Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 69 of 295
Found at i:20958231 original size:25 final size:25
Alignment explanation
Indices: 20958170--20958242 Score: 119
Period size: 26 Copynumber: 2.9 Consensus size: 25
20958160 AGAATTTTTC
* *
20958170 ATAAAAGCTTTCCAGAGAATTCGCT
1 ATAAACGCCTTCCAGAGAATTCGCT
20958195 ATTAAACGCCTTCCAGAGAATTCGCT
1 A-TAAACGCCTTCCAGAGAATTCGCT
20958221 ATAAACGCCTTCCAGAGAATTC
1 ATAAACGCCTTCCAGAGAATTC
20958243 TCCACAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 22 0.49
26 23 0.51
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (25 bp):
ATAAACGCCTTCCAGAGAATTCGCT
Found at i:20958260 original size:51 final size:51
Alignment explanation
Indices: 20958179--20958318 Score: 117
Period size: 51 Copynumber: 2.8 Consensus size: 51
20958169 CATAAAAGCT
* * * * * *
20958179 TTCCAGAGAATTCGCTATTAAACGC-CTTCCAGAGAATTCGCTATAAACGCC
1 TTCCAGAGAATTCGCCA-CAAAGGCTTTTCCAGAGAATTCGCGAGAAACGCC
* * ** *
20958230 TTCCAGAGAATTCTCCACAAAGAG-TTTTCCAAAGAATTTACGAGAAAGGCC
1 TTCCAGAGAATTCGCCACAAAG-GCTTTTCCAGAGAATTCGCGAGAAACGCC
**
20958281 TTTTAGAGAATTCGCCACAAAGGCTTTT-CAGA-AATTCG
1 TTCCAGAGAATTCGCCACAAAGGCTTTTCCAGAGAATTCG
20958319 TGTTTATTAT
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
49 4 0.06
50 7 0.10
51 58 0.84
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (51 bp):
TTCCAGAGAATTCGCCACAAAGGCTTTTCCAGAGAATTCGCGAGAAACGCC
Found at i:20959879 original size:16 final size:16
Alignment explanation
Indices: 20959858--20959914 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
20959848 TTAAAATAAA
20959858 TTTATATTTTATTATT
1 TTTATATTTTATTATT
20959874 TTTATA-TTTA-TA-T
1 TTTATATTTTATTATT
* *
20959887 TTTATAGTTT-TTATAA
1 TTTATATTTTATTAT-T
20959903 TTT-TATTTTATT
1 TTTATATTTTATT
20959915 TAATAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 7 0.21
14 7 0.21
15 9 0.26
16 11 0.32
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTATATTTTATTATT
Found at i:20959968 original size:25 final size:25
Alignment explanation
Indices: 20959940--20959993 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
20959930 AATTATTTTA
20959940 TTTTCATAATTATATAATTTTT-AAT
1 TTTTCATAATTATA-AATTTTTAAAT
*
20959965 TTTTTATAATTATAAATTTTTAAAT
1 TTTTCATAATTATAAATTTTTAAAT
20959990 TTTT
1 TTTT
20959994 GAGAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTCATAATTATAAATTTTTAAAT
Found at i:20963264 original size:33 final size:33
Alignment explanation
Indices: 20963220--20963299 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
20963210 TGTTTGTTCC
*
20963220 AAGTTTTTTCCAATAAATCTAATTGAAATTACA
1 AAGTTTGTTCCAATAAATCTAATTGAAATTACA
*
20963253 AAGTTTGTTCCAATAAATCTAATTTAAATTACA
1 AAGTTTGTTCCAATAAATCTAATTGAAATTACA
*
20963286 AAGTTTGATCCAAT
1 AAGTTTGTTCCAAT
20963300 TTTGATGCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (33 bp):
AAGTTTGTTCCAATAAATCTAATTGAAATTACA
Found at i:20966043 original size:38 final size:40
Alignment explanation
Indices: 20965961--20966044 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 40
20965951 AAATCTTAAC
* *
20965961 AAATAAAAAATATTTGTCAAACAATTCAAAAAAACCCAAT
1 AAATAAAAAATATTTGTCAAACAATTCAAAAAAACCAAAA
* *
20966001 AAATAAAAAA-A-TTGTCAAATAATTCAAAAACAA-TAAAA
1 AAATAAAAAATATTTGTCAAACAATTCAAAAA-AACCAAAA
20966039 AAATAA
1 AAATAA
20966045 CATTTATAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 26 0.67
39 3 0.08
40 10 0.26
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.21
Consensus pattern (40 bp):
AAATAAAAAATATTTGTCAAACAATTCAAAAAAACCAAAA
Found at i:20967038 original size:22 final size:22
Alignment explanation
Indices: 20967010--20967054 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
20967000 GTATGTGAGA
20967010 TACTTGAGGATAAAATCAGTGC
1 TACTTGAGGATAAAATCAGTGC
20967032 TACTTGAGGATAAAATCAGTGC
1 TACTTGAGGATAAAATCAGTGC
20967054 T
1 T
20967055 TCTTTTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (22 bp):
TACTTGAGGATAAAATCAGTGC
Found at i:20973803 original size:23 final size:23
Alignment explanation
Indices: 20973770--20973816 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
20973760 AATGACCACA
* *
20973770 AAAAGGTTTCTATAATCCATGCT
1 AAAAGGATTCTACAATCCATGCT
*
20973793 AAAAGGATTCTCCAATCCATGCT
1 AAAAGGATTCTACAATCCATGCT
20973816 A
1 A
20973817 TCTTGGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (23 bp):
AAAAGGATTCTACAATCCATGCT
Found at i:20980212 original size:23 final size:23
Alignment explanation
Indices: 20980182--20980225 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20980172 TATTTAATTG
20980182 ATTTAGGGTTAAGATTTTTTAGA
1 ATTTAGGGTTAAGATTTTTTAGA
* *
20980205 ATTTAGGGTTAGGGTTTTTTA
1 ATTTAGGGTTAAGATTTTTTA
20980226 AGTTAAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (23 bp):
ATTTAGGGTTAAGATTTTTTAGA
Found at i:20980264 original size:39 final size:38
Alignment explanation
Indices: 20980189--20980264 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
20980179 TTGATTTAGG
*
20980189 GTTAAGATTTTTTAGAATTTAGGGTTAGGGTTTTTTAA
1 GTTAAGATTTTTTAGAATTTAGGGTTAGGGTGTTTTAA
* * *
20980227 GTTAAGGTTTTTTAGGATTTTAAGGTTTAGGG-GTTTTA
1 GTTAAGATTTTTTA-GAATTT-AGGGTTAGGGTGTTTTA
20980265 GGAAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 13 0.41
39 10 0.31
40 9 0.28
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (38 bp):
GTTAAGATTTTTTAGAATTTAGGGTTAGGGTGTTTTAA
Found at i:20981276 original size:125 final size:125
Alignment explanation
Indices: 20980926--20981300 Score: 474
Period size: 126 Copynumber: 3.0 Consensus size: 125
20980916 TTTCAGCAAG
* *
20980926 AATAATTATGAGTAGACGTTTCTGAACAAATAGTGTC----TGCTTCAAGCAGGATGCACT-TTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAACGCTTCAAGCAGGATGCACTGTT-
** * * * *
20980986 AGCAAAATTTTTAGAAAAAGCTCTCATATGGACGCTCTTTTGCTACAGCAGTTCGTAGAAA
65 AGCAAAATTTCAAAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * *
20981047 AATAATTCTGAGTAAACATTTCTGAACAAATAATGTCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTC-AAAACGCTTCAAGCAGGATGCACTGTT
** ** * *
20981112 AGCAAAATTTCTGGAAAAAA-CTCCCATGTAAATGCTCTTTTACTACAGTAGTTCGTAGAAA
65 AGCAAAATTTC-AAAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
20981173 AATAATTCTGAGTAGACGTTTCTAAACAAGTAGTGTCAAAACGCTTCAAGTAGGATGCACTGTTA
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAACGCTTCAAGCAGGATGCACTGTTA
* *
20981238 GCAAAATTTCAAAAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTTCGTAGAAA
66 GCAAAATTTCAAAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
20981298 AAT
1 AAT
20981301 GAGGCTATAA
Statistics
Matches: 214, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
121 33 0.15
124 6 0.03
125 74 0.35
126 95 0.44
127 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (125 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAACGCTTCAAGCAGGATGCACTGTTA
GCAAAATTTCAAAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:20984816 original size:18 final size:18
Alignment explanation
Indices: 20984790--20984832 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20984780 GACTAGGAAA
* *
20984790 AGGAAACATATAAGGGTT
1 AGGATACATATAAAGGTT
20984808 AGGATACATATAAAGGTT
1 AGGATACATATAAAGGTT
*
20984826 AGAATAC
1 AGGATAC
20984833 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAAGGTT
Found at i:20985423 original size:7 final size:7
Alignment explanation
Indices: 20985413--20985462 Score: 82
Period size: 7 Copynumber: 7.0 Consensus size: 7
20985403 CATAATACAT
20985413 AATACTA
1 AATACTA
20985420 AATACTA
1 AATACTA
20985427 AATACTA
1 AATACTA
20985434 AATACTA
1 AATACTA
20985441 AATACTA
1 AATACTA
*
20985448 AATACGA
1 AATACTA
20985455 AATGACTA
1 AAT-ACTA
20985463 CTTTATTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 37 0.93
8 3 0.08
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:20986312 original size:48 final size:46
Alignment explanation
Indices: 20986244--20986378 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 46
20986234 ATACAAACAT
* * *
20986244 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAAATATCAA-TAGTATTGAAATT-TAATTA-AATTTA
* *
20986292 CATAAATGAATAAAATATCAAATAATATTGTAAATTTAATTAAATTTA
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAATTAAATTTA
*
20986340 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAA
20986379 AATTATCACT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.03
48 65 0.88
49 7 0.09
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (46 bp):
CATAAATGAAAAAAATATCAATAGTATTGAAATTTAATTAAATTTA
Found at i:20987273 original size:30 final size:30
Alignment explanation
Indices: 20987238--20987295 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
20987228 TAGGTACTTC
* *
20987238 CACACGGGT-GATCCACATGCCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCATGTGTGA
20987268 CACACGGGTAGACCACACGCCCATGTGT
1 CACACGGGTAGACCACACGCCCATGTGT
20987296 CATGGCTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCATGTGTGA
Found at i:20994620 original size:4 final size:4
Alignment explanation
Indices: 20994613--20994665 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
20994603 CTTAAAAAAA
20994613 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
20994661 ACAT A
1 ACAT A
20994666 TTAGTATTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:20995497 original size:30 final size:30
Alignment explanation
Indices: 20995463--20995522 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
20995453 TAGACACTTC
20995463 CACACGGGT-GATCCACACACCCGTGTGTCA
1 CACACGGGTAGA-CCACACACCCGTGTGTCA
*
20995493 CACACGGGTAGACCACACGCCCGTGTGTCA
1 CACACGGGTAGACCACACACCCGTGTGTCA
20995523 TGGCCGTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.23, C:0.37, G:0.25, T:0.15
Consensus pattern (30 bp):
CACACGGGTAGACCACACACCCGTGTGTCA
