Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3719443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 18
Found at i:2159053 original size:36 final size:36
Alignment explanation
Indices: 2158953--2159053 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 36
2158943 TTCTGGTGGG
** * * *
2158953 ATGCCTGGAGGTTTTCCCGGAGGTATGCCCGGAGGT
1 ATGCCTGGAGGCATGCCCAGAGGCATGCCCGGAGGT
* ** *
2158989 ATGCCTGGAGGTATGCCTGGAGTCATGCCCGGAGGT
1 ATGCCTGGAGGCATGCCCAGAGGCATGCCCGGAGGT
* *
2159025 ATGCCTGGAGGCATGCCCAGTGGGATGCC
1 ATGCCTGGAGGCATGCCCAGAGGCATGCC
2159054 TGGAAATGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.16, C:0.24, G:0.39, T:0.22
Consensus pattern (36 bp):
ATGCCTGGAGGCATGCCCAGAGGCATGCCCGGAGGT
Found at i:2163603 original size:3 final size:3
Alignment explanation
Indices: 2163597--2163641 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2163587 AATAATGACA
2163597 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2163642 GTCTTTATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2168182 original size:41 final size:37
Alignment explanation
Indices: 2168137--2168244 Score: 92
Period size: 41 Copynumber: 2.8 Consensus size: 37
2168127 TATCATTTCA
2168137 AATATTTTAAATTAAAAATATATATTATATCTTTAAGTTTG
1 AATATTTTAAATTAAAAATATATATTATAT-TTT-A--TTG
* * * *
2168178 AATA-TTAAAAGATATATATATATATATATATTTTATTG
1 AATATTTTAAA-TTAAAAATATATAT-TATATTTTATTG
* *
2168216 AATATTTTACATTAAAATATATTTATTAT
1 AATATTTTAAATTAAAA-ATATATATTAT
2168245 CTATTTAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
38 13 0.25
39 11 0.21
40 6 0.11
41 18 0.34
42 5 0.09
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (37 bp):
AATATTTTAAATTAAAAATATATATTATATTTTATTG
Found at i:2168198 original size:69 final size:69
Alignment explanation
Indices: 2168001--2168200 Score: 192
Period size: 69 Copynumber: 2.9 Consensus size: 69
2167991 GTGAACTTTG
* * * * *
2168001 AATATTTCAAAAT-AAAAGATAT-TTATCTCTTTAA-TTTGAATATTAGTAGGATAATTATATTA
1 AATATTTTAAAATAAAAATATATATTATCTCTTTAAGTTTGAATATTA-AAAGATAATTATATCA
**
2168063 TTTTG
65 TTTCA
* * * * * * *
2168068 AATATTGTAAACTAAAAGGTATTTATTATCTATTT-AGTTTAAATATTAAAAGTTAATTATATCA
1 AATATTTTAAAATAAAA-ATATATATTATCTCTTTAAGTTTGAATATTAAAAGATAATTATATCA
2168132 TTTCA
65 TTTCA
* *
2168137 AATATTTTAAATTAAAAATATATATTATATCTTTAAGTTTGAATATTAAAAGATATATATATAT
1 AATATTTTAAAATAAAAATATATATTATCTCTTTAAGTTTGAATATTAAAAGATA-AT-TATAT
2168201 ATATATATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
67 10 0.10
68 16 0.15
69 52 0.50
70 21 0.20
71 5 0.05
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (69 bp):
AATATTTTAAAATAAAAATATATATTATCTCTTTAAGTTTGAATATTAAAAGATAATTATATCAT
TTCA
Found at i:2169758 original size:20 final size:20
Alignment explanation
Indices: 2169735--2169821 Score: 113
Period size: 20 Copynumber: 4.3 Consensus size: 20
2169725 ATGTAAATCA
2169735 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
* **
2169755 CAACTCGATAAT-ACATAATCG
1 CAACGCGATTCTGAC-T-ATCG
2169776 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
*
2169796 CAACGCGATTCTGACTGTCG
1 CAACGCGATTCTGACTATCG
2169816 CAACGC
1 CAACGC
2169822 TGAATTTCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
19 2 0.04
20 39 0.68
21 14 0.25
22 2 0.04
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (20 bp):
CAACGCGATTCTGACTATCG
Found at i:2170667 original size:24 final size:24
Alignment explanation
Indices: 2170640--2170693 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2170630 GTATTCAAAA
2170640 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2170664 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2170688 TTTGAT
1 TTTGAT
2170694 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2170912 original size:14 final size:14
Alignment explanation
Indices: 2170883--2170919 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2170873 AGAAAAAGAA
2170883 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
2170898 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
2170912 GAAGAAAA
1 GAAGAAAA
2170920 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:2173308 original size:20 final size:20
Alignment explanation
Indices: 2173283--2173491 Score: 168
Period size: 20 Copynumber: 11.4 Consensus size: 20
2173273 TTACAGATTC
* *
2173283 ATTTGAATATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
*
2173303 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
2173323 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* *
2173342 A----A-AATAGCAACGCGA
1 ATTTGACTATCGCAACGCGA
2173357 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
*
2173376 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
2173391 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
2173411 ATTTGATTATTGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
2173431 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
2173451 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
2173465 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
2173485 A-TTGACT
1 ATTTGACT
2173492 TTCATTTCGA
Statistics
Matches: 149, Mismatches: 22, Indels: 37
0.72 0.11 0.18
Matches are distributed among these distances:
14 29 0.19
15 6 0.04
16 1 0.01
18 1 0.01
19 11 0.07
20 101 0.68
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:2173352 original size:34 final size:34
Alignment explanation
Indices: 2173311--2173482 Score: 202
Period size: 34 Copynumber: 4.9 Consensus size: 34
2173301 AAATTTGACT
*
2173311 ATCGCAACGTGAATTTGACTATCGCAACGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCAAAA
*
2173345 ATAGCAACGCGAATTTGACTATCGCAACGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCAAAA
*
2173379 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAATTTGACTATCGCAACGC-AA----A-A
* *
2173419 ATTGCAACGGGAATTTGACTATCGCAACG-AGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCA-AAA
* * *
2173453 ATCGCAAAGCGTATTAGACTATCGCAACGC
1 ATCGCAACGCGAATTTGACTATCGCAACGC
2173483 GAATTGACTT
Statistics
Matches: 118, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
34 85 0.72
35 3 0.03
38 1 0.01
39 2 0.02
40 27 0.23
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (34 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCAAAA
Found at i:2173427 original size:74 final size:71
Alignment explanation
Indices: 2173311--2173487 Score: 227
Period size: 74 Copynumber: 2.5 Consensus size: 71
2173301 AAATTTGACT
*
2173311 ATCGCAACGTGAATTTGACTATCGCAACGC-AA--AAATAGCAACGCGAATTTGACTATCGCAAC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTAAATAGCAACGCGAATTTGACTATCGCAAC
2173373 GCA-AAA
66 G-AGAAA
* * *
2173379 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATTGCAACGGGAATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAA-TT-A-AATAGCAACGCGAATTTGACTATCGC
2173444 AACGAGAAA
63 AACGAGAAA
* * *
2173453 ATCGCAAAGCGTATTAGACTATCGCAACGCGAATT
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATT
2173488 GACTTTCATT
Statistics
Matches: 95, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
68 29 0.31
69 2 0.02
73 4 0.04
74 60 0.63
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (71 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTAAATAGCAACGCGAATTTGACTATCGCAAC
GAGAAA
Found at i:2173457 original size:54 final size:54
Alignment explanation
Indices: 2173291--2173491 Score: 176
Period size: 54 Copynumber: 3.7 Consensus size: 54
2173281 TCATTTGAAT
* *
2173291 ATCGCAACGCAAATTTGACTATCGCAACGTGAATTTGACTATCGCAACGCA-AAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACG-AGAAA
* * * * * *** **
2173345 ATAGCAACGCGAATTTGACTATCGCAACGCAAAAATCG-C-AACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACTATCGCAACG-AGAATTTGACTATCGC-AACGAGAAA
* * *
2173399 ATCGCAACGCGAATTTGATTATTGCAACGGGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACGAGAAA
* * * *
2173453 ATCGCAAAGCGTATTAGACTATCGCAACGCGAA-TTGACT
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAATTTGACT
2173492 TTCATTTCGA
Statistics
Matches: 111, Mismatches: 31, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
53 14 0.13
54 89 0.80
55 8 0.07
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACGAGAAA
Found at i:2173473 original size:108 final size:108
Alignment explanation
Indices: 2173283--2173482 Score: 303
Period size: 108 Copynumber: 1.9 Consensus size: 108
2173273 TTACAGATTC
*
2173283 ATTTGAATATCGCAACGCAAATTTGACTATCGCAACGTGAATTTGACTATCGCAACGCAAAAATA
1 ATTTGAATATCGCAACGCAAATTTGACTATCGCAACGGGAATTTGACTATCGCAACGCAAAAATA
* *
2173348 GCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGA
66 GCAAAGCGAATTAGACTATCGCAACGCAAAAATCGCAACGCGA
* * * *
2173391 ATTTGACTATCGCAACGCGAATTTGATTATTGCAACGGGAATTTGACTATCGCAACG-AGAAAAT
1 ATTTGAATATCGCAACGCAAATTTGACTATCGCAACGGGAATTTGACTATCGCAACGCA-AAAAT
* *
2173455 CGCAAAGCGTATTAGACTATCGCAACGC
65 AGCAAAGCGAATTAGACTATCGCAACGC
2173483 GAATTGACTT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 1 0.01
108 81 0.99
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (108 bp):
ATTTGAATATCGCAACGCAAATTTGACTATCGCAACGGGAATTTGACTATCGCAACGCAAAAATA
GCAAAGCGAATTAGACTATCGCAACGCAAAAATCGCAACGCGA
Found at i:2175124 original size:42 final size:42
Alignment explanation
Indices: 2175065--2175187 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 42
2175055 GTGAATCGGG
* * *
2175065 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTAGGAGGGACCTCTTGAACGATGACAGGGGC
** *
2175107 CTCTTGAACGGTAGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTAGGA-GGGACCTCTTGAACGATGACAGGGGC
*
2175149 CTCTTGAACGATAGGAGAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAACGGTAGGAG-GGACCTCTTGAACGATGACAGG
2175188 TGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 63 0.93
43 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTAGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:2175125 original size:21 final size:21
Alignment explanation
Indices: 2175065--2175179 Score: 83
Period size: 21 Copynumber: 5.5 Consensus size: 21
2175055 GTGAATCGGG
* * *
2175065 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTAGGAGGGGC
* * *
2175086 CTCTTCAACGAT-GACAGGGGC
1 CTCTTGAACGGTAG-GAGGGGC
*
2175107 CTCTTGAACGGTAGGAGGGGA
1 CTCTTGAACGGTAGGAGGGGC
* *
2175128 CTCTTG-A-GGGATGATAGGGGC
1 CTCTTGAACGGTA-G-GAGGGGC
* *
2175149 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTAGGAGGGGC
2175170 CTCTTGAACG
1 CTCTTGAACG
2175180 ATGACAGGTG
Statistics
Matches: 72, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
19 3 0.04
20 3 0.04
21 61 0.85
22 3 0.04
23 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTAGGAGGGGC
Found at i:2175180 original size:21 final size:21
Alignment explanation
Indices: 2175078--2175181 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
2175068 TTGAATGGTG
* *
2175078 GGAGGGACCTCTTCAACGAT-
1 GGAGGGGCCTCTTGAACGATA
* *
2175098 GACAGGGGCCTCTTGAACGGTA
1 G-GAGGGGCCTCTTGAACGATA
* **
2175120 GGAGGGGACTCTTGAGGGAT-
1 GGAGGGGCCTCTTGAACGATA
*
2175140 GATAGGGGCCTCTTGAACGATA
1 G-GAGGGGCCTCTTGAACGATA
*
2175162 GGAGAGGCCTCTTGAACGAT
1 GGAGGGGCCTCTTGAACGAT
2175182 GACAGGTGAG
Statistics
Matches: 65, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.03
21 61 0.94
22 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.20
Consensus pattern (21 bp):
GGAGGGGCCTCTTGAACGATA
Found at i:2175703 original size:20 final size:20
Alignment explanation
Indices: 2175661--2175704 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2175651 AATAGTTTAT
**
2175661 GAAACTTAAAATCGTAACAC
1 GAAACTTAAAATCACAACAC
*
2175681 GAAACTTAAAATCACAACGC
1 GAAACTTAAAATCACAACAC
2175701 GAAA
1 GAAA
2175705 ATGACTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCACAACAC
Found at i:2175722 original size:20 final size:20
Alignment explanation
Indices: 2175699--2175737 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2175689 AAATCACAAC
*
2175699 GCGAAAATGACTATTGCAAT
1 GCGAAAATGACTATCGCAAT
**
2175719 GCGAATTTGACTATCGCAA
1 GCGAAAATGACTATCGCAA
2175738 CAAGATAATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:2175806 original size:19 final size:19
Alignment explanation
Indices: 2175744--2175806 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
2175734 GCAACAAGAT
*
2175744 AATCGCAATGCGAAA-TAAA
1 AATCGCAACGCGAAACT-AA
*
2175763 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACTAA
2175782 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
2175801 ATTCGC
1 AATCGC
2175807 GTTGCGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.46, C:0.25, G:0.16, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:2175831 original size:20 final size:20
Alignment explanation
Indices: 2175802--2175840 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2175792 CGAAACTAAA
*
2175802 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCATT
2175822 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
2175841 GTTGCGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.49
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:2175878 original size:33 final size:34
Alignment explanation
Indices: 2175806--2175881 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
2175796 ACTAAATTCG
*
2175806 CGTTGCGATTTTCATTTTCGCATTGCGATTTTCA
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
* * *
2175840 TGTTGCGATTTTTATTTT-GCATTGCGATTATCC
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
2175873 CGTTGCGAT
1 CGTTGCGAT
2175882 AGTCAAATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.47
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
Found at i:2175898 original size:20 final size:20
Alignment explanation
Indices: 2175873--2175941 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
2175863 GCGATTATCC
*
2175873 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
