Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006607.1 Hibiscus syriacus cultivar Beakdansim tig00016212_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: 1995858
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:629562 original size:55 final size:56
Alignment explanation
Indices: 629443--629607 Score: 188
Period size: 55 Copynumber: 2.9 Consensus size: 56
629433 AGAGCGAATG
* * * *
629443 TTTTAATTTTAAAATTTTACCAAAATTTTAAAAACTAGGAAGGGAAGAAAGAGAGGAAAGA
1 TTTTAATTTTAAAATTTAACTAAAATTTTAAAAATTAGGAA-GG--G-AAGA-AGGAAACA
* *
629504 TTTTAATTTTAAAATTTAACTAATATTTTAAAAATTAGGGAGGGAAGAAGG-AACA
1 TTTTAATTTTAAAATTTAACTAAAATTTTAAAAATTAGGAAGGGAAGAAGGAAACA
* * * *
629559 TTTTTATTTTAAAATTTCACTAAAATTCTAAAAATTAGAAAGGGAAGAA
1 TTTTAATTTTAAAATTTAACTAAAATTTTAAAAATTAGGAAGGGAAGAA
629608 AGGAGAGGGA
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
55 46 0.50
56 3 0.03
57 4 0.04
58 1 0.01
60 2 0.02
61 36 0.39
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (56 bp):
TTTTAATTTTAAAATTTAACTAAAATTTTAAAAATTAGGAAGGGAAGAAGGAAACA
Found at i:629893 original size:5 final size:6
Alignment explanation
Indices: 629853--629892 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
629843 AATATCCAGG
* *
629853 AAAAAT AAAAAT AGAATT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
629893 TCATTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:633607 original size:20 final size:19
Alignment explanation
Indices: 633578--633630 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
633568 CTTTGCCTAA
*
633578 GGTATTGATACTA-CATGT
1 GGTATCGATACTATCATGT
633596 AGGGTATCGATATCTATTCATGT
1 --GGTATCGATA-CTA-TCATGT
633619 GGTATCGATACT
1 GGTATCGATACT
633631 GCTAAGAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 11 0.38
21 13 0.45
23 5 0.17
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (19 bp):
GGTATCGATACTATCATGT
Found at i:633645 original size:21 final size:21
Alignment explanation
Indices: 633621--633675 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
633611 ATTCATGTGG
* *
633621 TATCGATACTGCTAAGAACAA
1 TATCAATACTACTAAGAACAA
633642 TATCAATACTACTAAGAACAA
1 TATCAATACTACTAAGAACAA
633663 TATCAATACTACT
1 TATCAATACTACT
633676 TGTACTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (21 bp):
TATCAATACTACTAAGAACAA
Found at i:635650 original size:99 final size:99
Alignment explanation
Indices: 635479--635690 Score: 397
Period size: 99 Copynumber: 2.1 Consensus size: 99
635469 GTTCATCATC
**
635479 TTCTTCATCCACCTCATCACTTGAATCTTGATAGCTTTTATTTGTGGATTTGAAGGCAATGCCTA
1 TTCTTCATCTTCCTCATCACTTGAATCTTGATAGCTTTTATTTGTGGATTTGAAGGCAATGCCTA
635544 CCTCATTCTTTTTCTTGTTCTTCTTCTCTTCACA
66 CCTCATTCTTTTTCTTGTTCTTCTTCTCTTCACA
635578 TTCTTCATCTTCCTCATCACTTGAATCTTGATAGCTTTTATTTGTGGATTTGAAGGCAATGCCTA
1 TTCTTCATCTTCCTCATCACTTGAATCTTGATAGCTTTTATTTGTGGATTTGAAGGCAATGCCTA
*
635643 CCTCATTCTTTTTCTTGTTCTTCTTCTCTTCACC
66 CCTCATTCTTTTTCTTGTTCTTCTTCTCTTCACA
635677 TTCTTCATCTTCCT
1 TTCTTCATCTTCCT
635691 TCAACATCAA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 110 1.00
ACGTcount: A:0.17, C:0.26, G:0.10, T:0.47
Consensus pattern (99 bp):
TTCTTCATCTTCCTCATCACTTGAATCTTGATAGCTTTTATTTGTGGATTTGAAGGCAATGCCTA
CCTCATTCTTTTTCTTGTTCTTCTTCTCTTCACA
Found at i:642195 original size:16 final size:16
Alignment explanation
Indices: 642174--642213 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
642164 TGGAATCAAA
642174 AGATGGATTCTTCGCT
1 AGATGGATTCTTCGCT
642190 AGATGGATTCTTCGCT
1 AGATGGATTCTTCGCT
642206 AGATGGAT
1 AGATGGAT
642214 AGCACTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.35
Consensus pattern (16 bp):
AGATGGATTCTTCGCT
Found at i:648802 original size:85 final size:85
Alignment explanation
Indices: 648480--649728 Score: 1111
Period size: 85 Copynumber: 14.6 Consensus size: 85
648470 AACACAGAGG
** * ** *
648480 TTAACTATTCACGTCCTTTATTTTTCATTCAAATATCACCTCAAATCAAATTGAGTAAAAA-ATT
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAG-AAAAATAAT
*
648544 AATTTCAAATAACAGAGAATC
65 AATTTCAAATTACAGAGAATC
* * * * * * *
648565 TTAACTATTCACGTCATTTGCTTTTGATTCAAATTTCACATC-AATGAGATCAAGTAAGATAATA
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAGAAAAATAATA
* ** *
648629 ATTTCATATTTTAGAAAATC
66 ATTTCAAATTACAGAGAATC
* * * * *
648649 TTAACTATTTACGTCCTTTG-TTTTTAGTCAAATATCACCTCAAATCAGATCGAGTAAAAA-ATT
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAG-AAAAATAAT
* * *
648712 AATTTCAAGTGACATAGAATC
65 AATTTCAAATTACAGAGAATC
* * *
648733 TTAACTAGTCATGTCCTTTGCTTTTCATTCAAATATCGCCTCAAA-CGAGATCAAGAAAAATAAT
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATC-AGATCAAGAAAAATAAT
*
648797 AATTTCAAATTTTAGAGAATCTTGATTTGAATC
65 AATTTCAAA--TT-----A-C-AGA---GAATC
* * * * * *
648830 TTAACTATTCATGTCCTTTTCTTTTTAGTCAAATATCACCTTAAATCAGATCGAGTACAAAAT--
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAG-A-AAAATAA
* *
648893 TAATTTCAAATGAAAGAGAATC
64 TAATTTCAAATTACAGAGAATC
* * * *
648915 TTAAATAGTCACGTCCTTTGCATTTCATTCAAATATCACCTCAAATCAGATCAAGTAAAATAATA
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAGAAAAATAATA
**
648980 ATTTCAAATTTTAGAGAATC
66 ATTTCAAATTACAGAGAATC
* * * * * *
649000 TTAGCTATTCACGTCCTTTGCTTTTTAGTCAAATATCACCTCAAATTAGATCGAGTCCAAAAT--
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAG--AAAAATAA
* *
649063 TAATTTCAAATGAGAGAGAATC
64 TAATTTCAAATTACAGAGAATC
* * * *
649085 TTAACTATTTACTTCCTTTGCTTTTCATTTAAATATCACCTCAAATCAGATCAAGTAAAATAATA
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAGAAAAATAATA
* *
649150 ATTTCAAATTTCAAAGAATC
66 ATTTCAAATTACAGAGAATC
* * * * *
649170 TTAACTATTTACGTCATTTGATTTTCAGTCAAATATCA-ATGCAAATCAGATCAA-ATTCAAAAT
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCT-CAAATCAGATCAAGA---AAAAT
* *
649233 --TAGTTTCAAATTATAGAGAATC
62 AATAATTTCAAATTACAGAGAATC
* * * * * *
649255 TTAACTATTCACG-CATTTTGCTTTTCATTCAAATGTCACCTCAAACCAGTTCAAGTAAACTAAT
1 TTAACTATTCACGTC-CTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAGAAAAATAAT
*
649319 AATTTCAAATTTCAGAGAATC
65 AATTTCAAATTACAGAGAATC
* * * * * * *
649340 TTAA-TCATTCATGTCATTTGCTTTTTAGTCAAATATCAACTCAAATCAGATCGAGTGCAAAAT-
1 TTAACT-ATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATC-A-AGAAAAATA
* *
649403 -TAATTTCAAATGA-A-AAAATC
63 ATAATTTCAAATTACAGAGAATC
* * ** *
649423 TTAGCTATTCACTTCCTTTATTTTTCATTCAAATATCACCTCAAATCAGATCAAGTAAAATAATA
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAGAAAAATAATA
*
649488 ATTTCAAATTTCAGAGAATC
66 ATTTCAAATTACAGAGAATC
* * * * * * *
649508 TTAATTATTCATGTCCTTTGATTTTCAGTT-AAATATCAACTCAAATCAAATCAAGTACAAA-AG
1 TTAACTATTCACGTCCTTTGCTTTTCA-TTCAAATATCACCTCAAATCAGATCAAG-AAAAATAA
* *
649571 TAATTTCAAATGACAAAGAATC
64 TAATTTCAAATTACAGAGAATC
* * * * * * *
649593 TTAACTATTCACGTCATTTGTTTTTCATTAAAATATCACCTCAAATAATATTAAGTAAAATAATA
1 TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAGAAAAATAATA
*
649658 ATTTCAAATTCCAGAGAATC
66 ATTTCAAATTACAGAGAATC
** *
649678 TTAACTATTCACGTTATTTGTTTTTCAGTT-AAATATCACCTCAAATCAGAT
1 TTAACTATTCACGTCCTTTGCTTTTCA-TTCAAATATCACCTCAAATCAGAT
649729 ATGGTACAAT
Statistics
Matches: 935, Mismatches: 179, Indels: 100
0.77 0.15 0.08
Matches are distributed among these distances:
81 6 0.01
82 1 0.00
83 91 0.10
84 104 0.11
85 632 0.68
86 10 0.01
87 16 0.02
88 2 0.00
90 1 0.00
92 1 0.00
93 1 0.00
94 1 0.00
95 1 0.00
97 61 0.07
98 2 0.00
99 5 0.01
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (85 bp):
TTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAATCAGATCAAGAAAAATAATA
ATTTCAAATTACAGAGAATC
Found at i:649113 original size:170 final size:170
Alignment explanation
Indices: 648480--649728 Score: 1501
Period size: 170 Copynumber: 7.3 Consensus size: 170
648470 AACACAGAGG
* * * *
648480 TTAACTATTCACGTCCTTT-ATTTTTCATTCAAATATCACCTCAAATCAAATTGAGTAAAAAATT
1 TTAACTATTCACGTCCTTTGATTTTT-AGTCAAATATCACCTCAAATCAGATCGAGTACAAAATT
* * * * *
648544 AATTTCAAATAACAGAGAATCTTAACTATTCACGTCATTTGCTTTTGATTCAAATTTCACATC-A
65 AATTTCAAATGACAGAGAATCTTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAA
* * * * *
648608 ATGAGATCAAGTAAGATAATAATTTCATATTTTAGAAAATC
130 ATCAGATCAAGTAAAATAATAATTTCAAATTTCAGAGAATC
* *
648649 TTAACTATTTACGTCCTTTG-TTTTTAGTCAAATATCACCTCAAATCAGATCGAGTAAAAAATTA
1 TTAACTATTCACGTCCTTTGATTTTTAGTCAAATATCACCTCAAATCAGATCGAGTACAAAATTA
* * * * *
648713 ATTTCAAGTGACATAGAATCTTAACTAGTCATGTCCTTTGCTTTTCATTCAAATATCGCCTCAAA
66 ATTTCAAATGACAGAGAATCTTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAA
* *
648778 -CGAGATCAAGAAAAATAATAATTTCAAATTTTAGAGAATCTTGATTTGAATC
131 TC-AGATCAAGTAAAATAATAATTTCAAA--TT------TC-AGA---GAATC
* ** *
648830 TTAACTATTCATGTCCTTTTCTTTTTAGTCAAATATCACCTTAAATCAGATCGAGTACAAAATTA
1 TTAACTATTCACGTCCTTTGATTTTTAGTCAAATATCACCTCAAATCAGATCGAGTACAAAATTA
* * * *
648895 ATTTCAAATGAAAGAGAATCTTAAATAGTCACGTCCTTTGCATTTCATTCAAATATCACCTCAAA
66 ATTTCAAATGACAGAGAATCTTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAA
*
648960 TCAGATCAAGTAAAATAATAATTTCAAATTTTAGAGAATC
131 TCAGATCAAGTAAAATAATAATTTCAAATTTCAGAGAATC
* * * *
649000 TTAGCTATTCACGTCCTTTGCTTTTTAGTCAAATATCACCTCAAATTAGATCGAGTCCAAAATTA
1 TTAACTATTCACGTCCTTTGATTTTTAGTCAAATATCACCTCAAATCAGATCGAGTACAAAATTA
* * * *
649065 ATTTCAAATGAGAGAGAATCTTAACTATTTACTTCCTTTGCTTTTCATTTAAATATCACCTCAAA
66 ATTTCAAATGACAGAGAATCTTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAA
*
649130 TCAGATCAAGTAAAATAATAATTTCAAATTTCAAAGAATC
131 TCAGATCAAGTAAAATAATAATTTCAAATTTCAGAGAATC
* * * * * * *
649170 TTAACTATTTACGTCATTTGATTTTCAGTCAAATATCA-ATGCAAATCAGATCAAATTCAAAATT
1 TTAACTATTCACGTCCTTTGATTTTTAGTCAAATATCACCT-CAAATCAGATCGAGTACAAAATT
* * * * *
649234 AGTTTCAAATTATAGAGAATCTTAACTATTCACG-CATTTTGCTTTTCATTCAAATGTCACCTCA
65 AATTTCAAATGACAGAGAATCTTAACTATTCACGTC-CTTTGCTTTTCATTCAAATATCACCTCA
* * *
649298 AACCAGTTCAAGTAAACTAATAATTTCAAATTTCAGAGAATC
129 AATCAGATCAAGTAAAATAATAATTTCAAATTTCAGAGAATC
* * * * *
649340 TTAA-TCATTCATGTCATTTGCTTTTTAGTCAAATATCAACTCAAATCAGATCGAGTGCAAAATT
1 TTAACT-ATTCACGTCCTTTGATTTTTAGTCAAATATCACCTCAAATCAGATCGAGTACAAAATT
* * * **
649404 AATTTCAAATGA-A-AAAATCTTAGCTATTCACTTCCTTTATTTTTCATTCAAATATCACCTCAA
65 AATTTCAAATGACAGAGAATCTTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAA
649467 ATCAGATCAAGTAAAATAATAATTTCAAATTTCAGAGAATC
130 ATCAGATCAAGTAAAATAATAATTTCAAATTTCAGAGAATC
* * * * * * * *
649508 TTAATTATTCATGTCCTTTGATTTTCAGTTAAATATCAACTCAAATCAAATCAAGTACAAAAGTA
1 TTAACTATTCACGTCCTTTGATTTTTAGTCAAATATCACCTCAAATCAGATCGAGTACAAAATTA
* * * *
649573 ATTTCAAATGACAAAGAATCTTAACTATTCACGTCATTTGTTTTTCATTAAAATATCACCTCAAA
66 ATTTCAAATGACAGAGAATCTTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAA
* * * *
649638 TAATATTAAGTAAAATAATAATTTCAAATTCCAGAGAATC
131 TCAGATCAAGTAAAATAATAATTTCAAATTTCAGAGAATC
** *
649678 TTAACTATTCACGTTATTTG-TTTTTCAGTTAAATATCACCTCAAATCAGAT
1 TTAACTATTCACGTCCTTTGATTTTT-AGTCAAATATCACCTCAAATCAGAT
649729 ATGGTACAAT
Statistics
Matches: 936, Mismatches: 118, Indels: 51
0.85 0.11 0.05
Matches are distributed among these distances:
168 233 0.25
169 59 0.06
170 486 0.52
171 3 0.00
173 2 0.00
174 1 0.00
177 1 0.00
178 2 0.00
180 2 0.00
181 21 0.02
182 125 0.13
183 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (170 bp):
TTAACTATTCACGTCCTTTGATTTTTAGTCAAATATCACCTCAAATCAGATCGAGTACAAAATTA
ATTTCAAATGACAGAGAATCTTAACTATTCACGTCCTTTGCTTTTCATTCAAATATCACCTCAAA
TCAGATCAAGTAAAATAATAATTTCAAATTTCAGAGAATC
Found at i:649816 original size:18 final size:18
Alignment explanation
Indices: 649791--650123 Score: 188
Period size: 18 Copynumber: 18.6 Consensus size: 18
649781 AGTTAATGTT
*
649791 GTTT-TTAGTGATTTAGG
1 GTTTCTTAGTGAATTAGG
* *
649808 GTTTCTTAGTGAAATAGA
1 GTTTCTTAGTGAATTAGG
*
649826 GTTTCTTAATGAATTAAGG
1 GTTTCTTAGTGAATT-AGG
*
649845 GTATT-TTAGTGAGTTAGG
1 GT-TTCTTAGTGAATTAGG
* *
649863 CTTTCTTAGTGACTTAGG
1 GTTTCTTAGTGAATTAGG
* * * **
649881 ATTTTTTAGTGAGTTAAT
1 GTTTCTTAGTGAATTAGG
* *
649899 GTTTCTTAATGAATTAGA
1 GTTTCTTAGTGAATTAGG
* * *
649917 GTTTTTTAGCGAGTTAGG
1 GTTTCTTAGTGAATTAGG
* * *
649935 ATTTTTTAGTGAACTAGG
1 GTTTCTTAGTGAATTAGG
* * * **
649953 GTTTTTTTGTGAGTTAAA
1 GTTTCTTAGTGAATTAGG
* *
649971 TTTTCTTAATGAATTAGAG
1 GTTTCTTAGTGAATTAG-G
* * * *
649990 TTTTTTTAGTGAGTTAAG
1 GTTTCTTAGTGAATTAGG
* * * *
650008 ATTTCTCAGGGAATTATG
1 GTTTCTTAGTGAATTAGG
* * *
650026 ATTT-TTAGTGAGTTGGG
1 GTTTCTTAGTGAATTAGG
*
650043 GTTTCTTAGTGACTTAGG
1 GTTTCTTAGTGAATTAGG
650061 GTTT-TTAGTGAATTAGG
1 GTTTCTTAGTGAATTAGG
* * *
650078 GCTCCTTAATGAATTAGG
1 GTTTCTTAGTGAATTAGG
* * * * *
650096 TTTTTTTAATAAATTAGA
1 GTTTCTTAGTGAATTAGG
650114 GTTTCTTAGT
1 GTTTCTTAGT
650124 TTTTTTAGTG
Statistics
Matches: 235, Mismatches: 74, Indels: 13
0.73 0.23 0.04
Matches are distributed among these distances:
17 31 0.13
18 177 0.75
19 25 0.11
20 2 0.01
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (18 bp):
GTTTCTTAGTGAATTAGG
Found at i:649893 original size:36 final size:35
Alignment explanation
Indices: 649791--650123 Score: 215
Period size: 36 Copynumber: 9.3 Consensus size: 35
649781 AGTTAATGTT
* * * **
649791 GTTT-TTAGTGATTTAGGGTTTCTTAGTGAAATAG
1 GTTTCTTAGTGAATTAGGATTTTTTAGTGAGTTAG
* * *
649825 AGTTTCTTAATGAATTAAGGGTATTTTAGTGAGTTAG
1 -GTTTCTTAGTGAATT-AGGATTTTTTAGTGAGTTAG
* *
649862 GCTTTCTTAGTGACTTAGGATTTTTTAGTGAGTTAAT
1 G-TTTCTTAGTGAATTAGGATTTTTTAGTGAGTT-AG
* *
649899 GTTTCTTAATGAATTA-GAGTTTTTTAGCGAGTTAG
1 GTTTCTTAGTGAATTAGGA-TTTTTTAGTGAGTTAG
* * * * *
649934 GATTTTTTAGTGAACTAGGGTTTTTTTGTGAGTTAAA
