Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold22
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1964558
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.31
Warning! 137786 characters in sequence are not A, C, G, or T
File 4 of 6
Found at i:771237 original size:16 final size:16
Alignment explanation
Indices: 771216--771258 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
771206 TAACACAGAA
*
771216 CACACACATACTAAAC
1 CACACACACACTAAAC
*
771232 CACACACACACTGAAC
1 CACACACACACTAAAC
771248 CACACACACAC
1 CACACACACAC
771259 ACAACACACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.44, G:0.02, T:0.07
Consensus pattern (16 bp):
CACACACACACTAAAC
Found at i:771272 original size:2 final size:2
Alignment explanation
Indices: 771267--771306 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
771257 ACACAACACA
771267 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
771307 AATAACTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:787494 original size:17 final size:17
Alignment explanation
Indices: 787472--787525 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
787462 TGTCATTGTT
*
787472 ATTTTCCCTATTATGAC
1 ATTTTCCCAATTATGAC
*
787489 ATTTTCCCAATTATTAC
1 ATTTTCCCAATTATGAC
* * *
787506 AATTATCTCGATTATGAC
1 -ATTTTCCCAATTATGAC
787524 AT
1 AT
787526 GCCCAATTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (17 bp):
ATTTTCCCAATTATGAC
Found at i:787780 original size:3 final size:3
Alignment explanation
Indices: 787772--787820 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
787762 AATGTATATT
787772 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
787820 T
1 T
787821 ATCAAAATCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:788846 original size:17 final size:16
Alignment explanation
Indices: 788824--788861 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
788814 GAGTTACTAG
788824 AAAAAAGTTG-GTGATAA
1 AAAAAAG-TGAGT-ATAA
788841 AAAAAAGTGAGTATAA
1 AAAAAAGTGAGTATAA
788857 AAAAA
1 AAAAA
788862 GCGGCTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.18, T:0.18
Consensus pattern (16 bp):
AAAAAAGTGAGTATAA
Found at i:793449 original size:18 final size:18
Alignment explanation
Indices: 793426--793462 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
793416 TTTTGTGAGT
793426 TAATCAGCAATTATGAAG
1 TAATCAGCAATTATGAAG
793444 TAATCAGCAATTATGAAG
1 TAATCAGCAATTATGAAG
793462 T
1 T
793463 GTGTTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (18 bp):
TAATCAGCAATTATGAAG
Found at i:802546 original size:15 final size:16
Alignment explanation
Indices: 802528--802561 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
802518 TTCTCGGATC
802528 AAAATC-ACAACAAAA
1 AAAATCAACAACAAAA
*
802543 AAAATCAACAAGAAAA
1 AAAATCAACAACAAAA
802559 AAA
1 AAA
802562 CTTAAATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.76, C:0.15, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAATCAACAACAAAA
Found at i:813159 original size:2 final size:2
Alignment explanation
Indices: 813152--813192 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
813142 ATCGGATCAT
813152 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
813193 TTTTATTACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:819014 original size:21 final size:21
Alignment explanation
Indices: 818982--819072 Score: 112
Period size: 21 Copynumber: 4.4 Consensus size: 21
818972 CAATTGAAAT
818982 CATT-ATGATATACATAAAGC
1 CATTCATGATATACATAAAGC
* *
819002 CATTCATGGTATAGATAAAGC
1 CATTCATGATATACATAAAGC
* * *
819023 CATTCATGACATACATGAAGG
1 CATTCATGATATACATAAAGC
* *
819044 CATTCATGATATACATGAAGG
1 CATTCATGATATACATAAAGC
819065 CATTCATG
1 CATTCATG
819073 GGGTCATTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
20 4 0.06
21 58 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (21 bp):
CATTCATGATATACATAAAGC
Found at i:819987 original size:1 final size:1
Alignment explanation
Indices: 819983--820016 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
819973 AGCTTTTTAT
*
819983 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
820017 GGAATACCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:820131 original size:21 final size:21
Alignment explanation
Indices: 820105--820225 Score: 118
Period size: 21 Copynumber: 5.8 Consensus size: 21
820095 TACAAGATGA
*
820105 ACGATAGGATAGGATTCACGC
1 ACGATAGGACAGGATTCACGC
* *
820126 ACGATAGGATAGGATTAACGC
1 ACGATAGGACAGGATTCACGC
* * *
820147 ACGATAGAACAGTATACACGC
1 ACGATAGGACAGGATTCACGC
* * *
820168 ACGAAAGGATATGATT-AGCGC
1 ACGATAGGACAGGATTCA-CGC
* * *
820189 ACGATAGAACAGAATACACGC
1 ACGATAGGACAGGATTCACGC
820210 ACGATAGGACAGGATT
1 ACGATAGGACAGGATT
820226 GATACACGAT
Statistics
Matches: 77, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 1 0.01
21 75 0.97
22 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.17
Consensus pattern (21 bp):
ACGATAGGACAGGATTCACGC
Found at i:820167 original size:42 final size:42
Alignment explanation
Indices: 820121--820225 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 42
820111 GGATAGGATT
*
820121 CACGCACGATAGGATAGGATTAACGCACGATAGAACAGTATA
1 CACGCACGATAGGATAGGATTAACGCACGATAGAACAGAATA
* * *
820163 CACGCACGAAAGGATATGATTAGCGCACGATAGAACAGAATA
1 CACGCACGATAGGATAGGATTAACGCACGATAGAACAGAATA
*
820205 CACGCACGATAGGACAGGATT
1 CACGCACGATAGGATAGGATT
820226 GATACACGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (42 bp):
CACGCACGATAGGATAGGATTAACGCACGATAGAACAGAATA
Found at i:821234 original size:21 final size:21
Alignment explanation
Indices: 821210--821322 Score: 113
Period size: 21 Copynumber: 5.4 Consensus size: 21
821200 CGATAAACCT
*
821210 GATAGGATTAACGCACGGTAG
1 GATAGGATTAACGCACGATAG
821231 GATAGGATTAACGCACGATAG
1 GATAGGATTAACGCACGATAG
* * * *
821252 AACAGTA-TACACGCACGAAAG
1 GATAGGATTA-ACGCACGATAG
*
821273 GATAGGATTAACGCACGATAC
1 GATAGGATTAACGCACGATAG
* * *
821294 GACAGGATTGAA-ACACGATAC
1 GATAGGATT-AACGCACGATAG
821315 GATAGGAT
1 GATAGGAT
821323 AGGATTGTAA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
20 2 0.03
21 70 0.92
22 4 0.05
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GATAGGATTAACGCACGATAG
Found at i:821986 original size:16 final size:16
Alignment explanation
Indices: 821965--821996 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
821955 ACTGAAAGAC
821965 AAACTGATAATGTTTT
1 AAACTGATAATGTTTT
*
821981 AAACTGATACTGTTTT
1 AAACTGATAATGTTTT
821997 GAAAACAGAA
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:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (16 bp):
AAACTGATAATGTTTT
Found at i:824913 original size:4 final size:4
Alignment explanation
Indices: 824906--824935 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
824896 ATAAGTGTGT
824906 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GT
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GT
824936 TGGTTTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.23, G:0.50, T:0.27
Consensus pattern (4 bp):
GTGC
Found at i:826398 original size:2 final size:2
Alignment explanation
Indices: 826391--826439 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
826381 ACAAAGGGGA
826391 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
826433 AG AG AG A
1 AG AG AG A
826440 TGATGATGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:840187 original size:12 final size:12
Alignment explanation
Indices: 840170--840196 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
840160 TAGTTATATG
840170 AATTGTGATTGT
1 AATTGTGATTGT
840182 AATTGTGATTGT
1 AATTGTGATTGT
840194 AAT
1 AAT
840197 GAGATTTAGG
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (12 bp):
AATTGTGATTGT
Found at i:849137 original size:5 final size:5
Alignment explanation
Indices: 849127--849175 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
849117 ATTTACTAAT
849127 TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACT
1 TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACT
849176 GTTACAGTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (5 bp):
TACTA
Found at i:851352 original size:2 final size:2
Alignment explanation
Indices: 851345--851419 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
851335 AAGAAAATAG
851345 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
851387 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
851420 TTTTTTGACT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:852047 original size:2 final size:2
Alignment explanation
Indices: 852040--852090 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
852030 AACCTTAGAA
852040 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
852082 CT CT CT CT C
1 CT CT CT CT C
852091 CACAAACTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:858993 original size:180 final size:180
Alignment explanation
Indices: 858691--859229 Score: 983
Period size: 180 Copynumber: 3.0 Consensus size: 180
858681 GGCTGCCAAA
* *
858691 AGGGTACCCTCATTGTACAGATAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
*
858756 GATCAATTGTACATGTATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTATCGA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTATCGA
858821 AAAAATACCAGCTTTT-AATCTTAGTCATTTTTTGGCAAAATGTTGCATAT
131 AAAAATACCAGCTTTTGAA-CTTAGTCATTTTTTGGCAAAATGTTGCATAT
858871 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
*
858936 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGAATTTTGATTTCCGATAATTTATCGA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTATCGA
**
859001 AAAAATACCAGCTTTTGAACTTAGTCATTTTTTAACAAAATGTTGCATAT
131 AAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATAT
859051 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
859116 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTAT-GA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTATCG-
*
859180 AAAAAATACTAGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATA
130 AAAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATA
859230 AACATGTAGG
Statistics
Matches: 347, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
179 1 0.00
180 344 0.99
181 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (180 bp):
AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTATCGA
AAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATAT
Found at i:860256 original size:8 final size:8
Alignment explanation
Indices: 860244--860282 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
860234 TCTCTCTCTC
860244 ACACACAA
1 ACACACAA
* *
860252 CCACAAAA
1 ACACACAA
*
860260 ACACACAC
1 ACACACAA
860268 ACACACAA
1 ACACACAA
860276 ACACACA
1 ACACACA
860283 CACATTAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.59, C:0.41, G:0.00, T:0.00
Consensus pattern (8 bp):
ACACACAA
Found at i:860266 original size:18 final size:19
Alignment explanation
Indices: 860243--860286 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
860233 CTCTCTCTCT
860243 CACACACAAC-CACAAAAA
1 CACACACAACACACAAAAA
*
860261 CACACAC-ACACACAAACA
1 CACACACAACACACAAAAA
860279 CACACACA
1 CACACACA
860287 TTAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.57, C:0.43, G:0.00, T:0.00
Consensus pattern (19 bp):
CACACACAACACACAAAAA
Found at i:861249 original size:4 final size:4
Alignment explanation
Indices: 861240--861279 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
861230 TACCCTTGTG
* * *
861240 TGTC TGTC TGTC CGTC CGTC CGTC TGTC TGTC TGTC TGTC
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC
861280 CGTGTTTACG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.00, C:0.33, G:0.25, T:0.42
Consensus pattern (4 bp):
TGTC
Found at i:861266 original size:20 final size:20
Alignment explanation
Indices: 861241--861282 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
861231 ACCCTTGTGT
861241 GTCTGTCTGTCCGTCCGTCC
1 GTCTGTCTGTCCGTCCGTCC
* *
861261 GTCTGTCTGTCTGTCTGTCC
1 GTCTGTCTGTCCGTCCGTCC
861281 GT
1 GT
861283 GTTTACGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.00, C:0.33, G:0.26, T:0.40
Consensus pattern (20 bp):
GTCTGTCTGTCCGTCCGTCC
Found at i:865025 original size:65 final size:64
Alignment explanation
Indices: 864849--865895 Score: 1001
Period size: 65 Copynumber: 16.0 Consensus size: 64
864839 AGTTATATAT
* * *
864849 CAGTTAAGGAAGATAGGTAACAAAGAGGATTTGGAGAGCCAGGTGTCCAGATCTTGTTGGGTTGT
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTT-G-GA--CAGGTGTCCA-ATTTTGTTGGGTTGT
*
864914 ATTT
61 ATTC
* * * * * * *
864918 CAATT-AGAGAAAAATAGGTTACCTACAGGATTTGGAC-CGTGTCCAATTCTTGTTGAGTTGTAT
