Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009573.1 Hibiscus syriacus cultivar Beakdansim tig00116938_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: 1247605
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 6
Found at i:1111242 original size:4 final size:4
Alignment explanation
Indices: 1111223--1111279 Score: 62
Period size: 4 Copynumber: 13.8 Consensus size: 4
1111213 TGTACTTATG
* *
1111223 TTTA TTTAA TTT- TTTA TTTA TGTTG TTTT TTTA CTTTA TTTA TTTA TTTA
1 TTTA TTT-A TTTA TTTA TTTA T-TTA TTTA TTTA -TTTA TTTA TTTA TTTA
1111273 TTTA TTT
1 TTTA TTT
1111280 TACTATTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.07
4 32 0.70
5 11 0.24
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:1116361 original size:113 final size:109
Alignment explanation
Indices: 1116223--1116490 Score: 378
Period size: 113 Copynumber: 2.4 Consensus size: 109
1116213 TCCTTATAGA
* * * * *
1116223 ATGTTTTCGAATGAACTTTTAAAAGAAGTTAAGCCTAATTTTTGGGGGTTTCTTGATGTTT-TCA
1 ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTCT-A
* *
1116287 AATGAGTTTTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATG
65 AATGAG---TTTTTAGAAACTAAG-CTGATTTTCAGGAGTTTATTGATG
*
1116336 ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTTTTGATGTTTCTAA
1 ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTCTAA
1116401 ATGAGTTTTTAGAAACTAAGCTGATTTTCAGGAGTTTATTGATG
66 ATGAGTTTTTAGAAACTAAGCTGATTTTCAGGAGTTTATTGATG
* *
1116445 ATTATTTCCAAA-GAATTTTTAAAAGAAGCTAAGCATAATTTTTAGG
1 A-TGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGG
1116491 AGTTCTTAAT
Statistics
Matches: 143, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
109 56 0.39
110 24 0.17
113 62 0.43
114 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (109 bp):
ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTCTAA
ATGAGTTTTTAGAAACTAAGCTGATTTTCAGGAGTTTATTGATG
Found at i:1116478 original size:109 final size:111
Alignment explanation
Indices: 1116232--1116490 Score: 382
Period size: 109 Copynumber: 2.3 Consensus size: 111
1116222 AATGTTTTCG
* * *
1116232 AATGAACTTTTAAAAGAAGTTAAGCCTAATTTTTGGGGGTTTCTTGATGTTTTCAAATGAGTTTT
1 AATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAG--TT
* * *
1116297 TTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGTTTCCA
64 TTTTAGAAACTAAGCCTGATTTTCAGGAGTTTATTGATGATATTTCCA
*
1116345 AATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTTTTGATG-TTTCTAAATGAG-TT
1 AATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTC-AAATGAGTTT
1116408 TTTAGAAACTAAG-CTGATTTTCAGGAGTTTATTGATGATTATTTCCA
65 TTTAGAAACTAAGCCTGATTTTCAGGAGTTTATTGATGA-TATTTCCA
*
1116455 AA-GAATTTTTAAAAGAAGCTAAGCATAATTTTTAGG
1 AATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGG
1116491 AGTTCTTAAT
Statistics
Matches: 136, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
109 56 0.41
110 24 0.18
112 4 0.03
113 52 0.38
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (111 bp):
AATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAGTTTT
TTAGAAACTAAGCCTGATTTTCAGGAGTTTATTGATGATATTTCCA
Found at i:1116492 original size:58 final size:58
Alignment explanation
Indices: 1116223--1116503 Score: 262
Period size: 55 Copynumber: 5.0 Consensus size: 58
1116213 TCCTTATAGA
* * * * *
1116223 ATGTTTTCGAATGAACTTTTAAAAGAAGTTAAGCCTAATTTTTGGGGGTTTCTTGATG
1 ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
* *** * * *
1116281 -T-TTT-CAAATGAGTTTTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATG
1 ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
1116336 ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTT-TT--TG
1 ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
* * * * * * *
1116391 ATGTTTCTAAATGAGTTTTT---AGAAACTAAG-CTGATTTTCAGGAGTTTATTGATG
1 ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
* * * *
1116445 ATTATTTCCAAA-GAATTTTTAAAAGAAGCTAAGCATAATTTTTAGGAG-TTCTTAATG
1 A-TGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
1116502 AT
1 AT
1116504 AACTGAAAAC
Statistics
Matches: 179, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
51 14 0.08
52 11 0.06
54 10 0.06
55 68 0.38
56 5 0.03
57 23 0.13
58 48 0.27
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (58 bp):
ATGTTTCCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
Found at i:1116858 original size:38 final size:39
Alignment explanation
Indices: 1116730--1117081 Score: 374
Period size: 38 Copynumber: 9.1 Consensus size: 39
1116720 AAGGATCAAC
*
1116730 ATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * * * *
1116769 ATTTCGTTTAAGATAGTTTCACTAGAAACAGAATATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
* * *
1116809 ATCTCGCTTGAGATAGTTTCACTTGAAATAGAATA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * * *
1116847 ATATCGTTTGAGATAGTTTCACACGAAACATAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
** * *
1116886 ATCTCGCTTGAGATAGTTTTTCTCGAAACATAATA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * * *
1116924 ATCTCGCTTAAGATAGTGTCACTCAAAATAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
1116962 ATCTCGCTTGAGATATTTTCACTCGAAACAGAAG-TTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
1117000 ATCTCAG-TTGAGACAGTTTCACTCGAAATAGAAGATTTT
1 ATCTC-GCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * * * * *
1117039 ATATCGCTTGAGACATTTTCAGTCAAAACATAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1117078 -TCTC
1 ATCTC
1117082 ACTTAATATT
Statistics
Matches: 260, Mismatches: 47, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
38 129 0.50
39 97 0.37
40 34 0.13
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:1117065 original size:115 final size:116
Alignment explanation
Indices: 1116730--1117081 Score: 422
Period size: 115 Copynumber: 3.0 Consensus size: 116
1116720 AAGGATCAAC
* * * *
1116730 ATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATTTCGTTTAAGATAGTTTCACTAGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