Found at i:21002195 original size:49 final size:50
Alignment explanation
Indices: 21002128--21002272 Score: 132
Period size: 53 Copynumber: 2.8 Consensus size: 50
21002118 CTAGGCATCA
* * *
21002128 AGTGCCAAGCCTGTAGGCTAACATC-CCTTC-GAAACACACTTCGGCACTG
1 AGTGCCAAGCCCGAAGGCTAACATCTCC-CCAGAAACACACTTCGGCACTG
* * *
21002177 AGTGCCAAGCCCGAAGGCTTTACATCTGTCCCCATAAACACACTTCGGCATTG
1 AGTGCCAAGCCCGAAGGC-TAACATC--TCCCCAGAAACACACTTCGGCACTG
* * *
21002230 AGTGCCAAGCACGAAGGCTTTACATCCGCCCCTAGAAACACAC
1 AGTGCCAAGCCCGAAGGC-TAACAT-CTCCCC-AGAAACACAC
21002273 CTAGATTACT
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
49 16 0.20
50 6 0.08
52 5 0.06
53 52 0.65
54 1 0.01
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (50 bp):
AGTGCCAAGCCCGAAGGCTAACATCTCCCCAGAAACACACTTCGGCACTG
Found at i:21002232 original size:53 final size:53
Alignment explanation
Indices: 21002158--21002272 Score: 178
Period size: 53 Copynumber: 2.2 Consensus size: 53
21002148 ACATCCCTTC
* *
21002158 GAAACACACTTCGGCACTGAGTGCCAAGCCCGAAGGCTTTACATCTGTCCCC-A
1 GAAACACACTTCGGCACTGAGTGCCAAGCACGAAGGCTTTACATCCG-CCCCTA
* *
21002211 TAAACACACTTCGGCATTGAGTGCCAAGCACGAAGGCTTTACATCCGCCCCTA
1 GAAACACACTTCGGCACTGAGTGCCAAGCACGAAGGCTTTACATCCGCCCCTA
21002264 GAAACACAC
1 GAAACACAC
21002273 CTAGATTACT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 4 0.07
53 52 0.93
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (53 bp):
GAAACACACTTCGGCACTGAGTGCCAAGCACGAAGGCTTTACATCCGCCCCTA
Found at i:21008029 original size:42 final size:42
Alignment explanation
Indices: 21007970--21008053 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
21007960 CCTATAAACG
21007970 ATTGAGTCCTAATTCTAGCATTTACCACTTTTCTTATTAACA
1 ATTGAGTCCTAATTCTAGCATTTACCACTTTTCTTATTAACA
21008012 ATTGAGTCCTAATTCTAGCATTTACCACTTTTCTTATTAACA
1 ATTGAGTCCTAATTCTAGCATTTACCACTTTTCTTATTAACA
21008054 GAAATTTCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (42 bp):
ATTGAGTCCTAATTCTAGCATTTACCACTTTTCTTATTAACA
Found at i:21015802 original size:43 final size:43
Alignment explanation
Indices: 21015731--21015819 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
21015721 TATCTAGAGT
21015731 TACGAAACTACAAATTAAGATCCGTGAATTGTCCCAGAAACTA
1 TACGAAACTACAAATTAAGATCCGTGAATTGTCCCAGAAACTA
* * *
21015774 TACGGAACTCCAAATTAAGATCTGTGAATTGTCCCAGAAACTA
1 TACGAAACTACAAATTAAGATCCGTGAATTGTCCCAGAAACTA
21015817 TAC
1 TAC
21015820 TCATATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (43 bp):
TACGAAACTACAAATTAAGATCCGTGAATTGTCCCAGAAACTA
Found at i:21016581 original size:49 final size:49
Alignment explanation
Indices: 21016525--21016698 Score: 267
Period size: 49 Copynumber: 3.5 Consensus size: 49
21016515 CTGGTACGTA
21016525 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * ** * *
21016574 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
21016624 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
21016673 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
21016699 CGTGACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
49 67 0.61
50 42 0.39
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:21016687 original size:99 final size:99
Alignment explanation
Indices: 21016525--21016706 Score: 346
Period size: 99 Copynumber: 1.8 Consensus size: 99
21016515 CTGGTACGTA
21016525 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
21016590 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* *
21016624 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
21016689 GTACTACACACGTGACCT
66 GTACTACACACGTGACCT
21016707 CACAATAGAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 81 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:21025596 original size:12 final size:12
Alignment explanation
Indices: 21025579--21025603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21025569 ATGTAAGTGA
21025579 TCTTGATGATTT
1 TCTTGATGATTT
21025591 TCTTGATGATTT
1 TCTTGATGATTT
21025603 T
1 T
21025604 TACTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:21026395 original size:47 final size:46
Alignment explanation
Indices: 21026327--21026635 Score: 220
Period size: 47 Copynumber: 6.6 Consensus size: 46
21026317 TTTGTGCGCT
* *
21026327 AGTGTAAGACATGTTTGGGACATGCTTCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
* * * * *
21026373 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCCA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CATTATGAGAGCC
* * * *
21026421 AGTGTAAGACATGTTTGGGACATGCTTCAGCCATATTATGAGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
* * * *
21026467 AGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACA-GA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATTATGAGAGCC
* * * * * * * *
21026514 AGTGTAAGACGTGTCTGGGACACGCATCGGTCAAGAGT-TGTG-G-T
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CCACATTATGAGAGCC
*
21026558 AGTGTAAGACATGTCTAGGACATGCATCAG-CATGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAT-TATGAGAGCC
*
21026606 AGTATAAGAGCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
21026636 GACATTTTAT
Statistics
Matches: 200, Mismatches: 44, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.00
44 27 0.14
45 5 0.03
46 49 0.25
47 67 0.34
48 29 0.14
49 17 0.09
50 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
Found at i:21026921 original size:19 final size:19
Alignment explanation
Indices: 21026897--21026939 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
21026887 TATTTATTTA
21026897 TATGCAACTTACTAAGCTT
1 TATGCAACTTACTAAGCTT
21026916 TATGCAACTTACTAAGCTT
1 TATGCAACTTACTAAGCTT
21026935 TATGC
1 TATGC
21026940 TTACTCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (19 bp):
TATGCAACTTACTAAGCTT
Found at i:21026944 original size:16 final size:17
Alignment explanation
Indices: 21026903--21026944 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
21026893 TTTATATGCA
21026903 ACTTACTAAGCTTTATG
1 ACTTACTAAGCTTTATG
21026920 CAACTTACTAAGCTTTATG
1 --ACTTACTAAGCTTTATG
21026939 -CTTACT
1 ACTTACT
21026945 CTCTTTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.26
19 17 0.74
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (17 bp):
ACTTACTAAGCTTTATG
Found at i:21032551 original size:11 final size:11
Alignment explanation
Indices: 21032535--21032559 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21032525 TTCAGCTGAT
21032535 GAAAATGAAGA
1 GAAAATGAAGA
21032546 GAAAATGAAGA
1 GAAAATGAAGA
21032557 GAA
1 GAA
21032560 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:21032941 original size:63 final size:63
Alignment explanation
Indices: 21032842--21032965 Score: 230
Period size: 63 Copynumber: 2.0 Consensus size: 63
21032832 TGACACTCTA
*
21032842 TAAATATTTATAAAAATATTTATGGCTAGGTTTATAACTCTGAGATCTCGATACTTTTTTTCG
1 TAAATATTTATAAAAATATTTATGGCTAGGTTTATAACTCTGAGATCACGATACTTTTTTTCG
*
21032905 TAAATATTTATAAAAATATTTATGGCTCGGTTTATAACTCTGAGATCACGATACTTTTTTT
1 TAAATATTTATAAAAATATTTATGGCTAGGTTTATAACTCTGAGATCACGATACTTTTTTT
21032966 TCTCAATTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.44
Consensus pattern (63 bp):
TAAATATTTATAAAAATATTTATGGCTAGGTTTATAACTCTGAGATCACGATACTTTTTTTCG
Found at i:21033598 original size:18 final size:18
Alignment explanation
Indices: 21033575--21033609 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21033565 CAAGAACAGG
21033575 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
* *
21033593 AAGCATGAAAGTAGTTT
1 AAGCATCAAAATAGTTT
21033610 GACACATCGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:21038184 original size:69 final size:68
Alignment explanation
Indices: 21038111--21038239 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 68
21038101 TCTTTAAACT
* *
21038111 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAAAATTAAATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATA-CTATCAAGATAAAAATTAAATTAAATTTAATATT
21038176 AAGA
65 AAGA
* * **
21038180 TAATCACTTTAATATTAAATTAATAAAATACTATTAGGATAAGTATTAAATTAAATTTAA
1 TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAAAATTAAATTAAATTTAA
21038240 CATCAAACTA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
68 25 0.46
69 29 0.54
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAAAATTAAATTAAATTTAATATTA
AGA
Found at i:21038203 original size:20 final size:18
Alignment explanation
Indices: 21038104--21038204 Score: 61
Period size: 20 Copynumber: 5.6 Consensus size: 18
21038094 AAGGCTCTCT
21038104 TTAAACTTAATCACTTTAATA
1 TTAAA-TTAAT-A-TTTAATA
21038125 TTAAATTAATA--TAATA
1 TTAAATTAATATTTAATA
* * * * *
21038141 TT-TATCAAGA-TAAAAA
1 TTAAATTAATATTTAATA
21038157 TTAAATTAA-ATTTAATA
1 TTAAATTAATATTTAATA
21038174 TTAAGA-TAATCACTTTAATA
1 TTAA-ATTAAT-A-TTTAATA
21038194 TTAAATTAATA
1 TTAAATTAATA
21038205 AAATACTATT
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
15 5 0.08
16 13 0.21
17 15 0.24
18 1 0.02
19 4 0.06
20 20 0.32
21 5 0.08
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (18 bp):
TTAAATTAATATTTAATA
Found at i:21040962 original size:48 final size:48
Alignment explanation
Indices: 21040908--21041132 Score: 278
Period size: 48 Copynumber: 4.7 Consensus size: 48
21040898 TATGTGTGCG
21040908 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * *
21040956 AGTGTAAGGCCATGTCTGGGACATGGCATTGGCCAGATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
*
21041004 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
* ** * *
21041052 AGTGTAAGACCATGTCTGGGATATGGCATCGGCCTTGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC-ACATTATGAGAGCC
* * *
21041100 AATGTAAAACCATGTCTGGGACATGACATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
21041133 ATTTTACCCT
Statistics
Matches: 153, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
45 4 0.03
47 1 0.01
