Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_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: 4657139
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 18
Found at i:1678844 original size:13 final size:13
Alignment explanation
Indices: 1678826--1678851 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1678816 AACCCCAATA
1678826 TTGACATTATTTT
1 TTGACATTATTTT
1678839 TTGACATTATTTT
1 TTGACATTATTTT
1678852 CAAGTGATTG
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:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTGACATTATTTT
Found at i:1682963 original size:2 final size:2
Alignment explanation
Indices: 1682906--1682949 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
1682896 CCACCCGCCC
* * *
1682906 AT AT AA AT AA AT AA 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
1682948 AT
1 AT
1682950 CATTTTTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1682977 original size:17 final size:17
Alignment explanation
Indices: 1682939--1682984 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1682929 TATATATATA
* *
1682939 TATATATATATCATTTTT
1 TATATAT-TATAATTTTG
1682957 TATATATTATAATTTTG
1 TATATATTATAATTTTG
1682974 TATATAATTAT
1 TATAT-ATTAT
1682985 CATTATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATATTATAATTTTG
Found at i:1687643 original size:30 final size:30
Alignment explanation
Indices: 1687536--1687886 Score: 232
Period size: 30 Copynumber: 11.7 Consensus size: 30
1687526 AAAATCATTA
*
1687536 CTTAACATTA-AAATTATATTTTATT-TT-T
1 CTTAAC-TTATAAAATATATTTTATTCTTAT
**
1687564 -TTAACTTATTGAAT-TCATTTTATTCTTAT
1 CTTAACTTATAAAATAT-ATTTTATTCTTAT
* *
1687593 CTTAACTGA-AAAATATATTTTAATCTTAT
1 CTTAACTTATAAAATATATTTTATTCTTAT
* *
1687622 CTTAACTTATAAAACATATTTTATT-TCTAC
1 CTTAACTTATAAAATATATTTTATTCT-TAT
*
1687652 CTTAACTTA-AAAATATATTTTATTTTTAT
1 CTTAACTTATAAAATATATTTTATTCTTAT
* * * * * *
1687681 CTAAACTTGTTACATATATTATATTCTTAA
1 CTTAACTTATAAAATATATTTTATTCTTAT
* * * *
1687711 CTTAAATTATTAAATATATTATATTCTTAC
1 CTTAACTTATAAAATATATTTTATTCTTAT
* *
1687741 CTTAAATTATTAAATAT-TATTTATTCTTAT
1 CTTAACTTATAAAATATAT-TTTATTCTTAT
1687771 CTTAA-TT-TGAAAATATATATTTCATT-TTAAT
1 CTTAACTTAT-AAAATATAT-TTT-ATTCTT-AT
* *
1687802 TTTAAAAATTATATTAAA-ATATTTTATTCTTAT
1 CTT--AACTTATA--AAATATATTTTATTCTTAT
*
1687835 TTTAA-TT-TAGAAATATATTTTATT-TTCAT
1 CTTAACTTATA-AAATATATTTTATTCTT-AT
1687864 CTTAAC-TATAAGAAATATATTTT
1 CTTAACTTAT-A-AAATATATTTT
1687887 TTATATTAAT
Statistics
Matches: 265, Mismatches: 31, Indels: 51
0.76 0.09 0.15
Matches are distributed among these distances:
26 4 0.02
27 15 0.06
28 8 0.03
29 76 0.29
30 114 0.43
31 22 0.08
33 10 0.04
34 8 0.03
35 5 0.02
36 3 0.01
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (30 bp):
CTTAACTTATAAAATATATTTTATTCTTAT
Found at i:1687643 original size:59 final size:59
Alignment explanation
Indices: 1687536--1687886 Score: 245
Period size: 59 Copynumber: 5.9 Consensus size: 59
1687526 AAAATCATTA
* **
1687536 CTTAACATTAAAATTATATTTT-ATTTT-T-TTAACTTATTGAAT-TCATTTTATTCTTAT
1 CTTAAC-TTAAAAATATATTTTAATTTTATCTTAACTTATAAAATAT-ATTTTATTCTTAT
* * * *
1687593 CTTAACTGAAAAATATATTTTAATCTTATCTTAACTTATAAAACATATTTTATT-TCTAC
1 CTTAACTTAAAAATATATTTTAATTTTATCTTAACTTATAAAATATATTTTATTCT-TAT
* * * * * * *
1687652 CTTAACTTAAAAATATATTTTATTTTTATCTAAACTTGTTACATATATTATATTCTTAA
1 CTTAACTTAAAAATATATTTTAATTTTATCTTAACTTATAAAATATATTTTATTCTTAT
* * * * * *
1687711 CTTAAATTATTAAATATATTAT-ATTCTTACCTTAAATTATTAAATAT-TATTTATTCTTAT
1 CTTAACTTA-AAAATATATTTTAATT-TTATCTTAACTTATAAAATATAT-TTTATTCTTAT
* * * * *
1687771 CTTAATTTGAAAATATATATTTCATTTTAATTTTAAAAATTATATTAAA-ATATTTTATTCTTAT
1 CTTAACTTAAAAATATAT-TTTAATTTT-ATCTT--AACTTATA--AAATATATTTTATTCTTAT
* * *
1687835 TTTAATTTAGAAATATATTTT-ATTTTCATCTTAAC-TATAAGAAATATATTTT
1 CTTAACTTAAAAATATATTTTAATTTT-ATCTTAACTTAT-A-AAATATATTTT
1687887 TTATATTAAT
Statistics
Matches: 233, Mismatches: 42, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
56 13 0.06
57 10 0.04
58 2 0.01
59 93 0.40
60 58 0.25
61 6 0.03
62 9 0.04
63 10 0.04
64 28 0.12
65 4 0.02
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (59 bp):
CTTAACTTAAAAATATATTTTAATTTTATCTTAACTTATAAAATATATTTTATTCTTAT
Found at i:1687787 original size:89 final size:88
Alignment explanation
Indices: 1687580--1687791 Score: 221
Period size: 89 Copynumber: 2.4 Consensus size: 88
1687570 TATTGAATTC
* * * * *
1687580 ATTTTATTCTTATCTTAACTGAAAAATATATTTTAATCTTATCTTAACTTATAAAACATATTTTA
1 ATTTTATTCTTATCTTAATTGAAAAATATATTATAATCTTAACTTAAATTATAAAACATATTATA
*
1687645 TTTCTACCTTAACTTAAAAATAT
66 TTTCTACCTTAAATTAAAAATAT
* * ** * * * *
1687668 ATTTTATTTTTATCTAAACTTGTTACATATATTATATTCTTAACTTAAATTATTAAATATATTAT
1 ATTTTATTCTTATCTTAA-TTGAAAAATATATTATAATCTTAACTTAAATTATAAAACATATTAT
*
1687733 A-TTCTTACCTTAAATTATTAAATAT
65 ATTTC-TACCTTAAATTA-AAAATAT
1687758 -TATTTATTCTTATCTTAATTTGAAAATATATATT
1 AT-TTTATTCTTATCTTAA-TTGAAAA-ATATATT
1687792 TCATTTTAAT
Statistics
Matches: 98, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
88 19 0.19
89 48 0.49
90 24 0.24
91 7 0.07
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (88 bp):
ATTTTATTCTTATCTTAATTGAAAAATATATTATAATCTTAACTTAAATTATAAAACATATTATA
TTTCTACCTTAAATTAAAAATAT
Found at i:1687857 original size:93 final size:98
Alignment explanation
Indices: 1687718--1687910 Score: 229
Period size: 95 Copynumber: 2.0 Consensus size: 98
1687708 TAACTTAAAT
* * *
1687718 TATTAAATATATTATATTCTTACCTTAAATTATTAAATATTATTTATTCTT-ATCTTAA-TTTGA
1 TATTAAATATATTATATTCTTACCTTAAATTATGAAATATTATTTATT-TTCATCTTAACTATAA
*
1687781 -AAATATATATTTCATTTTAATTTTAAAA-ATTA
65 GAAATATATATTTCATATTAATTTTAAAACATTA
* ** *
1687813 TATTAAA-ATATTTTATTCTTATTTTAATTTA-GAAATA-TATTTTATTTTCATCTTAACTATAA
1 TATTAAATATATTATATTCTTACCTTAAATTATGAAATATTA-TTTATTTTCATCTTAACTATAA
* *
1687875 GAAATATATTTTTTATATTAATTTTAAAACATTA
65 GAAATATATATTTCATATTAATTTTAAAACATTA
1687909 TA
1 TA
1687911 AGAATAAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
92 4 0.05
93 18 0.22
94 23 0.28
95 32 0.39
96 6 0.07
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.53
Consensus pattern (98 bp):
TATTAAATATATTATATTCTTACCTTAAATTATGAAATATTATTTATTTTCATCTTAACTATAAG
AAATATATATTTCATATTAATTTTAAAACATTA
Found at i:1691014 original size:26 final size:27
Alignment explanation
Indices: 1690985--1691035 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
1690975 CATTTTTTCA
*
1690985 ATTTAAAAAAAAT-AAAATTAAAAACT
1 ATTTAAAAAAAATGAAAATAAAAAACT
**
1691011 ATTTTTAAAAAATGAAAATAAAAAA
1 ATTTAAAAAAAATGAAAATAAAAAA
1691036 TACTTTTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (27 bp):
ATTTAAAAAAAATGAAAATAAAAAACT
Found at i:1691042 original size:26 final size:26
Alignment explanation
Indices: 1690991--1691043 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1690981 TTCAATTTAA
* *
1690991 AAAAAATAAAATTAAAAACTATTTTT
1 AAAAAATAAAATTAAAAAATACTTTT
1691017 AAAAAATGAAAA-TAAAAAATACTTTT
1 AAAAAAT-AAAATTAAAAAATACTTTT
1691043 A
1 A
1691044 GAAGTCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (26 bp):
AAAAAATAAAATTAAAAAATACTTTT
Found at i:1699754 original size:3 final size:3
Alignment explanation
Indices: 1699748--1699819 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
1699738 TTAATGTGTT
1699748 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1699796 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
1699820 AGTATTCGAG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1704738 original size:31 final size:30
Alignment explanation
Indices: 1704668--1704752 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 30
1704658 TAATAGCCAT
** *
1704668 GAGATTTAATAAAACAACGCCCTATGGTCG
1 GAGATTTAATAAAACAACATCCTATAGTCG
1704698 GAGATTTAATAAAACAACATCCTATAGTCAG
1 GAGATTTAATAAAACAACATCCTATAGTC-G
* *
1704729 GAGACTTAATAAAGCAACATCCTA
1 GAGATTTAATAAAACAACATCCTA
1704753 CAATTGGGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 26 0.53
31 23 0.47
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (30 bp):
GAGATTTAATAAAACAACATCCTATAGTCG
Found at i:1720487 original size:6 final size:6
Alignment explanation
Indices: 1720476--1720511 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
1720466 TTTTCTTCTT
*
1720476 CATCAC CATCAC CAACAC CATCAC CATCAC CATCAC
1 CATCAC CATCAC CATCAC CATCAC CATCAC CATCAC
1720512 TGTCTTCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
CATCAC
Found at i:1722877 original size:2 final size:2
Alignment explanation