1 CAGTTAAG-GAAGAA-AGGTAACCAAGAGGATTTGGACAGGTGTCCAATT-TTGTTGGGTTGTAT
*
864981 TA
63 TC
* * *
864983 TAGTTAAGGAAGGAAGGTAACCAAGAGGATTTGGACAGGTGTCCAACTTTTAG-TGGGTTATATT
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAA-TTTT-GTTGGGTTGTATT
865047 C
64 C
* * *
865048 CAGTAAAGGAAGAAAGGTAACCAAGAGGATTTGGACAAGTGTCCAACTTTTATTGGGTTGTATTC
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAA-TTTTGTTGGGTTGTATTC
* * * *
865113 TAGTATTAAAGGAAGAAAGGTAACCAAGAGGATTTGGACAAGTGTCCGACTTTTGTTGGGTTATA
1 CAG--TT-AAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCC-AATTTTGTTGGGTTGTA
865178 TTC
62 TTC
* * * *
865181 CAGTAAAGGAAGAAAGGTAACCAAGAAGATTTGGACAAGTGTCCAACTTTTATTGGGTTGTATTC
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAA-TTTTGTTGGGTTGTATTC
* * * * *
865246 TAGTAAAGGAAGAAAGGTAACCAAGAGGATTTGGACAAGTGTCCGACTTTTGTTGGGTTATATTC
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCC-AATTTTGTTGGGTTGTATTC
* * * *
865311 CAGTAAAGGAATAAAGGTAACCAAGAAGATTTGGACAAGTGTCCAACTTTTAG-TGGGTTGTATT
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAA-TTTT-GTTGGGTTGTATT
865375 C
64 C
* * * * *
865376 TAGTAAAGGAAGAAAGGTAACCAAGAAGATTTAGACAGGTGTCCAACTTTTATTGGGTTGTATTC
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAA-TTTTGTTGGGTTGTATTC
* * * *
865441 CAGTAAAGGAAGAAAAAGTAACCAAGAGGATTTGGACAAGTGTCCGACTTTTGTTGGGTTGTATT
1 CAGTTAAGGAAG-AAAGGTAACCAAGAGGATTTGGACAGGTGTCC-AATTTTGTTGGGTTGTATT
865506 C
64 C
* * * * * * * *
865507 CAGTAAAGGAAGAAAGATAGCCAGGAGGATTTGGACAGGTGTCCGATTCTTTTTGAGTTGTATGC
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAATT-TTGTTGGGTTGTATTC
** ** * * *
865572 CAGTTAAGGAAGAAAGGTGGCCAAGAACATTTGTACAGGTGCCCAATTATTGTTGGGTTGTATGC
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAATT-TTGTTGGGTTGTATTC
* * * * * * ** *
865637 CAATT-GGAGAAGAAAGGTAGCCAGGAGGATTTGTACAGGTTTCTTATTTCTATTGGGTTGTATT
1 CAGTTAAG-GAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAATTT-TGTTGGGTTGTATT
865701 C
64 C
* * * *
865702 CA-TTGAAGGAAGACAGGTAACCAAGAGGATTTGGACAGGTGTCCGATTTTCATTGGGTCGTATT
1 CAGTT-AAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAATTTT-GTTGGGTTGTATT
865766 C
64 C
* * * * * * *
865767 CAGTTAAGAAAGAAAGATAGCCAGGAGGATTTGGACAGGTGTCCAATATTTATTAGGTTGCATTC
1 CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAAT-TTTGTTGGGTTGTATTC
* * * * * *
865832 CATTTAAGGAA-AATAAGTAATCAAGAAGATTTGGACAGGTTTCTAATTCTTGTTGGGTTGTATT
1 CAGTTAAGGAAGAA-AGGTAACCAAGAGGATTTGGACAGGTGTCCAATT-TTGTTGGGTTGTATT
865896 TACATTGATA
Statistics
Matches: 823, Mismatches: 126, Indels: 62
0.81 0.12 0.06
Matches are distributed among these distances:
64 33 0.04
65 631 0.77
66 72 0.09
67 2 0.00
68 61 0.07
69 10 0.01
70 14 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (64 bp):
CAGTTAAGGAAGAAAGGTAACCAAGAGGATTTGGACAGGTGTCCAATTTTGTTGGGTTGTATTC
Found at i:866827 original size:166 final size:166
Alignment explanation
Indices: 866413--867210 Score: 1109
Period size: 166 Copynumber: 4.8 Consensus size: 166
866403 GTCGCATTTA
*
866413 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
*
866478 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAATTACAAATGACGACTTTGCT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTG----TT--AAATGACGACTTTGTT
* *
866543 TATTTTTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGATT
125 TA-TTTTTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
*
866586 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
**
866651 CGTGGGATATATTTTTGTACCAATCAAACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
**
866716 TAGCCAAAATTTTCAAACAAATTTTTGTCAAAGATT
131 TAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
* * * * * **
866752 TCTCAGCAGCTATTTTTCACAGATGCTTGAAATTTTAAGACACTATTTGTTTTGGCATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
* * * * *
866817 CGTGGGATATATTTTTGTATCTATCGGACGTCAACATCCTGTTAAATAATGAC--TGTTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
866880 TAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
131 TAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
* * * *
866916 TCTCAGCAGCTATTTATTGGAGATGCTTGAAATTTTTACACAGTGTTTGTTAAGGTATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
* * *
866981 TGTGGGATATATTTTTGTACCAATTGGACGTCATCTTCCTGTTAAATGA-GTACTTTGTTTA-TT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACG-ACTTTGTTTATTT
**
867044 TTAGCCAAAATTTTCAAACAAATTTTCCTTTAAGATT
130 TTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
* * * *
867081 TCTCAGCAGCTGTTTATCGCAGATGCTTGAAATTTTAACACACTATTTGTTTAGGCATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
* * * * * * * * *
867146 TGTTGGATATATTTCTGTACCAATCGGATGCCAGCTTTCTGTTAAATGTCGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
867211 GCATATTCAC
Statistics
Matches: 561, Mismatches: 59, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
163 1 0.00
164 142 0.25
165 144 0.26
166 151 0.27
167 17 0.03
169 2 0.00
173 104 0.19
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (166 bp):
TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
TAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
Found at i:867114 original size:165 final size:164
Alignment explanation
Indices: 866413--867210 Score: 1069
Period size: 165 Copynumber: 4.8 Consensus size: 164
866403 GTCGCATTTA
*
866413 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
866478 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAATTACAAATGACGACTTTGCT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTG----TT--AAATGA-GACTTTG-T
* * *
866543 TATTTTTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGATT
123 T-TATTTTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
*
866586 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
**
866651 CGTGGGATATATTTTTGTACCAATCAAACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGA-GACTTTGTTTA-TTT
**
866716 TAGCCAAAATTTTCAAACAAATTTTTGTCAAAGATT
129 TAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
* * * * * **
866752 TCTCAGCAGCTATTTTTCACAGATGCTTGAAATTTTAAGACACTATTTGTTTTGGCATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
* * * *
866817 CGTGGGATATATTTTTGTATCTATCGGACGTCAACATCCTGTTAAATAATGAC--TGTTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGA-GACTTTGTTTA-TTT
866880 TAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
129 TAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
* * * *
866916 TCTCAGCAGCTATTTATTGGAGATGCTTGAAATTTTTACACAGTGTTTGTTAAGGTATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
* * *
866981 TGTGGGATATATTTTTGTACCAATTGGACGTCATCTTCCTGTTAAATGAGTACTTTGTTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAG-ACTTTGTTTATTTT
**
867046 AGCCAAAATTTTCAAACAAATTTTCCTTTAAGATT
130 AGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
* * * *
867081 TCTCAGCAGCTGTTTATCGCAGATGCTTGAAATTTTAACACACTATTTGTTTAGGCATGCCATAT
1 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
* * * * * * * * *
867146 TGTTGGATATATTTCTGTACCAATCGGATGCCAGCTTTCTGTTAAATGTCGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATG-AGACTTTGTTTATTTT
867211 GCATATTCAC
Statistics
Matches: 561, Mismatches: 59, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
163 1 0.00
164 142 0.25
165 149 0.27
166 149 0.27
167 14 0.02
169 2 0.00
173 104 0.19
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (164 bp):
TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGACTTTGTTTATTTTA
GCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
Found at i:871489 original size:2 final size:2
Alignment explanation
Indices: 871484--871526 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
871474 ATTTTTTTAT
* * *
871484 GA GA GA GA GA GG GA GA GA GA GA GA GA GA GG GG GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
871526 G
1 G
871527 GGGGAAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (2 bp):
GA
Found at i:871507 original size:18 final size:18
Alignment explanation
Indices: 871484--871526 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
871474 ATTTTTTTAT
871484 GAGAGAGAGAGGGAGAGA
1 GAGAGAGAGAGGGAGAGA
*
871502 GAGAGAGAGAGGGGGAGA
1 GAGAGAGAGAGGGAGAGA
871520 GAGAGAG
1 GAGAGAG
871527 GGGGAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (18 bp):
GAGAGAGAGAGGGAGAGA
Found at i:871529 original size:14 final size:14
Alignment explanation
Indices: 871488--871531 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
871478 TTTTATGAGA
* * *
871488 GAGAGAGGGAGAGA
1 GAGAGAGAGAGGGG
871502 GAGAGAGAGAGGGG
1 GAGAGAGAGAGGGG
871516 GAGAGAGAGAGGGG
1 GAGAGAGAGAGGGG
871530 GA
1 GA
871532 AAATGAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (14 bp):
GAGAGAGAGAGGGG
Found at i:877508 original size:22 final size:22
Alignment explanation
Indices: 877478--877524 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
877468 AAGGGCCTGC
877478 AGTTCGACAGACTAAGTTGTCG
1 AGTTCGACAGACTAAGTTGTCG
*
877500 AGTTTGACAGACTAAGTTGTCG
1 AGTTCGACAGACTAAGTTGTCG
877522 AGT
1 AGT
877525 CCTTTTGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (22 bp):
AGTTCGACAGACTAAGTTGTCG
Found at i:879544 original size:35 final size:35
Alignment explanation
Indices: 879498--879566 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
879488 TCATGATGAT
879498 TAATAGGGTTGACAGACCATAAAGCAGTAGTATTA
1 TAATAGGGTTGACAGACCATAAAGCAGTAGTATTA
879533 TAATAGGGTTGACAGACCATAAAGCAGTAGTATT
1 TAATAGGGTTGACAGACCATAAAGCAGTAGTATT
879567 GTACATGGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (35 bp):
TAATAGGGTTGACAGACCATAAAGCAGTAGTATTA
Found at i:879620 original size:1 final size:1
Alignment explanation
Indices: 879576--879601 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
879566 TGTACATGGT
879576 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
879602 TTTTTTTNGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:892046 original size:43 final size:43
Alignment explanation
Indices: 891998--892080 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
891988 AATTTTAATT
891998 CAACAATGCAAAATAATATCATCAATGACCATAAATGCAATAC
1 CAACAATGCAAAATAATATCATCAATGACCATAAATGCAATAC
* *
892041 CAACAATGCAAAATAATATCATCAATGACTATAACTGCAA
1 CAACAATGCAAAATAATATCATCAATGACCATAAATGCAA
892081 AACCTACAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.51, C:0.20, G:0.07, T:0.22
Consensus pattern (43 bp):
CAACAATGCAAAATAATATCATCAATGACCATAAATGCAATAC
Found at i:892066 original size:19 final size:19
Alignment explanation
Indices: 892001--892067 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
891991 TTTAATTCAA
892001 CAATGCAAAATAATATCAT
1 CAATGCAAAATAATATCAT
* *
892020 CAATGACCATAAATGCAATACCAA
1 CAATG--CA-AAAT--AATATCAT
892044 CAATGCAAAATAATATCAT
1 CAATGCAAAATAATATCAT
892063 CAATG
1 CAATG
892068 ACTATAACTG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 16 0.41
21 6 0.15
22 6 0.15
24 11 0.28
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.22
Consensus pattern (19 bp):
CAATGCAAAATAATATCAT
Found at i:897809 original size:4 final size:4
Alignment explanation
Indices: 897800--897837 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
897790 AAAGTTTACA
*
897800 GACG GACG GACA GACG GACG GACG GACG GAC- GACG GAC
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GAC
897838 AACAGGTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.29, C:0.26, G:0.45, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:905221 original size:12 final size:13
Alignment explanation
Indices: 905192--905223 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
905182 TGCTATACCC
905192 TCGGCGTCGGCGG
1 TCGGCGTCGGCGG
905205 T-GGCGTCGGC-G
1 TCGGCGTCGGCGG
905216 TCGGCGTC
1 TCGGCGTC
905224 CGGACCTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.00, C:0.31, G:0.50, T:0.19
Consensus pattern (13 bp):
TCGGCGTCGGCGG
Found at i:905570 original size:19 final size:19
Alignment explanation
Indices: 905548--905587 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
905538 TTTCGGATGC
* *
905548 TGGAGGAGGTTAAGGTTTT
1 TGGAGCAGGTTAAAGTTTT
905567 TGGAGCAGGTTAAAGTTTT
1 TGGAGCAGGTTAAAGTTTT
905586 TG
1 TG
905588 TTGCGGGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.38, T:0.38
Consensus pattern (19 bp):
TGGAGCAGGTTAAAGTTTT
Found at i:905868 original size:176 final size:176
Alignment explanation
Indices: 905361--906230 Score: 1210
Period size: 176 Copynumber: 4.9 Consensus size: 176
905351 GGGTCCTAAA
* * * * * *
905361 TTTCAGATGCTGGAGGAGGTTAAGGTTGTTGGACCAGGTTAAAGTTTTTGTTGCAGGTGCCCTTT