2175893 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
*
2175913 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
*
2175933 TGTTGCGAT
1 CGTTGCGAT
2175942 TTTAAGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:2177858 original size:20 final size:20
Alignment explanation
Indices: 2177835--2177921 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 20
2177825 TCTGAAACTT
2177835 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
2177855 AAAATCGTAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
2177875 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** * *
2177895 ACTATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
2177914 AAAATCGC
1 AAAATCGC
2177922 GTTGCGATTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 6 0.11
20 50 0.89
ACGTcount: A:0.45, C:0.23, G:0.16, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:2178342 original size:22 final size:22
Alignment explanation
Indices: 2178315--2178361 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2178305 GAGATAGATG
*
2178315 GATTTCATCGGAGATGAGGACA
1 GATTTCATAGGAGATGAGGACA
* * *
2178337 GATTTCGTAGGAGATGGGGATA
1 GATTTCATAGGAGATGAGGACA
2178359 GAT
1 GAT
2178362 GTCACCGTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.36, T:0.26
Consensus pattern (22 bp):
GATTTCATAGGAGATGAGGACA
Found at i:2178559 original size:20 final size:20
Alignment explanation
Indices: 2178536--2178659 Score: 151
Period size: 20 Copynumber: 6.2 Consensus size: 20
2178526 TTATCGCAAC
2178536 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
2178556 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
*
2178576 GCGATAGTTAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
* * * *
2178596 GCGAT-TTACATATTCGCATT
1 GCGATAGT-CAGAATCGCGTT
* * *
2178616 GCGATAGTCAAAATCACATT
1 GCGATAGTCAGAATCGCGTT
*
2178636 GCGATAGTCAAAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
2178656 GCGA
1 GCGA
2178660 ATCTGGAAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
19 1 0.01
20 88 0.98
21 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:2178709 original size:19 final size:19
Alignment explanation
Indices: 2178685--2178721 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2178675 TGCGATACTG
*
2178685 GAGATCACGTTGCGATTTA
1 GAGATCACATTGCGATTTA
*
2178704 GAGATCGCATTGCGATTT
1 GAGATCACATTGCGATTT
2178722 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCACATTGCGATTTA
Found at i:2179293 original size:34 final size:33
Alignment explanation
Indices: 2179255--2179366 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 33
2179245 CCAATGAAAT
2179255 ATCTTTTAATATTCAAATTTAAACATATAATAAA
1 ATCTTTTAATATTCAAATTTAAA-ATATAATAAA
* *
2179289 ATCTTTTAAT-TTGAATATTTAAAAGTAT-ATAATT
1 ATCTTTTAATATTCAA-ATTTAAAA-TATAATAA-A
* *
2179323 ATC-TTTAATATTCAAAGTTAAATAGATAATAAA
1 ATCTTTTAATATTCAAATTTAAA-ATATAATAAA
*
2179356 TAACTTTTAAT
1 -ATCTTTTAAT
2179367 TTGACATATT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
33 23 0.37
34 34 0.54
35 6 0.10
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (33 bp):
ATCTTTTAATATTCAAATTTAAAATATAATAAA
Found at i:2179331 original size:67 final size:65
Alignment explanation
Indices: 2179254--2179416 Score: 195
Period size: 67 Copynumber: 2.4 Consensus size: 65
2179244 TCCAATGAAA
* *
2179254 TATCTTTTAATATTCAAATTTAAACATATAATAAA-ATCTTTTAATTTGA-ATATTTAAAAGTAT
1 TATC-TTTAATATTCAAA-TTAAAAATATAATAAATAACTTTTAATTTGACATATTT-AAAG-A-
2179317 ATAAT
61 ATAAT
* *
2179322 TATCTTTAATATTCAAAGTTAAATAGATAATAAATAACTTTTAATTTGACATATTTAAAGAATAA
1 TATCTTTAATATTCAAA-TTAAAAATATAATAAATAACTTTTAATTTGACATATTTAAAGAATAA
2179387 T
65 T
*
2179388 TATCCTACTAATATTCAAATTAAAAATAT
1 TAT-CT-TTAATATTCAAATTAAAAATAT
2179417 CTTTAATTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
66 8 0.10
67 38 0.45
68 32 0.38
69 6 0.07
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (65 bp):
TATCTTTAATATTCAAATTAAAAATATAATAAATAACTTTTAATTTGACATATTTAAAGAATAAT
Found at i:2180635 original size:3 final size:3
Alignment explanation
Indices: 2180627--2180679 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
2180617 TGTCCCGGTT
* *
2180627 TTA TTA TTA TTA TTA -TA ATA TTA TTA -TA TT- TT- TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2180671 TTA TTA TTA
1 TTA TTA TTA
2180680 CAACCAGGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2186140 original size:15 final size:15
Alignment explanation
Indices: 2186120--2186151 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2186110 ATCAATACCT
2186120 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
2186135 TTTTGCATACATTCA
1 TTTTGCATACATGCA
2186150 TT
1 TT
2186152 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:2193513 original size:15 final size:16
Alignment explanation
Indices: 2193495--2193524 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2193485 AAGAAATGAA
2193495 AAAAAAG-AGAAAAAG
1 AAAAAAGAAGAAAAAG
2193510 AAAAAAGAAGAAAAA
1 AAAAAAGAAGAAAAA
2193525 AGGGGGTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAGAAAAAG
Found at i:2193514 original size:17 final size:17
Alignment explanation
Indices: 2193492--2193526 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2193482 AAAAAGAAAT
2193492 GAAAAAA-AAGAGAAAAA
1 GAAAAAAGAAGA-AAAAA
2193509 GAAAAAAGAAGAAAAAA
1 GAAAAAAGAAGAAAAAA
2193526 G
1 G
2193527 GGGGTCAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAAGAAAAAA
Found at i:2195957 original size:113 final size:113
Alignment explanation
Indices: 2195759--2196321 Score: 840
Period size: 113 Copynumber: 5.0 Consensus size: 113
2195749 TCAAAGATTT
*
2195759 AAATCCATCA-TTCGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCACTT-GATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAA
*
2195823 GAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
2195872 AAATCCATCACTTGATGGATCAACTTTTCCAGTTTGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* *
2195937 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTTTTCAATCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
2195985 AAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
2196050 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * * ** *
2196098 AAATTCATCATTTGATGGATTAGCTTTTCTAGAAAGAGTTCATAATGAGAAGAATTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * * * * *
2196163 AAGTAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGATT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * ** * *
2196211 GAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* ** *
2196276 AAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTGC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
2196322 AGGACTCTAT
Statistics
Matches: 411, Mismatches: 38, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
113 409 1.00
114 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:2196453 original size:120 final size:124
Alignment explanation
Indices: 2196229--2196528 Score: 323
Period size: 120 Copynumber: 2.5 Consensus size: 124
2196219 CACTTGATGG
* * *
2196229 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAC
* * * *
2196294 AATGAGAAGAGCTTGTTCGACCTTTTGCAGGACTCTATCATAGAAAGAGATATATCATC
66 AATGAGAAGAGCTTGTTAGACCTTTTGCAGAACTATATCACAGAAAGAGATATATCATC
* *
2196353 ATCAGCATTTCCAGA-AGGAGTTCATAATGAGAAGAACTCATTTGAAG-AAGAAG-A-AA-TTCA
1 ATCAGCATTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCA
* * * * *
2196413 CAATGAGAAGAGTTTGTTTAG-CCTTTTGCATAATTATATCACAGAAGGAGATAGAT--T-
65 CAATGAGAAGAGCTTG-TTAGACCTTTTGCAGAACTATATCACAGAAAGAGATATATCATC
* * ** * *
2196470 AACATCATCCCCAGTGGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 ATCAGCATTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAA
2196529 TTTATTCAAC
Statistics
Matches: 147, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
117 10 0.07
118 30 0.20
119 5 0.03
120 48 0.33
121 5 0.03
122 1 0.01
123 7 0.05
124 41 0.28
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (124 bp):
ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAC
AATGAGAAGAGCTTGTTAGACCTTTTGCAGAACTATATCACAGAAAGAGATATATCATC
Found at i:2196674 original size:3 final size:3
Alignment explanation
Indices: 2196666--2196723 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
2196656 TGTCCCGATT
*
2196666 TTA TTA TTA TTA TTA TTA -TA TTA TTTA TTA -TA TT- TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
2196709 TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA
2196724 CAACCAGGCC
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 6 0.12
3 39 0.81
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2197910 original size:29 final size:29
Alignment explanation
Indices: 2197849--2197912 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
2197839 AATAATTAAT
*
2197849 ATTTTAATCTGAATAGTATGTTTTAATTT
1 ATTTTAATCTGAATAGTATGTTTTAATTA
2197878 ATTTTAATCT-AATA-TATGAATTTT-ATATA
1 ATTTTAATCTGAATAGTATG--TTTTAAT-TA
2197907 ATTTTA
1 ATTTTA
2197913 TTTTAGTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 4 0.13
28 6 0.19
29 21 0.68
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (29 bp):
ATTTTAATCTGAATAGTATGTTTTAATTA
Found at i:2199046 original size:18 final size:18
Alignment explanation
Indices: 2199014--2199048 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2199004 GTGTTCCTAT
*
2199014 GGCTAATGGCGAATGGAA
1 GGCTAATGACGAATGGAA
*
2199032 GGCTAATGACTAATGGA
1 GGCTAATGACGAATGGA
2199049 GAAAGAGTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.20
Consensus pattern (18 bp):
GGCTAATGACGAATGGAA
Found at i:2199810 original size:22 final size:22
Alignment explanation
Indices: 2199785--2199833 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
2199775 TAACAAAGAA
2199785 TGGGAAATCTCATTTAAGCAGG
1 TGGGAAATCTCATTTAAGCAGG
2199807 TGGGAAATCTCATTTAAGCAGG
1 TGGGAAATCTCATTTAAGCAGG
2199829 TGGGA
1 TGGGA
2199834 CGAAAGGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (22 bp):
TGGGAAATCTCATTTAAGCAGG
Found at i:2201489 original size:183 final size:180
Alignment explanation
Indices: 2200988--2201818 Score: 982
Period size: 183 Copynumber: 4.6 Consensus size: 180
2200978 GATACAAATG
* * * * *
2200988 AAAAATGTATTGCTCCATAGCAATATTACAGGTAAAAATATGACAAAACCGGTCTCGAAATGAC-
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA-CGGTCTCAAAATGACA
* * * * * *
2201052 AACCGTTAAAACGCTA-TAGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTT
65 AAACGGTAAAAAGATACCA-GATATGTTGAAAGTGTCGATAATTTAATATAAATATCAACACTTT
* * **
2201116 TTGAATTTAAAAGAGAAGAAGTTATATCGCCTAAAAAACGTCGACACTTTAT
129 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* * * *
2201168 GAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGATCTCAAATTGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA-CGGTCTCAAAATGACA
* * *
2201233 AAACAGGTAAATAA-CTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCAACACTT
65 AAAC-GGTAAA-AAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAATATCAACACTT
* *
2201297 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-T
128 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* * * * *
2201349 AAAAAATATATTGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTAAAAAATGA
1 -AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC-GGTCT-CAAAATGA
* * *
2201414 CAAAACGGGTAAAAAGATACCAGATATGTTGAAAGTGTCAATAATTTAATATAAATATCGATACT
63 CAAAAC-GGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAATATCAACACT
*
2201479 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGGCGACACTTTAT
127 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* ** **
2201533 GAAAATGTATCGATCCATGGCAATATAACAACTAAAAATATGACAAAATCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA-CGGTCTCAAAATGACA
* * * * * * *
2201598 AAACCGT-TAAAG----C-GCTATGTTAAAAGTGTTGATACTTTAATATAAGTATCAACACTTTT
65 AAACGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAATATCAACACTTTT
* * *
2201657 GGAATTTAAAAGAAAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-T
130 GGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* *
2201707 AAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAAATAGGTCTCAAAAATGA
1 -AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA-CGGTCTC-AAAATGA
* * *
2201772 CAAAATCGATAAAAAGATACCGGATATGTTAAAAGTGTCGATAATTT
63 CAAAA-CGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTT
2201819 TGGAATTTAA
Statistics
Matches: 554, Mismatches: 78, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
174 1 0.00
175 132 0.24
176 13 0.02
177 2 0.00
178 4 0.01
180 59 0.11
181 7 0.01
182 156 0.28
183 178 0.32
184 2 0.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (180 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACGGTCTCAAAATGACAA
AACGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAATATCAACACTTTTG
GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
Found at i:2201788 original size:358 final size:356
Alignment explanation
Indices: 2200988--2201952 Score: 1247
Period size: 358 Copynumber: 2.7 Consensus size: 356
2200978 GATACAAATG
* * * * *
2200988 AAAAATGTATTGCTCCATAGCAATATTACAGGTAAAAATATGACAAAACCGGTCTC-GAAATGAC
1 AAAAATGTATTGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCAAAAATGAC
* * * * * *
2201052 -AACCGTTAAAACGCTA-TAGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTT
66 AAAACGATAAAAAGATACCA-GATATGTTGAAAGTGTC-ATAATTTAATATAAATATCGATACTT
* * **
2201115 TTTGAATTTAAAAGAGAAGAAGTTATATCGCCTAAAAAACGTCGACACTTTATGAAAATGTATCG
129 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCG
* * * *
2201180 ATCCATAACAATATAACAGCTAAAAATATGACAAAACCGATCTCAAATTGACAAAACAGGTAAAT
194 ATCCATAACAATATAACAGCTAAAAATATGACAAAATCGGTCTCAAAATGACAAAAC-CGT---T
* * *
2201245 AACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCAACACTTTTGGAATTTAAAA
255 AA--AGC-GCTATGTTAAAAGTGTCGATACTTTAATATAAGTATCAACACTTTTGGAATTTAAAA