48 146 0.95
49 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:21052548 original size:48 final size:46
Alignment explanation
Indices: 21052426--21052745 Score: 279
Period size: 48 Copynumber: 6.7 Consensus size: 46
21052416 ACATGTTGAG
* * *
21052426 GCCGATGCCATGTCCTAGACA-GGTCTTACAATGGCT-TGCATATCCCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAT----AT
* *
21052475 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATAT
* * * *
21052520 GGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT--AT
* * * *
21052569 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT--AT
*
21052617 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TATA-T
* * * * * *
21052665 GCCGATGCAATATCCCAAACATGGTCTTATACTGGCTCTCATGTTGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATAT
* *
21052712 GGCCAATGCCATGTCCCCGACATGGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
21052746 AGCACACATA
Statistics
Matches: 228, Mismatches: 31, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
46 5 0.02
47 19 0.08
48 192 0.84
49 12 0.05
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAT
Found at i:21052687 original size:144 final size:142
Alignment explanation
Indices: 21052425--21052758 Score: 379
Period size: 144 Copynumber: 2.3 Consensus size: 142
21052415 TACATGTTGA
* * *** *
21052425 GGCCGATGCCATGTCCTAGACA-GGTCTTACAATGGCTTGCATATCCCGAGGCCGATACATGTCC
1 GGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATAT--CAAGGCCGATACATGTCC
* * * *
21052489 CAGACATGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGACATGGTCTTACACT
64 CAGACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCAATATCCCAAACATGGTCTTACACT
21052554 AGCACACATATCAAT
129 AGCACACATAT-AAT
* *
21052569 -GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCC
1 GGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAGGCCGAT-ACATGTCCC
*
21052633 AGACATGGTCTTACACTGGCTCTCATTACAT-T-GCCGATGCAATATCCCAAACATGGTCTTATA
65 AGACAT-GTCTTACACTGGCTCTCA-TA-ATGTGGCCGATGCAATATCCCAAACATGGTCTTACA
* * * * **
21052696 CTGGCTCTCATGTTGT
127 CTAGCACACATATAAT
* **
21052712 GGCCAATGCCATGTCCCCGACATGGTCTTACACTAGCACACATATCA
1 GGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCA
21052759 CCGAAATGTC
Statistics
Matches: 162, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
142 8 0.05
143 36 0.22
144 113 0.70
145 3 0.02
146 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (142 bp):
GGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAGGCCGATACATGTCCCA
GACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCAATATCCCAAACATGGTCTTACACTAG
CACACATATAAT
Found at i:21056042 original size:20 final size:19
Alignment explanation
Indices: 21056006--21056056 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
21055996 AAGGGCCATT
*
21056006 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
21056025 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
21056045 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
21056057 GTTACTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:21056892 original size:92 final size:94
Alignment explanation
Indices: 21056796--21056970 Score: 223
Period size: 92 Copynumber: 1.9 Consensus size: 94
21056786 GGGATATGTA
* * * * * *
21056796 AGCCATTGTAAAACTTGTCTGGGACATGGCATTGG-CTTG-ACAT-G-TGTCAGTGTAAGACCTG
1 AGCCAGTGTAAAACCTGTCTGGAACATGGCATCGGCCTCGAACATAGAAGTCAGTGTAAGA-CTG
21056857 TCTGGGACATGGCATCGACGCCGATAGAGAG
65 TCT-GGACATGGCATCGACGCCGATAGAGAG
* *
21056888 AGCCAGTGTAAGACCTGTCTGGAACATGGCATCGGCCTCGATATATAGAAGTCAGTGTAAGACTG
1 AGCCAGTGTAAAACCTGTCTGGAACATGGCATCGGCCTCGA-ACATAGAAGTCAGTGTAAGACTG
21056953 TCTGGACATGGCATCGAC
65 TCTGGACATGGCATCGAC
21056971 TTAGATGTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
92 30 0.43
93 3 0.04
95 18 0.26
96 7 0.10
97 12 0.17
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (94 bp):
AGCCAGTGTAAAACCTGTCTGGAACATGGCATCGGCCTCGAACATAGAAGTCAGTGTAAGACTGT
CTGGACATGGCATCGACGCCGATAGAGAG
Found at i:21056907 original size:48 final size:49
Alignment explanation
Indices: 21056843--21056970 Score: 174
Period size: 48 Copynumber: 2.7 Consensus size: 49
21056833 TGACATGTGT
21056843 CAGTGTAAGACCTGTCTGGGACATGGCATCGACGC-CGATAGAGAG-AGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGAGAGAAGC
* * * * *
21056891 CAGTGTAAGACCTGTCTGGAACATGGCATCGGCCTCGATATATAGAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGAGAGAAGC
21056940 CAGTGTAAGA-CTGTCT-GGACATGGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
21056971 TTAGATGTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
47 14 0.20
48 45 0.63
49 12 0.17
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGAGAGAAGC
Found at i:21057016 original size:95 final size:97
Alignment explanation
Indices: 21056841--21057018 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 97
21056831 CTTGACATGT
*
21056841 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACGCCGATAGAGAGAGCCAGTGTAAGACCTGT
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACGCAGATAGAGAGAGCCAGTGTAAGACCTGT
* *
21056906 CTGGAACATGGCATCGGCCTCGATATATAGAA
66 CTGGAACAAGACATCGGCCTCGATATATAGAA
** * * *
21056938 GTCAGTGTAAGA-CTGTCT-GGACATGGCATCGACTTAGAT-GTGTGAGCTAGTGTAAGACCATG
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACGCAGATAGAGAGAGCCAGTGTAAGACC-TG
* *
21057000 TTTGGAATAAGACATCGGC
65 TCTGGAACAAGACATCGGC
21057019 ATCGTACCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
94 17 0.24
95 35 0.50
96 6 0.09
97 12 0.17
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (97 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACGCAGATAGAGAGAGCCAGTGTAAGACCTGT
CTGGAACAAGACATCGGCCTCGATATATAGAA
Found at i:21062906 original size:65 final size:65
Alignment explanation
Indices: 21062800--21062929 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
21062790 AATTTTATCA
*
21062800 TTCTAGATCAAGAAACCGAGATTCGGGCTTAAATTAGAAAGTACAAGGTTATAGACTAAAGCGGC
1 TTCTAGATCAAGAAACCGAGATTCGGGCTTAAATGAGAAAGTACAAGGTTATAGACTAAAGCGGC
21062865 TTCTAGATCAAGAAACCGAGATTCGGGCTTAAATCGA-AAAGTACAAGGTTATAGACTAAAGCGG
1 TTCTAGATCAAGAAACCGAGATTCGGGCTTAAAT-GAGAAAGTACAAGGTTATAGACTAAAGCGG
21062929 C
65 C
21062930 GTAATTAGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 62 0.98
66 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (65 bp):
TTCTAGATCAAGAAACCGAGATTCGGGCTTAAATGAGAAAGTACAAGGTTATAGACTAAAGCGGC
Found at i:21063396 original size:46 final size:47
Alignment explanation
Indices: 21063329--21063452 Score: 166
Period size: 46 Copynumber: 2.7 Consensus size: 47
21063319 TTTGTGTGCT
* *
21063329 AGTGTAAGACATGCCTGGGACATGCATCGGCCACATTATGA-G-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTAAGACGAAGCC
21063375 AGTGTAAGACATGTCTGGGACATGCATCGG--CATTAAGACGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAAGACG-AAGCC
* *
21063421 AGTGTAAGACAAGTCTAGGACATGCATCGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC
21063453 TTGAGATATG
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
43 7 0.10
44 1 0.01
46 61 0.88
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAAGACGAAGCC
Found at i:21063575 original size:19 final size:17
Alignment explanation
Indices: 21063533--21063568 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
21063523 GACCTAGGAC
21063533 ATGGCATCGACCTCGAT
1 ATGGCATCGACCTCGAT
21063550 ATGGCATCGACCTCGAT
1 ATGGCATCGACCTCGAT
21063567 AT
1 AT
21063569 ATGGCATGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (17 bp):
ATGGCATCGACCTCGAT
Found at i:21063577 original size:24 final size:24
Alignment explanation
Indices: 21063550--21063596 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
21063540 CGACCTCGAT
21063550 ATGGCATCGACCTCGATATATGGC
1 ATGGCATCGACCTCGATATATGGC
*
21063574 ATGGCATTGACCTCGATATATGG
1 ATGGCATCGACCTCGATATATGG
21063597 AAGTCAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (24 bp):
ATGGCATCGACCTCGATATATGGC
Found at i:21064014 original size:20 final size:21
Alignment explanation
Indices: 21063986--21064024 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
21063976 TTTGTGATGA
* *
21063986 ACTTGTGAT-TATAGATATAT
1 ACTTATGATGTATAAATATAT
21064006 ACTTATGATGTATAAATAT
1 ACTTATGATGTATAAATAT
21064025 GTATCTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (21 bp):
ACTTATGATGTATAAATATAT
Found at i:21070749 original size:48 final size:48
Alignment explanation
Indices: 21070679--21070908 Score: 221
Period size: 48 Copynumber: 4.8 Consensus size: 48
21070669 TGAATTGCCA
* * * *
21070679 ATGCCGTGTTCCAAACATGGTCTTACACTGGCTCACATGTCAAGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGGCCG
* * * * *
21070727 ATGCGATGTCCCAAACAAGGTCTTACACTAGCTTACATCTCAATGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGGCCG
* * * **
21070775 ATGCCATGTCCCAAACATGGTATTACACTGGCTCTCATAAT-GTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT-CTCAAGGCCG
* * * **
21070823 ATGCCATGTCCCAGAGATGGTCTTACACTGGCTCTCAT-TACATTGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCT-CAAGGCCG
* * * *
21070871 ATGCCATGTTCTAAACATGGTCTTACACTAGCACACAT
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT
21070909 ATCACCCAAA
Statistics
Matches: 148, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
46 1 0.01
48 146 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGGCCG
Found at i:21070845 original size:96 final size:96
Alignment explanation
Indices: 21070674--21070912 Score: 268
Period size: 96 Copynumber: 2.5 Consensus size: 96
21070664 GAGGGTGAAT
* * * * *
21070674 TGCCAATGCCGTGTTCCAAACATGGTCTTACACTGGCTCACATGTCAAGGCTGATGCGATGTCCC
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTCCC
21070739 AAACAAGGTCTTACACTAGCT-TACATCT-CAA
66 AAACAAGGTCTTACACTAGCTCT-CAT-TACAA
* * * **