1 G-TTTCTTAGTGAATTAGGATTTTTTAGTGAGTT-AG
* * *
649971 TTTTCTTAATGAATTAGAGTTTTTTTAGTGAGTTAAG
1 GTTTCTTAGTGAATTAG-GATTTTTTAGTGAGTT-AG
* * * * *
650008 ATTTCTCAGGGAATTATGA-TTTTTAGTGAGTTGGG
1 GTTTCTTAGTGAATTAGGATTTTTTAGTGAGTT-AG
* * *
650043 GTTTCTTAGTGACTTAGG-GTTTTTAGTGAATTAGG
1 GTTTCTTAGTGAATTAGGATTTTTTAGTGAGTTA-G
* * * * * * *
650078 GCTCCTTAATGAATTAGGTTTTTTTAATAAATTAG
1 GTTTCTTAGTGAATTAGGATTTTTTAGTGAGTTAG
650113 AGTTTCTTAGT
1 -GTTTCTTAGT
650124 TTTTTTAGTG
Statistics
Matches: 231, Mismatches: 54, Indels: 25
0.75 0.17 0.08
Matches are distributed among these distances:
35 63 0.27
36 108 0.47
37 60 0.26
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (35 bp):
GTTTCTTAGTGAATTAGGATTTTTTAGTGAGTTAG
Found at i:649958 original size:72 final size:72
Alignment explanation
Indices: 649792--650077 Score: 258
Period size: 72 Copynumber: 4.0 Consensus size: 72
649782 GTTAATGTTG
** * ** * *
649792 TTTTTAGTGATTTAGGGTTTCTTAGTGAAATAGA-GTTTCTTAATGAATTAAGGGTATTTTAGTG
1 TTTTTAGTGAACTAGGGTTTTTTAGTGAGTTA-ATGTTTCTTAATGAATT-AGAGTTTTTTAGTG
*
649856 AGTTAGGCT
64 AGTTAGGAT
* * *
649865 TTCTTAGTG-ACTTAGGATTTTTTAGTGAGTTAATGTTTCTTAATGAATTAGAGTTTTTTAGCGA
1 TTTTTAGTGAAC-TAGGGTTTTTTAGTGAGTTAATGTTTCTTAATGAATTAGAGTTTTTTAGTGA
649929 GTTAGGAT
65 GTTAGGAT
*
649937 TTTTTAGTGAACTAGGGTTTTTTTGTGAGTTAAAT-TTTCTTAATGAATTAGAGTTTTTTTAGTG
1 TTTTTAGTGAACTAGGGTTTTTTAGTGAGTT-AATGTTTCTTAATGAATTAGAG-TTTTTTAGTG
*
650001 AGTTAAGAT
64 AGTTAGGAT
* * * * * * *** * * * *
650010 TTCTCAGGGAATTA-TGATTTTTAGTGAGTTGGGGTTTCTTAGTGACTTAG-GGTTTTTAGTGAA
1 TTTTTAGTGAACTAGGGTTTTTTAGTGAGTTAATGTTTCTTAATGAATTAGAGTTTTTTAGTGAG
650073 TTAGG
66 TTAGG
650078 GCTCCTTAAT
Statistics
Matches: 176, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
70 14 0.08
71 1 0.01
72 90 0.51
73 71 0.40
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (72 bp):
TTTTTAGTGAACTAGGGTTTTTTAGTGAGTTAATGTTTCTTAATGAATTAGAGTTTTTTAGTGAG
TTAGGAT
Found at i:650095 original size:35 final size:35
Alignment explanation
Indices: 650018--650101 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 35
650008 ATTTCTCAGG
* * * * * *
650018 GAATTATGATTTTTAGTGAGTTGGGGTTTCTTAGT
1 GAATTAGGATTTTTAGTGAATTAGGGCTCCTTAAT
* *
650053 GACTTAGGGTTTTTAGTGAATTAGGGCTCCTTAAT
1 GAATTAGGATTTTTAGTGAATTAGGGCTCCTTAAT
*
650088 GAATTAGGTTTTTT
1 GAATTAGGATTTTT
650102 TAATAAATTA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.46
Consensus pattern (35 bp):
GAATTAGGATTTTTAGTGAATTAGGGCTCCTTAAT
Found at i:650447 original size:84 final size:84
Alignment explanation
Indices: 650232--650525 Score: 251
Period size: 84 Copynumber: 3.5 Consensus size: 84
650222 GGGTTTTAAT
* * * * *
650232 CAAATCTCATCTCAAATCAGAA-TCGATACAATAATAATTTCAAATGAAAAAAAAATCT-TAACT
1 CAAATATCACCTCAAATCAAAACT-GGTACAATAATAA-TTCAAATG-AAAAAGAATCTAT-ACT
*
650295 ATTCATGTCATTTTCTTTTCAGT
62 ATTCATGTCATTTTCTTTTCAGC
* * * ** * *
650318 CAAATATCATCTTAAATCATATTTGGTACAATAATAATTAAAAATGACAAAGAATCTATACTATT
1 CAAATATCACCTCAAATCAAAACTGGTACAATAATAATT-CAAATGAAAAAGAATCTATACTATT
650383 CATGTC-TTTT-TTTTCTAGC
65 CATGTCATTTTCTTTTC-AGC
* * * *
650402 CAAATGTCACCTCAAA-CTAAAACTGGTACAACAATAACTTCAAATGATAGAGAATCTGA-ACTA
1 CAAATATCACCTCAAATC-AAAACTGGTACAATAATAA-TTCAAATGAAAAAGAATCT-ATACTA
**
650465 TTCATGTCATTTTCTTTTCAAT
63 TTCATGTCATTTTCTTTTCAGC
* * *
650487 TAATTATCACCTCAAATCAGATA-TGGTACAATAATAATT
1 CAAATATCACCTCAAATCA-AAACTGGTACAATAATAATT
650526 TTAAAAGACA
Statistics
Matches: 171, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
83 6 0.04
84 62 0.36
85 58 0.34
86 44 0.26
87 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (84 bp):
CAAATATCACCTCAAATCAAAACTGGTACAATAATAATTCAAATGAAAAAGAATCTATACTATTC
ATGTCATTTTCTTTTCAGC
Found at i:661660 original size:60 final size:61
Alignment explanation
Indices: 661536--661663 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 61
661526 AAGAACACTA
* ** * * **
661536 AGTGCAGGTGGTGGGCACGACCTTATGTGTCATATCTGGATTATCACTAGAGTTTAAACCT
1 AGTGCAGGTGGTGGGCACGACCCTACATATCATATCTGGATTAGCACTAGAGCATAAACCT
* * *
661597 AGTGTAGGTGGT-GGCACGACCCTACATATCATATCTGGATTAGCACTAGAGCATAAGCTT
1 AGTGCAGGTGGTGGGCACGACCCTACATATCATATCTGGATTAGCACTAGAGCATAAACCT
661657 AGTGCAG
1 AGTGCAG
661664 TTATAGCACT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
60 45 0.80
61 11 0.20
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (61 bp):
AGTGCAGGTGGTGGGCACGACCCTACATATCATATCTGGATTAGCACTAGAGCATAAACCT
Found at i:668162 original size:33 final size:33
Alignment explanation
Indices: 668101--668165 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
668091 ATATAATATT
* *
668101 GAGCAATCGACCAACAACTCAACGGAAAATCTA
1 GAGCAATCAACCAACAACTCAACAGAAAATCTA
* * *
668134 GAGCAATCAACCAACTACTTATCAGAAAATCT
1 GAGCAATCAACCAACAACTCAACAGAAAATCT
668166 CGAATAATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.45, C:0.26, G:0.12, T:0.17
Consensus pattern (33 bp):
GAGCAATCAACCAACAACTCAACAGAAAATCTA
Found at i:673247 original size:23 final size:25
Alignment explanation
Indices: 673220--673271 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 25
673210 CCAAAGAAAG
673220 AAAAATGAAAATAAATAAAA-A-AAT
1 AAAAA-GAAAATAAATAAAATATAAT
*
673244 AAAAAGAAAATGAATAAAATATAAT
1 AAAAAGAAAATAAATAAAATATAAT
673269 AAA
1 AAA
673272 TAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 13 0.52
24 6 0.24
25 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (25 bp):
AAAAAGAAAATAAATAAAATATAAT
Found at i:673272 original size:29 final size:30
Alignment explanation
Indices: 673216--673274 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
673206 TGGACCAAAG
673216 AAAGAAAAATGAAAATAAATAAAAAAATAA
1 AAAGAAAAATGAAAATAAATAAAAAAATAA
* *
673246 AAAG-AAAATGAATA-AAATATAATAAATAA
1 AAAGAAAAATGAAAATAAATA-AAAAAATAA
673275 TATATAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.19
29 17 0.65
30 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (30 bp):
AAAGAAAAATGAAAATAAATAAAAAAATAA
Found at i:673273 original size:14 final size:12
Alignment explanation
Indices: 673227--673274 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
673217 AAGAAAAATG
673227 AAAATAAATAAA
1 AAAATAAATAAA
*
673239 AAAATAAA-AAG
1 AAAATAAATAAA
*
673250 AAAATGAATAAA
1 AAAATAAATAAA
673262 ATATAATAAATAA
1 A-A-AATAAATAA
673275 TATATAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 9 0.31
12 11 0.38
13 1 0.03
14 8 0.28
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:673347 original size:11 final size:11
Alignment explanation
Indices: 673333--673429 Score: 63
Period size: 11 Copynumber: 8.1 Consensus size: 11
673323 TATAATGTAT
673333 ATATTTTCAAA
1 ATATTTTCAAA
673344 ATATTTTCAAAA
1 ATATTTTC-AAA
*
673356 ACTATATATT-ATAT
1 A-TAT-T-TTCA-AA
673370 ATATTTTCAAA
1 ATATTTTCAAA
673381 ATATTTTCAAAA
1 ATATTTTC-AAA
*
673393 ACTATATATT-ATAT
1 A-TAT-T-TTCA-AA
*
673407 ACATTTTCAAA
1 ATATTTTCAAA
673418 ATATTTTCAAA
1 ATATTTTCAAA
673429 A
1 A
673430 ACTATATATT
Statistics
Matches: 68, Mismatches: 6, Indels: 24
0.69 0.06 0.24
Matches are distributed among these distances:
11 33 0.49
12 12 0.18
13 13 0.19
14 6 0.09
15 4 0.06
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATTTTCAAA
Found at i:673371 original size:37 final size:37
Alignment explanation
Indices: 673316--673590 Score: 331
Period size: 37 Copynumber: 7.6 Consensus size: 37
673306 ATATTTTTTT
* *
673316 AAAACTATATAATGTATATATTTTCAAAATATTTTCA
1 AAAACTATATATTATATATATTTTCAAAATATTTTCA
673353 AAAACTATATATTATATATATTTTCAAAATATTTTCA
1 AAAACTATATATTATATATATTTTCAAAATATTTTCA
*
673390 AAAACTATATATTATATACATTTTCAAAATATTTTCA
1 AAAACTATATATTATATATATTTTCAAAATATTTTCA
* *
673427 AAAACTATATATTATATATATATTTTTTAAAATGTTTTCA
1 AAAACTATATA-T-TATATATA-TTTTCAAAATATTTTCA
673467 AAAAC-----------TATATTTTCAAAATATTTTCA
1 AAAACTATATATTATATATATTTTCAAAATATTTTCA
* *
673493 AAAACTATATATTATATATATTTTCAATATATTTTTA
1 AAAACTATATATTATATATATTTTCAAAATATTTTCA
*
673530 AAAACTATATATTATATATATGTTTTCAAAAT-TTTATAA
1 AAAACTATATATTATATATA--TTTTCAAAATATTT-TCA
673569 AAAACTATATATATATATATAT
1 AAAACTATATAT-TATATATAT
673591 ATACTAAATA
Statistics
Matches: 208, Mismatches: 12, Indels: 35
0.82 0.05 0.14
Matches are distributed among these distances:
26 20 0.10
27 4 0.02
37 121 0.58
38 5 0.02
39 30 0.14
40 28 0.13
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (37 bp):
AAAACTATATATTATATATATTTTCAAAATATTTTCA
Found at i:673482 original size:140 final size:142
Alignment explanation
Indices: 673332--673592 Score: 447
Period size: 140 Copynumber: 1.8 Consensus size: 142
673322 ATATAATGTA
673332 TATATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACTA
1 TATATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACTA
*
673397 TATATTATATACA-TTTTCAAAATATTT-TCAAAAACTATATAT-TATATATATATTTTTTAAAA
66 TATATTATATACAGTTTTCAAAAT-TTTATAAAAAACTATATATATATATATATATTTTTTAAAA
673459 TGTTTTCAAAAAC
130 TGTTTTCAAAAAC
* *
673472 TATATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTCAATATATTTTTAAAAACTA
1 TATATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACTA
*
673537 TATATTATATATATGTTTTCAAAATTTTATAAAAAACTATATATATATATATATAT
66 TATATTATATACA-GTTTTCAAAATTTTATAAAAAACTATATATATATATATATAT
673593 ACTAAATAAA
Statistics
Matches: 113, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
140 75 0.66
141 3 0.03
142 24 0.21
143 11 0.10
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (142 bp):
TATATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACTA
TATATTATATACAGTTTTCAAAATTTTATAAAAAACTATATATATATATATATATTTTTTAAAAT
GTTTTCAAAAAC
Found at i:673485 original size:26 final size:26
Alignment explanation
Indices: 673369--673519 Score: 102
Period size: 26 Copynumber: 5.8 Consensus size: 26
673359 ATATATTATA
673369 TATATTTTCAAAATATTTTCAAAAAC
1 TATATTTTCAAAATATTTTCAAAAAC
* * *
673395 TATATATT-ATATACATTTTC--AAA-
1 TATATTTTCA-AAATATTTTCAAAAAC
* *
673418 -ATATTTTCAAAAACTATATATT-ATATA-
1 TATATTTTC-AAAA-TAT-T-TTCAAAAAC
* *
673445 TATATTTTTTAAAATGTTTTCAAAAAC
1 TATA-TTTTCAAAATATTTTCAAAAAC
673472 TATATTTTCAAAATATTTTCAAAAAC
1 TATATTTTCAAAATATTTTCAAAAAC
* *
673498 TATATATT-ATATATATTTTCAA
1 TATATTTTCA-AAATATTTTCAA
673520 TATATTTTTA
Statistics
Matches: 97, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
22 6 0.06
23 2 0.02
24 6 0.06
25 5 0.05
26 59 0.61
27 8 0.08
28 7 0.07
29 4 0.04
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (26 bp):
TATATTTTCAAAATATTTTCAAAAAC
Found at i:673491 original size:103 final size:102
Alignment explanation
Indices: 673369--673578 Score: 341
Period size: 103 Copynumber: 2.0 Consensus size: 102
673359 ATATATTATA
673369 TATATTTTCAAAATATTTTCAAAAACTATATATTATATACATTTTCAAAATATTTTCAAAAACTA
1 TATATTTTCAAAATATTTTCAAAAACTATATATTATATACATTTTCAAAATATTTTCAAAAACTA
* * *
673434 TATATTATATATATATTTTTTAAAATGTTT-TCAAAAAC
66 TATATTATATATAT-GTTTTCAAAAT-TTTATAAAAAAC
* * *
673472 TATATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTCAATATATTTTTAAAAACTA
1 TATATTTTCAAAATATTTTCAAAAACTATATATTATATACATTTTCAAAATATTTTCAAAAACTA
673537 TATATTATATATATGTTTTCAAAATTTTATAAAAAAC
66 TATATTATATATATGTTTTCAAAATTTTATAAAAAAC
673574 TATAT
1 TATAT
673579 ATATATATAT
Statistics
Matches: 100, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
101 3 0.03
102 21 0.21
103 76 0.76
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.47
Consensus pattern (102 bp):
TATATTTTCAAAATATTTTCAAAAACTATATATTATATACATTTTCAAAATATTTTCAAAAACTA
TATATTATATATATGTTTTCAAAATTTTATAAAAAAC
Found at i:681862 original size:34 final size:36
Alignment explanation
Indices: 681824--681897 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 36
681814 TTTAGATTCT
* *
681824 TTAAAATGT-CTTTTGATTTAAAAAGGGGAG-AGTG
1 TTAAAATGTGCTTTTAAATTAAAAAGGGGAGAAGTG
* * *
681858 TT-AAATGTGTTTTTAAATTATAAATGGGAGAAGTG
1 TTAAAATGTGCTTTTAAATTAAAAAGGGGAGAAGTG
681893 TTAAA
1 TTAAA
681898 GTAAGGGGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
33 6 0.19
34 18 0.56
35 6 0.19
36 2 0.06
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (36 bp):
TTAAAATGTGCTTTTAAATTAAAAAGGGGAGAAGTG
Found at i:692189 original size:37 final size:37
Alignment explanation
Indices: 692118--692495 Score: 288
Period size: 39 Copynumber: 10.2 Consensus size: 37
692108 TAATTTTTTT
* *
692118 TATACTATATA-ATATTT-AAATATATTTTTAAAAAACTA
1 TATAATATATATAT-TTTCAAA-ATA-TTTTCAAAAACTA
* *
692156 TATAATGTATATATTTTGAAAATATTTTCAAAAAC--
1 TATAATATATATATTTTCAAAATATTTTCAAAAACTA
692191 TAT-ATAT-TATA---T----ATATTTTC-AAAACTA
1 TATAATATATATATTTTCAAAATATTTTCAAAAACTA
* *
692218 TATATTATATACATTTTCAAAATATTTTCAAAAACTA
1 TATAATATATATATTTTCAAAATATTTTCAAAAACTA
* *
692255 TATATTATATATATTTTTTTCAAAATGTTTTCAAAAACTA
1 TATA--ATATATA-TATTTTCAAAATATTTTCAAAAACTA
* *
692295 TATATTATATATATATATTT-AAACTATTTTCAAAAAGTA
1 TATA--ATATATATAT-TTTCAAAATATTTTCAAAAACTA
* * *
692334 TATATTATATATATTTTTAAAATGTTTTCAAAAACTA
1 TATAATATATATATTTTCAAAATATTTTCAAAAACTA
*
692371 TATATTATATATATTTTCAAAACTACTTTT-AAAAACTA
1 TATAATATATATATTTTCAAAA-TA-TTTTCAAAAACTA
* * *
692409 TATATTATATATATGTTTTTAAAAT-TTTATAAAAAACTA
1 TATA--ATATATATATTTTCAAAATATTT-TCAAAAACTA
* *
692448 TATATTATATATATGTTTTCAAAAT-TTTATAAAAAAACTA
1 TATA--ATATATATATTTTCAAAATATTT-T-CAAAAACTA
*
692488 TATCATAT
1 TATAATAT
692496 GCTATATATA
Statistics
Matches: 289, Mismatches: 25, Indels: 52
0.79 0.07 0.14
Matches are distributed among these distances:
25 5 0.02
26 8 0.03
27 3 0.01
28 3 0.01
29 3 0.01
30 1 0.00
32 1 0.00
33 4 0.01
