Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015254.1 Kokia drynarioides strain JFW-HI SEQ_130299, 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: 1276691
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 890 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:659468 original size:20 final size:20
Alignment explanation
Indices: 659443--659489 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
659433 TTTTTAAAAA
659443 CAGTCATATCATCTCTCCAT
1 CAGTCATATCATCTCTCCAT
659463 CAGTCATATCATCTCTCCAT
1 CAGTCATATCATCTCTCCAT
659483 CAGTCAT
1 CAGTCAT
659490 CTATAAGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (20 bp):
CAGTCATATCATCTCTCCAT
Found at i:663803 original size:79 final size:79
Alignment explanation
Indices: 663671--664057 Score: 496
Period size: 79 Copynumber: 4.9 Consensus size: 79
663661 GTTTAAAATT
* * * * *
663671 TCCGTCAACTCATGGCACCCGGTGCCTAGTGGATAAACC-ATGAAA-GTGAGCCCAGCTCTAGTT
1 TCCGTCAAATCCTAGCACCCAGTGCCTAGCGGATAAACCGA--AAATGTGAGCCCAGCTCTAGTT
*
663734 GGATTAACCAACAATG
64 GGATTAACCAACAATA
* * *
663750 CCCGTCAAATCCTAGCACCCAGTGCCTAGCGGATAAACCGAAAATGTGAGCCCAACCCTAGTTGG
1 TCCGTCAAATCCTAGCACCCAGTGCCTAGCGGATAAACCGAAAATGTGAGCCCAGCTCTAGTTGG
663815 ATTAACCAACAATA
66 ATTAACCAACAATA
* * * * * * * *
663829 TCAGTCAAATCCTGGTACCCAGTGCCTAACGGGTAAACAGTAAATGTGAGCCAAGCTCTAGTTGG
1 TCCGTCAAATCCTAGCACCCAGTGCCTAGCGGATAAACCGAAAATGTGAGCCCAGCTCTAGTTGG
663894 ATTAACCAACAATA
66 ATTAACCAACAATA
** *
663908 TCCGTCAAATCCT-GACACTGAGTGCCTAGC-GAGTAAA-CTACAAATGTGAGCCCAGCTCTAGT
1 TCCGTCAAATCCTAG-CACCCAGTGCCTAGCGGA-TAAACCGA-AAATGTGAGCCCAGCTCTAGT
663970 TGGATTAACCAACAATA
63 TGGATTAACCAACAATA
* *
663987 TCCGTCAAATCCTAGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAACTCTAGTTGG
1 TCCGTCAAATCCTAGCACCCAGTGCCTAGCGGATAAACCGAAAATGTGAGCCCAGCTCTAGTTGG
664052 ATTAAC
66 ATTAAC
664058 TAACGGTTTT
Statistics
Matches: 265, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
78 5 0.02
79 255 0.96
80 5 0.02
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (79 bp):
TCCGTCAAATCCTAGCACCCAGTGCCTAGCGGATAAACCGAAAATGTGAGCCCAGCTCTAGTTGG
ATTAACCAACAATA
Found at i:668717 original size:21 final size:21
Alignment explanation
Indices: 668700--668751 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
668690 AAGACTTGCT
668700 TCGGTAGAAGAGACACTTGTA
1 TCGGTAGAAGAGACACTTGTA
** *
668721 TCGGTAGAACTGTCACTTGTA
1 TCGGTAGAAGAGACACTTGTA
668742 TCGGTAGAAG
1 TCGGTAGAAG
668752 TCGTGCACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (21 bp):
TCGGTAGAAGAGACACTTGTA
Found at i:688840 original size:6 final size:6
Alignment explanation
Indices: 688829--688865 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
688819 ATCAAAATTC
* *
688829 AAAGTG AAAGTG AAAGTG AAATTG AAATTG AAAGTG A
1 AAAGTG AAAGTG AAAGTG AAAGTG AAAGTG AAAGTG A
688866 TATGAATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (6 bp):
AAAGTG
Found at i:689963 original size:16 final size:16
Alignment explanation
Indices: 689944--689977 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
689934 TTTTAATAAT
*
689944 TAATACTGATTATTAA
1 TAATAATGATTATTAA
*
689960 TAATAATTATTATTAA
1 TAATAATGATTATTAA
689976 TA
1 TA
689978 CAGTTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TAATAATGATTATTAA
Found at i:690688 original size:11 final size:11
Alignment explanation
Indices: 690672--690746 Score: 73
Period size: 11 Copynumber: 6.7 Consensus size: 11
690662 TTTAACTTTG
690672 AAATTAAATTT
1 AAATTAAATTT
690683 AAATTAAATTT
1 AAATTAAATTT
690694 AAATTTAAGA-TT
1 AAA-TTAA-ATTT
*
690706 AATTTAAATTT
1 AAATTAAATTT
* *
690717 AAAATAAATAT
1 AAATTAAATTT
*
690728 AAATTTAAA-AT
1 AAA-TTAAATTT
690739 AAATTAAA
1 AAATTAAA
690747 AAGGGCCCCG
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.11
11 36 0.65
12 12 0.22
13 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
AAATTAAATTT
Found at i:690697 original size:17 final size:17
Alignment explanation
Indices: 690675--690743 Score: 102
Period size: 17 Copynumber: 4.1 Consensus size: 17
690665 AACTTTGAAA
*
690675 TTAAATTTAAATTAAAT
1 TTAAATTTAAAATAAAT
* *
690692 TTAAATTTAAGATTAAT
1 TTAAATTTAAAATAAAT
690709 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
690726 ATAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
690743 T
1 T
690744 AAAAAGGGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:690738 original size:7 final size:6
Alignment explanation
Indices: 690662--690736 Score: 70
Period size: 6 Copynumber: 13.0 Consensus size: 6
690652 CTTTGGACTT
*
690662 TTTAAC TTTGAAA -TTAAA TTTAAA -TTAAA TTTAAA TTTAAGA -TT-AA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA
* *
690708 TTTAAA TTTAAA -ATAAA TATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
690737 ATAAATTAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
4 1 0.02
5 15 0.25
6 40 0.68
7 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:693144 original size:31 final size:32
Alignment explanation
Indices: 693096--693178 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
693086 ATAGTAATAT
* *
693096 TATACACG-AATTATGATTTAATGTGCAATTG
1 TATACATGAAATTTTGATTTAATGTGCAATTG
* *
693127 TATACAT-AAATTTTGATTT--TGTGTAATTT
1 TATACATGAAATTTTGATTTAATGTGCAATTG
*
693156 TATATATGAAATTTTGATTTAAT
1 TATACATGAAATTTTGATTTAAT
693179 CCAATTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 14 0.33
30 12 0.28
31 16 0.37
32 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (32 bp):
TATACATGAAATTTTGATTTAATGTGCAATTG
Found at i:693170 original size:30 final size:29
Alignment explanation
Indices: 693117--693175 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
693107 TATGATTTAA
693117 TGTGCAATTGTATACATAAATTTTGATTT
1 TGTGCAATTGTATACATAAATTTTGATTT
* * *
693146 TGTGTAATTTTATATATGAAATTTTGATTT
1 TGTGCAATTGTATACAT-AAATTTTGATTT
693176 AATCCAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.53
Consensus pattern (29 bp):
TGTGCAATTGTATACATAAATTTTGATTT
Found at i:694345 original size:57 final size:57
Alignment explanation
Indices: 694213--694382 Score: 202
Period size: 58 Copynumber: 2.9 Consensus size: 57
694203 CAAATTGAAC
* * **
694213 CTAAAAAAAGCTTAGGTACCAAATTTA-AAAAAATGCCAAGTTCTAATGCCAAATTGGG
1 CTAAAAAAAGTTTAGGTACCAAA-TTAGAAAAAATGTCAAGTTC-AATATCAAATTGGG
*
694271 CTAAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAATTATCAAATTGGG
1 CTAAAAAAAGTTTAGGTACCAAATTAGAAAAAA-TGTCAAGTTCAA-TATCAAATTGGG
* *
694330 C-CAAAAAA-TTTAGGTACTAAATTAGGAAAAAATGTCAAGTTCAAATATCAAAT
1 CTAAAAAAAGTTTAGGTACCAAATTA-GAAAAAATGTCAAGTTC-AATATCAAAT
694383 GATATATTAA
Statistics
Matches: 99, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
57 35 0.35
58 45 0.45
59 19 0.19
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (57 bp):
CTAAAAAAAGTTTAGGTACCAAATTAGAAAAAATGTCAAGTTCAATATCAAATTGGG
Found at i:694397 original size:57 final size:57
Alignment explanation
Indices: 694274--694382 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
694264 AATTGGGCTA
* * *
694274 AAAAAAGTTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAATTATCAAATTGGGCC
1 AAAAAA-TTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAAATATCAAATTGAGAC
* *
694332 AAAAAATTTAGGTACTAAATTAGGAAAAAA-TGTCAAGTTCAAATATCAAAT
1 AAAAAATTTAGGTACCAAATTA-GAAAAAAGTATCAAGTTCAAATATCAAAT
694383 GATATATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
57 34 0.72
58 13 0.28
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.27
Consensus pattern (57 bp):
AAAAAATTTAGGTACCAAATTAGAAAAAAGTATCAAGTTCAAATATCAAATTGAGAC
Found at i:694910 original size:15 final size:15
Alignment explanation
Indices: 694886--694925 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
694876 GTTTTTAAGT
*
694886 TTATAATACTTTATA
1 TTATATTACTTTATA
694901 TTATATTACTTT-TA
1 TTATATTACTTTATA
694915 -TATATTA-TTTA
1 TTATATTACTTTA
694926 ATTTATAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 3 0.13
13 7 0.30
14 2 0.09
15 11 0.48
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATATTACTTTATA
Found at i:695144 original size:56 final size:57
Alignment explanation
Indices: 695066--695181 Score: 216
Period size: 56 Copynumber: 2.0 Consensus size: 57
695056 AAATAAAATA
695066 TTATAAATATTTTCAAAAAAAAAAATTTAAAAATAACATGAGCAAGCTTAAAATGTGT
1 TTATAAATATTTTCAAAAAAAAAAA-TTAAAAATAACATGAGCAAGCTTAAAATGTGT
695124 TTATAAATATTTTC-AAAAAAAAAATTAAAAATAACATGAGCAAGCTTAAAATGTGT
1 TTATAAATATTTTCAAAAAAAAAAATTAAAAATAACATGAGCAAGCTTAAAATGTGT
695180 TT
1 TT
695182 GGATTAGTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 34 0.59
57 10 0.17
58 14 0.24
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.32
Consensus pattern (57 bp):
TTATAAATATTTTCAAAAAAAAAAATTAAAAATAACATGAGCAAGCTTAAAATGTGT
Found at i:696122 original size:15 final size:15
Alignment explanation
Indices: 696102--696141 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
696092 AAGAATGAAC
696102 AAATATACGAAAAAT
1 AAATATACGAAAAAT
696117 AAATATGA-GAAAAAT
1 AAATAT-ACGAAAAAT
696132 AAA-ATACGAA
1 AAATATACGAA
696142 TTATGAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 5 0.22
15 16 0.70
16 1 0.04
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (15 bp):
AAATATACGAAAAAT
Found at i:696289 original size:29 final size:28
Alignment explanation
Indices: 696257--696408 Score: 142
Period size: 29 Copynumber: 5.2 Consensus size: 28
696247 AGTTTCGGTG
* *
696257 AGTTTGGGGTTAAAAATGTAATTTTTGGA
1 AGTTTGGGG-CAAAAATGTAATTTTTGAA
*
696286 AGTTTGAGGGCAAAATTGTAATTTTTGAA
1 AGTTTG-GGGCAAAAATGTAATTTTTGAA
* * *
696315 AGTTCGGGAGCAAAAATATAACTTTTGAA
1 AGTTTGGG-GCAAAAATGTAATTTTTGAA
* * * *
696344 ATTTTCGGAGACAAAAATGTGATTTTTGGA
1 AGTTT-GG-GGCAAAAATGTAATTTTTGAA
*
696374 AGCTTGGGGGCAAAAATGTAATTTTTGAAA
1 AG-TTTGGGGCAAAAATGTAATTTTTG-AA
696404 AGTTT
1 AGTTT
696409 AGAGGTTAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
28 2 0.02
29 66 0.68
30 26 0.27
31 3 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (28 bp):
AGTTTGGGGCAAAAATGTAATTTTTGAA
Found at i:696420 original size:59 final size:57
Alignment explanation
Indices: 696268--696427 Score: 151
Period size: 59 Copynumber: 2.7 Consensus size: 57
696258 GTTTGGGGTT
* *
696268 AAAAATGTAATTTTTGGAAGTTTGAGGGCAAAATTGTAATTTTTGAAAGTTCGGGAGC
1 AAAAATGTAATTTTTGAAAGTTTGA-GGCAAAAATGTAATTTTTGAAAGTTCGGGAGC
* * * * * * *
696326 AAAAATATAACTTTTGAAATTTTCGGAGACAAAAATGTGATTTTTGGAAGCTT-GGGGGC
1 AAAAATGTAATTTTTGAAAGTTT--GAGGCAAAAATGTAATTTTTGAAAG-TTCGGGAGC
** *
696385 AAAAATGTAATTTTTGAAAAGTTTAGAGGTTAAAATGCAATTT
1 AAAAATGTAATTTTTG-AAAGTTT-GAGGCAAAAATGTAATTT
696428 ATGGATAGTT
Statistics
Matches: 80, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
58 19 0.24
59 51 0.64
60 10 0.12
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.34
Consensus pattern (57 bp):
AAAAATGTAATTTTTGAAAGTTTGAGGCAAAAATGTAATTTTTGAAAGTTCGGGAGC
Found at i:696983 original size:16 final size:15
Alignment explanation
Indices: 696963--696992 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
696953 TTCACTTTAA
696963 AAAAAAAAAACATTT
1 AAAAAAAAAACATTT
696978 AAAAAAAAAACATTT
1 AAAAAAAAAACATTT
696993 TCTCTATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAAAAAAACATTT
Found at i:698261 original size:16 final size:16
Alignment explanation
Indices: 698240--698271 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
698230 GGGTTTGTGA
698240 TTTTGGACTTGTAATT
1 TTTTGGACTTGTAATT
*
698256 TTTTGGACTTTTAATT
1 TTTTGGACTTGTAATT
698272 AAATTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.06, G:0.16, T:0.59
Consensus pattern (16 bp):
TTTTGGACTTGTAATT
Found at i:698298 original size:17 final size:17
Alignment explanation
Indices: 698278--698323 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
698268 AATTAAATTT
698278 TAAATTTAAATTCAAAA
1 TAAATTTAAATTCAAAA
* *
698295 TAAATTTAAACTCATAA
1 TAAATTTAAATTCAAAA
*
698312 TAAGTTTAAATT
1 TAAATTTAAATT
698324 TAAACTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTCAAAA
Found at i:698344 original size:22 final size:23
Alignment explanation
Indices: 698295--698346 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
698285 AAATTCAAAA
*
698295 TAAATTTAAACTCATAATAAGTT
1 TAAATTTAAACTCAAAATAAGTT
*
698318 TAAATTTAAACTTAAAATAA-TT
1 TAAATTTAAACTCAAAATAAGTT
698340 TAAATTT
1 TAAATTT
698347 TAAAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (23 bp):
TAAATTTAAACTCAAAATAAGTT
Found at i:698888 original size:78 final size:77
Alignment explanation
Indices: 698755--699028 Score: 248
Period size: 78 Copynumber: 3.5 Consensus size: 77
698745 CTTTATTGCT
** * * * * * *
698755 TCGAATGATTGTAATCTGCCCCATGATCGGGGTAAGAGA-TTGATTAATGATGATCTACCCC-AG
1 TCGAATGGCTGTAATCTACCCCAGGCTCGGGGTAAGAGATTTG-CTGATGAGGATCTACCCCAAG
* *
698818 ACTCGAGGTAAAAAA
65 -CTCG-GGTAAGAGA
* * * * * *
698833 TCGAATGGCTGTAATCTGCTCTAGGCTCGGGGTAAGAGATTTGCTGATGAGGATCTGCCTCAAGT
1 TCGAATGGCTGTAATCTACCCCAGGCTCGGGGTAAGAGATTTGCTGATGAGGATCTACCCCAAGC
698898 TCGGGATAAGAGA
66 TCGGG-TAAGAGA
* ** * * * * *
698911 TCGGATGGCTACAATCTACCCCATGATCGAGGTAAGAGATTGGCTGAT-AGTGATCTACCCTAAG
1 TCGAATGGCTGTAATCTACCCCAGGCTCGGGGTAAGAGATTTGCTGATGAG-GATCTACCCCAAG
698975 CTCGGAGTAAGAGA
65 CTCGG-GTAAGAGA
*
698989 TCGAATGGTTGTAATCTACCCCAGGCTCGGGGTAAGAGAT
1 TCGAATGGCTGTAATCTACCCCAGGCTCGGGGTAAGAGAT