** *
1116795 AACAGAATATTTTTATCTCGCTTGAGATAGTTTCACTTGAAATAGAATATTT
66 AACAGAATA-TTTTATCTCGCTTGAGATAGTTTCACTCAAAATAGAAGATTT
* * * **
1116847 ATATCGTTTGAGATAGTTTCACACGAAACATAAGATTTTATCTCGCTTGAGATAGTTTTTCTCGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
* * *
1116912 AACATAATA-TTTATCTCGCTTAAGATAGTGTCACTCAAAATAGAAGATTT
66 AACAGAATATTTTATCTCGCTTGAGATAGTTTCACTCAAAATAGAAGATTT
* * *
1116962 ATCTCGCTTGAGATATTTTCACTCGAAACAGAAG-TTTTATCTCAG-TTGAGACAGTTTCACTCG
1 ATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTC-GCTTGAGATAGTTTCACTCG
* * * * * * * *
1117025 AAATAGAAGATTTTATATCGCTTGAGACATTTTCAGTCAAAACATAAGATTT
65 AAACAGAATATTTTATCTCGCTTGAGATAGTTTCACTCAAAATAGAAGATTT
*
1117077 TTCTC
1 ATCTC
1117082 ACTTAATATT
Statistics
Matches: 198, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
114 31 0.16
115 103 0.52
117 64 0.32
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (116 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
AACAGAATATTTTATCTCGCTTGAGATAGTTTCACTCAAAATAGAAGATTT
Found at i:1117068 original size:77 final size:77
Alignment explanation
Indices: 1116730--1117081 Score: 374
Period size: 77 Copynumber: 4.6 Consensus size: 77
1116720 AAGGATCAAC
* * *
1116730 ATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATTTCGTTTAAGATAGTTTCACTAGA
1 ATCTCGCTTGAGATATTTTCACTCGAAACATAAG-TTTTATCTCGTTTAAGATAGTTTCACTCGA
*
1116795 AACAGAATATTTTT
65 AACAGAAGA-TTTT
* * * * * * *
1116809 ATCTCGCTTGAGATAGTTTCACTTGAAATAGAA-TATTTATATCGTTTGAGATAGTTTCACACGA
1 ATCTCGCTTGAGATATTTTCACTCGAAACATAAGT-TTTATCTCGTTTAAGATAGTTTCACTCGA
*
1116873 AACATAAGATTTT
65 AACAGAAGATTTT
* * * *
1116886 ATCTCGCTTGAGATAGTTTT-TCTCGAAACATAA-TATTTATCTCGCTTAAGATAGTGTCACTCA
1 ATCTCGCTTGAGATA-TTTTCACTCGAAACATAAGT-TTTATCTCGTTTAAGATAGTTTCACTCG
*
1116949 AAATAGAAGA-TTT
64 AAACAGAAGATTTT
* * *
1116962 ATCTCGCTTGAGATATTTTCACTCGAAACAGAAGTTTTATCTCAG-TTGAGACAGTTTCACTCGA
1 ATCTCGCTTGAGATATTTTCACTCGAAACATAAGTTTTATCTC-GTTTAAGATAGTTTCACTCGA
*
1117026 AATAGAAGATTTT
65 AACAGAAGATTTT
* * * *
1117039 ATATCGCTTGAGACATTTTCAGTCAAAACATAAGATTTT-TCTC
1 ATCTCGCTTGAGATATTTTCACTCGAAACATAAG-TTTTATCTC
1117082 ACTTAATATT
Statistics
Matches: 233, Mismatches: 33, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
75 4 0.02
76 61 0.26
77 99 0.42
78 39 0.17
79 30 0.13
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (77 bp):
ATCTCGCTTGAGATATTTTCACTCGAAACATAAGTTTTATCTCGTTTAAGATAGTTTCACTCGAA
ACAGAAGATTTT
Found at i:1117087 original size:153 final size:153
Alignment explanation
Indices: 1116733--1117087 Score: 414
Period size: 153 Copynumber: 2.3 Consensus size: 153
1116723 GATCAACATC
* * * *
1116733 TCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATTTCGTTTAAGATAGTTTCACTAGAAAC
1 TCGCTTGAGATATTTTCA-TCGAAACATAAGATTTT-TCTCGCTTAAGATAGTGTCACTAGAAAC
* * * *
1116798 AGAATATTTTTATCTCGCTTGAGATAGTTTCACTTGAAATAGAATATTTATATCGTTTGAGATAG
64 AGAAGA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAATATTTATATCGTTTGAGACAG
* *
1116863 TTTCACACGAAACATAAGATTTTATC
128 TTTCACACGAAACAGAAGATTTTATA
* *
1116889 TCGCTTGAGATAGTTTTTC-TCGAAACATAATATTTATCTCGCTTAAGATAGTGTCACTCA-AAA
1 TCGCTTGAGATA--TTTTCATCGAAACATAAGATTTTTCTCGCTTAAGATAGTGTCACT-AGAAA
* * *
1116952 TAGAAGA-TTTATCTCGCTTGAGATATTTTCACTCGAAACAGAAGT-TTTATCTCAG-TTGAGAC
63 CAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAA-TATTTATATC-GTTTGAGAC
* *
1117014 AGTTTCACTCGAAATAGAAGATTTTATA
126 AGTTTCACACGAAACAGAAGATTTTATA
* * *
1117042 TCGCTTGAGACATTTTCAGTCAAAACATAAGATTTTTCTCACTTAA
1 TCGCTTGAGATATTTTCA-TCGAAACATAAGATTTTTCTCGCTTAA
1117088 TATTGTTTTT
Statistics
Matches: 170, Mismatches: 22, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
151 5 0.03
153 104 0.61
154 2 0.01
155 27 0.16
156 28 0.16
158 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (153 bp):
TCGCTTGAGATATTTTCATCGAAACATAAGATTTTTCTCGCTTAAGATAGTGTCACTAGAAACAG
AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAATATTTATATCGTTTGAGACAGTTT
CACACGAAACAGAAGATTTTATA
Found at i:1117209 original size:60 final size:60
Alignment explanation
Indices: 1117111--1117347 Score: 257
Period size: 61 Copynumber: 4.0 Consensus size: 60
1117101 AAAACAAACT
* * * * * *
1117111 ACGCCCCACCA-AAGGG-TCAATATTTCCTTTGCTAGATT-CACAACACTTCGAATCAGTA
1 ACGCCCCACCAGAGGGGAT-AACATTTCTTTTGCTAAATTACACAACACTTCAAATCAGCA
* * * ** *
1117169 ACACCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATT-CACAGCACTTCAAATCAGCA
1 ACGCCCCACCAGAGGGGATAACATTT-CTTTTGCTAAATTACACAACACTTCAAATCAGCA
* * *
1117229 ACGCCCCACCAGAGTGGATAACATTTCTTTTGCTCAATTCACACAACACTTCAAATCAACA
1 ACGCCCCACCAGAGGGGATAACATTTCTTTTGCTAAATT-ACACAACACTTCAAATCAGCA
* *
1117290 ATGCCCCACCAGAGGGGATAGCATTTCTTTTGCTAAATTCACACAACACTTCAAATCA
1 ACGCCCCACCAGAGGGGATAACATTTCTTTTGCTAAATT-ACACAACACTTCAAATCA
1117348 ACGACGCATC
Statistics
Matches: 154, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
58 10 0.06
59 21 0.14
60 51 0.33
61 72 0.47
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (60 bp):
ACGCCCCACCAGAGGGGATAACATTTCTTTTGCTAAATTACACAACACTTCAAATCAGCA
Found at i:1117299 original size:61 final size:61
Alignment explanation
Indices: 1117149--1117354 Score: 263
Period size: 61 Copynumber: 3.4 Consensus size: 61
1117139 TTGCTAGATT
* ** * * * *
1117149 CACAACACTTCGAATCAGTAACACCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATT--
1 CACAACACTTCAAATCAACAACGCCCCACCAGAGGGGATAACATTT-CTTTTGCTCAATTCA
* * *
1117209 CACAGCACTTCAAATCAGCAACGCCCCACCAGAGTGGATAACATTTCTTTTGCTCAATTCA
1 CACAACACTTCAAATCAACAACGCCCCACCAGAGGGGATAACATTTCTTTTGCTCAATTCA
* * *
1117270 CACAACACTTCAAATCAACAATGCCCCACCAGAGGGGATAGCATTTCTTTTGCTAAATTCA
1 CACAACACTTCAAATCAACAACGCCCCACCAGAGGGGATAACATTTCTTTTGCTCAATTCA
*
1117331 CACAACACTTCAAATCAACGACGC
1 CACAACACTTCAAATCAACAACGC
1117355 ATCACTCAAG
Statistics
Matches: 128, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
59 11 0.09
60 40 0.31
61 77 0.60
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (61 bp):
CACAACACTTCAAATCAACAACGCCCCACCAGAGGGGATAACATTTCTTTTGCTCAATTCA