34 3 0.01
35 3 0.01
36 11 0.04
37 70 0.24
38 33 0.11
39 75 0.26
40 66 0.23
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (37 bp):
TATAATATATATATTTTCAAAATATTTTCAAAAACTA
Found at i:692215 original size:62 final size:62
Alignment explanation
Indices: 692149--692271 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 62
692139 ATATTTTTAA
* * *
692149 AAAACTATATAATGTATATATTTTGAAAATATTTTCAAAAACTATATATTATATATATTTTC
1 AAAACTATATAATATATACATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTC
*
692211 AAAACTATATATTATATACATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTT
1 AAAACTATATAATATATACATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTT
692272 TTTCAAAATG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (62 bp):
AAAACTATATAATATATACATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTC
Found at i:692220 original size:25 final size:25
Alignment explanation
Indices: 692177--692239 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
692167 TATTTTGAAA
692177 ATATTTTCAAAAACTATATATTATAT
1 ATATTTTC-AAAACTATATATTATAT
692203 ATATTTTCAAAACTATATATTATAT
1 ATATTTTCAAAACTATATATTATAT
*
692228 ACATTTTCAAAA
1 ATATTTTCAAAA
692240 TATTTTCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 28 0.78
26 8 0.22
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTTTCAAAACTATATATTATAT
Found at i:692299 original size:77 final size:75
Alignment explanation
Indices: 692206--692490 Score: 373
Period size: 77 Copynumber: 3.7 Consensus size: 75
692196 ATTATATATA
*
692206 TTTTC-AAAACTATATATTATATACATTTTCAAAATATTTTCAAAAACTATATATTATATATATT
1 TTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACTATATATTATATATA-T
692270 TTTTTCAAAATG
65 TTTTT-AAAATG
* * *
692282 TTTTCAAAAACTATATATTATATATATATATTTAAACTATTTTCAAAAAGTATATATTATATATA
1 TTTTCAAAAACTATATATTATATATAT-T-TTCAAAATATTTTCAAAAACTATATATTATATATA
692347 -TTTTTAAAATG
64 TTTTTTAAAATG
692358 TTTTCAAAAACTATATATTATATATATTTTCAAAACTACTTTT-AAAAACTATATATTATATATA
1 TTTTCAAAAACTATATATTATATATATTTTCAAAA-TA-TTTTCAAAAACTATATATTATATATA
692422 TGTTTTTAAAAT-
64 T-TTTTTAAAATG
* *
692434 TTTATAAAAAACTATATATTATATATATGTTTTCAAAAT-TTTATAAAAAAACTATAT
1 TTT-TCAAAAACTATATATTATATATA--TTTTCAAAATATTT-T-CAAAAACTATAT
692491 CATATGCTAT
Statistics
Matches: 188, Mismatches: 8, Indels: 23
0.86 0.04 0.11
Matches are distributed among these distances:
74 5 0.03
75 23 0.12
76 48 0.26
77 58 0.31
78 2 0.01
79 52 0.28
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (75 bp):
TTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACTATATATTATATATATT
TTTTAAAATG
Found at i:692462 original size:39 final size:38
Alignment explanation
Indices: 692203--692490 Score: 338
Period size: 39 Copynumber: 7.5 Consensus size: 38
692193 TATATTATAT
* *
692203 ATATTTTC-AAAACTATATATTATATACA-TTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATATTTTTTAAA
692239 ATATTTTCAAAAACTATATATTATATATATTTTTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATA-TTTTTT-AAA
* *
692279 ATGTTTTCAAAAACTATATATTATATATATATATTTAAA
1 ATATTTTCAAAAACTATATATTATATATAT-TTTTTAAA
* *
692318 CTATTTTCAAAAAGTATATATTATATATA-TTTTTAAA
1 ATATTTTCAAAAACTATATATTATATATATTTTTTAAA
* *
692355 ATGTTTTCAAAAACTATATATTATATATA-TTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATATTTTTTAAA
692392 ACTACTTTT-AAAAACTATATATTATATATATGTTTTTAAA
1 A-TA-TTTTCAAAAACTATATATTATATATAT-TTTTTAAA
* *
692432 AT-TTTATAAAAAACTATATATTATATATATGTTTTCAAA
1 ATATTT-TCAAAAACTATATATTATATATAT-TTTTTAAA
*
692471 AT-TTTATAAAAAAACTATAT
1 ATATTT-T-CAAAAACTATAT
692491 CATATGCTAT
Statistics
Matches: 225, Mismatches: 15, Indels: 20
0.87 0.06 0.08
Matches are distributed among these distances:
36 8 0.04
37 63 0.28
38 23 0.10
39 76 0.34
40 55 0.24
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (38 bp):
ATATTTTCAAAAACTATATATTATATATATTTTTTAAA
Found at i:693993 original size:3 final size:3
Alignment explanation
Indices: 693985--694026 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
693975 TCTATTCCAA
693985 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
694027 TACTTCTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:720006 original size:5 final size:5
Alignment explanation
Indices: 719996--720039 Score: 72
Period size: 5 Copynumber: 8.8 Consensus size: 5
719986 AAGAAATAAA
719996 AATAT AATAT AATAT AATAT AATAT AATAT -ATAT ATATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT AATA
720040 ATTATTTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 28 0.76
6 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:720736 original size:33 final size:34
Alignment explanation
Indices: 720699--720770 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
720689 CCCTAAATTC
*
720699 TAAAATACTTT-AATTTAGGGTTTAGAATGTAAT
1 TAAAATACTTTAAATATAGGGTTTAGAATGTAAT
* *
720732 TAAAATATTTTAGAATATGGGGTTTAGAATGTAAT
1 TAAAATACTTTA-AATATAGGGTTTAGAATGTAAT
720767 TAAA
1 TAAA
720771 GTGTTTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 10 0.29
35 24 0.71
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.40
Consensus pattern (34 bp):
TAAAATACTTTAAATATAGGGTTTAGAATGTAAT
Found at i:721037 original size:24 final size:24
Alignment explanation
Indices: 721008--721059 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
720998 TGTTCAAAAG
721008 GAGGACTTAATAAATAAAGGGAAA
1 GAGGACTTAATAAATAAAGGGAAA
721032 GAGGACTTAATAAATAAAGGGAAA
1 GAGGACTTAATAAATAAAGGGAAA
721056 GAGG
1 GAGG
721060 TTCGGTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.52, C:0.04, G:0.29, T:0.15
Consensus pattern (24 bp):
GAGGACTTAATAAATAAAGGGAAA
Found at i:724342 original size:30 final size:30
Alignment explanation
Indices: 724308--724399 Score: 157
Period size: 30 Copynumber: 3.0 Consensus size: 30
724298 ATTTAGTATC
724308 TAAATTATCAGTTTTGATCTATTTTAGACT
1 TAAATTATCAGTTTTGATCTATTTTAGACT
*
724338 TAAATTACCAGTTTTGATCTATTTTAGACT
1 TAAATTATCAGTTTTGATCTATTTTAGACT
*
724368 TAAATTATCAGTTTTGATCCATTTTAGTACT
1 TAAATTATCAGTTTTGATCTATTTTAG-ACT
724399 T
1 T
724400 TAACTTTTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 54 0.93
31 4 0.07
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (30 bp):
TAAATTATCAGTTTTGATCTATTTTAGACT
Found at i:724473 original size:21 final size:21
Alignment explanation
Indices: 724449--724514 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
724439 TTTTTGTTTC
724449 ATTTTAATAAAAAAATT-TGAT
1 ATTTTAAT-AAAAAATTATGAT
*
724470 ATTTTTAATATAAAATTATGAT
1 A-TTTTAATAAAAAATTATGAT
** *
724492 ATTAAAAAAATAAAATTATGAT
1 ATTTTAATAA-AAAATTATGAT
724514 A
1 A
724515 ATAAAAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 13 0.35
22 24 0.65
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
ATTTTAATAAAAAATTATGAT
Found at i:724476 original size:22 final size:22
Alignment explanation
Indices: 724450--724494 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
724440 TTTTGTTTCA
724450 TTTTAATAAAAAAATT-TGATAT
1 TTTTAAT-AAAAAATTATGATAT
*
724472 TTTTAATATAAAATTATGATAT
1 TTTTAATAAAAAATTATGATAT
724494 T
1 T
724495 AAAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTTAATAAAAAATTATGATAT
Found at i:724504 original size:22 final size:22
Alignment explanation
Indices: 724479--724522 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
724469 TATTTTTAAT
*
724479 ATAAAATTATGATATTAAAAAA
1 ATAAAATTATGATAATAAAAAA
724501 ATAAAATTATGATAATAAAAAA
1 ATAAAATTATGATAATAAAAAA
724523 CTTAATGCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (22 bp):
ATAAAATTATGATAATAAAAAA
Found at i:724589 original size:24 final size:25
Alignment explanation
Indices: 724548--724613 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
724538 AATTAAATTA
* * *
724548 TAAATTTTGATCTATTTT-AGTATT
1 TAAATTTTAATATTTTTTAAGTATT
724572 TAAATTTTAATATTTTTTAAAGTATT
1 TAAATTTTAATATTTTTT-AAGTATT
*
724598 T-AATTTTTATATTTTT
1 TAAATTTTAATATTTTT
724614 ATAAACTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 15 0.42
25 14 0.39
26 7 0.19
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (25 bp):
TAAATTTTAATATTTTTTAAGTATT
Found at i:724605 original size:26 final size:26
Alignment explanation
Indices: 724566--724618 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
724556 GATCTATTTT
724566 AGTATTTAAATTTTAATATTTTT-TAA
1 AGTATTTAAATTTT-ATATTTTTATAA
*
724592 AGTATTTAATTTTTATATTTTTATAA
1 AGTATTTAAATTTTATATTTTTATAA
724618 A
1 A
724619 CTTAACTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
AGTATTTAAATTTTATATTTTTATAA
Found at i:724609 original size:25 final size:27
Alignment explanation
Indices: 724566--724618 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 27
724556 GATCTATTTT
724566 AGTATTTAAATTTTAATATTTTT-TAA
1 AGTATTTAAATTTTAATATTTTTATAA
*
724592 AGTATTT-AATTTTTATATTTTTATAA
1 AGTATTTAAATTTTAATATTTTTATAA
724618 A
1 A
724619 CTTAACTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
AGTATTTAAATTTTAATATTTTTATAA
Found at i:726723 original size:3 final size:3
Alignment explanation
Indices: 726715--726756 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
726705 CTGTAATGTA
726715 AAT AAT AATT AAT AAT AAT AAT AAT AA- ATAT AAT AAT AAT AA
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA
726757 ATATTATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 1 0.03
3 31 0.86
4 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:726749 original size:15 final size:15
Alignment explanation
Indices: 726715--726760 Score: 74
Period size: 15 Copynumber: 3.0 Consensus size: 15
726705 CTGTAATGTA
*
726715 AATAATAATTAATAAT
1 AATAATAATAAAT-AT
726731 AATAATAATAAATAT
1 AATAATAATAAATAT
726746 AATAATAATAAATAT
1 AATAATAATAAATAT
726761 TATATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATAATAAATAT
Found at i:726768 original size:2 final size:2
Alignment explanation
Indices: 726757--726786 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
726747 ATAATAATAA
726757 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
726787 AGCCCGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:729601 original size:14 final size:14
Alignment explanation
Indices: 729582--729641 Score: 83
Period size: 14 Copynumber: 4.6 Consensus size: 14
729572 TGTTCGATTA
729582 TATGTTCGTTCATT
1 TATGTTCGTTCATT
729596 TATGTTCGTTCATT
1 TATGTTCGTTCATT
*
729610 TA---T-GTTAATT
1 TATGTTCGTTCATT
729620 TATGTTCGTTCATT
1 TATGTTCGTTCATT
729634 TATGTTCG
1 TATGTTCG
729642 AACAAAGGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 8 0.20
11 1 0.03
13 1 0.03
14 30 0.75
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.57
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:729623 original size:24 final size:24
Alignment explanation
Indices: 729593--729639 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
729583 ATGTTCGTTC
729593 ATTTATGTTCGTTCATTTATGTTA
1 ATTTATGTTCGTTCATTTATGTTA
729617 ATTTATGTTCGTTCATTTATGTT
1 ATTTATGTTCGTTCATTTATGTT
729640 CGAACAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.13, T:0.60
Consensus pattern (24 bp):
ATTTATGTTCGTTCATTTATGTTA
Found at i:730535 original size:26 final size:24
Alignment explanation
Indices: 730473--730535 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
730463 CATTTTAATC
730473 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
730497 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
730520 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
730536 ATTTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:730537 original size:22 final size:23
Alignment explanation
Indices: 730507--730553 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
730497 AAAATATATT
730507 TATTAATATTTCTAATAA-TATAA
1 TATTAATATTTCTAA-AATTATAA
*
730530 TATT-ATATTTTTAAAATTATAA
1 TATTAATATTTCTAAAATTATAA
730552 TA
1 TA
730554 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 2 0.09
22 16 0.73
23 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTAATATTTCTAAAATTATAA
Found at i:730764 original size:23 final size:23
Alignment explanation
Indices: 730738--730782 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
730728 AATAATATTT
*
730738 TAATAAAGATATTTAACATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
730761 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
730783 ATATAACATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:730790 original size:35 final size:34
Alignment explanation
Indices: 730726--730791 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
730716 ATATAATAAT
*
730726 CTAATAATATTTTAATAAAGATATTTAACATATA
1 CTAATAATATTTTAATAAAGATATATAACATATA
* *
730760 CTAATTAATATTTTTA-AAATATAATATAACAT
1 CTAA-TAATATTTTAATAAAGAT-ATATAACAT
730792 TATTACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 9 0.33
35 18 0.67
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (34 bp):
CTAATAATATTTTAATAAAGATATATAACATATA
Found at i:733957 original size:9 final size:8
Alignment explanation
Indices: 733916--733955 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
733906 TAAACTTAAT
733916 TAAAAAAA
1 TAAAAAAA
*
733924 TAAAACAA
1 TAAAAAAA
*
733932 TAAATAAA
1 TAAAAAAA
733940 TAAAAAACA
1 TAAAAAA-A
733949 TAAAAAA
1 TAAAAAA
733956 CAACACAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:733982 original size:17 final size:16
Alignment explanation
Indices: 733918--733987 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
733908 AACTTAATTA
*
733918 AAAAAATAAAACAA-T
1 AAAAAATAAAAAAACT