699029 CGAATTGCTA
Statistics
Matches: 156, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
77 4 0.03
78 146 0.94
79 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (77 bp):
TCGAATGGCTGTAATCTACCCCAGGCTCGGGGTAAGAGATTTGCTGATGAGGATCTACCCCAAGC
TCGGGTAAGAGA
Found at i:698947 original size:39 final size:39
Alignment explanation
Indices: 698904--699145 Score: 132
Period size: 39 Copynumber: 6.2 Consensus size: 39
698894 AAGTTCGGGA
* * * *
698904 TAAGAGATCGGATGGCTACAATCTACCCCATGATCGAGG
1 TAAGAGATCGAATGGCTATAATCTACCCCAAGCTCGAGG
* ** * * *
698943 TAAGAGATTGGCT-GATAGTGATCTACCCTAAGCTCG-GAG
1 TAAGAGATCGAATGGCTA-TAATCTACCCCAAGCTCGAG-G
* * * *
698982 TAAGAGATCGAATGGTTGTAATCTACCCCAGGCTCGGGG
1 TAAGAGATCGAATGGCTATAATCTACCCCAAGCTCGAGG
* * * *
699021 TAAGAGATCGAATTGCTATAATTTGCCCCAAGTTC-AGGG
1 TAAGAGATCGAATGGCTATAATCTACCCCAAGCTCGA-GG
* ** * * * * * *
699060 TAAGAGATTGGCT-GATGGTGATCTGCCCCAGGCTGGAGG
1 TAAGAGATCGAATGGCT-ATAATCTACCCCAAGCTCGAGG
* * * * *
699099 TAAGAGATCGAATGGCTACAATCTACCTCACGATCGGGG
1 TAAGAGATCGAATGGCTATAATCTACCCCAAGCTCGAGG
699138 TAAGAGAT
1 TAAGAGAT
699146 TTGCTGATGG
Statistics
Matches: 148, Mismatches: 47, Indels: 16
0.70 0.22 0.08
Matches are distributed among these distances:
38 6 0.04
39 136 0.92
40 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGAGATCGAATGGCTATAATCTACCCCAAGCTCGAGG
Found at i:699019 original size:117 final size:117
Alignment explanation
Indices: 698898--699145 Score: 302
Period size: 117 Copynumber: 2.1 Consensus size: 117
698888 TGCCTCAAGT
* * *
698898 TCGGGATAAGAGATCGGATGGCTACAATCTACCCCATGATC-GAGGTAAGAGATTGGCTGATAGT
1 TCGGGGTAAGAGATCGAATGGCTACAATCTACCCCAAGATCAG-GGTAAGAGATTGGCTGATAGT
* * ** * *
698962 GATCTACCCTAAGCTCGGA-GTAAGAGATCGAATGGTTGTAATCTACCCCAGGC
65 GATCTACCCCAAGCT-GGAGGTAAGAGATCGAATGGCTACAATCTACCCCACGA
* * * * * *
699015 TCGGGGTAAGAGATCGAATTGCTATAATTTGCCCCAAGTTCAGGGTAAGAGATTGGCTGATGGTG
1 TCGGGGTAAGAGATCGAATGGCTACAATCTACCCCAAGATCAGGGTAAGAGATTGGCTGATAGTG
* * *
699080 ATCTGCCCCAGGCTGGAGGTAAGAGATCGAATGGCTACAATCTACCTCACGA
66 ATCTACCCCAAGCTGGAGGTAAGAGATCGAATGGCTACAATCTACCCCACGA
699132 TCGGGGTAAGAGAT
1 TCGGGGTAAGAGAT
699146 TTGCTGATGG
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
116 3 0.03
117 107 0.96
118 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (117 bp):
TCGGGGTAAGAGATCGAATGGCTACAATCTACCCCAAGATCAGGGTAAGAGATTGGCTGATAGTG
ATCTACCCCAAGCTGGAGGTAAGAGATCGAATGGCTACAATCTACCCCACGA
Found at i:699139 original size:78 final size:78
Alignment explanation
Indices: 699002--699344 Score: 321
Period size: 78 Copynumber: 4.4 Consensus size: 78
698992 AATGGTTGTA
* * * * * * *
699002 ATCTACCCCAGGCTCGGGGTAAGAGATCGAATTGCTATAATTTGCCCCAAGTTCAGGGTAAGAGA
1 ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATGGCTACAATTTACCCCAAGATCAGGGTAAGAGA
699067 TTGGCTGATGGTG
66 TTGGCTGATGGTG
* * * * * *
699080 ATCTGCCCCAGGCTGGAGGTAAGAGATCGAATGGCTACAATCTACCTCACGATCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATGGCTACAATTTACCCCAAGATCAGGGTAAGAGA
*
699145 TTTGCTGATGGTG
66 TTGGCTGATGGTG
** ** * * * ** *
699158 AT-TTTCCTTGAGCT-AAGGGTAAAAGATTGGATGGCTGTAATTTACCCCATGATCAGGGTAAGA
1 ATCTGCCCCAG-GCTCGA-GGTAAAAGATCGAATGGCTACAATTTACCCCAAGATCAGGGTAAGA
*
699221 GATTTGCTGATGGTG
64 GATTGGCTGATGGTG
* * * * * * * * *
699236 ATCTGCCCCAAGCTCGAGGTAAAAGATCAAATGGTTGCAATTTGCCCCAGGCTCGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATGGCTACAATTTACCCCAAGATCAGGGTAAGAGA
*
699301 TTGGCTAATGGTG
66 TTGGCTGATGGTG
* *
699314 ATCTGCCACAGGCTCGAGGTAAAGGATCGAA
1 ATCTGCCCCAGGCTCGAGGTAAAAGATCGAA
699345 ATCTTCAATC
Statistics
Matches: 213, Mismatches: 48, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
77 5 0.02
78 204 0.96
79 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATGGCTACAATTTACCCCAAGATCAGGGTAAGAGA
TTGGCTGATGGTG
Found at i:699257 original size:39 final size:39
Alignment explanation
Indices: 699214--699336 Score: 126
Period size: 39 Copynumber: 3.2 Consensus size: 39
699204 CCATGATCAG
* * *
699214 GGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTCGA
1 GGTAAAAGATTTGCTAATGGTGATCTGCCCCAGGCTCGA
* * *
699253 GGTAAAAGA--T-CAAATGGTTGCAATTTGCCCCAGGCTCGG
1 GGTAAAAGATTTGCTAATGG-TG--ATCTGCCCCAGGCTCGA
* *
699292 GGTAAAAGATTGGCTAATGGTGATCTGCCACAGGCTCGA
1 GGTAAAAGATTTGCTAATGGTGATCTGCCCCAGGCTCGA
699331 GGTAAA
1 GGTAAA
699337 GGATCGAAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
36 5 0.07
37 3 0.04
39 51 0.76
41 2 0.03
42 6 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (39 bp):
GGTAAAAGATTTGCTAATGGTGATCTGCCCCAGGCTCGA
Found at i:699335 original size:156 final size:155
Alignment explanation
Indices: 699008--699344 Score: 370
Period size: 156 Copynumber: 2.2 Consensus size: 155
698998 TGTAATCTAC
* * * * *
699008 CCCAGGCTCGGGGTAAGAGATCGAATTGCTATAATTTGCCCCAAGTTCAGGGTAAGAGATTGGCT
1 CCCAGGCTCGAGGTAAAAGATCGAATGGCTATAATTTACCCCAAGATCAGGGTAAGAGATTGGCT
* * * * *
699073 GATGGTGATCTGCCCCAGGCTGGAGGTAAGAGATCGAATGGCTACAATCTACCTCACGATCGGGG
66 GATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCAAATGGCTACAATCTACCCCACGATCGGGG
* * * * *
699138 TAAGAGATTTGCTGATGGTGATTTT
131 TAAAAGATTGGCTAATGGTGATCTG
** * * * * * *
699163 CCTTGAGCT-AAGGGTAAAAGATTGGATGGCTGTAATTTACCCCATGATCAGGGTAAGAGATTTG
1 CCCAG-GCTCGA-GGTAAAAGATCGAATGGCTATAATTTACCCCAAGATCAGGGTAAGAGATTGG
* * * * * *
699227 CTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCAAATGGTTGCAATTTGCCCCAGGCTCGG
64 CTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCAAATGGCTACAATCTACCCCACGATCGG
699292 GGTAAAAGATTGGCTAATGGTGATCTG
129 GGTAAAAGATTGGCTAATGGTGATCTG
*
699319 CCACAGGCTCGAGGTAAAGGATCGAA
1 CC-CAGGCTCGAGGTAAAAGATCGAA
699345 ATCTTCAATC
Statistics
Matches: 143, Mismatches: 35, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
155 3 0.02
156 138 0.97
157 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (155 bp):
CCCAGGCTCGAGGTAAAAGATCGAATGGCTATAATTTACCCCAAGATCAGGGTAAGAGATTGGCT
GATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCAAATGGCTACAATCTACCCCACGATCGGGG
TAAAAGATTGGCTAATGGTGATCTG
Found at i:700439 original size:9 final size:9
Alignment explanation
Indices: 700408--700432 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
700398 GTCATCCCTT
700408 TCTTTTTCC
1 TCTTTTTCC
700417 TCTTTTTCC
1 TCTTTTTCC
700426 TCTTTTT
1 TCTTTTT
700433 TTTCTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (9 bp):
TCTTTTTCC
Found at i:704039 original size:54 final size:54
Alignment explanation
Indices: 703981--704084 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
703971 TGACTAAGTA
* * * *
703981 ATCTAGCTTGTTCATTGAAATGTCCTTGGGTACATAAGTCTTATTTAATAAGCG
1 ATCTAGCTTGTTCACTGAAATGACCTTGGCTACATAAGTCTCATTTAATAAGCG
*
704035 ATCTAGCTTGTTCACTGAAATGACTTTGGCTACATAAGTCTCATTTAATA
1 ATCTAGCTTGTTCACTGAAATGACCTTGGCTACATAAGTCTCATTTAATA
704085 CTTTCATCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (54 bp):
ATCTAGCTTGTTCACTGAAATGACCTTGGCTACATAAGTCTCATTTAATAAGCG
Found at i:710140 original size:29 final size:29
Alignment explanation
Indices: 710102--710411 Score: 200
Period size: 29 Copynumber: 10.8 Consensus size: 29
710092 CGGTGATTTC
*
710102 GAGGTTAAAAATGTAATTTTTGAAAGTTT
1 GAGGGTAAAAATGTAATTTTTGAAAGTTT
* **
710131 GAGGGAAAAAAAATAATTTTTGAAAGTTT
1 GAGGGTAAAAATGTAATTTTTGAAAGTTT
** *
710160 GAGGGTAAAAATGTAATTTTCAAAAGTTC
1 GAGGGTAAAAATGTAATTTTTGAAAGTTT
* * * *
710189 G-GGG-GAAAATGTGATTTTTGGAAGTTC
1 GAGGGTAAAAATGTAATTTTTGAAAGTTT
* * *
710216 G-GGG-GAAAATATAATTTTTGGAAGTTT
1 GAGGGTAAAAATGTAATTTTTGAAAGTTT
* * * *
710243 GGGGGTAAAAATATGATTTTTGAAAGTTC
1 GAGGGTAAAAATGTAATTTTTGAAAGTTT
** * * *
710272 GAGGAAAAAAATGTGATTTTTGGAAGTTC
1 GAGGGTAAAAATGTAATTTTTGAAAGTTT
* * * *
710301 G-GAGGCAAAATTGTGATTTTTGGAAGTTT
1 GAG-GGTAAAAATGTAATTTTTGAAAGTTT
* ** *
710330 AAGGGTAAACTTGTGATTTTTGAAAAGTTT
1 GAGGGTAAAAATGTAATTTTTG-AAAGTTT
* **
710360 -AGGAGTTAAAATGTAATTTTAAAAAAGTTT
1 GAGG-GTAAAAATGTAATTTT-TGAAAGTTT
* * * *
710390 AAGGGTTAAAATATGATTTTTG
1 GAGGGTAAAAATGTAATTTTTG
710412 GACAGTTCAA
Statistics
Matches: 228, Mismatches: 45, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
27 43 0.19
28 7 0.03
29 135 0.59
30 40 0.18
31 3 0.01
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
GAGGGTAAAAATGTAATTTTTGAAAGTTT
Found at i:710197 original size:27 final size:27
Alignment explanation
Indices: 710167--710233 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
710157 TTTGAGGGTA
710167 AAAATGTAATTTTCAAAAGTTCGGGGG
1 AAAATGTAATTTTCAAAAGTTCGGGGG
* ***
710194 AAAATGTGATTTTTGGAAGTTCGGGGG
1 AAAATGTAATTTTCAAAAGTTCGGGGG
*
710221 AAAATATAATTTT
1 AAAATGTAATTTT
710234 TGGAAGTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.34
Consensus pattern (27 bp):
AAAATGTAATTTTCAAAAGTTCGGGGG
Found at i:710231 original size:112 final size:114
Alignment explanation
Indices: 710109--710328 Score: 300
Period size: 112 Copynumber: 1.9 Consensus size: 114
710099 TTCGAGGTTA
* * **
710109 AAAATGTAATTTTTGAAAGTTTGAGGGAAAAAAAATAATTTTTGAAAGTTTGAGGGTAAAAATGT
1 AAAATATAATTTTTGAAAGTTTGAGGGAAAAAAAATAATTTTTGAAAGTTCGAGGAAAAAAATGT
*
710174 AATTTTCAAAAGTTCGG-GGGAAAA-TGTGATTTTTGGAAGTTCGGGGG
66 AATTTTCAAAAGTTCGGAGGCAAAATTGTGATTTTTGGAAGTTCGGGGG
* * * * *
710221 AAAATATAATTTTTGGAAGTTTGGGGGTAAAAATATGATTTTTGAAAGTTCGAGGAAAAAAATGT
1 AAAATATAATTTTTGAAAGTTTGAGGGAAAAAAAATAATTTTTGAAAGTTCGAGGAAAAAAATGT
* ***
710286 GATTTTTGGAAGTTCGGAGGCAAAATTGTGATTTTTGGAAGTT
66 AATTTTCAAAAGTTCGGAGGCAAAATTGTGATTTTTGGAAGTT
710329 TAAGGGTAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
112 69 0.75
113 6 0.07
114 17 0.18
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (114 bp):
AAAATATAATTTTTGAAAGTTTGAGGGAAAAAAAATAATTTTTGAAAGTTCGAGGAAAAAAATGT
AATTTTCAAAAGTTCGGAGGCAAAATTGTGATTTTTGGAAGTTCGGGGG
Found at i:710360 original size:30 final size:29
Alignment explanation
Indices: 710308--710411 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 29
710298 TTCGGAGGCA
*
710308 AAATTGTGATTTTTG-GAAGTTTAAGGGT
1 AAATTGTGATTTTTGAAAAGTTTAAGGGT
710336 AAACTTGTGATTTTTGAAAAGTTT-AGGAGTT
1 AAA-TTGTGATTTTTGAAAAGTTTAAGG-G-T
* * **
710367 AAAATGTAATTTTAAAAAAGTTTAAGGGTT
1 AAATTGTGATTTTTGAAAAGTTTAAGGG-T
* *
710397 AAAATATGATTTTTG
1 AAATTGTGATTTTTG
710412 GACAGTTCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
28 3 0.05
29 15 0.24
30 37 0.60
31 7 0.11
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (29 bp):
AAATTGTGATTTTTGAAAAGTTTAAGGGT
Found at i:710950 original size:17 final size:16
Alignment explanation
Indices: 710924--710960 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
710914 TCCCTTTCAC
*
710924 TTTCAAAAAAAAAGAT
1 TTTCAAAAAAAAACAT
710940 TTTCGAAAAAAAAACAT
1 TTTC-AAAAAAAAACAT
710957 TTTC
1 TTTC
710961 TCTGTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (16 bp):
TTTCAAAAAAAAACAT
Found at i:712239 original size:6 final size:6
Alignment explanation
Indices: 712222--712319 Score: 62
Period size: 6 Copynumber: 16.8 Consensus size: 6
712212 AGACTTTTAA
* * * * *
712222 TTAAATT TTAAAT TTAAAT TTAAA- ATAAAT TTAAAC TCAAA- ATAATT
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * * *
712269 TTAAAT TTAAA- ATAAAT TTAAAC TTAAA- AT-AAT TTAAAAT TTAAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT
712315 TTAAA
1 TTAAA
712320 AATTGGATTC
Statistics
Matches: 70, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
4 2 0.03
5 12 0.17
6 46 0.66
7 10 0.14
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:712240 original size:13 final size:13
Alignment explanation
Indices: 712222--712320 Score: 50
Period size: 11 Copynumber: 7.9 Consensus size: 13
712212 AGACTTTTAA
*
712222 TTAAATTTTAAAT
1 TTAAATTTAAAAT
712235 TTAAATTTAAAA-
1 TTAAATTTAAAAT
*
712247 -TAAATTT-AAAC
1 TTAAATTTAAAAT
* * *
712258 TCAAA-AT-AATT
1 TTAAATTTAAAAT
712269 TTAAATTTAAAA-
1 TTAAATTTAAAAT
*
712281 -TAAATTTAAACT
1 TTAAATTTAAAAT
*
712293 TAAAATAATTTAAAAT
1 T--TA-AATTTAAAAT
*
712309 TTAAAATTAAAA
1 TTAAATTTAAAA
712321 ATTGGATTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
10 3 0.05
11 24 0.38
12 4 0.06
13 21 0.33
14 1 0.02
15 1 0.02
16 10 0.16
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAATTTAAAAT
Found at i:712250 original size:17 final size:17
Alignment explanation
Indices: 712230--712315 Score: 120
Period size: 17 Copynumber: 5.1 Consensus size: 17
712220 AATTAAATTT
712230 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
712247 TAAATTTAAACTCAAAA
1 TAAATTTAAATTTAAAA
*
712264 TAATTTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
712281 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
712298 T-AATTTAAAATTTAAAA
1 TAAATTT-AAATTTAAAA
712315 T
1 T
712316 TAAAAATTGG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
16 5 0.08
17 55 0.92
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:716788 original size:24 final size:25
Alignment explanation
Indices: 716750--716798 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
716740 TAAAATAATC
*
716750 TAAATTAATCAAAATTTAACTAAAA
1 TAAATAAATCAAAATTTAACTAAAA
*
716775 TAAATAAAT-AAAATTTAATTAAAA
1 TAAATAAATCAAAATTTAACTAAAA
716799 AATTAATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAATAAATCAAAATTTAACTAAAA
Found at i:716998 original size:22 final size:22
Alignment explanation