21070770 TGCCGATGCCATGTCCCAAACATGGTATTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCC
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT-ATCAAGGCCGATGCCATGTCC
* * * * *
21070834 CAGAGATGGTCTTACACTGGCTCTCATTACAT
65 CAAACAAGGTCTTACACTAGCTCTCATTACAA
* * *
21070866 TGCCGATGCCATGTTCTAAACATGGTCTTACACTAGCACACATATCA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
21070913 CCCAAATGTC
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
95 3 0.03
96 112 0.96
97 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (96 bp):
TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTCCC
AAACAAGGTCTTACACTAGCTCTCATTACAA
Found at i:21074984 original size:3 final size:3
Alignment explanation
Indices: 21074972--21075008 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
21074962 GCATCTTCAT
21074972 TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
21075009 TTACTGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:21075203 original size:20 final size:20
Alignment explanation
Indices: 21075178--21075215 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21075168 TTGTTATTTT
21075178 TTGAAAGTT-AAGTGATTGAG
1 TTGAAAGTTGAA-TGATTGAG
21075198 TTGAAAGTTGAATGATTG
1 TTGAAAGTTGAATGATTG
21075216 TTTTGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (20 bp):
TTGAAAGTTGAATGATTGAG
Found at i:21077096 original size:42 final size:42
Alignment explanation
Indices: 21077015--21077130 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 42
21077005 TCCTAGAGGT
* *
21077015 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAA
1 GGTCTTACACGAAATCAAATA-CGATGCCACTGTCCCAGACAA
*
21077058 GGTCTTACACGAAATCAAATACGATGCCGA-TGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCC-ACTGTCCCAGACAA
21077100 GGTCTTACACGTAAATCTCAAAT-CGATGCCA
1 GGTCTTACACG-AAA--TCAAATACGATGCCA
21077131 ACAACCCAGA
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
42 29 0.44
43 24 0.36
44 7 0.11
45 6 0.09
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCACTGTCCCAGACAA
Found at i:21077140 original size:44 final size:43
Alignment explanation
Indices: 21077049--21077168 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 43
21077039 ATGCCACTGT
* * ***
21077049 CCCAGACAAGGTCTTACACGAAA--TCAAATACGATGCCGATGT
1 CCCAGACATGGTCTTACACGAAATCTCAAAT-CGATGCCAACAA
21077091 CCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACAA
1 CCCAGACATGGTCTTACACG-AAATCTCAAATCGATGCCAACAA
** * *
21077135 CCCAGATGTGGTCTTACACGAAATCACATATCGA
1 CCCAGACATGGTCTTACACGAAATCTCAAATCGA
21077169 AAATCCTATG
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
42 19 0.29
43 15 0.23
44 26 0.39
45 6 0.09
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.21
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACGAAATCTCAAATCGATGCCAACAA
Found at i:21079942 original size:22 final size:22
Alignment explanation
Indices: 21079914--21080001 Score: 115
Period size: 23 Copynumber: 3.8 Consensus size: 22
21079904 CGAGCTAATG
21079914 AACAGTAAGCTCTATCGAGCT-A
1 AACAGTAAGCTCTAT-GAGCTGA
21079936 AACAGTAAGCTCATATGAGCTGA
1 AACAGTAAGCTC-TATGAGCTGA
*
21079959 AACGGTAAGCTCTAGTGAGCTGA
1 AACAGTAAGCTCTA-TGAGCTGA
21079982 TAACAGTAAGCTCTTATGAG
1 -AACAGTAAGCTC-TATGAG
21080002 TTGATATATT
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
22 19 0.32
23 23 0.39
24 15 0.25
25 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (22 bp):
AACAGTAAGCTCTATGAGCTGA
Found at i:21080001 original size:24 final size:23
Alignment explanation
Indices: 21079905--21080007 Score: 113
Period size: 23 Copynumber: 4.4 Consensus size: 23
21079895 AGGTCCTCCC
*
21079905 GAGCTAATGAACAGTAAGCTCTAT
1 GAGCTGAT-AACAGTAAGCTCTAT
21079929 CGAGCT-A-AACAGTAAGCTCATAT
1 -GAGCTGATAACAGTAAGCTC-TAT
*
21079952 GAGCTGA-AACGGTAAGCTCTAGT
1 GAGCTGATAACAGTAAGCTCTA-T
21079975 GAGCTGATAACAGTAAGCTCTTAT
1 GAGCTGATAACAGTAAGCTC-TAT
*
21079999 GAGTTGATA
1 GAGCTGATA
21080008 TATTGGTAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
22 19 0.27
23 23 0.33
24 21 0.30
25 7 0.10
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (23 bp):
GAGCTGATAACAGTAAGCTCTAT
Found at i:21085719 original size:23 final size:23
Alignment explanation
Indices: 21085693--21085736 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
21085683 ACTCCCCAAA
*
21085693 GTAATAATGTAATATTAGTAACT
1 GTAATAATATAATATTAGTAACT
21085716 GTAATAATATAATATTAGTAA
1 GTAATAATATAATATTAGTAA
21085737 TAAAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (23 bp):
GTAATAATATAATATTAGTAACT
Found at i:21085738 original size:17 final size:17
Alignment explanation
Indices: 21085716--21085749 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21085706 ATTAGTAACT
*
21085716 GTAATAATATAATATTA
1 GTAATAAAATAATATTA
21085733 GTAATAAAATAATATTA
1 GTAATAAAATAATATTA
21085750 TTATTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
GTAATAAAATAATATTA
Found at i:21087501 original size:12 final size:12
Alignment explanation
Indices: 21087484--21087510 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21087474 GCAAAACAGC
21087484 TTTTTAGTGGCA
1 TTTTTAGTGGCA
21087496 TTTTTAGTGGCA
1 TTTTTAGTGGCA
21087508 TTT
1 TTT
21087511 AGACCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (12 bp):
TTTTTAGTGGCA
Found at i:21096463 original size:68 final size:70
Alignment explanation
Indices: 21096391--21096548 Score: 169
Period size: 68 Copynumber: 2.3 Consensus size: 70
21096381 CAACATGTGT
* ** * * *
21096391 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGATACGATAAAGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACC
21096453 ATGTAG
65 ATGTAG
* * * * * *
21096459 ACAAGGGAGCTACGGGAGAGGATAAATTAGCTAGGTCACATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTACGAGATACGATAAAGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
21096524 ATGTAG
65 ATGTAG
21096530 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
21096549 AATTGGCTAG
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
68 39 0.55
69 1 0.01
70 1 0.01
71 30 0.42
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (70 bp):
ACAAGAGAGCTACGAGATACGATAAAGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCA
TGTAG
Found at i:21096580 original size:66 final size:68
Alignment explanation
Indices: 21096451--21096580 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 68
21096441 GGGATGTATC
* * *
21096451 CCATGTAGACAAGGGAGCTACGGGAGAGGATAAATTAGCTAGGTCACATGTGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGGATAAATTAGCTAGGTCACATGGGTGATACCAAGTGA
21096516 AGGACA
63 AGGACA
* * *
21096522 CCATGTAGACAAGAGAGCTAC-GA-GATAAATTGGCTAGGTCACATGGGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGGATAAATTAGCTAGGTCACATGGGTGATACCAAGTG
21096581 TTCACCATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
66 31 0.58
67 2 0.04
71 20 0.38
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAGGATAAATTAGCTAGGTCACATGGGTGATACCAAGTGAAGG
ACA
Found at i:21099805 original size:25 final size:25
Alignment explanation
Indices: 21099777--21099826 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
21099767 TCAGTGCCGA
21099777 TAGTCTGTGAATTTCCAGATGTATT
1 TAGTCTGTGAATTTCCAGATGTATT
21099802 TAGTCTGTGAATTTCCAGATGTATT
1 TAGTCTGTGAATTTCCAGATGTATT
21099827 CCCAGAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (25 bp):
TAGTCTGTGAATTTCCAGATGTATT
Found at i:21117181 original size:20 final size:20
Alignment explanation
Indices: 21117156--21117202 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
21117146 GATTTGATAT
21117156 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
21117176 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
21117196 ACATGAT
1 ACATGAT
21117203 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:21117288 original size:25 final size:24
Alignment explanation
Indices: 21117248--21117318 Score: 97
Period size: 25 Copynumber: 2.9 Consensus size: 24
21117238 GGAGGAAGTG
*
21117248 CAAAGAGGGCTATGCCCCAGTTTAC
1 CAAA-AGGGCTTTGCCCCAGTTTAC
*
21117273 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAC
*
21117298 CAAAAGGGCTTTGCTCCAGTT
1 CAAAAGGGCTTTGCCCCAGTT
21117319 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 19 0.45
25 20 0.48
26 3 0.07
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAC
Found at i:21117307 original size:24 final size:24
Alignment explanation
Indices: 21117248--21117331 Score: 98
Period size: 24 Copynumber: 3.4 Consensus size: 24
21117238 GGAGGAAGTG
* *
21117248 CAAAGAGGGCTATGCCCCAGTTTAC
1 CAAA-AGGGCTTTGCCCCAGTTTAT
21117273 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
21117298 CAAAAGGGCTTTGCTCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
21117321 TAAAAGAGGCT
1 CAAAAG-GGCT
21117332 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 9 0.17
24 21 0.40
25 20 0.38
26 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:21117593 original size:30 final size:31
Alignment explanation
Indices: 21117540--21117602 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
21117530 CGTTTGCAGT
*
21117540 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGACCAGTAATATGAAATATGA
**
21117571 AAAGGCTTC-GACCAGTGTTATGAAATATGA
1 AAAGGCTTCAGACCAGTAATATGAAATATGA
21117601 AA
1 AA
21117603 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.69
31 9 0.31
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCAGACCAGTAATATGAAATATGA
Found at i:21119738 original size:12 final size:13
Alignment explanation
Indices: 21119710--21119739 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21119700 TGCATGAAGA
21119710 CAAAACAGCACAG
1 CAAAACAGCACAG
21119723 CAAAACAGCA-AG
1 CAAAACAGCACAG
21119735 CAAAA
1 CAAAA
21119740 GAAAACGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.60, C:0.27, G:0.13, T:0.00
Consensus pattern (13 bp):