Found at i:1117376 original size:61 final size:60
Alignment explanation
Indices: 1117111--1117377 Score: 249
Period size: 61 Copynumber: 4.4 Consensus size: 60
1117101 AAAACAAACT
* * * * * **
1117111 ACGCCCCACCAAAGGG-TCAATATTTCCTTTGCTAGATT--CACAACACTTCGAATCAGTA
1 ACGCCCCACCAGAGGGAT-AACATTTCTTTTGCTAAATTCACACAACACTTCAAATCAACA
* * * ** * *
1117169 ACACCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATT--CACAGCACTTCAAATCAGCA
1 ACGCCCCACCAGA-GGGATAACATTT-CTTTTGCTAAATTCACACAACACTTCAAATCAACA
*
1117229 ACGCCCCACCAGAGTGGATAACATTTCTTTTGCTCAATTCACACAACACTTCAAATCAACA
1 ACGCCCCACCAGAG-GGATAACATTTCTTTTGCTAAATTCACACAACACTTCAAATCAACA
* * *
1117290 ATGCCCCACCAGAGGGGATAGCATTTCTTTTGCTAAATTCACACAACACTTCAAATCAACG
1 ACGCCCCACCAGA-GGGATAACATTTCTTTTGCTAAATTCACACAACACTTCAAATCAACA
**
1117351 ACGCATCACTCA-AGGGATCAACATTTC
1 ACGCCCCAC-CAGAGGGAT-AACATTTC
1117378 CAGTAGAGAT
Statistics
Matches: 177, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
58 11 0.06
59 21 0.12
60 55 0.31
61 87 0.49
62 3 0.02
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.24
Consensus pattern (60 bp):
ACGCCCCACCAGAGGGATAACATTTCTTTTGCTAAATTCACACAACACTTCAAATCAACA
Found at i:1118711 original size:110 final size:110
Alignment explanation
Indices: 1118531--1118757 Score: 267
Period size: 110 Copynumber: 2.1 Consensus size: 110
1118521 AACGTTTTAA
* *
1118531 GTCCCCCAAACTTTCACGTATTTTTACAAAATGGTCACTGTCAATGACCATTTTTATAACTTTCC
1 GTCCCCCAAACTTTCACGTATTTTTACAAAATAGTCACTGTCAATGACCATTTTCATAACTTTCC
* ** * ** * *
1118596 TATTTATTTGTATTTTTTGTATTTTTTGGTAAAATATCATTCTAG
66 CATTTACATGCATGCTTTATATTTTTTGGTAAAATATCATTCCAG
** * * *** *
1118641 GTCCCCCAAACTTTGTCGTGTTTTTTCAAAATAGTCACTGTC-ATGGATTGTTTTCATAATTTTC
1 GTCCCCCAAACTTTCACGTATTTTTACAAAATAGTCACTGTCAAT-GACCATTTTCATAACTTTC
*
1118705 CCATTTACATGCATGCTTTATATTTTTTGGTAAAATCTCATTCCAG
65 CCATTTACATGCATGCTTTATATTTTTTGGTAAAATATCATTCCAG
1118751 GTCCCCC
1 GTCCCCC
1118758 TATGTTTGTT
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
109 2 0.02
110 95 0.98
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.44
Consensus pattern (110 bp):
GTCCCCCAAACTTTCACGTATTTTTACAAAATAGTCACTGTCAATGACCATTTTCATAACTTTCC
CATTTACATGCATGCTTTATATTTTTTGGTAAAATATCATTCCAG
Found at i:1118883 original size:20 final size:21
Alignment explanation
Indices: 1118839--1118883 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1118829 ATTTTATTTT
1118839 ATTTTAATTTAGTCACTATTA
1 ATTTTAATTTAGTCACTATTA
* *
1118860 ATTTTGATTTAGTTACTA-TA
1 ATTTTAATTTAGTCACTATTA
1118880 ATTT
1 ATTT
1118884 CATTTTTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTTTAATTTAGTCACTATTA
Found at i:1118904 original size:50 final size:49
Alignment explanation
Indices: 1118846--1118968 Score: 133
Period size: 51 Copynumber: 2.5 Consensus size: 49
1118836 TTTATTTTAA
**
1118846 TTTAGTCACTATTAATTTTGATTTAGTTACTATAATTTCATTTT-TTGCAT
1 TTTAGTCACTATTAATTTT-ATTTAACTACTA-AATTTCATTTTCTTGCAT
* * * *
1118896 TTTGGTCACTATTTACTTCTTATTTAACTACTAACTTTTATTTTCTTGCAT
1 TTTAGTCACTA-TTAATT-TTATTTAACTACTAAATTTCATTTTCTTGCAT
*
1118947 TTTAGTCACTGTT-ATTTTATTT
1 TTTAGTCACTATTAATTTTATTT
1118969 TATGCAAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
48 6 0.10
49 2 0.03
50 21 0.34
51 30 0.49
52 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (49 bp):
TTTAGTCACTATTAATTTTATTTAACTACTAAATTTCATTTTCTTGCAT
Found at i:1119013 original size:12 final size:12
Alignment explanation
Indices: 1118996--1119060 Score: 64
Period size: 12 Copynumber: 5.3 Consensus size: 12
1118986 TGTATTTCTG
1118996 TTTATTTTATTT
1 TTTATTTTATTT
1119008 TTTA-TTTATGTT
1 TTTATTTTAT-TT
1119020 TTT-TTTTACTTT
1 TTTATTTTA-TTT
*
1119032 TTTA-TGTATTT
1 TTTATTTTATTT
1119043 ATTTATTTTATTAT
1 -TTTATTTTATT-T
1119057 TTTA
1 TTTA
1119061 ATTAAGTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
11 8 0.18
12 25 0.57
13 10 0.23
14 1 0.02
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:1119024 original size:16 final size:16
Alignment explanation
Indices: 1118996--1119060 Score: 71
Period size: 16 Copynumber: 4.0 Consensus size: 16
1118986 TGTATTTCTG
1118996 TTTATTTTATTTTTTA
1 TTTATTTTATTTTTTA
1119012 TTTATGTTT-TTTTTTA
1 TTTAT-TTTATTTTTTA
* *
1119028 CTT-TTTTATGTATTTA
1 TTTATTTTAT-TTTTTA
1119044 TTTATTTTATTATTTTA
1 TTTATTTTATT-TTTTA
1119061 ATTAAGTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
14 3 0.08
15 2 0.05
16 22 0.55
17 13 0.32
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTATTTTATTTTTTA
Found at i:1119035 original size:20 final size:19
Alignment explanation
Indices: 1119001--1119056 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
1118991 TTCTGTTTAT
*
1119001 TTTATTT-TTTATTTATGTT
1 TTTATTTATTT-TTTATGTA
*
1119020 TTTTTTTACTTTTTTATGTA
1 TTTATTTA-TTTTTTATGTA
1119040 TTTATTTATTTTATTAT
1 TTTATTTATTTT-TTAT
1119057 TTTAATTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 10 0.32
20 18 0.58
21 3 0.10
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTATTTATTTTTTATGTA
Found at i:1121948 original size:12 final size:12
Alignment explanation
Indices: 1121933--1121958 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1121923 ATATGTGTGT
1121933 GAGAGAGAGAAA
1 GAGAGAGAGAAA
1121945 GAGAGAGAGAAA
1 GAGAGAGAGAAA
1121957 GA
1 GA
1121959 AGATGGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
GAGAGAGAGAAA
Found at i:1122221 original size:16 final size:16
Alignment explanation
Indices: 1122178--1122243 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
1122168 TTAAAATTCT
* *
1122178 TTTTTTAAACATTTACA
1 TTTTTTAAA-ATATATA
1122195 TTTATTT-AAATATATA
1 TTT-TTTAAAATATATA
1122211 TTTTTTAAAATATA-A
1 TTTTTTAAAATATATA
** *
1122226 CATTCTAAAATATATA
1 TTTTTTAAAATATATA
1122242 TT
1 TT
1122244 AAAATATCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
15 15 0.38
16 16 0.41
17 5 0.13
18 3 0.08
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTTTAAAATATATA
Found at i:1123227 original size:40 final size:36
Alignment explanation