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
* * * * * *
905426 GATAGCAGT-ATCTTAGTTACTGCTGGT-CTGTACTTCACCAAACTTGCATGGATGGTGTGCCTT
66 GAT-G-ATTAATCTTAGTTACTACTGGTCCT-AACTTCACCAAACTTGTATGGATGGTGCGTCTT
* * * *
905489 ATGATACTGATGCACCAGACAGGCTTGAGTGCTGAATCTGAGCTATAGG
128 ATGATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
* * *
905538 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAGGTTAAAGTTTTTGTTGCGGGTGCCCAT-
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCC-TC
* * *
905602 TGATAGCAAT-ATCTAAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGATGCGTCTT
65 TGAT-G-ATTAATCTTAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTT
905666 ATGATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
128 ATGATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
* *
905715 TTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCACT
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
905780 GATGATTAATCTTAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATG
66 GATGATTAATCTTAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATG
*
905845 ACACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
131 ATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
* *
905891 TTTCAGATGCTGGAAGAGGTTAAGGTTTTTAGAGCTGGTT-AAGTTTTTGTTGCAGGTGCCCTCT
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
905955 GATGATTATATCTTAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTAT
66 GATGATTA-ATCTTAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTAT
906020 GATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
130 GATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
* ***
906067 TTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGCTGGTTAGATAAAGTTTTTGAAACAGGTGCC
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGG-T---TAAAGTTTTTGTTGCAGGTGCC
* * * * * ** * * *
906132 CTCTGATGATGATATCTTAGTTATTACTTGTCCTTACTTCACCAGACTTCCATGAATTGTGTGTC
62 CTCTGATGATTA-ATCTTAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTC
* *
906197 TTATGATACTGTTGCACCTGACAGGCTTGAATGC
126 TTATGATACTGATGCACCTGACAAGCTTGAATGC
906231 ATAGTCTGGT
Statistics
Matches: 637, Mismatches: 46, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
175 33 0.05
176 277 0.43
177 219 0.34
178 3 0.00
180 1 0.00
181 104 0.16
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (176 bp):
TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
GATGATTAATCTTAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATG
ATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
Found at i:906051 original size:352 final size:353
Alignment explanation
Indices: 905257--906230 Score: 1266
Period size: 352 Copynumber: 2.7 Consensus size: 353
905247 GCAGGTCCTG
* * * * * * *
905257 TATCTAAGCTATTACTTGTCCTATCTTCACCAAACTTGCATGGATGATGCATC-T-GGACCTACT
1 TATCTAAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGATGCGTCTTATGA--TACT
* * * * * * ** *
905320 TATGGACTTGA-AAGACTTGGATGCTGAATCTGGGTC-CTAAATTTCAGATGCTGGAGGAGGTTA
64 GATGCACCTGACAAG-CTTGAATGCTGAATCTGAG-CAATAGGTTTCGGATGCTGGAGGAGGTTA
* * * * * *
905383 AGGTTGTTGGACCAGGTTAAAGTTTTTGTTGCAGGTGCCCTTTGATAGCAGT-ATCTTAGTTACT
127 AGGTTTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCTGAT-G-ATTAATCTTAGTTACT
* * *
905447 GCTGGT-CTGTACTTCACCAAACTTGCATGGATGGTGTGCCTTATGATACTGATGCACCAGACAG
190 ACTGGTCCT-TACTTCACCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAG
* * * * *
905511 GCTTGAGTGCTGAATCTGAGCTATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAGG
254 GCTTGAATGCTGAATCTGAGCAATAGGTTTCAGATGCTGGAAGAGGTTAAGGTTTTTAGAGCAGG
*
905576 TTAAAGTTTTTGTTGCGGGTGCCCATTGATAGCAA
319 TTAAAGTTTTTGTTGCAGGTGCCCATTGATAGCAA
905611 TATCTAAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGATGCGTCTTATGATACTGA
1 TATCTAAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGATGCGTCTTATGATACTGA
*
905676 TGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAAGAGGTTAAGGT
66 TGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGT
*
905741 TTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCACTGATGATTAATCTTAGTTACTACTGGT
131 TTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCTGATGATTAATCTTAGTTACTACTGGT
* * * * *
905806 CCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATGACACTGATGCACCTGACAAGCTTGAA
196 CCTTACTTCACCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAGGCTTGAA
*
905871 TGCTGAATCTGAGCAATAGGTTTCAGATGCTGGAAGAGGTTAAGGTTTTTAGAGCTGGTT-AAGT
261 TGCTGAATCTGAGCAATAGGTTTCAGATGCTGGAAGAGGTTAAGGTTTTTAGAGCAGGTTAAAGT
905935 TTTTGTTGCAGGTGCCC-TCTGAT-G-ATTA
326 TTTTGTTGCAGGTGCCCAT-TGATAGCA--A
* *
905963 TATCTTAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATGATACTGA
1 TATCTAAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGATGCGTCTTATGATACTGA
906028 TGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGT
66 TGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGT
* *** * *
906093 TTTAAGAGCTGGTTAGATAAAGTTTTTGAAACAGGTGCCCTCTGATGATGATATCTTAGTTATTA
131 TTTTAGAGCTGG-T---TAAAGTTTTTGTTGCAGGTGCCCTCTGATGATTA-ATCTTAGTTACTA
* * * * * *
906158 CTTGTCCTTACTTCACCAGACTTCCATGAATTGTGTGTCTTATGATACTGTTGCACCTGACAGGC
191 CTGGTCCTTACTTCACCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAGGC
906223 TTGAATGC
256 TTGAATGC
906231 ATAGTCTGGT
Statistics
Matches: 546, Mismatches: 60, Indels: 25
0.87 0.10 0.04
Matches are distributed among these distances:
350 1 0.00
351 2 0.00
352 165 0.30
353 129 0.24
354 140 0.26
355 4 0.01
356 31 0.06
357 74 0.14
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (353 bp):
TATCTAAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGATGCGTCTTATGATACTGA
TGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGT
TTTTAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCTGATGATTAATCTTAGTTACTACTGGT
CCTTACTTCACCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAGGCTTGAA
TGCTGAATCTGAGCAATAGGTTTCAGATGCTGGAAGAGGTTAAGGTTTTTAGAGCAGGTTAAAGT
TTTTGTTGCAGGTGCCCATTGATAGCAA
Found at i:906920 original size:20 final size:20
Alignment explanation
Indices: 906897--906939 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
906887 TATGATAAAG
906897 TATTGTATGATATGAA-ACAA
1 TATTGTATGATAT-AATACAA
*
906917 TATTGTTTGATATAATACAA
1 TATTGTATGATATAATACAA
906937 TAT
1 TAT
906940 GATATCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (20 bp):
TATTGTATGATATAATACAA
Found at i:907033 original size:18 final size:18
Alignment explanation
Indices: 907010--907044 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
907000 TTGATATTTT
907010 ATGATA-TGATTATGTATC
1 ATGATATTG-TTATGTATC
907028 ATGATATTGTTATGTAT
1 ATGATATTGTTATGTAT
907045 AGTATTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (18 bp):
ATGATATTGTTATGTATC
Found at i:907215 original size:15 final size:15
Alignment explanation
Indices: 907182--907328 Score: 73
Period size: 15 Copynumber: 9.3 Consensus size: 15
907172 ATATTCTATA
* **
907182 ATATTGTATCATACA
1 ATATTGTATAATATG
907197 ATATTGTATAATATG
1 ATATTGTATAATATG
907212 ATATTGGTTTCAGTAATATAG
1 ATATT-G--T-A-TAATAT-G
* * *
907233 A-ATTATATCACATG
1 ATATTGTATAATATG
* *
907247 AAATTGTATTATATG
1 ATATTGTATAATATG
*
907262 ATATTGTAATATTATATA
1 ATATTGT-ATA--ATATG
* *
907280 ATATTGTATCATACG
1 ATATTGTATAATATG
*
907295 ATATTGTATGATATG
1 ATATTGTATAATATG
*
907310 ATATTGGT-TTATATG
1 ATATT-GTATAATATG
907325 ATAT
1 ATAT
907329 ATTATCATAT
Statistics
Matches: 103, Mismatches: 18, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
14 2 0.02
15 68 0.66
16 6 0.06
17 3 0.03
18 12 0.12
19 1 0.01
20 9 0.09
21 2 0.02
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (15 bp):
ATATTGTATAATATG
Found at i:907261 original size:50 final size:47
Alignment explanation
Indices: 907199--907365 Score: 165
Period size: 50 Copynumber: 3.4 Consensus size: 47
907189 ATCATACAAT
*
907199 ATTGTATAATATGATATTGGTTTCAGTAATATAGAATTATATCACATGAA
1 ATTGTATTATATGATATTGGTTT-A-TAATATA-AATTATATCACATGAA
* * * * * *
907249 ATTGTATTATATGATATT-GTAATATTATATAATATTGTATCATACGAT
1 ATTGTATTATATGATATTGGT-TTATAATATAA-ATTATATCACATGAA
* * *
907297 ATTGTATGATATGATATTGGTTTATATGATATATTATCATATCACATGAA
1 ATTGTATTATATGATATTGGTTTATA--ATATA-AATTATATCACATGAA
907347 ATTGTATTATATGATATTG
1 ATTGTATTATATGATATTG
907366 TAATATATTT
Statistics
Matches: 94, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
47 1 0.01
48 37 0.39
49 5 0.05
50 51 0.54
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (47 bp):
ATTGTATTATATGATATTGGTTTATAATATAAATTATATCACATGAA
Found at i:907276 original size:18 final size:18
Alignment explanation
Indices: 907253--907287 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
907243 CATGAAATTG
*
907253 TATTATATGATATTGTAA
1 TATTATATAATATTGTAA
907271 TATTATATAATATTGTA
1 TATTATATAATATTGTA
907288 TCATACGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (18 bp):
TATTATATAATATTGTAA
Found at i:907284 original size:98 final size:97
Alignment explanation
Indices: 907165--907371 Score: 319
Period size: 98 Copynumber: 2.1 Consensus size: 97
907155 CTATGATACA
*
907165 ATATTGT-ATATTCTATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTCAGTA-A
1 ATATTGTAATATTATATAATATTGTATCATACAATATTGTATAATATGATATTGGTTT-A-TAGA
*
907228 TATAGAATTATATCACATGAAATTGTATTATATG
64 TATAGAATCATATCACATGAAATTGTATTATATG
* *
907262 ATATTGTAATATTATATAATATTGTATCATACGATATTGTATGATATGATATTGGTTTATATGAT
1 ATATTGTAATATTATATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTATA-GAT
**
907327 ATATTATCATATCACATGAAATTGTATTATATG
65 ATAGAATCATATCACATGAAATTGTATTATATG
907360 ATATTGTAATAT
1 ATATTGTAATAT
907372 ATTTTATTGT
Statistics
Matches: 101, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
96 2 0.02
97 8 0.08
98 91 0.90
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (97 bp):
ATATTGTAATATTATATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTATAGATA
TAGAATCATATCACATGAAATTGTATTATATG
Found at i:907365 original size:15 final size:15
Alignment explanation
Indices: 907244--907373 Score: 93
Period size: 15 Copynumber: 8.1 Consensus size: 15
907234 ATTATATCAC
*
907244 ATGAAATTGTATTAT
1 ATGATATTGTATTAT
907259 ATGATATTGTAATATTAT
1 ATGATATTG---TATTAT
* *
907277 ATAATATTGTATCAT
1 ATGATATTGTATTAT
* *
907292 ACGATATTGTATGAT
1 ATGATATTGTATTAT
907307 ATGATATTGGT-TTAT
1 ATGATATT-GTATTAT
907322 ATGATATAT-TATCATAT
1 ATGATAT-TGTAT--TAT
*
907339 CACATGAAATTGTATTAT
1 ---ATGATATTGTATTAT
*
907357 ATGATATTGTAATAT
1 ATGATATTGTATTAT
907372 AT
1 AT
907374 TTTATTGTGT
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 1 0.01
15 58 0.63
16 3 0.03
17 3 0.03
18 17 0.18
19 1 0.01
20 9 0.10
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (15 bp):
ATGATATTGTATTAT
Found at i:907387 original size:50 final size:50
Alignment explanation
Indices: 907237--907388 Score: 156
Period size: 50 Copynumber: 3.1 Consensus size: 50
907227 ATATAGAATT
*
907237 ATATCACATGAAATTGTATTATATGATATTGTAATATTATATAATATTGT-
1 ATATCACATGAAATTGTATTATATGATATTGTAATA-TATATTATATTGTC
* * * *
907287 ATCAT-AC--GATATTGTATGATATGATATTGGT-TTATATGA-TATATTATC
1 AT-ATCACATGAAATTGTATTATATGATATT-GTAATATAT-ATTATATTGTC
*
907335 ATATCACATGAAATTGTATTATATGATATTGTAATATATTTTAT-TGTGTC
1 ATATCACATGAAATTGTATTATATGATATTGTAATATATATTATAT-TGTC
907385 ATAT
1 ATAT
907389 GATGCAATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
47 11 0.13
48 26 0.32
49 5 0.06
50 38 0.46
51 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (50 bp):
ATATCACATGAAATTGTATTATATGATATTGTAATATATATTATATTGTC
Found at i:907620 original size:13 final size:13
Alignment explanation
Indices: 907602--907627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
907592 ATGATGTATT
907602 ATGTAATATGATA
1 ATGTAATATGATA
907615 ATGTAATATGATA
1 ATGTAATATGATA
907628 NNNNNNNNNN
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
ATGTAATATGATA
Found at i:910552 original size:18 final size:20
Alignment explanation
Indices: 910527--910576 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 20
910517 TATTATGTAA
910527 TATGATATTGTAATATA-AT
1 TATGATATTGTAATATATAT
* *
910546 TCT-ATATTGTACTATATAT
1 TATGATATTGTAATATATAT
910565 TATGATATTGTA
1 TATGATATTGTA
910577 TTATGTGATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 12 0.46
19 6 0.23
20 8 0.31
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (20 bp):
TATGATATTGTAATATATAT
Found at i:910700 original size:18 final size:19
Alignment explanation
Indices: 910666--910702 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
910656 ATTACGGTAT
*
910666 TTTATTGTATTATATGATA
1 TTTATTGTATAATATGATA