Indices: 1722870--1722898 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1722860 GTTATTTTCT
1722870 TA 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 TA T
1722899 CATTGGTAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1723847 original size:2 final size:2
Alignment explanation
Indices: 1723840--1723869 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1723830 CCCTTGCAGC
1723840 TA 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
1723870 AAGTGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1731948 original size:2 final size:2
Alignment explanation
Indices: 1731941--1731981 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1731931 ATTTTATCCC
1731941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1731982 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1731986 original size:2 final size:2
Alignment explanation
Indices: 1731981--1732008 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1731971 ATATATATAT
1731981 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1732009 TAAGATGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1733277 original size:31 final size:32
Alignment explanation
Indices: 1733224--1733391 Score: 125
Period size: 31 Copynumber: 5.4 Consensus size: 32
1733214 ATTATAAATA
*
1733224 ATAATAAATTTTGAT-AAGTTTAATGACCATTTT
1 ATAAT-AA-TTTGATAAAGTTTAATGACTATTTT
* *
1733257 ATAATAATTTGATCAA-TTTAATGAGTATTTT
1 ATAATAATTTGATAAAGTTTAATGACTATTTT
* * *
1733288 ATAATTATTT-AAAAAGTTCAATGACTATTTT
1 ATAATAATTTGATAAAGTTTAATGACTATTTT
* * * *
1733319 ATAATAGTTTGATAAA-TTTAAT-AATCAATTA
1 ATAATAATTTGATAAAGTTTAATGACT-ATTTT
* * * * *
1733350 ATAATTATTT-AAAAATTTTAATGATTATTAT
1 ATAATAATTTGATAAAGTTTAATGACTATTTT
1733381 ATAAT-ATTTGA
1 ATAATAATTTGA
1733392 ATATTTACTT
Statistics
Matches: 107, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
30 13 0.12
31 79 0.74
32 10 0.09
33 5 0.05
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (32 bp):
ATAATAATTTGATAAAGTTTAATGACTATTTT
Found at i:1733305 original size:62 final size:62
Alignment explanation
Indices: 1733239--1733391 Score: 193
Period size: 62 Copynumber: 2.5 Consensus size: 62
1733229 AAATTTTGAT
* * * * *
1733239 AAGTTTAATGACCATTTTATAATAATTTGATCAATTTAATGAGT-ATTTTATAATTATTTAAA
1 AAGTTTAATGACTATTTTATAATAATTTGATAAATTTAAT-AATCAATTAATAATTATTTAAA
* *
1733301 AAGTTCAATGACTATTTTATAATAGTTTGATAAATTTAATAATCAATTAATAATTATTTAAA
1 AAGTTTAATGACTATTTTATAATAATTTGATAAATTTAATAATCAATTAATAATTATTTAAA
* * *
1733363 AATTTTAATGATTATTATATAAT-ATTTGA
1 AAGTTTAATGACTATTTTATAATAATTTGA
1733392 ATATTTACTT
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
61 7 0.09
62 71 0.91
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (62 bp):
AAGTTTAATGACTATTTTATAATAATTTGATAAATTTAATAATCAATTAATAATTATTTAAA
Found at i:1734888 original size:21 final size:21
Alignment explanation
Indices: 1734864--1734914 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1734854 CGACCGTCGG
* * * *
1734864 TATTTTTTGTTTTTATTTTAT
1 TATTTTTTATCTTTAATTTTT
*
1734885 TATTGTTTATCTTTAATTTTT
1 TATTTTTTATCTTTAATTTTT
1734906 TATTTTTTA
1 TATTTTTTA
1734915 ATAACTCTAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (21 bp):
TATTTTTTATCTTTAATTTTT
Found at i:1734910 original size:7 final size:7
Alignment explanation
Indices: 1734864--1734914 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
1734854 CGACCGTCGG
1734864 TATTTTT
1 TATTTTT
*
1734871 T-GTTTT
1 TATTTTT
1734877 TATTTTAT
1 TATTTT-T
*
1734885 TATTGTT
1 TATTTTT
*
1734892 TATCTTT
1 TATTTTT
*
1734899 AATTTTT
1 TATTTTT
1734906 TATTTTT
1 TATTTTT
1734913 TA
1 TA
1734915 ATAACTCTAC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
6 5 0.15
7 23 0.68
8 6 0.18
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (7 bp):
TATTTTT
Found at i:1734956 original size:23 final size:23
Alignment explanation
Indices: 1734919--1734983 Score: 84
Period size: 22 Copynumber: 2.9 Consensus size: 23
1734909 TTTTTAATAA
1734919 CTCTACC-TTATGGTACATTTTT
1 CTCTACCTTTATGGTACATTTTT
1734941 CTCTACCTTTATGGTACGATTTTT
1 CTCTACCTTTATGGTAC-ATTTTT
1734965 CTGCT---TTTATGGTACATTT
1 CT-CTACCTTTATGGTACATTT
1734984 CAGTCGTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.10
22 17 0.43
23 9 0.22
24 8 0.20
25 2 0.05
ACGTcount: A:0.17, C:0.20, G:0.12, T:0.51
Consensus pattern (23 bp):
CTCTACCTTTATGGTACATTTTT
Found at i:1735511 original size:66 final size:66
Alignment explanation
Indices: 1735352--1735548 Score: 324
Period size: 66 Copynumber: 3.0 Consensus size: 66
1735342 TTATGTATTT
* * * * * * *
1735352 AATTTACAATGATGATCGTAAATATTCGTTCTAATTTATATATATATTATTTTTAAT-AAAAAAT
1 AATTTACAATTATGAGCATAAACATTCGTTCTGATTTAGATATATTTTATTTTTAATAAAAAAAT
1735416 A
66 A
1735417 AATTTACAATTATGAGCATAAACATTCGTTCTGATTTAGATATATTTTATTTTTAATAAAAAAAT
1 AATTTACAATTATGAGCATAAACATTCGTTCTGATTTAGATATATTTTATTTTTAATAAAAAAAT
1735482 A
66 A
1735483 AATTTACAATTATGAGCATAAACATTCGTTCTGATTTAGATATATTTTATTTTTAATAAAAAAAT
1 AATTTACAATTATGAGCATAAACATTCGTTCTGATTTAGATATATTTTATTTTTAATAAAAAAAT
1735548 A
66 A
1735549 GCTGCTTATA
Statistics
Matches: 124, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 50 0.40
66 74 0.60
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (66 bp):
AATTTACAATTATGAGCATAAACATTCGTTCTGATTTAGATATATTTTATTTTTAATAAAAAAAT
A
Found at i:1760505 original size:23 final size:23
Alignment explanation
Indices: 1760479--1760523 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1760469 CACCACAGCT
*
1760479 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
1760502 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1760524 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:1760772 original size:149 final size:149
Alignment explanation
Indices: 1760502--1760805 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
1760492 CGAAGTGCCC
*
1760502 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAATGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1760567 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
1760632 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
1760651 CGTAGAATTGCACCGTAATGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAATGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1760716 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
1760781 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
1760800 CGTAGA
1 CGTAGA
1760806 CCCTCTACCC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAATGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:1761396 original size:67 final size:68
Alignment explanation
Indices: 1761286--1761432 Score: 242
Period size: 67 Copynumber: 2.2 Consensus size: 68
1761276 TCATAGGGGA
* *
1761286 ATCGGTTCCCCCCCTTGGGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTCATATCCGTTGAGG
1 ATCGGTT-CCCCCCTTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTGAGG
1761351 CGGT
65 CGGT
* *
1761355 ATCGGTTCCCCCC-TGGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATCCGTTGAGGG
1 ATCGGTTCCCCCCTTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTGAGGC
1761419 GGT
66 GGT
1761422 ATCGGTTCCCC
1 ATCGGTTCCCC
1761433 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
67 61 0.82
68 6 0.08
69 7 0.09
ACGTcount: A:0.14, C:0.29, G:0.26, T:0.31
Consensus pattern (68 bp):
ATCGGTTCCCCCCTTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTGAGGC
GGT
Found at i:1767516 original size:23 final size:23
Alignment explanation
Indices: 1767490--1767534 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1767480 CACCACAGCT
*
1767490 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
1767513 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1767535 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:1767783 original size:149 final size:149
Alignment explanation
Indices: 1767513--1767816 Score: 608
Period size: 149 Copynumber: 2.0 Consensus size: 149
1767503 CGAAGTGCCC
1767513 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1767578 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
1767643 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
1767662 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1767727 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
1767792 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
1767811 CGTAGA
1 CGTAGA
1767817 CCCTCTACCC
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 155 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:1768404 original size:67 final size:68
