at i:1984955 original size:18 final size:18
Alignment explanation
Indices: 1984905--1984955 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 18
1984895 AAAATCAACA
1984905 TATATATATATTTATATAAT
1 TATATATA-ATTTAT-TAAT
1984925 TATA-AT-A-TT-TTAAT
1 TATATATAATTTATTAAT
1984939 TATATATAATTTATTAA
1 TATATATAATTTATTAA
1984956 GGTTGAGCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
14 8 0.30
15 3 0.11
16 3 0.11
17 3 0.11
18 4 0.15
19 2 0.07
20 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATATAATTTATTAAT
Found at i:1985512 original size:24 final size:24
Alignment explanation
Indices: 1985476--1985523 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1985466 TATTTACGTA
* *
1985476 ATATTTTTATAAATGTATAGTAAT
1 ATATTTTTATAAATATATAATAAT
1985500 ATATATTTT-TAAATATATAATAAT
1 ATAT-TTTTATAAATATATAATAAT
1985524 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
ATATTTTTATAAATATATAATAAT
Found at i:1985924 original size:22 final size:22
Alignment explanation
Indices: 1985894--1985938 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1985884 GAAAAAAAGT
* * *
1985894 TTTGGTTTGGATTAATTTTTAA
1 TTTGATTTGAATTAAATTTTAA
1985916 TTTGATTTGAATTAAATTTTAA
1 TTTGATTTGAATTAAATTTTAA
1985938 T
1 T
1985939 ATTAAATGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (22 bp):
TTTGATTTGAATTAAATTTTAA
Found at i:1986037 original size:20 final size:18
Alignment explanation
Indices: 1985995--1986028 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1985985 TATAATTGAA
1985995 TTATATATATTTATTAAT
1 TTATATATATTTATTAAT
1986013 TTATATATATTT-TTAA
1 TTATATATATTTATTAA
1986029 ATTTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATATATATTTATTAAT
Found at i:1986185 original size:13 final size:13
Alignment explanation
Indices: 1986167--1986192 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1986157 AATTTTGATC
1986167 AAATTAATTTAAA
1 AAATTAATTTAAA
1986180 AAATTAATTTAAA
1 AAATTAATTTAAA
1986193 TGTAAATCAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTAATTTAAA
Found at i:1986416 original size:2 final size:2
Alignment explanation
Indices: 1986409--1986440 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1986399 AGTTCAAATC
1986409 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
1986441 TACAATATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1986674 original size:11 final size:11
Alignment explanation
Indices: 1986658--1986687 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1986648 TCACTTTATC
1986658 TTAATTTAAAA
1 TTAATTTAAAA
1986669 TTAATTTAAAA
1 TTAATTTAAAA
*
1986680 ATAATTTA
1 TTAATTTA
1986688 TCTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAATTTAAAA
Found at i:1987773 original size:21 final size:22
Alignment explanation
Indices: 1987731--1987782 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
1987721 CCCAAAATTA
*
1987731 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTGTAAAAT
1987753 ATAAAATATTATTTTGT-AAAT
1 ATAAAATATTATTTTGTAAAAT
1987774 AT-AAATATT
1 ATAAAATATT
1987783 TAAAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTGTAAAAT
Found at i:1987791 original size:16 final size:16
Alignment explanation
Indices: 1987770--1987824 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 16
1987760 ATTATTTTGT
*
1987770 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
1987786 AAATAT-AAT-TATAT
1 AAATATAAATATATAA
*
1987800 AAATATATATA-ATAA
1 AAATATAAATATATAA
1987815 AAAT-TAAATA
1 AAATATAAATA
1987825 ATTAATTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 14 0.44
15 12 0.38
16 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:1987824 original size:20 final size:19
Alignment explanation
Indices: 1987799--1987836 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
1987789 TATAATTATA
1987799 TAAATATATATAA-TAAAAAT
1 TAAATA-AT-TAATTAAAAAT
1987819 TAAATAATTAATTAAAAA
1 TAAATAATTAATTAAAAA
1987837 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 8 0.47