Indices: 1123183--1123262 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 36
1123173 GTTGTTAGGA
* *
1123183 ATATTAATGCTCCCTTCAACTGAATTTAAGTTGTATTAAT
1 ATATTAAAGCTCCC-T--ACTGAATTTAA-TTATATTAAT
*
1123223 ATATTAAAGTTCCCTACTGAATTTAATTATATTAAT
1 ATATTAAAGCTCCCTACTGAATTTAATTATATTAAT
1123259 ATAT
1 ATAT
1123263 AAAATATCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 13 0.35
37 11 0.30
39 1 0.03
40 12 0.32
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (36 bp):
ATATTAAAGCTCCCTACTGAATTTAATTATATTAAT
Found at i:1123730 original size:25 final size:25
Alignment explanation
Indices: 1123676--1123742 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
1123666 GCTCGACACG
* * *
1123676 AACTCGAAATAAAAAATTGAAGCTC
1 AACTCGAAATCAAAAATTAAAACTC
* *
1123701 GACTCGAAATCAAAAATTAAAACTT
1 AACTCGAAATCAAAAATTAAAACTC
1123726 AACTCGAAATCGAAAAA
1 AACTCGAAATC-AAAAA
1123743 ACTTGGACTC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
25 30 0.86
26 5 0.14
ACGTcount: A:0.54, C:0.16, G:0.10, T:0.19
Consensus pattern (25 bp):
AACTCGAAATCAAAAATTAAAACTC
Found at i:1131782 original size:21 final size:21
Alignment explanation
Indices: 1131758--1131798 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1131748 TAAACCAACT
*
1131758 AATTGTTAATTAAATTTTATC
1 AATTGTTAATTAAATATTATC
*
1131779 AATTTTTAATTAAATATTAT
1 AATTGTTAATTAAATATTAT
1131799 GATTTTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
AATTGTTAATTAAATATTATC
Found at i:1138410 original size:21 final size:21
Alignment explanation
Indices: 1138381--1138427 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
1138371 AATATGTAAA
1138381 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
1138402 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
1138423 TCGCA
1 TCGCA
1138428 ACGCGATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:1138433 original size:21 final size:21
Alignment explanation
Indices: 1138298--1138454 Score: 94
Period size: 20 Copynumber: 7.8 Consensus size: 21
1138288 AAATGACCAA
*
1138298 CAAATTCGCAACGCGA-TCT-
1 CAAATTCGCAACGCGATTTTC
* *
1138317 CAAATTCGCAACTCGA-ATTC
1 CAAATTCGCAACGCGATTTTC
* * *
1138337 CAATTTCACAAC-C-AGTTTC
1 CAAATTCGCAACGCGATTTTC
* * * *
1138356 CAATTTCGCAACGCGAATATG
1 CAAATTCGCAACGCGATTTTC
* **
1138377 TAAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGATTTTC
***
1138397 CAAATTCGCGTTGCGATTTTC
1 CAAATTCGCAACGCGATTTTC
**
1138418 CAAATTCGCAACGCGATAGT-
1 CAAATTCGCAACGCGATTTTC
*
1138438 CAAATTCTCAACGCGAT
1 CAAATTCGCAACGCGAT
1138455 AGTCAAATTC
Statistics
Matches: 108, Mismatches: 25, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
18 1 0.01
19 31 0.29
20 41 0.38
21 35 0.32
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (21 bp):
CAAATTCGCAACGCGATTTTC
Found at i:1138443 original size:20 final size:20
Alignment explanation
Indices: 1138418--1138469 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1138408 TGCGATTTTC
*
1138418 CAAATTCGCAACGCGATAGT
1 CAAATTCACAACGCGATAGT
*
1138438 CAAATTCTCAACGCGATAGT
1 CAAATTCACAACGCGATAGT
1138458 CAAATTCACAAC
1 CAAATTCACAAC
1138470 TGAATTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CAAATTCACAACGCGATAGT
Found at i:1138508 original size:19 final size:19
Alignment explanation
Indices: 1138471--1138527 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 19
1138461 ATTCACAACT
* *
1138471 GAATTTCAAATTCGTAACAC
1 GAATTT-AATTTCGCAACAC
1138491 GAATTTAATTTCGCAACA-
1 GAATTTAATTTCGCAACAC
** *
1138509 GGTTTTAGTTTCGCAACAC
1 GAATTTAATTTCGCAACAC
1138528 AAATGTTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 15 0.48
19 10 0.32
20 6 0.19
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (19 bp):
GAATTTAATTTCGCAACAC
Found at i:1139438 original size:24 final size:24
Alignment explanation
Indices: 1139393--1139439 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1139383 AGTCAGTATT
* *
1139393 CAAAATTTGATCTTGGTTAATACC
1 CAAAATTTGATCTTGATCAATACC
*
1139417 CAAACTTTGATCTTGATCAATAC
1 CAAAATTTGATCTTGATCAATAC
1139440 TCGGATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (24 bp):
CAAAATTTGATCTTGATCAATACC
Found at i:1141658 original size:18 final size:18
Alignment explanation
Indices: 1141635--1141670 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1141625 AAGCAAAAGG
*
1141635 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
1141653 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
1141671 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:1142106 original size:25 final size:25
Alignment explanation
Indices: 1142068--1142117 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1142058 AAATCAATTA
*
1142068 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1142093 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1142118 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:1142524 original size:18 final size:18
Alignment explanation
Indices: 1142503--1142539 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1142493 GTAATTGGAG
1142503 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1142521 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1142539 T
1 T
1142540 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1142546 original size:24 final size:24
Alignment explanation
Indices: 1142495--1142547 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1142485 TTTCATATGT
* * *
1142495 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
1142519 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
1142543 AATTT
1 AATTT
1142548 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1142816 original size:35 final size:35
Alignment explanation
Indices: 1142741--1142816 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
1142731 AATGGAAACT
* * *
1142741 AAAATCATAAGTCTGAAATGATTCTGAGTACCACC
1 AAAATCATAAGTCCGAAATGATTCCGAGCACCACC
* * *
1142776 CAAATCATAAGTCCGAAATGCTTCCGATGCA-CATC
1 AAAATCATAAGTCCGAAATGATTCCGA-GCACCACC
1142811 AAAATC
1 AAAATC