Alignment explanation
Indices: 1768294--1768446 Score: 245
Period size: 67 Copynumber: 2.2 Consensus size: 68
1768284 TTTTTCTCAT
* * *
1768294 GGGGGAATCGGTTCCCCCCCTTGGGGGTATCGGTTCCCCTCTAGCATTCTAGAATTTCATATCCG
1 GGGGGTATCGGTT-CCCCCCTTGGGGGTATCGATTCCCCTCTAGCATTCTAGAAATTCATATCCG
1768359 TTGA
65 TTGA
* *
1768363 GGGGGTATCGGTTCCCCCC-TGGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATCCGT
1 GGGGGTATCGGTTCCCCCCTTGGGGGTATCGATTCCCCTCTAGCATTCTAGAAATTCATATCCGT
1768427 TGA
66 TGA
1768430 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1768447 TTGAATGGGT
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
67 61 0.77
68 6 0.08
69 12 0.15
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.30
Consensus pattern (68 bp):
GGGGGTATCGGTTCCCCCCTTGGGGGTATCGATTCCCCTCTAGCATTCTAGAAATTCATATCCGT
TGA
Found at i:1769864 original size:24 final size:24
Alignment explanation
Indices: 1769830--1769881 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1769820 ATTTATTATC
*
1769830 TAATTTTGCAC-CCCTAAAATTTT
1 TAATTTCGCACTCCCTAAAATTTT
*
1769853 ATAATTTCGCACTCTCTAAAATTTT
1 -TAATTTCGCACTCCCTAAAATTTT
1769878 TAAT
1 TAAT
1769882 ATACTCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (24 bp):
TAATTTCGCACTCCCTAAAATTTT
Found at i:1771580 original size:3 final size:3
Alignment explanation
Indices: 1771572--1771597 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1771562 CAATTATCTA
1771572 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
1771598 GTCGTCACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:1778493 original size:16 final size:16
Alignment explanation
Indices: 1778472--1778522 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
1778462 AATTTAATCG
1778472 GTCAAATCAAATTCGA
1 GTCAAATCAAATTCGA
*
1778488 GTCAAAT---ATT-TA
1 GTCAAATCAAATTCGA
*
1778500 TTCAAATCAAATTCGA
1 GTCAAATCAAATTCGA
1778516 GTCAAAT
1 GTCAAAT
1778523 ATTTATTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 7 0.26
13 3 0.11
15 3 0.11
16 14 0.52
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (16 bp):
GTCAAATCAAATTCGA
Found at i:1778513 original size:28 final size:28
Alignment explanation
Indices: 1778473--1778530 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
1778463 ATTTAATCGG
1778473 TCAAATCAAATTCGAGTCAAATATTTAT
1 TCAAATCAAATTCGAGTCAAATATTTAT
1778501 TCAAATCAAATTCGAGTCAAATATTTAT
1 TCAAATCAAATTCGAGTCAAATATTTAT
1778529 TC
1 TC
1778531 TATGAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (28 bp):
TCAAATCAAATTCGAGTCAAATATTTAT
Found at i:1789996 original size:17 final size:19
Alignment explanation
Indices: 1789974--1790010 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
1789964 TATTAATTAA
1789974 TTAATAATTT-A-TTTATT
1 TTAATAATTTGATTTTATT
*
1789991 TTAATATTTTGATTTTATT
1 TTAATAATTTGATTTTATT
1790010 T
1 T
1790011 ATTTTACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTAATAATTTGATTTTATT
Found at i:1798189 original size:18 final size:19
Alignment explanation
Indices: 1798166--1798205 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
1798156 ATTTTATATT
1798166 ATTTATATTCTTAATT-TG
1 ATTTATATTCTTAATTCTG
1798184 ATTTATATTCTTAATTCTG
1 ATTTATATTCTTAATTCTG
1798203 ATT
1 ATT
1798206 AAATTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTTATATTCTTAATTCTG
Found at i:1798211 original size:18 final size:18
Alignment explanation
Indices: 1798166--1798211 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1798156 ATTTTATATT
*
1798166 ATTTATATTCTTAATTTG
1 ATTTAAATTCTTAATTTG
*
1798184 ATTTATATTCTTAATTCTG
1 ATTTAAATTCTTAATT-TG
1798203 A-TTAAATTC
1 ATTTAAATTC
1798212 AAATTTAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (18 bp):
ATTTAAATTCTTAATTTG
Found at i:1799635 original size:15 final size:15
Alignment explanation
Indices: 1799607--1799649 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1799597 TAAACTTTTT
1799607 TAAATATTTAAAAAA
1 TAAATATTTAAAAAA
*
1799622 TAAAT-TTTATAAAA
1 TAAATATTTAAAAAA
*
1799636 TATATATTTCAAAA
1 TAAATATTT-AAAA
1799650 CTATTTATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.52
15 8 0.35
16 3 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATATTTAAAAAA
Found at i:1814100 original size:2 final size:2
Alignment explanation
Indices: 1814093--1814126 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1814083 ATTACAAGTT
1814093 TA TA TA 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
1814127 CTGATATAAT
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):
TA
Found at i:1818551 original size:37 final size:37
Alignment explanation
Indices: 1818496--1818570 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
1818486 ACTTACATAG
1818496 CCCATCCGCGCAACCCTGTCCTTAGAAGGCAGGCCAT
1 CCCATCCGCGCAACCCTGTCCTTAGAAGGCAGGCCAT
*
1818533 CCCATCCGCGCAAGCCTGTCCTTAGAAGGCAGGCCAT
1 CCCATCCGCGCAACCCTGTCCTTAGAAGGCAGGCCAT
1818570 C
1 C
1818571 TAACAAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.21, C:0.40, G:0.23, T:0.16
Consensus pattern (37 bp):
CCCATCCGCGCAACCCTGTCCTTAGAAGGCAGGCCAT
Found at i:1819144 original size:90 final size:90
Alignment explanation
Indices: 1818991--1819155 Score: 267
Period size: 90 Copynumber: 1.8 Consensus size: 90
1818981 TAACACACCA
* * * * *
1818991 TTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATAATATCAGAGATTTTATTATTTCAAATTAATTAAATCTATAT
1819056 TTAATTAATTGGAATTTAATAATCT
66 TTAATTAATTGGAATTTAATAATCT
* *
1819081 TTTTATATCCAAGTTACCCTAATAATATCATAGATTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATAATATCAGAGATTTTATTATTTCAAATTAATTAAATCTATAT
1819146 TTAATTAATT
66 TTAATTAATT
1819156 AAAATTAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.47
Consensus pattern (90 bp):
TTTTATAGCCAAGTTACCCTAATAATATCAGAGATTTTATTATTTCAAATTAATTAAATCTATAT
TTAATTAATTGGAATTTAATAATCT
Found at i:1822791 original size:27 final size:27
Alignment explanation
Indices: 1822761--1822821 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
1822751 CAGGTGGAAT
1822761 GCCTCCAAACAATATGGGAGGTATGCA
1 GCCTCCAAACAATATGGGAGGTATGCA
1822788 GCCTCCAAACAATATGGGAGGTATGCA
1 GCCTCCAAACAATATGGGAGGTATGCA
*
1822815 TCCTCCA
1 GCCTCCA
1822822 TACCAGGGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (27 bp):
GCCTCCAAACAATATGGGAGGTATGCA
Found at i:1822861 original size:66 final size:66
Alignment explanation
Indices: 1822788--1822938 Score: 266
Period size: 66 Copynumber: 2.3 Consensus size: 66
1822778 GAGGTATGCA
*
1822788 GCCTCCAAACAATATGGGAGGTATGCATCCTCCATACCAGGGCATGCAGAATGCAGCAGGTGGAA
1 GCCTCCAAACAATATGGGAGGTATGCATCCTCCATACCAGGGCATGCAGAATGCAGCAGGAGGAA
1822853 T
66 T
1822854 GCCTCCAAACAATATGGGAGGTATGCATCCTCCATACCAGGGCATGCAGAATGCAGCAGGAGGAA
1 GCCTCCAAACAATATGGGAGGTATGCATCCTCCATACCAGGGCATGCAGAATGCAGCAGGAGGAA
1822919 T
66 T
* * *
1822920 GCCACCCAACAACATGGGA
1 GCCTCCAAACAATATGGGA
1822939 AGGATGCCAC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 81 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.16
Consensus pattern (66 bp):
GCCTCCAAACAATATGGGAGGTATGCATCCTCCATACCAGGGCATGCAGAATGCAGCAGGAGGAA
T
Found at i:1822965 original size:27 final size:27
Alignment explanation
Indices: 1822921--1823001 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
1822911 AGGAGGAATG
* * * *
1822921 CCACCCAACAACATGGGAAGGATGCCA
1 CCACCAAACAATACGGGAGGGATGCCA
*
1822948 CCACCAAGCAATACGGGAGGGATGCCA
1 CCACCAAACAATACGGGAGGGATGCCA
*
1822975 CCACCAAACAATACGGGAGGGCTGCCA
1 CCACCAAACAATACGGGAGGGATGCCA
1823002 TCAAACAACA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.35, C:0.32, G:0.26, T:0.07
Consensus pattern (27 bp):
CCACCAAACAATACGGGAGGGATGCCA
Found at i:1823011 original size:27 final size:27
Alignment explanation
Indices: 1822935--1823009 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
1822925 CCAACAACAT
* * * *
1822935 GGGAAGGATGCCACCACCAAGCAATAC
1 GGGAGGGATGCCACAAACAAACAATAC
* *
1822962 GGGAGGGATGCCACCACCAAACAATAC
1 GGGAGGGATGCCACAAACAAACAATAC
*
1822989 GGGAGGGCTGCCATCAAACAA
1 GGGAGGGATGCCA-CAAACAA
1823010 CATGGGGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 37 0.88
28 5 0.12
ACGTcount: A:0.36, C:0.28, G:0.28, T:0.08
Consensus pattern (27 bp):
GGGAGGGATGCCACAAACAAACAATAC
Found at i:1827657 original size:12 final size:12
Alignment explanation
Indices: 1827640--1827664 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1827630 AAAGATCAAA
1827640 TCTTTTTTTTCT
1 TCTTTTTTTTCT
1827652 TCTTTTTTTTCT