910685 TTTATTGTA-AATATGATA
1 TTTATTGTATAATATGATA
910703 AGATGCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TTTATTGTATAATATGATA
Found at i:910880 original size:16 final size:16
Alignment explanation
Indices: 910850--910894 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
910840 ATATAATATG
910850 ATAAAGGTG--GTCTC
1 ATAAAGGTGATGTCTC
910864 ATAAAGGTGATGTCTC
1 ATAAAGGTGATGTCTC
*
910880 ATAAGGGTGATGTCT
1 ATAAAGGTGATGTCT
910895 TGTCTCGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 9 0.32
16 19 0.68
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.31
Consensus pattern (16 bp):
ATAAAGGTGATGTCTC
Found at i:911787 original size:21 final size:21
Alignment explanation
Indices: 911763--912063 Score: 401
Period size: 21 Copynumber: 14.3 Consensus size: 21
911753 GGTAAAAAAA
* *
911763 AAACTTTCGCGAATAAGCACG
1 AAACTTTCGCGAATAAACGCG
*
911784 AAACTTTCGCAAATAAACGCG
1 AAACTTTCGCGAATAAACGCG
*
911805 TAACTTTCGCGAATAAACGCG
1 AAACTTTCGCGAATAAACGCG
*
911826 AAACTTTCGCAAATAAACGCG
1 AAACTTTCGCGAATAAACGCG
* *
911847 TAACTTTTGCGAATAAACGCG
1 AAACTTTCGCGAATAAACGCG
*
911868 AAAATTTCGCG-ATATAACGCG
1 AAACTTTCGCGAATA-AACGCG
* * *
911889 TAACTTTCGCGATTTAACGCG
1 AAACTTTCGCGAATAAACGCG
911910 AAACTTTCGCG-ATATAACGCG
1 AAACTTTCGCGAATA-AACGCG
911931 AAACTTTCGCGAATAAACGCG
1 AAACTTTCGCGAATAAACGCG
911952 AAACTTTCGCGAATAAACGCG
1 AAACTTTCGCGAATAAACGCG
*
911973 AAACTTTCGCG-ATATAACGTG
1 AAACTTTCGCGAATA-AACGCG
911994 AAACTTTCGCGAATAAACGCG
1 AAACTTTCGCGAATAAACGCG
** *
912015 TTACTTTCGTGAATAAACGCG
1 AAACTTTCGCGAATAAACGCG
**
912036 TTACTTTCGCGAATAAACGCG
1 AAACTTTCGCGAATAAACGCG
912057 AAACTTT
1 AAACTTT
912064 GCTTATAATG
Statistics
Matches: 246, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
20 7 0.03
21 232 0.94
22 7 0.03
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (21 bp):
AAACTTTCGCGAATAAACGCG
Found at i:913397 original size:29 final size:30
Alignment explanation
Indices: 913365--913427 Score: 119
Period size: 29 Copynumber: 2.1 Consensus size: 30
913355 GGTTGGGTTG
913365 GACTAATGCCACCAAAATACACTAAAAAC-
1 GACTAATGCCACCAAAATACACTAAAAACA
913394 GACTAATGCCACCAAAATACACTAAAAACA
1 GACTAATGCCACCAAAATACACTAAAAACA
913424 GACT
1 GACT
913428 GATTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.51, C:0.27, G:0.08, T:0.14
Consensus pattern (30 bp):
GACTAATGCCACCAAAATACACTAAAAACA
Found at i:913872 original size:21 final size:20
Alignment explanation
Indices: 913822--913872 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
913812 GTTTATTTTT
913822 GTGAAAAATTGGTCAGGGCTA
1 GTGAAAAA-TGGTCAGGGCTA
*
913843 GT-AGTAAATGAGTCAGGGCTA
1 GTGA-AAAATG-GTCAGGGCTA
913864 GTGAAAAAT
1 GTGAAAAAT
913873 TTCTGAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 21 0.84
22 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.31, T:0.24
Consensus pattern (20 bp):
GTGAAAAATGGTCAGGGCTA
Found at i:916471 original size:21 final size:21
Alignment explanation
Indices: 916446--916836 Score: 522
Period size: 21 Copynumber: 18.6 Consensus size: 21
916436 ATTTATCGTA
916446 CGCG-TTATATCGCGAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTT
*
916467 CGCGTTTATTCGCGAAAGTTA
1 CGCGTTTATTCGCGAAAGTTT
**
916488 CGCGTTTATTCGCGAAAGTAA
1 CGCGTTTATTCGCGAAAGTTT
* *
916509 CGCGTTTATTTGCAAAAGTTT
1 CGCGTTTATTCGCGAAAGTTT
916530 CGCG-TTATATCGCGAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTT
*
916551 CGCGTTTATTCGCGAAAGTTA
1 CGCGTTTATTCGCGAAAGTTT
916572 CGCGTTTATTCGCGAAAGTTT
1 CGCGTTTATTCGCGAAAGTTT
** *
916593 CGCGTTTATTCGCCTAAGTTA
1 CGCGTTTATTCGCGAAAGTTT
916614 CGCGTTTATTCGCGAAAGTTT
1 CGCGTTTATTCGCGAAAGTTT
**
916635 CGCGTTTATTCGCGAAAGTAA
1 CGCGTTTATTCGCGAAAGTTT
916656 CGCG-TTATATCGCGAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTT
*
916677 CGCGTTTATTTGCGAAAGTTT
1 CGCGTTTATTCGCGAAAGTTT
916698 CGCG-TTATATCGCGAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTT
* *
916719 CGCGTTTATTCGCGTAAGTTA
1 CGCGTTTATTCGCGAAAGTTT
*
916740 CGCGTTCATTCGCGAAAGTTT
1 CGCGTTTATTCGCGAAAGTTT
* **
916761 CGCGTTTATTCGCGAAGGTAA
1 CGCGTTTATTCGCGAAAGTTT
916782 CGCG-TTATATCGCGAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTT
* *
916803 CGCGTTTATTTGCGAAAGTTA
1 CGCGTTTATTCGCGAAAGTTT
916824 CGCGTTTATTCGC
1 CGCGTTTATTCGC
916837 AAAAAAAAAT
Statistics
Matches: 324, Mismatches: 37, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
20 16 0.05
21 288 0.89
22 20 0.06
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (21 bp):
CGCGTTTATTCGCGAAAGTTT
Found at i:916503 original size:42 final size:42
Alignment explanation
Indices: 916444--916829 Score: 582
Period size: 42 Copynumber: 9.2 Consensus size: 42
916434 ATATTTATCG
916444 TACGCGTTATATCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
1 TACGCGTTATATCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
** * *
916486 TACGCGTT-TATTCGCGAAAGTAACGCGTTTATTTGCAAAAGT
1 TACGCGTTATA-TCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
*
916528 TTCGCGTTATATCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
1 TACGCGTTATATCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
**
916570 TACGCGTT-TATTCGCGAAAGTTTCGCGTTTATTCGCCTAAGT
1 TACGCGTTATA-TCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
916612 TACGCGTT-TATTCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
1 TACGCGTTATA-TCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
* *
916654 AACGCGTTATATCGCGAAAGTTTCGCGTTTATTTGCGAAAGT
1 TACGCGTTATATCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
* *
916696 TTCGCGTTATATCGCGAAAGTTTCGCGTTTATTCGCGTAAGT
1 TACGCGTTATATCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
*
916738 TACGCGTTCAT-TCGCGAAAGTTTCGCGTTTATTCGCGAAGGT
1 TACGCGTT-ATATCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
* *
916780 AACGCGTTATATCGCGAAAGTTTCGCGTTTATTTGCGAAAGT
1 TACGCGTTATATCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
916822 TACGCGTT
1 TACGCGTT
916830 TATTCGCAAA
Statistics
Matches: 311, Mismatches: 27, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
41 6 0.02
42 299 0.96
43 6 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (42 bp):
TACGCGTTATATCGCGAAAGTTTCGCGTTTATTCGCGAAAGT
Found at i:925017 original size:20 final size:20
Alignment explanation
Indices: 924992--925036 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
924982 AAATCTGTAG
924992 ACAAAACATACTTAAAAAAT
1 ACAAAACATACTTAAAAAAT
925012 ACAAAACATACTTAAAAAAT
1 ACAAAACATACTTAAAAAAT
925032 ACAAA
1 ACAAA
925037 GATAATGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.18
Consensus pattern (20 bp):
ACAAAACATACTTAAAAAAT
Found at i:930464 original size:21 final size:21
Alignment explanation
Indices: 930440--930483 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
930430 GCTATTTTTC
*
930440 TTACGGGGTTTAGGGATTGGT
1 TTACGCGGTTTAGGGATTGGT
930461 TTACGCGGTTTAGGGATTGGT
1 TTACGCGGTTTAGGGATTGGT
930482 TT
1 TT
930484 GAAGCCTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.07, G:0.39, T:0.41
Consensus pattern (21 bp):
TTACGCGGTTTAGGGATTGGT
Found at i:935141 original size:10 final size:10
Alignment explanation
Indices: 935126--935317 Score: 79
Period size: 10 Copynumber: 18.0 Consensus size: 10
935116 GTCAGTACCC
935126 TGTACAGTGG
1 TGTACAGTGG
935136 TGTACAGTGG
1 TGTACAGTGG
* *
935146 GGTACAGTGC
1 TGTACAGTGG
*
935156 TGGT-CAGTGCCC
1 T-GTACAGTG--G
*
935168 CGTACAGTGG
1 TGTACAGTGG
*
935178 TGCACAGTGAG
1 TGTACAGTG-G
*
935189 -GTACAGTGC
1 TGTACAGTGG
935198 TGGT-CAGTGGG
1 T-GTACAGT-GG
* *
935209 TAGGTACTGTGC
1 T--GTACAGTGG
*
935221 TGTCCAGTGG
1 TGTACAGTGG
*
935231 AGTACAGTGG
1 TGTACAGTGG
*
935241 AGTACAGTGG
1 TGTACAGTGG
935251 CTCTGTACAGTGG
1 ---TGTACAGTGG
*
935264 GGTACAGTGG
1 TGTACAGTGG
935274 -GATACAGT-G
1 TG-TACAGTGG
*
935283 TGGTACAGTAGCTC
1 T-GTACAGT-G--G
935297 TGTACAGTGGG
1 TGTACAGT-GG
935308 TGTACAGTGG
1 TGTACAGTGG
935318 ATTTACAGTA
Statistics
Matches: 140, Mismatches: 22, Indels: 40
0.69 0.11 0.20
Matches are distributed among these distances:
9 2 0.01
10 88 0.63
11 18 0.13
12 11 0.08
13 20 0.14
14 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.26
Consensus pattern (10 bp):
TGTACAGTGG
Found at i:935213 original size:23 final size:23
Alignment explanation
Indices: 935187--935230 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
935177 GTGCACAGTG
935187 AGGTACAGTGCTGGT-CAGTGGGT
1 AGGTACAGTGCT-GTCCAGTGGGT
*
935210 AGGTACTGTGCTGTCCAGTGG
1 AGGTACAGTGCTGTCCAGTGG
935231 AGTACAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.16, C:0.16, G:0.41, T:0.27
Consensus pattern (23 bp):
AGGTACAGTGCTGTCCAGTGGGT
Found at i:935262 original size:33 final size:33
Alignment explanation
Indices: 935220--935282 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
935210 AGGTACTGTG
*
935220 CTGTCCAGTGGAGTACAGT-GGAGTACAGTGGCT
1 CTGTACAGTGGAGTACAGTGGGA-TACAGTGGCT
*
935253 CTGTACAGTGGGGTACAGTGGGATACAGTG
1 CTGTACAGTGGAGTACAGTGGGATACAGTG
935283 TGGTACAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (33 bp):
CTGTACAGTGGAGTACAGTGGGATACAGTGGCT
Found at i:935272 original size:43 final size:45
Alignment explanation
Indices: 935125--935318 Score: 160
Period size: 43 Copynumber: 4.5 Consensus size: 45
935115 TGTCAGTACC
* *
935125 CTGTACAGT-GGTGTACAGTGG-GGTACAGTGCTGGT-CAGT-GCC
1 CTGTACAGTGGGTGTACAGTGGAGATACAGTG-TGGTACAGTAGCT
* * * * *
935167 CCGTACAGT-GGTGCACAGT-GAGGTACAGTGCTGGT-CAGTGGGT
1 CTGTACAGTGGGTGTACAGTGGAGATACAGTG-TGGTACAGTAGCT
** * * * *
935210 AGGTACTGT-GCTGTCCAGTGGAG-TACAGTG-GAGTACAGTGGCT
1 CTGTACAGTGGGTGTACAGTGGAGATACAGTGTG-GTACAGTAGCT
935253 CTGTACAGTGGG-GTACAGTGG-GATACAGTGTGGTACAGTAGCT
1 CTGTACAGTGGGTGTACAGTGGAGATACAGTGTGGTACAGTAGCT
935296 CTGTACAGTGGGTGTACAGTGGA
1 CTGTACAGTGGGTGTACAGTGGA
935319 TTTACAGTAG
Statistics
Matches: 125, Mismatches: 17, Indels: 17
0.79 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 38 0.30
43 71 0.57
44 14 0.11
ACGTcount: A:0.20, C:0.16, G:0.38, T:0.25
Consensus pattern (45 bp):
CTGTACAGTGGGTGTACAGTGGAGATACAGTGTGGTACAGTAGCT
Found at i:936599 original size:15 final size:15
Alignment explanation
Indices: 936579--936608 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
936569 ATGCAGGATG
936579 TGGGTCTCCGAGTCC
1 TGGGTCTCCGAGTCC
*
936594 TGGGTCTCGGAGTCC
1 TGGGTCTCCGAGTCC
936609 CCCACCTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.37, T:0.27
Consensus pattern (15 bp):
TGGGTCTCCGAGTCC
Found at i:937681 original size:28 final size:28
Alignment explanation
Indices: 937648--937704 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
937638 TTTTGATTGG
937648 TCAGTACTCACCTCCTGTTTGATACACC
1 TCAGTACTCACCTCCTGTTTGATACACC
937676 TCAGTACTCACCTCCTGTTTGATACACC
1 TCAGTACTCACCTCCTGTTTGATACACC
937704 T
1 T
937705 GTAGAGAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.35, G:0.11, T:0.33
Consensus pattern (28 bp):
TCAGTACTCACCTCCTGTTTGATACACC
Found at i:943806 original size:15 final size:15
Alignment explanation
Indices: 943786--943815 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
943776 TTTAACTACA
943786 GAATTCTAAGTAGTT
1 GAATTCTAAGTAGTT
*
943801 GAATTCTTAGTAGTT
1 GAATTCTAAGTAGTT
943816 ATCTTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (15 bp):
GAATTCTAAGTAGTT
Found at i:945566 original size:22 final size:22
Alignment explanation
Indices: 945540--945854 Score: 353
Period size: 22 Copynumber: 14.3 Consensus size: 22
945530 TTCAGATATG
* * *
945540 ATGATATCAGGTTTATGCAAAC
1 ATGATATCTGGTTCATGCAGAC
**
945562 ATGATATCTGGTTCACACAGAC
1 ATGATATCTGGTTCATGCAGAC
* * * * *
945584 GTTATGTTTGGTTCACGCAGAC
1 ATGATATCTGGTTCATGCAGAC
**
945606 ATGATATCTGGTTCACACAGAC
1 ATGATATCTGGTTCATGCAGAC
* **
945628 ATGATATCTGGTTTACACAGAC
1 ATGATATCTGGTTCATGCAGAC
** *
945650 ATGATATCTGGTTCACACATAC
1 ATGATATCTGGTTCATGCAGAC
*
945672 ATGATATCTGGTTTATGCAGAC
1 ATGATATCTGGTTCATGCAGAC
* *
945694 ATGATATCAT-GATCATGCAGGC
1 ATGATATC-TGGTTCATGCAGAC
* *
945716 ATGATATTTAGTTCATGCAGAC
1 ATGATATCTGGTTCATGCAGAC
*
945738 ATGATATCTGGTTTATGCAGAC
1 ATGATATCTGGTTCATGCAGAC
*
945760 ATGATATATGGTTCATGCAGAC
1 ATGATATCTGGTTCATGCAGAC
* *
945782 ATGATATATGGTTCATACAGAC
1 ATGATATCTGGTTCATGCAGAC
945804 ATGATATCTGGTTCATGCAGAC
1 ATGATATCTGGTTCATGCAGAC
* *
945826 ATGATATCAGGTTTATGCAGAC
1 ATGATATCTGGTTCATGCAGAC
945848 ATGATAT
1 ATGATAT
945855 ACCCACAATA
Statistics
Matches: 253, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
21 1 0.00
22 251 0.99
23 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (22 bp):
ATGATATCTGGTTCATGCAGAC
Found at i:981034 original size:2 final size:2