*
2201310 GAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTA
317 GAAAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTA
* * * *
2201350 AAAAATATATTGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTAAAAAATGAC
1 AAAAATGTATTGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCAAAAATGAC
*
2201415 AAAACGGGTAAAAAGATACCAGATATGTTGAAAGTGTCAATAATTTAATATAAATATCGATACTT
66 AAAAC-GATAAAAAGATACCAGATATGTTGAAAGTGTC-ATAATTTAATATAAATATCGATACTT
*
2201480 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGGCGACACTTTATGAAAATGTATCG
129 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCG
** *
2201545 ATCCATGGCAATATAACAACTAAAAATATGACAAAATCGGTCTCAAAATGACAAAACCGTTAAAG
194 ATCCATAACAATATAACAGCTAAAAATATGACAAAATCGGTCTCAAAATGACAAAACCGTTAAAG
*
2201610 CGCTATGTTAAAAGTGTTGATACTTTAATATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGA
259 CGCTATGTTAAAAGTGTCGATACTTTAATATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGA
2201675 AGTTATAGCGCCTATAAAGTGTCGATACTTTTA
324 AGTTATAGCGCCTATAAAGTGTCGATACTTTTA
* * *
2201708 AAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAAATAGGTCTCAAAAATGAC
1 AAAAATGTATTGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCAAAAATGAC
* * *
2201773 AAAATCGATAAAAAGATACCGGATATGTTAAAAGTG-------------------TCGATAATTT
66 AAAA-CGATAAAAAGATACCAGATATGTTGAAAGTGTCATAATTTAATATAAATATCGATACTTT
* * *
2201819 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-TAAAAAATGTATCG
130 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT-GAAAATGTATCG
* * *
2201883 ATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCAAAATGACAAAACCGGTAAAG
194 ATCCATAACAATATAACAGCTAAAAATATGACAAAATCGGTCTCAAAATGACAAAACCGTTAAAG
2201948 CGCTA
259 CGCTA
2201953 CCGGATATGT
Statistics
Matches: 543, Mismatches: 54, Indels: 36
0.86 0.09 0.06
Matches are distributed among these distances:
337 1 0.00
338 131 0.24
358 182 0.34
359 3 0.01
361 3 0.01
362 48 0.09
363 7 0.01
364 5 0.01
365 162 0.30
366 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (356 bp):
AAAAATGTATTGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCAAAAATGAC
AAAACGATAAAAAGATACCAGATATGTTGAAAGTGTCATAATTTAATATAAATATCGATACTTTT
GGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGAT
CCATAACAATATAACAGCTAAAAATATGACAAAATCGGTCTCAAAATGACAAAACCGTTAAAGCG
CTATGTTAAAAGTGTCGATACTTTAATATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGAAG
TTATAGCGCCTATAAAGTGTCGATACTTTTA
Found at i:2201831 original size:163 final size:162
Alignment explanation
Indices: 2201653--2201976 Score: 542
Period size: 163 Copynumber: 2.0 Consensus size: 162
2201643 GTATCAACAC
2201653 TTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAATGTAT
1 TTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAATGTAT
* *
2201718 CGATCCATAATAATATAACAGGTAAAAATATGACAAAATAGGTCTCAAAAATGACAAAATCGATA
66 CGATCCATAACAATATAACAGGTAAAAATATGACAAAATAGGTCTC-AAAATGACAAAACCGATA
2201783 AAAAGATACCGGATATGTT-AAAAGTGTCGATAA
130 AAAAGATACCGGATATGTTGAAAA-TGTCGATAA
*
2201816 TTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAATGTAT
1 TTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAATGTAT
* * *
2201881 CGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCAAAATGACAAAACCGGTAA
66 CGATCCATAACAATATAACAGGTAAAAATATGACAAAATAGGTCTCAAAATGACAAAACCGATAA
** *
2201946 AGCGCTACCGGATATGTTGAAAATGTCGATA
131 AAAGATACCGGATATGTTGAAAATGTCGATA
2201977 CTTTAATAAG
Statistics
Matches: 151, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
162 40 0.26
163 111 0.74
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (162 bp):
TTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAATGTAT
CGATCCATAACAATATAACAGGTAAAAATATGACAAAATAGGTCTCAAAATGACAAAACCGATAA
AAAGATACCGGATATGTTGAAAATGTCGATAA
Found at i:2202439 original size:19 final size:19
Alignment explanation
Indices: 2202417--2202478 Score: 106
Period size: 19 Copynumber: 3.3 Consensus size: 19
2202407 CTTTTATTTA
2202417 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
2202436 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
* *
2202455 TTATTATAGGTAGAAAATG
1 ATATTATAGGTAAAAAATG
2202474 ATATT
1 ATATT
2202479 TTAAGTTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:2204511 original size:22 final size:18
Alignment explanation
Indices: 2204462--2204500 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2204452 GAAAAAAATT
*
2204462 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
2204480 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
2204498 GAA
1 GAA
2204501 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:2205996 original size:19 final size:19
Alignment explanation
Indices: 2205972--2206019 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
2205962 ATGTAGGGTA
*
2205972 AATTTTGTATAAGATTTTT
1 AATTTTGTATAAGATTTAT
*
2205991 AATTTTGTATACGATTTAT
1 AATTTTGTATAAGATTTAT
2206010 AATTTTGTAT
1 AATTTTGTAT
2206020 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
AATTTTGTATAAGATTTAT
Found at i:2206814 original size:199 final size:199
Alignment explanation
Indices: 2206393--2207809 Score: 2266
Period size: 199 Copynumber: 7.1 Consensus size: 199
2206383 GTAAACTTAT
* * * * * *
2206393 GTGTCGATATATTTATAACAAATATCGATACCAAAAATATCGAAACCCATAATTAAAATTTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
2206458 AGTAAATTAACAATGTTAACCGGTCTAAATATACC-GGTTTTGAGAAAACAGGTGTACAAAAAAT
66 GGTAAATTAACAATG-TAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGT
* * * *
2206522 ATCGACACAAATAAAACAAATGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCAC
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCTAAACCAAGTGCAC
*
2206587 TAAAGA
194 TAAAAA
* *
2206593 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
2206658 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGCTTTTGAGAAAACAAGTGTACAAAAAATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2206723 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
2206788 AAAA
196 AAAA
* * *
2206792 ATGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
2206857 TGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTATAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
2206922 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCAC-A
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
2206986 AAAA
196 AAAA
2206990 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
2207055 GGTAAATTAGCAATGTAACCGCTCTAAATATACCAGTTTTTGAGAAAAAAGATGTATAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2207120 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCA-TG
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACT-
*
2207184 GAAAA
195 AAAAA
* **
2207189 GTGTCGATACATTTATAACAATTATTAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
2207254 GGTAAATTAACAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
2207319 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCTAAACCAAGTGCACTG
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
2207384 AAAA
196 AAAA
* *
2207388 GTGTCGATACATTTATAACAAATGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
2207453 GGTAAATTAACAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * *
2207518 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCTAAACCAAGTACA-AA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
2207582 AAAA
196 AAAA
* *
2207586 GCGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATACTTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
2207651 GTTAAATTAGCAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAAAAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * **
2207716 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCATAATGTATTTCTAAACCAAGTGTACGG
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
2207781 AAAA
196 AAAA
2207785 GTGTCGATACATTTATAACAAGTAT
1 GTGTCGATACATTTATAACAAGTAT
2207810 TATTGAAAAC
Statistics
Matches: 1140, Mismatches: 72, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
198 372 0.33
199 626 0.55
200 142 0.12
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
AAAA
Found at i:2207129 original size:397 final size:395
Alignment explanation
Indices: 2206394--2207809 Score: 2230
Period size: 397 Copynumber: 3.6 Consensus size: 395
2206384 TAAACTTATG
* * * * * * *
2206394 TGTCGATATATTTATAACAAATATCGATACCAAAAATATCGAAACCCATAATTAAAATTTAATAA
1 TGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAAT-A
* *
2206459 GTAAATTAACAATGTTAACCGGTCTAAATATACC-GGTTTTGAGAAAACAGGTGTACAAAAAATA
65 GTAAATTAACAATG-TAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
2206523 TCGACACAAATAAAACAAATGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCACT
129 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCTAAACCAAGTGCACT
* * *
2206588 AAAGAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATG
193 AAAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATG
* *
2206653 TAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGCTTTTGAGAAAACAAGTGTACAAA
258 TAATAGGTAAATTAACAATGTAACC-GTCTAAATATACCAGTTTTTGAGAAAA-AAGTGTACAAA
* *
2206718 AAATATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG
321 AAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTG
2206783 CACTAAAAAA
386 CACTAAAAAA
*
2206793 TGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATAT
1 TGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA-
*
2206858 GTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTATAAAAAGTAT
65 GTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTAT
2206923 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCAC-AA
130 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTAA
2206987 AAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
195 AAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
* *
2207052 ATAGGTAAATTAGCAATGTAACCGCTCTAAATATACCAGTTTTTGAGAAAAAAGATGTATAAAAA
260 ATAGGTAAATTAACAATGTAACCG-TCTAAATATACCAGTTTTTGAGAAAAAAG-TGTACAAAAA
*
2207117 GTATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCA
323 GTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCA
* *
2207182 -TGGAAAAG
388 CT-AAAAAA
* *
2207190 TGTCGATACATTTATAACAATTATTAATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
1 TGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA-
* *
2207255 GTAAATTAACAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTAT
65 GTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTAT
* *
2207320 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCTAAACCAAGTGCACTGA
130 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTAA
* *
2207385 AAAGTGTCGATACATTTATAACAAATGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
195 AAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
*
2207450 ATAGGTAAATTAACAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAA
260 ATAGGTAAATTAACAATGTAACC-GTCTAAATATACCAGTTTTTGAGAAAA-AAGTGTACAAAAA
*
2207515 GTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCTAAACCAAGT--A
323 GTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCA
*
2207578 CAAAAAAA
388 CTAAAAAA
* * *
2207586 GCGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATACTTATAATGTAATA
1 -TGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
2207651 GTTAAATTAGCAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAAAAGGTGTACAAAAAGTA
65 G-TAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * **
2207716 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCATAATGTATTTCTAAACCAAGTGTACGG
129 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
2207781 AAAAGTGTCGATACATTTATAACAAGTAT
194 AAAAGTGTCGATACATTTATAACAAGTAT
2207810 TATTGAAAAC
Statistics
Matches: 943, Mismatches: 63, Indels: 24
0.92 0.06 0.02
Matches are distributed among these distances:
396 11 0.01
397 573 0.61
398 218 0.23
399 141 0.15
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (395 bp):
TGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
TAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATC
GACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTAAA
AAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
TAGGTAAATTAACAATGTAACCGTCTAAATATACCAGTTTTTGAGAAAAAAGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
AAAAA
Found at i:2207526 original size:596 final size:596
Alignment explanation
Indices: 2206393--2207811 Score: 2367
Period size: 596 Copynumber: 2.4 Consensus size: 596
2206383 GTAAACTTAT
* * * * * *
2206393 GTGTCGATATATTTATAACAAATATCGATACCAAAAATATCGAAACCCATAATTAAAATTTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
2206458 AGTAAATTAACAATGTTAACCGGTCTAAATATACC-GGTTTTGAGAAAACAGGTGTACAAAAAAT
66 GGTAAATTAGCAATG-TAACCGGTCTAAATATACCAGTTTTTGAGAAAAAAGGTGTACAAAAAGT
* * * *
2206522 ATCGACACAAATAAAACAAATGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCAC
130 ATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCATAATGTA-TTTCTAAACCAAGTGCA-
* ** *
2206587 T--AAAGAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATA
193 TGGAAA-AGTGTCGATACATTTATAACAAGTATTAATCCCAAAAACATCGAAACCCATAATTATA
*
2206650 ATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGCTTTTGAGAAAACAAGTGTAC
257 ATGTAATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGGCTTTTGAGAAAACAAGTGTAC
*
2206715 AAAAAATATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAA
322 AAAAAATATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAAACCAA
*
2206780 GTGCACTAAAAAATGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAACCCATAAT
387 GTGCACTAAAAAATGTCGATACATTTATAACAAATGTCAATCCCAAAAACATCGAAACCCATAAT
* *
2206845 TATAATGTAATATGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGT
452 TATAATGTAATAGGTAAATTAACAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAAACAGGT
*
2206910 GTATAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAA
517 GTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAA
* *
2206975 CCAAGTGCACAAAAA
582 CCAAGTACAAAAAAA
2206990 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
2207055 GGTAAATTAGCAATGTAACCGCTCTAAATATACCAGTTTTTGAGAAAAAAGATGTATAAAAAGTA
66 GGTAAATTAGCAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAAAAGGTGTACAAAAAGTA
*
2207120 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCATGG
131 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCATAATGTATTTCTAAACCAAGTGCATGG
*
2207185 AAAAGTGTCGATACATTTATAACAATTATTAATCCCAAAAACATCGAAACCCATAATTATAATGT
196 AAAAGTGTCGATACATTTATAACAAGTATTAATCCCAAAAACATCGAAACCCATAATTATAATGT
* *
2207250 AATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAA
261 AATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGGCTTTTGAGAAAACAAGTGTACAAAA
* *
2207315 AGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCTAAACCAAGTGC
326 AATATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTGC
* * *
2207380 ACTGAAAAGTGTCGATACATTTATAACAAATGTCGATCCCAAAAACATCGAAACCCATAATTATA
391 ACTAAAAAATGTCGATACATTTATAACAAATGTCAATCCCAAAAACATCGAAACCCATAATTATA
2207445 ATGTAATAGGTAAATTAACAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTAC
456 ATGTAATAGGTAAATTAACAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTAC
*
2207510 AAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCTAAACCAA
521 AAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAA
2207575 GTACAAAAAAA
586 GTACAAAAAAA
* *
2207586 GCGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATACTTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
2207651 GTTAAATTAGCAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAAAAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAAAAGGTGTACAAAAAGTA
* *
2207716 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCATAATGTATTTCTAAACCAAGTGTACGG
131 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCATAATGTATTTCTAAACCAAGTGCATGG
2207781 AAAAGTGTCGATACATTTATAACAAGTATTA
196 AAAAGTGTCGATACATTTATAACAAGTATTA
2207812 TTGAAAACAT
Statistics
Matches: 768, Mismatches: 51, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
595 1 0.00
596 626 0.82
597 141 0.18
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (596 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAGCAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAAAAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCATAATGTATTTCTAAACCAAGTGCATGG
AAAAGTGTCGATACATTTATAACAAGTATTAATCCCAAAAACATCGAAACCCATAATTATAATGT
AATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGGCTTTTGAGAAAACAAGTGTACAAAA
AATATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTGC
ACTAAAAAATGTCGATACATTTATAACAAATGTCAATCCCAAAAACATCGAAACCCATAATTATA
ATGTAATAGGTAAATTAACAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTAC
AAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAA
GTACAAAAAAA
Found at i:2211712 original size:198 final size:199
Alignment explanation
Indices: 2211328--2211848 Score: 891
Period size: 198 Copynumber: 2.6 Consensus size: 199
2211318 AAAACAATAT
2211328 GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
1 GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
* * * * *
2211393 CCAGAATATATTTCTAAACCAAGTGCACTGAAAAGTGTCGAGACATTTATAACAAGTGTCGATCC
66 CCATAATGTATTTCTAAACCAAGTGCACAGAAAAGTGTCGATACATTTATAACAAGTATCGATCC
* *
2211458 CAAAAAGATCGAAACCCATAATTATAATGTAGTAGGTAAATTAACAATGTAACCGGTCTAAATAT
131 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATAT
2211523 ACCG
196 ACCG
* *
2211527 GTTTTTGAGAAAACATGTGTACAAAAAGTATTGACACAAATAAAACAAGTGTCGATACTTTTGGT
1 GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
*
2211592 CCATAATGTATTTCTAAACCAAGTGCA-AAAAAAGTGTCGATACATTTATAACAAGTATCGATCC
66 CCATAATGTATTTCTAAACCAAGTGCACAGAAAAGTGTCGATACATTTATAACAAGTATCGATCC
* *
2211656 CAAAGACATCGAAACCCATAATTATAATGTAATAGGTAAATTAGCAATGTAACCGGTCTAAATAT
131 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATAT
2211721 ACCG
196 ACCG
* * *
2211725 ATTTTTGAGAAAAAAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTTGATACTTTTGGT
1 GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
*
2211790 CCATAATGTATTTCTAAACCAAGTGCACGGAAAAGTGTCGATACATTTATAACAAGTAT
66 CCATAATGTATTTCTAAACCAAGTGCACAGAAAAGTGTCGATACATTTATAACAAGTAT
2211849 TATTGAAAAC
Statistics
Matches: 302, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
198 185 0.61
199 117 0.39
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (199 bp):
GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
CCATAATGTATTTCTAAACCAAGTGCACAGAAAAGTGTCGATACATTTATAACAAGTATCGATCC
CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATAT
ACCG
Found at i:2212206 original size:45 final size:46
Alignment explanation
Indices: 2212157--2212245 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
2212147 ACATCGAATA
* * * *
2212157 CATTTTATGCTTCGATGCAC-ATACCATGCATCGATGCACTCAGTG
1 CATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAGTG
*
2212202 CATTTGATGCATCGGTGCACAAGACCATACATCGATGCACTCAG
1 CATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAG
2212246 GCTATTTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
45 17 0.45
46 21 0.55
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (46 bp):
CATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAGTG
Found at i:2215770 original size:198 final size:199
Alignment explanation
Indices: 2215386--2215906 Score: 891
Period size: 198 Copynumber: 2.6 Consensus size: 199
2215376 AAAACAATAT
2215386 GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
1 GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
* * * * *
2215451 CCAGAATATATTTCTAAACCAAGTGCACTGAAAAGTGTCGAGACATTTATAACAAGTGTCGATCC
66 CCATAATGTATTTCTAAACCAAGTGCACAGAAAAGTGTCGATACATTTATAACAAGTATCGATCC
* *
2215516 CAAAAAGATCGAAACCCATAATTATAATGTAGTAGGTAAATTAACAATGTAACCGGTCTAAATAT
131 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATAT
2215581 ACCG
196 ACCG
* *
2215585 GTTTTTGAGAAAACATGTGTACAAAAAGTATTGACACAAATAAAACAAGTGTCGATACTTTTGGT
1 GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
*
2215650 CCATAATGTATTTCTAAACCAAGTGCA-AAAAAAGTGTCGATACATTTATAACAAGTATCGATCC
66 CCATAATGTATTTCTAAACCAAGTGCACAGAAAAGTGTCGATACATTTATAACAAGTATCGATCC
* *
2215714 CAAAGACATCGAAACCCATAATTATAATGTAATAGGTAAATTAGCAATGTAACCGGTCTAAATAT
131 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATAT
2215779 ACCG
196 ACCG
* * *
2215783 ATTTTTGAGAAAAAAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTTGATACTTTTGGT
1 GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
*
2215848 CCATAATGTATTTCTAAACCAAGTGCACGGAAAAGTGTCGATACATTTATAACAAGTAT
66 CCATAATGTATTTCTAAACCAAGTGCACAGAAAAGTGTCGATACATTTATAACAAGTAT
2215907 TATTGAAAAC
Statistics
Matches: 302, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
198 185 0.61
199 117 0.39
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (199 bp):
GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGT
CCATAATGTATTTCTAAACCAAGTGCACAGAAAAGTGTCGATACATTTATAACAAGTATCGATCC
CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATAT
ACCG
Found at i:2216264 original size:45 final size:46
Alignment explanation
Indices: 2216215--2216303 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
2216205 ACATCGAATA
* * * *
2216215 CATTTTATGCTTCGATGCAC-ATACCATGCATCGATGCACTCAGTG
1 CATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAGTG
*
2216260 CATTTGATGCATCGGTGCACAAGACCATACATCGATGCACTCAG
1 CATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAG
2216304 GCTATTTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
45 17 0.45
46 21 0.55
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (46 bp):
CATTTGATGCATCGATGCACAAGACCATACATCGATGCACTCAGTG
Found at i:2217255 original size:18 final size:18
Alignment explanation
Indices: 2217232--2217267 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2217222 AGAGCTAACT
2217232 ATGCCTATTGGAAAAATA
1 ATGCCTATTGGAAAAATA
2217250 ATGCCTATTGGAAAAATA
1 ATGCCTATTGGAAAAATA
2217268 GGATGATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
ATGCCTATTGGAAAAATA
Found at i:2222008 original size:199 final size:199
Alignment explanation
Indices: 2221628--2223044 Score: 2202
Period size: 199 Copynumber: 7.1 Consensus size: 199
2221618 GTAAACTTAT
* * * *
2221628 GTGTCGATATATTTATAACAAATATCGATCCCAAAAATATCGAAACCCATAATTAAAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
2221693 GGTAAATTAACAATGTAACCGGTCTAAATATACCG-GTTTTGAGAAAACAGGTGTACAAAAAATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
* *
2221757 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTCAAAACCAAGTGCACT
131 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTA-TTTCTAAACCAAGTGCACT
*
2221822 AAAGA
195 AAAAA
*
2221827 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
2221892 GGTAAATTAACAATGTAACCAGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
* * * * *
2221957 TCAACACAAATAAAACAAGTATTGATATTTTTGGTCCAGAATGTATTTCAAAACCAAGTTCACTA
131 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
2222022 AAAA
196 AAAA
* *
2222026 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGCAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
2222091 TGTAAATTAACAATGTAACCGGTCTAAATACACC-AGTTTTTGAGAAAACAGGTGTACAAAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGA-TTTTTGAGAAAACAAGTGTACAAAAAGT
** * * *
2222155 ATCGACACAAATAAAACAAGTGTCCATACTTTTTGTCCAGAATGTATTTCTATACCAAGTGAAC-
130 ATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACT
2222219 AAAAA
195 AAAAA
*
2222224 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
2222289 GGTAAATTAGCAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAA-AAGGTGTACAAAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACAA-GTGTACAAAAAGT
* * *
2222353 ATCGACACAAATAAAACAAGTATTGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCACG
130 ATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACT
*
2222418 GAAAA
195 AAAAA
* * *
2222423 TTGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
2222488 GGTAAATTAATAAAGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
* * *
2222553 TCGACATAAATAAAACAAGTGTTGATACTTTTGGTCCATAATATATTTCTAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
2222618 AAAA
196 AAAA
*
2222622 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
2222687 GGTAAATTAACAATGTAACCGGTCTAAATATACC-AGTTTTTGAGAAAACAGGTGTACAAAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGA-TTTTTGAGAAAACAAGTGTACAAAAAGT
* * * *
2222751 ATTGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTC-AAATCAAAGTGCAC
130 ATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAA-CCAAGTGCAC
2222815 -AAAAA
194 TAAAAA
* * *
2222820 GTGTTGATACATTTTTAATAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
2222885 GGTAAATTAGCAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAAAAAGGTGTACAAAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACAA-GTGTACAAAAAGT
2222950 ATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCAC-
130 ATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACT
2223014 ATAAAA
195 A-AAAA
2223020 GTGTCGATACATTTATAACAAGTAT
1 GTGTCGATACATTTATAACAAGTAT
2223045 TGTTGAAAAC
Statistics
Matches: 1118, Mismatches: 88, Indels: 23
0.91 0.07 0.02
Matches are distributed among these distances:
197 1 0.00
198 295 0.26
199 723 0.65
200 99 0.09
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
AAAA
Found at i:2222363 original size:397 final size:396
Alignment explanation
Indices: 2221628--2223044 Score: 2246
Period size: 397 Copynumber: 3.6 Consensus size: 396
2221618 GTAAACTTAT
* * * *
2221628 GTGTCGATATATTTATAACAAATATCGATCCCAAAAATATCGAAACCCATAATTAAAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
2221693 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTGAGAAAACAGGTGTACAAAAAATAT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGTTTTTGAGAAAACAGGTGTACAAAAAGTAT
*
2221758 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTCAAAACCAAGTGCACTA
131 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCTAAACCAAGTGCACTA
* *
2221823 AAGAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
195 AAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
*
2221888 AATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGATTTTTGAGAAAACAA-GTGTACAAA
260 AATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAA-AAGGTGTACAAA
* * * *
2221952 AAATATCAACACAAATAAAACAAGTATTGATATTTTTGGTCCAGAATGTATTTCAAAACCAAGTT
324 AAGTATCGACACAAATAAAACAAGTATTGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG
2222017 CACTAAAAA
389 CAC-AAAAA
* *
2222026 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGCAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
2222091 TGTAAATTAACAATGTAACCGGTCTAAATACACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
2222156 TCGACACAAATAAAACAAGTGTCCATACTTTTTGTCCAGAATGTATTTCTATACCAAGTGAAC-A
130 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
*
2222220 AAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGT
195 AAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
*
2222285 AATAGGTAAATTAGCAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAAAAGGTGTACAAAA
260 AATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAAAAGGTGTACAAAA
* *
2222350 AGTATCGACACAAATAAAACAAGTATTGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGC
325 AGTATCGACACAAATAAAACAAGTATTGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
*
2222415 ACGGAAAA
390 AC-AAAAA
* * *
2222423 TTGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
2222488 GGTAAATTAATAAAGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
2222553 TCGACATAAATAAAACAAGTGTTGATACTTTTGGTCCATAATATATTTCTAAACCAAGTGCACTA
130 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
*
2222618 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