Indices: 716955--717004 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
716945 ACAAACTAAT
* *
716955 AAATAACATATAAATATCAATA
1 AAATAAAATATAAATATAAATA
* *
716977 AAATAAAATTTAAATTTAAATA
1 AAATAAAATATAAATATAAATA
*
716999 TAATAA
1 AAATAA
717005 TTATCAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATAAAATATAAATATAAATA
Found at i:717800 original size:18 final size:17
Alignment explanation
Indices: 717777--717810 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
717767 TGTGTTCTAA
717777 ATTATATAATATAAAAAT
1 ATTATA-AATATAAAAAT
*
717795 ATTATAAATTTAAAAA
1 ATTATAAATATAAAAA
717811 CGAGTCAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTATAAATATAAAAAT
Found at i:724548 original size:27 final size:26
Alignment explanation
Indices: 724497--724568 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
724487 ACAAACCAAT
*
724497 ATGCTACCCTCCTT-CTACGAACGAAG
1 ATGCTACCCT-CTTGCTATGAACGAAG
*
724523 ATGCTATCCCTCTTGCTATGAGCGAAG
1 ATGCTA-CCCTCTTGCTATGAACGAAG
* *
724550 CTGTTACCCTTCTTGCTAT
1 ATGCTACCC-TCTTGCTAT
724569 AAATTTAGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 12 0.31
27 27 0.69
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.32
Consensus pattern (26 bp):
ATGCTACCCTCTTGCTATGAACGAAG
Found at i:724952 original size:69 final size:68
Alignment explanation
Indices: 724800--725255 Score: 327
Period size: 69 Copynumber: 6.6 Consensus size: 68
724790 GAAGTTTCAC
* * * * * *
724800 TAACTATGTTAGAAGTTAC-GACTCTTCGCTTGTGAACCCTA-AATAATAGCTGAAAGCTTTTCT
1 TAACTATGTTAGAGGTTGCGGCCT-TTCGCTTGTGAACCTTAGAATGATAGCTG-AAGCTTTGCT
*
724863 CTCGC
64 CTCGA
* * * *
724868 TAACTGTGTTGGAGGTTGCGGCCTTTCGCTTGTGAACCTTAAAATGATAGCTCGAAGCTTTACTC
1 TAACTATGTTAGAGGTTGCGGCCTTTCGCTTGTGAACCTTAGAATGATAGCT-GAAGCTTTGCTC
724933 TCGA
65 TCGA
* * * * * * *
724937 TAAATATGTTAGAGGTTACGACTCTTT-GCCTGCGAACCTGAGAATGATAGCTGAGAGCTTTTCT
1 TAACTATGTTAGAGGTTGCGGC-CTTTCGCTTGTGAACCTTAGAATGATAGCTGA-AGCTTTGCT
725001 CTCGCA
64 CTCG-A
* * * * ** * *
725007 -AACTGTGTT-GAAGGTTGTGGCTTTTCGCCTACGAACCTTAGAATGACAACTGAGAGCTTTGCT
1 TAACTATGTTAG-AGGTTGCGGCCTTTCGCTTGTGAACCTTAGAATGATAGCTGA-AGCTTTGCT
725070 CTC-A
64 CTCGA
* * * * * * *
725074 CTAATTATGTTTGAGGTTGTGG-CTCTTCGCTTGTGAACCTTAGAATGAAATCTGGGAGCTTTCC
1 -TAACTATGTTAGAGGTTGCGGCCT-TTCGCTTGTGAACCTTAGAATGATAGCT-GAAGCTTTGC
**
725138 TCTCCT
63 TCTCGA
* * * *
725144 TAACTATGTTAGAGGTTGGGGCTCTTT-GCTTGTGAACCTTAGAATAATAGTTGGGAGCTTTGCT
1 TAACTATGTTAGAGGTTGCGGC-CTTTCGCTTGTGAACCTTAGAATGATAGCT-GAAGCTTTGCT
**
725208 CTCTC
64 CTCGA
* * *
725213 TAACTATGTTAGAGGTTGCGACTCTTT-GCCTGCGAACCTTAGA
1 TAACTATGTTAGAGGTTGCGGC-CTTTCGCTTGTGAACCTTAGA
725256 TTGACATAAG
Statistics
Matches: 317, Mismatches: 55, Indels: 31
0.79 0.14 0.08
Matches are distributed among these distances:
67 1 0.00
68 38 0.12
69 266 0.84
70 10 0.03
71 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (68 bp):
TAACTATGTTAGAGGTTGCGGCCTTTCGCTTGTGAACCTTAGAATGATAGCTGAAGCTTTGCTCT
CGA
Found at i:725252 original size:138 final size:138
Alignment explanation
Indices: 724796--725255 Score: 475
Period size: 138 Copynumber: 3.3 Consensus size: 138
724786 GCTGGAAGTT
* * * * *
724796 TCACTAACTATGTTAGAAGTTACGACTCTTCGCTTGTGAACCCTA-AAT-AATAGCTGAAAGCTT
1 TCACTAACTATGTTAGAGGTTACGACTCTTCGCCTGCGAACCTTAGAATGAA-AGCTGAGAGCTT
* * *
724859 TTCTCTCGCTAACTGTGTTGGAGGTTGCGGC-CTTTCGCTTGTGAACCTTAAAATGATAGCTCGA
65 TTCTCTCGCTAACTGTGTT-GAGGTTGCGGCTCTTTCGCTTGTGAACCTTAGAATGATAGCTGGG
*
724923 AGCTTTACTC
129 AGCTTTGCTC
* * * *
724933 TCGA-TAAATATGTTAGAGGTTACGACTCTTTGCCTGCGAACCTGAGAATGATAGCTGAGAGCTT
1 TC-ACTAACTATGTTAGAGGTTACGACTCTTCGCCTGCGAACCTTAGAATGAAAGCTGAGAGCTT
* * * ** * * *
724997 TTCTCTCGCAAACTGTGTTGAAGGTTGTGGCT-TTTCGCCTACGAACCTTAGAATGACAACTGAG
65 TTCTCTCGCTAACTGTGTTG-AGGTTGCGGCTCTTTCGCTTGTGAACCTTAGAATGATAGCTGGG
725061 AGCTTTGCTC
129 AGCTTTGCTC
* * ** * * * * *
725071 TCACTAATTATGTTTGAGGTTGTGGCTCTTCGCTTGTGAACCTTAGAATGAAATCTGGGAGCTTT
1 TCACTAACTATGTTAGAGGTTACGACTCTTCGCCTGCGAACCTTAGAATGAAAGCTGAGAGCTTT
* * * * *
725136 CCTCTC-CTTAACTATGTTAGAGGTTGGGGCTCTTT-GCTTGTGAACCTTAGAATAATAGTTGGG
66 TCTCTCGC-TAACTGTGTT-GAGGTTGCGGCTCTTTCGCTTGTGAACCTTAGAATGATAGCTGGG
725199 AGCTTTGCTC
129 AGCTTTGCTC
* * *
725209 TCTCTAACTATGTTAGAGGTTGCGACTCTTTGCCTGCGAACCTTAGA
1 TCACTAACTATGTTAGAGGTTACGACTCTTCGCCTGCGAACCTTAGA
725256 TTGACATAAG
Statistics
Matches: 261, Mismatches: 53, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
137 39 0.15
138 217 0.83
139 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (138 bp):
TCACTAACTATGTTAGAGGTTACGACTCTTCGCCTGCGAACCTTAGAATGAAAGCTGAGAGCTTT
TCTCTCGCTAACTGTGTTGAGGTTGCGGCTCTTTCGCTTGTGAACCTTAGAATGATAGCTGGGAG
CTTTGCTC
Found at i:725252 original size:207 final size:207
Alignment explanation
Indices: 724799--725261 Score: 493
Period size: 207 Copynumber: 2.2 Consensus size: 207
724789 GGAAGTTTCA
* * * * * * * * * *
724799 CTAACTATGTTAGAAGTTACGACTCTTCGCTTGTGAACCCTA-AATAATAGCTGAAAGCTTTTCT
1 CTAACTATGTTAGAGGTTGCGACTCTTTGCCTGCGAACCTTAGAATGACAACTGAAAGCTTTGCT
* * *
724863 CTCGCTAACTGTGTTGGAGGTTGCGGCCTTTCGCTTGTGAACCTTAAAATGATAGCTCGAAGCTT
66 CTCACTAACTATGTTGGAGGTTGCGGCCTTTCGCTTGTGAACCTTAAAATGAAAGCTCGAAGCTT
* *
724928 TACTCTCGATAAATATGTTAGAGGTTACGACTCTTTGCCTGCGAACCTGAGAATGATAGCTGAGA
131 TACTCTCCATAAATATGTTAGAGGTTACGACTCTTTGCCTGCGAACCTGAGAATAATAGCTGAGA
*
724993 GCTTTTCTCTCG
196 GCTTTGCTCTCG
* * * * * *
725005 CAAACTGTGTT-GAAGGTTGTGGCT-TTTCGCCTACGAACCTTAGAATGACAACTGAGAGCTTTG
1 CTAACTATGTTAG-AGGTTGCGACTCTTT-GCCTGCGAACCTTAGAATGACAACTGAAAGCTTTG
* * * * * * *
725068 CTCTCACTAATTATGTTTGAGGTTGTGG-CTCTTCGCTTGTGAACCTTAGAATGAAATCTGGGAG
64 CTCTCACTAACTATGTTGGAGGTTGCGGCCT-TTCGCTTGTGAACCTTAAAATGAAAGCTCGAAG
* * * ** * * * * *
725132 CTTTCCTCTCCTTAACTATGTTAGAGGTTGGGGCTCTTTGCTTGTGAACCTTAGAATAATAGTTG
128 CTTTACTCTCCATAAATATGTTAGAGGTTACGACTCTTTGCCTGCGAACCTGAGAATAATAGCTG
* *
725197 GGAGCTTTGCTCTCT
193 AGAGCTTTGCTCTCG
*
725212 CTAACTATGTTAGAGGTTGCGACTCTTTGCCTGCGAACCTTAGATTGACA
1 CTAACTATGTTAGAGGTTGCGACTCTTTGCCTGCGAACCTTAGAATGACA
725262 TAAGTGTTTG
Statistics
Matches: 204, Mismatches: 47, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
205 3 0.01
206 28 0.14
207 169 0.83
208 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (207 bp):
CTAACTATGTTAGAGGTTGCGACTCTTTGCCTGCGAACCTTAGAATGACAACTGAAAGCTTTGCT
CTCACTAACTATGTTGGAGGTTGCGGCCTTTCGCTTGTGAACCTTAAAATGAAAGCTCGAAGCTT
TACTCTCCATAAATATGTTAGAGGTTACGACTCTTTGCCTGCGAACCTGAGAATAATAGCTGAGA
GCTTTGCTCTCG
Found at i:725359 original size:93 final size:93
Alignment explanation
Indices: 725200--725372 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
725190 ATAGTTGGGA
* * *
725200 GCTTTGCTCTCTCTAACTATGTTAGAGGTTGCGACTCTTTGCCTGCGAACCTTAGATTGACATAA
1 GCTTTGCTCTCGCTAACTATGTTAGAGGTTGCGACTCTTCGCCTGCGAACCTTAGATTGAAATAA
725265 GTGTTTGTTAAGAAATTTTTTTTTTATT
66 GTGTTTGTTAAGAAATTTTTTTTTTATT
* * * *
725293 GCTTTGCTCTCGCTAACTGTGTTGGAGGTTGTGACTCTTCGCCTGTGAACCTTAGATTGAAATAA
1 GCTTTGCTCTCGCTAACTATGTTAGAGGTTGCGACTCTTCGCCTGCGAACCTTAGATTGAAATAA
725358 GTGTTTGTTAAGAAA
66 GTGTTTGTTAAGAAA
725373 AAAAAAATTA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.40
Consensus pattern (93 bp):
GCTTTGCTCTCGCTAACTATGTTAGAGGTTGCGACTCTTCGCCTGCGAACCTTAGATTGAAATAA
GTGTTTGTTAAGAAATTTTTTTTTTATT
Found at i:737958 original size:20 final size:21
Alignment explanation
Indices: 737920--737959 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
737910 TTATTAAATA
* *
737920 TTAAAATAATATAATATAATT
1 TTAAAATAATAAAAAATAATT
737941 TTAAAA-AATAAAAAATAAT
1 TTAAAATAATAAAAAATAAT
737960 ACGGGTGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAAAATAATAAAAAATAATT
Found at i:739122 original size:58 final size:58
Alignment explanation
Indices: 739021--739146 Score: 184
Period size: 58 Copynumber: 2.2 Consensus size: 58
739011 GACACGAAAA
*
739021 TGAG-TTA-TTTATGAGTGTTATTTAGGAATAAAATTATAATTAGGTTTAAAAATAAT
1 TGAGTTTAGTTTATGAGTGTTATTTAAGAATAAAATTATAATTAGGTTTAAAAATAAT
* * * * *
739077 TGGGTTTAGTTTATGAGTGTTTTTTAAGAATGAAATTATATTTAGGTTTAAAAATATT
1 TGAGTTTAGTTTATGAGTGTTATTTAAGAATAAAATTATAATTAGGTTTAAAAATAAT
739135 TGAGTTTAGTTT
1 TGAGTTTAGTTT
739147 GTTTATGGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 3 0.05
57 3 0.05
58 55 0.90
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (58 bp):
TGAGTTTAGTTTATGAGTGTTATTTAAGAATAAAATTATAATTAGGTTTAAAAATAAT
Found at i:740490 original size:8 final size:8
Alignment explanation
Indices: 740479--740503 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
740469 CATAATAAAA
740479 AAAATTAT
1 AAAATTAT
740487 AAAATTAT
1 AAAATTAT
740495 AAAATTAT
1 AAAATTAT
740503 A
1 A
740504 TTACTTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATTAT
Found at i:747305 original size:22 final size:22
Alignment explanation
Indices: 747273--747322 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
747263 CAAAACATTA
*
747273 TTTTGTTACTCTCCTCATAATG
1 TTTTGTAACTCTCCTCATAATG
*
747295 TTTTGTAACTCTCCTCATAATT
1 TTTTGTAACTCTCCTCATAATG
747317 TTTTGT
1 TTTTGT
747323 TTTAAATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.08, T:0.54
Consensus pattern (22 bp):
TTTTGTAACTCTCCTCATAATG
Found at i:756000 original size:87 final size:85
Alignment explanation
Indices: 755849--756205 Score: 330
Period size: 87 Copynumber: 4.1 Consensus size: 85
755839 TCCAAAATTT
* * * * *
755849 CATTTGAACCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTATATTT
1 CATTTTAA-CCCTAAACTTCTCCAAAATCAC-TTTTAACCC-TAAACTTCTCCAAAATTACATTT
* ** *
755914 TAACCCTTAAACTTTTTATAATA
63 TGACCCTTAAACTTTCAAAAATA
* *
755937 CATTTTAACCCTAAACTTCTCCAAAATCACTTATTCACCCCAAACTTCTCCAAAATTAC-TATTT
1 CATTTTAACCCTAAACTTCTCCAAAATCACTT-TTAACCCTAAACTTCTCCAAAATTACAT-TTT
*
756001 GACCCCTAAACCTTTCAAAAATCA
64 GACCCTTAAA-CTTTCAAAAAT-A
* * *
756025 CATTTTAAACCTAAACTT-TTCAAAATTGTA-TTTTAACCTCTAAACTTCTCCAAAATTACATTT
1 CATTTTAACCCTAAACTTCTCCAAAA-T-CACTTTTAACC-CTAAACTTCTCCAAAATTACATTT
*
756088 TGACTCC-TAAACTTCTCCAAAAT-
63 TGAC-CCTTAAACTT-TCAAAAATA
* * * *
756111 CACTTTTACCCCCAAACCTTC-CCAAAATCACTTTTTAACCCTAAACTTCTCTAAAATTGCATTT
1 CA-TTTTAACCCTAAA-CTTCTCCAAAATCAC-TTTTAACCCTAAACTTCTCCAAAATTACATTT
*
756175 TGACCCTTAAACTTCTCCAAAATTA
63 TGACCCTTAAACTT-T-CAAAAATA
756200 CATTTT
1 CATTTT
756206 GACCTCATAT
Statistics
Matches: 224, Mismatches: 27, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
85 1 0.00
86 34 0.15
87 94 0.42
88 89 0.40
89 6 0.03
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (85 bp):
CATTTTAACCCTAAACTTCTCCAAAATCACTTTTAACCCTAAACTTCTCCAAAATTACATTTTGA
CCCTTAAACTTTCAAAAATA
Found at i:756186 original size:117 final size:116
Alignment explanation
Indices: 755803--756209 Score: 454
Period size: 116 Copynumber: 3.5 Consensus size: 116
755793 TTTGACCACC
* *
755803 AAACTTTTCTAAAATT-CATTTTTAACACC-AAACTTTTCCAAAATTTCA-TTTGAACCCCTAAA
1 AAACTTTTCTAAAATTGCA-TTTTAAC-CCTAAACTTCTCCAAAATTACATTTTG-A-CCCTAAA
* * * *
755865 CTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTA-TATTTTAACCCTT
62 CTTCTCCAAAATTAC-TTTTAACCCCTAAACCTTTCCAAAATCACT-TTTTAACCC-T
* * * * *
755922 AAACTTTT-TATAA-TACATTTTAACCCTAAACTTCTCCAAAATCAC-TTATTCACCCCAAACTT
1 AAACTTTTCTAAAATTGCATTTTAACCCTAAACTTCTCCAAAATTACATT-TTGACCCTAAACTT
* * * *
755984 CTCCAAAATTACTATTTGACCCCTAAACCTTTCAAAAATCACATTTTAAACCT
65 CTCCAAAATTACT-TTTAACCCCTAAACCTTTCCAAAATCACTTTTTAACCCT
*
756037 AAACTTTTC-AAAATTGTATTTTAACCTCTAAACTTCTCCAAAATTACATTTTGACTCCTAAACT
1 AAACTTTTCTAAAATTGCATTTTAACC-CTAAACTTCTCCAAAATTACATTTTGAC-CCTAAACT
* * *
756101 TCTCCAAAATCACTTTT-ACCCCCAAACCTTCCCAAAATCACTTTTTAACCCT
64 TCTCCAAAATTACTTTTAACCCCTAAACCTTTCCAAAATCACTTTTTAACCCT
* *
756153 AAACTTCTCTAAAATTGCATTTTGACCCTTAAACTTCTCCAAAATTACATTTTGACC
1 AAACTTTTCTAAAATTGCATTTTAACCC-TAAACTTCTCCAAAATTACATTTTGACC
756210 TCATATTCTT
Statistics
Matches: 246, Mismatches: 29, Indels: 29
0.81 0.10 0.10
Matches are distributed among these distances:
115 13 0.05
116 102 0.41
117 93 0.38
118 30 0.12
119 8 0.03
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (116 bp):
AAACTTTTCTAAAATTGCATTTTAACCCTAAACTTCTCCAAAATTACATTTTGACCCTAAACTTC
TCCAAAATTACTTTTAACCCCTAAACCTTTCCAAAATCACTTTTTAACCCT
Found at i:756209 original size:30 final size:29
Alignment explanation
Indices: 755782--756205 Score: 362
Period size: 30 Copynumber: 14.5 Consensus size: 29
755772 TGAATTCTTT
* * * *
755782 CAAAATTATATTTTGACCACCAAACTTTTC
1 CAAAATTACATTTTAACC-CTAAACTTCTC
* *
755812 TAAAATT-CATTTTTAACACC-AAACTTTTC
1 CAAAATTACA-TTTTAAC-CCTAAACTTCTC
* * *
755841 CAAAATTTCATTTGAACCCCTAAACTTTTC
1 CAAAATTACATTTTAA-CCCTAAACTTCTC
*
755871 CAAAATTACATTTTAACCCTTAAACTTTTC
1 CAAAATTACATTTTAACCC-TAAACTTCTC
* *
755901 CAAAATTATATTTTAACCCTTAAACTT-TT
1 CAAAATTACATTTTAACCC-TAAACTTCTC
* *
755930 TATAA-TACATTTTAACCCTAAACTTCTC
1 CAAAATTACATTTTAACCCTAAACTTCTC
* * *
755958 CAAAATCAC-TTATTCACCCCAAACTTCTC
1 CAAAATTACATT-TTAACCCTAAACTTCTC
* *
755987 CAAAATTACTATTTGACCCCTAAACCTT-TC
1 CAAAATTAC-ATTTTAACCCTAAA-CTTCTC
* * * *
756017 AAAAATCACATTTTAAACCTAAACTT-TT
1 CAAAATTACATTTTAACCCTAAACTTCTC
**
756045 CAAAATTGTATTTTAACCTCTAAACTTCTC
1 CAAAATTACATTTTAACC-CTAAACTTCTC
*
756075 CAAAATTACATTTTGACTCCTAAACTTCTC
1 CAAAATTACATTTTAAC-CCTAAACTTCTC
* * *
756105 CAAAATCAC-TTTTACCCCCAAACCTTC-C
1 CAAAATTACATTTTAACCCTAAA-CTTCTC
* *
756133 CAAAATCACTTTTTAACCCTAAACTTCTC