Alignment explanation
Indices: 981027--981071 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
981017 CTTTGATTTT
981027 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
981069 GA G
1 GA G
981072 TATTCATGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:985641 original size:2 final size:2
Alignment explanation
Indices: 985634--985721 Score: 167
Period size: 2 Copynumber: 44.0 Consensus size: 2
985624 ACATATCTAC
985634 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
985676 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
985718 CT CT
1 CT CT
985722 GTAATGATTT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.00, C:0.49, G:0.01, T:0.50
Consensus pattern (2 bp):
CT
Found at i:987597 original size:2 final size:2
Alignment explanation
Indices: 987592--987652 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
987582 CAAAAAAGTG
987592 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
987634 TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC T
987653 AAAAAGCAGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:990402 original size:4 final size:4
Alignment explanation
Indices: 990393--990417 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
990383 AAAAAGCAAG
990393 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
990418 CATGTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:998716 original size:2 final size:2
Alignment explanation
Indices: 998709--998746 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
998699 GAAAAGGAGC
998709 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
998747 TCCATTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1007573 original size:2 final size:2
Alignment explanation
Indices: 1007568--1007618 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1007558 CCCTCCCTCC
1007568 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1007610 CT CT CT CT C
1 CT CT CT CT C
1007619 ACATTTGACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1037030 original size:2 final size:2
Alignment explanation
Indices: 1037023--1037073 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1037013 CTGTACTGTA
1037023 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1037065 CT CT CT CT C
1 CT CT CT CT C
1037074 AACAAATCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1037458 original size:2 final size:2
Alignment explanation
Indices: 1037451--1037499 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1037441 GATAAACCTT
1037451 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1037493 AG AG AG A
1 AG AG AG A
1037500 TCTCCTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1041336 original size:2 final size:2
Alignment explanation
Indices: 1041331--1041375 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1041321 TGTGTGATTA
1041331 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1041373 AG A
1 AG A
1041376 AAATTAAGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1044346 original size:4 final size:4
Alignment explanation
Indices: 1044339--1044369 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1044329 CGATTGTCAG
1044339 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCT
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCT
1044370 TTTTCAAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.52
Consensus pattern (4 bp):
TCTA
Found at i:1049718 original size:2 final size:2
Alignment explanation
Indices: 1049713--1049768 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1049703 TATATCATTG
1049713 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1049755 GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA
1049769 ACGCAAGCGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1051538 original size:46 final size:46
Alignment explanation
Indices: 1051468--1051599 Score: 192
Period size: 46 Copynumber: 2.8 Consensus size: 46
1051458 ATTCTTCAAA
* * * *
1051468 GTTTAGGTAGATATGTTACTTTGACTGGGTTGACAGATAATTCAGAG
1 GTTT-GGTAAATATCTTACTTTGACAGAGTTGACAGATAATTCAGAG
1051515 GTTTGGTAAATATCTTACTTTGACAGAGTTGACAGATAATTCAGAG
1 GTTTGGTAAATATCTTACTTTGACAGAGTTGACAGATAATTCAGAG
* * *
1051561 TTTTGGTAAATATCTTACTTTGACCGAGTTAACAGATAA
1 GTTTGGTAAATATCTTACTTTGACAGAGTTGACAGATAA
1051600 CTGGGGGAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 74 0.95
47 4 0.05
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (46 bp):
GTTTGGTAAATATCTTACTTTGACAGAGTTGACAGATAATTCAGAG
Found at i:1056904 original size:52 final size:48
Alignment explanation
Indices: 1056777--1056911 Score: 202
Period size: 46 Copynumber: 2.8 Consensus size: 48
1056767 CATGGGGGGG
* *
1056777 TTGTAAATAAAAGGGATCAAAATTGTTATTCAA-A-ATAACTACTTAG
1 TTGTAAATAAAAGGAATCAAAATTGTTATTCAATATATAACTACTTAA
1056823 TTGTAAATAAAAGGAATCAAAATTGTTATTCAATATATTAACTACTTAA
1 TTGTAAATAAAAGGAATCAAAATTGTTATTCAATATA-TAACTACTTAA
1056872 TTGTAAATAAGGCAAGGAATCAAAATTGTTATTCAATATA
1 TTGTAAATAA---AAGGAATCAAAATTGTTATTCAATATA
1056912 ACTATACTTA
Statistics
Matches: 81, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
46 32 0.40
47 1 0.01
48 1 0.01
49 20 0.25
52 27 0.33
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (48 bp):
TTGTAAATAAAAGGAATCAAAATTGTTATTCAATATATAACTACTTAA
Found at i:1057593 original size:1 final size:1
Alignment explanation
Indices: 1057587--1057611 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1057577 AAGTCTCCTG
1057587 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
1057612 CATGTAGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1060989 original size:168 final size:168
Alignment explanation
Indices: 1060790--1061577 Score: 949
Period size: 168 Copynumber: 4.7 Consensus size: 168
1060780 CCCCCCATGT
* * * * * ** *
1060790 CCTGAACCCCTGACCCAGGGGCCATGAATTTCACAATTTAAGTAAAGGAG-ATTGTGGATATCAT
1 CCTGAACACCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGAGCCTCATGGACATCAT
* * * * * * * * *
1060854 AACCATGTATTCAGTTTTTTGCCCACATGTGTTGGAGTAGAGAAGAAGATTTTTTAAGATTTAA-
66 TATCATGCATTTAGTTTTTT-CACAAATATATTGGAGTAGAGAAGAAGATTTTCTAAGATTTAAT
*
1060918 ATCATTTTTACTATATGGCCATATTGGCCCCACCCCAGAG
130 A-CATTTTTACTATTTGGCCATATTGGCCCCACCCCAGAG
* *
1060958 CATGAACACCTTACCCAGGGGTCATGAATTTCACAATTTTAGTAGA-GAGCCTCATGGACATCAT
1 CCTGAACACCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGAGCCTCATGGACATCAT
*
1061022 TATCATGCATTTAG-TTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAA
66 TATCATGCATTTAGTTTTTTCACAAATATAT-T-GGAGTAGAGAAGAAGATTTTCTAAGATTTAA
* *
1061086 TACATTTTTACTATTTGGCC-TGA-CGGCCCCATCCCAGAG
129 TACATTTTTACTATTTGGCCAT-ATTGGCCCCACCCCAGAG
* * * *
1061125 CCTGAACCCCTGACCGAGGGGTCATGAATTTCACAA-TTTAGGATGAGG-GCTTCATGGACATCA
1 CCTGAACACCTGACCCAGGGGTCATGAATTTCACAATTTTAGTA-GAGGAGCCTCATGGACATCA
* * *
1061188 TTATCATGCATTTAG-GTTTTAACAAATATATATGATAGTAGAGAAGAAGATTTTCTAAGATTTA
65 TTATCATGCATTTAGTTTTTTCACAAATATAT-TG-GAGTAGAGAAGAAGATTTTCTAAGATTTA
* *
1061252 ATACATTTTTACTATTTGGCCATATTGGCTCCACCCTAGAG
128 ATACATTTTTACTATTTGGCCATATTGGCCCCACCCCAGAG
1061293 CCTGAA-ACCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGA-GAGCCTCATGGACATCA
1 CCTGAACA-CCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGAGCCTCATGGACATCA
*
1061356 TTATCATGCATTTAG-TTTTTAACAAATATATATGGTAGTAGAGAAGAAGATTTTCTAAGATTTA
65 TTATCATGCATTTAGTTTTTTCACAAATATAT-TGG-AGTAGAGAAGAAGATTTTCTAAGATTTA
*
1061420 ATACATTTTTACTATTTGGCCATATTGGCCCCACCCTAGAG
128 ATACATTTTTACTATTTGGCCATATTGGCCCCACCCCAGAG
* * *
1061461 CCTGAATC-CCTGACCCAGGGGTCATAAATTTCACAATTTTGGTAGAGG-GCCTCATGGACATTA
1 CCTGAA-CACCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGAGCCTCATGGACATCA
* * * * * * *
1061524 TAACCATGCATTCAGTTTTTTCCTCACATGT-GTGGTAGTAGAGAAGAAGATTTT
65 TTATCATGCATTTAGTTTTTT-CACAAATATATTGG-AGTAGAGAAGAAGATTTT
1061578 TGAAAATTTG
Statistics
Matches: 548, Mismatches: 53, Indels: 38
0.86 0.08 0.06
Matches are distributed among these distances:
166 13 0.02
167 155 0.28
168 362 0.66
169 13 0.02
170 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (168 bp):
CCTGAACACCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGAGCCTCATGGACATCAT
TATCATGCATTTAGTTTTTTCACAAATATATTGGAGTAGAGAAGAAGATTTTCTAAGATTTAATA
CATTTTTACTATTTGGCCATATTGGCCCCACCCCAGAG
Found at i:1061186 original size:167 final size:168
Alignment explanation
Indices: 1060887--1061543 Score: 1002
Period size: 168 Copynumber: 3.9 Consensus size: 168
1060877 CACATGTGTT
* *
1060887 GGAGTAGAGAAGAAGATTTTTTAAGATTTAA-ATCATTTTTACTATATGGCCATATTGGCCCCAC
1 GGAGTAGAGAAGAAGATTTTCTAAGATTTAATA-CATTTTTACTATTTGGCCATATTGGCCCCAC
* * * * *
1060951 CCCAGAGCATGAACACCTTACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGAGCCTCATGGA
65 CCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGGAGAGAGCCTCATGGA
1061016 CATCATTATCATGCATTTAGTTTTTAACAAATATATATG
130 CATCATTATCATGCATTTAGTTTTTAACAAATATATATG
*
1061055 GGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCC-TGA-CGGCCCCAT
1 GGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCAT-ATTGGCCCCA-
* * *
1061118 CCC-AGAGCCTGAACCCCTGACCGAGGGGTCATGAATTTCACAA-TTTAGGATGAGGGCTTCATG
64 CCCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGGA-GAGAGCCTCATG
*
1061181 GACATCATTATCATGCATTTAGGTTTTAACAAATATATATG
128 GACATCATTATCATGCATTTAGTTTTTAACAAATATATATG
** *
1061222 ATAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCTCCACC
1 GGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACC
* *
1061287 CTAGAGCCTGAAACCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGAGCCTCATGGAC
66 CTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGGAGAGAGCCTCATGGAC
1061352 ATCATTATCATGCATTTAGTTTTTAACAAATATATATG
131 ATCATTATCATGCATTTAGTTTTTAACAAATATATATG
*
1061390 GTAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACC
1 GGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACC
* * *
1061455 CTAGAGCCTGAATCCCTGACCCAGGGGTCATAAATTTCACAATTTT-GGTAGAGGGCCTCATGGA
66 CTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGG-AGAGAGCCTCATGGA
* * * *
1061519 CATTATAACCATGCATTCAGTTTTT
130 CATCATTATCATGCATTTAGTTTTT
1061544 TCCTCACATG
Statistics
Matches: 449, Mismatches: 31, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
166 6 0.01
167 148 0.33
168 288 0.64
169 7 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (168 bp):
GGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACC
CTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGGAGAGAGCCTCATGGAC
ATCATTATCATGCATTTAGTTTTTAACAAATATATATG
Found at i:1061238 original size:335 final size:336
Alignment explanation
Indices: 1060889--1061535 Score: 1063
Period size: 335 Copynumber: 1.9 Consensus size: 336
1060879 CATGTGTTGG
*
1060889 AGTAGAGAAGAAGATTTTTTAAGATTTAA-ATCATTTTTACTATATGGCCATATTGGCCCCACCC
1 AGTAGAGAAGAAGATTTTCTAAGATTTAATA-CATTTTTACTATATGGCCATATTGGCCCCACCC
*
1060953 CAGAGCATG-AACACCTTACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGAGCCTCATGGAC
65 CAGAGCATGAAAC-CCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGAGCCTCATGGAC
1061017 ATCATTATCATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGAT
129 ATCATTATCATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGAT
*
1061082 TTAATACATTTTTACTATTTGGCC-TGA-CGGCCCCATCCC-AGAGCCTGAACCCCTGACCGAGG
194 TTAATACATTTTTACTATTTGGCCAT-ATCGGCCCCA-CCCTAGAGCCTGAACCCCTGACCCAGG
* * * *
1061144 GGTCATGAATTTCACAATTTAGG-ATGAGGGCTTCATGGACATCATTATCATGCATTTAGGTTTT
257 GGTCATAAATTTCACAATTTAGGTA-GAGGGCCTCATGGACATCATAACCATGCATTTAGGTTTT
1061208 AACAAATATATATGAT
321 AACAAATATATATGAT
* * *
1061224 AGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCTCCACCCT
1 AGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCACCCC
*
1061289 AGAGCCTGAAACCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGAGCCTCATGGACAT
66 AGAGCATGAAACCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGAGCCTCATGGACAT
*
1061354 CATTATCATGCATTTAGTTTTTAACAAATATATATGGTAGTAGAGAAGAAGATTTTCTAAGATTT
131 CATTATCATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTT
* *
1061419 AATACATTTTTACTATTTGGCCATATTGGCCCCACCCTAGAGCCTGAATCCCTGACCCAGGGGTC
196 AATACATTTTTACTATTTGGCCATATCGGCCCCACCCTAGAGCCTGAACCCCTGACCCAGGGGTC
* *
1061484 ATAAATTTCACAATTTTGGTAGAGGGCCTCATGGACATTATAACCATGCATT
261 ATAAATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAACCATGCATT
1061536 CAGTTTTTTC
Statistics
Matches: 290, Mismatches: 16, Indels: 11
0.91 0.05 0.03
Matches are distributed among these distances:
335 208 0.72
336 81 0.28
337 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (336 bp):
AGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCACCCC
AGAGCATGAAACCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGAGCCTCATGGACAT
CATTATCATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTT
AATACATTTTTACTATTTGGCCATATCGGCCCCACCCTAGAGCCTGAACCCCTGACCCAGGGGTC
ATAAATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAACCATGCATTTAGGTTTTAACAA
ATATATATGAT
Found at i:1061758 original size:7 final size:7
Alignment explanation
Indices: 1061748--1061786 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
1061738 AAAATTGTTA
1061748 ACGCACG
1 ACGCACG
1061755 ACGCACAG
1 ACGCAC-G
1061763 ACGCACG
1 ACGCACG
*
1061770 ACGCACA
1 ACGCACG
1061777 ACGCACG
1 ACGCACG
1061784 ACG
1 ACG
1061787 ACGGACGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.33, C:0.41, G:0.26, T:0.00
Consensus pattern (7 bp):
ACGCACG
Found at i:1061768 original size:15 final size:14
Alignment explanation
Indices: 1061747--1061786 Score: 71
Period size: 15 Copynumber: 2.8 Consensus size: 14
1061737 TAAAATTGTT
1061747 AACGCACGACGCAC
1 AACGCACGACGCAC
1061761 AGACGCACGACGCAC
1 A-ACGCACGACGCAC
1061776 AACGCACGACG
1 AACGCACGACG
1061787 ACGGACGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.35, C:0.40, G:0.25, T:0.00
Consensus pattern (14 bp):
AACGCACGACGCAC
Found at i:1064677 original size:57 final size:57
Alignment explanation
Indices: 1064602--1064709 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 57
1064592 GTCAAAAATC
* *
1064602 CAATTTTAACACTTGATTATAGAAAAACATCAATTCACTCAATCCAAAAAAAAAAAA
1 CAATTTTAACACTTGATTATAGAAAAACAGCAATTCACCCAATCCAAAAAAAAAAAA
* *
1064659 CAATTTTAACACTTGATTATAGAAAATCAGCAATTCACCCAATCCACAAAA
1 CAATTTTAACACTTGATTATAGAAAAACAGCAATTCACCCAATCCAAAAAA
1064710 TAGATATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (57 bp):
CAATTTTAACACTTGATTATAGAAAAACAGCAATTCACCCAATCCAAAAAAAAAAAA
Found at i:1065039 original size:16 final size:16
Alignment explanation
Indices: 1065018--1065065 Score: 96
Period size: 16 Copynumber: 3.0 Consensus size: 16
1065008 AAGGAATGCT
1065018 GGAGAAAACGTACCCA
1 GGAGAAAACGTACCCA
1065034 GGAGAAAACGTACCCA
1 GGAGAAAACGTACCCA
1065050 GGAGAAAACGTACCCA
1 GGAGAAAACGTACCCA
1065066 ATCTCTAGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.44, C:0.25, G:0.25, T:0.06
Consensus pattern (16 bp):
GGAGAAAACGTACCCA
Found at i:1065113 original size:31 final size:31
Alignment explanation
Indices: 1065075--1065134 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1065065 AATCTCTAGT
*
1065075 GTACGTTTTCTCCAGGAGAAAACGTACCCGG
1 GTACGTTTTCTCCAAGAGAAAACGTACCCGG
1065106 GTACGTTTTCTCCAAGAGAAAACGTACCC
1 GTACGTTTTCTCCAAGAGAAAACGTACCC
1065135 TATGAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (31 bp):
GTACGTTTTCTCCAAGAGAAAACGTACCCGG
Found at i:1065999 original size:16 final size:16
Alignment explanation
Indices: 1065980--1066029 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
1065970 CCCTAGAGAT
1065980 TGGGTACGTTTTCTCC
1 TGGGTACGTTTTCTCC
*
1065996 TGGGTACGTTTTCTCT
1 TGGGTACGTTTTCTCC
1066012 TGGGTACGTTTTCTCC
1 TGGGTACGTTTTCTCC
1066028 TG
1 TG
1066030 ATACCTGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.06, C:0.22, G:0.26, T:0.46
Consensus pattern (16 bp):
TGGGTACGTTTTCTCC
Found at i:1066225 original size:11 final size:10
Alignment explanation
Indices: 1066205--1066288 Score: 71
Period size: 10 Copynumber: 8.1 Consensus size: 10
1066195 GCGTCGATTT
1066205 ACCCAAATGG
1 ACCCAAATGG
1066215 ACCCAAAATGG
1 ACCC-AAATGG
**
1066226 AACGTAAAAT-G
1 -AC-CCAAATGG
1066237 ACCCAAATGG
1 ACCCAAATGG
* *
1066247 ACCCAAGTGA
1 ACCCAAATGG
1066257 ACCCAAATGG
1 ACCCAAATGG
1066267 AGCCCAAATGG
1 A-CCCAAATGG
**
1066278 AAACAAATGG
1 ACCCAAATGG
1066288 A
1 A
1066289 AATATTGAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
9 4 0.07
10 32 0.54
11 17 0.29
12 6 0.10
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.11
Consensus pattern (10 bp):
ACCCAAATGG
Found at i:1067189 original size:11 final size:10
Alignment explanation
Indices: 1067165--1067237 Score: 76
Period size: 10 Copynumber: 7.1 Consensus size: 10
1067155 CCATTCAATT
1067165 TCCATTTGGG
1 TCCATTTGGG
1067175 TCCATTTGGG
1 TCCATTTGGG
1067185 CTCCATTTGGG
1 -TCCATTTGGG
* *
1067196 TTCATTTGGA
1 TCCATTTGGG
* *
1067206 T-CATTTTACGT
1 TCCA-TTT-GGG
1067217 TCCATTTGGG
1 TCCATTTGGG
1067227 TCCATTTGGG
1 TCCATTTGGG
1067237 T
1 T
1067238 AAATCGACTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.04
10 34 0.64
11 15 0.28
12 2 0.04
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (10 bp):
TCCATTTGGG
Found at i:1067189 original size:21 final size:20
Alignment explanation
Indices: 1067165--1067237 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
1067155 CCATTCAATT
1067165 TCCATTTGGGTCCATTTGGG
1 TCCATTTGGGTCCATTTGGG
* *
1067185 CTCCATTTGGGTTCATTTGGA
1 -TCCATTTGGGTCCATTTGGG
* *
1067206 T-CATTTTACGTTCCATTTGGG
1 TCCA-TTT-GGGTCCATTTGGG
1067227 TCCATTTGGGT
1 TCCATTTGGGT
1067238 AAATCGACTC
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
19 2 0.05
20 6 0.15
21 31 0.76
22 2 0.05
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (20 bp):
TCCATTTGGGTCCATTTGGG
Found at i:1069440 original size:22 final size:22
Alignment explanation
Indices: 1069415--1069842 Score: 348
Period size: 22 Copynumber: 19.8 Consensus size: 22
1069405 ACACACTAAT
1069415 GTAAGTCATTGTCTACACCAAA
1 GTAAGTCATTGTCTACACCAAA
* * *
1069437 GTAAGTCATTGTATACACTAAT
1 GTAAGTCATTGTCTACACCAAA
*
1069459 GTAAGTCATTGTCTACA-TAAA
1 GTAAGTCATTGTCTACACCAAA
* ***
1069480 TGTAAGTCAGTGTCT-GTGCAAA
1 -GTAAGTCATTGTCTACACCAAA
1069502 TGTAAGTCATTGTCTACA-CAAA
1 -GTAAGTCATTGTCTACACCAAA
* *
1069524 TGCAAGTCATTGTCTACACCAAT
1 -GTAAGTCATTGTCTACACCAAA
1069547 GTAAGTCATTGTCTACACC--A
1 GTAAGTCATTGTCTACACCAAA
* * *
1069567 GTAATAGTCAGTGTCTACGCCAAT
1 GT-A-AGTCATTGTCTACACCAAA
* * * *
1069591 GTAAGTCATTGTTTCCACTAAT
1 GTAAGTCATTGTCTACACCAAA
1069613 GTAAGTCATTGTCTACA-CAAA
1 GTAAGTCATTGTCTACACCAAA
* * * *
1069634 TGTAAGTCAGTGTCTTCATCAAT
1 -GTAAGTCATTGTCTACACCAAA
1069657 GTAAGTCATTGTCTAC-CCAAA
1 GTAAGTCATTGTCTACACCAAA
1069678 TGTAAGTCATTGTCTACA-CAAA
1 -GTAAGTCATTGTCTACACCAAA
* ** *
1069700 TGTAAGTCATTGTCTATATTAAT
1 -GTAAGTCATTGTCTACACCAAA
***
1069723 GTAAGTCATTGTCT-GTGCAAA
1 GTAAGTCATTGTCTACACCAAA
*
1069744 TGTAAGTCATTG--T-----AAT
1 -GTAAGTCATTGTCTACACCAAA
1069760 GTAAGTCATTGTCTACACCAAA
1 GTAAGTCATTGTCTACACCAAA
* * *
1069782 GTAAATCAGTGTCTACACCAAT
1 GTAAGTCATTGTCTACACCAAA
* * *
1069804 GTAAGTCATTGTATACAGCAAT
1 GTAAGTCATTGTCTACACCAAA
1069826 GTAAGTCATTGTCTACA
1 GTAAGTCATTGTCTACA
1069843 NNNNNNNNNN
Statistics
Matches: 332, Mismatches: 53, Indels: 42
0.78 0.12 0.10
Matches are distributed among these distances:
15 11 0.03
16 2 0.01
17 1 0.00
20 3 0.01
21 11 0.03
22 293 0.88
23 9 0.03
24 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (22 bp):
GTAAGTCATTGTCTACACCAAA
Found at i:1069469 original size:44 final size:44
Alignment explanation
Indices: 1069407--1069842 Score: 421
Period size: 44 Copynumber: 10.1 Consensus size: 44
1069397 GACACCCTAC
*
1069407 ACACTAATGTAAGTCATTGTCTACACCAAAGTAAGTCATTGTAT
1 ACACTAATGTAAGTCATTGTCTACACCAAAGTAAGTCATTGTCT
* *
1069451 ACACTAATGTAAGTCATTGTCTACA-TAAATGTAAGTCAGTGTCT
1 ACACTAATGTAAGTCATTGTCTACACCAAA-GTAAGTCATTGTCT
*** * *
1069495 GTGCAAATGTAAGTCATTGTCTACA-CAAATGCAAGTCATTGTCT
1 ACACTAATGTAAGTCATTGTCTACACCAAA-GTAAGTCATTGTCT
* *
1069539 ACACCAATGTAAGTCATTGTCTACACC--AGTAATAGTCAGTGTCT
1 ACACTAATGTAAGTCATTGTCTACACCAAAGT-A-AGTCATTGTCT
* * * * * *
1069583 ACGCCAATGTAAGTCATTGTTTCCACTAATGTAAGTCATTGTCT
1 ACACTAATGTAAGTCATTGTCTACACCAAAGTAAGTCATTGTCT
* * * * *
1069627 ACACAAATGTAAGTCAGTGTCTTCATCAATGTAAGTCATTGTCT
1 ACACTAATGTAAGTCATTGTCTACACCAAAGTAAGTCATTGTCT
* *
1069671 ACCCAAATGTAAGTCATTGTCTACA-CAAATGTAAGTCATTGTCT
1 ACACTAATGTAAGTCATTGTCTACACCAAA-GTAAGTCATTGTCT
* * ***
1069715 ATATTAATGTAAGTCATTGTCT-GTGCAAATGTAAGTCATTG---
1 ACACTAATGTAAGTCATTGTCTACACCAAA-GTAAGTCATTGTCT
* *
1069756 ----TAATGTAAGTCATTGTCTACACCAAAGTAAATCAGTGTCT
1 ACACTAATGTAAGTCATTGTCTACACCAAAGTAAGTCATTGTCT
* * * *
1069796 ACACCAATGTAAGTCATTGTATACAGCAATGTAAGTCATTGTCT
1 ACACTAATGTAAGTCATTGTCTACACCAAAGTAAGTCATTGTCT
1069840 ACA
1 ACA
1069843 NNNNNNNNNN
Statistics
Matches: 326, Mismatches: 50, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
37 27 0.08
38 4 0.01
42 1 0.00
43 8 0.02
44 282 0.87
45 2 0.01
46 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (44 bp):
ACACTAATGTAAGTCATTGTCTACACCAAAGTAAGTCATTGTCT
Found at i:1069520 original size:66 final size:66
Alignment explanation
Indices: 1069407--1069842 Score: 430
Period size: 66 Copynumber: 6.7 Consensus size: 66
1069397 GACACCCTAC
* * *
1069407 ACACTAATGTAAGTCATTGTCTACACCAAA-GTAAGTCATTGTATACACTAATGTAAGTCATTGT
1 ACACAAATGTAAGTCATTGTCTATA-CAAATGTAAGTCATTGTCTACACTAATGTAAGTCATTGT
1069471 CT
65 CT
* * * * * *
1069473 ACATAAATGTAAGTCAGTGTCTGTGCAAATGTAAGTCATTGTCTACACAAATGCAAGTCATTGTC
1 ACACAAATGTAAGTCATTGTCTATACAAATGTAAGTCATTGTCTACACTAATGTAAGTCATTGTC
1069538 T
66 T
* * * * * *
1069539 ACACCAATGTAAGTCATTGTCTACAC-CA-GTAATAGTCAGTGTCTACGCCAATGTAAGTCATTG
1 ACACAAATGTAAGTCATTGTCTATACAAATGT-A-AGTCATTGTCTACACTAATGTAAGTCATTG
*
1069602 TTT
64 TCT
* * * * *
1069605 CCACTAATGTAAGTCATTGTCTACACAAATGTAAGTCAGTGTCTTCA-TCAATGTAAGTCATTGT
1 ACACAAATGTAAGTCATTGTCTATACAAATGTAAGTCATTGTCTACACT-AATGTAAGTCATTGT
1069669 CT
65 CT
* * * *
1069671 ACCCAAATGTAAGTCATTGTCTACACAAATGTAAGTCATTGTCTATATTAATGTAAGTCATTGTC
1 ACACAAATGTAAGTCATTGTCTATACAAATGTAAGTCATTGTCTACACTAATGTAAGTCATTGTC
1069736 T
66 T
*** * * * *
1069737 GTGCAAATGTAAGTCATTG----T---AATGTAAGTCATTGTCTACACCAAAGTAAATCAGTGTC
1 ACACAAATGTAAGTCATTGTCTATACAAATGTAAGTCATTGTCTACACTAATGTAAGTCATTGTC
1069795 T
66 T
*
1069796 ACACCAATGTAAGTCATTG--TATACAGCAATGTAAGTCATTGTCTACA
1 ACACAAATGTAAGTCATTGTCTATACA--AATGTAAGTCATTGTCTACA
1069843 NNNNNNNNNN
Statistics
Matches: 308, Mismatches: 48, Indels: 28
0.80 0.12 0.07
Matches are distributed among these distances:
59 48 0.16
61 1 0.00
64 2 0.01
65 6 0.02
66 246 0.80
67 3 0.01
68 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (66 bp):
ACACAAATGTAAGTCATTGTCTATACAAATGTAAGTCATTGTCTACACTAATGTAAGTCATTGTC
T
Found at i:1069762 original size:15 final size:15
Alignment explanation
Indices: 1069742--1069771 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1069732 TGTCTGTGCA
1069742 AATGTAAGTCATTGT
1 AATGTAAGTCATTGT
1069757 AATGTAAGTCATTGT
1 AATGTAAGTCATTGT
1069772 CTACACCAAA
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:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
AATGTAAGTCATTGT
Found at i:1069795 original size:59 final size:59
Alignment explanation
Indices: 1069698--1069816 Score: 148
Period size: 59 Copynumber: 2.0 Consensus size: 59
1069688 TGTCTACACA
* ** * * * ***
1069698 AATGTAAGTCATTGTCTATATTAATGTAAGTCATTGTCTGTGCAAATGTAAGTCATTGT
1 AATGTAAGTCATTGTCTACACCAAAGTAAATCAGTGTCTACACAAATGTAAGTCATTGT
*
1069757 AATGTAAGTCATTGTCTACACCAAAGTAAATCAGTGTCTACACCAATGTAAGTCATTGT
1 AATGTAAGTCATTGTCTACACCAAAGTAAATCAGTGTCTACACAAATGTAAGTCATTGT
1069816 A
1 A
1069817 TACAGCAATG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (59 bp):
AATGTAAGTCATTGTCTACACCAAAGTAAATCAGTGTCTACACAAATGTAAGTCATTGT
Found at i:1069811 original size:81 final size:81
Alignment explanation
Indices: 1069676--1069837 Score: 220
Period size: 81 Copynumber: 2.0 Consensus size: 81
1069666 TGTCTACCCA
* * * ** * **
1069676 AATGTAAGTCATTGTCTACACAAATGTAAGTCATTGTCTATATTAATGTAAGTCATTGTCT-GTG
1 AATGTAAGTCATTGTCTACACAAATGTAAATCAGTGTCTACACCAATGTAAGTCATTGTATACAG
1069740 CAAATGTAAGTCATTGT
66 C-AATGTAAGTCATTGT
1069757 AATGTAAGTCATTGTCTACACCAAA-GTAAATCAGTGTCTACACCAATGTAAGTCATTGTATACA
1 AATGTAAGTCATTGTCTACA-CAAATGTAAATCAGTGTCTACACCAATGTAAGTCATTGTATACA
1069821 GCAATGTAAGTCATTGT
65 GCAATGTAAGTCATTGT
1069838 CTACANNNNN
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
81 65 0.92
82 6 0.08
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (81 bp):
AATGTAAGTCATTGTCTACACAAATGTAAATCAGTGTCTACACCAATGTAAGTCATTGTATACAG
CAATGTAAGTCATTGT
Found at i:1070051 original size:2 final size:2
Alignment explanation
Indices: 1070044--1070137 Score: 147
Period size: 2 Copynumber: 47.0 Consensus size: 2
1070034 NNNNNNNNNN
*
1070044 CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT CT CT CT CT CT CAT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C-T
1070087 -T CT CAT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT C-T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1070128 CT CT CT CT CT