CAAAACAGCACAG
Found at i:21120670 original size:16 final size:17
Alignment explanation
Indices: 21120649--21120687 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
21120639 TATTTTATAT
21120649 TATTATCCATT-TTTTA
1 TATTATCCATTGTTTTA
*
21120665 TATTATTCATTGTTTTA
1 TATTATCCATTGTTTTA
*
21120682 AATTAT
1 TATTAT
21120688 TTTATGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTATCCATTGTTTTA
Found at i:21120680 original size:17 final size:16
Alignment explanation
Indices: 21120632--21120713 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 16
21120622 AAAATTGTTT
* *
21120632 TATTATTTATTTTATA
1 TATTATTCATTTTTTA
*
21120648 TTATTATCCATTTTTTA
1 -TATTATTCATTTTTTA
21120665 TATTATTCATTGTTTTA
1 TATTATTCATT-TTTTA
21120682 -A--ATT-A--TTTTA
1 TATTATTCATTTTTTA
*
21120692 TGTTATTCATTTTTTA
1 TATTATTCATTTTTTA
21120708 T-TTATT
1 TATTATT
21120714 TTCGTTTGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
10 5 0.09
13 4 0.08
14 4 0.08
15 5 0.09
16 17 0.32
17 18 0.34
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTATTCATTTTTTA
Found at i:21120697 original size:27 final size:25
Alignment explanation
Indices: 21120660--21120715 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
21120650 ATTATCCATT
21120660 TTTTATATTATTCATTGTTTTAAATTA
1 TTTTATATTATTCATT-TTTT-AATTA
* *
21120687 TTTTATGTTATTCATTTTTTATTTA
1 TTTTATATTATTCATTTTTTAATTA
21120712 TTTT
1 TTTT
21120716 CGTTTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 8 0.30
26 4 0.15
27 15 0.56
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTATATTATTCATTTTTTAATTA
Found at i:21128951 original size:15 final size:17
Alignment explanation
Indices: 21128933--21128970 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
21128923 GAAAAATGCC
21128933 GAAACCAA-AATCA-AA
1 GAAACCAACAATCAGAA
*
21128948 GAAACCAACACTCAGAA
1 GAAACCAACAATCAGAA
21128965 GAAACC
1 GAAACC
21128971 CATTCGACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.58, C:0.26, G:0.11, T:0.05
Consensus pattern (17 bp):
GAAACCAACAATCAGAA
Found at i:21137538 original size:46 final size:43
Alignment explanation
Indices: 21137439--21137612 Score: 159
Period size: 46 Copynumber: 3.8 Consensus size: 43
21137429 ACATCTCGTA
* * * * * *
21137439 GCCAATGCATGTCCCATACATGTCTTACACTGGCTTAAATCTTGAG
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGC-T--CTCCTAAT
*
21137485 GCTAATGCATGTCCCAGACATGTCTTACACTAGCTCTCGCCTCAAT
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGCTCT--CCT-AAT
* *
21137531 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCCTAA--T
*
21137578 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 -GCCAATGCATGTCCCAGACATGTCTTACACTAGC
21137613 GTACAGATGA
Statistics
Matches: 108, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
45 5 0.05
46 52 0.48
47 29 0.27
48 21 0.19
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (43 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCCTAAT
Found at i:21137587 original size:94 final size:92
Alignment explanation
Indices: 21137439--21137612 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 92
21137429 ACATCTCGTA
* ** *
21137439 GCCAATGCATGTCCCATACATGTCTTACACTGGCTTAAATCTTGAGGCTAATGCATGTCCCAGAC
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAAATAATGAGGCCAATGCATGTCCCAGAC
21137504 ATGTCTTACACTAGCTCTCGCCTCAAT
66 ATGTCTTACACTAGCTCTCGCCTCAAT
* * *
21137531 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCA
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TAAATAATGAGGCCAATGCATGTCCCA
21137595 GACATGTCTTACACTAGC
63 GACATGTCTTACACTAGC
21137613 GTACAGATGA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 7 0.10
93 13 0.18
94 51 0.71
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (92 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAAATAATGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGCCTCAAT
Found at i:21145197 original size:43 final size:42
Alignment explanation
Indices: 21145121--21145234 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
21145111 GGAATTAAGA
* * * *
21145121 AATCCGAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAG
1 AATCCGAACTCGTTAAGTGGTCCAAGTTCGTGATATATGT-AG
* *
21145164 AATCTGAACTTGTTAAGTGGTCCAAGTTCGTGATATATGTAG
1 AATCCGAACTCGTTAAGTGGTCCAAGTTCGTGATATATGTAG
* * * *
21145206 CATCCGAGCTCGTTGAGTGGTCTAAGTTC
1 AATCCGAACTCGTTAAGTGGTCCAAGTTC
21145235 ATAATGGATG
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
AATCCGAACTCGTTAAGTGGTCCAAGTTCGTGATATATGTAG
Found at i:21145261 original size:51 final size:51
Alignment explanation
Indices: 21145195--21145305 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
21145185 CCAAGTTCGT
* * *
21145195 GATATATGTAGCATCCGAGCTCGTTGAGTGGTCTAAGTTCATAATGGATGC
1 GATACATGTAACATCCGAGCTCGTTGAGAGGTCTAAGTTCATAATGGATGC
* * * *
21145246 GATACATGTAACATCCGAGCTCGTTGAGAGGTCTGAGTTTATTATGGATGT
1 GATACATGTAACATCCGAGCTCGTTGAGAGGTCTAAGTTCATAATGGATGC
*
21145297 GTTACATGT
1 GATACATGT
21145306 TATAAGGTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (51 bp):
GATACATGTAACATCCGAGCTCGTTGAGAGGTCTAAGTTCATAATGGATGC
Found at i:21147669 original size:15 final size:15
Alignment explanation
Indices: 21147621--21147669 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
21147611 GTATCGTATA
21147621 TTGGATTT-TTGTATC
1 TTGGATTTCTT-TATC
*
21147636 TTGAATTTCTTTATC
1 TTGGATTTCTTTATC
*
21147651 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
21147666 TTGG
1 TTGG
21147670 TCTTATAGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 28 0.93
16 2 0.07
ACGTcount: A:0.14, C:0.08, G:0.16, T:0.61
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:21150805 original size:42 final size:43
Alignment explanation
Indices: 21150692--21150805 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
21150682 GGAATTAAGA
* *
21150692 AATCTGAGCTCGTTGAGTGGTCCGAGTTTGTGATATATGTGAG
1 AATCCGAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
* * * * *
21150735 AATCCAAACTTGTTTAGTGGTCCAAGTTCGTGATATATGT-AG
1 AATCCGAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
* * *
21150777 CATCCGAGCTCATTGAGTGGTCTGAGTTC
1 AATCCGAGCTCGTTGAGTGGTCCGAGTTC
21150806 ATTATGGAGG
Statistics
Matches: 56, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 23 0.41
43 33 0.59
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
AATCCGAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
Found at i:21150856 original size:43 final size:43
Alignment explanation
Indices: 21150775--21150856 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
21150765 TGATATATGT
* * **
21150775 AGCATCCGAGCTCATTGAGTGGTCTGAGTTCATTATGGAGGCA
1 AGCATCCAAGCTCATTGAGTGATCTGAGTTCACAATGGAGGCA
*
21150818 AGCATCCAAGCTCGTTGAGTGATCTGAGTTCACAATGGA
1 AGCATCCAAGCTCATTGAGTGATCTGAGTTCACAATGGA
21150857 TGCGATACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
AGCATCCAAGCTCATTGAGTGATCTGAGTTCACAATGGAGGCA
Found at i:21151611 original size:22 final size:22
Alignment explanation
Indices: 21151578--21151619 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
21151568 ACGGGAACAT
21151578 TAATCTAATTTT-GTACAAGAGA
1 TAATCTAATTTTAGTA-AAGAGA
21151600 TAATC-AATTTTTAGTAAAGA
1 TAATCTAA-TTTTAGTAAAGA
21151620 AGGGTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.11
22 13 0.72
23 3 0.17
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (22 bp):
TAATCTAATTTTAGTAAAGAGA
Found at i:21151953 original size:19 final size:19
Alignment explanation
Indices: 21151926--21151963 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21151916 ATGTTGTTGA
*
21151926 CATGTTGTTTACTTCGACT
1 CATGCTGTTTACTTCGACT
*
21151945 CATGCTGTTTACTTGGACT
1 CATGCTGTTTACTTCGACT
21151964 TTTTCTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (19 bp):
CATGCTGTTTACTTCGACT
Found at i:21158939 original size:30 final size:31
Alignment explanation
Indices: 21158863--21158945 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
21158853 TTAGTCTCGA
* * *
21158863 CATAT-ACTGGGCCTAAGCTTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
21158893 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
21158924 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
21158946 ACTGTAAGCA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 18 0.37
31 31 0.63
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:21159193 original size:25 final size:25
Alignment explanation
Indices: 21159165--21159234 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
21159155 CTCTTTTAAT
*
21159165 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
21159190 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
21159215 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
21159235 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:21160105 original size:27 final size:27
Alignment explanation
Indices: 21160043--21160120 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
21160033 GGGCATATTC
21160043 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
21160070 GTCACTTTACCCTAGAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
21160097 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
21160121 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.07
27 38 0.90
28 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:21160191 original size:27 final size:27
Alignment explanation
Indices: 21160161--21160268 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
21160151 GTAAATCTAC
21160161 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
21160188 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * **
21160214 AGAAAGTCAAGGGTTTTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
21160244 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
21160269 AAAAATTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 41 0.62