1 TCTTTTTTTTCT
1827664 T
1 T
1827665 TTTGGGAAAT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TCTTTTTTTTCT
Found at i:1828010 original size:27 final size:27
Alignment explanation
Indices: 1827972--1828049 Score: 147
Period size: 27 Copynumber: 2.9 Consensus size: 27
1827962 CACCCCACCT
1827972 CAATATTCAATCCTCGATAATTTACCC
1 CAATATTCAATCCTCGATAATTTACCC
*
1827999 CAATATTCAATCCTCGATAATTTACCT
1 CAATATTCAATCCTCGATAATTTACCC
1828026 CAATATTCAATCCTCGATAATTTA
1 CAATATTCAATCCTCGATAATTTA
1828050 ATCAAGCTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (27 bp):
CAATATTCAATCCTCGATAATTTACCC
Found at i:1832069 original size:34 final size:34
Alignment explanation
Indices: 1832013--1832079 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
1832003 AATTAAAACA
* *
1832013 AACAAATTATGACACTAAACATCCAAATGGAACC
1 AACAAATTATAACACTAAACATCCAAATCGAACC
** *
1832047 AACAAATTATAACACTGGACATCTAAATCGAAC
1 AACAAATTATAACACTAAACATCCAAATCGAAC
1832080 TGAAACTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.49, C:0.22, G:0.09, T:0.19
Consensus pattern (34 bp):
AACAAATTATAACACTAAACATCCAAATCGAACC
Found at i:1838627 original size:26 final size:26
Alignment explanation
Indices: 1838591--1838644 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1838581 GTTACATACA
*
1838591 TTGCATTTTCATTTCTAACACAAATC
1 TTGCATCTTCATTTCTAACACAAATC
1838617 TTGCATCTTCATTTCTAACACAAATC
1 TTGCATCTTCATTTCTAACACAAATC
1838643 TT
1 TT
1838645 ATAACCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.43
Consensus pattern (26 bp):
TTGCATCTTCATTTCTAACACAAATC
Found at i:1839302 original size:30 final size:29
Alignment explanation
Indices: 1839268--1839327 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
1839258 TTTGACTGAA
* *
1839268 TCAATTAAAAAGTTTGGTGGTCAGATTGAT
1 TCAATT-AAAAGTTCGGTGGTCAAATTGAT
*
1839298 TCAATTGAAAGTTCGGTGGTCAAATTGAT
1 TCAATTAAAAGTTCGGTGGTCAAATTGAT
1839327 T
1 T
1839328 TTTGACCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (29 bp):
TCAATTAAAAGTTCGGTGGTCAAATTGAT
Found at i:1841291 original size:30 final size:30
Alignment explanation
Indices: 1841257--1841323 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
1841247 AGGGTATTGT
*
1841257 TTATATTATTGAATTTTTAATTTT-TTTCAA
1 TTATATTATTGAA-CTTTAATTTTCTTTCAA
* *
1841287 TTATAGTATTGAACTTTAATTTTCGTTTCGA
1 TTATATTATTGAACTTTAATTTTC-TTTCAA
1841318 TTATAT
1 TTATAT
1841324 AACTGAATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 9 0.29
30 12 0.39
31 10 0.32
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.58
Consensus pattern (30 bp):
TTATATTATTGAACTTTAATTTTCTTTCAA
Found at i:1846953 original size:41 final size:41
Alignment explanation
Indices: 1846908--1847165 Score: 134
Period size: 41 Copynumber: 6.3 Consensus size: 41
1846898 AATTTCGCGT
** *
1846908 TGCGATTTTCCCAATTTGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAA
* * * * * *
1846949 TGCGAATTTGAAAAATCGCAATGCG-AT-ACTGACTATCGCAA
1 TGCGATTTTCATAATTCGCAATGCGAATAAGT-A-AATCGCAA
* * * * * **
1846990 TGCGATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCATAATTCGCAATGCGA-ATAAGTAAATCGCAA
* *
1847031 TGCGCTTTTCATAATTCGCAATGCGAATATGTAAATCGCAA
1 TGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAA
* * * * *
1847072 CGCGA-ATT-AGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCA-TAATTCGCAATGCGAA-TAAGTAAATCGCAA
* * * * ** *
1847113 TGCGA-ATACGTAAATCGCAATGCGAAT-CTTACTATCGCAA
1 TGCGATTTTCATAATTCGCAATGCGAATAAGTA-AATCGCAA
*
1847153 TGCGATTTACATA
1 TGCGATTTTCATA
1847166 GCGCCATTCG
Statistics
Matches: 162, Mismatches: 44, Indels: 22
0.71 0.19 0.10
Matches are distributed among these distances:
39 4 0.02
40 37 0.23
41 119 0.73
43 1 0.01
44 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (41 bp):
TGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAA
Found at i:1847014 original size:21 final size:21
Alignment explanation
Indices: 1846881--1847056 Score: 76
Period size: 21 Copynumber: 8.5 Consensus size: 21
1846871 ATTATGACTA
*
1846881 TCGCAATGCGATTTTCCA-ATT
1 TCGCAATGCGATTTT-CATAAT
** **
1846902 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCATAAT
* * * *
1846923 TTGCAATGCGA--ATAAGTAAA
1 TCGCAATGCGATTTTCA-TAAT
* * * *
1846943 TCGCAATGCGAATTTGAAAAA
1 TCGCAATGCGATTTTCATAAT
** *
1846964 TCGCAATGCGATACTGACT-A-
1 TCGCAATGCGATTTTCA-TAAT
*
1846984 TCGCAATGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
1847005 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
** *
1847025 TCGCGTTGCGCTTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
1847046 TCGCAATGCGA
1 TCGCAATGCGA
1847057 ATATGTAAAT
Statistics
Matches: 113, Mismatches: 34, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.02
20 43 0.38
21 66 0.58
22 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:1847071 original size:20 final size:20
Alignment explanation
Indices: 1847046--1847157 Score: 129
Period size: 20 Copynumber: 5.5 Consensus size: 20
1847036 TTTTCATAAT
1847046 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
*
1847066 TCGCAACGCGAAT-TAGTAAA
1 TCGCAATGCGAATAT-GTAAA
* *
1847086 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TATGTAAA
*
1847107 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
* *
1847127 TCGCAATGCGAATCT-TACTA
1 TCGCAATGCGAATATGTA-AA
1847147 TCGCAATGCGA
1 TCGCAATGCGA
1847158 TTTACATAGC
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
19 3 0.04
20 59 0.75
21 17 0.22
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:1847730 original size:19 final size:19
Alignment explanation
Indices: 1847706--1847750 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1847696 GCAACGAGAG
*
1847706 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
1847725 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
1847744 AATCGCA
1 AATCGCA
1847751 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:1847797 original size:33 final size:34
Alignment explanation
Indices: 1847751--1847814 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
1847741 CAAAATCGCA
** *
1847751 TTGCGATTTTCATTT-CGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCCACGTTGCGATTCTCTCG
1847784 TTGCGATAGTCATTTCCACGTTGCGATTCTC
1 TTGCGATAGTCATTTCCACGTTGCGATTCTC
1847815 ATTATCTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.42
Consensus pattern (34 bp):
TTGCGATAGTCATTTCCACGTTGCGATTCTCTCG
Found at i:1847816 original size:20 final size:20
Alignment explanation
Indices: 1847782--1847839 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1847772 GCGATTCTCT
**
1847782 CGTTGCGATAGTCATTTCCA
1 CGTTGCGATTCTCATTTCCA
*
1847802 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCA
*
1847822 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
1847840 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCA
Found at i:1850005 original size:42 final size:42
Alignment explanation
Indices: 1849929--1850047 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
1849919 GACTCGCCTG
* * * * * * *
1849929 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
1849971 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
1850013 TCA-TCATTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
1850048 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:1851384 original size:14 final size:14
Alignment explanation
Indices: 1851365--1851400 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1851355 ATTGTTTAAT
1851365 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1851379 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1851393 TGATTTGT
1 TGATTTGT
1851401 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1851564 original size:24 final size:19
Alignment explanation
Indices: 1851507--1851559 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
1851497 AAAAAGTACT
*
1851507 ATCGCAATGCGAAATGAAG
1 ATCGCAACGCGAAATGAAG
1851526 ATCGCAACGCGAAATGAAG
1 ATCGCAACGCGAAATGAAG
1851545 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
1851560 TAAATTTGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAG
Found at i:1853916 original size:12 final size:12
Alignment explanation
Indices: 1853899--1853923 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1853889 TCTTCGGGGA
1853899 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1853911 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1853923 C
1 C
1853924 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1854132 original size:24 final size:24