195 AAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
* * *
2222683 AATAGGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAA
260 AATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAAAAGGTGTACAAAA
* * * * * *
2222748 AGTATTGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAATCAAAGTGC
325 AGTATCGACACAAATAAAACAAGTATTGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
2222813 ACAAAAA
390 ACAAAAA
* * *
2222820 GTGTTGATACATTTTTAATAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
2222885 GGTAAATTAGCAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAAAAAGGTGTACAAAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCG-TTTTTGAG-AAAACAGGTGTACAAAAAGT
*
2222950 ATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCAC-
129 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACT
2223014 ATAAAAGTGTCGATACATTTATAACAAGTAT
194 A-AAAAGTGTCGATACATTTATAACAAGTAT
2223045 TGTTGAAAAC
Statistics
Matches: 934, Mismatches: 79, Indels: 12
0.91 0.08 0.01
Matches are distributed among these distances:
396 3 0.00
397 464 0.50
398 396 0.42
399 71 0.08
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (396 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCGTTTTTGAGAAAACAGGTGTACAAAAAGTAT
CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTAA
AAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
ATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAAAAGGTGTACAAAAA
GTATCGACACAAATAAAACAAGTATTGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
CAAAAA
Found at i:2222760 original size:596 final size:595
Alignment explanation
Indices: 2221628--2223044 Score: 2352
Period size: 596 Copynumber: 2.4 Consensus size: 595
2221618 GTAAACTTAT
* * * *
2221628 GTGTCGATATATTTATAACAAATATCGATCCCAAAAATATCGAAACCCATAATTAAAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
2221693 GGTAAATTAACAATGTAACCGGTCTAAATATACCGG-TTTTGAGAAAACAGGTGTACAAAAAATA
66 GGTAAATTAGCAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAAAAGGTGTACAAAAAGTA
* *
2221757 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTCAAAACCAAGTGCACT
131 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTA-TTTCTAAACCAAGTGCACT
* * *
2221822 AAAGAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
195 AAA-AGTGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCAAAACCCATAATTATAATG
* *
2221887 TAATAGGTAAATTAACAATGTAACCAGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAA
259 TAATAGGTAAATTAACAAAGTAACCAGTCTAAATATACCGATTTTTGAGAAAACAAGTATACAAA
* * *
2221952 AAATATCAACACAAATAAAACAAGTATTGATATTTTTGGTCCAGAATGTATTTCAAAACCAAGTT
324 AAATATCAACACAAATAAAACAAGTATTGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTG
2222017 CACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
389 CACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
*
2222082 AATGCAATATGTAAATTAACAATGTAACCGGTCTAAATACACCAGTTTTTGAGAAAACAGGTGTA
454 AATGCAATAGGTAAATTAACAATGTAACCGGTCTAAATACACCAGTTTTTGAGAAAACAGGTGTA
* * * *
2222147 CAAAAAGTATCGACACAAATAAAACAAGTGTCCATACTTTTTGTCCAGAATGTATTTC-TATACC
519 CAAAAAGTATCGACACAAATAAAACAAGTGTCCATACTTTTGGTCCAGAATATATTTCAAAT-CA
2222211 AAGTGAACAAAAA
583 AAGTGAACAAAAA
*
2222224 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
2222289 GGTAAATTAGCAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAAAAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAAAAGGTGTACAAAAAGTA
* * *
2222354 TCGACACAAATAAAACAAGTATTGATACTTTTGGTCCAAAATGTATTTCTAAACCAAGTGCACGG
131 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCAC-T
*
2222419 AAAATTGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCAAAACCCATAATTATAATGT
195 AAAAGTGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCAAAACCCATAATTATAATGT
* * *
2222484 AATAGGTAAATTAATAAAGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACAAAA
260 AATAGGTAAATTAACAAAGTAACCAGTCTAAATATACCGATTTTTGAGAAAACAAGTATACAAAA
* * * * * *
2222549 AGTATCGACATAAATAAAACAAGTGTTGATACTTTTGGTCCATAATATATTTCTAAACCAAGTGC
325 AATATCAACACAAATAAAACAAGTATTGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTGC
2222614 ACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATA
390 ACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATA
* *
2222679 ATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTAC
455 ATGCAATAGGTAAATTAACAATGTAACCGGTCTAAATACACCAGTTTTTGAGAAAACAGGTGTAC
* *
2222744 AAAAAGTATTGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAATCAAA
520 AAAAAGTATCGACACAAATAAAACAAGTGTCCATACTTTTGGTCCAGAATATATTTCAAATCAAA
*
2222809 GTGCACAAAAA
585 GTGAACAAAAA
* * *
2222820 GTGTTGATACATTTTTAATAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
2222885 GGTAAATTAGCAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAAAAAGGTGTACAAAAAGT
66 GGTAAATTAGCAATGTAACCGGTCTAAATATACCGGTTTTTGAG-AAAAAAGGTGTACAAAAAGT
2222950 ATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACA
130 ATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCAC-
2223015 TAAAAGTGTCGATACATTTATAACAAGTAT
194 TAAAAGTGTCGATACATTTATAACAAGTAT
2223045 TGTTGAAAAC
Statistics
Matches: 764, Mismatches: 53, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
596 581 0.76
597 183 0.24
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (595 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAGCAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAAAAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
AAAGTGTCGATACATTTATAACAAGTATCAATCCCAAAAACATCAAAACCCATAATTATAATGTA
ATAGGTAAATTAACAAAGTAACCAGTCTAAATATACCGATTTTTGAGAAAACAAGTATACAAAAA
ATATCAACACAAATAAAACAAGTATTGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTGCA
CTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAA
TGCAATAGGTAAATTAACAATGTAACCGGTCTAAATACACCAGTTTTTGAGAAAACAGGTGTACA
AAAAGTATCGACACAAATAAAACAAGTGTCCATACTTTTGGTCCAGAATATATTTCAAATCAAAG
TGAACAAAAA
Found at i:2223396 original size:45 final size:46
Alignment explanation
Indices: 2223347--2223437 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
2223337 GAACATCGAA
*
2223347 TGCATTTTATGCATCGATGCAC-ATACCATGCATCAATGCACTCAG
1 TGCATTTGATGCATCGATGCACAATACCATGCATCAATGCACTCAG
*
2223392 TGCATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAATACCATGCATCAATGCACTCAG
2223438 GCTATTTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 21 0.49
46 22 0.51
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAATACCATGCATCAATGCACTCAG
Found at i:2224663 original size:200 final size:199
Alignment explanation
Indices: 2224198--2224699 Score: 659
Period size: 199 Copynumber: 2.5 Consensus size: 199
2224188 CGATTAACTC
* * *
2224198 AACAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAACGTAATAGGTAAATTAACAATGT
1 AACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTAACAATGT
* * * * * * *
2224263 AACCGGTCTAAATATACTGGTTTTTGAGAAAACTGTTGTTCAAAAAGTATCGACACAAATAAAAC
66 AACCGGTCTAAATATACCGGTTTATGAGAAAACAGGTATACAAAAAGTATCAACACAAATAAAAC
*
2224328 AAGTGTCGATACTTTTCGTCCAGAATATATTTCTAAACCAAGTGCACTGAAAAGTATCGATACAT
131 AAGTGTCGATACTTTTCGTCCAGAATATATTTCTAAACCAAGTGCACGGAAAAGTATCGATACAT
2224393 TTAT
196 TTAT
*
2224397 AACAAGTGTCGATCCCAAAAACAT-AGAAACCCATAATTATAATGTAATAGGTAAATTAACAATG
1 AACAAGTATCGATCCCAAAAACATCA-AAACCCATAATTATAATGTAATAGGTAAATTAACAATG
* * **
2224461 TAACTGGTCTAAATATACCGGTTTATGAGAAAACAGGTATACATAAAGTATCAACACAAATCTAA
65 TAACCGGTCTAAATATACCGGTTTATGAGAAAACAGGTATACAAAAAGTATCAACACAAATAAAA
* * * *
2224526 CAAGTGTCGATACTTTTTGTCCAGAGTGTATTT-TAAAAACCAAGTGCA-GGAAAAGGTGTCGAT
130 CAAGTGTCGATACTTTTCGTCCAGAATATATTTCT--AAACCAAGTGCACGGAAAA-GTATCGAT
2224589 ACATTTAT
192 ACATTTAT
* * * * * * **
2224597 AACAAGTATCGATCCTAATAACATCAAAACCCAAAATTTTAATGTAATAGGTCATTTTGCAATGT
1 AACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTAACAATGT
* **
2224662 AACCGGTATAAATATACCGGTTTAATTTGAAAACAGGT
66 AACCGGTCTAAATATACCGGTTT-ATGAGAAAACAGGT
2224700 CACCATAATA
Statistics
Matches: 264, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
198 1 0.00
199 148 0.56
200 102 0.39
201 13 0.05
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.28
Consensus pattern (199 bp):
AACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTAACAATGT
AACCGGTCTAAATATACCGGTTTATGAGAAAACAGGTATACAAAAAGTATCAACACAAATAAAAC
AAGTGTCGATACTTTTCGTCCAGAATATATTTCTAAACCAAGTGCACGGAAAAGTATCGATACAT
TTAT
Found at i:2225074 original size:15 final size:15
Alignment explanation
Indices: 2225032--2225075 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
2225022 TCTTTCTCAA
2225032 AGCTCTTCTCAACCC
1 AGCTCTTCTCAACCC
* * *
2225047 ACCTGTTCCCAACCC
1 AGCTCTTCTCAACCC
2225062 AGCTCTTCTCAACC
1 AGCTCTTCTCAACC
2225076 ACAACCTCAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.20, C:0.48, G:0.07, T:0.25
Consensus pattern (15 bp):
AGCTCTTCTCAACCC
Found at i:2226270 original size:6 final size:6
Alignment explanation
Indices: 2226233--2226266 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2226223 CAAGCGGTCA
* *
2226233 ATGAAG ATGACG ATGAAG ATGAAG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
2226267 TGATCCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.32, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:2227290 original size:496 final size:496
Alignment explanation
Indices: 2226357--2227349 Score: 1815
Period size: 496 Copynumber: 2.0 Consensus size: 496
2226347 ACATCCCAAG
*
2226357 ACATCCAGAAGGTTTCAATTCTGTTAGTTTGTATCCATTATTTTAACATATAAGCGTACAACTTT
1 ACATCCAGAAGGTTTCAATTCTGTTAATTTGTATCCATTATTTTAACATATAAGCGTACAACTTT
2226422 AACCTCATTTTCTTCATGTTGCAGATGTTATCCTCAGAAATGGATTATATGAATTTATGCAATTT
66 AACCTCATTTTCTTCATGTTGCAGATGTTATCCTCAGAAATGGATTATATGAATTTATGCAATTT
* * *
2226487 TGTTTACAGAATTTTGTTGTTGCCATTTGGTCATCCAAGATGAGGTTAGAACTATTGAGCAATTC
131 TGTTTACAGAATTTTATTGTTGCCATTTGGTCATCCAAGATGAGGTTAAAACTATTGAGCAACTC
* *
2226552 AAATTACTATAGCCAAAATCGTTAATATACAATTAAATATTAACATTCAAACTTGATTACAATAT
196 AAATTACTATAGCCAAAATCATTAATATAAAATTAAATATTAACATTCAAACTTGATTACAATAT
2226617 CAAGCATAACATGAACGTGTACTTAATAAACTACGTTTGTTCTCTGACCACTATCTATTCGTTTG
261 CAAGCATAACATGAACGTGTACTTAATAAACTACGTTTGTTCTCTGACCACTATCTATTCGTTTG
2226682 GGTAAGATGATTGTCATTACACTTTGCTAACTTTAATTTGTCTAAGATTCCTACATATTTATGTT
326 GGTAAGATGATTGTCATTACACTTTGCTAACTTTAATTTGTCTAAGATTCCTACATATTTATGTT
* *
2226747 CAACTGTTTGTAAACAGGATCAAAGTAAGTGCAAAACAGAAGATAAGTTTACCTACTGTAAAGAT
391 CAACTGTTTGTAAACAAGATCAAAGTAAGTGCAAAACAGAAGATAAGTTTACCTACTATAAAGAT
2226812 CTCAATGATGTTTGGAACGAGTTTACTGATTTTAACGCCCT
456 CTCAATGATGTTTGGAACGAGTTTACTGATTTTAACGCCCT
2226853 ACATCCAGAAGGTTTCAATTCTGTTAATTTGTATCCATTATTTTAACATATAAGCGTACAACTTT
1 ACATCCAGAAGGTTTCAATTCTGTTAATTTGTATCCATTATTTTAACATATAAGCGTACAACTTT
* *
2226918 AATCTCATTTTCTTCATGTTGCAGATGTTATCCTCAGAAATGGATTATATGAATTTATGTAATTT
66 AACCTCATTTTCTTCATGTTGCAGATGTTATCCTCAGAAATGGATTATATGAATTTATGCAATTT
*
2226983 TGTTTACAGAATTTTATTGTTGCCATTTGGTCATCCAAGATGGGGTTAAAACTATTGAGCAACTC
131 TGTTTACAGAATTTTATTGTTGCCATTTGGTCATCCAAGATGAGGTTAAAACTATTGAGCAACTC
* *
2227048 AAATTACTATAGCCAAAATCATTAATATAAAATTAAATGTTAACATTCAAACTTGATTACAATCT
196 AAATTACTATAGCCAAAATCATTAATATAAAATTAAATATTAACATTCAAACTTGATTACAATAT
* * * *
2227113 CAGGCATAACATGAACGTGTACTTGATAAACTACGTTTGTTCTCTGACCACTTTCTATTTGTTTG
261 CAAGCATAACATGAACGTGTACTTAATAAACTACGTTTGTTCTCTGACCACTATCTATTCGTTTG
2227178 GGTAAGATGATTGTCATTACACTTTGCTAACTTTAATTTGTCTAAGATTCCTACATATTTATGTT
326 GGTAAGATGATTGTCATTACACTTTGCTAACTTTAATTTGTCTAAGATTCCTACATATTTATGTT
* *
2227243 CGACTGTTTGTAAACAAGATCAAAGTAAGTGCAAAATAGAAGATAAGTTTACCTACTATAAAGAT
391 CAACTGTTTGTAAACAAGATCAAAGTAAGTGCAAAACAGAAGATAAGTTTACCTACTATAAAGAT
2227308 CTCAATGATGTTTGGAACGAGTTTACTGATTTTAACGCCCT
456 CTCAATGATGTTTGGAACGAGTTTACTGATTTTAACGCCCT
2227349 A
1 A
2227350 AATACACTGT
Statistics
Matches: 478, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
496 478 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (496 bp):
ACATCCAGAAGGTTTCAATTCTGTTAATTTGTATCCATTATTTTAACATATAAGCGTACAACTTT
AACCTCATTTTCTTCATGTTGCAGATGTTATCCTCAGAAATGGATTATATGAATTTATGCAATTT
TGTTTACAGAATTTTATTGTTGCCATTTGGTCATCCAAGATGAGGTTAAAACTATTGAGCAACTC
AAATTACTATAGCCAAAATCATTAATATAAAATTAAATATTAACATTCAAACTTGATTACAATAT
CAAGCATAACATGAACGTGTACTTAATAAACTACGTTTGTTCTCTGACCACTATCTATTCGTTTG
GGTAAGATGATTGTCATTACACTTTGCTAACTTTAATTTGTCTAAGATTCCTACATATTTATGTT
CAACTGTTTGTAAACAAGATCAAAGTAAGTGCAAAACAGAAGATAAGTTTACCTACTATAAAGAT
CTCAATGATGTTTGGAACGAGTTTACTGATTTTAACGCCCT
Found at i:2228170 original size:24 final size:24
Alignment explanation
Indices: 2228119--2228171 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2228109 TTTCATTTAT
* * *
2228119 AATTAGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATGTA
2228143 AATTTGAGTTTGAATTTAAATGTA
1 AATTTGAGTTTGAATTTAAATGTA
2228167 AATTT
1 AATTT
2228172 CGGCTTCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATGTA
Found at i:2228874 original size:200 final size:200
Alignment explanation
Indices: 2228344--2229305 Score: 1285
Period size: 200 Copynumber: 4.8 Consensus size: 200
2228334 TTATTCATTC
* * * * ** *
2228344 GTGTCGATACATGTTGTCCATAATGT-TTTTCCAAACCAAGTGCACGAAAAAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAC-AACAAAGTGTCGATACAT
* *
2228408 TTATAACAAGTGTCGATACTAAAAACATCGAAACACAT-ATATATAATGTAATAGGTAAAATAAC
65 TTATAACAAGTGTCGATCCCAAAAACATCGAAACACATAAT-TATAATGTAATAGGTAAAATAAC
* *
2228472 AATGTAACAGGCCTAAATATACCGGTTTTTGAGAAAA-AAGGTATACATAAAGTATCGACACAAA
129 AATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAA-GTATACATAAAGTATCGACACAAA
2228536 TCCAACAA
193 TCCAACAA
* * ** **
2228544 GTGTCGATATTTTTTCTCC--A--GTATTTTCCAAACCAAGTGCATGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* * *
2228605 TATAACAAGTTTCGATACTAAAAACATCGAAACACATAGA-TATAATGTAATAGGTAAAATAACA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATA-ATTATAATGTAATAGGTAAAATAACA
* *
2228669 ATGTAACCGGCCTAAATATACCAGTTTTTGAGAAAACAAGTATACATAAAGTATCGACACAAATC