28 7 0.11
29 16 0.24
30 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.44
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:21160274 original size:27 final size:27
Alignment explanation
Indices: 21160210--21160373 Score: 127
Period size: 27 Copynumber: 6.1 Consensus size: 27
21160200 TTTCTATAAT
* * * *
21160210 TTTTAGAAAGTCAAGGGTTTTTTTGTAA
1 TTTTA-AAAATCAGGGGTATTTTGGTAA
**
21160238 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTAAAAATCAGGGGTATTTTGGTAA
* *
21160265 TTTTAAAAAT-TGGGGTATTTCGGTAA
1 TTTTAAAAATCAGGGGTATTTTGGTAA
* * * *
21160291 TTTCACAAACCAGTGGTATTTTGGTAA
1 TTTTAAAAATCAGGGGTATTTTGGTAA
* *
21160318 TTTGACAAA-CTAGGGGTATTTTGGTAA
1 TTTTAAAAATC-AGGGGTATTTTGGTAA
* * *
21160345 TTTT-ACAAGCTAAGGGTATTTTGGTAA
1 TTTTAAAAATC-AGGGGTATTTTGGTAA
21160372 TT
1 TT
21160374 CTATCCTATA
Statistics
Matches: 111, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
26 24 0.22
27 83 0.75
28 4 0.04
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.42
Consensus pattern (27 bp):
TTTTAAAAATCAGGGGTATTTTGGTAA
Found at i:21160346 original size:54 final size:53
Alignment explanation
Indices: 21160251--21160406 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 53
21160241 TGTAAATCAG
* * *
21160251 GGGTATTTTGGTAATTTTAAAAATTGGGGTATTTCGGTAATTTCACAAAC-CA
1 GGGTATTTTGGTAATTTGAAAAATAGGGGTATTTCGGTAATTTCACAAACTAA
* * * *
21160303 GTGGTATTTTGGTAATTTGACAAACTAGGGGTATTTTGGTAATTTTACAAGCTAA
1 G-GGTATTTTGGTAATTTGA-AAAATAGGGGTATTTCGGTAATTTCACAAACTAA
*** *
21160358 GGGTATTTTGGTAATTCT-ATCCTATAGGGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATT-TGA-AAAATAGGGGTATTTCGGTAATTTCACAA
21160407 TCGAGGGTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.01
53 17 0.20
54 64 0.75
55 3 0.04
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTGAAAAATAGGGGTATTTCGGTAATTTCACAAACTAA
Found at i:21160388 original size:27 final size:27
Alignment explanation
Indices: 21160249--21160392 Score: 79
Period size: 27 Copynumber: 5.4 Consensus size: 27
21160239 TTTGTAAATC
* **
21160249 AGGGGTATTTTGGTAATTTTA-AAAAT
1 AGGGGTATTTTGGTAATTCTACACTAT
* * * *
21160275 TGGGGTATTTCGGTAATT-T-CACAAACC
1 AGGGGTATTTTGGTAATTCTACAC-TA-T
* *
21160302 AGTGGTATTTTGGTAATT-TGACA-AACT
1 AGGGGTATTTTGGTAATTCT-ACACTA-T
*
21160329 AGGGGTATTTTGGTAATTTTACAAGCTA-
1 AGGGGTATTTTGGTAATTCTAC-A-CTAT
21160357 A-GGGTATTTTGGTAATTCTATC-CTAT
1 AGGGGTATTTTGGTAATTCTA-CACTAT
21160383 AGGGGTATTT
1 AGGGGTATTT
21160393 CAGTAATTTC
Statistics
Matches: 95, Mismatches: 11, Indels: 23
0.74 0.09 0.18
Matches are distributed among these distances:
25 5 0.05
26 19 0.20
27 64 0.67
28 4 0.04
29 2 0.02
30 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTCTACACTAT
Found at i:21160413 original size:27 final size:27
Alignment explanation
Indices: 21160249--21160373 Score: 153
Period size: 27 Copynumber: 4.7 Consensus size: 27
21160239 TTTGTAAATC
* *
21160249 AGGGGTATTTTGGTAATTTTA-AAAAT
1 AGGGGTATTTTGGTAATTTCACAAACT
* * *
21160275 TGGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTCACAAACT
* *
21160302 AGTGGTATTTTGGTAATTTGACAAACT
1 AGGGGTATTTTGGTAATTTCACAAACT
* *
21160329 AGGGGTATTTTGGTAATTTTACAAGCT
1 AGGGGTATTTTGGTAATTTCACAAACT
*
21160356 AAGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
21160374 CTATCCTATA
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 18 0.21
27 66 0.79
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTCACAAACT
Found at i:21160439 original size:27 final size:27
Alignment explanation
Indices: 21160405--21160602 Score: 245
Period size: 27 Copynumber: 7.3 Consensus size: 27
21160395 GTAATTTCAC
* *
21160405 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
21160432 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
* *
21160459 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
21160486 AATCGAGAGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
** *
21160513 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
21160540 AATCGAGGGTGAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* **
21160567 AATCGAGTGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
21160594 AATCGAGGG
1 AATCGAGGG
21160603 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:21160521 original size:81 final size:81
Alignment explanation
Indices: 21160405--21160602 Score: 272
Period size: 81 Copynumber: 2.4 Consensus size: 81
21160395 GTAATTTCAC
* * * * **
21160405 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGAGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACAGTAATTTTGTAAATCGAGGGT
*
21160469 AAAACGATAATTCTGTA
65 AAAACGATAATTCTATA
*
21160486 AATCGAGAGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTG
1 AATCGAGAGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTA
* *
21160551 AAATGGTAATTCTATA
66 AAACGATAATTCTATA
* *
21160567 AATCGAGTGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGAGTAAAATGGTAATTCTATAAATCGAGGG
21160603 CATTTCAGTA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 103 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGAGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:21160587 original size:54 final size:54
Alignment explanation
Indices: 21160405--21160602 Score: 272
Period size: 54 Copynumber: 3.7 Consensus size: 54
21160395 GTAATTTCAC
* * *
21160405 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTATA
* *
21160459 AATCGAGGGTAAAACGATAATTCTGTAAATCGAGAGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * *
21160513 AATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTGAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * **
21160567 AATCGAGTGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
21160603 CATTTCAGTA
Statistics
Matches: 127, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 126 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:21160612 original size:81 final size:81
Alignment explanation
Indices: 21160448--21160622 Score: 251
Period size: 81 Copynumber: 2.2 Consensus size: 81
21160438 GGGTAAAATG
* *
21160448 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGAGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGAGTAAAATGGTAATTCTACA
*
21160513 AATCGAGGGTAAAACA
66 AATCGAGGGCAAAACA
* * * *
21160529 GTAATTTTGTAAATCGAGGGTGAAATGGTAATTCTATAAATCGAGTGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGAGTAAAATGGTAATTCTACA
***
21160594 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
*
21160610 GTAATTTGGTAAA
1 GTAATTTTGTAAA
21160623 CTAAAGTATT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGAGTAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:21163335 original size:37 final size:37
Alignment explanation
Indices: 21163285--21163431 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
21163275 TAGCTCAGAT
* *
21163285 AAAATCTCCACACGAAGTTATCGGGTCTTACCCGGAC
1 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
21163322 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-
1 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
* *
21163358 ATATATTTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 A-AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
21163396 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
21163432 ATATATTTCC
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
36 1 0.01
37 99 0.98
38 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:21163384 original size:74 final size:74
Alignment explanation
Indices: 21163291--21163442 Score: 277
Period size: 74 Copynumber: 2.1 Consensus size: 74
21163281 AGATAAAATC
*
21163291 TCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
21163356 GAATATATT
66 GAATATATT
* *
21163365 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
21163430 GAATATATT
66 GAATATATT
21163439 TCCA
1 TCCA
21163443 AGTTTCATGT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (74 bp):
TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
GAATATATT
Found at i:21163631 original size:48 final size:48
Alignment explanation
Indices: 21163578--21163817 Score: 381
Period size: 48 Copynumber: 5.0 Consensus size: 48
21163568 CCACACCTCC
* * * *
21163578 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
21163626 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
21163676 TATATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
21163724 TACATATTTCACATTAGCTATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
21163772 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
21163818 TTATCTTGTG
Statistics
Matches: 178, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
48 134 0.75
50 44 0.25
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:21163700 original size:98 final size:96
Alignment explanation
Indices: 21163578--21163817 Score: 381
Period size: 98 Copynumber: 2.5 Consensus size: 96
21163568 CCACACCTCC
* * * *
21163578 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
21163643 CCATTCGGCTTTACCACATATACATATCTCATA
66 CCATTCGGCTTTACCACATATACATATCTC--A
* * * *
21163676 TATATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
*
21163741 CTATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
21163772 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
21163818 TTATCTTGTG
Statistics
Matches: 130, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
96 44 0.34
98 86 0.66
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:21170700 original size:14 final size:15
Alignment explanation
Indices: 21170683--21170711 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21170673 GCACGAAAAT
21170683 TTCACACAT-ATAAA
1 TTCACACATAATAAA
21170697 TTCACACATAATAAA
1 TTCACACATAATAAA
21170712 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:21192865 original size:27 final size:27