733933 AAATAAAT-AAAAAACAT
1 AAA-AAATAAAAAAAC-T
* *
733950 AAAAAACAACACAAACT
1 AAAAAATAA-AAAAACT
733967 AAAAAATAAAATAAACCT
1 AAAAAATAAAA-AAA-CT
733985 AAA
1 AAA
733988 TATAAGGACC
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
15 8 0.19
16 8 0.19
17 17 0.40
18 10 0.23
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAATAAAAAAACT
Found at i:735902 original size:136 final size:135
Alignment explanation
Indices: 735680--736635 Score: 1096
Period size: 136 Copynumber: 7.0 Consensus size: 135
735670 TTCCTTCTGG
* * * ** * * ** * *
735680 AATGTTGATCCCTCAAGTGAGGTGTTGCTGATTCAAAGTGTTGTGAATTTAGCAGTAAGTCGAAC
1 AATGTTAATCCCTCAAGCGAGGAGTCACTGATTCGAAGTATTGTGAATCGAGCAATAGGTCGAAC
* * *
735745 AAGTTCTTCTCATTATAAACTTCCTCTCTCTCTGTCGGATGAGTTTTTCTCATTATGAACTCTCC
66 AAGTTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCC
735810 ATCTGA
131 AT-TGA
* * ** **
735816 AATGTTAATCCCTCAAGCGAGGAATCACTGATTCGAAATACAGTGAATCGAGTTATAGGTCGAAC
1 AATGTTAATCCCTCAAGCGAGGAGTCACTGATTCGAAGTATTGTGAATCGAGCAATAGGTCGAAC
* * *
735881 AAGCTCTTCTCATTATGAACTTCTTGTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCC
66 AAGTTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCC
*
735946 ATCGAA
131 ATTG-A
*** * * * * *
735952 AATAACAATCCCTCAAGCGAGGCATTGA-TGATTCGAAGTATGGTGAATTGAGCAATATGTCGAA
1 AATGTTAATCCCTCAAGCGAGG-AGTCACTGATTCGAAGTATTGTGAATCGAGCAATAGGTCGAA
* * *
736016 CAAGCTT-TTCTCATTATGAACTTCTTCTCCATCTGTCGGATGAGTTCTTCTCATTATGAATTCT
65 CAAG-TTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
736080 CCATTAGA
129 CCATT-GA
* * * * * *
736088 AATGTCAATCTCTCAAGCGAGGCGT-ACCTGATTCGAAGTGTTTTGAATCGAGCAGTAGGTCGAA
1 AATGTTAATCCCTCAAGCGAGGAGTCA-CTGATTCGAAGTATTGTGAATCGAGCAATAGGTCGAA
* * *
736152 CAAGTTCTTCTCATTAAGAACTTCTTCTCCCTCTGTCGGACGAGTTCTTCTCATTATGAACTCTC
65 CAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTC
736217 CATTGGA
130 CATT-GA
* ** * * * * *
736224 AATGTTTATCCCTCAAGTAAGGCG-CTGCTGATTCGAAGTGTTGTGAATCTACCAATAGGTCGAA
1 AATGTTAATCCCTCAAGCGAGGAGTC-ACTGATTCGAAGTATTGTGAATCGAGCAATAGGTCGAA
* *
736288 CAAGTTCTTCTCATTATGAACTTCCTCTCCCTTTGTCGGATGAGCTCTTCTCATTATGAACTCTC
65 CAAGTTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTC
736353 CATTTGA
130 CA-TTGA
* * ** * * *
736360 AATGTTAATCCCTCAAGCAAGGTGTTTCTGATTCGAAGTGTTGTGAATTGAGCAATAGTTCGAAC
1 AATGTTAATCCCTCAAGCGAGGAGTCACTGATTCGAAGTATTGTGAATCGAGCAATAGGTCGAAC
* * * *
736425 AAGTTCTTCTCATTATGATCTTCCTCTCCTTCTGTCGGATGAGCTCTTCTCATTATGAACTCTCA
66 AAGTTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCC
736490 ATTTGA
131 A-TTGA
* * * * * *
736496 AATGTTAATCCCTCAAGTGAGGCGTTACTGATTTGAAATATTGTGAATTGAGCAATAGGTCGAAC
1 AATGTTAATCCCTCAAGCGAGGAGTCACTGATTCGAAGTATTGTGAATCGAGCAATAGGTCGAAC
* * * *
736561 AAGTTCTTCTCATTAT--ACTTCCTCTCCCTCTTTCAGATGTGCTCTTCTCATTATGAACTCTCC
66 AAGTTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCC
736624 ATTGGA
131 ATT-GA
736630 AATGTT
1 AATGTT
736636 GATCGGTTCA
Statistics
Matches: 709, Mismatches: 99, Indels: 26
0.85 0.12 0.03
Matches are distributed among these distances:
133 2 0.00
134 51 0.07
135 4 0.01
136 645 0.91
137 7 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (135 bp):
AATGTTAATCCCTCAAGCGAGGAGTCACTGATTCGAAGTATTGTGAATCGAGCAATAGGTCGAAC
AAGTTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCC
ATTGA
Found at i:736408 original size:408 final size:407
Alignment explanation
Indices: 735687--736635 Score: 1228
Period size: 408 Copynumber: 2.3 Consensus size: 407
735677 TGGAATGTTG
* * * * * *
735687 ATCCCTCAAGTGAGGTGTTGCTGATTCAAAGTGTTGTGAATTTAGCAGTAAGTCGAACAAGTTCT
1 ATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTGTGAATTGAGCAGTAGGTCGAACAAGTTCT
* *
735752 TCTCATTATAAACTTCCTCTCTCTCTGTCGGATGAGTTTTTCTCATTATGAACTCTCCATCT-GA
66 TCTCATTA-AAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCAT-TGGA
* ***
735816 AATGTTAATCCCTCAAGCGAGGAATCACTGATTCGAAATACAGTGAATCGAGTTATAGGTCGAAC
129 AATGTTAATCCCTCAAGCAAGGAATCACTGATTCGAAATACAGTGAATCGACCAATAGGTCGAAC
* * *
735881 AAGCTCTTCTCATTATGAACTTCTTGTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCC
194 AAGCTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGCTCTTCTCATTATGAACTCTCC
*
735946 ATCGAAAATAACAATCCCTCAAGCGAGGCATTGATGATTCGAAGTATGGTGAATTGAGCAATA-T
259 ATCGAAAATAACAATCCCTCAAGCAAGGCATTGATGATTCGAAGTATGGTGAATTGAGCAATAGT
* *
736010 GTCGAACAAGCTT-TTCTCATTATGAACTTCTTCTCCATCTGTCGGATGAGTTCTTCTCATTATG
324 -TCGAACAAG-TTCTTCTCATTATGAACTTCCTCTCCATCTGTCGGATGAGCTCTTCTCATTATG
* *
736074 AATTCTCCATTAGAAATGTCA
387 AACTCTCAATTAGAAATGTCA
* * *
736095 ATCTCTCAAGCGAGGCG-TACCTGATTCGAAGTGTTTTGAATCGAGCAGTAGGTCGAACAAGTTC
1 ATCCCTCAAGCGAGGCGTTA-CTGATTCGAAGTGTTGTGAATTGAGCAGTAGGTCGAACAAGTTC
* *
736159 TTCTCATTAAGAACTTCTTCTCCCTCTGTCGGACGAGTTCTTCTCATTATGAACTCTCCATTGGA
65 TTCTCATTAA-AACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGA
* * ** * * *** *
736224 AATGTTTATCCCTCAAGTAAGG-CGCTGCTGATTCGAAGTGTTGTGAATCTACCAATAGGTCGAA
129 AATGTTAATCCCTCAAGCAAGGAATC-ACTGATTCGAAATACAGTGAATCGACCAATAGGTCGAA
* *
736288 CAAGTTCTTCTCATTATGAACTTCCTCTCCCTTTGTCGGATGAGCTCTTCTCATTATGAACTCTC
193 CAAGCTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGCTCTTCTCATTATGAACTCTC
* *** ** ** * *
736353 CATTTG-AAATGTTAATCCCTCAAGCAAGGTGTTTCTGATTCGAAGTGTTGTGAATTGAGCAATA
258 CA-TCGAAAATAACAATCCCTCAAGCAAGGCATTGATGATTCGAAGTATGGTGAATTGAGCAATA
* *
736417 GTTCGAACAAGTTCTTCTCATTATGATCTTCCTCTCCTTCTGTCGGATGAGCTCTTCTCATTATG
322 GTTCGAACAAGTTCTTCTCATTATGAACTTCCTCTCCATCTGTCGGATGAGCTCTTCTCATTATG
* *
736482 AACTCTCAATTTGAAATGTTA
387 AACTCTCAATTAGAAATGTCA
* * * * *
736503 ATCCCTCAAGTGAGGCGTTACTGATTTGAAATATTGTGAATTGAGCAATAGGTCGAACAAGTTCT
1 ATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTGTGAATTGAGCAGTAGGTCGAACAAGTTCT
* * * * *
736568 TCTCATT-ATACTTCCTCTCCCTCTTTCAGATGTGCTCTTCTCATTATGAACTCTCCATTGGAAA
66 TCTCATTAAAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAA
736632 TGTT
131 TGTT
736636 GATCGGTTCA
Statistics
Matches: 467, Mismatches: 66, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
406 53 0.11
407 7 0.01
408 402 0.86
409 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (407 bp):
ATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTGTGAATTGAGCAGTAGGTCGAACAAGTTCT
TCTCATTAAAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAA
TGTTAATCCCTCAAGCAAGGAATCACTGATTCGAAATACAGTGAATCGACCAATAGGTCGAACAA
GCTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGCTCTTCTCATTATGAACTCTCCAT
CGAAAATAACAATCCCTCAAGCAAGGCATTGATGATTCGAAGTATGGTGAATTGAGCAATAGTTC
GAACAAGTTCTTCTCATTATGAACTTCCTCTCCATCTGTCGGATGAGCTCTTCTCATTATGAACT
CTCAATTAGAAATGTCA
Found at i:739302 original size:36 final size:36
Alignment explanation
Indices: 739255--739327 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
739245 TTATTTCAAT
739255 GATTCCCTTTATTTCTTCTTCTTCCTTTCGCTCCTA
1 GATTCCCTTTATTTCTTCTTCTTCCTTTCGCTCCTA
739291 GATTCCCTTTATTTCTTCTTCTTCCTTTCGCTCCTA
1 GATTCCCTTTATTTCTTCTTCTTCCTTTCGCTCCTA
739327 G
1 G
739328 TATGCCCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.08, C:0.33, G:0.07, T:0.52
Consensus pattern (36 bp):
GATTCCCTTTATTTCTTCTTCTTCCTTTCGCTCCTA
Found at i:739342 original size:39 final size:36
Alignment explanation
Indices: 739263--739342 Score: 115
Period size: 36 Copynumber: 2.1 Consensus size: 36
739253 ATGATTCCCT
* *
739263 TTATTTCTTCTTCTTCCTTTCGCTCCTAGATTCCCT
1 TTATTTCTTCTTCTTCCTTTCGCTCCTAGATCCCCA
739299 TTATTTCTTCTTCTTCCTTTCGCTCCTAGTATGCCCCAA
1 TTATTTCTTCTTCTTCCTTTCGCTCCTAG-AT-CCCC-A
739338 TTATT
1 TTATT
739343 CAAATTCTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
36 29 0.74
37 2 0.05
38 3 0.08
39 5 0.13
ACGTcount: A:0.11, C:0.31, G:0.06, T:0.51
Consensus pattern (36 bp):
TTATTTCTTCTTCTTCCTTTCGCTCCTAGATCCCCA
Found at i:740221 original size:21 final size:21
Alignment explanation
Indices: 740183--740222 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
740173 CGTTGAGATG
*
740183 CAATGTATATCATGTAATGTA
1 CAATGTATATCATCTAATGTA
740204 CAATGTATAT-ATACTAATG
1 CAATGTATATCAT-CTAATG
740223 CAAAGATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
CAATGTATATCATCTAATGTA
Found at i:740913 original size:90 final size:89
Alignment explanation
Indices: 740755--740931 Score: 300
Period size: 90 Copynumber: 2.0 Consensus size: 89
740745 CCTAACACAC
* *
740755 CCTTTTATAGCCAAGTTACCCTAATTATATTAGGGTTTTATTATTTTAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTTAAAGTAATTAAATCTATA
* *
740820 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
*
740844 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTTAAAGTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTTAAAGTAATTAAATCTAT
740909 ATTTAATTAATTGAAATTAAATA
65 ATTTAATTAATTGAAATTAAATA
740932 TTTGGGATTA
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 33 0.40
90 49 0.60
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTTAAAGTAATTAAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:764163 original size:2 final size:2
Alignment explanation
Indices: 764158--764190 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
764148 ATATATATAT
*
764158 AC AC AC AC AC AC AC AC AC AC AC AC AA AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
764191 TACAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:776245 original size:2 final size:2
Alignment explanation
Indices: 776238--776270 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
776228 AACATAAAGC
776238 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 A
776271 AACGCATACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:779146 original size:18 final size:19
Alignment explanation
Indices: 779125--779163 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
779115 TAATAGTGAG
779125 TTATTAT-ATAATATATTT
1 TTATTATAATAATATATTT
*
779143 TTATTATAATTATATATTT
1 TTATTATAATAATATATTT
779162 TT
1 TT
779164 TATATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATAATAATATATTT
Found at i:782653 original size:14 final size:15
Alignment explanation
Indices: 782614--782657 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
782604 AAATAATTAA
782614 AATAATATATTATAT
1 AATAATATATTATAT
782629 AATAATATATT-TAT
1 AATAATATATTATAT
* *
782643 AATTATTTATTATAT
1 AATAATATATTATAT
782658 TTTAAATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATAATATATTATAT
Found at i:782993 original size:21 final size:21
Alignment explanation
Indices: 782968--783010 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
782958 TTAGTCAACA
*
782968 ATTATTCCTTTAAAATAATTT
1 ATTATCCCTTTAAAATAATTT
782989 ATTATCCCTTTAAAATAATTT
1 ATTATCCCTTTAAAATAATTT
783010 A
1 A
783011 GTGAACAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATCCCTTTAAAATAATTT
Found at i:785919 original size:184 final size:184
Alignment explanation
Indices: 785701--786069 Score: 738
Period size: 184 Copynumber: 2.0 Consensus size: 184
785691 ATGTCTTATT
785701 GTGATCTACAATCCTATTGGGTAAAGTACACAAAACATGTCTTATTAGTTAACTTAGTAGTTAGA
1 GTGATCTACAATCCTATTGGGTAAAGTACACAAAACATGTCTTATTAGTTAACTTAGTAGTTAGA
785766 TTATTAAATATATAAGACAACAGATTAATGTGTAACTCAAACGACCACCAATTGTTTAAAGGAAA
66 TTATTAAATATATAAGACAACAGATTAATGTGTAACTCAAACGACCACCAATTGTTTAAAGGAAA
785831 AGGACGAGTTTGGAATATATGAATAGTCGAGTGGTTTTATAACTTTAATAGTAA
131 AGGACGAGTTTGGAATATATGAATAGTCGAGTGGTTTTATAACTTTAATAGTAA
785885 GTGATCTACAATCCTATTGGGTAAAGTACACAAAACATGTCTTATTAGTTAACTTAGTAGTTAGA
1 GTGATCTACAATCCTATTGGGTAAAGTACACAAAACATGTCTTATTAGTTAACTTAGTAGTTAGA
785950 TTATTAAATATATAAGACAACAGATTAATGTGTAACTCAAACGACCACCAATTGTTTAAAGGAAA
66 TTATTAAATATATAAGACAACAGATTAATGTGTAACTCAAACGACCACCAATTGTTTAAAGGAAA
786015 AGGACGAGTTTGGAATATATGAATAGTCGAGTGGTTTTATAACTTTAATAGTAA
131 AGGACGAGTTTGGAATATATGAATAGTCGAGTGGTTTTATAACTTTAATAGTAA
786069 G
1 G
786070 GGAACTCAAC
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 185 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (184 bp):
GTGATCTACAATCCTATTGGGTAAAGTACACAAAACATGTCTTATTAGTTAACTTAGTAGTTAGA
TTATTAAATATATAAGACAACAGATTAATGTGTAACTCAAACGACCACCAATTGTTTAAAGGAAA
AGGACGAGTTTGGAATATATGAATAGTCGAGTGGTTTTATAACTTTAATAGTAA
Found at i:787424 original size:459 final size:462
Alignment explanation
Indices: 785983--787682 Score: 2301
Period size: 459 Copynumber: 3.7 Consensus size: 462
785973 ATTAATGTGT
* * * * *
785983 AACTCAAACGACCACCAA-TTGTTTAAAGGAAAAGGACGAGTTTGGAATATATGAATAGTCGAGT
1 AACTCAGACGACCATCAATTTTTTTAAAGGAAAAGGACGAGTTTGAAATATATGAATAGTTGAGT
* * *
786047 GGTTTTATAAC-TTTAATAGTA-AGGGAACTCAACAAAATAAAGTCATATAGTCGGGGACCATTT
66 GATTTTATAACTTTTAATAGTAGAGAG-ACTCAACAAAATAAAGCCATATAGTCGGGGACCATTT
* * *
786110 GTGTA-TTATAACCAATCTTATTTTGATTCAAAATATCATGTTATAAAATCATTGTATGATATAT
130 GTGTACTT-TAACCAATATTATTTTGATTCAAAATATCATATTATAAAATTATTGTATGATATAT
* * *
786174 GATTCACAA-ATAATCAAAGATCGTTATTTTCAAACATGGATTTTCCTTAAACA---C-T-TATG
194 GATTCACAACTTAATCAAAGATCGTTATTTTCAAAAAAGGATTTTCCTTAAACACTTCGTATATG
* * * *
786233 TGAAAATCGAGAAAAATAGAACCTTATTGGTGTTCAATTATAGGGAGAGAGGTTTAGTGGTGTTT
259 TGAAAATCGAAAAAAATAGAACATTATTGGTGTTCAATTATAGGGGGAGAGGTTTAATGGTGTTT
* * *
786298 GATGACAATTCATCAT-TTTTAATTTATAAGACACCATCAATCAACATTCTCATGTTTACCTCTA
324 GATGACAATTCATC-TCTTTTAATTTATAGGACGCCATCAATCAACGTTCTCATGTTT--CTCTA
* * *
786362 ATGATTTTCTGGTCAAATTAGGAGTGAACTGTCTAACTTAGATTATTAAATATATCCCAGATAAT
386 ATGATTTTCTGGTCAAATTAGGAGTGAACTGTCCAACTTAGATTATTAAATATATCCCACACAAT
* *
786427 AGATTAACGTCT
451 ATATTAACGTCC
* * * * *
786439 AACTCAGTCGACCGTCAATTTTTTTAAAAGGAAAATGACAAGTTTGAAATATTTGAATAGTTGAG