1142817 CAAAGCTCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
35 31 0.94
36 2 0.06
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (35 bp):
AAAATCATAAGTCCGAAATGATTCCGAGCACCACC
Found at i:1142851 original size:39 final size:39
Alignment explanation
Indices: 1142808--1142894 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
1142798 TCCGATGCAC
1142808 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
1142847 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1142886 ATCAAAATC
1 ATCAAAATC
1142895 TACAATTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:1143373 original size:61 final size:63
Alignment explanation
Indices: 1143242--1143382 Score: 180
Period size: 61 Copynumber: 2.2 Consensus size: 63
1143232 TTTTAGAAAC
*
1143242 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAATT
1143307 A
63 A
* * **
1143308 AACAAATCAACTTTTACAAATCAATT-AATC-AAAAAATAAATCTTATTTCCTCATC-AATTA
1 AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTA
1143368 TAACAAATCAACTTT
1 -AACAAATCAACTTT
1143383 CAATGTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 5 0.07
61 35 0.51
62 3 0.04
66 26 0.38
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTA
Found at i:1147076 original size:19 final size:20
Alignment explanation
Indices: 1147052--1147097 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1147042 AAATAGCAAC
*
1147052 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCAGTTTCGCATT
*
1147071 GCGATTTTCATTTTCGCATT
1 GCGATTTTCAGTTTCGCATT
1147091 GCGATTT
1 GCGATTT
1147098 AGGGTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (20 bp):
GCGATTTTCAGTTTCGCATT
Found at i:1147367 original size:22 final size:22
Alignment explanation
Indices: 1147342--1147392 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1147332 GATGGAGATA
1147342 GACGGATTTCGTCAGAAATAGG
1 GACGGATTTCGTCAGAAATAGG
* * * *
1147364 GACGAATTTCGTCGGAGATGGG
1 GACGGATTTCGTCAGAAATAGG
1147386 GACGGAT
1 GACGGAT
1147393 GTCACCGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.37, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGTCAGAAATAGG
Found at i:1147532 original size:21 final size:20
Alignment explanation
Indices: 1147506--1147574 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
1147496 TAATATTGTG
1147506 TTTCGCGTAAAAACATTTGAC
1 TTTCGCGTAAAAA-ATTTGAC
***
1147527 TTTCGCGTTGCAAATTTGAC
1 TTTCGCGTAAAAAATTTGAC
* **
1147547 TTTCGCGTTACGAATTTGAC
1 TTTCGCGTAAAAAATTTGAC
*
1147567 TATCGCGT
1 TTTCGCGT
1147575 TGCGAATTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 32 0.76
21 10 0.24
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (20 bp):
TTTCGCGTAAAAAATTTGAC
Found at i:1147545 original size:20 final size:20
Alignment explanation
Indices: 1147520--1147624 Score: 165
Period size: 20 Copynumber: 5.2 Consensus size: 20
1147510 GCGTAAAAAC
* *
1147520 ATTTGACTTTCGCGTTGCAA
1 ATTTGACTATCGCGTTGCGA
* *
1147540 ATTTGACTTTCGCGTTACGA
1 ATTTGACTATCGCGTTGCGA
1147560 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
*
1147580 ATTTGACTATCGCGTTGAGA
1 ATTTGACTATCGCGTTGCGA
1147600 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
1147620 ATTTG
1 ATTTG
1147625 GAATATCGCA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 79 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:1147739 original size:20 final size:21
Alignment explanation
Indices: 1147690--1147743 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
1147680 CGATTTACAT
*
1147690 ATTCGCGTTACGAAATTGGAA
1 ATTCGCGTTGCGAAATTGGAA
* *
1147711 ACTAG-GTTGCGAAATTGG-A
1 ATTCGCGTTGCGAAATTGGAA
1147730 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
1147744 TTTGAGATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (21 bp):
ATTCGCGTTGCGAAATTGGAA
Found at i:1148758 original size:42 final size:40
Alignment explanation
Indices: 1148706--1148829 Score: 127
Period size: 42 Copynumber: 3.2 Consensus size: 40
1148696 TGATGTTGAT
*
1148706 TTTA-TTTAGACTTATTGGGACTTATTAGTGTTACGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTA-TAGTGTTA-GGTGTTA
1148747 TTTATTTTAGACTTATTGAGACTTA-A----T-GGTGTTA
1 TTTATTTTAGACTTATTGAGACTTATAGTGTTAGGTGTTA
* * *
1148781 TTCATTTTAGACTTATTGAGACTTAATGGTGTTATGGTGCTA
1 TTTATTTTAGACTTATTGAGACTT-ATAGTGTTA-GGTGTTA
1148823 TTTATTT
1 TTTATTT
1148830 ACTTGTTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
34 30 0.43
35 1 0.01
36 1 0.01
40 2 0.03
41 4 0.06
42 31 0.45
ACGTcount: A:0.23, C:0.07, G:0.19, T:0.50
Consensus pattern (40 bp):
TTTATTTTAGACTTATTGAGACTTATAGTGTTAGGTGTTA
Found at i:1148781 original size:34 final size:34
Alignment explanation
Indices: 1148740--1148815 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
1148730 TTAGTGTTAC
*
1148740 GGTGTTATTTATTTTAGACTTATTGAGACTTAAT
1 GGTGTTATTCATTTTAGACTTATTGAGACTTAAT
1148774 GGTGTTATTCATTTTAGACTTATTGAGACTTAAT
1 GGTGTTATTCATTTTAGACTTATTGAGACTTAAT
1148808 GGTGTTAT
1 GGTGTTAT
1148816 GGTGCTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.49
Consensus pattern (34 bp):
GGTGTTATTCATTTTAGACTTATTGAGACTTAAT
Found at i:1149171 original size:38 final size:38
Alignment explanation
Indices: 1149120--1149193 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
1149110 TATATTACTA
* *
1149120 CGTTTGTTGCTGAAAATACAATCATTTAATGTGGACTG
1 CGTTTGCTGCTGAAAATACAACCATTTAATGTGGACTG
1149158 CGTTTGCTGCTGAAAATACAACCATTTAATGTGGAC
1 CGTTTGCTGCTGAAAATACAACCATTTAATGTGGAC
1149194 CGTGTTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (38 bp):
CGTTTGCTGCTGAAAATACAACCATTTAATGTGGACTG
Found at i:1152930 original size:23 final size:24
Alignment explanation
Indices: 1152911--1152969 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
1152901 GTAGGCTTCG
1152911 GGTCGGGTT-TAG-TTTGGGCTCCA
1 GGTCGGGTTCT-GTTTTGGGCTCCA
*
1152934 GGTCAGGTTCTGTTTTGGGCTCCA
1 GGTCGGGTTCTGTTTTGGGCTCCA
1152958 GGTCGGGTTCTG
1 GGTCGGGTTCTG
1152970 GTTGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 9 0.28
24 23 0.72
ACGTcount: A:0.07, C:0.19, G:0.39, T:0.36