130 ATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACATAAAGTATCGACACAAATC
2228734 CAACAA
195 CAACAA
* *
2228740 GTGTCGATATTTTTTGTCCAGAGTGTATTTGAAAAACCAAGTGCACAACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* * *
2228805 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATAGGTAAAATAAAAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAAAATAACAA
* ** * *
2228870 TGTAACCAGTCTAAATATATTGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATCC
131 TGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACATAAAGTATCGACACAAATCC
2228935 AACAA
196 AACAA
* *
2228940 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAATGCACAACAAAGTATCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* * * * *
2229005 TATAACAAGTGTCGATCCCAAAAACTTGGAAACTCATAATTATAATGTAATTGGTAAAATAAAAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAAAATAACAA
* * * * *
2229070 TTTAAGCGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAATTATCGACACAAATCC
131 TGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACATAAAGTATCGACACAAATCC
2229135 AACAA
196 AACAA
* ** *
2229140 GTGTCGATACTTTTTGTCCAGAATGTATTTTCCAAACCAAGTGCACAAAAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* * * * * ** *
2229205 TATAACATGTGTTGATCCCAAATACATTGAAAC-CTATAATTATAATGTAATAGGTCACTTTACA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACAC-ATAATTATAATGTAATAGGTAAAATAACA
* *
2229269 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAA
130 ATGTAACCGGTCTAAATATACCGGTTTT-TGAGAAAA
2229306 TAGGTCAAAA
Statistics
Matches: 685, Mismatches: 66, Indels: 21
0.89 0.09 0.03
Matches are distributed among these distances:
196 163 0.24
197 20 0.03
198 3 0.00
199 2 0.00
200 489 0.71
201 8 0.01
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (200 bp):
GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAAAATAACAA
TGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTATACATAAAGTATCGACACAAATCC
AACAA
Found at i:2229428 original size:201 final size:201
Alignment explanation
Indices: 2229140--2229632 Score: 618
Period size: 201 Copynumber: 2.5 Consensus size: 201
2229130 AATCCAACAA
* * * * * ***
2229140 GTGTCGATACTTTTTGTCCAGAATGTATTTTCCAAACCAAGTGCACAAAAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATG-AATTCCCAAACTATGTGCACGTTAAAGTGTCGATACATT
* * * * * * *
2229205 TA-TAACATGTGTTGATCCCAAATACATTGAA-ACCTATAATTATAATGTAATAGGTCACTTTAC
65 TATTAA-AAGTATCGACCCCAAATACATTCAAGACCAAAAATTATAATGTAATAGGTCACTTTAC
* *
2229268 AATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAAAATAATGTATCGACACTTT
129 AATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAAAATAATGTAGCAACACTTT
**
2229333 ATTTATTT
194 ATACATTT
* *
2229341 GTGTCGATACTTTTTATCCATAATGAATTCCCAAACTATGTGCACGCTTAAAGTGTCGATATATT
1 GTGTCGATACTTTTTGTCCATAATGAATTCCCAAACTATGTGCACG-TTAAAGTGTCGATACATT
2229406 TATTAAAAGTATCGACCCCAAATACA-TCAAGACCAAAAATTATAATGTAATAGGTCACTTTACA
65 TATTAAAAGTATCGACCCCAAATACATTCAAGACCAAAAATTATAATGTAATAGGTCACTTTACA
* * * * * *
2229470 ATGTAACCGGTTTAAATTTATCGGTTTTATGAGCAAATAGGTCTATATAATGTAGCAATACTTTG
130 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAAAATAATGTAGCAACACTTTA
2229535 TACATTT
195 TACATTT
* * * *
2229542 GTGTCGATACTTTATGTCCATAATGAA-TGCC-AACTGATGTCCACGTATAAAGTTTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATGAATTCCCAAACT-ATGTGCACGT-TAAAGTGTCGATACAT
*
2229605 TTATAAAAAGTATCGACCCCAAATACAT
64 TTATTAAAAGTATCGACCCCAAATACAT
2229633 ACATTTATAA
Statistics
Matches: 252, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
199 5 0.02
200 70 0.28
201 174 0.69
202 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (201 bp):
GTGTCGATACTTTTTGTCCATAATGAATTCCCAAACTATGTGCACGTTAAAGTGTCGATACATTT
ATTAAAAGTATCGACCCCAAATACATTCAAGACCAAAAATTATAATGTAATAGGTCACTTTACAA
TGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAAAATAATGTAGCAACACTTTAT
ACATTT
Found at i:2229640 original size:32 final size:32
Alignment explanation
Indices: 2229599--2229664 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
2229589 TAAAGTTTCG
2229599 ATACATTTATAAAAAGTATCGACCCCAAATAC
1 ATACATTTATAAAAAGTATCGACCCCAAATAC
2229631 ATACATTTATAAAAAGTATCGACCCCAAATAC
1 ATACATTTATAAAAAGTATCGACCCCAAATAC
2229663 AT
1 AT
2229665 CGAGATCGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (32 bp):
ATACATTTATAAAAAGTATCGACCCCAAATAC
Found at i:2233320 original size:23 final size:23
Alignment explanation
Indices: 2233270--2233314 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2233260 TGTCTATTTT
* *
2233270 ATTATATAAGCGCTACTTATTAC
1 ATTATATAAGCGCTACCTAATAC
2233293 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
2233315 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:2233332 original size:87 final size:87
Alignment explanation
Indices: 2233186--2233348 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
2233176 AAATAGGTCA
2233186 ATATAAGCGCTACCTATTACATTATAGAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATAGAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
2233251 CCGGTTAAATGTCTATTTTATT
66 CCGGTTAAATGTCTATTTTATT
* * *
2233273 ATATAAGCGCTACTTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATAGAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
2233338 CCGGTTAAATG
66 CCGGTTAAATG
2233349 ATATAACATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATAGAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGTCTATTTTATT
Found at i:2233885 original size:20 final size:21
Alignment explanation
Indices: 2233842--2233886 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2233832 GATAAAAAAA
*
2233842 TTACCTAAAATATTATTATTT
1 TTACCTAAAACATTATTATTT
*
2233863 TTACCTAAAGCATTATT-TTT
1 TTACCTAAAACATTATTATTT
2233883 TTAC
1 TTAC
2233887 ATTTTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.51
Consensus pattern (21 bp):
TTACCTAAAACATTATTATTT
Found at i:2241871 original size:21 final size:21
Alignment explanation
Indices: 2241847--2241912 Score: 96
Period size: 21 Copynumber: 3.0 Consensus size: 21
2241837 TTTTTCATTT
*
2241847 AATTTTTTATTATTATTATTA
1 AATTTATTATTATTATTATTA
2241868 AATTTATTATTATTATTATTA
1 AATTTATTATTATTATTATTA
2241889 AATATTATTATTAGTATATTATTA
1 AAT-TTATTATTA-T-TATTATTA
2241913 TTAAATAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 23 0.56
22 9 0.22
23 1 0.02
24 8 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
AATTTATTATTATTATTATTA
Found at i:2241898 original size:31 final size:28
Alignment explanation
Indices: 2241860--2241926 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 28
2241850 TTTTTATTAT
*
2241860 TATTATTAAATTTATTATTATTATTATTAAA
1 TATTATT-AA-TTAGTA-TATTATTATTAAA
2241891 TATTATT-ATTAGTATATTATTATTAAA
1 TATTATTAATTAGTATATTATTATTAAA
2241918 TAATTATTA
1 T-ATTATTA
2241927 CAAGCCCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 14 0.42
28 11 0.33
29 1 0.03
31 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TATTATTAATTAGTATATTATTATTAAA
Found at i:2241908 original size:27 final size:25
Alignment explanation
Indices: 2241853--2241926 Score: 93
Period size: 21 Copynumber: 3.0 Consensus size: 25
2241843 ATTTAATTTT
2241853 TTATTATTATTATT-AA-A-T-TTA
1 TTATTATTATTATTAAATATTATTA
2241874 TTATTATTATTATTAAATATTATTA
1 TTATTATTATTATTAAATATTATTA
2241899 TTAGTATATTATTATTAAATAATTATTA
1 TTA-T-TATTATTATTAAAT-ATTATTA
2241927 CAAGCCCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
21 14 0.30
22 2 0.04
23 1 0.02
24 1 0.02
25 6 0.13
26 1 0.02
27 14 0.30
28 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
TTATTATTATTATTAAATATTATTA
Found at i:2241923 original size:14 final size:14
Alignment explanation
Indices: 2241879--2241926 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
2241869 ATTTATTATT
2241879 ATTATTATTAAAT-
1 ATTATTATTAAATA
*
2241892 ATTATTATT-AGTA
1 ATTATTATTAAATA
2241905 TATTATTATTAAATA
1 -ATTATTATTAAATA
2241920 ATTATTA
1 ATTATTA
2241927 CAAGCCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 2 0.07
13 9 0.30
14 16 0.53
15 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
ATTATTATTAAATA
Found at i:2241926 original size:3 final size:3
Alignment explanation
Indices: 2241853--2241915 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
2241843 ATTTAATTTT
* *
2241853 TTA TTA TTA TTA TTA -AA TTTA TTA TTA TTA TTA TTAA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
2241899 TTA GTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
2241916 AATAATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.06
3 45 0.88
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2243192 original size:12 final size:11
Alignment explanation
Indices: 2243160--2243220 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 11
2243150 ATATTTTAAC
2243160 TTAATTTATTTT
1 TTAA-TTATTTT
*
2243172 TTTATTATTTT
1 TTAATTATTTT
2243183 TTAA-TATATTT
1 TTAATTAT-TTT
* *
2243194 TAAATTATTACT
1 TTAATTATT-TT
2243206 TTAATTATTGTT
1 TTAATTATT-TT
2243218 TTA
1 TTA
2243221 CTATATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
10 3 0.08
11 17 0.44
12 19 0.49
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TTAATTATTTT
Found at i:2243249 original size:35 final size:33
Alignment explanation
Indices: 2243175--2243258 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 33
2243165 TTATTTTTTT
*
2243175 ATTATTTTTTAATATATTTTAAATTATTACTTTA
1 ATTATTTTTTAATATATTATAAATTATTAC-TTA
*
2243209 ATTATTGTTTTACTATATTATAAATATATATA-TTA
1 ATTATT-TTTTAATATATTATAAAT-TAT-TACTTA
*
2243244 TTTATTTATTTAATA
1 ATTATTT-TTTAATA
2243259 ATGTTTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
34 7 0.17
35 30 0.71
36 3 0.07
37 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (33 bp):
ATTATTTTTTAATATATTATAAATTATTACTTA
Found at i:2244081 original size:20 final size:21
Alignment explanation
Indices: 2244058--2244109 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
2244048 AGAAATTAAA
2244058 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
2244078 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
2244100 -ATT-ATTTATT
1 AATTCATTTATT
2244110 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:2251308 original size:114 final size:113
Alignment explanation
Indices: 2251106--2251322 Score: 353
Period size: 114 Copynumber: 1.9 Consensus size: 113
2251096 CCACGTTCTC
* * *
2251106 ATAGTAGAAATAAGGAGACCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 ATAGTAGAAATAAGGAGACCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGATTC
* *
2251171 GGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTGCTT
66 GGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGCTT
2251219 ATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGATT
1 ATAGTAGAAATAAGGAGACCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGATT
* * *
2251284 CGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGAT
65 CGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGAT
2251323 AAACTGCATA
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
113 21 0.22
114 74 0.78
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (113 bp):
ATAGTAGAAATAAGGAGACCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGATTC
GGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGCTT
Found at i:2254005 original size:22 final size:22
Alignment explanation
Indices: 2253975--2254029 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
2253965 AGATTCTCAC
* *
2253975 TTCAGAGATGACAAATTTTCTT
1 TTCAAAGATGACAAATTCTCTT
* * *
2253997 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAAATTCTCTT
2254019 TTCAAAGATGA
1 TTCAAAGATGA
2254030 AAGCTTTATG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGACAAATTCTCTT
Found at i:2254839 original size:79 final size:78
Alignment explanation
Indices: 2254708--2255018 Score: 554
Period size: 79 Copynumber: 4.0 Consensus size: 78
2254698 CTATTTCCCA
*
2254708 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCC-A
2254773 AAAAACCTTCGGGT
65 AAAAACCTTCGGGT
*
2254787 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
*
2254850 AAAGCCTTCGGGT
66 AAAACCTTCGGGT
2254863 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCC-A
2254928 AAAAACCTTCGGGT
65 AAAAACCTTCGGGT
2254942 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
*
2255007 AAAGCCTTCGGG
66 AAAACCTTCGGG
2255019 AGCTTTTTGA
Statistics
Matches: 223, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
76 74 0.33
78 13 0.06
79 136 0.61
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (78 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
AAAACCTTCGGGT
Found at i:2254963 original size:155 final size:156
Alignment explanation
Indices: 2254708--2255018 Score: 588
Period size: 155 Copynumber: 2.0 Consensus size: 156
2254698 CTATTTCCCA
2254708 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTCCAA
2254773 AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
66 AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
*
2254838 TTTGATGTTTTC-AAAGCCTTCGGGT
131 TTTGATGTTTCCAAAAGCCTTCGGGT
*
2254863 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTCCAA
2254928 AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
66 AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
2254993 TTTGATGTTTCCAAAAAGCCTTCGGG
131 TTTGATGTTTCC-AAAAGCCTTCGGG
2255019 AGCTTTTTGA
Statistics
Matches: 152, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
155 140 0.92
157 12 0.08
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (156 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTCCAA
AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
TTTGATGTTTCCAAAAGCCTTCGGGT
Found at i:2254999 original size:31 final size:31
Alignment explanation
Indices: 2254964--2255047 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
2254954 CTTCAGTGCA