1 AACTCAGACGACCATCAATTTTTTT-AAAGGAAAAGGACGAGTTTGAAATATATGAATAGTTGAG
* * * * *
786504 TGATTTTGTAACTTTTAATAGTAGGGAGACACAACAAAATGAAGCCATATAATCGGGGACCATTT
65 TGATTTTATAACTTTTAATAGTAGAGAGACTCAACAAAATAAAGCCATATAGTCGGGGACCATTT
* *
786569 GTGTACTTTAGCCAATCTTATTTTGATTCAAAATATCATATTATAAAATTATTGTATG-TCATAT
130 GTGTACTTTAACCAATATTATTTTGATTCAAAATATCATATTATAAAATTATTGTATGAT-ATAT
* * * * * * * *
786633 GATTCACAACTTAATCAAAGGTCGATGTTTCCAAACAAGGATTTTTCGTTAAACACATCATATAT
194 GATTCACAACTTAATCAAAGATCGTTATTTTCAAAAAAGGA-TTTTCCTTAAACACTTCGTATAT
* * *
786698 GTGAAAATCGAGAAAAACAGAACTTTATTGGTGTTCAATTATA-GGGGA-AGGTTTAATGGTGTT
258 GTGAAAATCGAAAAAAATAGAACATTATTGGTGTTCAATTATAGGGGGAGAGGTTTAATGGTGTT
* * *
786761 TGATGACAATTCATATCTTTTAATTTATAGGACGCCACCAATC-ACGTTCTCGTGTTTACCTCTA
323 TGATGACAATTCATCTCTTTTAATTTATAGGACGCCATCAATCAACGTTCTCATGTTT--CTCTA
* *
786825 ATGATTTTCTGGTTAAATTAGGAGTGAACTGTCCAACTTAGATTATTAAATATATCCCACACAAC
386 ATGATTTTCTGGTCAAATTAGGAGTGAACTGTCCAACTTAGATTATTAAATATATCCCACACAAT
786890 ATATTAACGTCC
451 ATATTAACGTCC
* * * * * *
786902 AACTCTGACGACCATCAATTTTTTTAAAAGAAAAAGACGAATTTAAAATATATGAACAGTTGAGT
1 AACTCAGACGACCATCAATTTTTTTAAAGGAAAAGGACGAGTTTGAAATATATGAATAGTTGAGT
*
786967 -ATTTTATAACTTTTAATAGTAGAG-GACTCAACAAAATAAAGCCATATAGTCAGGGGATCATTT
66 GATTTTATAACTTTTAATAGTAGAGAGACTCAACAAAATAAAGCCATATAGTC-GGGGACCATTT
** * *
787030 GCATACTTTAACCAATATTATTTTGATTCAAAATATCATGTTATAAAATTATTTTATGATATATG
130 GTGTACTTTAACCAATATTATTTTGATTCAAAATATCATATTATAAAATTATTGTATGATATATG
*
787095 ATTCACAATTTAATCAAAGATCGTTATTTTCAAAAAAGGATTTTCCTTAAACACTTCGTATATGT
195 ATTCACAACTTAATCAAAGATCGTTATTTTCAAAAAAGGATTTTCCTTAAACACTTCGTATATGT
* *
787160 GAAAATCAAGAAAAAAATAGAACATTATTGGTGTTCAATTATAGGGGGAGATG-TTAATTGT-TT
260 GAAAATC--GAAAAAAATAGAACATTATTGGTGTTCAATTATAGGGGGAGAGGTTTAATGGTGTT
* *
787223 TGATGACAATTCATCTCTCTTAAATTATAGGACGCCATCAATCAACGTTCTCATG-TT-TCTAAT
323 TGATGACAATTCATCTCTTTTAATTTATAGGACGCCATCAATCAACGTTCTCATGTTTCTCTAAT
* * * * *
787286 GTTTTTCAGGTCAAATTAGGAGTGAACTGTCCAACTTAGGTTATTAAATTTATCACACACAATAT
388 GATTTTCTGGTCAAATTAGGAGTGAACTGTCCAACTTAGATTATTAAATATATCCCACACAATAT
*
787351 ATTAACCTCC
453 ATTAACGTCC
* * *
787361 AACTCAGACGATCTTCAATTTTTTTAAAGGAAAAGGACGAGTTTGAAATATATAAATAGTTGAGT
1 AACTCAGACGACCATCAATTTTTTTAAAGGAAAAGGACGAGTTTGAAATATATGAATAGTTGAGT
* *
787426 GATTTTATAACTTTTAATAGTAGAGAAACTCAACAAAATAAAGACATATAGTCGGGGGACCATTT
66 GATTTTATAACTTTTAATAGTAGAGAGACTCAACAAAATAAAGCCATATAGTC-GGGGACCATTT
* *
787491 GTGTACTTTAGCCAATATTATTTTGATTCAAAAATATCATATTATAAAATTTTTGTATGATATAT
130 GTGTACTTTAACCAATATTATTTTGATTC-AAAATATCATATTATAAAATTATTGTATGATATAT
* *
787556 GATTCACGACTTAATCAAAGATGGTTATTTTCAAAAAAGGATTTTCCTTAAACACTTCGTATATG
194 GATTCACAACTTAATCAAAGATCGTTATTTTCAAAAAAGGATTTTCCTTAAACACTTCGTATATG
787621 TGAAAATCGATAAAAAATAATAGAA-ATTTATTGGTGTTCAATTATAGGGGGAGAGGTTTAAT
259 TGAAAATCG---AAAAA-AATAGAACA-TTATTGGTGTTCAATTATAGGGGGAGAGGTTTAAT
787683 TAGGGGTGTT
Statistics
Matches: 1097, Mismatches: 117, Indels: 51
0.87 0.09 0.04
Matches are distributed among these distances:
456 14 0.01
457 5 0.00
458 45 0.04
459 237 0.22
460 107 0.10
461 196 0.18
462 210 0.19
463 140 0.13
464 89 0.08
465 10 0.01
466 44 0.04
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (462 bp):
AACTCAGACGACCATCAATTTTTTTAAAGGAAAAGGACGAGTTTGAAATATATGAATAGTTGAGT
GATTTTATAACTTTTAATAGTAGAGAGACTCAACAAAATAAAGCCATATAGTCGGGGACCATTTG
TGTACTTTAACCAATATTATTTTGATTCAAAATATCATATTATAAAATTATTGTATGATATATGA
TTCACAACTTAATCAAAGATCGTTATTTTCAAAAAAGGATTTTCCTTAAACACTTCGTATATGTG
AAAATCGAAAAAAATAGAACATTATTGGTGTTCAATTATAGGGGGAGAGGTTTAATGGTGTTTGA
TGACAATTCATCTCTTTTAATTTATAGGACGCCATCAATCAACGTTCTCATGTTTCTCTAATGAT
TTTCTGGTCAAATTAGGAGTGAACTGTCCAACTTAGATTATTAAATATATCCCACACAATATATT
AACGTCC
Found at i:791152 original size:35 final size:34
Alignment explanation
Indices: 791093--791163 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 34
791083 TGGCACGTAA
791093 ATTGGATCGTTCTTATTATTACTCCCGATGGCTTG
1 ATTGGATCGTTCTTATTA-TACTCCCGATGGCTTG
791128 ATTGGATCGATTTCTTATTA-ACTCCCGATGGCTTG
1 ATTGGATCG--TTCTTATTATACTCCCGATGGCTTG
791163 A
1 A
791164 AGATTTCCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 25 0.74
37 9 0.26
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (34 bp):
ATTGGATCGTTCTTATTATACTCCCGATGGCTTG
Found at i:795030 original size:468 final size:466
Alignment explanation
Indices: 794031--795460 Score: 2020
Period size: 468 Copynumber: 3.1 Consensus size: 466
794021 TCCAAAAAAA
*
794031 TATAAGGAGAGAGGTTTAATGGTGTTTGATGA-AAGTTCATCTCTTTTAATTTATAGGACGCCAT
1 TATAGGGAGAGAGGTTTAATGGTGTTTGATGACAA-TTCATCTCTTTTAATTTATAGGACGCCAT
* *
794095 CAAT-AAGCTTTCTCATGTTTGCCTCTAATGATTTTCCGGTCAAATTA-GATGTGAACTGTCTAA
65 CAATCAA-CTTTCTCATGTTTACCTCTAATGATTTTCCGGTCAAATTAGGA-GTGAACTGTCCAA
* ** * * * *
794158 CTTAGATTATTAAATACATCACAAAAAACATATTATCGTCCAACTCAGATGACTGTCAATTTTTT
128 CTTAGATTATTAAATATATTTCAGAAAACAGATTAACGTCCAACTCAGATGACTGTCAAATTTTT
* * *
794223 TAAAGTAAAATGACGAGTTTGGAACATATGAATAATCGAGTGATCATTTTATAACTTTTAGTAGT
193 AAAAG-AAAATGACGAGTTTGGAACATATGAATAGTCGAGTGATCATTTTGTAACTTTTAGTAGT
* *
794288 -GGGATGACT-AAATAAAATAAAACCATATAGTCGGGGAACCATTTGTGTATTTTAACCAATCTT
257 AGGG--GACTCAAA-AAAATAAAACC-TATAGTCGGGGGACCATTTGTGTACTTTAACCAATCTT
* * * *
794351 ATTTTAATTTAAAATATCATATTATAAATTTATTGTATGATATATGATTCACAACTTAATCAAAG
318 ATTTTGATTCAAAATATCATATTATAAA-ATATTGTATGATATACGATTCACAACTTAATCAAAG
* * *
794416 ATCGTT-TTTTCAATCAAGGA-TTT-TTT-AACACTTCATATATGTGAAAATTGAGGAAAAAATA
382 ATGGTTATTTTCAAACAAGGATTTTCTTTAAACACTTCATATATGTGAAAATTGAGAAAAAAATA
794477 AAACTTTATTGATGTTCAAT
447 AAACTTTATTGATGTTCAAT
*
794497 TATAGGGAGAGAGGTTTAATGGTGTTTGATGACAATTCATATCTTTTAATTTATAGGACGCCATC
1 TATAGGGAGAGAGGTTTAATGGTGTTTGATGACAATTCATCTCTTTTAATTTATAGGACGCCATC
* *
794562 AATCAACTTTCTCATGTTTACCTCTAATGATTTTCCGGTCAAATTAGGAGTGAATTATCCAACTT
66 AATCAACTTTCTCATGTTTACCTCTAATGATTTTCCGGTCAAATTAGGAGTGAACTGTCCAACTT
*
794627 AGATTATTAAATATATTTCAGAAAACAGATTAACGTTCAACTCAGATGACTGTCAAATTTTTAAA
131 AGATTATTAAATATATTTCAGAAAACAGATTAACGTCCAACTCAGATGACTGTCAAATTTTTAAA
* * *
794692 AGAAAATTACGAATTTGGAACATATGAATAGTTGAGTGATCATTTTGTAACTTTTAGTAGTAGGG
196 AGAAAATGACGAGTTTGGAACATATGAATAGTCGAGTGATCATTTTGTAACTTTTAGTAGTAGGG
* *
794757 GACTCAAAAAAATAAAACC-AGAGTCGGGGGACCATTTGTGTACTTTAGCCAATCTTATTTTGAT
261 GACTCAAAAAAATAAAACCTATAGTCGGGGGACCATTTGTGTACTTTAACCAATCTTATTTTGAT
** * *
794821 TCAAAATATCATAAAATAAAATAAT-TATGATATACAATTCACAACTTAATCAAAGATGGTTATT
326 TCAAAATATCATATTATAAAATATTGTATGATATACGATTCACAACTTAATCAAAGATGGTTATT
*
794885 TTCAAAGAAGGATTTTCTTTAAACACTTCATATATGTGAAAATTGAGAAAAAAAAACATAAAACT
391 TTCAAACAAGGATTTTCTTTAAACACTTCATATATGTGAAAATTGAG---AAAAAA-ATAAAACT
794950 TTATTGATGTTCAAT
452 TTATTGATGTTCAAT
* *
794965 TATAGGGAGAGAGGTTTAATGGTGTTTGATGACAATTCATCTCTTTTAATTTGTAGGATGCCATC
1 TATAGGGAGAGAGGTTTAATGGTGTTTGATGACAATTCATCTCTTTTAATTTATAGGACGCCATC
* * *
795030 AATCAACGTTCTCATGTTTACCTTTAATGATTTTTCGGTCAAATTAGGAGTGAACTGTCCAACTT
66 AATCAACTTTCTCATGTTTACCTCTAATGATTTTCCGGTCAAATTAGGAGTGAACTGTCCAACTT
* * * *
795095 AGATTATTAAATATGTTTCAGACAATAGATTAACGTCCAACTCAGACGACTGT-AAATTTTTTAA
131 AGATTATTAAATATATTTCAGAAAACAGATTAACGTCCAACTCAGATGACTGTCAAA-TTTTTAA
* ** * *
795159 AAGGAAAATGACGAGTTTGGAACATATAAATAGTCGAACGATCATTTTTGTTACTTTTAATAGTA
195 AA-GAAAATGACGAGTTTGGAACATATGAATAGTCGAGTGATCA-TTTTGTAACTTTTAGTAGT-
** * * * * * * * *
795224 ATAGAACTCAACAAAATAAAGCCCTATAGTCAGAGGATCATTTGTTTACTTCAACCAATCTTATT
257 AGGGGACTCAAAAAAATAAA-ACCTATAGTCGGGGGACCATTTGTGTACTTTAACCAATCTTATT
795289 TTGATTCAAAATATCATATTATAAAATTATTGTATGATATACGATTCACAACTTAATCAAAGATG
321 TTGATTCAAAATATCATATTATAAAA-TATTGTATGATATACGATTCACAACTTAATCAAAGATG
* * *
795354 GTTATTTTCAAACAAGAATTTTCTTTAAACACTTCACATATGTGAAAATTGAGGAAAAAAATTAA
385 GTTATTTTCAAACAAGGATTTTCTTTAAACACTTCATATATGTGAAAATTGA-GAAAAAAATAAA
795419 ACTTTATTGATGTTCAAT
449 ACTTTATTGATGTTCAAT
*
795437 TACAGGGAGAGAGGTTTAATGGTG
1 TATAGGGAGAGAGGTTTAATGGTG
795461 CAACAAATCG
Statistics
Matches: 864, Mismatches: 78, Indels: 38
0.88 0.08 0.04
Matches are distributed among these distances:
460 33 0.04
461 15 0.02
462 60 0.07
463 3 0.00
464 41 0.05
465 57 0.07
466 176 0.20
467 14 0.02
468 202 0.23
469 35 0.04
470 17 0.02
471 16 0.02
472 47 0.05
473 63 0.07
474 3 0.00
475 81 0.09
476 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (466 bp):
TATAGGGAGAGAGGTTTAATGGTGTTTGATGACAATTCATCTCTTTTAATTTATAGGACGCCATC
AATCAACTTTCTCATGTTTACCTCTAATGATTTTCCGGTCAAATTAGGAGTGAACTGTCCAACTT
AGATTATTAAATATATTTCAGAAAACAGATTAACGTCCAACTCAGATGACTGTCAAATTTTTAAA
AGAAAATGACGAGTTTGGAACATATGAATAGTCGAGTGATCATTTTGTAACTTTTAGTAGTAGGG
GACTCAAAAAAATAAAACCTATAGTCGGGGGACCATTTGTGTACTTTAACCAATCTTATTTTGAT
TCAAAATATCATATTATAAAATATTGTATGATATACGATTCACAACTTAATCAAAGATGGTTATT
TTCAAACAAGGATTTTCTTTAAACACTTCATATATGTGAAAATTGAGAAAAAAATAAAACTTTAT
TGATGTTCAAT
Found at i:800283 original size:19 final size:18
Alignment explanation
Indices: 800268--800306 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
800258 TTTATTATTG
800268 TTTTTATTTTAAATTAGA
1 TTTTTATTTTAAATTAGA
*
800286 TTTTTATTTTAAGTTAG-
1 TTTTTATTTTAAATTAGA
800303 TTTT
1 TTTT
800307 AGGCAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TTTTTATTTTAAATTAGA
Found at i:800745 original size:10 final size:10
Alignment explanation
Indices: 800730--800767 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
800720 GTTTAAAAGC
800730 TCATATAGGA
1 TCATATAGGA
800740 TCATATA-GA
1 TCATATAGGA
*
800749 TGCATTTAGGA
1 T-CATATAGGA
800760 TCATATAG
1 TCATATAG
800768 TTGTATGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 3 0.12
10 18 0.75
11 3 0.12
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (10 bp):
TCATATAGGA
Found at i:820785 original size:14 final size:15
Alignment explanation
Indices: 820766--820797 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
820756 GATATTTTTG
820766 CACACCCTTA-CCTA
1 CACACCCTTACCCTA
820780 CACACCCTTACCCTA
1 CACACCCTTACCCTA
820795 CAC
1 CAC
820798 GCCAATAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.28, C:0.53, G:0.00, T:0.19
Consensus pattern (15 bp):
CACACCCTTACCCTA
Found at i:822730 original size:96 final size:95
Alignment explanation
Indices: 822628--822824 Score: 227
Period size: 95 Copynumber: 2.1 Consensus size: 95
822618 CCGTTGAGGC
* * ** * *
822628 AGTATCGATACCCTTATAACGGTATTGATATCAAGCAAACATCGAATCTAATTTTTGTATCGATA
1 AGTATCGATACCATGATAACGGTATCAATA-CAAGCAAACATCGAACCTAATTTTGGTATCGATA
* *
822693 CCGTA-AGGAAGTATCCG-TACCATAGTATAGT
65 CC-CAGAGGAAGTAT-CGATACCATAGTATAGA
* * * *
822724 AGTATCGATACCATGGTAAGGGTATCAATACCAGGAAACATCGAACCTAATTTTGGTATCGATAC
1 AGTATCGATACCATGATAACGGTATCAATACAAGCAAACATCGAACCTAATTTTGGTATCGATAC
* *
822789 CCAGAGGAAGTATCGATTCCATAGTATTGA
66 CCAGAGGAAGTATCGATACCATAGTATAGA
822819 AGTATC
1 AGTATC
822825 AGTACCAGGG
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
94 3 0.04
95 58 0.68
96 24 0.28
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (95 bp):
AGTATCGATACCATGATAACGGTATCAATACAAGCAAACATCGAACCTAATTTTGGTATCGATAC
CCAGAGGAAGTATCGATACCATAGTATAGA
Found at i:822786 original size:95 final size:95
Alignment explanation
Indices: 822664--822849 Score: 236
Period size: 95 Copynumber: 2.0 Consensus size: 95
822654 GATATCAAGC
* * * *
822664 AAACATCGAATCTAATTTTTGTATCGATACCGTA-AGGAAGTATCCG-TACCATAGTATAGTAGT
1 AAACATCGAACCTAATTTTGGTATCGATACC-CAGAGGAAGTAT-CGATACCATAGTATAGAAGT
* *
822727 ATC-GATACCATGGTAAG-GGTATCAATACCAGG
64 ATCAG-TACCAGGGT-AGTAGTATCAATACCAGG
* *
822759 AAACATCGAACCTAATTTTGGTATCGATACCCAGAGGAAGTATCGATTCCATAGTATTGAAGTAT
1 AAACATCGAACCTAATTTTGGTATCGATACCCAGAGGAAGTATCGATACCATAGTATAGAAGTAT
822824 CAGTACCAGGGTAGTAGTATCAATAC
66 CAGTACCAGGGTAGTAGTATCAATAC
822850 TATTGAGCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
94 5 0.06
95 73 0.92
96 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (95 bp):
AAACATCGAACCTAATTTTGGTATCGATACCCAGAGGAAGTATCGATACCATAGTATAGAAGTAT
CAGTACCAGGGTAGTAGTATCAATACCAGG
Found at i:823324 original size:45 final size:44
Alignment explanation
Indices: 823260--823595 Score: 377
Period size: 45 Copynumber: 7.5 Consensus size: 44
823250 TGAAAATAAT
* ** * *
823260 AATGCATATGGGTGAATTATTGGTACGAAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATTAATA-GAAAGTATGCTATAGTTGA
* *
823305 AATGCATATGGGTGCATTATCAACAGAAGAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATTAATAGAA-AGTATGCTATAGTTGA
* * *
823350 AATGCATATAGGTGCATTATCAATATAAGAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATTAATAGAA-AGTATGCTATAGTTGA
* * *
823395 AATGCATATGGCTGCATTA-TAAAAAAAAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATTAATAGAAAGTATGCTATAGTTGA
* * * * * * *
823438 AATGCTTAAGGGTGCATTATCAACTAAAAAATATGATATAGATGA
1 AATGCATATGGGTGCATTATTAA-TAGAAAGTATGCTATAGTTGA
* * *
823483 AATGCATATGGGTGCATTATCAAGACAAGAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATTAATAGAA-AGTATGCTATAGTTGA
* * *
823528 AATGCATATGGGTGCATTATCAATAGAAAAATATGTTATAGTTGA
1 AATGCATATGGGTGCATTATTAATAG-AAAGTATGCTATAGTTGA
823573 AATGCATATGGGTGCATTATTAA
1 AATGCATATGGGTGCATTATTAA
823596 CATATAAGTA
Statistics
Matches: 251, Mismatches: 35, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
43 32 0.13
44 13 0.05
45 204 0.81
46 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATTAATAGAAAGTATGCTATAGTTGA
Found at i:823484 original size:133 final size:136
Alignment explanation
Indices: 823287--823612 Score: 455