Consensus pattern (24 bp):
GGTCGGGTTCTGTTTTGGGCTCCA
Found at i:1153087 original size:9 final size:9
Alignment explanation
Indices: 1153070--1153104 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
1153060 GGTTTTTGGT
1153070 TTAATAATA
1 TTAATAATA
*
1153079 TTTATAATA
1 TTAATAATA
1153088 -TAATAATA
1 TTAATAATA
1153096 TTAATAATA
1 TTAATAATA
1153105 ATATATAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAATAATA
Found at i:1153093 original size:17 final size:17
Alignment explanation
Indices: 1153071--1153104 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1153061 GTTTTTGGTT
*
1153071 TAATAATATTTATAATA
1 TAATAATATTAATAATA
1153088 TAATAATATTAATAATA
1 TAATAATATTAATAATA
1153105 ATATATAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATATTAATAATA
Found at i:1153486 original size:17 final size:17
Alignment explanation
Indices: 1153464--1153499 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1153454 AAGGTTGAAC
1153464 AAGTTCTTCTCATTATG
1 AAGTTCTTCTCATTATG
1153481 AAGTTCTTCTCATTATG
1 AAGTTCTTCTCATTATG
1153498 AA
1 AA
1153500 CTTATTCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (17 bp):
AAGTTCTTCTCATTATG
Found at i:1153507 original size:17 final size:17
Alignment explanation
Indices: 1153470--1153508 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1153460 GAACAAGTTC
* *
1153470 TTCTCATTATGAAGTTC
1 TTCTCATTATGAACTTA
1153487 TTCTCATTATGAACTTA
1 TTCTCATTATGAACTTA
1153504 TTCTC
1 TTCTC
1153509 CCTTTAACGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.49
Consensus pattern (17 bp):
TTCTCATTATGAACTTA
Found at i:1153614 original size:157 final size:157
Alignment explanation
Indices: 1153324--1153648 Score: 508
Period size: 157 Copynumber: 2.1 Consensus size: 157
1153314 AAGGTTGAAC
* * * * ** *
1153324 AAGTTCTTCTCATTATGAACTTCTTTTCCCTCTATCGGATGAGTTCTTCTCATTATTAACTCTCC
1 AAGTTCTTCTCATTATGAACTTATTCTCCCTCTAACGGATGAATTCTTCTCAGAATGAACTCTCC
* *
1153389 ATTGGAAATGTTAATCCCTCAAGTAAGGCATCGCTGATTCAACTCCATATGCGATGAATCGAGCA
66 ATTGGAAATGTTAATCCCTCAAGTAAGGCATCGCTGATTCAACTCCATATGCAATGAATCAAGCA
1153454 AAGGTTGAACAAGTTCTTCTCATTATG
131 AAGGTTGAACAAGTTCTTCTCATTATG
* *
1153481 AAGTTCTTCTCATTATGAACTTATTCTCCCTTTAACGGATGAATTCTTCTCAGAATGAACTCTTC
1 AAGTTCTTCTCATTATGAACTTATTCTCCCTCTAACGGATGAATTCTTCTCAGAATGAACTCTCC
* *
1153546 ATTGGAAATGTTAATCCCTCAAGTGAGGCGA-CGCTGATTCAACTCCATATGCAATGAATCAAGT
66 ATTGGAAATGTTAATCCCTCAAGTAAGGC-ATCGCTGATTCAACTCCATATGCAATGAATCAAGC
1153610 AAAGGTTGAACAAGTTCTTCTCATTATG
130 AAAGGTTGAACAAGTTCTTCTCATTATG
*
1153638 AACTTCTTCTC
1 AAGTTCTTCTC
1153649 CCTCTATCGG
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
157 152 0.99
158 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (157 bp):
AAGTTCTTCTCATTATGAACTTATTCTCCCTCTAACGGATGAATTCTTCTCAGAATGAACTCTCC
ATTGGAAATGTTAATCCCTCAAGTAAGGCATCGCTGATTCAACTCCATATGCAATGAATCAAGCA
AAGGTTGAACAAGTTCTTCTCATTATG
Found at i:1153754 original size:140 final size:140
Alignment explanation
Indices: 1153481--1153765 Score: 394
Period size: 140 Copynumber: 2.0 Consensus size: 140
1153471 TCTCATTATG
* *
1153481 AAGTTCTTCTCATTATGAACTTATTCTCCCTTTAACGGATGAATTCTTCTCAGAATGAACTCTTC
1 AAGTTCTTCTCATTATGAACTTATTCTCCCTCTAACGGATGAATTCTTCTCAGAATGAACTCTCC
* * * *
1153546 ATTGGAAATGTTAATCCCTCAAGTGAGGCGACGCTGATTCAACTCCATATGCAATGAATCAAGTA
66 ATTGGAAATGTCAATCCCCCAAGTGAGGCGACGCTGATTCAACTCCATATCCAATAAATCAAGTA
1153611 AAGGTTGAAC
131 AAGGTTGAAC
* * * * **
1153621 AAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTTTTCTCATTATGAACTCTCC
1 AAGTTCTTCTCATTATGAACTTATTCTCCCTCTAACGGATGAATTCTTCTCAGAATGAACTCTCC
* * * *
1153686 ATTGGAAATGTCCATCCCCCAAGTGAGGCGTA-GCTGATTCAACTCTATATCCGATAAATCGA-T
66 ATTGGAAATGTCAATCCCCCAAGTGAGGCG-ACGCTGATTCAACTCCATATCCAATAAATCAAGT
1153749 CAAAGGTTGAAC
130 -AAAGGTTGAAC
1153761 AAGTT
1 AAGTT
1153766 TTTGAAAACA
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
139 1 0.01
140 125 0.98
141 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (140 bp):
AAGTTCTTCTCATTATGAACTTATTCTCCCTCTAACGGATGAATTCTTCTCAGAATGAACTCTCC
ATTGGAAATGTCAATCCCCCAAGTGAGGCGACGCTGATTCAACTCCATATCCAATAAATCAAGTA
AAGGTTGAAC
Found at i:1154079 original size:19 final size:20
Alignment explanation
Indices: 1154040--1154077 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1154030 TAGATTGCCC
1154040 AGAGGGTACCGATACCCCCT
1 AGAGGGTACCGATACCCCCT
1154060 AGAGGGTACCGATACCCC
1 AGAGGGTACCGATACCCC
1154078 TATGTAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
AGAGGGTACCGATACCCCCT
Found at i:1156132 original size:23 final size:22
Alignment explanation
Indices: 1156101--1156160 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 22
1156091 CTGTGCGCTA
*
1156101 GGTATCGATACCCCCTTTGAATG
1 GGTACCGATACCCCC-TTGAATG
1156124 GGTACCGATACCCTCCTTGAATG
1 GGTACCGATACCC-CCTTGAATG
1156147 GGTACCGATACCCC
1 GGTACCGATACCCC
1156161 ACGTGAGGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
22 1 0.03
23 32 0.91
24 2 0.06
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (22 bp):
GGTACCGATACCCCCTTGAATG
Found at i:1156172 original size:21 final size:23
Alignment explanation
Indices: 1156101--1156182 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
1156091 CTGTGCGCTA
* *
1156101 GGTATCGATACCC-CCTTTGAATG
1 GGTACCGATACCCTCC-GTGAATG
*
1156124 GGTACCGATACCCTCCTTGAATG
1 GGTACCGATACCCTCCGTGAATG
1156147 GGTACCGATACCC-CACGTG-A-G
1 GGTACCGATACCCTC-CGTGAATG
*
1156168 GGTACTGATACCCTC
1 GGTACCGATACCCTC
1156183 TACGGGTTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.25
22 3 0.06
23 35 0.66
24 2 0.04
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.24
Consensus pattern (23 bp):
GGTACCGATACCCTCCGTGAATG
Found at i:1158159 original size:16 final size:16
Alignment explanation
Indices: 1158120--1158159 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
1158110 CATTTTGGAT
*
1158120 ATTTGTGAATGTTTGA
1 ATTTGTGGATGTTTGA
1158136 ATTTGTGGATGTTTGA
1 ATTTGTGGATGTTTGA
1158152 ATTTGTGG
1 ATTTGTGG