Alignment explanation
Indices: 21192817--21193124 Score: 258
Period size: 27 Copynumber: 11.6 Consensus size: 27
21192807 TTTAGTTTAC
* * *
21192817 AAATTA-CTAAATA-CCCTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
21192842 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
21192869 AAATTACCAAAAAACCCTTGGTTTAAA
1 AAATTACCAAAATACCCCTGGTTTGTA
21192896 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
21192923 AAATTACTAAAATACCCTTTGTTTATG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
21192950 AAATTACCAAAATACCACTGGTTTGT-
1 AAATTACCAAAATACCCCTGGTTTGTA
21192976 AAATTACC-AAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
21193002 AAATTATCAAAAATACCCCTAGTTTGT-
1 AAATTA-CCAAAATACCCCTGGTTTGTA
* *
21193029 AAATTACCAAAAATA-CCC--ATTTGTG
1 AAATTACC-AAAATACCCCTGGTTTGTA
** *
21193054 AAATTACTGAAATA-CCCTCAGTTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
21193081 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
21193108 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
21193125 TTGATTTACA
Statistics
Matches: 231, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
24 13 0.06
25 28 0.12
26 24 0.10
27 148 0.64
28 18 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:21193033 original size:79 final size:77
Alignment explanation
Indices: 21192817--21193125 Score: 284
Period size: 79 Copynumber: 3.9 Consensus size: 77
21192807 TTTAGTTTAC
* * * * * *
21192817 AAATTACTAAATACCCTTGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAAA
1 AAATTACCAAATACCCTGGTTTGTAAAATTACAAAAATACCCCTAGTTTGTAAAATTACCAAAAT
**
21192882 ACCCTTGGTTTAAA
66 ACCC-TGGTTT-GT
* * * * *
21192896 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATGAAATTACCAAA
1 AAATTACC-AAATA-CCCTGGTTTGTAAAATTACAAAAATACCCCTAGTTTGTAAAATTACCAAA
21192961 ATACCACTGGTTTGT
64 ATACC-CTGGTTTGT
21192976 AAATTACCAAATACCCCTGGTTTGTAAAATTATCAAAAATACCCCTAGTTTGT-AAATTACCAAA
1 AAATTACCAAATA-CCCTGGTTTGTAAAATTA-CAAAAATACCCCTAGTTTGTAAAATTACC-AA
*
21193040 AATACCC--ATTTGT
63 AATACCCTGGTTTGT
* * *** * *
21193053 GAAATTACTGAAATACCCTCAGTTTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCA
1 -AAATTAC-CAAATACCCT-GGTTTGTAAAATTACAAAAATACCCCTAG-TTTGTAAAATTACCA
*
21193117 AAGTACCCT
62 AAATACCCT
21193126 TGATTTACAG
Statistics
Matches: 194, Mismatches: 25, Indels: 22
0.80 0.10 0.09
Matches are distributed among these distances:
77 10 0.05
78 28 0.14
79 66 0.34
80 37 0.19
81 52 0.27
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (77 bp):
AAATTACCAAATACCCTGGTTTGTAAAATTACAAAAATACCCCTAGTTTGTAAAATTACCAAAAT
ACCCTGGTTTGT
Found at i:21193139 original size:27 final size:26
Alignment explanation
Indices: 21193107--21193181 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
21193097 CTCGACTTGT
21193107 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* ***
21193134 AGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACC-AAATACCCTTGATTTAC
*
21193161 AAAATTATCGAAATACCCTTG
1 AAAATTA-CCAAATACCCTTG
21193182 TAGGGTAGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:21193193 original size:27 final size:27
Alignment explanation
Indices: 21193161--21193222 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
21193151 CTTGATTTAC
*
21193161 AAAATTA-TCGAAATACCCTTGTAGGGT
1 AAAATTACT-GAAATACCATTGTAGGGT
* * *
21193188 AGAATTACTGAGATACCATTGTGGGGT
1 AAAATTACTGAAATACCATTGTAGGGT
21193215 AAAATTAC
1 AAAATTAC
21193223 CATTTACCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGTAGGGT
Found at i:21193778 original size:25 final size:25
Alignment explanation
Indices: 21193750--21193839 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
21193740 CATTCACATT
21193750 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTTTGATTCTGTTACCTGATA
*
21193775 CTGATTTTGATTCTAATT--CTG-TCA
1 CTGATTTTGATTCT-GTTACCTGAT-A
* * * * *
21193799 CCTAATTCTGATTCTGTCACCTAATT
1 -CTGATTTTGATTCTGTTACCTGATA
21193825 CTGATTTTGATTCTG
1 CTGATTTTGATTCTG
21193840 AATCTGATTC
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
23 1 0.02
24 5 0.10
25 39 0.78
26 4 0.08
27 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (25 bp):
CTGATTTTGATTCTGTTACCTGATA
Found at i:21193812 original size:6 final size:6
Alignment explanation
Indices: 21193747--21193881 Score: 53
Period size: 6 Copynumber: 22.0 Consensus size: 6
21193737 TTGCATTCAC
* * * *
21193747 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
21193796 -TCACCTA ATTCTG ATTCTG -TCACCTA ATTCTG ATTTTG ATTCTG AATCTG
1 AT--TCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* ** *
21193846 ATTCTA ATTCT- AGTTCTG ATAATG ATTCTT ATTCTG
1 ATTCTG ATTCTG A-TTCTG ATTCTG ATTCTG ATTCTG
21193882 TAATGGGTTA
Statistics
Matches: 91, Mismatches: 27, Indels: 22
0.65 0.19 0.16
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 8 0.09
8 3 0.03
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:21193812 original size:19 final size:19
Alignment explanation
Indices: 21193784--21193830 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
21193774 ACTGATTTTG
*
21193784 ATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGTCACCTA
21193803 ATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGTCACCTA
21193822 ATTCTGATT
1 ATTCTGATT
21193831 TTGATTCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (19 bp):
ATTCTGATTCTGTCACCTA
Found at i:21195844 original size:27 final size:27
Alignment explanation
Indices: 21195809--21196108 Score: 309
Period size: 27 Copynumber: 11.1 Consensus size: 27
21195799 GTTTACCAAC
* * *
21195809 TTACTAAAATACCCTTGATTTATAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* *
21195836 TCACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
21195863 TTACCAAAATACCCTTGG-TT-TACAAA
1 TTACCAAAATACCCTTGGTTTGTA-AAA
* *
21195889 TTACCAAAATACCCCTCGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * *
21195916 TTACTAAAATACCCTTTGTTTATAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
21195943 TTACCAAAATACCAC-TGGTTTGTAAAA
1 TTACCAAAATACC-CTTGGTTTGTAAAA
21195970 TTACCAAAATACCCTTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * *
21195997 TTATCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* ** *
21196024 TTACCAAAATACCCCTCATTTGTGAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
** ** *
21196051 TTACTGAAATACCCTCAGTTTGCAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*** * **
21196078 TTATTGAAATACCCTCGACTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
21196105 TTAC
1 TTAC
21196109 TGAAGTACCC
Statistics
Matches: 231, Mismatches: 37, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.01
26 22 0.10
27 204 0.88
28 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TTACCAAAATACCCTTGGTTTGTAAAA
Found at i:21195878 original size:54 final size:54
Alignment explanation
Indices: 21195809--21196037 Score: 352
Period size: 54 Copynumber: 4.3 Consensus size: 54
21195799 GTTTACCAAC
* * *
21195809 TTACTAAAATACCCTTGATTTATAAAATCACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAA
* *
21195863 TTACCAAAATACCCTTGGTTTA-CAAATTACCAAAATACCCCTCGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAA
* * *
21195916 TTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCACTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAA
* * *
21195970 TTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAA
21196024 TTACCAAAATACCC
1 TTACCAAAATACCC
21196038 CTCATTTGTG
Statistics
Matches: 158, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 48 0.30
54 110 0.70
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (54 bp):
TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAA
Found at i:21196187 original size:27 final size:27
Alignment explanation
Indices: 21196155--21196217 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
21196145 GTCGATTTAC
*
21196155 AAAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
* * *
21196182 AGAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
21196209 AAAATTACC
1 AAAATTACC
21196218 ATTTTACCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGTAGGGT
Found at i:21196225 original size:27 final size:27
Alignment explanation
Indices: 21196168--21196260 Score: 64
Period size: 27 Copynumber: 3.4 Consensus size: 27
21196158 ATTACTGAAA
* * **
21196168 TACCCTTGTAGGGTAGAATTACCGA-GA
1 TACCCTTGTGGGGTAAAATTACC-ATTT
21196195 TACCCTTGTGGGGTAAAATTACCATTT
1 TACCCTTGTGGGGTAAAATTACCATTT
* * * * *
21196222 TACCTCTAG-GGTGTTAAATGACTATTT
1 TACC-CTTGTGGGGTAAAATTACCATTT
*
21196249 TGCCCTTGTGGG
1 TACCCTTGTGGG
21196261 CAAGTGACTG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
26 4 0.08
27 44 0.86
28 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (27 bp):
TACCCTTGTGGGGTAAAATTACCATTT
Found at i:21196314 original size:19 final size:19
Alignment explanation
Indices: 21196292--21196330 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
21196282 GTGGTTGACG
*
21196292 GATTTGATTGTGAATGTAT
1 GATTTGATTGTGAATATAT
21196311 GATTTGATTGTGAATATAT
1 GATTTGATTGTGAATATAT
21196330 G
1 G
21196331 TTGGTGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (19 bp):
GATTTGATTGTGAATATAT
Found at i:21196519 original size:31 final size:32
Alignment explanation
Indices: 21196481--21196541 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
21196471 CTCGCTGCAA
* *
21196481 TCTGGTGGCTTCGCCAC-ATATATATATCTAT
1 TCTGGTGGCCTAGCCACAATATATATATCTAT
*
21196512 TCTGGTGGCCTAGCCACAATATCTATATCT
1 TCTGGTGGCCTAGCCACAATATATATATCT
21196542 GGTGACTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTAT
Found at i:21196556 original size:27 final size:26
Alignment explanation
Indices: 21196504--21196562 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
21196494 CCACATATAT
*