1 CAAAATTACATTTTAACCCTAAACTTCTC
* * *
756162 TAAAATTGCATTTTGACCCTTAAACTTCTC
1 CAAAATTACATTTTAACCC-TAAACTTCTC
756192 CAAAATTACATTTT
1 CAAAATTACATTTT
756206 GACCTCATAT
Statistics
Matches: 324, Mismatches: 51, Indels: 38
0.78 0.12 0.09
Matches are distributed among these distances:
27 7 0.02
28 54 0.17
29 109 0.34
30 147 0.45
31 7 0.02
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.37
Consensus pattern (29 bp):
CAAAATTACATTTTAACCCTAAACTTCTC
Found at i:765916 original size:3 final size:3
Alignment explanation
Indices: 765908--765939 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
765898 TATGATATTA
765908 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
765940 AGGGATGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:768488 original size:208 final size:206
Alignment explanation
Indices: 768113--768716 Score: 690
Period size: 208 Copynumber: 2.9 Consensus size: 206
768103 AGCATGAGAA
* * **
768113 AGAGTGAAACTTTCAAACCCCATCTTCCTAATAAGATA-TAGAGAAGTGGGTCGAAGCAATAAGG
1 AGAGTGAAAC-TTCAAACCCCATCTTCCTAATGAGATACTA-AGAAGTGGGTCAAAGCAATAAAA
* * * * * ** *
768177 CGGTCCTCTTCCTAACGAGATACAGAGAAATAAACCAAATCCGTCTTCATGATGAGATACAAAGA
64 CAGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCATGATGAGATAC-AAGA
* * *
768242 AGTGGATTGAAAAAATGAGGCGGCCATCTTCCTGATGAGATACAGAGAAGTAGACCAAGTCAATG
128 AGTGGATT-AAAAAATGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAGTCAATG
768307 AAGC-AGAGCTCAATG
192 AAGCGA-AGCTCAATG
**
768322 AGAGTGAAACTTCAAACTTCATCTTCCTAATGAGATACTAAGAAGTGGGTCAAAGCAATAAAACA
1 AGAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACTAAGAAGTGGGTCAAAGCAATAAAACA
* * * * *
768387 GTCTTCTTCTTGATGATATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAGAAGC
66 GTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCATGATGAGATACAAGAAGT
* * * * * * * **
768452 AGATTAAAACAAGTGATGCGGTCATCTTCTTGATGAGATACATAAAAGCAGATCAAATCGGTGAA
131 GGATTAAAA-AA-TGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAGTCAATGAA
768517 GCGAAGCTCAATG
194 GCGAAGCTCAATG
* * * * *
768530 CGAGTGAAACTTCGAACCCCACCTTCCTGATGAGATACTAAGAAGTAGGTCAAAGCAATAAAACA
1 AGAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACTAAGAAGTGGGTCAAAGCAATAAAACA
* * * ** * *
768595 ATCATCTTCCAGATGAGATATAGAGAAGTGGACCAAAAACATCTTCTTAATGAGATACAGAGAAG
66 GTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCATGATGAGATACA-AGAAG
* * * *
768660 TGGATCACAATAATGAAGCGATCATCTTCTTGATGAGATATAGAGAAGTAGACCAAG
130 TGGATTA-AAAAATGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAG
768717 AGATGAAGCC
Statistics
Matches: 331, Mismatches: 58, Indels: 13
0.82 0.14 0.03
Matches are distributed among these distances:
206 4 0.01
207 12 0.04
208 289 0.87
209 24 0.07
210 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (206 bp):
AGAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACTAAGAAGTGGGTCAAAGCAATAAAACA
GTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCATGATGAGATACAAGAAGT
GGATTAAAAAATGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAGTCAATGAAGC
GAAGCTCAATG
Found at i:782335 original size:30 final size:30
Alignment explanation
Indices: 782299--782555 Score: 234
Period size: 30 Copynumber: 8.6 Consensus size: 30
782289 GATTTACTTA
* * * *
782299 AAAATTATATTTTGACCCCTAAAATTTTCC
1 AAAATTACATTTTAACCCCTAAACTTCTCC
* *
782329 AAAATTATATTTTAACCCCTAAACTTCTCA
1 AAAATTACATTTTAACCCCTAAACTTCTCC
* *
782359 AAAATTACATTTTGACCCTTAAACTTCTCC
1 AAAATTACATTTTAACCCCTAAACTTCTCC
* *
782389 AAAATTGCATTTTAACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTCTCC
* * * *
782419 AAAATTGCATGTTAACCCTTAAACTT-TTC
1 AAAATTACATTTTAACCCCTAAACTTCTCC
* * * * *
782448 TAAATTACATTCTAACTCTTGAACTTCTCC
1 AAAATTACATTTTAACCCCTAAACTTCTCC
* * *
782478 AAAATCACATTATGACCCC-AAACCTTCT-C
1 AAAATTACATTTTAACCCCTAAA-CTTCTCC
* * *
782507 GAAATCACATTTTGACCCCTAAACTT-TCC
1 AAAATTACATTTTAACCCCTAAACTTCTCC
*
782536 TAAAATTACATTTTGACCCC
1 -AAAATTACATTTTAACCCC
782556 GTATTCTCCA
Statistics
Matches: 189, Mismatches: 33, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 46 0.24
30 142 0.75
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTCTCC
Found at i:782391 original size:60 final size:60
Alignment explanation
Indices: 782298--782554 Score: 243
Period size: 59 Copynumber: 4.3 Consensus size: 60
782288 TGATTTACTT
* * * * *
782298 AAAAATTATATTTTGACCCCTAAAATTTTCCAAAATTATATTTTAACCCCTAAACTTCTC
1 AAAAATTACATTTTGACCCTTAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCTC
* *
782358 AAAAATTACATTTTGACCCTTAAACTTCTCCAAAATTGCATTTTAACCCCTAAACTTTTC
1 AAAAATTACATTTTGACCCTTAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCTC
* * * * * * * * * *
782418 CAAAATTGCATGTTAACCCTTAAACTT-TTCTAAATTACATTCTAACTCTTGAACTTCTC
1 AAAAATTACATTTTGACCCTTAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCTC
* * * * * * *
782477 CAAAATCACATTATGACCC-CAAACCTTCT-CGAAATCACATTTTGACCCCTAAACTT-TCC
1 AAAAATTACATTTTGACCCTTAAA-CTTCTCCAAAATTACATTTTAACCCCTAAACTTCT-C
*
782536 TAAAATTACATTTTGACCC
1 AAAAATTACATTTTGACCC
782555 CGTATTCTCC
Statistics
Matches: 159, Mismatches: 35, Indels: 7
0.79 0.17 0.03
Matches are distributed among these distances:
58 4 0.03
59 78 0.49
60 77 0.48
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (60 bp):
AAAAATTACATTTTGACCCTTAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCTC
Found at i:782542 original size:89 final size:90
Alignment explanation
Indices: 782313--782547 Score: 235
Period size: 89 Copynumber: 2.6 Consensus size: 90
782303 TTATATTTTG
* * * * * * *
782313 ACCCCTAAAATTTTCCAAAATTATATTTTAACCCCTAAAC-TTCTCAAAAATTACATTTTGACCC
1 ACCCCTAAACTTCTCCAAAATCACATTTTAACCCCTAAACTTTC-CTAAAATTACATTCTAACCC
** *
782377 TTAAACTTCTCCAAAATTGCATTTTA
65 TTAAACTTCTCCAAAATCACATTATA
* ** * * * *
782403 ACCCCTAAACTTTTCCAAAATTGCATGTTAACCCTTAAACTTTTCT-AAATTACATTCTAACTCT
1 ACCCCTAAACTTCTCCAAAATCACATTTTAACCCCTAAACTTTCCTAAAATTACATTCTAACCCT
* *
782467 TGAACTTCTCCAAAATCACATTATG
66 TAAACTTCTCCAAAATCACATTATA
* *
782492 ACCCC-AAACCTTCT-CGAAATCACATTTTGACCCCTAAACTTTCCTAAAATTACATT
1 ACCCCTAAA-CTTCTCCAAAATCACATTTTAACCCCTAAACTTTCCTAAAATTACATT
782548 TTGACCCCGT
Statistics
Matches: 119, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
88 27 0.23
89 54 0.45
90 36 0.30
91 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (90 bp):
ACCCCTAAACTTCTCCAAAATCACATTTTAACCCCTAAACTTTCCTAAAATTACATTCTAACCCT
TAAACTTCTCCAAAATCACATTATA
Found at i:789743 original size:101 final size:101
Alignment explanation
Indices: 789568--789770 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
789558 TTAGGCTAGA
789568 AAGCAATATGAATCTTTTTGTAAAAAGGGCTCATGGTCATTATCTAGTTATTTTGAATGAAAATG
1 AAGCAATATGAATCTTTTTGTAAAAAGGGCTCATGGTCATTATCTAGTTATTTTGAATGAAAATG
789633 TATCTTCTATCTTACATGGCAAATCTTTCGCTAATT
66 TATCTTCTATCTTACATGGCAAATCTTTCGCTAATT
789669 AAGCAATATGAATCTTTTTGTAAAAAGGGCTCATGGTCATTATCTAGTTATTTTGAATGAAAATG
1 AAGCAATATGAATCTTTTTGTAAAAAGGGCTCATGGTCATTATCTAGTTATTTTGAATGAAAATG
789734 TATCTTCTATCTTACATGGCAAATCTTTCGCTAATT
66 TATCTTCTATCTTACATGGCAAATCTTTCGCTAATT
789770 A
1 A
789771 TTCTTTCATT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (101 bp):
AAGCAATATGAATCTTTTTGTAAAAAGGGCTCATGGTCATTATCTAGTTATTTTGAATGAAAATG
TATCTTCTATCTTACATGGCAAATCTTTCGCTAATT
Found at i:792054 original size:3 final size:3
Alignment explanation
Indices: 792046--792072 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
792036 TTATGATATT
792046 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
792073 AGGGATGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:794449 original size:210 final size:210
Alignment explanation
Indices: 794087--794658 Score: 783
Period size: 210 Copynumber: 2.7 Consensus size: 210
794077 CTTAAAAAGG
* * ** *
794087 TCATCTTCTTGATGAGATACAGAGAAGTAGACCAATTCAACAAAGTGAAGCTT-AATGTGAGTGA
1 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAG-TTCAATGTGAGTGA
* * *
794151 AACTTCCAAA-CCCCATCTTCCTAATGAGATACTGAGAAATGGGTCAAAGTAATAAAGCGGTCAT
65 AACTT-CAAACCCCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGTAATAAAGCAGTCAT
* ** * *
794215 CTTCCTGATCAGATACTGAGAAGTGGACAAAATTTGTCTTCCTAATGAGATATAGAGAAGTGGAT
129 CTTCCTGATCAGATACAGAGAAGTGGACAAAATCCGTCTTCCTAATAAGATACAGAGAAGTGGAT
794280 TAAAACAAATGAGGCGA
194 TAAAACAAATGAGGCGA
* *
794297 TCATCTTCCTGATGAGATATAGAGAAGTAGACCAAATCGATGAAGCGAAGTTCAATGTGAGTGAA
1 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGTTCAATGTGAGTGAA
** * * ** *
794362 ACTTTGAACCCCCATCTTCTTGATGAGATATTGAGAAGTGGGTCAAAGTAATAAAGCAGTTGTGT
66 ACTTCAAACCCCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGTAATAAAGCAGTCATCT
* * *
794427 TCTTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTAATAAGATACAGAGAAGTGGATTA
131 TCCTGATCAGATACAGAGAAGTGGACAAAATCCGTCTTCCTAATAAGATACAGAGAAGTGGATTA
794492 AAACAAATGAGGCGA
196 AAACAAATGAGGCGA
* * * *
794507 TCATCTTTCGGATGAGATACAGAGAAGTATACCAAATCAAATGAAGCAAAGTTCAATGTGAGTGA
1 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATC-AATGAAGCGAAGTTCAATGTGAGTGA
* *
794572 AGCTTCAAACCCCC-TCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGC-GATCAT
65 AACTTCAAACCCCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGTAATAAAGCAG-TCAT
* *
794635 CTTCCTGATGAGATATAGAGAAGT
129 CTTCCTGATCAGATACAGAGAAGT
794659 AGACCGATAG
Statistics
Matches: 316, Mismatches: 42, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
209 5 0.02
210 276 0.87
211 35 0.11
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (210 bp):
TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGTTCAATGTGAGTGAA
ACTTCAAACCCCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGTAATAAAGCAGTCATCT
TCCTGATCAGATACAGAGAAGTGGACAAAATCCGTCTTCCTAATAAGATACAGAGAAGTGGATTA
AAACAAATGAGGCGA
Found at i:796665 original size:30 final size:30
Alignment explanation
Indices: 796607--796797 Score: 215
Period size: 30 Copynumber: 6.4 Consensus size: 30
796597 GCTTTATTTA
* ** *
796607 AAAATTACATTTTGACCTTTAAAGTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * *
796637 ATAAA-CACATTTTAACCCCTAAATTTTTCA
1 A-AAATTACATTTTAACCCCTAAACTTTTCC
* *
796667 AAAATTACATTTTAACCCCTAAACTTCTCT
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* *
796697 AAAATTACATTTTAACCCCTAAACTTCTCT
1 AAAATTACATTTTAACCCCTAAACTTTTCC
*
796727 AAAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* *
796757 AGAATTACATTTTAACCCTTAAACTTCTT-C
1 AAAATTACATTTTAACCCCTAAACTT-TTCC
*
796787 AAAATCACATT
1 AAAATTACATT
796798 AGGACCTCAA
Statistics
Matches: 140, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
29 3 0.02
30 132 0.94
31 5 0.04
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTTCC
Found at i:796791 original size:60 final size:60
Alignment explanation
Indices: 796607--796872 Score: 247
Period size: 60 Copynumber: 4.5 Consensus size: 60
796597 GCTTTATTTA
** * * ** * * *
796607 AAAATTACATTTTGACCTTTAAAGTTTTCCATAAACACATTTTAACCCCTAAATTTTTCA
1 AAAATTACATTTTGACCCCTAAACTTTTCCAGAATTACATTTTAACCCCTAAACTTCTCT
* * * *
796667 AAAATTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAACCCCTAAACTTCTCT
1 AAAATTACATTTTGACCCCTAAACTTTTCCAGAATTACATTTTAACCCCTAAACTTCTCT
*
796727 AAAATTACATTTTGACCCCTAAACTTTTCCAGAATTACATTTTAACCCTTAAACTTCT-T
1 AAAATTACATTTTGACCCCTAAACTTTTCCAGAATTACATTTTAACCCCTAAACTTCTCT
* ** * * * *
796786 CAAAATCACATTAGGACCTC-AAAC-CTTCTC-GAATTCACATTTTGACCTC-AAACTTCTCT
1 -AAAATTACATTTTGACCCCTAAACTTTTC-CAGAATT-ACATTTTAACCCCTAAACTTCTCT
* * *
796845 AAAATCACATTTT-ACCCCCAAACATTTC
1 AAAATTACATTTTGACCCCTAAACTTTTC
796873 TAAAAATTAT
Statistics
Matches: 171, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
57 4 0.02
58 31 0.18
59 20 0.12
60 116 0.68
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (60 bp):
AAAATTACATTTTGACCCCTAAACTTTTCCAGAATTACATTTTAACCCCTAAACTTCTCT
Found at i:796814 original size:30 final size:28
Alignment explanation
Indices: 796777--796855 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
796767 TTTAACCCTT
796777 AAACTTCTTCAAAATCACATTAGGACCTC
1 AAACTTC-TCAAAATCACATTAGGACCTC
* * **
796806 AAACCTTCTCGAATTCACATTTTGACCTC
1 AAA-CTTCTCAAAATCACATTAGGACCTC
796835 AAACTTCTCTAAAATCACATT
1 AAACTTCTC-AAAATCACATT
796856 TTACCCCCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 6 0.14
29 32 0.76
30 4 0.10
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (28 bp):
AAACTTCTCAAAATCACATTAGGACCTC
Found at i:796814 original size:90 final size:89
Alignment explanation
Indices: 796642--796877 Score: 241
Period size: 90 Copynumber: 2.7 Consensus size: 89
796632 TTTCCATAAA
* * *
796642 CACATTTTAACCCCTAAATTTTTCAAAAATTACATTTTAACCCCTAAACTTCTCTAAAATTACAT
1 CACATTTTGACCCCTAAACTTTTCAAAAATTACATTTTAACCCCTAAACTTCTCTAAAATCACAT
**
796707 TTTAACCCCTAAACTTCTCTAAAATT
66 TAGAACCCCTAAACTTCTC--AAATT
* * *
796733 -ACATTTTGACCCCTAAACTTTTCCAGAATTACATTTTAACCCTTAAACTTCT-TCAAAATCACA
1 CACATTTTGACCCCTAAACTTTTCAAAAATTACATTTTAACCCCTAAACTTCTCT-AAAATCACA
* * *
796796 TTAGGACCTC-AAACCTTCTCGAATT
65 TTAGAACCCCTAAA-CTTCTCAAATT
* * * * *
796821 CACATTTTGACCTC-AAACTTCTCTAAAATCACATTTT-ACCCCCAAACATT-TCTAAAA
1 CACATTTTGACCCCTAAACTTTTCAAAAATTACATTTTAACCCCTAAAC-TTCTCTAAAA
796878 ATTATGTTTT
Statistics
Matches: 122, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
87 13 0.11
88 26 0.21
89 16 0.13
90 67 0.55