1158160 TGGATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (16 bp):
ATTTGTGGATGTTTGA
Found at i:1160561 original size:24 final size:22
Alignment explanation
Indices: 1160529--1160586 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 22
1160519 ATGCACGGGT
1160529 AGTGCATCGATGCACACAT-TAAGG
1 AGTGCATCGATGCACAC-TGT-A-G
1160553 AGTGCATCGAT--ACACTGTAG
1 AGTGCATCGATGCACACTGTAG
1160573 AGTGCATCGATGCA
1 AGTGCATCGATGCA
1160587 TACTTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 12 0.39
21 2 0.06
22 6 0.19
24 11 0.35
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (22 bp):
AGTGCATCGATGCACACTGTAG
Found at i:1161276 original size:23 final size:23
Alignment explanation
Indices: 1161209--1161268 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
1161199 CATCTTATAT
*
1161209 AGCACTACGGTGCAATTCTACGC
1 AGCACTTCGGTGCAATTCTACGC
*
1161232 AGCACTTCGGTGCAATTCTACGT
1 AGCACTTCGGTGCAATTCTACGC
*
1161255 GGCACTTCGGTGCA
1 AGCACTTCGGTGCA
1161269 TTTATACGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (23 bp):
AGCACTTCGGTGCAATTCTACGC
Found at i:1162411 original size:65 final size:64
Alignment explanation
Indices: 1162286--1162421 Score: 175
Period size: 65 Copynumber: 2.1 Consensus size: 64
1162276 ACGCCCTAAT
* * * * *
1162286 TCGAATGCATTTTGTGTACCGATGTATAGCCATGCATCGATGCACTCCTGATTTTATTGAAACA
1 TCGAATGCATTTTATGTACCGATGCACAGCCATGCATCGATACACTCCTGATCTTATTGAAACA
* *
1162350 TCGAATGCATTTTATGTATCGATGCACAGACCATGCATCGATACACTCCTGGCTCTT-TTGAAAC
1 TCGAATGCATTTTATGTACCGATGCACAG-CCATGCATCGATACACTCCT-GATCTTATTGAAAC
1162414 A
64 A
*
1162415 TCAAATG
1 TCGAATG
1162422 TAATTAGTGT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 25 0.40
65 33 0.53
66 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTATGTACCGATGCACAGCCATGCATCGATACACTCCTGATCTTATTGAAACA
Found at i:1169028 original size:13 final size:12
Alignment explanation
Indices: 1169009--1169049 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
1168999 ACAACCTGAC
1169009 CCGACCCGTTGA
1 CCGACCCGTTGA
*
1169021 CCGAACCCATTGA
1 CCG-ACCCGTTGA
1169034 CCCGACCCGTTGA
1 -CCGACCCGTTGA
1169047 CCG
1 CCG
1169050 TTGACCGGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 6 0.24
13 16 0.64
14 3 0.12
ACGTcount: A:0.20, C:0.44, G:0.22, T:0.15
Consensus pattern (12 bp):
CCGACCCGTTGA
Found at i:1170008 original size:18 final size:18
Alignment explanation
Indices: 1169982--1170022 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1169972 AATTGTTCGA
* *
1169982 AAGACTGAAGTAAATGAT
1 AAGATTGAAGTAAATAAT
*
1170000 AAGATTGAATTAAATAAT
1 AAGATTGAAGTAAATAAT
1170018 AAGAT
1 AAGAT
1170023 CGGATGGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.17, T:0.27
Consensus pattern (18 bp):
AAGATTGAAGTAAATAAT
Found at i:1171241 original size:24 final size:24
Alignment explanation
Indices: 1171123--1171238 Score: 169
Period size: 24 Copynumber: 4.8 Consensus size: 24
1171113 TTAGATTTGA
1171123 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
1171147 ATTCTGATCTGATATTTGACATAG
1 ATTCTGATCTGATACTTGACATGG
*
1171171 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1171195 AATCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1171219 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
1171239 CTGATTTATG
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1172497 original size:24 final size:23
Alignment explanation
Indices: 1172470--1172515 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1172460 CACCACAGCT
* *
1172470 CGTATAAATTACATCGAAGTGCCG
1 CGTAGAAA-TACACCGAAGTGCCG
*
1172494 CGTAGAAATACACCGTAGTGCC
1 CGTAGAAATACACCGAAGTGCC
1172516 ATATAAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCG
Found at i:1174071 original size:30 final size:31
Alignment explanation
Indices: 1174012--1174071 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
1174002 AAACCATTTA
* *
1174012 CAACTTTTCCAAAAATTATAAATTAGTCCCC
1 CAACTTTTCCAAAAATTACAAAATAGTCCCC
* *
1174043 CAACTTTT-CAAAATTTACAAAATGGTCCC
1 CAACTTTTCCAAAAATTACAAAATAGTCCC
1174072 TAAATTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (31 bp):
CAACTTTTCCAAAAATTACAAAATAGTCCCC
Found at i:1175794 original size:21 final size:20
Alignment explanation
Indices: 1175770--1175843 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
1175760 TCCTTGAATA
1175770 TGCATCGATACACTATGAAGG
1 TGCATCGATACACTATGAA-G
* *
1175791 TGCACCGATACATTCTTTGAATG
1 TGCATCGATACA--CTATGAA-G
* * *
1175814 TGTATCGATATACTATGTAG
1 TGCATCGATACACTATGAAG
1175834 TGCATCGATA
1 TGCATCGATA
1175844 TACTCGTCAG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 10 0.24
21 16 0.38
23 16 0.38
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (20 bp):
TGCATCGATACACTATGAAG
Found at i:1175811 original size:44 final size:43
Alignment explanation
Indices: 1175729--1175843 Score: 133
Period size: 44 Copynumber: 2.7 Consensus size: 43
1175719 GTGCACTATA
* *
1175729 CATCGATACAC-ATGAAAGTGTATCGATGCATTCCTTGAATATG
1 CATCGATACACTATG-AAGTGCATCGATACATTCCTTGAATATG
* * *
1175772 CATCGATACACTATGAAGGTGCACCGATACATTCTTTGAATGTG
1 CATCGATACACTATGAA-GTGCATCGATACATTCCTTGAATATG
* * *
1175816 TATCGATATACTATGTAGTGCATCGATA
1 CATCGATACACTATGAAGTGCATCGATA
1175844 TACTCGTCAG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 23 0.38
44 38 0.62
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (43 bp):
CATCGATACACTATGAAGTGCATCGATACATTCCTTGAATATG
Found at i:1175822 original size:23 final size:23
Alignment explanation
Indices: 1175741--1175823 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 23
1175731 TCGATACACA
* * * *
1175741 TGAAAGTGTATCGATGCATTCCT
1 TGAATGTGCATCGATACATTCTT
* *
1175764 TGAATATGCATCGATACA--CTA
1 TGAATGTGCATCGATACATTCTT
* *
1175785 TGAAGGTGCACCGATACATTCTT
1 TGAATGTGCATCGATACATTCTT
*
1175808 TGAATGTGTATCGATA
1 TGAATGTGCATCGATA
1175824 TACTATGTAG
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 16 0.36
23 29 0.64
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (23 bp):