1 CT CT CT CT CT
1070138 AAAATCAAAA
Statistics
Matches: 86, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
1 2 0.02
2 82 0.95
3 2 0.02
ACGTcount: A:0.02, C:0.47, G:0.01, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1077069 original size:1 final size:1
Alignment explanation
Indices: 1077063--1077096 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
1077053 TCCCGCAGGG
*
1077063 TTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1077097 ACAAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:1077819 original size:3 final size:3
Alignment explanation
Indices: 1077787--1077838 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
1077777 AAAGGTTTAA
* * *
1077787 GAT GAT AAT G-T GAT GAC GAT GAT AAT GAT GAT GAT GAT GAT GAT -AT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1077833 GAT GAT
1 GAT GAT
1077839 ACTTCAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:1077897 original size:11 final size:10
Alignment explanation
Indices: 1077861--1077895 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1077851 TAATAAAGCA
* *
1077861 TTTTGGGGGA
1 TTTTTGGGGT
1077871 TTTTTGGGGT
1 TTTTTGGGGT
1077881 TTTTTGGGGT
1 TTTTTGGGGT
1077891 TTTTT
1 TTTTT
1077896 TGTCTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.37, T:0.60
Consensus pattern (10 bp):
TTTTTGGGGT
Found at i:1092868 original size:16 final size:16
Alignment explanation
Indices: 1092844--1092899 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
1092834 AACTGAAGTG
*
1092844 GGACAGACAGACAGAC
1 GGACGGACAGACAGAC
1092860 GGACGGACAGACAGAC
1 GGACGGACAGACAGAC
* *
1092876 GGACGGACGGACGGAC
1 GGACGGACAGACAGAC
*
1092892 TGACGGAC
1 GGACGGAC
1092900 GCAGAGGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.34, C:0.25, G:0.39, T:0.02
Consensus pattern (16 bp):
GGACGGACAGACAGAC
Found at i:1092869 original size:20 final size:20
Alignment explanation
Indices: 1092844--1092887 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1092834 AACTGAAGTG
1092844 GGACAGACAGACAGACGGAC
1 GGACAGACAGACAGACGGAC
*
1092864 GGACAGACAGACGGACGGAC
1 GGACAGACAGACAGACGGAC
1092884 GGAC
1 GGAC
1092888 GGACTGACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.25, G:0.39, T:0.00
Consensus pattern (20 bp):
GGACAGACAGACAGACGGAC
Found at i:1092870 original size:12 final size:12
Alignment explanation
Indices: 1092853--1092900 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
1092843 GGGACAGACA
1092853 GACAGACGGACG
1 GACAGACGGACG
*
1092865 GACAGACAGACG
1 GACAGACGGACG
*
1092877 GACGGACGGACG
1 GACAGACGGACG
*
1092889 GACTGACGGACG
1 GACAGACGGACG
1092901 CAGAGGAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.42, T:0.02
Consensus pattern (12 bp):
GACAGACGGACG
Found at i:1092880 original size:4 final size:4
Alignment explanation
Indices: 1092857--1092900 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
1092847 CAGACAGACA
* * *
1092857 GACG GACG GACA GACA GACG GACG GACG GACG GACT GACG GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
1092901 CAGAGGAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.43, T:0.02
Consensus pattern (4 bp):
GACG
Found at i:1093130 original size:2 final size:2
Alignment explanation
Indices: 1093123--1093174 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1093113 TCAATCGAAG
1093123 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1093165 TC TC TC TC TC
1 TC TC TC TC TC
1093175 GTGTGTGTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1101981 original size:2 final size:2
Alignment explanation
Indices: 1101974--1102018 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1101964 AAGTAATAAG
1101974 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1102016 CT C
1 CT C
1102019 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1102259 original size:2 final size:2
Alignment explanation
Indices: 1102252--1102323 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
1102242 NNNNNNNNNN
1102252 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1102294 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1102324 AATTTGATAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1105866 original size:41 final size:42
Alignment explanation
Indices: 1105790--1105870 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 42
1105780 TTCTCGAAAC
* *
1105790 GATTGGATGAATTTCAATCTTTTTTTAAAATTTAAAATTTTT
1 GATTGGATGAATTTCAATATTTTTTAAAAATTTAAAATTTTT
*
1105832 GATTGGATGAATTTTAA-ATTTTTTAAAAATTTAAAATTT
1 GATTGGATGAATTTCAATATTTTTTAAAAATTTAAAATTT
1105871 AATTAAATCG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 20 0.56
42 16 0.44
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (42 bp):
GATTGGATGAATTTCAATATTTTTTAAAAATTTAAAATTTTT
Found at i:1105993 original size:134 final size:134
Alignment explanation
Indices: 1105830--1107115 Score: 1621
Period size: 134 Copynumber: 9.7 Consensus size: 134
1105820 TTTAAAATTT
*
1105830 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTAAAATTTAATTAAATCGTGTTAGAATGACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
* * * *
1105895 CAGACTAATTTTAAAACATAATATCTTAGTTGCACTTACAATTCTGCGTCTGATGACCTCTTTCT
66 CAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
1105960 CGAA
131 CGAA
* * *
1105964 TTGATTGGATGAATTTTAAATTTTTTAAAAATTCTAAATTTAATTAAATCGTGTTATAATAACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
* * * * * * * * *
1106029 CAAACTAATTTAAAAACATAATATCTTAGTTGCACTTAGAATTCTGCGTTTGAAGACCTCTTTCT
66 CAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
1106094 CGAA
131 CGAA
** *
1106098 TTGATTGGATGAATTTTAAA-TTTTTCCAAATTTTAAATTTAATTAAATCGTGTTATAATGACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
* * * * *
1106162 CAGACTAATTTTAAAACATAATATCTTAGTTGCGCTTACAATTCTGCCTCTGGTGACATCTTTCC
66 CAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
*
1106227 CGAT
131 CGAA
* * *
1106231 TTGATTGGATGAATTTTTAATTTTTTTAAAATATTAAATTTAATTAAATCGTGTTAGAATGACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
*
1106296 CCGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
66 CAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
1106361 CGAA
131 CGAA
* *
1106365 TTGATTGTATGAATTTTAAATTTTTTTAAAAATTTTAAATTTGATTAAATCGTGTT-GAATTGAC
1 TTGATTGGATGAATTTTAAA-TTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAA-TGAC
* * * * * *
1106429 CTGAGACTAATTTTAAAACATAATATATAGGTTGTGCTTAC-ATATCTGCGTCTGATGACCTCTT
64 CTCAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAAT-TCTGCGTCTGATGACATCTT
1106493 TCTC--A
128 TCTCGAA
* ** * * *
1106498 TTGATTGGATAAATTTTAAATTTTTCGAGAATTTTAAATTTAATTAAATCTTGTTAAAATGACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
* * * *
1106563 CAAACTAATTTTAGAACATGGTATCTAAGTTGCGCTTACAATTCTGCGTCTAATGACATCTTT-T
66 CAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
*
1106627 GCAAA
131 -CGAA
* * *
1106632 ATGATTAGATAAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTT-GAATTGACC
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAA-TGACC
* * *
1106696 TAAGACAAATTTTAAAACATGATATCTAAGTTGCCCTTACAATTCTGCGTCTGATG--A-C---C
65 TCAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTC
1106755 TCGAA
130 TCGAA
* * * * * * *
1106760 TTGATTGGATGAATTTTAATTTTTTTGAAAAGTTTAGATTAAATGAAATCTTGTT-GAAATGACC
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAG-AATGACC
* * * *
1106824 TCATACTAATTTTTAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGATGACATTTTTC
65 TCAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTC
1106889 TCGAA
130 TCGAA
* ** *
1106894 TTGATTAGATGAA-TTTAAAAATTTT-AAAA----AAA-TTAATTAAATCGTGTTAAAATGACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
* * * * *
1106952 CAGATTAATTTTAAAACATGATATCTAAG--GTGCTTACAATTATGCTTCTGATGAAATCTTTCT
66 CAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
1107015 CGAA
131 CGAA
* *
1107019 TTGATTAGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTTAATCGTGTTTA-AATGACC
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTG-TTAGAATGACC
** *
1107083 TCATTCTAATTTTAAAACATGAGATCTAAGTTG
65 TCAGACTAATTTTAAAACATGATATCTAAGTTG
1107116 ATCATGATAC
Statistics
Matches: 1001, Mismatches: 122, Indels: 58
0.85 0.10 0.05
Matches are distributed among these distances:
125 45 0.04
126 10 0.01
127 51 0.05
128 107 0.11
129 3 0.00
130 1 0.00
131 5 0.00
132 138 0.14
133 154 0.15
134 393 0.39
135 94 0.09
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (134 bp):
TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
CAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
CGAA
Found at i:1106041 original size:176 final size:175
Alignment explanation
Indices: 1105699--1106043 Score: 380
Period size: 176 Copynumber: 2.0 Consensus size: 175
1105689 AATTTTTTGA
* * *
1105699 AAATCGTGTTGAATTGACCTGAGACTAATTTCAAAACATGATATCTAAGTTGCGCTTACAATATT
1 AAATCGTGTTGAATTGACCTCAGACTAATTTCAAAACATAATATCTAAGTTGCACTTACAATATT
* * *
1105764 GCATCTGATGATCTCTTTCTCGAAACGATTGGATGAATTTCAATCTTTTTTTAAAATTTAAAATT
66 GCATCTGATGACCTCTTTCTCGAAACGATTGGATGAATTTCAATATTTTTTAAAAATTTAAAATT
* * * * *** *
1105829 TTTGATTGGATGAATTTTAAATTTTTTAAAAATTTAAAATTTAATT
131 TTTAAATCGATG-ATTATAAATACCTCAAAAATTTAAAATTTAATT
* *
1105875 AAATCGTGTTAGAA-TGACCTCAGACTAATTTTAAAACATAATATCTTAGTTGCACTTACAAT-T
1 AAATCGTGTT-GAATTGACCTCAGACTAATTTCAAAACATAATATCTAAGTTGCACTTACAATAT
* ** *
1105938 CTGCGTCTGATGACCTCTTTCTCGAATTGATTGGATGAATTTTAA-ATTTTTTAAAAATTCT-AA
65 -TGCATCTGATGACCTCTTTCTCGAAACGATTGGATGAATTTCAATATTTTTTAAAAATT-TAAA
1106001 ATTTAATTAAATCG-TG-TTAT-AATAACCTCAAACTAATTTAAAA
128 ATTT--TTAAATCGATGATTATAAAT-ACCTCAAA--AATTTAAAA
1106044 ACATAATATC
Statistics
Matches: 141, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
173 3 0.02
174 7 0.05
175 19 0.13
176 104 0.74
177 8 0.06
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (175 bp):
AAATCGTGTTGAATTGACCTCAGACTAATTTCAAAACATAATATCTAAGTTGCACTTACAATATT
GCATCTGATGACCTCTTTCTCGAAACGATTGGATGAATTTCAATATTTTTTAAAAATTTAAAATT
TTTAAATCGATGATTATAAATACCTCAAAAATTTAAAATTTAATT
Found at i:1106306 original size:267 final size:266
Alignment explanation
Indices: 1105830--1107115 Score: 1585
Period size: 267 Copynumber: 4.9 Consensus size: 266
1105820 TTTAAAATTT
*
1105830 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTAAAATTTAATTAAATCGTGTTAGAATGACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTA-AATGACCT
* *
1105895 CAGACTAATTTTAAAACATAATATCTTAGTTGCACTTACAATTCTGCGTCTGATGACCTCTTTCT
65 CAGACTAATTTTAAAACATAATATCTTAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
* *
1105960 CGAATTGATTGGATGAATTTTAAATTTTTTAAAAATTCTAAATTTAATTAAATCGTGTTATAATA
130 CGAATTGATTGGATGAATTTTAAATTTTTTAAAAATT-TAAATTTAATTAAATCGTGTTAGAATG
* * * * * *
1106025 ACCTCAAACTAATTTAAAAACATAATATCTTAGTTGCACTTAGAATTCTGCGTTTGAAGACCTCT
194 ACCTCAAACTAATTTTAAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGAAGACATCT
1106090 TTCTCGAA
259 TTCTCGAA
**
1106098 TTGATTGGATGAATTTTAAA-TTTTTCCAAATTTTAAATTTAATTAAATCGTGTTATAATGACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTA-AATGACCT
* * *
1106162 CAGACTAATTTTAAAACATAATATCTTAGTTGCGCTTACAATTCTGCCTCTGGTGACATCTTTCC
65 CAGACTAATTTTAAAACATAATATCTTAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
* * *
1106227 CGATTTGATTGGATGAATTTTTAATTTTTTTAAAATATTAAATTTAATTAAATCGTGTTAGAATG
130 CGAATTGATTGGATGAATTTTAAATTTTTTAAAAAT-TTAAATTTAATTAAATCGTGTTAGAATG
** * *
1106292 ACCTCCGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCT
194 ACCTCAAACTAATTTTAAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGAAGACATCT
1106357 TTCTCGAA
259 TTCTCGAA
* * *
1106365 TTGATTGTATGAATTTTAAATTTTTTTAAAAATTTTAAATTTGATTAAATCGTGTTGAATTGACC
1 TTGATTGGATGAATTTTAAA-TTTTTTAAAAATTTTAAATTTAATTAAATCGTGTT-AAATGACC
* * * *
1106430 TGAGACTAATTTTAAAACATAATAT-ATAGGTTGTGCTTAC-ATATCTGCGTCTGATGACCTCTT
64 TCAGACTAATTTTAAAACATAATATCTTA-GTTGCGCTTACAAT-TCTGCGTCTGATGACATCTT
* * * * * *
1106493 TCTC--ATTGATTGGATAAATTTTAAATTTTTCGAGAATTTTAAATTTAATTAAATCTTGTTAAA
127 TCTCGAATTGATTGGATGAATTTTAAATTTTT-TAAAAATTTAAATTTAATTAAATCGTGTTAGA
* * *
1106556 ATGACCTCAAACTAATTTTAGAACATGGTATCTAAGTTGCGCTTACAATTCTGCGTCT-AATGAC
191 ATGACCTCAAACTAATTTTAAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGAA-GAC
*
1106620 ATCTTT-TGCAAA
255 ATCTTTCT-CGAA
* * * *
1106632 ATGATTAGATAAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTGAATTGACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTT-AAATGACCT
* * * * *
1106697 AAGACAAATTTTAAAACATGATATCTAAGTTGCCCTTACAATTCTGCGTCTGATG--A-C---CT
65 CAGACTAATTTTAAAACATAATATCTTAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