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.35
Consensus pattern (89 bp):
CACATTTTGACCCCTAAACTTTTCAAAAATTACATTTTAACCCCTAAACTTCTCTAAAATCACAT
TAGAACCCCTAAACTTCTCAAATT
Found at i:798346 original size:45 final size:46
Alignment explanation
Indices: 798248--798355 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 46
798238 CTTATAACAG
* *
798248 ATTCAACCAAATAATAATCATCTTATTATTCTTATCATATATCATC
1 ATTCAACCAAATAATAATCATATTATTATTCTTATCATATAGCATC
* * *
798294 ACT-AACCAATTAATGATCATATTATTATTCGATT-T-ATATAGCAT-
1 ATTCAACCAAATAATAATCATATTATTATTC--TTATCATATAGCATC
*
798338 ATTCAACCAAGTAATAAT
1 ATTCAACCAAATAATAAT
798356 TCTCTATATC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
44 2 0.04
45 44 0.86
46 3 0.06
47 2 0.04
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.39
Consensus pattern (46 bp):
ATTCAACCAAATAATAATCATATTATTATTCTTATCATATAGCATC
Found at i:805801 original size:21 final size:21
Alignment explanation
Indices: 805775--805820 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
805765 TTTAATTAAT
805775 TTTTTAAAATATTAAAAATAA
1 TTTTTAAAATATTAAAAATAA
* * * *
805796 TTTTTATACTTTTTAAAATAA
1 TTTTTAAAATATTAAAAATAA
805817 TTTT
1 TTTT
805821 AATGCTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTTAAAATATTAAAAATAA
Found at i:805828 original size:21 final size:21
Alignment explanation
Indices: 805789--805831 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
805779 TAAAATATTA
*
805789 AAAATAATTTTTATACTTTTT
1 AAAATAATTTTAATACTTTTT
*
805810 AAAATAATTTTAATGCTTTTT
1 AAAATAATTTTAATACTTTTT
805831 A
1 A
805832 TTTTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (21 bp):
AAAATAATTTTAATACTTTTT
Found at i:806015 original size:18 final size:18
Alignment explanation
Indices: 805974--806015 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
805964 TAACACAAAT
805974 TTAAAAATAAATAAAAGC
1 TTAAAAATAAATAAAAGC
**
805992 CAAAAAATAAATTAAAAG-
1 TTAAAAATAAA-TAAAAGC
806010 TTAAAA
1 TTAAAA
806016 TAATTTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (18 bp):
TTAAAAATAAATAAAAGC
Found at i:806048 original size:14 final size:14
Alignment explanation
Indices: 806017--806059 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
806007 AAGTTAAAAT
806017 AATTTCTTTTATAA
1 AATTTCTTTTATAA
*
806031 AATTT-TTTTATCAG
1 AATTTCTTTTAT-AA
806045 AATTTCTTTTATAA
1 AATTTCTTTTATAA
806059 A
1 A
806060 TTATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 6 0.24
14 13 0.52
15 6 0.24
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (14 bp):
AATTTCTTTTATAA
Found at i:806891 original size:16 final size:16
Alignment explanation
Indices: 806867--806897 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
806857 AATACTTTTC
*
806867 AAAAGTGTTTTTGGGA
1 AAAAATGTTTTTGGGA
806883 AAAAATGTTTTTGGG
1 AAAAATGTTTTTGGG
806898 GAGAAGTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (16 bp):
AAAAATGTTTTTGGGA
Found at i:807060 original size:252 final size:254
Alignment explanation
Indices: 806564--807068 Score: 621
Period size: 252 Copynumber: 2.0 Consensus size: 254
806554 ACGGATCTAA
* * **
806564 AAATCATTTTTATTCTATAACATTAAGGCCTAATTTAAAAATGTTTTCTCAAAAGTGCTTTTAAG
1 AAATCATTTTTATTCTACAACACTAAGGCCTAATTTAAAAATACTTTCTCAAAAGTGCTTTTAAG
* ** * *
806629 AAAAAATATTTTTGGGGAGAAGCTAAAATTTTCAATTTTTGAAAAGGTATTTTTGAGTCAATTTT
66 AAAAAATATTTTTGGGGAGAAGCTAAAATTTTCAACTTCAGAAAAAGTACTTTTGAGTCAATTTT
* * *
806694 TTGCTTAGGAGAAACACTTTTTCTCTCAAAAAGCAGCTTATTTAGGATCACTTTTGTCCCGAAAG
131 TTGCTTAGGAGAAACACTTTTTCTCTCAAAAAACAGCTTATTTAGGAACACTTTTGTCCCAAAAG
*
806759 TATTTCTTAAAAGCAATACTAAACAAACCCTAAATCCCAACTTAAAGAATGTAAAATTT
196 TATTTCTTAAAAGCAATACTAAACAAACCCTAAATCCCAACTAAAAGAATGTAAAATTT
* * * * **
806818 AAATCGTTTTTGTTCTACAACACTAAGGCCTAATTTAAGAATACTTT-TCAAAAGTGTTTTTGGG
1 AAATCATTTTTATTCTACAACACTAAGGCCTAATTTAAAAATACTTTCTCAAAAGTGCTTTTAAG
* * *
806882 AAAAAATGTTTTTGGGGAGAAGTTAAAACTTTT-AACTTCAGAAAAAGTGCTTTTGAG-CAAATT
66 AAAAAATATTTTTGGGGAGAAGCTAAAA-TTTTCAACTTCAGAAAAAGTACTTTTGAGTC-AATT
** * * *
806945 TTTTG-TT-GGAAAGAAA-TTTTTTTCTCTTAAAAAACAGTTTATTTAGGAACATTTTTGTCCCA
129 TTTTGCTTAGG--AGAAACACTTTTTCTCTCAAAAAACAGCTTATTTAGGAACACTTTTGTCCCA
* * * *
807007 AAAGTGTTTCTTAGAAA-CAATACTAAACAGACCCT-AATCCCGACTCAAAAGAATGTAGAATT
192 AAAGTATTTCTTA-AAAGCAATACTAAACAAACCCTAAATCCCAACT-AAAAGAATGTAAAATT
807069 GATGGGCATC
Statistics
Matches: 214, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
251 11 0.05
252 84 0.39
253 75 0.35
254 44 0.21
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (254 bp):
AAATCATTTTTATTCTACAACACTAAGGCCTAATTTAAAAATACTTTCTCAAAAGTGCTTTTAAG
AAAAAATATTTTTGGGGAGAAGCTAAAATTTTCAACTTCAGAAAAAGTACTTTTGAGTCAATTTT
TTGCTTAGGAGAAACACTTTTTCTCTCAAAAAACAGCTTATTTAGGAACACTTTTGTCCCAAAAG
TATTTCTTAAAAGCAATACTAAACAAACCCTAAATCCCAACTAAAAGAATGTAAAATTT
Found at i:813946 original size:75 final size:75
Alignment explanation
Indices: 813823--813972 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
813813 AATAACCGTT
813823 TGATTGATTGATTCTGTTTGGATGTTTGTCTTTTGATTAATATATAATTTTTCTTCTTAGTATTG
1 TGATTGATTGATTCTGTTTGGATGTTTGTCTTTTGATTAATATATAATTTTTCTTCTTAGTATTG
813888 GCTTTGGTTG
66 GCTTTGGTTG
813898 TGATTGATTGATTCTGTTTGGATGTTTGTCTTTTGATTAATATATAATTTTTCTTCTTAGTATTG
1 TGATTGATTGATTCTGTTTGGATGTTTGTCTTTTGATTAATATATAATTTTTCTTCTTAGTATTG
813963 GCTTTGGTTG
66 GCTTTGGTTG
813973 AATCATGTGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.17, C:0.07, G:0.20, T:0.56
Consensus pattern (75 bp):
TGATTGATTGATTCTGTTTGGATGTTTGTCTTTTGATTAATATATAATTTTTCTTCTTAGTATTG
GCTTTGGTTG
Found at i:815599 original size:45 final size:46
Alignment explanation
Indices: 815529--815621 Score: 152
Period size: 45 Copynumber: 2.0 Consensus size: 46
815519 TTTGTAATAT
** *
815529 TAGTTATGCACTTGGACGATGTTGTAGTTATCATGTGGTGTA-TAC
1 TAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGGTGTACTAC
815574 TAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGGTGTACTAC
1 TAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGGTGTACTAC
815620 TA
1 TA
815622 ATTTGTAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 39 0.89
46 5 0.11
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.40
Consensus pattern (46 bp):
TAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGGTGTACTAC
Found at i:815987 original size:20 final size:20
Alignment explanation
Indices: 815958--816003 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
815948 CATCCAAACA
815958 CCAG-AAAATA-TTAATTTTT
1 CCAGAAAAATAGTTAA-TTTT
*
815977 CCAGAAAAATAGTTCATTTT
1 CCAGAAAAATAGTTAATTTT
815997 CCAGAAA
1 CCAGAAA
816004 TCATTTTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 17 0.71
21 3 0.12
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (20 bp):
CCAGAAAAATAGTTAATTTT
Found at i:816364 original size:8 final size:8
Alignment explanation
Indices: 816351--816392 Score: 66
Period size: 8 Copynumber: 5.1 Consensus size: 8
816341 CATAATATAA
816351 TTTATTTT
1 TTTATTTT
816359 TTTATTTT
1 TTTATTTT
816367 TTTATTTT
1 TTTATTTT
816375 TTTATTTCT
1 TTTATTT-T
*
816384 TTTCTTTT
1 TTTATTTT
816392 T
1 T
816393 CTCATTTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 25 0.78
9 7 0.22
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTATTTT
Found at i:817613 original size:17 final size:16
Alignment explanation
Indices: 817587--817650 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 16
817577 GGTTTGGGTT
817587 TCTTTTTCTTTTTTTC
1 TCTTTTTCTTTTTTTC
817603 TCTTCTTTCTTAGTTTGGGTT-
1 TCTT-TTTCTT--TTT---TTC
817624 TCTTTTTCTTTTTTTC
1 TCTTTTTCTTTTTTTC
817640 TCTTCTTTCTT
1 TCTT-TTTCTT
817651 AGTTTGGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
15 2 0.05
16 8 0.20
17 12 0.30
18 3 0.08
19 3 0.08
20 6 0.15
21 4 0.10
22 2 0.05
ACGTcount: A:0.02, C:0.19, G:0.06, T:0.73
Consensus pattern (16 bp):
TCTTTTTCTTTTTTTC
Found at i:817628 original size:18 final size:18
Alignment explanation
Indices: 817605--817664 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
817595 TTTTTTTCTC
817605 TTCTTTCTTAGTTTGGGT
1 TTCTTTCTTAGTTTGGGT
***
817623 TTCTTTTTCTT--TTTTTCT
1 TTC--TTTCTTAGTTTGGGT
817641 CTTCTTTCTTAGTTTGGGT
1 -TTCTTTCTTAGTTTGGGT
817660 TTCTT
1 TTCTT
817665 AATTTTTTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
17 6 0.19
18 12 0.39
19 7 0.23
20 6 0.19
ACGTcount: A:0.03, C:0.15, G:0.13, T:0.68
Consensus pattern (18 bp):
TTCTTTCTTAGTTTGGGT
Found at i:817628 original size:37 final size:37
Alignment explanation
Indices: 817578--817664 Score: 174
Period size: 37 Copynumber: 2.4 Consensus size: 37
817568 TGGGGGTACG
817578 GTTTGGGTTTCTTTTTCTTTTTTTCTCTTCTTTCTTA
1 GTTTGGGTTTCTTTTTCTTTTTTTCTCTTCTTTCTTA
817615 GTTTGGGTTTCTTTTTCTTTTTTTCTCTTCTTTCTTA
1 GTTTGGGTTTCTTTTTCTTTTTTTCTCTTCTTTCTTA
817652 GTTTGGGTTTCTT
1 GTTTGGGTTTCTT
817665 AATTTTTTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.02, C:0.15, G:0.14, T:0.69
Consensus pattern (37 bp):
GTTTGGGTTTCTTTTTCTTTTTTTCTCTTCTTTCTTA
Found at i:829356 original size:10 final size:10
Alignment explanation
Indices: 829343--829388 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
829333 AAAAAATCAC
829343 AAAAAGAAAG
1 AAAAAGAAAG
829353 AAAAAGAAAG
1 AAAAAGAAAG
*
829363 AAGAAAAAAAG
1 AA-AAAGAAAG
829374 AGAAAAGAAAAG
1 A-AAAAG-AAAG
829386 AAA
1 AAA
829389 TATACTGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 12 0.39
11 13 0.42
12 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:829368 original size:17 final size:17
Alignment explanation
Indices: 829346--829378 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
829336 AAATCACAAA
829346 AAGAAAGAAAA-AGAAAG
1 AAGAAA-AAAAGAGAAAG
829363 AAGAAAAAAAGAGAAA
1 AAGAAAAAAAGAGAAA
829379 AGAAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAGAGAAAG
Found at i:831837 original size:19 final size:19
Alignment explanation
Indices: 831813--831852 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
831803 ATACATGCTA
831813 AAGAGAAACGATCATACAT
1 AAGAGAAACGATCATACAT
*
831832 AAGAGAAACGATCATGCAT
1 AAGAGAAACGATCATACAT
831851 AA
1 AA
831853 TCTCGCACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.15, G:0.17, T:0.15
Consensus pattern (19 bp):
AAGAGAAACGATCATACAT
Found at i:832459 original size:13 final size:14
Alignment explanation
Indices: 832441--832470 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
832431 GTTAATGCAA
832441 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
832454 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
832468 TCA
1 TCA
832471 ATGTGCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:835093 original size:24 final size:25
Alignment explanation
Indices: 835056--835107 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
835046 CAGGTTCTTT
*
835056 TTCTTCTTTCTCTTCTTCCTT-TCC
1 TTCTTCTTTCTCTTCATCCTTCTCC
*
835080 TTCTTC-TTCTTCTTGATCCTTCTCC
1 TTCTTCTTTC-TCTTCATCCTTCTCC
835105 TTC
1 TTC
835108 AACTGATCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 15 0.62
25 6 0.25
ACGTcount: A:0.02, C:0.37, G:0.02, T:0.60
Consensus pattern (25 bp):
TTCTTCTTTCTCTTCATCCTTCTCC
Found at i:842965 original size:13 final size:14
Alignment explanation
Indices: 842947--842976 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
842937 GTCTATGTAA
842947 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
842960 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
842974 TCA
1 TCA
842977 ATGTGCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:844903 original size:115 final size:115
Alignment explanation
Indices: 844684--844915 Score: 358
Period size: 115 Copynumber: 2.0 Consensus size: 115
844674 AGAAAGACAA
844684 TAGCTAAAAACTCTTTTTCAATAGTTGAATAGTTACTTTGGGCCGCATCCAAGGTCTTATATGCA
1 TAGCTAAAAACTCTTTTTCAATAGTTGAATAGTTACTTTGGGCCGCATCCAAGGTCTTATATGCA
844749 TAAGTGATAACATGCAGTTCATTCTCGATTCTTTGCCCAAGGACTGCTTT
66 TAAGTGATAACATGCAGTTCATTCTCGATTCTTTGCCCAAGGACTGCTTT
* * * * *
844799 TAGCTAAAAACTCTTTTTTAGTGGTTGAATAGTTGCTTTGGG-CGACATCCAATGTCTTATATGC
1 TAGCTAAAAACTCTTTTTCAATAGTTGAATAGTTACTTTGGGCCG-CATCCAAGGTCTTATATGC
* * * * *
844863 ATAAGTGATAACGTGCAGTTCCTTCTTGATTTTTTTCCCAAGGACTGCTTT
65 ATAAGTGATAACATGCAGTTCATTCTCGATTCTTTGCCCAAGGACTGCTTT
844914 TA
1 TA
844916 CACTGTGGTC
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 2 0.02
115 104 0.98
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (115 bp):
TAGCTAAAAACTCTTTTTCAATAGTTGAATAGTTACTTTGGGCCGCATCCAAGGTCTTATATGCA
TAAGTGATAACATGCAGTTCATTCTCGATTCTTTGCCCAAGGACTGCTTT
Found at i:845918 original size:19 final size:19
Alignment explanation
Indices: 845894--845933 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
845884 TTGAGTTTCA
845894 CTTTTGAGAATTGTATCCT
1 CTTTTGAGAATTGTATCCT
845913 CTTTTGAGAATTGTATCCT
1 CTTTTGAGAATTGTATCCT
845932 CT
1 CT
845934 ATTACTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (19 bp):
CTTTTGAGAATTGTATCCT
Found at i:849248 original size:18 final size:18
Alignment explanation
Indices: 849225--849264 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
849215 TTAGGAACAC
* *
849225 TTTTGTCTCAAATTTGTT
1 TTTTGTCCCAAATGTGTT
849243 TTTTGTCCCAAATGTGTT
1 TTTTGTCCCAAATGTGTT
849261 TTTT
1 TTTT
849265 AGAAGCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.60
Consensus pattern (18 bp):