Alignment explanation
Indices: 1854098--1854151 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1854088 CTAAAACATC
*
1854098 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
1854122 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1854146 ATCAAA
1 ATCAAA
1854152 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1854958 original size:20 final size:21
Alignment explanation
Indices: 1854933--1854984 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1854923 TTTTCCTAAT
*
1854933 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
1854953 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1854974 TCGCAATGCGA
1 TCGCAATGCGA
1854985 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1855058 original size:20 final size:20
Alignment explanation
Indices: 1854969--1855060 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
1854959 TGCGAATTTG
* *
1854969 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
1854989 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
1855009 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
1855030 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
1855050 GAAAATCGCAA
1 GAAAATCGCAA
1855061 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:1855459 original size:20 final size:20
Alignment explanation
Indices: 1855411--1855469 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1855401 AATAGTTTCT
** *
1855411 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
1855431 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
1855451 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
1855470 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:1855759 original size:22 final size:22
Alignment explanation
Indices: 1855732--1855775 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1855722 GATGGAGATA
1855732 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
1855754 GACGGATTTTGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1855776 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1855979 original size:21 final size:21
Alignment explanation
Indices: 1855955--1856023 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
1855945 GAAAATCGCA
1855955 TTGCGATTATGTATTATCGTG
1 TTGCGATTATGTATTATCGTG
* *
1855976 TTGCGA--AAGTCAGTATC-TCG
1 TTGCGATTATGT-ATTATCGT-G
* **
1855996 TTGCGATTTTGTATTATCGCA
1 TTGCGATTATGTATTATCGTG
1856017 TTGCGAT
1 TTGCGAT
1856024 AGTAAGTATC
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
19 4 0.11
20 12 0.33
21 18 0.50
22 2 0.06
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.42
Consensus pattern (21 bp):
TTGCGATTATGTATTATCGTG
Found at i:1856012 original size:41 final size:41
Alignment explanation
Indices: 1855949--1856046 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
1855939 CGCTTTGAAA
* ** *
1855949 ATCGCATTGCGATTATGTATTATCGTGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
* * *
1855990 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
1856031 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
1856047 TCCAATTCGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.40
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
Found at i:1856154 original size:21 final size:21
Alignment explanation
Indices: 1856114--1856154 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1856104 ATTGTAGACC
** *
1856114 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
1856135 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
1856155 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:1858631 original size:18 final size:17
Alignment explanation
Indices: 1858605--1858643 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1858595 TATTTAATTC
* *
1858605 ATATTTCAATCATACTAT
1 ATATGTCAAACATA-TAT
1858623 ATATGTCAAACATATAT
1 ATATGTCAAACATATAT
1858640 ATAT
1 ATAT
1858644 AATTACTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (17 bp):
ATATGTCAAACATATAT
Found at i:1858687 original size:62 final size:62
Alignment explanation
Indices: 1858563--1858686 Score: 198
Period size: 60 Copynumber: 2.0 Consensus size: 62
1858553 ACGTATAAAC
* * *
1858563 ATGTCGAACATATATATATATAGTTATTTTAATATTTAATTCATATTTCAATCATACTATAT
1 ATGTCAAACATATATATATATAGTTACTTTAATATATAATTCATATTTCAATCATACTATAT
*
1858625 ATGTCAAACATATATATATA-A-TTACTTTAATATATAATTCATATTTCAATCATACCATAT
1 ATGTCAAACATATATATATATAGTTACTTTAATATATAATTCATATTTCAATCATACTATAT
1858685 AT
1 AT
1858687 ACACACATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 38 0.66
61 1 0.02
62 19 0.33
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.44
Consensus pattern (62 bp):
ATGTCAAACATATATATATATAGTTACTTTAATATATAATTCATATTTCAATCATACTATAT
Found at i:1863173 original size:112 final size:112
Alignment explanation
Indices: 1862973--1863201 Score: 422
Period size: 112 Copynumber: 2.0 Consensus size: 112
1862963 TCAGTCTATT
*
1862973 AATGCTTCGAAAGCAACATACTAATTCGAAATTATCAAGCTTTTTTAGCATCTCAAAATTAAATG
1 AATGCTTCGAAAGCAACATACTAATTCGAAATTATCAAACTTTTTTAGCATCTCAAAATTAAATG
*
1863038 AACTTCAACCTATAGAAATTTCAAATATTCCCAGGATAATTTGACAA
66 AACTTCAACCTATAGAAAATTCAAATATTCCCAGGATAATTTGACAA
**
1863085 AATGCTTCGAAAGCAACATTGTAATTCGAAATTATCAAACTTTTTTAGCATCTCAAAATTAAATG
1 AATGCTTCGAAAGCAACATACTAATTCGAAATTATCAAACTTTTTTAGCATCTCAAAATTAAATG
1863150 AACTTCAACCTATAGAAAATTCAAATATTCCCAGGATAATTTGACAA
66 AACTTCAACCTATAGAAAATTCAAATATTCCCAGGATAATTTGACAA
1863197 AATGC
1 AATGC
1863202 ATATAGAAAC
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 113 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (112 bp):
AATGCTTCGAAAGCAACATACTAATTCGAAATTATCAAACTTTTTTAGCATCTCAAAATTAAATG
AACTTCAACCTATAGAAAATTCAAATATTCCCAGGATAATTTGACAA
Found at i:1863936 original size:16 final size:15
Alignment explanation
Indices: 1863915--1863948 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1863905 TGATTTAATT
1863915 TAATTATAATGAAAAA
1 TAATTATAAT-AAAAA
*
1863931 TAATTATTATAAAAA
1 TAATTATAATAAAAA
1863946 TAA
1 TAA
1863949 ATACATGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
TAATTATAATAAAAA
Found at i:1867958 original size:24 final size:23
Alignment explanation
Indices: 1867931--1867976 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
1867921 AAAGGATTAA
*
1867931 TTTAACTGTTAATGAAATGTTGAG
1 TTTAACTGTTAA-AAAATGTTGAG
* *
1867955 TTTAATTTTTAAAAAATGTTGA
1 TTTAACTGTTAAAAAATGTTGA
1867977 ATGGTGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (23 bp):
TTTAACTGTTAAAAAATGTTGAG
Found at i:1868318 original size:39 final size:39
Alignment explanation
Indices: 1868274--1868350 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
1868264 AATCCGTAGT
* *
1868274 AGTATTAAAGCTAGTGAGGGAACAAGTGAGTGCAACTAA
1 AGTATTAAAGCTAATGAGGCAACAAGTGAGTGCAACTAA
* *
1868313 AGTATTACAGCTAATGAGGCAACATGTGAGTGCAACTA
1 AGTATTAAAGCTAATGAGGCAACAAGTGAGTGCAACTA
1868351 GTTTTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (39 bp):
AGTATTAAAGCTAATGAGGCAACAAGTGAGTGCAACTAA
Found at i:1868638 original size:18 final size:19
Alignment explanation
Indices: 1868603--1868639 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1868593 CACGGAATGT
1868603 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1868623 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1868640 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1872867 original size:21 final size:21
Alignment explanation
Indices: 1872842--1872885 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1872832 TATTTAGGGG
* * *
1872842 TAAATTTATGTAATTATTTTA
1 TAAATATATATAATTATATTA
1872863 TAAATATATATAATTATATTA
1 TAAATATATATAATTATATTA
1872884 TA
1 TA
1872886 TTTAATTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAATATATATAATTATATTA
Found at i:1874848 original size:15 final size:16
Alignment explanation
Indices: 1874819--1874848 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1874809 ATATATTTGA
1874819 ATTTTAAATTAAAATT
1 ATTTTAAATTAAAATT
1874835 ATTTTAAA-TAAAAT
1 ATTTTAAATTAAAAT
1874849 CTATATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTTAAATTAAAATT
Found at i:1875698 original size:3 final size:3
Alignment explanation
Indices: 1875690--1875720 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1875680 ATGTGTATCA
*
1875690 TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1875721 TGTTAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1876486 original size:2 final size:2
Alignment explanation