Period size: 133 Copynumber: 2.4 Consensus size: 136
823277 TATTGGTACG
* * * * * *
823287 AAAGGATGCCATAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAGTATGCTATAGTTGAAA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGATATAGATGAAA
* *
823352 TGCATATAGGTGCATTATCAATATAAGAGTATGCTATAGTTGAAATGCATATGGCTGCATTAT-A
66 TGCATATAGGTGCATTATCAAGACAAGAGTATGCTATAGTTGAAATGCATATGGCTGCATTATCA
823416 A-A-AA
131 ATAGAA
* *
823420 AAAGTATGCTATAGTTGAAATGCTTAAGGGTGCATTATCAACTA-AAAAATATGATATAGATGAA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAAC-AGAAAAATATGATATAGATGAA
* *
823484 ATGCATATGGGTGCATTATCAAGACAAGAGTATGCTATAGTTGAAATGCATATGGGTGCATTATC
65 ATGCATATAGGTGCATTATCAAGACAAGAGTATGCTATAGTTGAAATGCATATGGCTGCATTATC
823549 AATAGAA
130 AATAGAA
* * * * *
823556 AAA-TATGTTATAGTTGAAATGCATATGGGTGCATTATTAACATATAAGTATGATATA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGATATA
823613 TTGGAAAAAT
Statistics
Matches: 170, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
133 114 0.67
134 4 0.02
135 47 0.28
136 5 0.03
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (136 bp):
AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGATATAGATGAAA
TGCATATAGGTGCATTATCAAGACAAGAGTATGCTATAGTTGAAATGCATATGGCTGCATTATCA
ATAGAA
Found at i:823607 original size:90 final size:89
Alignment explanation
Indices: 823297--823597 Score: 435
Period size: 90 Copynumber: 3.4 Consensus size: 89
823287 AAAGGATGCC
* *
823297 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAGTATGCTATAGTTGAAATGCATATAGG
1 ATAGTTGAAATGCATATGGGTGCATTATCAACAAAAGAGTATGCTATAGTTGAAATGCATATGGG
* * *
823362 TGCATTATCAATATAAGAGTATGCT
66 TGCATTATCAATA-AAAAATATGAT
* * * *
823387 ATAGTTGAAATGCATATGGCTGCATTAT-AA-AAAAAAGTATGCTATAGTTGAAATGCTTAAGGG
1 ATAGTTGAAATGCATATGGGTGCATTATCAACAAAAGAGTATGCTATAGTTGAAATGCATATGGG
823450 TGCATTATCAACTAAAAAATATGAT
66 TGCATTATCAA-TAAAAAATATGAT
* * *
823475 ATAGATGAAATGCATATGGGTGCATTATCAAGACAAGAGTATGCTATAGTTGAAATGCATATGGG
1 ATAGTTGAAATGCATATGGGTGCATTATCAACAAAAGAGTATGCTATAGTTGAAATGCATATGGG
*
823540 TGCATTATCAATAGAAAAATATGTT
66 TGCATTATCAATA-AAAAATATGAT
*
823565 ATAGTTGAAATGCATATGGGTGCATTATTAACA
1 ATAGTTGAAATGCATATGGGTGCATTATCAACA
823598 TATAAGTATG
Statistics
Matches: 188, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
88 73 0.39
89 8 0.04
90 107 0.57
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (89 bp):
ATAGTTGAAATGCATATGGGTGCATTATCAACAAAAGAGTATGCTATAGTTGAAATGCATATGGG
TGCATTATCAATAAAAAATATGAT
Found at i:830096 original size:90 final size:90
Alignment explanation
Indices: 829942--830330 Score: 487
Period size: 90 Copynumber: 4.3 Consensus size: 90
829932 TGAAAATAAT
*** * * * *
829942 AATGCATATGGGTGCATTATTGGCATGAA-AGGATGCCATAGTTGAAATGCATATGGATGTATTA
1 AATGCATATGGGTGCATTATCAACA-GAAGAGTATGCTATAGTTGAAATGCATATGGTTGCATTA
* *
830006 TCAAGAGAAGAGTATGCTATAGTTGA
65 TCAACAGAAAAGTATGCTATAGTTGA
*
830032 AATGCATATGGGTGCATTATCAACAGAAGAGTATGCTATAGTTGAAATGCACATGGTTGCATTAT
1 AATGCATATGGGTGCATTATCAACAGAAGAGTATGCTATAGTTGAAATGCATATGGTTGCATTAT
* *
830097 CAACATAAGAGTATGCTATAGTTGA
66 CAACAGAAAAGTATGCTATAGTTGA
* * * * *
830122 AATGCATAGGGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATTCATAAGGGTGAATCA
1 AATGCATA-TGGGTGCATTATCAACAGAAGAGTATGCTATAGTTGAAATGCATATGGTTG---CA
*
830187 TTATCAACAGAAAAGTATGCTATTGTTGA
62 TTATCAACAGAAAAGTATGCTATAGTTGA
* *
830216 AATGCATATGGGTGTATTATCAACAGAAGAGTATGCTATAATTGAAATGCATATGAGTGTG--TT
1 AATGCATATGGGTGCATTATCAACAGAAGAGTATGCTATAGTTGAAATGCATATG-GT-TGCATT
* *
830279 ATCAACATAAAAGTATGTTATAGTTGA
64 ATCAACAGAAAAGTATGCTATAGTTGA
*
830306 AATGCATATGGGTTCATTATCAACA
1 AATGCATATGGGTGCATTATCAACA
830331 TAAAAATATG
Statistics
Matches: 261, Mismatches: 31, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
89 3 0.01
90 133 0.51
91 45 0.17
93 41 0.16
94 37 0.14
95 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (90 bp):
AATGCATATGGGTGCATTATCAACAGAAGAGTATGCTATAGTTGAAATGCATATGGTTGCATTAT
CAACAGAAAAGTATGCTATAGTTGA
Found at i:830263 original size:184 final size:180
Alignment explanation
Indices: 829942--830345 Score: 526
Period size: 184 Copynumber: 2.2 Consensus size: 180
829932 TGAAAATAAT
* *** * * *
829942 AATGCATATGGGTGCATTATTGGCATG-AAAGGATGCCATAGTTGAAATGCATATGGATGTATTA
1 AATGCATAGGGGTGCATTATCAACA-GAAAAGTATGCTATAGTTGAAATGCATAAGGATGTATTA
* *
830006 TCAAGAGAAGAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAGTATGCTAT
65 TCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAGTATGCTAT
* *
830071 AGTTGAAATGCACATG-GT-TGCATTATCAACATAAGAGTATGCTATAGTTGA
130 AATTGAAATGCACATGAGTGTG--TTATCAACATAAAAGTATGCTATAGTTGA
* *
830122 AATGCATAGGGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATTCATAAGGGTGAATCA
1 AATGCATA-GGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATAAGGATG--T-A
* *
830187 TTATCAACAGAAAAGTATGCTATTGTTGAAATGCATATGGGTGTATTATCAACAGAAGAGTATGC
62 TTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAGTATGC
* *
830252 TATAATTGAAATGCATATGAGTGTGTTATCAACATAAAAGTATGTTATAGTTGA
127 TATAATTGAAATGCACATGAGTGTGTTATCAACATAAAAGTATGCTATAGTTGA
* * * * *
830306 AATGCATATGGGTTCATTATCAACATAAAAATATGATATA
1 AATGCATAGGGGTGCATTATCAACAGAAAAGTATGCTATA
830346 TTGGAAAAAT
Statistics
Matches: 195, Mismatches: 22, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
180 9 0.05
181 40 0.21
183 28 0.14
184 114 0.58
185 2 0.01
186 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (180 bp):
AATGCATAGGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATAAGGATGTATTAT
CAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAGTATGCTATA
ATTGAAATGCACATGAGTGTGTTATCAACATAAAAGTATGCTATAGTTGA
Found at i:830333 original size:45 final size:45
Alignment explanation
Indices: 829942--830345 Score: 440
Period size: 45 Copynumber: 8.9 Consensus size: 45
829932 TGAAAATAAT
* *** * *
829942 AATGCATATGGGTGCATTATTGGCATG-AAAGGATGCCATAGTTGA
1 AATGCATATGGGTTCATTATCAACA-GAAAAGTATGCTATAGTTGA
* * *
829987 AATGCATATGGATGT-ATTATCAAGAGAAGAGTATGCTATAGTTGA
1 AATGCATATGGGT-TCATTATCAACAGAAAAGTATGCTATAGTTGA
* *
830032 AATGCATATGGGTGCATTATCAACAGAAGAGTATGCTATAGTTGA
1 AATGCATATGGGTTCATTATCAACAGAAAAGTATGCTATAGTTGA
* * *
830077 AATGCACAT-GGTTGCATTATCAACATAAGAGTATGCTATAGTTGA
1 AATGCATATGGGTT-CATTATCAACAGAAAAGTATGCTATAGTTGA
* *
830122 AATGCATAGGGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGA
1 AATGCATA-TGGGTTCATTATCAACAGAAAAGTATGCTATAGTTGA
* * *
830168 AATTCATAAGGGTGAATCATTATCAACAGAAAAGTATGCTATTGTTGA
1 AATGCATATGGGT---TCATTATCAACAGAAAAGTATGCTATAGTTGA
* *
830216 AATGCATATGGGTGT-ATTATCAACAGAAGAGTATGCTATAATTGA
1 AATGCATATGGGT-TCATTATCAACAGAAAAGTATGCTATAGTTGA
* * * *
830261 AATGCATATGAGTGT-GTTATCAACATAAAAGTATGTTATAGTTGA
1 AATGCATATGGGT-TCATTATCAACAGAAAAGTATGCTATAGTTGA
* * *
830306 AATGCATATGGGTTCATTATCAACATAAAAATATGATATA
1 AATGCATATGGGTTCATTATCAACAGAAAAGTATGCTATA
830346 TTGGAAAAAT
Statistics
Matches: 309, Mismatches: 40, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
44 5 0.02
45 223 0.72
46 37 0.12
47 3 0.01
48 41 0.13
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (45 bp):
AATGCATATGGGTTCATTATCAACAGAAAAGTATGCTATAGTTGA
Found at i:831942 original size:120 final size:120
Alignment explanation
Indices: 831729--831972 Score: 488
Period size: 120 Copynumber: 2.0 Consensus size: 120
831719 AGATATTGAA
831729 AGAGCTTAGGAGGAAACATTAACGGCGAAGCAGAGTGTTCAAGCGGGGAAAAGAGTGGGAATACC
1 AGAGCTTAGGAGGAAACATTAACGGCGAAGCAGAGTGTTCAAGCGGGGAAAAGAGTGGGAATACC
831794 TTCCACTCCCTATCGTGCTAAAAGAGGCAAAGGCTCGAGTTTTAGATTCTCTGAG
66 TTCCACTCCCTATCGTGCTAAAAGAGGCAAAGGCTCGAGTTTTAGATTCTCTGAG
831849 AGAGCTTAGGAGGAAACATTAACGGCGAAGCAGAGTGTTCAAGCGGGGAAAAGAGTGGGAATACC
1 AGAGCTTAGGAGGAAACATTAACGGCGAAGCAGAGTGTTCAAGCGGGGAAAAGAGTGGGAATACC
831914 TTCCACTCCCTATCGTGCTAAAAGAGGCAAAGGCTCGAGTTTTAGATTCTCTGAG
66 TTCCACTCCCTATCGTGCTAAAAGAGGCAAAGGCTCGAGTTTTAGATTCTCTGAG
831969 AGAG
1 AGAG
831973 ATAGTTTTGC
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 124 1.00
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (120 bp):
AGAGCTTAGGAGGAAACATTAACGGCGAAGCAGAGTGTTCAAGCGGGGAAAAGAGTGGGAATACC
TTCCACTCCCTATCGTGCTAAAAGAGGCAAAGGCTCGAGTTTTAGATTCTCTGAG
Found at i:837093 original size:45 final size:44
Alignment explanation
Indices: 837029--837415 Score: 483
Period size: 45 Copynumber: 8.6 Consensus size: 44
837019 TGAAAATAAT
** * *
837029 AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-GAAAGTATGCTATAGTTGA
837074 AATGCATATGGGTGCATTATCAACA-AAAGAATATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAG--TATGCTATAGTTGA
* * *
837119 AATTCATATGGGTGCATTATCAACATAAAAGTATGCTATATTTGA
1 AATGCATATGGGTGCATTATCAACA-GAAAGTATGCTATAGTTGA
**
837164 AATGCATATGGGTGCATTATCAACAGAAAAGTATTTTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAG-AAAGTATGCTATAGTTGA
* *
837209 AATGCATAAGGGTGCATTATCAACAGGAAAGTATGCTATAGTTGG
1 AATGCATATGGGTGCATTATCAACA-GAAAGTATGCTATAGTTGA
*
837254 AATGCATATGGGTGCATTATCAACAGAAGAATATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAA-AGTATGCTATAGTTGA
* *
837299 AATGCATATGGGTGCATTATCAATAGAAAAGTATGTTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAG-AAAGTATGCTATAGTTGA
* *
837344 AATGCATATGGGTGCATTATCAACATAAAAGTATGATATA-TTGGAA
1 AATGCATATGGGTGCATTATCAACA-GAAAGTATGCTATAGTT-G-A
*
837390 ATATGCATAAT-GGTGCATTATAAACA
1 A-ATGCAT-ATGGGTGCATTATCAACA
837416 TAAGTGGAGG
Statistics
Matches: 304, Mismatches: 25, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
43 4 0.01
44 5 0.02
45 264 0.87
46 5 0.02
47 24 0.08
48 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATCAACAGAAAGTATGCTATAGTTGA
Found at i:856807 original size:20 final size:20
Alignment explanation
Indices: 856758--856815 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
856748 TATCGTAAGG
* * *
856758 GGGTATCGGTACCTTAGTAA
1 GGGTATCGATACCATGGTAA
*
856778 GGTAGTATCGTTACCATGGTAA
1 GG--GTATCGATACCATGGTAA
856800 GGGTATCGATACCATG
1 GGGTATCGATACCATG
856816 AAACATCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 15 0.47
22 17 0.53
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
GGGTATCGATACCATGGTAA
Found at i:856882 original size:96 final size:95
Alignment explanation
Indices: 856688--856866 Score: 211
Period size: 95 Copynumber: 1.9 Consensus size: 95
856678 GTTGAGGCAA
* * *
856688 TATCGATACCATGGTAAGGGTATCTACACCAAGCAAACATCAAATATAATTTTGTATCGATATCG
1 TATCGATACCATGGTAAGGGTATCGACACCAAGCAAACATCAAACATAATTTTGTATCAATATCG
* *
856753 TAAGGGGGTATCGGTACCTTAGTAAGGTAG
66 TAAGGGGGTATCAGTACCTTAGTAAGGAAG
* * * *
856783 TATCGTTACCATGGTAAGGGTATCGATACCATG-AAACATCAAACCTAATTTTTGGTATCAATA-
1 TATCGATACCATGGTAAGGGTATCGACACCAAGCAAACATCAAACATAA-TTTT-GTATCAATAT
*
856846 C-TAGGTTGGGGTATCAGTACC
64 CGTAAG--GGGGTATCAGTACC
856867 CTATTGTAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
94 16 0.23
95 34 0.48
96 21 0.30
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (95 bp):
TATCGATACCATGGTAAGGGTATCGACACCAAGCAAACATCAAACATAATTTTGTATCAATATCG
TAAGGGGGTATCAGTACCTTAGTAAGGAAG
Found at i:857210 original size:14 final size:15
Alignment explanation
Indices: 857191--857228 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
857181 AATGATTGGA
857191 AATTATTT-AATATG
1 AATTATTTAAATATG
*
857205 AATTATTTAAATATT
1 AATTATTTAAATATG
857220 AATGTATTT
1 AAT-TATTT
857229 TTACCGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (15 bp):
AATTATTTAAATATG
Found at i:857410 original size:45 final size:45
Alignment explanation
Indices: 857361--857664 Score: 367
Period size: 45 Copynumber: 6.8 Consensus size: 45
857351 GATGAAATAG
* * *
857361 TTGAAATCTATATGGGTACATTATCAACTGAAAAGCATACTATAA
1 TTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATAA
* *
857406 TTGAAATGTATATGGGTACATTATCAACAGAAAATTATGA-TATAG
1 TTGAAATGTATATGGGTACATTATCAACAGAAAAGTAT-ACTATAA
* * * * * * **
857451 TTGAAATGCATATGGATGCATTATCAACATAAAAGTATGCCATTG
1 TTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATAA
* * * * *
857496 TTGAAATGTATATGGGTACATTATCAACAAAAAAGCATGCTAGAG
1 TTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATAA
* *
857541 TCGAAATGTATATGGGTACATTATTAACAGAAAAGTATACTATAA
1 TTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATAA
* *
857586 TTGAAATGTATATGGGTACATTATCAATAGAAAAGTATATTATAA
1 TTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATAA
* * *
857631 TTGAAATGCATATGGGTGCATTATCAATAGAAAA
1 TTGAAATGTATATGGGTACATTATCAACAGAAAA
857665 ATATGTTATA
Statistics
Matches: 223, Mismatches: 34, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
45 222 1.00
46 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (45 bp):
TTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATAA
Found at i:859502 original size:21 final size:21
Alignment explanation
Indices: 859476--859548 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
859466 TTTTCTAGGT
859476 AGTATCGATACTGATTGGATC
1 AGTATCGATACTGATTGGATC
* *
859497 AGTATCGATAC-CATT-GAGGC
1 AGTATCGATACTGATTGGA-TC
859517 AGTATCGATACTGATTGGATC
1 AGTATCGATACTGATTGGATC
*
859538 AATATCGATAC
1 AGTATCGATAC
859549 CGTTGAGGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.05
20 15 0.34
21 25 0.57
22 2 0.05
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (21 bp):
AGTATCGATACTGATTGGATC
Found at i:859519 original size:20 final size:20
Alignment explanation
Indices: 859496--859571 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
859486 CTGATTGGAT
859496 CAGTATCGATACCATTGAGG
1 CAGTATCGATACCATTGAGG
* *
859516 CAGTATCGATACTGATTG-GAT