TTTTGTCCCAAATGTGTT
Found at i:849520 original size:18 final size:18
Alignment explanation
Indices: 849497--849539 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
849487 TTTAAGAACA
849497 TTTTTGTCTCAAAAGTGT
1 TTTTTGTCTCAAAAGTGT
*
849515 TTTTTGTCTTAAAAGTGT
1 TTTTTGTCTCAAAAGTGT
849533 TTCTTTG
1 TT-TTTG
849540 AAATAATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.19, C:0.09, G:0.16, T:0.56
Consensus pattern (18 bp):
TTTTTGTCTCAAAAGTGT
Found at i:849860 original size:270 final size:269
Alignment explanation
Indices: 848435--850254 Score: 1436
Period size: 270 Copynumber: 6.7 Consensus size: 269
848425 TTAGGAACAA
* ** * *** * * *
848435 TTTTGTCCCAAAAGTGTGCCTTAGAAGCAATACTAAAGTTACCCTAAATC-CTGACTCAAAAAAT
1 TTTTGTCTCAAAAGTGTTTCTTAAAAGCAATACTAAACAGACTCTAAATCTC-AACTCAAAGAAT
* * * *
848499 GTAGAATTTAAATTGTTTTGGTTCTACAACACTAAGGCATAATTTAGGAATGCTTCTCAAAAGTG
65 GTAGAATTTAAATAGTTTTTGTTCTACAACACTAAGACTTAATTTAGGAATGCTTCTCAAAAGTG
* * * *
848564 CTTTTG-GAAAAAAATACTTTTGGGGAGAA-CTAAATTTTTCAATTTTTGAAAAAGAT-CTTTTA
130 CTTTTGAGAAAAAAATA-TTTTTGGGAGAAGCTAAAATTTTCAACTTCTGAAAAAG-TGCTTTT-
* ** *** * * * * *
848626 GAAAAAAAAATTT-CTTTAGGAGAAACATTTTTTCTCTCAAAAAGTTGCTTATTTAAGAACACTT
192 GGACCAATTTTTTGCTTGA-GAG-AA-ATATTTTCTCTCAAAAAGTAGATTATTTAGGAACACTT
* **
848690 TTATCCTAAAACAACATT
254 TTGT-CTAAAA-AATGTT
* * * * * * *
848708 ATGT-TC-CAAAAGTG-TTCGTAGAAGCAATA-GAAAAAGAC-CTTAAATCCCAACTC--AGAAT
1 TTTTGTCTCAAAAGTGTTTCTTAAAAGCAATACTAAACAGACTC-TAAATCTCAACTCAAAGAAT
* * * *
848766 GTAGAATTTAAATCGTCTTTGTTCTACAACACTAA-ACTTTAATTTAAGAATGCTTCTCAAAAAT
65 GTAGAATTTAAATAGTTTTTGTTCTACAACACTAAGAC-TTAATTTAGGAATGCTTCTCAAAAGT
* * ** * * * * * **
848830 GCTTTTGAAAAAAAAATGCTTTTCAGGATAAGTTAAAATTTTCAAGTTTTAAAAAAGTATTTTTG
129 GCTTTTGAGAAAAAAAT-ATTTTTGGGAGAAGCTAAAATTTTCAACTTCTGAAAAAGTGCTTTTG
* * * * * * *
848895 G-CAAATTTTTTGCTTTAGAGAAACAATTTTTTCTCCCAAAAAGCAGGTTATTTAGGAACATTTT
193 GACCAATTTTTTGC-TT-GAGAGA-AATATTTTCTCTCAAAAAGTAGATTATTTAGGAACACTTT
* **
848959 TATCTTGAAAATGTT
255 TGTCTAAAAAATGTT
* * * *
848974 TTTTATCCCATAAGTGTTTCTTAGAAA-CAATACTAAACAGA-TCCTGAATCTCAACTCAAAGAA
1 TTTTGTCTCAAAAGTGTTTCTTA-AAAGCAATACTAAACAGACT-CTAAATCTCAACTCAAAGAA
* * * * * *
849037 TGTGGAATTTAAATAATTTTTGTTCAACAACATTATGACTTAATTTAGGAATGCTTTTCAAAAGT
64 TGTAGAATTTAAATAGTTTTTGTTCTACAACACTAAGACTTAATTTAGGAATGCTTCTCAAAAGT
* * * * * *
849102 G-TTTTGGGGAAAAAATATTTATGGAAGAAGCTAAAATTTTTAAATTCTGAAAAAGTGCTTTTGG
129 GCTTTTGAGAAAAAAATATTTTTGGGAGAAGCTAAAATTTTCAACTTCTGAAAAAGTGCTTTTGG
* * * *
849166 A-CAAGTTTGTGCTTG-GAAGAAAAATTTTCTCTCTCAAAAAGCA-ACTTATTTAGGAACACTTT
194 ACCAATTTTTTGCTTGAG-AGAAATA-TTT-TCTCTCAAAAAGTAGA-TTATTTAGGAACACTTT
* **
849228 TGTCTCAAATTTGTT
255 TGTCTAAAAAATGTT
* * * * * * *
849243 TTTTGTCCCAAATGTGTTTTTTAGAAGCAATACTAAA-TGTAC-CTTAAATCTCGACTCAAAGAC
1 TTTTGTCTCAAAAGTGTTTCTTAAAAGCAATACTAAACAG-ACTC-TAAATCTCAACTCAAAGAA
* * * * * *
849306 TATAGAATTTAAA-ATGTTTTTGTTTTATAACACTAAG-GTCTAATTTAAGAAAGCTTCTCAAAA
64 TGTAGAATTTAAATA-GTTTTTGTTCTACAACACTAAGACT-TAATTTAGGAATGCTTCTCAAAA
* * *
849369 GTGCTTTTGAGGAAAAAAAATACTTTTGGGAAGAAGCAAAAATTTTCAACTTCTGAAAAAGTGAT
127 GTGCTTTTGA-G-AAAAAAATATTTTTGGG-AGAAGCTAAAATTTTCAACTTCTGAAAAAGTGCT
* * * * * *
849434 TTTGTG-TCAATTTTTTGCTTG-GAGAAACACTTTTTATCTCAAAAAGCT-GCTTCTTTAAGAAC
189 TTTG-GACCAATTTTTTGCTTGAGAGAAATA--TTTTCTCTCAAAAAG-TAGATTATTTAGGAAC
* * *
849496 ATTTTTGTCTCAAAAGTGTT
250 ACTTTTGTCTAAAAAATGTT
* * * * * * *
849516 TTTTGTCTTAAAAGTGTTTCTTTGAAA-TAATACTAAACAAACCCTAAATCTCGAGTCAAAGAAT
1 TTTTGTCTCAAAAGTGTTTC-TTAAAAGCAATACTAAACAGACTCTAAATCTCAACTCAAAGAAT
* * * *
849580 GCAGAATTTAAATAGTTTTTGTAT-TACAACACTAAGACCTAATTTAAGAATGCTTATCAAAAGT
65 GTAGAATTTAAATAGTTTTTGT-TCTACAACACTAAGACTTAATTTAGGAATGCTTCTCAAAAGT
* * *
849644 GTTTTTGAGAAAAAAATATTTTTAGGGAGAAGCTAAAATTTTTAACTTCTGAAAAAGTGCTTTTA
129 GCTTTTGAGAAAAAAATATTTTT-GGGAGAAGCTAAAATTTTCAACTTCTGAAAAAGTGCTTTTG
* *
849709 AACCAATTTTTTGCTTGAGAGAAATATTTTCTCTCAAAAAGTAGATTATTTTGGAACACTTTTGT
193 GACCAATTTTTTGCTTGAGAGAAATATTTTCTCTCAAAAAGTAGATTATTTAGGAACACTTTTGT
*
849774 CTAAAAAATGCT
258 CTAAAAAATGTT
** * * * *
849786 TTTTGTCTTGAAAGTATTTATTAAAAGCAATACTAAACAGACTCTAAATCTCAAGTCAAAGAATA
1 TTTTGTCTCAAAAGTGTTTCTTAAAAGCAATACTAAACAGACTCTAAATCTCAACTCAAAGAATG
* * ** * * *
849851 TATAATTTAAATAGTTTTTGTTCTACAACACTAAG-GTTAAATTTAGGAATATTTCTTAAAAATT
66 TAGAATTTAAATAGTTTTTGTTCTACAACACTAAGACTT-AATTTAGGAATGCTTCTCAAAAGTG
* * ** * * * *
849915 CTTTTGAAAAAAAAAAAAATTTGGGAAGAAGGTAAAATTTTCAAATTCTAAAAAAATGCTTTTGG
130 CTTTTGAGAAAAAAATATTTTTGGG-AGAAGCTAAAATTTTCAACTTCTGAAAAAGTGCTTTTGG
* * * * * * * *
849980 ACCAATTTTTTTTGCTTAAGACAAACTCTTTTTTCTTTTAAAAAGCT-GTTTATTTAGAAACAAT
194 ACCAA--TTTTTTGCTTGAGAGAAA---TATTTTCTCTCAAAAAG-TAGATTATTTAGGAACACT
*
850044 TTTGTCTTAAAAATGTT
253 TTTGTCTAAAAAATGTT
* * * * * * *
850061 TTTTGTCCCAAAAGTATTTCTTAGAAGCAATACTAAACAGACTTTAAATCTCGATTAAAAGAATG
1 TTTTGTCTCAAAAGTGTTTCTTAAAAGCAATACTAAACAGACTCTAAATCTCAACTCAAAGAATG
* * *
850126 TAGAATTTAAATAATTTTTGTTCTACAATACTAA-AGCTTAATTTAGGAATGCTTTTCAAAAGTG
66 TAGAATTTAAATAGTTTTTGTTCTACAACACTAAGA-CTTAATTTAGGAATGCTTCTCAAAAGTG
* * * * * *
850190 GTTTTGAAAAAAAAATATTTTTGAGAATAATCTAAAATTTTCAACTTTTGAAAAAGTGCTTTTGG
130 CTTTTGAGAAAAAAATATTTTTG-GGAGAAGCTAAAATTTTCAACTTCTGAAAAAGTGCTTTTGG
850255 GTTAATTTTT
Statistics
Matches: 1237, Mismatches: 246, Indels: 126
0.77 0.15 0.08
Matches are distributed among these distances:
266 7 0.01
267 81 0.07
268 77 0.06
269 203 0.16
270 274 0.22
271 83 0.07
272 99 0.08
273 186 0.15
274 25 0.02
275 198 0.16
276 4 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (269 bp):
TTTTGTCTCAAAAGTGTTTCTTAAAAGCAATACTAAACAGACTCTAAATCTCAACTCAAAGAATG
TAGAATTTAAATAGTTTTTGTTCTACAACACTAAGACTTAATTTAGGAATGCTTCTCAAAAGTGC
TTTTGAGAAAAAAATATTTTTGGGAGAAGCTAAAATTTTCAACTTCTGAAAAAGTGCTTTTGGAC
CAATTTTTTGCTTGAGAGAAATATTTTCTCTCAAAAAGTAGATTATTTAGGAACACTTTTGTCTA
AAAAATGTT
Found at i:849870 original size:543 final size:533
Alignment explanation
Indices: 848435--850252 Score: 1765
Period size: 543 Copynumber: 3.4 Consensus size: 533
848425 TTAGGAACAA
** * *** *
848435 TTTTGTCCCAAAAGTGTGCCTTAGAAGCAATACTAAAGTTACCCTAAATC-CTGACTCAAAAAAT
1 TTTTGTCCCAAAAGTGTTTCTTAGAAACAATACTAAACAGACCCTAAATCTC-GACTCAAAGAAT
** * * * *
848499 GTAGAATTTAAATTGTTTTGGTTCTACAACACTAAGGCATAATTTAGGAATGCTTCTCAAAAGTG
65 GTAGAATTTAAATAATTTTTGTTCTACAACACTAAGACTTAATTTAGGAATGCTTTTCAAAAGTG
* * * *
848564 CTTTTG-GAAAAAAATACTTTTGGGGAGAA-CT-AAATTTTTCAATTTTTGAAAAAGAT-CTTTT
130 -TTTTGAGAAAAAAATA-TTTTTGGAAGAAGCTAAAATTTTT-AACTTCTGAAAAAG-TGCTTTT
* ** * * * * *
848625 AGAAAAAAAAATTT-CTTTAGGAGAAACATTTTTTCTCTCAAAAAGTTGCTTATTTAAGAACACT
191 --AAACAAATTTTTGCTTGA-GAG-AA-ATATTTTCTCTCAAAAAGTAGATTATTTAGGAACACT
* * * * ** **
848689 TTTATCCTAAAACAA--CATTATGT-TCCAAAAGTGTTCGTAGAAGCAATAGAAAAAGACCTTAA
251 TTTGT-CTAAAA-AATGCTTTTTGTCT-CAAAAGTTTTATTAGAAGCAATACTAAAAGACCTTAA
* * * * **
848751 ATCCCAACTC--AGAATGTAGAATTTAAATCGTCTTTGTTCTACAACACTAAACTTTAATTTAAG
313 ATCTCAACTCAAAGAATATAGAATTTAAATAGTTTTTGTTCTACAACACT-AAGGTTAATTTAAG
* * * * * *
848814 AATGCTTCTCAAAAATGCTTTTGAAAAAAAAATGCTTTTCAGG-ATAAGTTAAAATTTTCAAGTT
377 AAAGCTTCTCAAAAATGCTTTTGAAAAAAAAATACTTTT-GGGAAGAAGCTAAAATTTTCAAATT
* * * *
848878 TTAAAAAAGT-ATTTT-TGGCAAATTTTTTGCTTTAGAGAAACAATTTTTTCTCCCAAAAAGCAG
441 CTAAAAAAGTGATTTTGT-GCCAATTTTTTGC-TTAGAGAAACACTTTTTTCT--CAAAAAGCTG
* * * *
848941 GTTATTTAGGAACATTTTTATCTTGAAAATGTT
502 CTTATTTAAGAACATTTTTGTC-TCAAAATGTT
* * * * *
848974 TTTTATCCCATAAGTGTTTCTTAGAAACAATACTAAACAGATCCTGAATCTCAACTCAAAGAATG
1 TTTTGTCCCAAAAGTGTTTCTTAGAAACAATACTAAACAGACCCTAAATCTCGACTCAAAGAATG
* * * *
849039 TGGAATTTAAATAATTTTTGTTCAACAACATTATGACTTAATTTAGGAATGCTTTTCAAAAGTGT
66 TAGAATTTAAATAATTTTTGTTCTACAACACTAAGACTTAATTTAGGAATGCTTTTCAAAAGTGT
* * * * **
849104 TTTGGGGAAAAAATATTTATGGAAGAAGCTAAAATTTTTAAATTCTGAAAAAGTGCTTTTGGACA
131 TTTGAGAAAAAAATATTTTTGGAAGAAGCTAAAATTTTTAACTTCTGAAAAAGTGCTTTTAAACA
* * * *
849169 AGTTTGTGCTTG-GAAGAAAAATTTTCTCTCTCAAAAAGCA-ACTTATTTAGGAACACTTTTGTC
196 AATTTTTGCTTGAG-AGAAATA-TTT-TCTCTCAAAAAGTAGA-TTATTTAGGAACACTTTTGTC
* ** * * * * * *
849232 TCAAATTTGTTTTTTGTCCCAAATGTGTTTTTTAGAAGCAATACTAAATGTACCTTAAATCTCGA
257 TAAAAAATGCTTTTTGTCTCAAAAGT-TTTATTAGAAGCAATACTAAAAG-ACCTTAAATCTCAA
* * *
849297 CTCAAAGACTATAGAATTTAAA-ATGTTTTTGTTTTATAACACTAAGGTCTAATTTAAGAAAGCT
320 CTCAAAGAATATAGAATTTAAATA-GTTTTTGTTCTACAACACTAAGGT-TAATTTAAGAAAGCT
* * * *
849361 TCTCAAAAGTGCTTTTGAGGAAAAAAAATACTTTTGGGAAGAAGCAAAAATTTTCAACTTCTGAA
383 TCTCAAAAATGCTTTTGA--AAAAAAAATACTTTTGGGAAGAAGCTAAAATTTTCAAATTCTAAA
* * *
849426 AAAGTGATTTTGTGTCAATTTTTTGCTTGGAGAAACACTTTTTATCTCAAAAAGCTGCTTCTTTA
446 AAAGTGATTTTGTGCCAATTTTTTGCTTAGAGAAACACTTTTT-TCTCAAAAAGCTGCTTATTTA
849491 AGAACATTTTTGTCTCAAAAGTGTT
510 AGAACATTTTTGTCTCAAAA-TGTT
** * * * *
849516 TTTTGTCTTAAAAGTGTTTCTTTGAAATAATACTAAACAAACCCTAAATCTCGAGTCAAAGAATG
1 TTTTGTCCCAAAAGTGTTTCTTAGAAACAATACTAAACAGACCCTAAATCTCGACTCAAAGAATG
* * * * *
849581 CAGAATTTAAATAGTTTTTGTAT-TACAACACTAAGACCTAATTTAAGAATGCTTATCAAAAGTG
66 TAGAATTTAAATAATTTTTGT-TCTACAACACTAAGACTTAATTTAGGAATGCTTTTCAAAAGTG
*
849645 TTTTTGAGAAAAAAATATTTTTAGGGAGAAGCTAAAATTTTTAACTTCTGAAAAAGTGCTTTTAA
130 -TTTTGAGAAAAAAATATTTTT-GGAAGAAGCTAAAATTTTTAACTTCTGAAAAAGTGCTTTTAA
* *
849710 ACCAATTTTTTGCTTGAGAGAAATATTTTCTCTCAAAAAGTAGATTATTTTGGAACACTTTTGTC
193 A-CAAATTTTTGCTTGAGAGAAATATTTTCTCTCAAAAAGTAGATTATTTAGGAACACTTTTGTC
** *
849775 TAAAAAATGCTTTTTGTCTTGAAAGTATTTATTAAAAGCAATACTAAACAGA-CTCTAAATCTCA
257 TAAAAAATGCTTTTTGTCTCAAAAGT-TTTATTAGAAGCAATACTAAA-AGACCT-TAAATCTCA
* * * *
849839 AGTCAAAGAATATATAATTTAAATAGTTTTTGTTCTACAACACTAAGGTTAAATTTAGGAATA-T
319 ACTCAAAGAATATAGAATTTAAATAGTTTTTGTTCTACAACACTAAGGTT-AATTTAAGAA-AGC
* * * ** *
849903 TTCTTAAAAATTCTTTTGAAAAAAAAAAAAATTTGGGAAGAAGGTAAAATTTTCAAATTCTAAAA
382 TTCTCAAAAATGCTTTTGAAAAAAAAATACTTTTGGGAAGAAGCTAAAATTTTCAAATTCTAAAA
* * * * * *
849968 AAATGCTTTTG-GACCAATTTTTTTTGCTTAAGACAAACTCTTTTTTCTTTTAAAAAGCTGTTTA
447 AAGTGATTTTGTG-CCAA--TTTTTTGCTT-AGAGAAACACTTTTTTC--TCAAAAAGCTGCTTA
* *
850032 TTT-AGAAACAATTTTGTCTTAAAAATGTT
506 TTTAAG-AACATTTTTGTC-TCAAAATGTT
* * ** * *
850061 TTTTGTCCCAAAAGTATTTCTTAGAAGCAATACTAAACAGACTTTAAATCTCGATTAAAAGAATG
1 TTTTGTCCCAAAAGTGTTTCTTAGAAACAATACTAAACAGACCCTAAATCTCGACTCAAAGAATG
*
850126 TAGAATTTAAATAATTTTTGTTCTACAATACTAA-AGCTTAATTTAGGAATGCTTTTCAAAAGTG
66 TAGAATTTAAATAATTTTTGTTCTACAACACTAAGA-CTTAATTTAGGAATGCTTTTCAAAAGT-
* * * * *
850190 GTTTTGAAAAAAAAATATTTTTGAGAATAATCTAAAATTTTCAACTTTTGAAAAAGTGCTTTT
129 GTTTTGAGAAAAAAATATTTTTG-GAAGAAGCTAAAATTTTTAACTTCTGAAAAAGTGCTTTT
850253 GGGTTAATTT
Statistics
Matches: 1047, Mismatches: 183, Indels: 92
0.79 0.14 0.07
Matches are distributed among these distances:
535 1 0.00
536 11 0.01
537 48 0.05
538 35 0.03
539 148 0.14
540 13 0.01
541 118 0.11
542 143 0.14
543 231 0.22
544 82 0.08
545 210 0.20
546 7 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (533 bp):
TTTTGTCCCAAAAGTGTTTCTTAGAAACAATACTAAACAGACCCTAAATCTCGACTCAAAGAATG
TAGAATTTAAATAATTTTTGTTCTACAACACTAAGACTTAATTTAGGAATGCTTTTCAAAAGTGT
TTTGAGAAAAAAATATTTTTGGAAGAAGCTAAAATTTTTAACTTCTGAAAAAGTGCTTTTAAACA
AATTTTTGCTTGAGAGAAATATTTTCTCTCAAAAAGTAGATTATTTAGGAACACTTTTGTCTAAA
AAATGCTTTTTGTCTCAAAAGTTTTATTAGAAGCAATACTAAAAGACCTTAAATCTCAACTCAAA
GAATATAGAATTTAAATAGTTTTTGTTCTACAACACTAAGGTTAATTTAAGAAAGCTTCTCAAAA
ATGCTTTTGAAAAAAAAATACTTTTGGGAAGAAGCTAAAATTTTCAAATTCTAAAAAAGTGATTT
TGTGCCAATTTTTTGCTTAGAGAAACACTTTTTTCTCAAAAAGCTGCTTATTTAAGAACATTTTT
GTCTCAAAATGTT
Found at i:850605 original size:251 final size:253
Alignment explanation
Indices: 850060--850682 Score: 848
Period size: 254 Copynumber: 2.5 Consensus size: 253
850050 TTAAAAATGT
* * * * * * * *
850060 TTTTTGTCCCAAAAGTATTTCTTAGAAGCAATACTAAACAGACTTTAAATCTC-GATTAAAAGAA
1 TTTTTGTCCCTAAAGTATTTCTTAAAAGAAATACTAAAGAGACTCTAAATATCAAATT-AAATAA
* ** * * *
850124 TGTAGAATTTAAATAATTTTTGTTCTACAATACTAAAGCTTAATTTAGGAATGCTTTTCAAAAGT
65 TGTTGAATTTAAATTGTTTTTGTTCTACAACACTAAAGCCTAATTTAGAAATGCTTTTCAAAAGT
*
850189 GGTTTTGAAAAAAAAATATTTTTGAGAATAATCTAAAATTTTCAACTTTTGAAAAAGTGCTTTTG
130 GG-TTTGAAAAAAAAATATTTTTGAGAATAATCTAAAATTGTCAACTTTTGAAAAAGTGCTTTTG
* * * * * * **
850254 GGTTAATTTTTTATTTTGGAGAAATATTTTTTTTCTTAAAAAGCAGTTTATTTAAAAACA
194 AGTCAATTTTTTACTTTGAAGAAACATCTTTTTTCTTAAAAAGCAACTTATTTAAAAACA
* * * *
850314 TTTCTGTCCCTAAAGTGTTTCTTAAAACAAATACTAAAGAGACTCCAAATATCAAATTAAATAAT
1 TTTTTGTCCCTAAAGTATTTCTTAAAAGAAATACTAAAGAGACTCTAAATATCAAATTAAATAAT
*
850379 GTTGAATTTAAGTTGTTTTTGTTCTACAACACTAAAGCCTAATTTAGAAATGCTTTTCAAAAGTG
66 GTTGAATTTAAATTGTTTTTGTTCTACAACACTAAAGCCTAATTTAGAAATGCTTTTCAAAAGTG
*
850444 G-TTGAGAAAAAAAATATTTTTGAGAATAATCT-AAATTGTCAACTTTTGAAAAAGTGTTTTTGA
131 GTTTGA-AAAAAAAATATTTTTGAGAATAATCTAAAATTGTCAACTTTTGAAAAAGTGCTTTTGA
850507 GTCAATTTTTTACTTTGAAGAAACA-CTTTTTTCTTAAAAAGCAACTTATTTAAAAACA
195 GTCAATTTTTTACTTTGAAGAAACATCTTTTTTCTTAAAAAGCAACTTATTTAAAAACA
850565 TTTTTGTCCCTAAAGTATTTCTTAAAAGAAATACTAAAGAGACTCTAAATATCAAA-T---TAAT
1 TTTTTGTCCCTAAAGTATTTCTTAAAAGAAATACTAAAGAGACTCTAAATATCAAATTAAATAAT
* * * * * *
850626 GTTAAATGTAATTTGTTTTTGTTCTAGAACACTAAAGCCTAATTTATAAATCCTTTT
66 GTTGAATTTAAATTGTTTTTGTTCTACAACACTAAAGCCTAATTTAGAAATGCTTTT
850683 TAGGGAGAAG
Statistics
Matches: 328, Mismatches: 39, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
247 55 0.17
250 1 0.00
251 82 0.25