20 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATAATTAATTAAAAAT
Found at i:1999494 original size:20 final size:23
Alignment explanation
Indices: 1999481--1999523 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1999471 ATATAAATTA
1999481 TATTTTAATTATATATAATATAG
1 TATTTTAATTATATATAATATAG
* *
1999504 TATTTTTATTAAAT-TAATAT
1 TATTTTAATTATATATAATAT
1999524 CTTAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TATTTTAATTATATATAATATAG
Found at i:2006556 original size:19 final size:18
Alignment explanation
Indices: 2006532--2006567 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2006522 TAATATAGTT
*
2006532 AAAAAAATTAATAAAAAGC
1 AAAAAAA-TAAAAAAAAGC
2006551 AAAAAAATAAAAAAAAG
1 AAAAAAATAAAAAAAAG
2006568 GAATTAGACA
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:0.81, C:0.03, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAAAATAAAAAAAAGC
Found at i:2007693 original size:16 final size:16
Alignment explanation
Indices: 2007672--2007723 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
2007662 GAGTATGAAT
2007672 TATTTTTATATTTATA
1 TATTTTTATATTTATA
*
2007688 TATTTTTA-A-TTATT
1 TATTTTTATATTTATA
2007702 TAGTTTTT-TATTTTATA
1 TA-TTTTTATA-TTTATA
2007719 TATTT
1 TATTT
2007724 ATGTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 6 0.20
15 7 0.23
16 11 0.37
17 6 0.20
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TATTTTTATATTTATA
Found at i:2007824 original size:21 final size:21
Alignment explanation
Indices: 2007775--2007824 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
2007765 AATATATATT
*
2007775 AATTTTA-ATTAATTTAAAAT
1 AATTTTATATTAATTTAAAAA
*
2007795 AATAATTATATT-ATTTAATAAA
1 AAT-TTTATATTAATTTAA-AAA
2007817 AATTTTAT
1 AATTTTAT
2007825 TTACTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.12
21 13 0.54
22 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTTATATTAATTTAAAAA
Found at i:2008408 original size:14 final size:14
Alignment explanation
Indices: 2008389--2008415 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2008379 CAGTTTGATC
2008389 AAATTAATTTAAAA
1 AAATTAATTTAAAA
2008403 AAATTAATTTAAA
1 AAATTAATTTAAA
2008416 TTTAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTAATTTAAAA
Found at i:2008865 original size:16 final size:15
Alignment explanation
Indices: 2008844--2008873 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
2008834 ACAAAAATCC
2008844 ATAAATAAAAATTAAA
1 ATAAAT-AAAATTAAA
2008860 ATAAATAAAATTAA
1 ATAAATAAAATTAA
2008874 TGAACGCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAAATAAAATTAAA
Found at i:2011299 original size:15 final size:15
Alignment explanation
Indices: 2011281--2011319 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2011271 GGAGGAGGAA
2011281 CTCTTGGAGAAGCAG
1 CTCTTGGAGAAGCAG
* *
2011296 CTCTAGGAGAGGCAG
1 CTCTTGGAGAAGCAG
*
2011311 CTCGTGGAG
1 CTCTTGGAG
2011320 GTGGAGGTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.18
Consensus pattern (15 bp):
CTCTTGGAGAAGCAG
Found at i:2011339 original size:48 final size:48
Alignment explanation
Indices: 2011285--2011394 Score: 168
Period size: 48 Copynumber: 2.3 Consensus size: 48
2011275 GAGGAACTCT
* *
2011285 TGGAGAAGCAGCTCTAGGAGAGGCAGCTCGTGGAGGTGGAGGTGGA-GG
1 TGGAGAAGCAGCTCTAGGAGAAGCAGCTCGAGGAGGTGGAGGT-GATGG
* *
2011333 TGGAGAAGCAGCTCTAGGGGAAGCAGCTTGAGGAGGTGGAGGTGATGG
1 TGGAGAAGCAGCTCTAGGAGAAGCAGCTCGAGGAGGTGGAGGTGATGG
2011381 TGGAGAAGCAGCTC
1 TGGAGAAGCAGCTC
2011395 GTGGAGGTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
47 2 0.04
48 55 0.96
ACGTcount: A:0.25, C:0.13, G:0.47, T:0.15
Consensus pattern (48 bp):
TGGAGAAGCAGCTCTAGGAGAAGCAGCTCGAGGAGGTGGAGGTGATGG
Found at i:2011426 original size:15 final size:15
Alignment explanation
Indices: 2011403--2011452 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
2011393 TCGTGGAGGT
2011403 GGAGAAGCAGCTCTA
1 GGAGAAGCAGCTCTA
* * *
2011418 GGGGAAGCAGTTCTT