Indices: 1876479--1876518 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1876469 TTTTAACTAA
1876479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1876519 GGTATAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1878254 original size:29 final size:31
Alignment explanation
Indices: 1878220--1878278 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1878210 ATCATTTTAA
1878220 TCATTAAA-ATTTTAAA-AATTATAAAATAG
1 TCATTAAATATTTTAAACAATTATAAAATAG
* *
1878249 TCATTAAATTTTTTAAACTATTATAAAATA
1 TCATTAAATATTTTAAACAATTATAAAATA
1878279 ATTATCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 7 0.27
31 11 0.42
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (31 bp):
TCATTAAATATTTTAAACAATTATAAAATAG
Found at i:1878395 original size:28 final size:29
Alignment explanation
Indices: 1878337--1878400 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
1878327 TATTATAAAG
1878337 TTATTATTATATTTATTAAAAATGTACAC
1 TTATTATTATATTTATTAAAAATGTACAC
* * *
1878366 TTATTATTATA-TTATTAAAACTTTATAC
1 TTATTATTATATTTATTAAAAATGTACAC
1878394 TTATTAT
1 TTATTAT
1878401 AATTCAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (29 bp):
TTATTATTATATTTATTAAAAATGTACAC
Found at i:1879074 original size:53 final size:53
Alignment explanation
Indices: 1879005--1879126 Score: 201
Period size: 53 Copynumber: 2.3 Consensus size: 53
1878995 CGCGAGTTAT
1879005 TCGAGATCGA-TACGATCAAGACTCGATAAATACTCGGATCGAATGGACTCGAC
1 TCGAGATCGACT-CGATCAAGACTCGATAAATACTCGGATCGAATGGACTCGAC
*
1879058 TCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTCGAC
1 TCGAGATCGACTCGATCAAGACTCGATAAATACTCGGATCGAATGGACTCGAC
*
1879111 TCGAGCTCGAGCTCGA
1 TCGAGATCGA-CTCGA
1879127 GCTCGACTCG
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
53 59 0.91
54 6 0.09
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (53 bp):
TCGAGATCGACTCGATCAAGACTCGATAAATACTCGGATCGAATGGACTCGAC
Found at i:1879121 original size:6 final size:6
Alignment explanation
Indices: 1879105--1879138 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
1879095 ATCGAATGGA
1879105 CTCGA- CTCGAG CTCGAG CTCGAG CTCGA- CTCGAG
1 CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG
1879139 TTCTTAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (6 bp):
CTCGAG
Found at i:1879127 original size:12 final size:11
Alignment explanation
Indices: 1879105--1879138 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
1879095 ATCGAATGGA
1879105 CTCGACTCGAG
1 CTCGACTCGAG
1879116 CTCGAGCTCGAG
1 CTCGA-CTCGAG
1879128 CTCGACTCGAG
1 CTCGACTCGAG
1879139 TTCTTAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (11 bp):
CTCGACTCGAG
Found at i:1887200 original size:2 final size:2
Alignment explanation
Indices: 1887193--1887226 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1887183 ATAATGTGTT
*
1887193 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1887227 GTTGGGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1889236 original size:4 final size:4
Alignment explanation
Indices: 1889216--1890585 Score: 2157
Period size: 4 Copynumber: 347.8 Consensus size: 4
1889206 GAGAGAAGGT
* *
1889216 ATAC ATAC GTAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889264 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889312 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889360 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889406 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889453 ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889499 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889546 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889592 ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889639 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889687 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
1889735 ATAC ATAC ATAC ATAC ATAC GTAC ATAC --AC ATAC ATAC GTAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1889781 ATAC ATAC ATAC ATAC ATAC GTAC ATAC ATAC ATAC GTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889829 AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
1889873 ATAC GTAC GTAC GTAC GTAC GTAC GTAC -TAC ATAC ATAC ATAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
1889920 GTAC GTAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC A-AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1889967 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1890013 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1890060 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
1890108 GTAC ATAC ATAC ATAC ATAC --AC ATAC ATAC GTAC ATAC GTAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1890154 GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1890202 ATAC GTA- ATAC ATAC ATAC ATAC TAGAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC
*
1890250 ATAC A-AC GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1890297 ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC GTAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
1890345 ATAC ATAC GTAC ATAC GTAC CTAC ATAC ATAC ATAC GTAC CTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1890393 ATAC ATAC ATAT ATAC ATAC ATAC ATAC --AC ATAC AT-- ATAC GTATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --ATAC
1890439 GTATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 --ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1890489 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1890537 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATATGC ATGC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA--C ATAC ATAC ATA
1890586 TTTACATATA
Statistics
Matches: 1287, Mismatches: 46, Indels: 66
0.92 0.03 0.05
Matches are distributed among these distances:
2 20 0.02
3 22 0.02
4 1229 0.95
5 3 0.00
6 13 0.01
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:1891063 original size:31 final size:31
Alignment explanation
Indices: 1891028--1891086 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1891018 AACTTAAAAG
*
1891028 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
1891059 AGTTTTACAATATTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1891087 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1892442 original size:30 final size:29
Alignment explanation
Indices: 1892407--1892577 Score: 201
Period size: 30 Copynumber: 5.9 Consensus size: 29
1892397 TAATTTTAAT
*
1892407 ACAAACCATATAATATTTCTAACATAGACT
1 ACAAACCATATAATATTTCTAACATA-ACC
* *
1892437 ACAAACCATATAATGTTT-TGAACAT--CG
1 ACAAACCATATAATATTTCT-AACATAACC
1892464 ACAAACCATATAATATTTCTAACATAAACC
1 ACAAACCATATAATATTTCTAACAT-AACC
* *
1892494 ACAAACCATATAATGTTT-TGAACAT--CA
1 ACAAACCATATAATATTTCT-AACATAACC
1892521 ACAAACCATATAATATTTCTAACATAGACC
1 ACAAACCATATAATATTTCTAACATA-ACC
*
1892551 ACAAACCATATAATATTTCTTACATAA
1 ACAAACCATATAATATTTCTAACATAA
1892578 TCAAAAAGAC
Statistics
Matches: 122, Mismatches: 9, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
27 46 0.38
28 2 0.02
29 3 0.02
30 71 0.58
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.29
Consensus pattern (29 bp):
ACAAACCATATAATATTTCTAACATAACC
Found at i:1892475 original size:27 final size:27
Alignment explanation
Indices: 1892437--1892534 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 27
1892427 AACATAGACT
*
1892437 ACAAACCATATAATGTTTTGAACATCG
1 ACAAACCATATAATGTTTTGAACATCA
* *
1892464 ACAAACCATATAATATTTCT-AACATAAACC
1 ACAAACCATATAATGTTT-TGAACAT---CA
1892494 ACAAACCATATAATGTTTTGAACATCA
1 ACAAACCATATAATGTTTTGAACATCA
1892521 ACAAACCATATAAT
1 ACAAACCATATAAT
1892535 ATTTCTAACA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
27 37 0.60
28 1 0.02
29 1 0.02
30 23 0.37
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (27 bp):
ACAAACCATATAATGTTTTGAACATCA
Found at i:1892498 original size:57 final size:57
Alignment explanation
Indices: 1892407--1892564 Score: 289
Period size: 57 Copynumber: 2.8 Consensus size: 57
1892397 TAATTTTAAT
* *
1892407 ACAAACCATATAATATTTCTAACATAGACTACAAACCATATAATGTTTTGAACATCG
1 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAATGTTTTGAACATCA
*
1892464 ACAAACCATATAATATTTCTAACATAAACCACAAACCATATAATGTTTTGAACATCA
1 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAATGTTTTGAACATCA
1892521 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAAT
1 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAAT
1892565 ATTTCTTACA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 97 1.00