1 CAGTATCGATAC-CATTGAG-G
* *
859537 CAATATCGATACCGTTGAGG
1 CAGTATCGATACCATTGAGG
859557 CAGTATCGATACCAT
1 CAGTATCGATACCAT
859572 GGTAAGGGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (20 bp):
CAGTATCGATACCATTGAGG
Found at i:859521 original size:41 final size:41
Alignment explanation
Indices: 859476--859568 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
859466 TTTTCTAGGT
*
859476 AGTATCGATACTGATTGGATCAGTATCGATACCATTGAGGC
1 AGTATCGATACTGATTGGATCAATATCGATACCATTGAGGC
*
859517 AGTATCGATACTGATTGGATCAATATCGATACCGTTGAGGC
1 AGTATCGATACTGATTGGATCAATATCGATACCATTGAGGC
859558 AGTATCGATAC
1 AGTATCGATAC
859569 CATGGTAAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (41 bp):
AGTATCGATACTGATTGGATCAATATCGATACCATTGAGGC
Found at i:859679 original size:20 final size:20
Alignment explanation
Indices: 859625--859683 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 20
859615 TATCGATATC
*
859625 GTAAGGGGTATCGATACCTTA
1 GTAA-GGGTATCGATACCATA
*
859646 GTAAGGTAGTATCGATACCATG
1 GTAAGG--GTATCGATACCATA
859668 GTAAGGGTATCGATAC
1 GTAAGGGTATCGATAC
859684 AATGAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 12 0.35
21 4 0.12
22 18 0.53
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (20 bp):
GTAAGGGTATCGATACCATA
Found at i:859727 original size:95 final size:95
Alignment explanation
Indices: 859558--859731 Score: 264
Period size: 95 Copynumber: 1.8 Consensus size: 95
859548 CCGTTGAGGC
*
859558 AGTATCGATACCATGGTAAGGGTAACGATACCAAGCAAACATTGAATATAATTTTGGTATCGATA
1 AGTATCGATACCATGGTAAGGGTAACGATACCAAGCAAACATTGAACATAATTTTGGTATCGATA
*
859623 TCGTAAGGGGTATCGATACCTTAGTAAGGT
66 CCGTAAGGGGTATCGATACCTTAGTAAGGT
* *
859653 AGTATCGATACCATGGTAAGGGTATCGATA-CAATG-AAACATTGAACCTAATTTTGGTATCGAT
1 AGTATCGATACCATGGTAAGGGTAACGATACCAA-GCAAACATTGAACATAATTTTGGTATCGAT
859716 ACCAGGT-AGGGGTATC
65 ACC--GTAAGGGGTATC
859732 AGTACCCTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
94 31 0.43
95 39 0.54
96 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (95 bp):
AGTATCGATACCATGGTAAGGGTAACGATACCAAGCAAACATTGAACATAATTTTGGTATCGATA
CCGTAAGGGGTATCGATACCTTAGTAAGGT
Found at i:859752 original size:95 final size:95
Alignment explanation
Indices: 859558--859754 Score: 251
Period size: 95 Copynumber: 2.1 Consensus size: 95
859548 CCGTTGAGGC
*
859558 AGTATCGATACCATGGTAAGGGTAACGATACCAAGCAAACATTGAATATAATTTTGGTATCGATA
1 AGTATCGATACCATGGTAAGGGTAACGATACCAAGCAAACATTGAACATAATTTTGGTATCGATA
* * * *
859623 TCGTAAGGGGTATCGATACCTTAGTAAGGT
66 CCGTAAGGGGTATCGATACCCTAATAAGGA
* *
859653 AGTATCGATACCATGGTAAGGGTATCGATA-CAATG-AAACATTGAACCTAATTTTGGTATCGAT
1 AGTATCGATACCATGGTAAGGGTAACGATACCAA-GCAAACATTGAACATAATTTTGGTATCGAT
859716 ACCAGGT-AGGGGTATC-AGTACCCTAATATA-GA
65 ACC--GTAAGGGGTATCGA-TACCCTAATA-AGGA
859748 AGTATCG
1 AGTATCG
859755 GTACTAGGAT
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
94 32 0.36
95 55 0.61
96 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (95 bp):
AGTATCGATACCATGGTAAGGGTAACGATACCAAGCAAACATTGAACATAATTTTGGTATCGATA
CCGTAAGGGGTATCGATACCCTAATAAGGA
Found at i:860331 original size:135 final size:135
Alignment explanation
Indices: 860079--860392 Score: 459
Period size: 135 Copynumber: 2.3 Consensus size: 135
860069 ATTTAATATG
* * * *
860079 AAAGGATGCCATAGTTTAAATGCATATGGGTACATTATCAACTGAAAAACATACTATAATTGAAA
1 AAAGTATGCCATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAACATACTAGAATTGAAA
* *
860144 TATATATGGGTATATTATCAACAAAAAAATATGATATAGTTGAAAAGCATATGGGTGCATTATCA
66 TATATATGGGTACATTATCAACAAAAAAATATGATATAGTTGAAAAGCATATGGGTACATTATCA
860209 ACAGA
131 ACAGA
* * *
860214 AAAGTATGCCATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAACATGCTAGAGTTGAAA
1 AAAGTATGCCATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAACATACTAGAATTGAAA
* * * * *
860279 TGTATATGGGTACATTATCAACAGAAAAGTAT-ATTATAGTTGAAATGTATATGGGTACATTATC
66 TATATATGGGTACATTATCAACAAAAAAATATGA-TATAGTTGAAAAGCATATGGGTACATTATC
860343 AACAGA
130 AACAGA
* * *
860349 AAAGTATACCATAATTGAAATGCATATGGGTGCATTATCAACAG
1 AAAGTATGCCATAGTTGAAATGCATATGGGTACATTATCAACAG
860393 GAAAGTATGT
Statistics
Matches: 160, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
134 1 0.01
135 159 0.99
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.29
Consensus pattern (135 bp):
AAAGTATGCCATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAACATACTAGAATTGAAA
TATATATGGGTACATTATCAACAAAAAAATATGATATAGTTGAAAAGCATATGGGTACATTATCA
ACAGA
Found at i:860398 original size:45 final size:45
Alignment explanation
Indices: 860089--860409 Score: 383
Period size: 45 Copynumber: 7.1 Consensus size: 45
860079 AAAGGATGCC
* * * **
860089 ATAGTTTAAATGCATATGGGTACATTATCAACTGAAAAACATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * * *
860134 ATAATTGAAATATATATGGGTATATTATCAACAAAAAAATATGA-T
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTAT-ACT
* * * * *
860179 ATAGTTGAAAAGCATATGGGTGCATTATCAACAGAAAAGTATGCC
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
** *
860224 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAACATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
860269 AGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATATT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
*
860314 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACC
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * * **
860359 ATAATTGAAATGCATATGGGTGCATTATCAACAGGAAAGTATGTT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
860404 ATAGTT
1 ATAGTT
860410 TAAAGTTCAT
Statistics
Matches: 234, Mismatches: 40, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
45 233 1.00
46 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (45 bp):
ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:860580 original size:126 final size:126
Alignment explanation
Indices: 860355--860608 Score: 490
Period size: 126 Copynumber: 2.0 Consensus size: 126
860345 CAGAAAAGTA
*
860355 TACCATAATTGAAATGCATATGGGTGCATTATCAACAGGAAAGTATGTTATAGTTTAAAGTTCAT
1 TACCATAATTGAAATGCATATGGGTGCATTATCAACAGGAAAGTATGTTATAGTTTAAAGTGCAT
860420 AATGATGTATTGTAACATAAATAGAGGTTACAAATGAAAAGAAAGAATCATGACAAATGAT
66 AATGATGTATTGTAACATAAATAGAGGTTACAAATGAAAAGAAAGAATCATGACAAATGAT
*
860481 TACCATAATTGAAATGCATATGGGTGCATTATCAATAGGAAAGTATGTTATAGTTTAAAGTGCAT
1 TACCATAATTGAAATGCATATGGGTGCATTATCAACAGGAAAGTATGTTATAGTTTAAAGTGCAT
860546 AATGATGTATTGTAACATAAATAGAGGTTACAAATGAAAAGAAAGAATCATGACAAATGAT
66 AATGATGTATTGTAACATAAATAGAGGTTACAAATGAAAAGAAAGAATCATGACAAATGAT
860607 TA
1 TA
860609 TTATAAATGG
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.30
Consensus pattern (126 bp):
TACCATAATTGAAATGCATATGGGTGCATTATCAACAGGAAAGTATGTTATAGTTTAAAGTGCAT
AATGATGTATTGTAACATAAATAGAGGTTACAAATGAAAAGAAAGAATCATGACAAATGAT
Found at i:866984 original size:12 final size:12
Alignment explanation
Indices: 866967--866991 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
866957 TTAGGGTTAG
866967 GAAACCCTAACT
1 GAAACCCTAACT
866979 GAAACCCTAACT
1 GAAACCCTAACT
866991 G
1 G
866992 TTTTGGGTTT
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:0.40, C:0.32, G:0.12, T:0.16
Consensus pattern (12 bp):
GAAACCCTAACT
Found at i:867064 original size:3 final size:3
Alignment explanation
Indices: 867048--867125 Score: 72
Period size: 3 Copynumber: 26.7 Consensus size: 3
867038 TGTAATATTA
* * *
867048 AAT AAT -AT ATT AAT AAT AAT AAT AAT AAT AAT TAT AAT TAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
867095 TAT TAT TAT AAT AAT AAT -AT AAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
867126 AAAATGAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
2 6 0.10
3 55 0.87
4 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:867785 original size:111 final size:112
Alignment explanation
Indices: 867396--867973 Score: 758
Period size: 116 Copynumber: 5.1 Consensus size: 112
867386 ATCTCCTTCT
*
867396 GTGATAGAATT-ATGCAAAAAGTTGAACAAGTTCTTCT-ATTATGAACTTCTTCTTCCTTCTTCA
1 GTGATAGATTTGA-GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
867459 GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAA
65 GATGAGTTCTTCTCATTATGAACTTCTCTGGCAATGCTGATCCATCAA
* * *
867507 GTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
1 GTGATAGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
867572 ATGACGAGTTCTTCTCATTATGAAC-TCTACCTGGCAATGTTGATCCATCAA
66 AT---GAGTTCTTCTCATTATGAACTTCT--CTGGCAATGCTGATCCATCAA
* ** * *
867623 ATGAT-GAATTCAAACTAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 GTGATAG-ATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
867687 GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCT-CATCAA
65 GATGAGTTCTTCTCATTATGAACTTCTCTGGCAATGCTGATCCATCAA
* * *
867734 GTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
1 GTGATAGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
867799 ATGACGAGTTCTTCTCATTATGAAC-TCTACCTGGCAATGTTGATCCATCAA
66 AT---GAGTTCTTCTCATTATGAACTTCT--CTGGCAATGCTGATCCATCAA
* ** *
867850 ATGAT-GAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 GTGATAG-ATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
867914 GATGAGTTCTTCTCATTATGAACTTCTCTGGCAATG-TGATCCATCAA
65 GATGAGTTCTTCTCATTATGAACTTCTCTGGCAATGCTGATCCATCAA
*
867961 GTGATGGATTTGA
1 GTGATAGATTTGA
867974 ATCTTTGCTA
Statistics
Matches: 406, Mismatches: 42, Indels: 38
0.84 0.09 0.08
Matches are distributed among these distances:
111 114 0.28
112 50 0.12
113 43 0.11
114 29 0.07
115 32 0.08
116 138 0.34
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (112 bp):
GTGATAGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTTCTCTGGCAATGCTGATCCATCAA
Found at i:867807 original size:227 final size:228
Alignment explanation
Indices: 867410--867973 Score: 1062
Period size: 227 Copynumber: 2.5 Consensus size: 228
867400 TAGAATTATG
867410 CAAAAAGTTGAACAAGTTCTTCT-ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
867474 TTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATT
66 TTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATT
867539 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
131 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
867604 GGCAATGTTGATCCATCAAATGATGAATTCAAA
196 GGCAATGTTGATCCATCAAATGATGAATTCAAA
*
867637 CTAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
867702 TTATGAACTTCTCTGGAAAAGCTGCT-CATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATT
66 TTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATT
867766 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
131 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
867831 GGCAATGTTGATCCATCAAATGATGAATTCAAA
196 GGCAATGTTGATCCATCAAATGATGAATTCAAA
867864 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
867929 TTATGAACTTCTCTGGCAATG-TGATCCATCAAGTGATGGATTTGA
66 TTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGA
867974 ATCTTTGCTA
Statistics
Matches: 329, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
226 3 0.01
227 259 0.79
228 67 0.20
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (228 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATT
CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
GGCAATGTTGATCCATCAAATGATGAATTCAAA
Found at i:869079 original size:83 final size:83
Alignment explanation
Indices: 868687--869064 Score: 666
Period size: 83 Copynumber: 4.6 Consensus size: 83
868677 GTAGTTCCTA
* * *
868687 CCAAACCAGATCAGATAACTCAAAGAACATTTCTAGAAGATTCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
868752 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * *
868770 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
868835 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
**
868853 TTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
868918 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
868936 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCCATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
869001 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
869019 CCAAACCAGATCAGATAACTCAAATAACACTTCCAGAAGATGCTAT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
869065 TGGCCAATTC
Statistics
Matches: 279, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 279 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:870228 original size:11 final size:11
Alignment explanation
Indices: 870212--870263 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
870202 TTGACCCTCA
870212 TTTTTCTTTTT
1 TTTTTCTTTTT
* *
870223 TTTTTCTCTCT
1 TTTTTCTTTTT
*
870234 TTTTTC-TTGT
1 TTTTTCTTTTT
870244 TTTTTC-TTTT
1 TTTTTCTTTTT
*
870254 TCTTTCTTTT
1 TTTTTCTTTT
870264 CTTCAAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 16 0.47
11 18 0.53
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:870246 original size:20 final size:20
Alignment explanation
Indices: 870214--870261 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
870204 GACCCTCATT
870214 TTTCTTT-TT-TTTTTCTCTC
1 TTTCTTTCTTGTTTTT-TCTC
*
870233 TTT-TTTCTTGTTTTTTCTT
1 TTTCTTTCTTGTTTTTTCTC
870252 TTTCTTTCTT
1 TTTCTTTCTT
870262 TTCTTCAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 11 0.44
20 11 0.44
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTCTTTCTTGTTTTTTCTC
Found at i:870246 original size:25 final size:25
Alignment explanation
Indices: 870218--870266 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
870208 CTCATTTTTC
870218 TTTTTT-TTTTCTCTCTT-TTTTCTTG