2254964 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
2254995 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
2255026 TGATGTTTTC--AAAGCCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
2255048 TCATCTGTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
29 12 0.23
31 40 0.77
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:2255078 original size:107 final size:108
Alignment explanation
Indices: 2254885--2255123 Score: 403
Period size: 107 Copynumber: 2.2 Consensus size: 108
2254875 CTTCAGTGCA
2254885 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAAAAAAACCTTCGGGTCATCTGTA
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCC--AAAAACCTTCGGGTCATCTGTA
2254950 AGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
64 AGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* *
2254995 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGGTCATCTGTAAG
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAAAAACCTTCGGGTCATCTGTAAG
2255059 TCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 TCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* *
2255102 TGATATTT--TAAAAGCCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
2255124 TCATCTGTAA
Statistics
Matches: 125, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
105 13 0.10
107 72 0.58
110 40 0.32
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (108 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAAAAACCTTCGGGTCATCTGTAAG
TCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:2255088 original size:76 final size:76
Alignment explanation
Indices: 2254995--2255201 Score: 369
Period size: 76 Copynumber: 2.7 Consensus size: 76
2254985 GGGAGCTTTT
2254995 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
2255060 CCTTCAGTGCA
66 CCTTCAGTGCA
* *
2255071 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
2255136 CCTTCAGTGCA
66 CCTTCAGTGCA
*
2255147 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAAAAAGCCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--AAAGCCTTCGGG
2255202 AGCTTTTTGA
Statistics
Matches: 124, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
76 112 0.90
78 12 0.10
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCA
Found at i:2255182 original size:31 final size:31
Alignment explanation
Indices: 2255147--2255230 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
2255137 CTTCAGTGCA
2255147 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
2255178 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
2255209 TGATGTTTTC--AAAGCCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
2255231 TCATCTGTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
29 12 0.23
31 40 0.77
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:2255182 original size:107 final size:107
Alignment explanation
Indices: 2255071--2255266 Score: 356
Period size: 107 Copynumber: 1.8 Consensus size: 107
2255061 CTTCAGTGCA
*
2255071 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAAAAGCCTTCGGGTCATCTGTAAGC
2255136 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* *
2255178 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAAAAGCCTTCGGGTCATCTGTAAGC
*
2255243 CCTTCAGTGCATGATGTTTTCAAA
66 CCTTCAGTGCATGATGTTTCCAAA
2255267 CATTTCCATC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (107 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAAAAGCCTTCGGGTCATCTGTAAGC
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:2255226 original size:183 final size:184
Alignment explanation
Indices: 2254809--2255266 Score: 846
Period size: 183 Copynumber: 2.5 Consensus size: 184
2254799 CTTCAGTGCA
2254809 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
*
2254874 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAAAAAAACCTTCG
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTT-C-AAAAAACCTTCG
2254939 GGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
129 GGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
2254995 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
* *
2255060 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTT-TAAAAGCCTTCGGG
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCAAAAAACCTTCGGG
2255124 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
131 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
2255178 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
*
2255243 CCTTCAGTGCATGATGTTTTCAAA
66 CCTTCAGTGCATGATGTTTCCAAA
2255267 CATTTCCATC
Statistics
Matches: 267, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
183 153 0.57
186 114 0.43
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (184 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTCAAAAAACCTTCGGG
TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:2255403 original size:3 final size:3
Alignment explanation
Indices: 2255397--2255456 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
2255387 TAATTTTTTT
* *
2255397 TTA TTA TTA -AA TTTA TTA TTA TTA TTA TTA TTAA ATA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
*
2255443 GTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA
2255457 AATAATTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
2 3 0.06
3 41 0.85
4 4 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2255409 original size:18 final size:18
Alignment explanation
Indices: 2255397--2255456 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
2255387 TAATTTTTTT
2255397 TTATTATTAAATTTATTA
1 TTATTATTAAATTTATTA
* * *
2255415 TTATTATTATTATTAAATA
1 TTATTATTA-AATTTATTA
* *
2255434 TTATTATT-AGTATATTA
1 TTATTATTAAATTTATTA
2255451 TTATTA
1 TTATTA
2255457 AATAATTATT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
17 10 0.30
18 9 0.27
19 14 0.42
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTATTATTAAATTTATTA
Found at i:2255449 original size:27 final size:25
Alignment explanation
Indices: 2255397--2255467 Score: 108
Period size: 27 Copynumber: 2.8 Consensus size: 25
2255387 TAATTTTTTT
2255397 TTATTATTAAAT-TTATTATTATTA
1 TTATTATTAAATATTATTATTATTA
2255421 TTATTATTAAATATTATTATTAGTATA
1 TTATTATTAAATATTATTATTA-T-TA
2255448 TTATTATTAAATAATTATTA
1 TTATTATTAAAT-ATTATTA
2255468 CAAGCCCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
24 12 0.28
25 9 0.21
26 1 0.02
27 14 0.33
28 7 0.16
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
TTATTATTAAATATTATTATTATTA
Found at i:2255467 original size:3 final size:3
Alignment explanation
Indices: 2255409--2255456 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
2255399 ATTATTAAAT
* *
2255409 TTA TTA TTA TTA TTA TTA TTAA ATA TTA TTA TTA GTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
2255454 TTA
1 TTA
2255457 AATAATTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2256733 original size:22 final size:23
Alignment explanation
Indices: 2256708--2256767 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
2256698 ATATTTTAAC
*
2256708 TTAATTTATTTTTTATTATT-TT
1 TTAATTTATTTTTTATTATTACT
* **
2256730 TTAATATATTTTAAATTATTACT
1 TTAATTTATTTTTTATTATTACT
2256753 TTAA-TTATTGTTTTA
1 TTAATTTATT-TTTTA
2256768 CTATATTATA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTAATTTATTTTTTATTATTACT
Found at i:2256767 original size:12 final size:11
Alignment explanation
Indices: 2256708--2256767 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 11
2256698 ATATTTTAAC
2256708 TTAATTTATTTT
1 TTAA-TTATTTT
2256720 TT-ATTATTTT
1 TTAATTATTTT
2256730 TTAA-TATATTT
1 TTAATTAT-TTT
* *
2256741 TAAATTATTACT
1 TTAATTATT-TT
2256753 TTAATTATTGTT
1 TTAATTATT-TT
2256765 TTA
1 TTA
2256768 CTATATTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 12 0.31
11 9 0.23
12 18 0.46
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TTAATTATTTT
Found at i:2256796 original size:35 final size:33
Alignment explanation
Indices: 2256722--2256805 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 33
2256712 TTTATTTTTT
*
2256722 ATTATTTTTTAATATATTTTAAATTATTACTTTA
1 ATTATTTTTTAATATATTATAAATTATTAC-TTA
*
2256756 ATTATTGTTTTACTATATTATAAATATATATA-TTA
1 ATTATT-TTTTAATATATTATAAAT-TAT-TACTTA
*
2256791 TTTATTTATTTAATA
1 ATTATTT-TTTAATA
2256806 ATGTTTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
34 7 0.17
35 30 0.71
36 3 0.07
37 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (33 bp):
ATTATTTTTTAATATATTATAAATTATTACTTA
Found at i:2260425 original size:29 final size:29
Alignment explanation
Indices: 2260391--2260449 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2260381 GCTAAATTAA
2260391 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2260420 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2260449 T
1 T
2260450 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:2261490 original size:8 final size:8
Alignment explanation
Indices: 2261477--2261568 Score: 50
Period size: 8 Copynumber: 11.9 Consensus size: 8
2261467 TAGAGGGAAA
2261477 AAATGAAT
1 AAATGAAT
*
2261485 AAATGAAA
1 AAATGAAT
*
2261493 AAATGAAG
1 AAATGAAT
**
2261501 AATAAAAAT
1 AA-ATGAAT
*
2261510 AAGT-AA-
1 AAATGAAT
2261516 AAATGAAT
1 AAATGAAT
2261524 AAA--AAT
1 AAATGAAT
*
2261530 AAAAGGAA-
1 -AAATGAAT
*
2261538 AAATAAAT
1 AAATGAAT
*
2261546 AAATAAAT
1 AAATGAAT
*
2261554 AAATAAAT
1 AAATGAAT
2261562 AAATGAA
1 AAATGAA
2261569 ATATTAATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
6 6 0.09
7 12 0.18
8 41 0.62
9 7 0.11
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (8 bp):
AAATGAAT
Found at i:2261494 original size:16 final size:16
Alignment explanation
Indices: 2261473--2261569 Score: 62
Period size: 16 Copynumber: 6.2 Consensus size: 16
2261463 ATGTTAGAGG
2261473 GAAAAAATGAATAAAT
1 GAAAAAATGAATAAAT
*
2261489 GAAAAAATGAA-GAAT
1 GAAAAAATGAATAAAT
*
2261504 -AAAAATAAGTAA-AAAT
1 GAAAAA-ATG-AATAAAT
* *
2261520 GAATAAA--AATAAAA
1 GAAAAAATGAATAAAT
* *
2261534 GGAAAAATAAATAAAT
1 GAAAAAATGAATAAAT
*
2261550 -AAATAAATAAATAAAT
1 GAAA-AAATGAATAAAT
2261566 GAAA
1 GAAA
2261570 TATTAATATA
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
13 2 0.03
14 13 0.20
15 7 0.11
16 35 0.55
17 7 0.11
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (16 bp):
GAAAAAATGAATAAAT
Found at i:2261546 original size:22 final size:20
Alignment explanation
Indices: 2261501--2261548 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
2261491 AAAAATGAAG
* *
2261501 AATAAAAATAAGTAAAAATG
1 AATAAAAATAAGGAAAAATA
2261521 AATAAAAATAAAAGGAAAAATA
1 AATAAAAAT--AAGGAAAAATA
2261543 AATAAA
1 AATAAA
2261549 TAAATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAGGAAAAATA
Found at i:2261547 original size:4 final size:4
Alignment explanation
Indices: 2261538--2261571 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
2261528 ATAAAAGGAA
2261538 AAAT AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
2261572 TTAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2261582 original size:2 final size:2
Alignment explanation
Indices: 2261575--2261605 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2261565 TGAAATATTA
2261575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2261606 AATGAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2261833 original size:2 final size:2
Alignment explanation
Indices: 2261826--2261851 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2261816 GATAATTACA
2261826 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2261852 GGTAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2262542 original size:37 final size:37
Alignment explanation
Indices: 2262449--2262550 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
2262439 GTGCTTGTGG
* * ** * * *
2262449 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
*
2262486 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
2262523 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
2262551 TAGGACGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
Found at i:2263592 original size:106 final size:106
Alignment explanation
Indices: 2263286--2264234 Score: 1281
Period size: 106 Copynumber: 9.0 Consensus size: 106
2263276 ATTGTTCCGG
* * ** * *
2263286 GTCCAATATCC-TCTG-TCGTGCAGTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGACAA
1 GTCCAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
2263349 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGA
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* * * *
2263392 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT-TAA-T--GAAA-T-TTTGTTGACAATC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACC
* * * * *
2263451 ATCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG-
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGA
* * * *
2263492 GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTATTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACC
*
2263557 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* * **
2263598 GTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTATGAAATTAAGAAATTGTTTATTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACC
* * *
2263663 AGCGGTCCATTCGTCATGAAGTTGAACTTGCGTTATCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* *
2263704 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTTTTTATTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACC
*
2263769 AGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* * * *
2263810 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACC
2263875 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
*
2263916 GTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGAAATT-GGAAAGTTGTTTATTGACAAC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTATTGACAAC
* * *
2263980 CAGCGGTCTCTTCATCGTGAAGTTGAACTTGTGTTGTCTGGA
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* * *