21196504 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
21196530 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
21196557 ATATCT
1 ATATCT
21196563 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:21196722 original size:6 final size:6
Alignment explanation
Indices: 21196682--21196791 Score: 82
Period size: 6 Copynumber: 18.0 Consensus size: 6
21196672 TTGCATTCAC
* * * * *
21196682 ATTCTG ATTTTG ATTCTA ATTCTG -TCACCTA ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG AT-TC-TG
**
21196732 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG ATAGTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG ATTCTG
*
21196780 ATTCTT ATTCTG
1 ATTCTG ATTCTG
21196792 TAATGGGTTA
Statistics
Matches: 80, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
5 3 0.04
6 69 0.86
7 6 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:21196722 original size:19 final size:19
Alignment explanation
Indices: 21196694--21196743 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
21196684 TCTGATTTTG
*
21196694 ATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGTCACCTA
*
21196713 ATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGTCACCTA
21196732 ATTCTGATTCTG
1 ATTCTGATTCTG
21196744 ATTCTGATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (19 bp):
ATTCTGATTCTGTCACCTA
Found at i:21198639 original size:31 final size:32
Alignment explanation
Indices: 21198601--21198662 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
21198591 CTCGCTGCAA
* *
21198601 TCTGGTGGCTTCGCCAC-ATATA-TATATCTGT
1 TCTGGTGGCCTAGCCACAATA-ACTATATCTGT
21198632 TCTGGTGGCCTAGCCACAATAACTATATCTG
1 TCTGGTGGCCTAGCCACAATAACTATATCTG
21198663 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATAACTATATCTGT
Found at i:21198873 original size:6 final size:6
Alignment explanation
Indices: 21198862--21198942 Score: 67
Period size: 6 Copynumber: 13.3 Consensus size: 6
21198852 CACCTAATTT
* * *
21198862 TGATTC TGATTC TAATTC TGATTC TG-TCACC TGATTC TGATTC TGACTC
1 TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
** *
21198911 TGATTC T-AGTTC TGATAA TGATTC TTATTC TG
1 TGATTC TGA-TTC TGATTC TGATTC TGATTC TG
21198943 TAATGGGTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
5 2 0.03
6 51 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:21198880 original size:37 final size:37
Alignment explanation
Indices: 21198825--21198924 Score: 128
Period size: 37 Copynumber: 2.7 Consensus size: 37
21198815 TTCTGTTACG
* * *
21198825 TGATACTGATTTTGATTCTAATTCTGTCACCTAATTT
1 TGATTCTGATTCTGATTCTAATTCTGTCACCTAATTC
* * *
21198862 TGATTCTGATTCTAATTCTGATTCTGTCACCTGATTC
1 TGATTCTGATTCTGATTCTAATTCTGTCACCTAATTC
* *
21198899 TGATTCTGACTCTGATTCTAGTTCTG
1 TGATTCTGATTCTGATTCTAATTCTG
21198925 ATAATGATTC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTAATTCTGTCACCTAATTC
Found at i:21200935 original size:54 final size:54
Alignment explanation
Indices: 21200876--21201135 Score: 274
Period size: 54 Copynumber: 4.8 Consensus size: 54
21200866 TTAGTTTACC
* * *
21200876 AAATTATTAAAATACCCTTTGTTTATAAAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * *
21200930 AAATTACTAAAATACCCTTTGTTTATAAAATAACCAAAATACCACTGGTTTGTA
1 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * *
21200984 AAATTACCAAAATACCCCTAGTTTATAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * * * *
21201038 AAATTACCAAAATA-CCATTGATTTGTGAAATTACTAAAATA-CCCTCAGTTTGCA
1 AAATTACTAAAATACCCTTTG-TTTATAAAATTACCAAAATACCCCT-AGTTTGTA
* * * * * *
21201092 AAATTATTGAAATACCC-TCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACTAAAATACCCTTTG-TTTATAAAATTACCAAAATACCC
21201136 TTGATTTACA
Statistics
Matches: 177, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
53 8 0.05
54 165 0.93
55 4 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:21201013 original size:81 final size:80
Alignment explanation
Indices: 21200896--21201109 Score: 259
Period size: 81 Copynumber: 2.6 Consensus size: 80
21200886 AATACCCTTT
* * * *
21200896 GTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
1 GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TAAAATACCCTTAGTTTATAAAAT
21200961 AACCAAAATACCACTG
65 AACCAAAATACCACTG
* * *
21200977 GTTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTATCAAAATACCCCTAGTTTGTAAAAT
1 GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTAT-AAAATACCCTTAGTTTATAAAAT
* *
21201042 TACCAAAATACCATTG
65 AACCAAAATACCACTG
* * * * *
21201058 ATTTGTGAAATTACTAAAATA-CCCTCAGTTTGCAAAATTATTGAAATACCCT
1 GTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTA-TAAAATACCCT
21201110 CGACTTGTAA
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 5 0.04
81 108 0.95
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (80 bp):
GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATAAAATACCCTTAGTTTATAAAATA
ACCAAAATACCACTG
Found at i:21201118 original size:81 final size:81
Alignment explanation
Indices: 21200884--21201142 Score: 238
Period size: 81 Copynumber: 3.2 Consensus size: 81
21200874 CCAAATTATT
* * * * **
21200884 AAAATACCCTTTG-TTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTA-CTAAAATACCC
1 AAAATA-CCATTGATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTATC-AAAATACCC
*** * * *
21200947 TTTGTTTATAAAATAACC
64 CGAGCTTGTAAAATTACC
* * * *
21200965 AAAATACCACTGGTTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTATCAAAATACCCCT
1 AAAATACCATTGATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTATCAAAATACCCCG
*
21201030 AGTTTGTAAAATTACC
66 AGCTTGTAAAATTACC
* * * **
21201046 AAAATACCATTGATTTGTGAAATTACTAAAATA-CCCTCAGTTTGCAAAATTATTGAAATACCCT
1 AAAATACCATTGATTTGTAAAATTACCAAAATACCCCT-AGTTTACAAAATTATCAAAATACCC-
21201110 CGA-CTTGTAAAATTACC
64 CGAGCTTGTAAAATTACC
* *
21201127 AAAGTACCCTTGATTT
1 AAAATACCATTGATTT
21201143 ACAGAATTAC
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
80 8 0.05
81 141 0.93
82 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (81 bp):
AAAATACCATTGATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTATCAAAATACCCCG
AGCTTGTAAAATTACC
Found at i:21201134 original size:27 final size:28
Alignment explanation
Indices: 21200896--21201136 Score: 205
Period size: 27 Copynumber: 8.9 Consensus size: 28
21200886 AATACCCTTT
* *
21200896 GTTTATAAAATCACCAAAATACCC-CTG-
1 GTTTGTAAAATTACCAAAATACCCTC-GA
* **
21200923 GTTTGTAAAATTACTAAAATACCCT-TT
1 GTTTGTAAAATTACCAAAATACCCTCGA
* *
21200950 GTTTATAAAATAACCAAAATACCACT-G-
1 GTTTGTAAAATTACCAAAATACC-CTCGA
*
21200977 GTTTGTAAAATTACCAAAATACCC-CTA
1 GTTTGTAAAATTACCAAAATACCCTCGA
* * *
21201004 GTTTATAAAATTATCAAAATACCC-CTA
1 GTTTGTAAAATTACCAAAATACCCTCGA
* *
21201031 GTTTGTAAAATTACCAAAATACCATTGA
1 GTTTGTAAAATTACCAAAATACCCTCGA
* *
21201059 -TTTGTGAAATTACTAAAATACCCTC-A
1 GTTTGTAAAATTACCAAAATACCCTCGA
* ***
21201085 GTTTGCAAAATTATTGAAATACCCTCGA
1 GTTTGTAAAATTACCAAAATACCCTCGA
* *
21201113 -CTTGTAAAATTACCAAAGTACCCT
1 GTTTGTAAAATTACCAAAATACCCT
21201137 TGATTTACAG
Statistics
Matches: 174, Mismatches: 32, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
26 2 0.01
27 168 0.97
28 4 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (28 bp):
GTTTGTAAAATTACCAAAATACCCTCGA
Found at i:21201188 original size:27 final size:27
Alignment explanation
Indices: 21201074--21201189 Score: 83
Period size: 27 Copynumber: 4.3 Consensus size: 27
21201064 GAAATTACTA
* *
21201074 AAATACCCTC-AGTTTGCAAAATTATTG
1 AAATACCCTCGA-TTTACAAAATTATCG
* ** *
21201101 AAATACCCTCGACTTGTAAAATTA-CC
1 AAATACCCTCGATTTACAAAATTATCG
* * *
21201127 AAAGTACCCTTGATTTACAGAATTACCG
1 AAA-TACCCTCGATTTACAAAATTATCG
*** *
21201155 TTTTACCCTCGATTTAAAAAATTATCG
1 AAATACCCTCGATTTACAAAATTATCG
21201182 AAATACCC
1 AAATACCC
21201190 CTGTAGGGTA
Statistics
Matches: 66, Mismatches: 20, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
26 3 0.05
27 61 0.92
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATACCCTCGATTTACAAAATTATCG
Found at i:21201204 original size:27 final size:27
Alignment explanation
Indices: 21201172--21201233 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
21201162 CTCGATTTAA
21201172 AAAATTA-TCGAAATACCCCTGTAGGGT
1 AAAATTACT-GAAATACCCCTGTAGGGT
* * * *
21201199 AGAATTACTGAGATACCCTTGTGGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
21201226 AAAATTAC
1 AAAATTAC
21201234 CATTTTACCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGTAGGGT
Found at i:21201608 original size:74 final size:73
Alignment explanation
Indices: 21201459--21201608 Score: 219
Period size: 73 Copynumber: 2.0 Consensus size: 73
21201449 GAGGAAGCGT
* * * * *
21201459 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCTACATATATATATATCTGTTCTTGTGACTTCG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATATGTTCTGGTGACCTAG
*
21201524 TCACAATA
66 CCACAATA
* *
21201532 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACAATATATATATATATGTTCTGGTGGCCTA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC-ATATATATATATATGTTCTGGTGACCTA
21201597 GCCACAATA
65 GCCACAATA
21201606 TCT
1 TCT
21201609 ATATCTGGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 34 0.50
74 34 0.50
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (73 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATATGTTCTGGTGACCTAG
CCACAATA
Found at i:21201793 original size:31 final size:31
Alignment explanation
Indices: 21201755--21201827 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
21201745 TTGCATTCAC
* * *
21201755 ATTCTGGTTTTAATTCTGTTACCTGATACTG
1 ATTCTGGTTCTAATTCTGTCACCTAATACTG
*
21201786 ATTCTGGTTCTAATTCTGTCACCTAATTCTG
1 ATTCTGGTTCTAATTCTGTCACCTAATACTG
*
21201817 ATTCTGATTCT
1 ATTCTGGTTCT
21201828 GATTTTGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGGTTCTAATTCTGTCACCTAATACTG
Done.