252 53 0.16
253 26 0.08
254 108 0.33
255 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (253 bp):
TTTTTGTCCCTAAAGTATTTCTTAAAAGAAATACTAAAGAGACTCTAAATATCAAATTAAATAAT
GTTGAATTTAAATTGTTTTTGTTCTACAACACTAAAGCCTAATTTAGAAATGCTTTTCAAAAGTG
GTTTGAAAAAAAAATATTTTTGAGAATAATCTAAAATTGTCAACTTTTGAAAAAGTGCTTTTGAG
TCAATTTTTTACTTTGAAGAAACATCTTTTTTCTTAAAAAGCAACTTATTTAAAAACA
Found at i:852675 original size:13 final size:14
Alignment explanation
Indices: 852649--852679 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
852639 TATTCTAGAA
852649 TTTAAAAGAATACT
1 TTTAAAAGAATACT
852663 TTTAAAA-AATACT
1 TTTAAAAGAATACT
852676 TTTA
1 TTTA
852680 GGAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (14 bp):
TTTAAAAGAATACT
Found at i:853383 original size:213 final size:213
Alignment explanation
Indices: 852997--853445 Score: 516
Period size: 213 Copynumber: 2.1 Consensus size: 213
852987 AAATTTTTAA
* * *
852997 CTTCTCAAATAGTGTTTTTGGGCTAATTTTTTGCTTCGGAGAAACACTTTCTCTATAAAAAAGTA
1 CTTCTCAAA-AGTGTTTTTGGGCTAATTTTTTGCTTCGGAGAAAAAATTTCTC-ATAAAAAAGCA
** * * * * *
853062 GTTTATTTAAAAATACTTTTGTCCTAAAAATGTTTTTTGTGCTAAAGGTGTTTCTTAGAAGTACT
64 ACTTATTTAAAAACACTTTTGTCCTAAAAATGTTTTTTGTGCTAAAAGTGTTTCTCAGAAGCAAT
* * * * ** *
853127 ATTAAATAGACCTTAATTCCTGACGCAAAAAATGTTGAATTTAAATCATTTTTGTTTTACAACAC
129 ATTAAACAGAACTAAATTCCTAACGCAAAAAATGTAAAATTTAAATCATTTTTGTTCTACAACAC
853192 TAAGG-CTAATTTAAAAATG
194 TAAGGTCTAATTTAAAAATG
*
853211 CTTCTCAAAAGTGTTTTTGGG-TCAATTTTTTGCTT-GAGAGAAAAAAAATTTCTC-TCAAAAAG
1 CTTCTCAAAAGTGTTTTTGGGCT-AATTTTTTGCTTCG-GAG--AAAAAATTTCTCATAAAAAAG
* *
853273 CAACTTATTTAAGAGCACTTTTGT-CTAACAAATGTTTTTTGT-CTTAAAAGTGTTTCTCAGAAG
62 CAACTTATTTAAAAACACTTTTGTCCTAA-AAATGTTTTTTGTGC-TAAAAGTGTTTCTCAGAAG
* * * *
853336 CAATATTAAACAGATACTAAATTTC-AACTCAAATAATGTAAAATTTAAATTATTTTTGTTCTAC
125 CAATATTAAACAGA-ACTAAATTCCTAACGCAAAAAATGTAAAATTTAAATCATTTTTGTTCTAC
* *
853400 AACATTAAGGTCTAATTTAAGAATG
189 AACACTAAGGTCTAATTTAAAAATG
* *
853425 ATTATCAAAAGTGTTTTTGGG
1 CTTCTCAAAAGTGTTTTTGGG
853446 AAAATAATAT
Statistics
Matches: 199, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
212 7 0.04
213 134 0.67
214 48 0.24
215 10 0.05
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (213 bp):
CTTCTCAAAAGTGTTTTTGGGCTAATTTTTTGCTTCGGAGAAAAAATTTCTCATAAAAAAGCAAC
TTATTTAAAAACACTTTTGTCCTAAAAATGTTTTTTGTGCTAAAAGTGTTTCTCAGAAGCAATAT
TAAACAGAACTAAATTCCTAACGCAAAAAATGTAAAATTTAAATCATTTTTGTTCTACAACACTA
AGGTCTAATTTAAAAATG
Found at i:854638 original size:328 final size:321
Alignment explanation
Indices: 853720--854702 Score: 1251
Period size: 328 Copynumber: 3.0 Consensus size: 321
853710 TTTTTGAGAA
* * * * * * *
853720 AAAAAATTATGAAAAAACTAAAATTTTCAACTTTTGAAAAACTGCTTTTGGGCCAATTTTTTTTA
1 AAAAAACTATGGAGAAACTAAAATTTTCAACTTTTGAAAAAGTACTTTTGGACTAATTTTTTTT-
* *
853785 AAGAACACTAATATTGTCCGA-TTTTCTTTTAGAAATTGAAATGGAAAAAATGGGCATTAGCCAT
65 -A-AACACTAATATTGTCCGATTTTTCTTTT-GAAATTGAAAGGGAAAAAATGGGCATTAGCCCT
* * *
853849 TTTGT-TTTTTCATTTTTATTATAAACTGCCTAAAGTAGTGTTTCATTTTCAATTAAAATGACAA
127 TTTATATTTTTCATTTTTATTATAAACTGTCTAAAGCAGTGTTTCATTTTCAATTAAAATGACAA
* ** * * *
853913 TTGCCATTGGATGATAGTTATTCCACGTTAAAAATGAGATGTCTT-TTATGGGAGTTCAAATCCA
192 CT-CTTTTAGATGATAGTTATTTCACGTTGAAAATGAGATGT-TTATTATGGGAGTTCAAATCCA
* *
853977 ATCATACATATAAATTTAGGTTTAATGCTCGATTTGATGTTTGAATTATATTCATTTTATTATTT
255 ATCATACATAT-AATTTAGGTTTAATGCTCGATTTGATATTTGAATTATATCCATTTTATTATTT
854042 TTG
319 TTG
* * * *
854045 AGAAAACTATGGCGAAATTAAAATTTTCAACTTTTGAAAAAGTATTTTTGGACTAATTTTTTTTA
1 AAAAAACTATGGAGAAACTAAAATTTTCAACTTTTGAAAAAGTACTTTTGGACTAATTTTTTTT-
* * *
854110 AAGAACAGTGATATTGTTCGATTTTTCTTTTGAAATTGAAAGGGAAAAAATGGGCATTAGCCCTT
65 -A-AACACTAATATTGTCCGATTTTTCTTTTGAAATTGAAAGGGAAAAAATGGGCATTAGCCCTT
*
854175 TTATTTATTTTTTTTCATTTTTATTATAAACTATCTAAAGCAGTGTTTCATTTTCAATTAAAATG
128 TTA--TA---TTTTTCATTTTTATTATAAACTGTCTAAAGCAGTGTTTCATTTTCAATTAAAATG
* * *
854240 ACAACTGTTTTAGATGATAGTTATTTCACGTTGGAAATGAGATGTCTATTATGGGAGTTCAAATC
188 ACAACTCTTTTAGATGATAGTTATTTCACGTTGAAAATGAGATGTTTATTATGGGAGTTCAAATC
* *
854305 CAATCATTCATATATATTTAAGTTTAATGCTCGATTTGATATTTGAATTATATCCATTTTATTAT
253 CAATCATACATATA-ATTTAGGTTTAATGCTCGATTTGATATTTGAATTATATCCATTTTATTAT
854370 TTTTAAG
317 TTTT--G
* * * *
854377 AAAAAATATTTTTATGGAGAAACTAAAAATTTCGACTTTTGAAAAAGTACTTTTGAACTAATTTT
1 -AAAAA-A---CTATGGAGAAACTAAAATTTTCAACTTTTGAAAAAGTACTTTTGGACTAATTTT
* *
854442 TTTT-AACATTAATATTGGCCGATTTTTCTTTTGAAATTGAAAGGGAAAAAATGGGCATTAGCCC
61 TTTTAAACACTAATATTGTCCGATTTTTCTTTTGAAATTGAAAGGGAAAAAATGGGCATTAGCCC
* * * * * * *
854506 TTTTATATATTTCATTTTTTTTACAAATTGTCTAAAACAGTGTTTCATTTTCAATCAAAATGATA
126 TTTTATATTTTTCATTTTTATTATAAACTGTCTAAAGCAGTGTTTCATTTTCAATTAAAATGACA
*
854571 ACTACTTTTAGATGCA-A-TTATTTCACGTTGAAAAT-AGGATGTTTATTATGGGAGTTCAAACC
191 ACT-CTTTTAGATG-ATAGTTATTTCACGTTGAAAATGA-GATGTTTATTATGGGAGTTCAAATC
854633 CAATCATACATATAAGTTTAGGTTTAATGCTCGATTTGATATTTGAATTATATCCATTTTATTAT
253 CAATCATACATATAA-TTTAGGTTTAATGCTCGATTTGATATTTGAATTATATCCATTTTATTAT
854698 TTTTG
317 TTTTG
854703 GTATTTAATT
Statistics
Matches: 579, Mismatches: 59, Indels: 39
0.86 0.09 0.06
Matches are distributed among these distances:
325 106 0.18
326 10 0.02
327 3 0.01
328 158 0.27
329 12 0.02
330 113 0.20
331 59 0.10
332 1 0.00
333 65 0.11
334 1 0.00
337 51 0.09
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (321 bp):
AAAAAACTATGGAGAAACTAAAATTTTCAACTTTTGAAAAAGTACTTTTGGACTAATTTTTTTTA
AACACTAATATTGTCCGATTTTTCTTTTGAAATTGAAAGGGAAAAAATGGGCATTAGCCCTTTTA
TATTTTTCATTTTTATTATAAACTGTCTAAAGCAGTGTTTCATTTTCAATTAAAATGACAACTCT
TTTAGATGATAGTTATTTCACGTTGAAAATGAGATGTTTATTATGGGAGTTCAAATCCAATCATA
CATATAATTTAGGTTTAATGCTCGATTTGATATTTGAATTATATCCATTTTATTATTTTTG
Found at i:855624 original size:2 final size:2
Alignment explanation
Indices: 855617--855643 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
855607 GGCAATAATC
855617 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
855644 TTCCTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:856786 original size:24 final size:24
Alignment explanation
Indices: 856756--856813 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
856746 TAGATTAATA
* *
856756 AAAATTTGACTGAAACAAATAAAT
1 AAAATTTAACTAAAACAAATAAAT
* *
856780 AAAATTTAATTAAAACAAATAAAC
1 AAAATTTAACTAAAACAAATAAAT
*
856804 AGAATTTAAC
1 AAAATTTAAC
856814 AAGAAAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (24 bp):
AAAATTTAACTAAAACAAATAAAT
Found at i:864569 original size:20 final size:23
Alignment explanation
Indices: 864536--864578 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
864526 GACCAAATTG
864536 ATATAATATCAATA-ATTTTGAA
1 ATATAATATCAATACATTTTGAA
864558 ATATAAT-T-AATACATTTTGAA
1 ATATAATATCAATACATTTTGAA
864579 GTTTAAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (23 bp):
ATATAATATCAATACATTTTGAA
Found at i:864770 original size:6 final size:6
Alignment explanation
Indices: 864748--864808 Score: 65
Period size: 6 Copynumber: 10.5 Consensus size: 6
864738 GTTTAAATTG
* *
864748 ATTTAA ATTTAT TTTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA
*
864794 ATTAAA ATTTAA ATT
1 ATTTAA ATTTAA ATT
864809 GATTTAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 2 0.04
5 6 0.13
6 35 0.78
7 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:864784 original size:17 final size:16
Alignment explanation
Indices: 864748--864816 Score: 84
Period size: 17 Copynumber: 4.1 Consensus size: 16
864738 GTTTAAATTG
864748 ATTTAAATTTATTTTTAA
1 ATTTAAATTTA--TTTAA
864766 ATTTAAATTTATCTTAA
1 ATTTAAATTTAT-TTAA
*
864783 ATTTAAATTTAATTAAA
1 ATTTAAATTT-ATTTAA
*
864800 ATTTAAATTGATTTAA
1 ATTTAAATTTATTTAA
864816 A
1 A
864817 ACTTAATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
16 7 0.15
17 26 0.57
18 13 0.28
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (16 bp):
ATTTAAATTTATTTAA
Found at i:864796 original size:11 final size:11
Alignment explanation
Indices: 864739--864805 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
864729 TTAAGTTGGG
*
864739 TTTAAA-TTGA
1 TTTAAATTTAA
*
864749 TTTAAATTTATT
1 TTTAAATTTA-A
864761 TTTAAATTTAAA
1 TTTAAATTT-AA
** *
864773 TTTATCTTAAA
1 TTTAAATTTAA
864784 TTTAAATTTAA
1 TTTAAATTTAA
*
864795 TTAAAATTTAA
1 TTTAAATTTAA
864806 ATTGATTTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
10 6 0.14
11 22 0.50
12 15 0.34
13 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:864817 original size:17 final size:16
Alignment explanation
Indices: 864739--864816 Score: 83
Period size: 17 Copynumber: 5.0 Consensus size: 16
864729 TTAAGTTGGG
864739 TTTAAATTGATTTAAA
1 TTTAAATTGATTTAAA
864755 TTT--ATT--TTTAAA
1 TTTAAATTGATTTAAA
*
864767 TTTAAATTTATCTTAAA
1 TTTAAATTGAT-TTAAA
* *
864784 TTTAAATTTAATTAAAA
1 TTTAAA-TTGATTTAAA
864801 TTTAAATTGATTTAAA
1 TTTAAATTGATTTAAA
864817 ACTTAATATA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
12 9 0.17
14 6 0.12
16 12 0.23
17 21 0.40
18 4 0.08
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAATTGATTTAAA
Found at i:866707 original size:29 final size:29
Alignment explanation
Indices: 866675--866826 Score: 78
Period size: 30 Copynumber: 5.1 Consensus size: 29
866665 GTAACTTACA
866675 TTTTTACCCTGAACTTTCCAAAATACCAT
1 TTTTTACCCTGAACTTTCCAAAATACCAT
* * *** *
866704 TTTTGACCCCGGTTTGTTCTAAAAATTA-CA-
1 TTTTTACCCTGAACT-TTC-CAAAA-TACCAT
* *
866734 TTTTTACCCTCGAACTTTCTAAAATTCCAT
1 TTTTTACCCT-GAACTTTCCAAAATACCAT
* * **
866764 TTTTGACCTTGATTTTTCCAAAATTTA-CA-
1 TTTTTACCCTGAACTTTCCAAAA--TACCAT
* * *
866793 TTTTTACCCCCGAACTTTCCAAAATTCTAT
1 TTTTTA-CCCTGAACTTTCCAAAATACCAT
866823 TTTT
1 TTTT
866827 ACCTCGATTT
Statistics
Matches: 86, Mismatches: 26, Indels: 21
0.65 0.20 0.16
Matches are distributed among these distances:
28 2 0.02
29 32 0.37
30 41 0.48
31 9 0.10
32 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (29 bp):
TTTTTACCCTGAACTTTCCAAAATACCAT
Found at i:866736 original size:59 final size:58
Alignment explanation
Indices: 866670--866921 Score: 226
Period size: 59 Copynumber: 4.3 Consensus size: 58
866660 TTTTCGTAAC
* * *
866670 TTACATTTTTACCCTGAACTTTCCAAAATACCATTTTTGACCCCGGTTTGTTCTAAAAA
1 TTACATTTTTACCCTGAACTTTCCAAAATTCCATTTTTGACCCCGATTT-TTCCAAAAA
* ** *
866729 TTACATTTTTACCCTCGAACTTTCTAAAATTCCATTTTTGACCTTGATTTTTCCAAAAT
1 TTACATTTTTACCCT-GAACTTTCCAAAATTCCATTTTTGACCCCGATTTTTCCAAAAA
* * *
866788 TTACATTTTTACCCCCGAACTTTCCAAAATTCTATTTTT-ACCTCGA-TTTTCCAAAAAA
1 TTACATTTTTA-CCCTGAACTTTCCAAAATTCCATTTTTGACCCCGATTTTTCC-AAAAA
* * * * * ***
866846 TTACCA-TTTTACCATTAAAC-TTCCAAAAAATACATTTTT-ACCCCTAAACTTCCAAAAA
1 TTA-CATTTTTACC-CTGAACTTTCC-AAAATTCCATTTTTGACCCCGATTTTTCCAAAAA
*
866904 TTTCATTTTTTACCCTGA
1 TTACA-TTTTTACCCTGA
866922 TTTTCAAAAA
Statistics
Matches: 159, Mismatches: 25, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
57 14 0.09
58 46 0.29
59 67 0.42
60 32 0.20
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.40
Consensus pattern (58 bp):
TTACATTTTTACCCTGAACTTTCCAAAATTCCATTTTTGACCCCGATTTTTCCAAAAA
Found at i:866847 original size:29 final size:27
Alignment explanation
Indices: 866724--866844 Score: 84
Period size: 29 Copynumber: 4.2 Consensus size: 27
866714 GGTTTGTTCT
*
866724 AAAAATTACATTTTTACCCTCGAACTTT-C
1 AAAAATT-CATTTTTA-CCTCG-ATTTTCC
* *
866753 TAAAATTCCATTTTTGACCTTGATTTTTCC
1 AAAAATT-CATTTTT-ACCTCGA-TTTTCC
* * *
866783 AAAATTTACATTTTTACCCCCGAACTTTCC
1 AAAAATT-CATTTTTA-CCTCG-ATTTTCC
866813 -AAAATTCTATTTTTACCTCGATTTTCC
1 AAAAATTC-ATTTTTACCTCGATTTTCC
866840 AAAAA
1 AAAAA
866845 ATTACCATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
27 6 0.08
28 10 0.14
29 33 0.46
30 22 0.31
31 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.41
Consensus pattern (27 bp):
AAAAATTCATTTTTACCTCGATTTTCC
Found at i:866873 original size:29 final size:29
Alignment explanation
Indices: 866779--866999 Score: 123
Period size: 29 Copynumber: 7.6 Consensus size: 29
866769 ACCTTGATTT
* * **
866779 TTCCAAAATTTACATTTTTACCCCCGAAC
1 TTCCAAAAATTACATTTTTACCACTAAAC
* * **
866808 TTTCC-AAAATT-CTATTTTTACCTC-GATT
1 -TTCCAAAAATTAC-ATTTTTACCACTAAAC
*
866836 TTCCAAAAAATTACCA-TTTTACCATTAAAC
1 TTCC-AAAAATTA-CATTTTTACCACTAAAC
* *
866866 TTCCAAAAAATACATTTTTACCCCTAAAC
1 TTCCAAAAATTACATTTTTACCACTAAAC
* * **
866895 TTCCAAAAATTTCATTTTTTACC-CTGATT
1 TTCCAAAAATTACA-TTTTTACCACTAAAC
*
866924 TTCAAAAAAATTACA-TTTTACC-CTCAAAC
1 TTC-CAAAAATTACATTTTTACCACT-AAAC
* ** * *
866953 TTCCAAAAATCATGTTTTTACCCCCAAAC
1 TTCCAAAAATTACATTTTTACCACTAAAC
* *
866982 TTCAAAAAATTCCATTTT
1 TTCCAAAAATTACATTTT
867000 GACCTGATTT
Statistics
Matches: 147, Mismatches: 32, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
27 4 0.03
28 21 0.14
29 93 0.63
30 28 0.19
31 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTTACCACTAAAC
Found at i:866882 original size:87 final size:86
Alignment explanation
Indices: 866779--867047 Score: 291
Period size: 87 Copynumber: 3.1 Consensus size: 86
866769 ACCTTGATTT
** *
866779 TTCCAAAATTTACATTTTTACCCCCGAACTTTCCAAAATTCTATTTTTACCTCGATTTTCCAAAA
1 TTCCAAAAAATACATTTTTACCCCCAAAC-TTCCAAAATTCTATTTTTACCTCGATTTTCCAAAA
* *
866844 AATTACCATTTTACCATTAAAC
65 AATTACCATTTTACCCTCAAAC
* *
866866 TTCCAAAAAATACATTTTTACCCCTAAACTTCCAAAAATT-TCATTTTTTACC-CTGATTTTCAA