1 GGAGAAGCAGCTCTA
* *
2011433 GGAGAAGCAACCCTA
1 GGAGAAGCAGCTCTA
2011448 GGAGA
1 GGAGA
2011453 GGCAATCCTC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.36, T:0.14
Consensus pattern (15 bp):
GGAGAAGCAGCTCTA
Found at i:2014426 original size:15 final size:16
Alignment explanation
Indices: 2014408--2014440 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2014398 AAAATATAAT
2014408 AGAAA-AAAAAAAAAA
1 AGAAATAAAAAAAAAA
*
2014423 AGAAATAAAACAAAAA
1 AGAAATAAAAAAAAAA
2014439 AG
1 AG
2014441 CATTGTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (16 bp):
AGAAATAAAAAAAAAA
Found at i:2014429 original size:21 final size:21
Alignment explanation
Indices: 2014395--2014439 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
2014385 TTAAGTACTC
*
2014395 AAAAAAATATAATAGAAAAAAA
1 AAAAAAAGATAATA-AAAAAAA
*
2014417 AAAAAAAGA-AATAAAACAAA
1 AAAAAAAGATAATAAAAAAAA
2014437 AAA
1 AAA
2014440 GCATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.09
Consensus pattern (21 bp):
AAAAAAAGATAATAAAAAAAA
Found at i:2014565 original size:16 final size:13
Alignment explanation
Indices: 2014527--2014557 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2014517 ATAACGTATG
*
2014527 AATATACAAAAAT
1 AATATATAAAAAT
2014540 AATATATAAAAAT
1 AATATATAAAAAT
2014553 AATAT
1 AATAT
2014558 TATTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:2016231 original size:16 final size:17
Alignment explanation
Indices: 2016210--2016241 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2016200 ATAAAAATTT
2016210 AAAATATATA-AATTAA
1 AAAATATATATAATTAA
2016226 AAAATATATATAATTA
1 AAAATATATATAATTA
2016242 GATTTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATATATATAATTAA
Found at i:2016641 original size:2 final size:2
Alignment explanation
Indices: 2016634--2016660 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2016624 AATTTCTACT
2016634 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2016661 GGTTGTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2017162 original size:24 final size:24
Alignment explanation
Indices: 2017085--2017162 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 24
2017075 AAAAAATATA
*
2017085 AAATATATATT-TGTTTAT-TTTATT
1 AAAT-TATATTATTTTTATATTT-TT
2017109 AAATTTATATATAATTTTTATTAATATTTT
1 AAA-TTATAT-T-ATTTTTA-T-AT-TTTT
2017139 AAATTATATTATTTTTATATTTTT
1 AAATTATATTATTTTTATATTTTT
2017163 TATATCATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 16
0.73 0.02 0.26
Matches are distributed among these distances:
24 12 0.27
25 4 0.09
26 1 0.02
27 12 0.27
28 2 0.04
29 6 0.13
30 6 0.13
31 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (24 bp):
AAATTATATTATTTTTATATTTTT
Found at i:2017163 original size:25 final size:25
Alignment explanation
Indices: 2017083--2017173 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 25
2017073 AAAAAAAATA
*
2017083 TAAAATATA-TATTTGTT-TATTTTAT
1 TAAATTATATTATTT-TTATATTTT-T
*
2017108 TAAATTTATATATAATTTTTATTAATATTT
1 TAAA-TTATAT-T-ATTTTTA-T-ATTTTT
2017138 TAAATTATATTATTTTTATATTTTT
1 TAAATTATATTATTTTTATATTTTT
* *
2017163 TATATCATATT
1 TAAATTATATT
2017174 TTAAATTATC
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
25 18 0.33
26 5 0.09
27 7 0.13
28 4 0.07
29 10 0.19
30 6 0.11
31 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (25 bp):
TAAATTATATTATTTTTATATTTTT
Found at i:2022018 original size:2 final size:2
Alignment explanation
Indices: 2021967--2022003 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
2021957 CACCAACAAC
*
2021967 TA TA TA T- TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2022004 AATTGCCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2024636 original size:60 final size:60
Alignment explanation
Indices: 2024538--2024657 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
2024528 TGCTCCTGAG
* *
2024538 ACACTATGCTTTTTGTTGCATGAATAGGTTCTGATGTTGGAATAGAAGAAGGGTTGGTGC