2264022 GTCCAATATCCTTCGCTTTGAAGTTGAAATTGGATCTGAAATTGGGAAATTTTTTATTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACC
* *
2264087 AGCGGTCCCTTTGTCGTGAAGTTGAACTTGCTTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* * * * *
2264128 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATT-ATTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACC
* * * *
2264192 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
2264233 GT
1 GT
2264235 GGCAAGATAT
Statistics
Matches: 750, Mismatches: 81, Indels: 25
0.88 0.09 0.03
Matches are distributed among these distances:
100 78 0.10
101 5 0.01
102 5 0.01
104 3 0.00
105 56 0.07
106 595 0.79
107 8 0.01
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (106 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
Found at i:2265086 original size:22 final size:22
Alignment explanation
Indices: 2265060--2265115 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
2265050 TTGTGTTTGG
*
2265060 TCAAAGGTTTTACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
2265082 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
2265104 TCAAAGGTTTGA
1 TCAAAGGTTTGA
2265116 TGGGGTAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:2265730 original size:1 final size:1
Alignment explanation
Indices: 2265726--2265834 Score: 83
Period size: 1 Copynumber: 109.0 Consensus size: 1
2265716 TTGTTCTTTC
* * * * * * * * *
2265726 TTTTTTCTTTTATTTTCTTCTTTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTTCTTTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * * *
2265791 TTTTCCTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2265835 GTTCTGATTG
Statistics
Matches: 80, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:2265744 original size:17 final size:16
Alignment explanation
Indices: 2265722--2265834 Score: 120
Period size: 17 Copynumber: 6.6 Consensus size: 16
2265712 ATTTTTGTTC
2265722 TTTCTTTTTTCTTTTATTT
1 TTTCTTTTTTC--TT-TTT
2265741 TCTTCTTTTTTTCTTTTT
1 T-TTC-TTTTTTCTTTTT
*
2265759 TTTCTTTTTTTTCTTTT
1 TTTCTTTTTTCT-TTTT
2265776 TTTCTTTTTTTCTTTTT
1 TTTC-TTTTTTCTTTTT
*
2265793 TTCCTTTTTTC-TTTT
1 TTTCTTTTTTCTTTTT
2265808 TTTCTTTTTTTCTTTTTT
1 TTTC-TTTTTTC-TTTTT
2265826 TTTCTTTTT
1 TTTCTTTTT
2265835 GTTCTGATTG
Statistics
Matches: 83, Mismatches: 4, Indels: 16
0.81 0.04 0.16
Matches are distributed among these distances:
15 7 0.08
16 21 0.25
17 23 0.28
18 19 0.23
19 3 0.04
20 3 0.04
21 7 0.08
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTCTTTTTTCTTTTT
Found at i:2265758 original size:9 final size:9
Alignment explanation
Indices: 2265726--2265839 Score: 132
Period size: 8 Copynumber: 12.9 Consensus size: 9
2265716 TTGTTCTTTC
2265726 TTTTTTCTT
1 TTTTTTCTT
2265735 TTATTTTCTTCT
1 TT-TTTTC-T-T
2265747 TTTTTTCTT
1 TTTTTTCTT
2265756 TTTTTTCTT
1 TTTTTTCTT
2265765 TTTTTTC-T
1 TTTTTTCTT
2265773 TTTTTTC-T
1 TTTTTTCTT
2265781 TTTTTTC-T
1 TTTTTTCTT
*
2265789 TTTTTTC-C
1 TTTTTTCTT
2265797 TTTTTTC-T
1 TTTTTTCTT
2265805 TTTTTTC-T
1 TTTTTTCTT
2265813 TTTTTTCTTT
1 TTTTTTC-TT
2265823 TTTTTTCTT
1 TTTTTTCTT
*
2265832 TTTGTTCT
1 TTTTTTCT
2265840 GATTGAATCT
Statistics
Matches: 97, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
8 46 0.47
9 28 0.29
10 14 0.14
11 6 0.06
12 3 0.03
ACGTcount: A:0.01, C:0.13, G:0.01, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:2265805 original size:58 final size:57
Alignment explanation
Indices: 2265713--2265839 Score: 168
Period size: 58 Copynumber: 2.2 Consensus size: 57
2265703 TTCTTTTTGA
2265713 TTTTTGTTCTTTCTTTTTTCTTTTATTTTCTTCTTTTTTTCTTTTTTTTCTTTTTTTTC
1 TTTTT-TTCTTTCTTTTTTCTTTTATTTTCTTCTTTTTTTC-TTTTTTTCTTTTTTTTC
* *
2265772 TTTTTTTCTTT-TTTTCTTTTTTTCCTTTT-TTCTTTTTTTCTTTTTTTCTTTTTTTTTC
1 TTTTTTTCTTTCTTTT-TTCTTTT-ATTTTCTTCTTTTTTTCTTTTTTTC-TTTTTTTTC
2265830 TTTTTGTTCT
1 TTTTT-TTCT
2265840 GATTGAATCT
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
57 12 0.19
58 37 0.60
59 13 0.21
ACGTcount: A:0.01, C:0.13, G:0.02, T:0.84
Consensus pattern (57 bp):
TTTTTTTCTTTCTTTTTTCTTTTATTTTCTTCTTTTTTTCTTTTTTTCTTTTTTTTC
Found at i:2265834 original size:8 final size:8
Alignment explanation
Indices: 2265700--2265826 Score: 150
Period size: 8 Copynumber: 15.6 Consensus size: 8
2265690 TTTTTGTCCC
2265700 TTTTTCTT
1 TTTTTCTT
*
2265708 TTTGAT-TT
1 TTT-TTCTT
*
2265716 TTGTTCTT
1 TTTTTCTT
2265724 TCTTTT-TT
1 T-TTTTCTT
* *
2265732 CTTTTATT
1 TTTTTCTT
*
2265740 TTCTTCTT
1 TTTTTCTT
2265748 TTTTTCTTT
1 TTTTTC-TT
2265757 TTTTTCTTT
1 TTTTTC-TT
2265766 TTTTTCTT
1 TTTTTCTT
2265774 TTTTTCTT
1 TTTTTCTT
2265782 TTTTTCTT
1 TTTTTCTT
*
2265790 TTTTTCCT
1 TTTTTCTT
2265798 TTTTTCTT
1 TTTTTCTT
2265806 TTTTTCTT
1 TTTTTCTT
2265814 TTTTTCTT
1 TTTTTCTT
2265822 TTTTT
1 TTTTT
2265827 TTCTTTTTGT
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
7 5 0.05
8 77 0.75
9 21 0.20
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:2270315 original size:9 final size:9
Alignment explanation
Indices: 2270303--2270368 Score: 52
Period size: 8 Copynumber: 7.7 Consensus size: 9
2270293 ATGAAGAATA
*
2270303 AAAATAAGT
1 AAAATAAAT
2270312 AAAATAAAT
1 AAAATAAAT
2270321 AAAAATAAA-
1 -AAAATAAAT
*
2270330 AGGAA-AAAT
1 A-AAATAAAT
2270339 -AAATAAAT
1 AAAATAAAT
2270347 -AAATAAAT
1 AAAATAAAT
2270355 -AAATAAAT
1 AAAATAAAT
*
2270363 GAAATA
1 AAAATA
2270369 TATATATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
7 2 0.04
8 24 0.49
9 15 0.31
10 8 0.16
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (9 bp):
AAAATAAAT
Found at i:2270342 original size:4 final size:4
Alignment explanation
Indices: 2270335--2270368 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
2270325 ATAAAAGGAA
2270335 AAAT AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
2270369 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2270349 original size:30 final size:31
Alignment explanation
Indices: 2270272--2270353 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 31
2270262 GTTAGAGGGA
* * *
2270272 AAAAATGAATAAATGAA-AAAAATGAAGAAT
1 AAAAATAAATAAATAAATAAAAATGAAGAAG
*
2270302 AAAAATAAGTAAAATAAATAAAAAT-AA-AAGG
1 AAAAATAAAT-AAATAAATAAAAATGAAGAA-G
2270333 AAAAATAAATAAATAAATAAA
1 AAAAATAAATAAATAAATAAA
2270354 TAAATAAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 21 0.48
31 17 0.39
32 6 0.14
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (31 bp):
AAAAATAAATAAATAAATAAAAATGAAGAAG
Found at i:2270373 original size:2 final size:2
Alignment explanation
Indices: 2270366--2270394 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2270356 AATAAATGAA
2270366 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2270395 ATGAGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2272373 original size:2 final size:2
Alignment explanation
Indices: 2272366--2272407 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2272356 TAACTAGAAC
2272366 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2272408 TATTGTGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2275187 original size:59 final size:60
Alignment explanation
Indices: 2275088--2275264 Score: 178
Period size: 60 Copynumber: 3.0 Consensus size: 60
2275078 TGAATTTGGA
* * * * * * *
2275088 GATGAAA-TTGAATGATCTAAAAGTTTAAGAACCAACTTAGAATGAGATTCATTGTTT-GG
1 GATGAAATTTGAATGTTC-AAAAGTTTAAGGACAAATTTAGAATGAGAGTCATAGTTTAAG
* * *
2275147 GGTGAAATTTGAATGTTCAAAAGTTTACGGACTAATTTAGAATGAGAGTCATAGTTTAAG
1 GATGAAATTTGAATGTTCAAAAGTTTAAGGACAAATTTAGAATGAGAGTCATAGTTTAAG
* * * * * * *
2275207 GATGAAATTGGAATATTAAAAAGTTTAATGACAAATTTAAAATGAGTGTTATAGTTTA
1 GATGAAATTTGAATGTTCAAAAGTTTAAGGACAAATTTAGAATGAGAGTCATAGTTTA
2275265 GGAGCATATG
Statistics
Matches: 97, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
59 39 0.40
60 58 0.60
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (60 bp):
GATGAAATTTGAATGTTCAAAAGTTTAAGGACAAATTTAGAATGAGAGTCATAGTTTAAG
Found at i:2277259 original size:54 final size:57
Alignment explanation
Indices: 2277171--2277297 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 57
2277161 ATATGACCTC
* *
2277171 AAACTATGA-TCTTTATTTTAAATTAGTCTATAAACTT-TT-TT-AAATTTCATCCTA
1 AAACTATGACTC-TCATTTTAAATTAGCCTATAAACTTGTTATTCAAATTTCATCCTA
* *
2277225 AAACTATGACTCTCATTTTAAATTAGACCT-TAAACTTGTTAACATTCCAATTTCATCCTC
1 AAACTATGACTCTCATTTTAAATTAG-CCTATAAACTTGTT---ATTCAAATTTCATCCTA
2277285 AAACTATGACTCT
1 AAACTATGACTCT
2277298 TATTCTAAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
54 29 0.48
55 6 0.10
59 2 0.03
60 24 0.39
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.42
Consensus pattern (57 bp):
AAACTATGACTCTCATTTTAAATTAGCCTATAAACTTGTTATTCAAATTTCATCCTA
Found at i:2277759 original size:2 final size:2
Alignment explanation
Indices: 2277752--2277799 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
2277742 TTCATATTCG
2277752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2277794 AT AT AT
1 AT AT AT
2277800 CATGCAGAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2286622 original size:39 final size:39
Alignment explanation
Indices: 2286521--2286631 Score: 127
Period size: 39 Copynumber: 2.8 Consensus size: 39
2286511 TTATTTATAA
* * *
2286521 TTCTCAAATTATTTCACTCTAACATTCAAAATTCCTAAT
1 TTCTTAAATTATTTCACTATAACATTCTAAATTCCTAAT
* * *
2286560 TTCTTAAA--ATTTACCACCATAACATTCTAAATTCTTGAT
1 TTCTTAAATTATTT--CACTATAACATTCTAAATTCCTAAT
*
2286599 TTCTTAAATTATTTCACTTTAACATTCTAAATT
1 TTCTTAAATTATTTCACTATAACATTCTAAATT
2286632 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
37 4 0.07
39 52 0.87
41 4 0.07
ACGTcount: A:0.35, C:0.20, G:0.01, T:0.44
Consensus pattern (39 bp):
TTCTTAAATTATTTCACTATAACATTCTAAATTCCTAAT
Found at i:2288017 original size:182 final size:182
Alignment explanation
Indices: 2287695--2288149 Score: 680
Period size: 182 Copynumber: 2.5 Consensus size: 182
2287685 ACTTTTTTAC
* * *
2287695 TACCGATTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * * *
2287760 TACATTTTTATAAAGTATCAACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAC
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAC
* * * *
2287825 TGCTGATACTTATAATAAAGTAGCGACAGTTTCAACATATACAGTAGCTCTT
131 TGCTGATACTTATAATAAAGCAGCGACACTATCAACATATACAGTAGCGCTT
*
2287877 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* *
2287942 TACCTTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAC
* * *
2288007 TG-TCGATACTTATAATAAAGCATCGACACTATCAACATATCCGGTAGCGCTT
131 TGCT-GATACTTATAATAAAGCAGCGACACTATCAACATATACAGTAGCGCTT
* ** * * *
2288059 TACCTGTTTTGTCATTTATAGACCGGTTTTGTCAT-TTTTTACCTGCTATATTGTTATAGATAGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
2288123 TACATTTTTATAAAGTATCGACACTTT
66 TACATTTTTATAAAGTATCGACACTTT
2288150 CAATATATCC
Statistics
Matches: 247, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 52 0.21
182 195 0.79
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAC
TGCTGATACTTATAATAAAGCAGCGACACTATCAACATATACAGTAGCGCTT
Found at i:2288220 original size:111 final size:111
Alignment explanation
Indices: 2288021--2288480 Score: 742
Period size: 111 Copynumber: 4.1 Consensus size: 111
2288011 GATACTTATA
* * *
2288021 ATAAAGCATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
2288086 TTTGTCATTTTTTACCTGCTATATTGTTATAGATAGATACATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATAGATACATTTTT
*
2288132 ATAAAGTATCGACACTTTCAATATATCCGGTAGTGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
2288197 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATAGATACATTTTT
* * * *
2288243 ATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTACATGTTTTGTCATTTATAGATCAGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
2288308 TTTGTCATTTTTTACCTATTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATAGATACATTTTT
* *
2288354 ATAAAGTATCGACACTTTCAATTTATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
2288419 TTTGTCATTTTTTTACATGTTATATTGTTATGGATCA-ATATATTTTT
66 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGAT-AGATACATTTTT
2288466 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
2288481 AAACCGGCAA
Statistics
Matches: 326, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
111 277 0.85
112 49 0.15
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTACCTGTTATATTGTTATGGATAGATACATTTTT
Found at i:2288956 original size:17 final size:18
Alignment explanation
Indices: 2288920--2289012 Score: 53
Period size: 18 Copynumber: 4.9 Consensus size: 18
2288910 TGTTAGAGGG
*
2288920 AAAAAATGAATAAATGAA
1 AAAAAATGAATAAATAAA
*
2288938 AAAAAATGAA-GAATAAA
1 AAAAAATGAATAAATAAA
* * * *
2288955 AATAAGTAAAAAAATAAA
1 AAAAAATGAATAAATAAA
*
2288973 AATAAAAGGAAAGTAAATAAA
1 AA-AAAATG-AA-TAAATAAA
*
2288994 TAAATAAATAAATGAAATA
1 -AAA-AAATGAAT-AAATA
2289013 TTATATATAT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
17 12 0.22
18 18 0.33
19 2 0.04
20 3 0.05
21 15 0.27
22 5 0.09
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
AAAAAATGAATAAATAAA
Found at i:2288986 original size:25 final size:24
Alignment explanation
Indices: 2288937--2288997 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
2288927 GAATAAATGA
*
2288937 AAAAAAATGAAGAATAAAAATAAGT
1 AAAAAAAT-AAAAATAAAAATAAGT
2288962 AAAAAAATAAAAATAAAAGGA-AAGT
1 AAAAAAATAAAAATAAAA--ATAAGT
*
2288987 AAATAAATAAA
1 AAAAAAATAAA
2288998 TAAATAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 9 0.28
25 22 0.69
26 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (24 bp):
AAAAAAATAAAAATAAAAATAAGT
Found at i:2289356 original size:22 final size:21
Alignment explanation
Indices: 2289318--2289358 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
2289308 ATATATATAT
2289318 AAATAATATTAAAAAATAACC
1 AAATAATATTAAAAAATAACC
2289339 AAATGAATA-TAAATAAATAA
1 AAAT-AATATTAAA-AAATAA
2289359 AAAATATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
AAATAATATTAAAAAATAACC
Done.