1 TTCCAAAAAATACATTTTTACCCCCAAACTTCC-AAAATTCT-A-TTTTTACCTC-GATTTTCCA
866929 AAAAATTA-CATTTTACCCTCAAAC
62 AAAAATTACCATTTTACCCTCAAAC
* * *
866953 TTCC-AAAAAT-CATGTTTTTACCCCCAAACTTCAAAAAATTCCATTTTGACCT-GATTTTTCC-
1 TTCCAAAAAATACA--TTTTTACCCCCAAACTTC-CAAAATTCTATTTTTACCTCGA-TTTTCCA
* * *
867014 CAAAATTACCATTTTGCCCCCAAAC
62 AAAAATTACCATTTTACCCTCAAAC
867039 TTCCAAAAA
1 TTCCAAAAA
867048 CTCAATTTTT
Statistics
Matches: 155, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
85 11 0.07
86 41 0.26
87 79 0.51
88 24 0.15
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (86 bp):
TTCCAAAAAATACATTTTTACCCCCAAACTTCCAAAATTCTATTTTTACCTCGATTTTCCAAAAA
ATTACCATTTTACCCTCAAAC
Found at i:866986 original size:58 final size:56
Alignment explanation
Indices: 866862--866999 Score: 147
Period size: 58 Copynumber: 2.4 Consensus size: 56
866852 TTTTACCATT
*
866862 AAACTTCCAAAAAA-TACATTTTTACCCCTAAACTTCCAAAAATTTCATTTTTTACCCT
1 AAACTT-CAAAAAATTACA-TTTTACCCCTAAACTTCCAAAAA-TTCATTTTTTACCCC
* **
866920 GATTTTCAAAAAAATTACATTTTA-CCCTCAAACTTCCAAAAA-TCATGTTTTTACCCCC
1 AAACTTC-AAAAAATTACATTTTACCCCT-AAACTTCCAAAAATTCAT-TTTTTA-CCCC
*
866978 AAACTTCAAAAAATTCCATTTT
1 AAACTTCAAAAAATTACATTTT
867000 GACCTGATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
56 4 0.06
57 25 0.37
58 34 0.51
59 4 0.06
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (56 bp):
AAACTTCAAAAAATTACATTTTACCCCTAAACTTCCAAAAATTCATTTTTTACCCC
Found at i:867019 original size:57 final size:58
Alignment explanation
Indices: 866968--867090 Score: 160
Period size: 57 Copynumber: 2.2 Consensus size: 58
866958 AAAATCATGT
* * * *
866968 TTTTACCCCCAAACTTCAAAAAATTCCATTTTGA-CCTGATTTTTCCCAAAATTACCA
1 TTTTACCCCCAAACTTCAAAAAACTCAATTTTGATCCTAATTTTTCCCAAAATCACCA
* * * *
867025 TTTTGCCCCCAAACTTCCAAAAACTCAATTTTTATCCTAATTTTT-CCAAAATTACCA
1 TTTTACCCCCAAACTTCAAAAAACTCAATTTTGATCCTAATTTTTCCCAAAATCACCA
867082 TTTTACCCC
1 TTTTACCCC
867091 TGAACATCTA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 49 0.84
58 9 0.16
ACGTcount: A:0.32, C:0.29, G:0.02, T:0.37
Consensus pattern (58 bp):
TTTTACCCCCAAACTTCAAAAAACTCAATTTTGATCCTAATTTTTCCCAAAATCACCA
Found at i:867042 original size:29 final size:29
Alignment explanation
Indices: 866836--867047 Score: 112
Period size: 29 Copynumber: 7.3 Consensus size: 29
866826 TACCTCGATT
***
866836 TTCCAAAAAATTACCATTTTACCATTAAAC
1 TTCC-AAAAATTACCATTTTACCCCCAAAC
* *
866866 TTCCAAAAAATA-CATTTTTACCCCTAAAC
1 TTCCAAAAATTACCA-TTTTACCCCCAAAC
* ** **
866895 TTCCAAAAATT-TCATTTTTTA-CCCTGATT
1 TTCCAAAAATTACCA--TTTTACCCCCAAAC
* *
866924 TTCAAAAAAATTA-CATTTTACCCTCAAAC
1 TTC-CAAAAATTACCATTTTACCCCCAAAC
* ***
866953 TTCCAAAAATCATGTTTTTACCCCCAAAC
1 TTCCAAAAATTACCATTTTACCCCCAAAC
* ** ***
866982 TTCAAAAAATT-CCATTTTGA-CCTGATTT
1 TTCCAAAAATTACCATTTT-ACCCCCAAAC
* *
867010 TTCCCAAAATTACCATTTTGCCCCCAAAC
1 TTCCAAAAATTACCATTTTACCCCCAAAC
867039 TTCCAAAAA
1 TTCCAAAAA
867048 CTCAATTTTT
Statistics
Matches: 135, Mismatches: 37, Indels: 21
0.70 0.19 0.11
Matches are distributed among these distances:
28 30 0.22
29 86 0.64
30 19 0.14
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.34
Consensus pattern (29 bp):
TTCCAAAAATTACCATTTTACCCCCAAAC
Found at i:867114 original size:57 final size:58
Alignment explanation
Indices: 867006--867144 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 58
866996 TTTTGACCTG
* * *
867006 ATTTTTCCCAAAATTACCATTTTGCCCCCAAACTTCCAAAAACTCAATTTTT-ATCCTA
1 ATTTTT-CCAAAATTACCATTTTACCCCCAAACATCCAAAAACTCAATTTTTAATCCCA
** * * *
867064 ATTTTTCCAAAATTACCATTTTACCCCTGAACAT-CTAAAATTCTATTTTTTAATCCCA
1 ATTTTTCCAAAATTACCATTTTACCCCCAAACATCCAAAAACTC-AATTTTTAATCCCA
**
867122 AACTTTCACAAAATTACCATTTT
1 ATTTTTC-CAAAATTACCATTTT
867145 TGCCCTGAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
56 7 0.10
57 30 0.44
58 16 0.24
59 15 0.22
ACGTcount: A:0.34, C:0.26, G:0.01, T:0.39
Consensus pattern (58 bp):
ATTTTTCCAAAATTACCATTTTACCCCCAAACATCCAAAAACTCAATTTTTAATCCCA
Found at i:879007 original size:49 final size:48
Alignment explanation
Indices: 878785--879124 Score: 189
Period size: 49 Copynumber: 6.9 Consensus size: 48
878775 ACCATGAAAC
* * * *
878785 ATGAAGGGAAAGATCTAAGCCGCAACGGTGGATCCAGTACCACATAGAC
1 ATGAAGGGAAAGATCTAAGCCGCAACGG-CGAACCAGTACCACAGAGAT
** * * * * * *
878834 ACAAAGGGAAGGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGA-A-
1 ATGAAGGGAAAGATCTAAGCCGCAACGGCGAACC-AGTACCACAGAGAT
* * * * * *
878881 GTGAAGGGAAAGATCTAAGACCACAACGGTGGATCCAATACCACAAAGAT
1 ATGAAGGGAAAGATCTAAG-CCGCAACGG-CGAACCAGTACCACAGAGAT
** * * * * **
878931 ACAAAAGGGAAAGGTTTAAGTCACAACGGCGAACCTAGTACCTTAGAGAT
1 A-TGAAGGGAAAGATCTAAGCCGCAACGGCGAACC-AGTACCACAGAGAT
* * * * *
878981 ATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCTAGTACCTCAGAAAAC
1 ATGAAGGGAAAGATCTAAGCCGCAACGGC-GAACCAGTACCACAG-AGAT
* * * * *
879031 ACGACGGGAAAGATCTAAGACCGTAACGGCGGATCCAGTACCACAAAGAT
1 ATGAAGGGAAAGATCTAAG-CCGCAACGGC-GAACCAGTACCACAGAGAT
** * * *
879081 ACAAAAGGGAAAGATCTAAGCTGCAACAGCGGATCCAGTACCAC
1 A-TGAAGGGAAAGATCTAAGCCGCAACGGC-GAACCAGTACCAC
879125 GAAGACACAA
Statistics
Matches: 218, Mismatches: 62, Indels: 21
0.72 0.21 0.07
Matches are distributed among these distances:
47 13 0.06
48 19 0.09
49 70 0.32
50 65 0.30
51 51 0.23
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (48 bp):
ATGAAGGGAAAGATCTAAGCCGCAACGGCGAACCAGTACCACAGAGAT
Found at i:879123 original size:50 final size:50
Alignment explanation
Indices: 878788--879134 Score: 264
Period size: 50 Copynumber: 7.0 Consensus size: 50
878778 ATGAAACATG
* * *
878788 AAGGGAAAGATCTAAGCCGCAACGGTGGATCCAGTACCACATAGACAC-A
1 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGATACAA
* * * * * * * *
878837 AAGGGAAGGGTTTAAGTCGCAACGGC-GAACCTTGTACCTCAGAAG-T---G
1 AAGGGAAAGATCTAAGCCGCAACGGCGGATCC-AGTACCACA-AAGATACAA
* * *
878884 AAGGGAAAGATCTAAGACCACAACGGTGGATCCAATACCACAAAGATACAA
1 AAGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACAAAGATACAA
* * * * * ** * **
878935 AAGGGAAAGGTTTAAGTCACAACGGC-GAACCTAGTACCTTAGAGATA-TG
1 AAGGGAAAGATCTAAGCCGCAACGGCGGATCC-AGTACCACAAAGATACAA
* * *
878984 AAGGGAAAGATCTAAGCCGCAACGGCGGATCTAGTACCTCAGAA-A-ACACG
1 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACA-AAGATACA-A
* *
879034 ACGGGAAAGATCTAAGACCGTAACGGCGGATCCAGTACCACAAAGATACAA
1 AAGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACAAAGATACAA
* * * *
879085 AAGGGAAAGATCTAAGCTGCAACAGCGGATCCAGTACCACGAAGACACAA
1 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGATACAA
879135 GAGAAAAATT
Statistics
Matches: 229, Mismatches: 53, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
47 16 0.07
48 19 0.08
49 67 0.29
50 72 0.31
51 52 0.23
52 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (50 bp):
AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGATACAA
Found at i:879208 original size:149 final size:149
Alignment explanation
Indices: 878788--879239 Score: 481
Period size: 149 Copynumber: 3.0 Consensus size: 149
878778 ATGAAACATG
* * * *
878788 AAGGGAAAGATCTAAGCCGCAACGGTGGATCCAGTACCAC-ATAGACACAAAGGGAAGGGTTTAA
1 AAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGTACCACGA-AGACAC-AAGGGAAAGATTTAA
* ** * * *
878852 GTCGCAACGGCGAACCTTGTACCTCAG--AA-GTGAAGGGAAAGATCTAAGACCACAACGGTGGA
64 GTCGCAACGGCGAACCTAGTACCTCAGAAAACACGACGGGAAAGATCTAAGACCGCAACGGCGGA
*
878914 TCCAATACCACAAAGATACAA
129 TCCAGTACCACAAAGATACAA
* * * * * * *
878935 AAGGGAAAGGTTTAAG-TCACAACGGC-GAACCTAGTACCTTA-G-AGATATGAAGGGAAAGATC
1 AAGGGAAAGATCTAAGCT-GCAACGGCGGATCC-AGTACC--ACGAAGACA-CAAGGGAAAGATT
* * * *
878996 TAAGCCGCAACGGCGGATCTAGTACCTCAGAAAACACGACGGGAAAGATCTAAGACCGTAACGGC
61 TAAGTCGCAACGGCGAACCTAGTACCTCAGAAAACACGACGGGAAAGATCTAAGACCGCAACGGC
879061 GGATCCAGTACCACAAAGATACAA
126 GGATCCAGTACCACAAAGATACAA
* * *
879085 AAGGGAAAGATCTAAGCTGCAACAGCGGATCCAGTACCACGAAGACACAAGAGAAAAATTTAAGT
1 AAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATTTAAGT
* * ** *
879150 CGCAATGGCAAACCTACAACCTCAGAAAACACGACGGGAAAGATCTAAGACCGCAACGGCAGATC
66 CGCAACGGCGAACCTAGTACCTCAGAAAACACGACGGGAAAGATCTAAGACCGCAACGGCGGATC
* *
879215 TAGTA-CAGCAAATATACAA
131 CAGTACCA-CAAAGATACAA
879234 AAGGGA
1 AAGGGA
879240 TTTTGGAGTG
Statistics
Matches: 248, Mismatches: 43, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
146 4 0.02
147 65 0.26
148 3 0.01
149 94 0.38
150 77 0.31
151 5 0.02
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.14
Consensus pattern (149 bp):
AAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATTTAAGT
CGCAACGGCGAACCTAGTACCTCAGAAAACACGACGGGAAAGATCTAAGACCGCAACGGCGGATC
CAGTACCACAAAGATACAA
Found at i:879485 original size:6 final size:6
Alignment explanation
Indices: 879463--879540 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
879453 GTTTAAATTG
* * *
879463 ATTTAA ATTTAT TTTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTT-T
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA
* *
879509 CTTTAA ATTTAA ATTT-A ATTAAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT
879541 GATTTAAAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
4 2 0.04
5 9 0.16
6 44 0.77
7 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (6 bp):
ATTTAA
Found at i:879499 original size:17 final size:17
Alignment explanation
Indices: 879463--879540 Score: 97
Period size: 17 Copynumber: 4.5 Consensus size: 17
879453 GTTTAAATTG
*
879463 ATTTAAATTTATTTTTAA
1 ATTTAAATTTA-TCTTAA
879481 ATTTAAATTTATCTTAA
1 ATTTAAATTTATCTTAA
879498 ATTTAAATTT-TCTTTAA
1 ATTTAAATTTATC-TTAA
*
879515 ATTTAAATTTAAT-TAAA
1 ATTTAAATTT-ATCTTAA
879532 ATTTAAATT
1 ATTTAAATT
879541 GATTTAAAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
16 2 0.04
17 41 0.75
18 11 0.20
19 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTAAATTTATCTTAA
Found at i:879519 original size:34 final size:35
Alignment explanation
Indices: 879463--879540 Score: 115
Period size: 34 Copynumber: 2.3 Consensus size: 35
879453 GTTTAAATTG
* *
879463 ATTTAAATTTATTTTTAAATTTAAATTT-ATCTTAA
1 ATTTAAATTTATCTTTAAATTTAAATTTAAT-TAAA
879498 ATTTAAATTT-TCTTTAAATTTAAATTTAATTAAA
1 ATTTAAATTTATCTTTAAATTTAAATTTAATTAAA
879532 ATTTAAATT
1 ATTTAAATT
879541 GATTTAAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
34 28 0.70
35 12 0.30
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (35 bp):
ATTTAAATTTATCTTTAAATTTAAATTTAATTAAA
Found at i:879549 original size:17 final size:15
Alignment explanation
Indices: 879454--879548 Score: 79
Period size: 17 Copynumber: 6.0 Consensus size: 15
879444 TTAAGTTGGG
879454 TTTAAATTGATTTAAA
1 TTTAAATT-ATTTAAA
879470 TTT--ATT-TTTAAA
1 TTTAAATTATTTAAA
879482 TTTAAATTTATCTTAAA
1 TTTAAA-TTAT-TTAAA
*
879499 TTTAAATTTTCTTTAAA
1 TTTAAA--TTATTTAAA
*
879516 TTTAAATTTAATTAAAA
1 TTTAAA-TT-ATTTAAA
879533 TTTAAATTGATTTAAA
1 TTTAAATT-ATTTAAA
879549 ACTTAATATA
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
12 9 0.13
14 4 0.06
15 2 0.03
16 15 0.22
17 33 0.49
18 4 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TTTAAATTATTTAAA
Found at i:880242 original size:3 final size:3
Alignment explanation
Indices: 880234--880338 Score: 84
Period size: 3 Copynumber: 34.0 Consensus size: 3
880224 ATCATAACTG
* * * * *
880234 ATA ATA ATA ATA ATA TTA CTA ATA ACA CTA ATA ATAA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
** * * *
880280 ATA ATTA GCA TTA ATGA ATA ATA ATA ATA ATT TTA ATA ATA ATA ATA
1 ATA A-TA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
880327 ATA ATA ACA ATA
1 ATA ATA ATA ATA
880339 TTATTAAAAA
Statistics
Matches: 79, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
3 71 0.90
4 8 0.10
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:881520 original size:60 final size:57
Alignment explanation
Indices: 881430--881603 Score: 172
Period size: 58 Copynumber: 2.9 Consensus size: 57
881420 CTAAAATTAT
* * * *
881430 ATTTTAACCCCTAAATTTTCTAAAACTTACATTTTACACC-CGAACTTTCC-AAAATACC
1 ATTTTGACCCC-AATTTTTCCAAAAATTACATTTTAC-CCTCGAAC-TTCCAAAAATACC
* * **
881488 ATTTTTGACCCCAGTTTTTTTCCAAAAATTACATTTTTACCCTCTAACTTCCAAAAATTTC
1 A-TTTTGACCCCA--ATTTTTCCAAAAATTACA-TTTTACCCTCGAACTTCCAAAAATACC
* *
881549 ATTTTGACCCTAATTTTTCCAAAAATTACATTTTTACCCTTGAACTTCCAAAAAT
1 ATTTTGACCCCAATTTTTCCAAAAATTACA-TTTTACCCTCGAACTTCCAAAAAT
881604 TATGTTTTTA
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
58 42 0.43
59 9 0.09
60 30 0.31
61 17 0.17
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (57 bp):
ATTTTGACCCCAATTTTTCCAAAAATTACATTTTACCCTCGAACTTCCAAAAATACC
Found at i:881551 original size:29 final size:29
Alignment explanation
Indices: 881507--881640 Score: 148
Period size: 29 Copynumber: 4.6 Consensus size: 29
881497 CCCAGTTTTT
881507 TTCCAAAAATTACATTTTTACCCTCTAAC
1 TTCCAAAAATTACATTTTTACCCTCTAAC
* * *
881536 TTCCAAAAATTTCATTTTGA-CC-CTAATTT
1 TTCCAAAAATTACATTTTTACCCTCTAA--C
881565 TTCCAAAAATTACATTTTTACCCT-TGAAC
1 TTCCAAAAATTACATTTTTACCCTCT-AAC
** * *
881594 TTCCAAAAATTATGTTTTTACCCCCAAAC
1 TTCCAAAAATTACATTTTTACCCTCTAAC
*
881623 TTCCAAAAATTCCATTTT
1 TTCCAAAAATTACATTTT
881641 GACCTCGATT
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
27 4 0.05
28 2 0.02
29 75 0.87
30 3 0.03
31 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.40
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTTACCCTCTAAC
Done.