1 TTTTTTCTTTT-TCT-TTCTTTTCTTG
870243 TTTTTTCTTTTTCTTTCTTTTCTT
1 TTTTTTCTTTTTCTTTCTTTTCTT
870267 CAAGCATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 2 0.09
25 16 0.73
26 4 0.18
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (25 bp):
TTTTTTCTTTTTCTTTCTTTTCTTG
Found at i:870259 original size:10 final size:9
Alignment explanation
Indices: 870212--870263 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 9
870202 TTGACCCTCA
870212 TTTTTCTTT-
1 TTTTT-TTTC
870221 TTTTTTTCTC
1 TTTTTTT-TC
*
870231 TCTTTTTTC
1 TTTTTTTTC
870240 TTGTTTTTTC
1 TT-TTTTTTC
870250 TTTTTCTTTC
1 TTTTT-TTTC
870260 TTTT
1 TTTT
870264 CTTCAAGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 2 0.05
9 12 0.32
10 23 0.62
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:881363 original size:13 final size:13
Alignment explanation
Indices: 881319--881365 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
881309 CTGTTCTTTG
*
881319 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
881333 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
881345 TTTATTTAAAATAA
1 -ATATTTAAAATAA
881359 ATATTTA
1 ATATTTA
881366 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:882727 original size:3 final size:3
Alignment explanation
Indices: 882711--882791 Score: 87
Period size: 3 Copynumber: 27.7 Consensus size: 3
882701 TGTAATATTA
* * * *
882711 AAT AAT -AT ATT AAT AAT AAT AAT AAT TAT AAT TAT AAT TAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
882758 AAT AAT TAT AAT AAT AAT AAT -AT AAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
882792 AAAATGAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
2 6 0.09
3 56 0.88
4 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:884356 original size:22 final size:20
Alignment explanation
Indices: 884329--884385 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
884319 TACCGTAAGG
*
884329 GGGTATCGATACCTTAGTAA
1 GGGTATCGATACCATAGTAA
* *
884349 GGTAGTATCGATACAATGGTAA
1 GG--GTATCGATACCATAGTAA
884371 GGGTATCGATACCAT
1 GGGTATCGATACCAT
884386 GAAACATTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 14 0.45
22 17 0.55
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:884426 original size:96 final size:94
Alignment explanation
Indices: 884252--884430 Score: 254
Period size: 95 Copynumber: 1.9 Consensus size: 94
884242 GATACCGTTG
* * *
884252 AGGTAGTATCGATACCATGGTAAGGGTAACGATACCAGCCAAACATCGAATCTAATTTTGGTATC
1 AGGTAGTATCGATACAATGGTAAGGGTAACGATACCAG-CAAACATCGAACCTAATTTTAGTATC
884317 GATACCGTAAGGGGGTATCGATACCTTAGTA
65 GATACCGTAA-GGGGTATCGATACCTTAGTA
* *
884348 AGGTAGTATCGATACAATGGTAAGGGTATCGATACCATG-AAACATTGAACCTAATTTTAGTATC
1 AGGTAGTATCGATACAATGGTAAGGGTAACGATACCA-GCAAACATCGAACCTAATTTTAGTATC
884412 GATACCAAGT-AGGGGTATC
65 GATACC--GTAAGGGGTATC
884431 AGTACCCTAG
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
95 36 0.48
96 36 0.48
97 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (94 bp):
AGGTAGTATCGATACAATGGTAAGGGTAACGATACCAGCAAACATCGAACCTAATTTTAGTATCG
ATACCGTAAGGGGTATCGATACCTTAGTA
Found at i:884976 original size:45 final size:45
Alignment explanation
Indices: 884927--885248 Score: 403
Period size: 45 Copynumber: 7.1 Consensus size: 45
884917 AAAGGATGCC
* *
884927 ATAGTTGAAATGTATATGGGTACATTATCAACTGAAAAGCATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
884972 ATAGTTGAAATGTATATGGTTACATTATCAATAGAAAAGTATGA-T
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTAT-ACT
* * * * *
885017 ATAGTTGAAATGCATATGGGTGCATTATCAACAAAAAAGTATGCC
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * ** *
885062 ATAGTTGAAATGTATATGGGTACCTTATCAATAGAAAAACATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
885107 AGAGTTGAAATGTATATGGGTACAATATCAACAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
885152 ATAGTTGAAATGTATATGGGTACATTATCAACAAGAAAAATATATT
1 ATAGTTGAAATGTATATGGGTACATTATCAAC-AGAAAAGTATACT
* * * * **
885198 ATAATTGAAATGCATATGGGTGCATTATCAACAAAAAAGTATGTT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
885243 ATAGTT
1 ATAGTT
885249 TAAAGTGCAT
Statistics
Matches: 237, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
45 196 0.83
46 41 0.17
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (45 bp):
ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:885136 original size:135 final size:135
Alignment explanation
Indices: 884890--885229 Score: 432
Period size: 135 Copynumber: 2.5 Consensus size: 135
884880 AGAAAATAAT
* *** ** *
884890 AATGCATATGAGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGGTACATTAT
1 AATGCATATGGGTGCATTATCAACAAAAAAGTATGCCATAGTTGAAATGTATATGGGTACATTAT
* * * * *
884955 CAACTGAAAAGCATACTATAGTTGAAATGTATATGGTTACATTATCAATAGAAAAGTATGA-TAT
66 CAACTGAAAAACATACTAGAGTTGAAATGTATATGGGTACAATATCAACAGAAAAGTAT-ACTAT
885019 AGTTGA
130 AGTTGA
*
885025 AATGCATATGGGTGCATTATCAACAAAAAAGTATGCCATAGTTGAAATGTATATGGGTACCTTAT
1 AATGCATATGGGTGCATTATCAACAAAAAAGTATGCCATAGTTGAAATGTATATGGGTACATTAT
*
885090 CAA-TAGAAAAACATGCTAGAGTTGAAATGTATATGGGTACAATATCAACAGAAAAGTATACTAT
66 CAACT-GAAAAACATACTAGAGTTGAAATGTATATGGGTACAATATCAACAGAAAAGTATACTAT
885154 AGTTGA
130 AGTTGA
* * * *** * * *
885160 AATGTATATGGGTACATTATCAACAAGAAAAATATATTATAATTGAAATGCATATGGGTGCATTA
1 AATGCATATGGGTGCATTATCAACAA-AAAAGTATGCCATAGTTGAAATGTATATGGGTACATTA
885225 TCAAC
65 TCAAC
885230 AAAAAAGTAT
Statistics
Matches: 177, Mismatches: 24, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
134 2 0.01
135 141 0.80
136 34 0.19
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (135 bp):
AATGCATATGGGTGCATTATCAACAAAAAAGTATGCCATAGTTGAAATGTATATGGGTACATTAT
CAACTGAAAAACATACTAGAGTTGAAATGTATATGGGTACAATATCAACAGAAAAGTATACTATA
GTTGA
Found at i:895561 original size:30 final size:29
Alignment explanation
Indices: 895504--895579 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
895494 GTGACCAAAA
* *
895504 TATAAATTTTG-AAAGTTAAGTGTCTAAAG
1 TATAAATTTTGAAAAGTT-AGGGACTAAAG
895533 TATAAACTTTTGAAAAGTTAGGGACTAAAG
1 TATAAA-TTTTGAAAAGTTAGGGACTAAAG
*
895563 TGT-AA-TTTGAAAAGTTA
1 TATAAATTTTGAAAAGTTA
895580 TGTAATATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.29
29 8 0.19
30 16 0.38
31 6 0.14
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (29 bp):
TATAAATTTTGAAAAGTTAGGGACTAAAG
Found at i:898621 original size:45 final size:46
Alignment explanation
Indices: 898552--898654 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 46
898542 TGGATTGTGT
** * *
898552 ATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCA-TAGTGC
1 ATCGATGCATGGAATGCATTCGATGTTTCAATTAAATCATTAATGC
* * *
898597 ATCGGTGCATGGAATGCATTCGATGTTTCAATTTATTCATTAATGC
1 ATCGATGCATGGAATGCATTCGATGTTTCAATTAAATCATTAATGC
898643 ATCGATGCATGG
1 ATCGATGCATGG
898655 TATTGATGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 33 0.67
46 16 0.33
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (46 bp):
ATCGATGCATGGAATGCATTCGATGTTTCAATTAAATCATTAATGC
Found at i:901256 original size:24 final size:23
Alignment explanation
Indices: 901187--901266 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
901177 CATGATCTTG
*
901187 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
* * *
901210 TGCATTGGTG--CA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
901231 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
901255 TGCATCGATGCA
1 TGCATCGATGCA
901267 TTGTTAAGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.27
23 10 0.22
24 17 0.38
25 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:901279 original size:44 final size:42
Alignment explanation
Indices: 901165--901286 Score: 104
Period size: 44 Copynumber: 2.8 Consensus size: 42
901155 AAACCCGACC
*
901165 GATGCATCGATGCA-TGATCTTGTGCATCGATGCACATTCAAGG
1 GATGCATCGATGCATTG-T-TAGTGCATCGATGCACATTCAAGG
* * * **
901208 CATGCATTGGTGCATCATG-CGGATGCATCGATGCACATTCAAAGG
1 GATGCATCGATGCAT--TGTTAG-TGCATCGATGCACATTC-AAGG
*
901253 GATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GATGCATCGATGCATTGTT-AGTGCATCGATGCA
901287 TTAAGCACAA
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
43 14 0.23
44 28 0.46
45 17 0.28
46 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
GATGCATCGATGCATTGTTAGTGCATCGATGCACATTCAAGG
Found at i:907067 original size:18 final size:17
Alignment explanation
Indices: 907013--907061 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
907003 TTGGACTCCT
* *
907013 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
907031 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
907049 AGTGCATTCGATG
1 AGTGCA-TCGATG
907062 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:907102 original size:64 final size:62
Alignment explanation
Indices: 907012--907222 Score: 183
Period size: 64 Copynumber: 3.3 Consensus size: 62
907002 GTTGGACTCC
* *
907012 TAGTGCATCGGTGCACT-AAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAATAGC
1 TAGTGCATCGATGCA-TGGAGAGTGCATCGATGCATGAA-TGCATTCGATGTTTGAATAAAT--C
*
907075 C
62 A
* ** * * * *
907076 TGGTGCATCGATGCATGGATTGTGCATCGAAGCATCAAATACATTCGATGTTTTAATTAAATCA
1 TAGTGCATCGATGCATGGAGAGTGCATCGATGCAT-GAATGCATTCGATGTTTGAA-TAAATCA
* * * * *
907140 TAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGATTCAATTTATTCA
1 TAGTGCATCGATGCATGGAGAGTGCATCGATGCAT-GAATGCATTCGATGTTTGAA-TAAATCA
*
907204 TTGATGCATCGATGCATGG
1 TAG-TGCATCGATGCATGG
907223 TATTGATGCA
Statistics
Matches: 119, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
63 1 0.01
64 97 0.82
65 17 0.14
66 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (62 bp):
TAGTGCATCGATGCATGGAGAGTGCATCGATGCATGAATGCATTCGATGTTTGAATAAATCA
Found at i:907165 original size:19 final size:18
Alignment explanation
Indices: 907141--907189 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
907131 ATTAAATCAT
907141 AGTGCATCGATGCATGGA
1 AGTGCATCGATGCATGGA
*
907159 GAGTGCATCGGTGCATGGA
1 -AGTGCATCGATGCATGGA
907178 A-TGCATTCGATG
1 AGTGCA-TCGATG
907190 ATTCAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 17 0.63
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.24
Consensus pattern (18 bp):
AGTGCATCGATGCATGGA
Found at i:907227 original size:21 final size:21
Alignment explanation
Indices: 907203--907242 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
907193 CAATTTATTC
907203 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
907224 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
907243 ACTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:907841 original size:24 final size:24
Alignment explanation
Indices: 907800--907908 Score: 139
Period size: 24 Copynumber: 4.5 Consensus size: 24
907790 TTCTACACGA
** * *
907800 CACTTTATGTATAGTTCTACGTGG
1 CACTTTATGTGCAATTCTATGTGG
* *
907824 CACTTTATGTGCAATTCTATATTG
1 CACTTTATGTGCAATTCTATGTGG
*
907848 CACTTTATGTGCAATTCTATGTTG
1 CACTTTATGTGCAATTCTATGTGG
907872 CACTTTATGTGCAATTCTATGTGG
1 CACTTTATGTGCAATTCTATGTGG
907896 CACTATT-TGTGCA
1 CACT-TTATGTGCA
907909 TTCAGGAAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
24 74 0.97
25 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (24 bp):
CACTTTATGTGCAATTCTATGTGG
Found at i:907880 original size:12 final size:12
Alignment explanation
Indices: 907823--907899 Score: 70
Period size: 12 Copynumber: 6.4 Consensus size: 12
907813 GTTCTACGTG
907823 GCACTT-TATGT
1 GCACTTCTATGT
* *
907834 GCAATTCTATATT
1 GCACTTCTAT-GT
907847 GCACTT-TATGT
1 GCACTTCTATGT
*
907858 GCAATTCTATGTT
1 GCACTTCTATG-T
907871 GCACTT-TATGT
1 GCACTTCTATGT
*
907882 GCAATTCTATGT
1 GCACTTCTATGT
907894 GGCACT
1 -GCACT
907900 ATTTGTGCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
11 17 0.33
12 19 0.37
13 16 0.31
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (12 bp):
GCACTTCTATGT
Found at i:930428 original size:21 final size:22
Alignment explanation
Indices: 930378--930439 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
930368 ATACCCCCAT
930378 AAGGGAACCGATTCCCCCTTTG
1 AAGGGAACCGATTCCCCCTTTG
*
930400 AATAGGAACCGATTCCCTCC-TTG
1 AA-GGGAACCGATTCCC-CCTTTG
* *
930423 -AGGGAATCGATACCCCC
1 AAGGGAACCGATTCCCCC
930440 AATGGGTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.06
21 11 0.32
22 3 0.09
23 16 0.47
24 2 0.06
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (22 bp):
AAGGGAACCGATTCCCCCTTTG
Found at i:945307 original size:2 final size:2
Alignment explanation
Indices: 945300--945326 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
945290 GCTTAAAAGA
945300 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
945327 ATTTTTGCCT
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:946654 original size:2 final size:2
Alignment explanation
Indices: 946647--946844 Score: 359
Period size: 2 Copynumber: 101.0 Consensus size: 2
946637 AGTTTAACCC
*
946647 GT GT GT GT GT GT GT GT GT GT GT GT G- GT GT GT GC GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
946688 GT GT -T GT GT GT GT GT -T GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
946728 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT -T
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
946769 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
946811 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
946845 CTTCAGATGT
Statistics
Matches: 190, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
1 4 0.02
2 186 0.98
ACGTcount: A:0.00, C:0.01, G:0.49, T:0.50
Consensus pattern (2 bp):
GT
Done.