* * * * * *
1106756 CGAATTGATTGGATGAATTTTAATTTTTTTGAAAAGTTTAGATTAAATGAAATCTTGTT-GAAAT
130 CGAATTGATTGGATGAATTTTAAATTTTTT-AAAAATTTAAATTTAATTAAATCGTGTTAG-AAT
* * * *
1106820 GACCTCATACTAATTTTTAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGATGACATT
193 GACCTCAAACTAATTTTAAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGAAGACATC
1106885 TTTCTCGAA
258 TTTCTCGAA
* **
1106894 TTGATTAGATGAA-TTTAAAAATTTT-AAAA----AAA-TTAATTAAATCGTGTTAAAATGACCT
1 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTT-AAATGACCT
* * * * * * *
1106952 CAGATTAATTTTAAAACATGATATCTAAG--GTGCTTACAATTATGCTTCTGATGAAATCTTTCT
65 CAGACTAATTTTAAAACATAATATCTTAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
* *
1107015 CGAATTGATTAGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTTAATCGTGTTTA-AAT
130 CGAATTGATTGGATGAATTTTAAATTTTTTAAAAA-TTTAAATTTAATTAAATCGTG-TTAGAAT
** *
1107079 GACCTCATTCTAATTTTAAAACATGAGATCTAAGTTG
193 GACCTCAAACTAATTTTAAAACATGATATCTAAGTTG
1107116 ATCATGATAC
Statistics
Matches: 887, Mismatches: 105, Indels: 61
0.84 0.10 0.06
Matches are distributed among these distances:
253 20 0.02
255 51 0.06
256 4 0.00
258 4 0.00
259 83 0.09
260 9 0.01
261 10 0.01
262 123 0.14
263 3 0.00
266 89 0.10
267 371 0.42
268 28 0.03
269 91 0.10
270 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (266 bp):
TTGATTGGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAAATGACCTC
AGACTAATTTTAAAACATAATATCTTAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCTC
GAATTGATTGGATGAATTTTAAATTTTTTAAAAATTTAAATTTAATTAAATCGTGTTAGAATGAC
CTCAAACTAATTTTAAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGAAGACATCTTT
CTCGAA
Found at i:1106412 original size:19 final size:19
Alignment explanation
Indices: 1106376--1106413 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1106366 TGATTGTATG
**
1106376 AATTTTAAATTTTTTTAAA
1 AATTTTAAATTTGATTAAA
1106395 AATTTTAAATTTGATTAAA
1 AATTTTAAATTTGATTAAA
1106414 TCGTGTTGAA
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:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
AATTTTAAATTTGATTAAA
Found at i:1106572 original size:401 final size:399
Alignment explanation
Indices: 1105830--1107115 Score: 1685
Period size: 401 Copynumber: 3.2 Consensus size: 399
1105820 TTTAAAATTT
* *
1105830 TTGATTGGATGAATTTTAAATTTTTTAAAAATTTAAAATTTAATTAAATCGTGTTAGAATGACCT
1 TTGATTAGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
* * *
1105895 CAGACTAATTTTAAAACATAATATCTTAGTTGCACTTACAATTCTGCGTCTGATGACCTCTTTCT
66 CAGACTAATTTTAAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGATGACATCTTTCT
*
1105960 CGAATTGATTGGATGAATTTTAAA-TTTTTTAAAAATTCTAAATTTAATTAAATCGTGTT-ATAA
131 CGAATTGATTGGATGAATTTTAAATTTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTGA-AA
* * * * * *
1106023 TAACCTCAAACTAATTTAAAAACATAATATCTTAGTTGCACTTAGAATTCTGCGTTTGAAGACCT
195 TGACCTCAAACTAATTTTAAAACATAATAT-ATAGTTGCACTTACAATTCTGCGTCTGATGACCT
1106088 CTTTCTCGAATTGATTGGATGAATTTTAAATTTTTCCAAATTTTAAATTTAATTAAATCGTGTTA
259 CTTTCTC-AATTGATTGGATGAATTTTAAATTTTT-CAAATTTTAAATTTAATTAAATCGTGTTA
* * * *
1106153 TAATGACCTCAGACTAATTTTAAAACATAATATCTTAGTTGCGCTTACAATTCTGCCTCTGGTGA
322 AAATGACCTCAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCCTCTGATGA
*
1106218 CATCTTTCCCGAT
387 CATCTTTCCCGAA
* * * *
1106231 TTGATTGGATGAATTTTTAATTTTTTTAAAATATTAAATTTAATTAAATCGTGTTAGAATGACCT
1 TTGATTAGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
* *
1106296 CCGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCGTCTGATGACATCTTTCT
66 CAGACTAATTTTAAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGATGACATCTTTCT
* * *
1106361 CGAATTGATTGTATGAATTTTAAATTTTTTTAAAAATTTTAAATTTGATTAAATCGTGTTGAATT
131 CGAATTGATTGGATGAATTTTAAATTTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTGAAAT
* * **
1106426 GACCTGAGACTAATTTTAAAACATAATATATAGGTTGTGCTTAC-ATATCTGCGTCTGATGACCT
196 GACCTCAAACTAATTTTAAAACATAATATATA-GTTGCACTTACAAT-TCTGCGTCTGATGACCT
* *
1106490 CTTTCTC-ATTGATTGGATAAATTTTAAATTTTTCGAGAATTTTAAATTTAATTAAATCTTGTTA
259 CTTTCTCAATTGATTGGATGAATTTTAAATTTTTC-A-AATTTTAAATTTAATTAAATCGTGTTA
* * * * *
1106554 AAATGACCTCAAACTAATTTTAGAACATGGTATCTAAGTTGCGCTTACAATTCTGCGTCTAATGA
322 AAATGACCTCAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCCTCTGATGA
** *
1106619 CATCTTTTGCAAA
387 CATCTTTCCCGAA
* *
1106632 ATGATTAGATAAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTT-GAATTGACC
1 TTGATTAGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAA-TGACC
* * *
1106696 TAAGACAAATTTTAAAACATGATATCTAAGTTGCCCTTACAATTCTGCGTCTGATG--A-C---C
65 TCAGACTAATTTTAAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGATGACATCTTTC
* * * * * *
1106755 TCGAATTGATTGGATGAATTTT-AATTTTTTTGAAAAGTTTAGATTAAATGAAATCTTGTTGAAA
130 TCGAATTGATTGGATGAATTTTAAATTTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTGAAA
* * * * *
1106819 TGACCTCATACTAATTTTTAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGATGACAT
195 TGACCTCAAACTAATTTTAAAACATAATATAT-AGTTGCACTTACAATTCTGCGTCTGATGACCT
* * * * *
1106884 TTTTCTCGAATTGATTAGATGAATTTAAAAATTTT-AAA----AAAATTAATTAAATCGTGTTAA
259 CTTTCTC-AATTGATTGGATGAATTTTAAATTTTTCAAATTTTAAATTTAATTAAATCGTGTTAA
* * * * *
1106944 AATGACCTCAGATTAATTTTAAAACATGATATCTAAG--GTGCTTACAATTATGCTTCTGATGAA
323 AATGACCTCAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCCTCTGATGAC
*
1107007 ATCTTTCTCGAA
388 ATCTTTCCCGAA
*
1107019 TTGATTAGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTTAATCGTGTTTA-AATGACC
1 TTGATTAGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTG-TTAGAATGACC
** *
1107083 TCATTCTAATTTTAAAACATGAGATCTAAGTTG
65 TCAGACTAATTTTAAAACATGATATCTAAGTTG
1107116 ATCATGATAC
Statistics
Matches: 780, Mismatches: 92, Indels: 40
0.86 0.10 0.04
Matches are distributed among these distances:
387 113 0.14
388 4 0.01
389 53 0.07
393 2 0.00
394 93 0.12
395 25 0.03
396 22 0.03
398 1 0.00
399 2 0.00
400 29 0.04
401 345 0.44
402 90 0.12
403 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (399 bp):
TTGATTAGATGAATTTTAAATTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTAGAATGACCT
CAGACTAATTTTAAAACATGATATCTAAGTTGCACTTACAATTCTGCGTCTGATGACATCTTTCT
CGAATTGATTGGATGAATTTTAAATTTTTTTAAAAATTTTAAATTTAATTAAATCGTGTTGAAAT
GACCTCAAACTAATTTTAAAACATAATATATAGTTGCACTTACAATTCTGCGTCTGATGACCTCT
TTCTCAATTGATTGGATGAATTTTAAATTTTTCAAATTTTAAATTTAATTAAATCGTGTTAAAAT
GACCTCAGACTAATTTTAAAACATGATATCTAAGTTGCGCTTACAATTCTGCCTCTGATGACATC
TTTCCCGAA
Found at i:1109030 original size:63 final size:64
Alignment explanation
Indices: 1108962--1109091 Score: 210
Period size: 64 Copynumber: 2.0 Consensus size: 64
1108952 TCGTGTCTTG
* **
1108962 TTAAGGTCTTCCG-TTTCCAACGGAAGACCTTATTGTTTTTGCT-TTGTTTCTTTTTCCCTATTA
1 TTAAGGTCTTCCGTTTTCCAACGGAAGACCTTATTGTTTTCG-TACGGTTTCTTTTTCCCTATTA
1109025 TTAAGGTCTTCCGTTTTCCAACGGAAGACCTTATTGTTTTCGTACGGTTTCTTTTTCCCTATTA
1 TTAAGGTCTTCCGTTTTCCAACGGAAGACCTTATTGTTTTCGTACGGTTTCTTTTTCCCTATTA
1109089 TTA
1 TTA
1109092 TTATTTTTCT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
63 14 0.23
64 48 0.77
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.48
Consensus pattern (64 bp):
TTAAGGTCTTCCGTTTTCCAACGGAAGACCTTATTGTTTTCGTACGGTTTCTTTTTCCCTATTA
Found at i:1110335 original size:436 final size:437
Alignment explanation
Indices: 1109516--1110937 Score: 2152
Period size: 433 Copynumber: 3.3 Consensus size: 437
1109506 AAATTTATAT
* *** * *
1109516 TTAAAAGACCTTTCATTTGATATCAAGAAAAAGGGGCTGGTTTCTCAAATTAGGGGACAAAAGGG
1 TTAAATGACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAATAAGGGGACCAAAGGG
* * * *
1109581 C-CCTAAAGTCTTTCATCTGTAGCCGTTTACTGGGAGATATTTTGTGAAATGTTATAGAAGCAAA
66 CTCC-AAAGTCTTTCATCTGTAGCCCTTTACCGAGAGATATTTTGTGAAAGGTTATAGAAGCAAA
* * ** * * **
1109645 TGTGTTTATCTCACAGTAAAATATAT-AAGTAATGTAATTATTTTATT-ATGTGTTACGTAATTA
130 TGTGTTTATCTTACAGTTATGTAT-TCAAGCAATGTAATGATTTT-TTCATGTGTTTTGTAATTA
* * ** * *
1109708 AGGGTTTATAGGGGCCAAAAGTCCAAAATTTTGATCACCCATATCTCAGAAAGGAGAAATATTTT
193 GGGGTTTTTAGGGGCCAAAAGTCCAAAATTTTGATCACTTATATCTCAGAAAGGAAAAATACTTT
* * * *
1109773 GTAATGCAGTACAGAAAAAAAGATGTTTAAAATTATGTTCTTAACAGTATGCAACCTTCAAAATT
258 GAAATGCAGTACAGAAGAAAAGTTGTTCAAAATTATGTTCTTAACAGTATGCAACCTTCAAAATT
* * * *
1109838 TCGCCAAACGGCCCCTATAAGGAGATAAGGGATTGGCCCTTAAAACCATCTTTCTCATATATCTC
323 TCGTCAAACGGCCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACCTTCTTTCTCATATATCTC
1109903 CAGAACGGTAAGAAATTTCTAAAAACTTGTTGAACAAAATGTGTTCAGAA
388 CAGAACGGTAAGAAATTTCTAAAAACTTGTTGAACAAAATGTGTTCAGAA
*
1109953 TTAAATGACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAGTAAGGGGACCAAAGGG
1 TTAAATGACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAATAAGGGGACCAAAGGG
1110018 CTCCAAAGTCTTTCATCTGTAGCCCTTTACCGAGAGATATTTTGTG-AAGGTTATAGAAGCAAAT
66 CTCCAAAGTCTTTCATCTGTAGCCCTTTACCGAGAGATATTTTGTGAAAGGTTATAGAAGCAAAT
*
1110082 GTGTTTATCTTATAGTTATGTATTCAAGCAATGTAATGATTTTTTCATGTGTTTTGTAATTAGGG
131 GTGTTTATCTTACAGTTATGTATTCAAGCAATGTAATGATTTTTTCATGTGTTTTGTAATTAGGG
1110147 GTTTTTAGGGGCCAAAAGTCCAAAATTTTGATCACTTATATCTCAGAAAGGAAAAATACTTTGAA
196 GTTTTTAGGGGCCAAAAGTCCAAAATTTTGATCACTTATATCTCAGAAAGGAAAAATACTTTGAA
1110212 ATGCAGTACAGAAGAAAAGTTGTTCAAAATTATGTTCTTAACAGTATGCAACCTTCAAAATTTCG
261 ATGCAGTACAGAAGAAAAGTTGTTCAAAATTATGTTCTTAACAGTATGCAACCTTCAAAATTTCG
1110277 TCAAACGGCCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACCTTCTTTCTCATATATCTCCAG
326 TCAAACGGCCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACCTTCTTTCTCATATATCTCCAG
1110342 AACGGTAAGAAATTT-TAAAAACTTGTTGAACAAAATGTGTTCAGAA
391 AACGGTAAGAAATTTCTAAAAACTTGTTGAACAAAATGTGTTCAGAA
* *
1110388 TTAAATGACCTTTCATTTGATATCAAGAAAAAGGGGCTGACCCCTCAAATAAGGGG--C-GAGGG
1 TTAAATGACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAATAAGGGGACCAAAGGG
* * *
1110450 CTCCAAAGTCTTTTATTTGTAGCCCTTTACCGAGAGATATTTTGTGCAAGGTTATAGAAGCAAAT
66 CTCCAAAGTCTTTCATCTGTAGCCCTTTACCGAGAGATATTTTGTGAAAGGTTATAGAAGCAAAT
* * * *
1110515 ATGTTTATCTTAGAGTTATGTATTCAAGCAATGTAATGATTTTATCATGTGATTTGTAATTAGGG
131 GTGTTTATCTTACAGTTATGTATTCAAGCAATGTAATGATTTTTTCATGTGTTTTGTAATTAGGG
1110580 GTTTTTAGGGGCCAAAAGTCCAAAATTTTGATCACTTATATCTCAGAAAGGAAAAATACTTTGAA
196 GTTTTTAGGGGCCAAAAGTCCAAAATTTTGATCACTTATATCTCAGAAAGGAAAAATACTTTGAA
1110645 ATGCAGTACAGAAGAAAAGTTGTTCAAAATTATGTTCTTAACAGTATGCAACCTTCAAAATTTCG
261 ATGCAGTACAGAAGAAAAGTTGTTCAAAATTATGTTCTTAACAGTATGCAACCTTCAAAATTTCG
1110710 TCAAACGGCCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACCTTCTTTCTCATATATCTCCAG
326 TCAAACGGCCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACCTTCTTTCTCATATATCTCCAG
* *
1110775 AACGGTAACG-AATTTCTAAACACTTGTTG-ACAAAATGTATTCAGAA
391 AACGGTAA-GAAATTTCTAAAAACTTGTTGAACAAAATGTGTTCAGAA
* * * * * * *
1110821 TTAAATGTCCTTTCATTTGAT-TCCAAGAAAGAGGGACTGGCCCCTTAAATTAGGGGATCACA--
1 TTAAATGACCTTTCATTTGATAT-CAAGAAAAAGGGGCTGGCCCCTCAAATAAGGGGACCAAAGG
** * * ** **
1110883 GCTATAAAATC-TTCTATCTATAGCCCTTTAATGAGAGCCATTTTGTGAAAGGTTA
65 GCTCCAAAGTCTTTC-ATCTGTAGCCCTTTACCGAGAGATATTTTGTGAAAGGTTA
1110938 ATAAAGCTAG
Statistics
Matches: 911, Mismatches: 63, Indels: 25
0.91 0.06 0.03
Matches are distributed among these distances:
432 49 0.05
433 354 0.39
434 54 0.06
435 89 0.10
436 265 0.29
437 98 0.11
438 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (437 bp):
TTAAATGACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAATAAGGGGACCAAAGGG
CTCCAAAGTCTTTCATCTGTAGCCCTTTACCGAGAGATATTTTGTGAAAGGTTATAGAAGCAAAT
GTGTTTATCTTACAGTTATGTATTCAAGCAATGTAATGATTTTTTCATGTGTTTTGTAATTAGGG
GTTTTTAGGGGCCAAAAGTCCAAAATTTTGATCACTTATATCTCAGAAAGGAAAAATACTTTGAA
ATGCAGTACAGAAGAAAAGTTGTTCAAAATTATGTTCTTAACAGTATGCAACCTTCAAAATTTCG
TCAAACGGCCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACCTTCTTTCTCATATATCTCCAG
AACGGTAAGAAATTTCTAAAAACTTGTTGAACAAAATGTGTTCAGAA
Found at i:1111334 original size:53 final size:53
Alignment explanation
Indices: 1111254--1111362 Score: 193
Period size: 53 Copynumber: 2.1 Consensus size: 53
1111244 TCCTGTCTAG
1111254 TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTCT-TCGGTTTCTTT
1 TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTCTAT-GGTTTCTTT
*
1111307 TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTCTATTGTTTCTTT
1 TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTCTATGGTTTCTTT
1111360 TTA
1 TTA
1111363 TTATTATTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 53 0.98
54 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (53 bp):
TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTCTATGGTTTCTTT
Done.