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (57 bp):
ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAATGTTTTGAACATCA
Found at i:1893688 original size:22 final size:22
Alignment explanation
Indices: 1893642--1893701 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
1893632 GCATACACAT
* *
1893642 CAAATACATAACAT-CAAACAG
1 CAAATTCATAACATACAAACAA
1893663 CAAATTCATAACATACAAACAA
1 CAAATTCATAACATACAAACAA
1893685 CAAATTCATAACATACA
1 CAAATTCATAACATACA
1893702 TACATATACA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 13 0.36
22 23 0.64
ACGTcount: A:0.57, C:0.23, G:0.02, T:0.18
Consensus pattern (22 bp):
CAAATTCATAACATACAAACAA
Found at i:1893745 original size:36 final size:32
Alignment explanation
Indices: 1893675--1893741 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
1893665 AATTCATAAC
*
1893675 ATACAAACAACAAATTCATAACATACATACAT
1 ATACAAACAACAAATACATAACATACATACAT
*
1893707 ATACAAACAACAAATACA-ATATATACATACAT
1 ATACAAACAACAAATACATA-ACATACATACAT
1893739 ATA
1 ATA
1893742 TATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.22
Consensus pattern (32 bp):
ATACAAACAACAAATACATAACATACATACAT
Found at i:1893748 original size:20 final size:21
Alignment explanation
Indices: 1893692--1893771 Score: 74
Period size: 20 Copynumber: 3.9 Consensus size: 21
1893682 CAACAAATTC
* * *
1893692 ATAACATACATACATATACAA
1 ATAACATATATATATATATAA
* * * *
1893713 ACAACAAATACA-ATATATAC
1 ATAACATATATATATATATAA
1893733 AT-ACATATATATATATATAA
1 ATAACATATATATATATATAA
1893753 ATCAACATATATATATATA
1 AT-AACATATATATATATA
1893772 ATAGCCTAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
19 7 0.15
20 16 0.35
21 8 0.17
22 15 0.33
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAACATATATATATATATAA
Found at i:1894702 original size:32 final size:32
Alignment explanation
Indices: 1894663--1894723 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1894653 CGATACTGTC
*
1894663 ACAACAAATTC-ATAACATACATACATATACAA
1 ACAACAAATACAAT-ACATACATACATATACAA
*
1894695 ACAACAAATACAATATATACATACATATA
1 ACAACAAATACAATACATACATACATATA
1894724 TATGTAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (32 bp):
ACAACAAATACAATACATACATACATATACAA
Found at i:1898880 original size:22 final size:24
Alignment explanation
Indices: 1898831--1898880 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
1898821 ATAATTTTTT
*
1898831 TTTATATTTTTATATTTTTAATAA
1 TTTATATTTTTATACTTTTAATAA
1898855 --TATATTTTTAT-CTTTTAA-AA
1 TTTATATTTTTATACTTTTAATAA
1898875 TTTATA
1 TTTATA
1898881 AACTTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
20 2 0.09
21 6 0.26
22 15 0.65
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTATATTTTTATACTTTTAATAA
Found at i:1899676 original size:12 final size:12
Alignment explanation
Indices: 1899659--1899685 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1899649 GTGCATGGTG
1899659 GTTGTCATTGTT
1 GTTGTCATTGTT
1899671 GTTGTCATTGTT
1 GTTGTCATTGTT
1899683 GTT
1 GTT
1899686 CATTTTCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.26, T:0.59
Consensus pattern (12 bp):
GTTGTCATTGTT
Found at i:1915547 original size:14 final size:14
Alignment explanation
Indices: 1915528--1915555 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1915518 TGTTACAAAA
1915528 TGTAAAATTTCTTT
1 TGTAAAATTTCTTT
1915542 TGTAAAATTTCTTT
1 TGTAAAATTTCTTT
1915556 AGTTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TGTAAAATTTCTTT
Found at i:1916235 original size:30 final size:30
Alignment explanation
Indices: 1916181--1916275 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
1916171 TACATTTTAC
* * * *
1916181 TTTAGACACTTGACATGTATCATATCGTCAT
1 TTTAGAC-CATGACATATACCATATCATCAT
*
1916212 TTTAGACCATGACATATACCATATTATCAT
1 TTTAGACCATGACATATACCATATCATCAT
* ** *
1916242 TTTAGACCATGACATGTATTAAATCATCAT
1 TTTAGACCATGACATATACCATATCATCAT
1916272 TTTA
1 TTTA
1916276 TCTATATATA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 47 0.87
31 7 0.13
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (30 bp):
TTTAGACCATGACATATACCATATCATCAT
Found at i:1916414 original size:18 final size:19
Alignment explanation
Indices: 1916385--1916420 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1916375 ATTTTATCTC
1916385 AAAATAAAATATTAAAATT
1 AAAATAAAATATTAAAATT
1916404 AAAAT-AAATATTAAAAT
1 AAAATAAAATATTAAAAT
1916421 AATAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAAAATATTAAAATT
Found at i:1919011 original size:2 final size:2
Alignment explanation
Indices: 1919004--1919039 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1918994 GATTTATTGG
*
1919004 AT AT AT AT AT AT AT AT AT AT AT GT 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
1919040 CGTTAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1928274 original size:25 final size:25
Alignment explanation
Indices: 1928245--1928298 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
1928235 GGGGCTGTTT
1928245 GTGCGAGAGGTGGCTGCTGGTGGCG
1 GTGCGAGAGGTGGCTGCTGGTGGCG
1928270 GTGCGAGAGGTGGCTGCTGGTGGCG
1 GTGCGAGAGGTGGCTGCTGGTGGCG
1928295 GTGC
1 GTGC
1928299 AAGAAGGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.07, C:0.17, G:0.56, T:0.20
Consensus pattern (25 bp):
GTGCGAGAGGTGGCTGCTGGTGGCG
Found at i:1940301 original size:2 final size:2
Alignment explanation
Indices: 1940296--1940342 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1940286 TTTTTTACAT
*
1940296 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1940338 TA TA T
1 TA TA T
1940343 GAGAATAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1940831 original size:2 final size:2
Alignment explanation
Indices: 1940824--1940881 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1940814 TTAGCCATTG
1940824 TA TA TA TA TA TA TA 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 TA TA
1940866 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
1940882 ATTGCTTGGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1943270 original size:2 final size:2
Alignment explanation
Indices: 1943263--1943291 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1943253 AGTAAAAGTC
1943263 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
1943292 AGTTTGAAAG
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:1944056 original size:23 final size:23
Alignment explanation
Indices: 1944015--1944058 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1944005 TTGGAAACCT
* **
1944015 GTTGCAATTAAACTGCTATAATA
1 GTTGCAATCAAACAACTATAATA
1944038 GTTGCAATCAAACAACTATAA
1 GTTGCAATCAAACAACTATAA
1944059 CGACTGCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (23 bp):
GTTGCAATCAAACAACTATAATA
Found at i:1950075 original size:20 final size:22
Alignment explanation
Indices: 1950042--1950086 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
1950032 ACAAATATAT
*
1950042 TAAAAAACATTAATATTTTAGA
1 TAAAAAACATTAATATTTTAAA
*
1950064 TAAAAAA-A-TAATTTTTTAAA
1 TAAAAAACATTAATATTTTAAA
1950084 TAA
1 TAA
1950087 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAAAACATTAATATTTTAAA
Found at i:1950111 original size:13 final size:12
Alignment explanation
Indices: 1950069--1950105 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
1950059 TTAGATAAAA
1950069 AAATAATTTTTT
1 AAATAATTTTTT
1950081 AAATAATTTTTT
1 AAATAATTTTTT
1950093 AAATAATTTTTT
1 AAATAATTTTTT
1950105 A
1 A
1950106 CTATAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AAATAATTTTTT
Found at i:1950118 original size:24 final size:24
Alignment explanation
Indices: 1950069--1950119 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
1950059 TTAGATAAAA
* *
1950069 AAATAATTTTTTAAATAATTTTTT
1 AAATAATTTTTTAAATAATATATT
*
1950093 AAATAATTTTTTACTATAA-ATATT
1 AAATAATTTTTTA-AATAATATATT
1950117 AAA
1 AAA
1950120 AAAATAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
AAATAATTTTTTAAATAATATATT
Found at i:1955454 original size:229 final size:227
Alignment explanation
Indices: 1955049--1955497 Score: 790
Period size: 229 Copynumber: 2.0 Consensus size: 227
1955039 GTAAATTATC
* * *
1955049 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
1955114 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
1955179 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
1955244 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
1955277 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
* *
1955342 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATTAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