1 ACACCATGCTTTTTGTTGCATGAATAGGTTCTGATGTTGGAATAGAAGAAGGATTGGTGC
*
2024598 ACACCATGCTTTTTGTTGCATGAATAGGTTCTGATGTTGGAATAGGAGAAGGATTGGTGC
1 ACACCATGCTTTTTGTTGCATGAATAGGTTCTGATGTTGGAATAGAAGAAGGATTGGTGC
2024658 CCTCTTCTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.25, C:0.11, G:0.30, T:0.34
Consensus pattern (60 bp):
ACACCATGCTTTTTGTTGCATGAATAGGTTCTGATGTTGGAATAGAAGAAGGATTGGTGC
Found at i:2028611 original size:2 final size:2
Alignment explanation
Indices: 2028604--2028630 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2028594 TAAATATCAA
2028604 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2028631 AGGTTCGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2028770 original size:20 final size:21
Alignment explanation
Indices: 2028747--2028787 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2028737 ATAATAATTT
*
2028747 TATATCAAAAT-TTATTTAAA
1 TATATCAAAATATTATATAAA
*
2028767 TATATTAAAATATTATATAAA
1 TATATCAAAATATTATATAAA
2028788 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATCAAAATATTATATAAA
Found at i:2031252 original size:1 final size:1
Alignment explanation
Indices: 2031246--2031273 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
2031236 TTCAGGTAAG
2031246 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
2031274 CAGTGCTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:2035596 original size:2 final size:2
Alignment explanation
Indices: 2035589--2035630 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
2035579 GCCATCTGCT
2035589 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA GA -A GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2035629 GA
1 GA
2035631 ATTTAATTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2040090 original size:17 final size:17
Alignment explanation
Indices: 2040068--2040101 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2040058 TTCCTCTAAC
2040068 AATTGAAATTCTAACTT
1 AATTGAAATTCTAACTT
*
2040085 AATTGATATTCTAACTT
1 AATTGAAATTCTAACTT
2040102 GAAAGTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTGAAATTCTAACTT
Found at i:2049819 original size:16 final size:17
Alignment explanation
Indices: 2049789--2049830 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
2049779 TCTCGACTCT
*
2049789 TTCTTTCTTTCTTTTTC
1 TTCTCTCTTTCTTTTTC
*
2049806 TT-TCTCTTTTTTTTTTC
1 TTCTCTC-TTTCTTTTTC
2049823 TTCTCTCT
1 TTCTCTCT
2049831 CACTCTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.14
17 14 0.67
18 4 0.19
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTCTCTCTTTCTTTTTC
Found at i:2049826 original size:20 final size:19
Alignment explanation
Indices: 2049786--2049830 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
2049776 ATCTCTCGAC
2049786 TCTTTCT-TTCTTTCTTTT
1 TCTTTCTCTTCTTTCTTTT
2049804 TCTTTCTCTT-TTT-TTTT
1 TCTTTCTCTTCTTTCTTTT
2049821 TCTTCTCTCT
1 TCTT-TCTCT
2049831 CACTCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.32
18 15 0.60
19 2 0.08
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TCTTTCTCTTCTTTCTTTT
Found at i:2049831 original size:20 final size:20
Alignment explanation
Indices: 2049785--2049831 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
2049775 AATCTCTCGA
*
2049785 CTCTTTCTTTCTTTCTTTTT
1 CTCTCTCTTTCTTTCTTTTT
* *
2049805 CTTTCTCTTT-TTTTTTTCTT
1 CTCTCTCTTTCTTTCTTT-TT
2049825 CTCTCTC
1 CTCTCTC
2049832 ACTCTCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
CTCTCTCTTTCTTTCTTTTT
Found at i:2052922 original size:30 final size:30
Alignment explanation
Indices: 2052882--2052958 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
2052872 ACAAAAACAT
* *
2052882 TTAAAGATTTATTT-ATGTATAAATTAAAAA
1 TTAAAAATTTATTTGA-ATATAAATTAAAAA
*
2052912 TTAAAAATTTATTTGAATATAAATTAAAAT
1 TTAAAAATTTATTTGAATATAAATTAAAAA
*
2052942 TTAAAATTTTATTTGAA
1 TTAAAAATTTATTTGAA
2052959 AACAATAGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 41 0.98
31 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (30 bp):