1955407 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
1955472 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
1955498 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
228 40 0.19
229 170 0.81
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:1955586 original size:20 final size:19
Alignment explanation
Indices: 1955563--1955608 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
1955553 CGATATACCA
1955563 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
1955583 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
1955603 GGTAAA
1 GGTAAA
1955609 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1956781 original size:184 final size:184
Alignment explanation
Indices: 1956467--1956865 Score: 789
Period size: 184 Copynumber: 2.2 Consensus size: 184
1956457 GATGACTTTG
1956467 TAATATATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
1 TAAT-TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
1956532 ATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAG
65 ATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAG
1956597 AAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCA
130 AAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCA
1956652 TAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAA
1 TAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAA
1956717 TAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGA
66 TAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGA
1956782 AAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCA
131 AAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCA
1956836 TAATTATAATGTAATAGATAATTTTGTAAT
1 TAATTATAATGTAATAGATAATTTTGTAAT
1956866 GGGTACATTA
Statistics
Matches: 214, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
184 210 0.98
185 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (184 bp):
TAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAA
TAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGA
AAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCA
Found at i:1956966 original size:25 final size:25
Alignment explanation
Indices: 1956932--1956982 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1956922 CGAATAGTTC
*
1956932 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
1956957 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
1956982 A
1 A
1956983 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:1957252 original size:18 final size:18
Alignment explanation
Indices: 1957231--1957267 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1957221 GTAATTGGAG
1957231 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1957249 TTTGAGTTTTAATTTCAA
1 TTTGAATTTAAATTTCAA
1957267 T
1 T
1957268 ATATATTTCG
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:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1957569 original size:39 final size:39
Alignment explanation
Indices: 1957526--1957653 Score: 229
Period size: 39 Copynumber: 3.3 Consensus size: 39
1957516 TCCGATGCTC
* * *
1957526 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCTAAATCTCATATGATGCCAAGCAAAAGGAA
1957565 ATCAAAATCTAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCTAAATCTCATATGATGCCAAGCAAAAGGAA
1957604 ATCAAAATCTAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCTAAATCTCATATGATGCCAAGCAAAAGGAA
1957643 ATCAAAATCTA
1 ATCAAAATCTA
1957654 CAACTTGAGT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.20
Consensus pattern (39 bp):
ATCAAAATCTAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:1958398 original size:6 final size:6
Alignment explanation
Indices: 1958387--1958412 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1958377 TATATCAGCC
1958387 CCACCT CCACCT CCACCT CCACCT CC
1 CCACCT CCACCT CCACCT CCACCT CC
1958413 CTTTCCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.69, G:0.00, T:0.15
Consensus pattern (6 bp):
CCACCT
Found at i:1960622 original size:2 final size:2
Alignment explanation
Indices: 1960615--1960670 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1960605 AATACAAATA
1960615 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
1960657 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1960671 TACGTAACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1966122 original size:25 final size:22
Alignment explanation
Indices: 1966094--1966143 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
1966084 TTATGCATAA
*
1966094 ATTATAATTATATTTTTTTATATTC
1 ATTAT-ATT-TATTTTCTTAT-TTC
*
1966119 ATTATGTTTATTTTCTTATTTC
1 ATTATATTTATTTTCTTATTTC
1966141 ATT
1 ATT
1966144 CTTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.26
23 10 0.43
24 2 0.09
25 5 0.22
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTATATTTATTTTCTTATTTC
Found at i:1966304 original size:21 final size:20
Alignment explanation
Indices: 1966274--1966484 Score: 145
Period size: 21 Copynumber: 10.6 Consensus size: 20
1966264 AATATGTAAA
*
1966274 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAA-T
* *
1966295 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTCCA-AT
1966315 TCGCATTGCGATAGTCCAACT
1 TCGCATTGCGATAGTCCAA-T
*
1966336 TCGCATTGCG--A---CTA-
1 TCGCATTGCGATAGTCCAAT
* *
1966350 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTCCA-AT
*
1966370 TCGCATTGCGATAG-CCGACT
1 TCGCATTGCGATAGTCC-AAT
* *
1966390 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTCCA-AT
1966411 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAA-T
*
1966432 TCGCATTGCGATAATCCAAAT
1 TCGCATTGCGATAGTCC-AAT
* *
1966453 TCGCATTACGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAA-T
*
1966474 TCGCGTTGCGA
1 TCGCATTGCGA
1966485 ATCTGAAAAC
Statistics
Matches: 150, Mismatches: 21, Indels: 38
0.72 0.10 0.18
Matches are distributed among these distances:
14 10 0.07
16 2 0.01
18 1 0.01
19 2 0.01
20 47 0.31
21 86 0.57
22 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (20 bp):
TCGCATTGCGATAGTCCAAT
Found at i:1966319 original size:20 final size:20
Alignment explanation
Indices: 1966294--1966422 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
1966284 ATAGTCCAAG
1966294 TTCGCATTGCGATTTACATA
1 TTCGCATTGCGATTTACATA
* *
1966314 TTCGCATTGCGATAGTCCA-A
1 TTCGCATTGCGAT-TTACATA
1966334 CTTCGCATTGCG----AC-TA
1 -TTCGCATTGCGATTTACATA
1966350 -TCGCATTGCGATTTACATA
1 TTCGCATTGCGATTTACATA
***
1966369 TTCGCATTGCGATAGCCGACTA
1 TTCGCATTGCGATTTAC-A-TA
1966391 -TCGCATTGCGATTTACATA
1 TTCGCATTGCGATTTACATA
1966410 TTCGCATTGCGAT
1 TTCGCATTGCGAT
1966423 AGTCCAAGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.11
16 2 0.02
18 2 0.02
19 4 0.05
20 40 0.45
21 28 0.32
22 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (20 bp):
TTCGCATTGCGATTTACATA
Found at i:1966379 original size:55 final size:58
Alignment explanation
Indices: 1966294--1966459 Score: 198
Period size: 55 Copynumber: 2.8 Consensus size: 58
1966284 ATAGTCCAAG
1966294 TTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACTTCGCATTGCG-AC-TA
1 TTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACTTCGCATTGCGTACATA
*
1966350 -TCGCATTGCGATTTACATATTCGCATTGCGATAG-CCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACT-TCGCATTGCG---TACATA
* * * *
1966410 TTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAATCCAAATTCGCATT
1 TTCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAACTTCGCATT
1966460 ACGATAGTCG
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
54 5 0.05
55 44 0.47
59 2 0.02
60 2 0.02
61 13 0.14
62 24 0.26
63 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (58 bp):
TTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACTTCGCATTGCGTACATA
Found at i:1966465 original size:42 final size:41
Alignment explanation
Indices: 1966350--1966484 Score: 173
Period size: 41 Copynumber: 3.3 Consensus size: 41
1966340 ATTGCGACTA
* *
1966350 TCGCATTGCGATTTACATATTCGCATTGCGATAG-CCGACT
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
1966390 ATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
* * * * *
1966432 TCGCATTGCGATAATCCAAATTCGCATTACGATAGTCGAAGT
1 TCGCATTGCGAT-TTACATATTCGCATTGCGATAGTCCAAGT
*
1966474 TCGCGTTGCGA
1 TCGCATTGCGA
1966485 ATCTGAAAAC
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
41 46 0.55
42 38 0.45
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (41 bp):
TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
Done.