TTAAAAATTTATTTGAATATAAATTAAAAA
Found at i:2054645 original size:97 final size:97
Alignment explanation
Indices: 2054478--2054671 Score: 352
Period size: 97 Copynumber: 2.0 Consensus size: 97
2054468 ATGCATGCCG
2054478 ACAGTTGGTCCCTAAAACTTGTTTTCTTCAACCGAAGAGATCATTGTCTACCTTACCATAAATTA
1 ACAGTTGGTCCCTAAAACTTGTTTTCTTCAACCGAAGAGATCATTGTCTACCTTACCATAAATTA
* *
2054543 TGGTAGATCAATCTCTAAGGATGGCGAAGTTT
66 AGGTAGATCAATCTCTAAGGATAGCGAAGTTT
* *
2054575 ACAGTTGGTCGCTAAAACTTGTTTTCTTCAACCGACGAGATCATTGTCTACCTTACCATAAATTA
1 ACAGTTGGTCCCTAAAACTTGTTTTCTTCAACCGAAGAGATCATTGTCTACCTTACCATAAATTA
2054640 AGGTAGATCAATCTCTAAGGATAGCGAAGTTT
66 AGGTAGATCAATCTCTAAGGATAGCGAAGTTT
2054672 CATTTGTATA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (97 bp):
ACAGTTGGTCCCTAAAACTTGTTTTCTTCAACCGAAGAGATCATTGTCTACCTTACCATAAATTA
AGGTAGATCAATCTCTAAGGATAGCGAAGTTT
Found at i:2056072 original size:21 final size:21
Alignment explanation
Indices: 2056048--2056087 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2056038 AAATTAAATT
2056048 TATAATCAAATATTATATTCA
1 TATAATCAAATATTATATTCA
* *
2056069 TATAATTAATTATTATATT
1 TATAATCAAATATTATATT
2056088 ACTTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TATAATCAAATATTATATTCA
Found at i:2060495 original size:2 final size:2
Alignment explanation
Indices: 2060488--2060514 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2060478 TCCAAGTAAA
2060488 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2060515 ATTCGAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2063101 original size:11 final size:11
Alignment explanation
Indices: 2063085--2063115 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
2063075 CATTCGTGAA
2063085 CCGTGGGAGAC
1 CCGTGGGAGAC
2063096 CCGTGGGAGAC
1 CCGTGGGAGAC
2063107 CCGTGGGAG
1 CCGTGGGAG
2063116 TCCCTCCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.26, G:0.48, T:0.10
Consensus pattern (11 bp):
CCGTGGGAGAC
Found at i:2070438 original size:138 final size:140
Alignment explanation
Indices: 2070169--2070444 Score: 432
Period size: 143 Copynumber: 2.0 Consensus size: 140
2070159 GTAGTGAAGA
* * *
2070169 AAAATCACATAAAGCCTTAGCTTTCAATGTTAATTTTTGTTATCTTTTTTTTTTCTCCTATCATT
1 AAAATCACATAAAGCCTTAACTTTAAATGTTAATTTTTGTTATCTTTTTTTTTCCTCC--TCATT
* *
2070234 GTCATCAAATTTGATTGAAAGATTGATTTTTTTTTTTTTGTTTCAAGTAATAATAATGTAGTTAA
64 GTCATCAAACTTGATTGAAAGATTGA-TTTTTTTATTTTGTTTCAAGTAATAATAATGTAGTTAA
2070299 TATGCATAAAAGC
128 TATGCATAAAAGC
*
2070312 AAAATCACATAAAGCCTTAACTTTAAATGTTAATTATTT-TTATCTTTTTTTTTCCTCC-CATTT
1 AAAATCACATAAAGCCTTAACTTTAAATGTTAATT-TTTGTTATCTTTTTTTTTCCTCCTCATTG
*
2070375 TCGTCAAACTTGATTGAAAGATTGA-TTTTTTATTTTGTTTCAAGTAATAATAATGTAGTTAATA
65 TCATCAAACTTGATTGAAAGATTGATTTTTTTATTTTGTTTCAAGTAATAATAATGTAGTTAATA
2070439 TGCATA
130 TGCATA
2070445 TATCTTTATC
Statistics
Matches: 125, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
138 44 0.35
140 27 0.22
143 51 0.41
144 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (140 bp):
AAAATCACATAAAGCCTTAACTTTAAATGTTAATTTTTGTTATCTTTTTTTTTCCTCCTCATTGT
CATCAAACTTGATTGAAAGATTGATTTTTTTATTTTGTTTCAAGTAATAATAATGTAGTTAATAT
GCATAAAAGC
Found at i:2079145 original size:11 final size:11
Alignment explanation
Indices: 2079125--2079158 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
2079115 AAATTTATTT
2079125 ATAAATAATAA
1 ATAAATAATAA
*
2079136 ATAAACAATAA
1 ATAAATAATAA
2079147 ATAAATAATAA
1 ATAAATAATAA
2079158 A
1 A
2079159 CGAATGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (11 bp):
ATAAATAATAA
Found at i:2081386 original size:20 final size:20
Alignment explanation
Indices: 2081350--2081387 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2081340 TTGATGATGT
*
2081350 TAGAAAAATAAGTAAAGATA
1 TAGAAAAATAAGAAAAGATA
2081370 TAGAAATAATAA-AAAAGA
1 TAGAAA-AATAAGAAAAGA
2081388 ATTTTGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (20 bp):
TAGAAAAATAAGAAAAGATA
Done.