TGAATGTGCATCGATACATTCTT
Found at i:1177435 original size:27 final size:27
Alignment explanation
Indices: 1177391--1177442 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1177381 TTTTTTTATT
* *
1177391 TGGATGTTTGAATGTTTGAATTTGATA
1 TGGATGTTTGAATATTTGAACTTGATA
*
1177418 TGGATGTTTGGATATTTGAACTTGA
1 TGGATGTTTGAATATTTGAACTTGA
1177443 ATGCTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (27 bp):
TGGATGTTTGAATATTTGAACTTGATA
Found at i:1177757 original size:13 final size:13
Alignment explanation
Indices: 1177728--1177760 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1177718 GGGGGAGTAG
*
1177728 TTTTCAAAATTGA
1 TTTTCAAAAATGA
1177741 -TTTCAAAAATGA
1 TTTTCAAAAATGA
1177753 TTTTCAAA
1 TTTTCAAA
1177761 GAAAATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (13 bp):
TTTTCAAAAATGA
Found at i:1178149 original size:64 final size:65
Alignment explanation
Indices: 1178075--1178230 Score: 208
Period size: 65 Copynumber: 2.4 Consensus size: 65
1178065 ACACCCTAAT
* * *
1178075 TCGAATGCATTTTGTGTACCGATGCACAG-TCATGCATCGATGCACTCCT-GATTTTATTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATACATCGATGCACTCCTGGATCTT-TTGAAAC
1178138 A
65 A
* * *
1178139 TCGAATGCATTTTATGTACCGATGCACAGACCATACATCGATGTACTCCTGGCTCTTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATACATCGATGCACTCCTGGATCTTTTGAAACA
* * *
1178204 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
1178231 TGAGTCTTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 28 0.35
65 48 0.60
66 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAGACCATACATCGATGCACTCCTGGATCTTTTGAAACA
Found at i:1179976 original size:16 final size:17
Alignment explanation
Indices: 1179942--1179976 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1179932 TGCAAATTTT
1179942 AAAACTAAAAAGTAATTA
1 AAAACTAAAAAG-AATTA
1179960 AAAACTAAAAA-AATTA
1 AAAACTAAAAAGAATTA
1179976 A
1 A
1179977 TACAAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAACTAAAAAGAATTA
Found at i:1180899 original size:2 final size:2
Alignment explanation
Indices: 1180894--1180920 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1180884 TATATATATA
1180894 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1180921 TTTATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1181180 original size:31 final size:32
Alignment explanation
Indices: 1181137--1181216 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 32
1181127 TTTTGAAATG
*
1181137 TATATAATTAAATTAGAA-TTAAA-ATTATGTA
1 TATATAAATAAATT-GAAGTTAAATATTATGTA
*
1181168 TATATAAATAAATTGAAGTTTAAATTTTATGTA
1 TATATAAATAAATTGAAG-TTAAATATTATGTA
1181201 TATAATTAAATAAATT
1 TAT-A-TAAATAAATT
1181217 CGTTACACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 3 0.07
31 13 0.31
32 5 0.12
33 10 0.24
34 1 0.02
35 10 0.24
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (32 bp):
TATATAAATAAATTGAAGTTAAATATTATGTA
Found at i:1184907 original size:16 final size:16
Alignment explanation
Indices: 1184886--1184935 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
1184876 TTAACTTCTT
*
1184886 ATTAAATCTTTAAATG
1 ATTAAATCTTTAAATA
* *
1184902 ATTAAAACTTAAAATA
1 ATTAAATCTTTAAATA
1184918 ATTAGAAT-TTT-AATA
1 ATTA-AATCTTTAAATA
1184933 ATT
1 ATT
1184936 CAAGTTGTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 7 0.25
16 19 0.68
17 2 0.07
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTAAATCTTTAAATA
Found at i:1188776 original size:15 final size:15
Alignment explanation
Indices: 1188756--1188801 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
1188746 AGATATAATT
1188756 TTAAATAAATAATAG
1 TTAAATAAATAATAG
1188771 TTAAAT-AATCAATA-
1 TTAAATAAAT-AATAG
1188785 TATAAACTAAATAATAG
1 T-TAAA-TAAATAATAG
1188802 ATAGAGGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.15
15 14 0.54
16 5 0.19
17 3 0.12
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (15 bp):
TTAAATAAATAATAG
Found at i:1189536 original size:23 final size:23
Alignment explanation
Indices: 1189510--1189568 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
1189500 ATCAAGTATA
**
1189510 ATAACATCTTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
1189533 ATAATGTAATAGGTAGCTCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
1189556 ATAATAAAATAGG
1 ATAACATAATAGG
1189569 CATTTAACCG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1189626 original size:84 final size:87
Alignment explanation
Indices: 1189482--1189727 Score: 428
Period size: 84 Copynumber: 2.9 Consensus size: 87
1189472 TATGTTATAT
* *
1189482 CATTTAACCGGAAATATTATCAAGTATAATAACATCTTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
*
1189547 AGCTCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
1189569 CATTTAACCGGAAATA-T-T-AAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1189631 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
*
1189653 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATAT-ATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1189717 AGCGCTTATAT
66 AGCGCTTATAT
1189728 TGACCTATTT
Statistics
Matches: 152, Mismatches: 4, Indels: 7
0.93 0.02 0.04
Matches are distributed among these distances:
84 78 0.51
85 2 0.01
86 24 0.16
87 48 0.32
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:1189650 original size:23 final size:23
Alignment explanation
Indices: 1189603--1189652 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1189593 AATAACATAT
**
1189603 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
1189626 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
1189649 TAGG
1 TAGG
1189653 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:1190112 original size:199 final size:199
Alignment explanation
Indices: 1189722--1190643 Score: 1068
Period size: 201 Copynumber: 4.6 Consensus size: 199
1189712 TAGGTAGCGC
* * * * * *
1189722 TTATATTGACCTATTTTATAAGT-AAACTGGTATATTTATACCGGTAACATTGCAAATTTACCTA
1 TTATGTTGACCTATTTTCTCA-TAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* * *
1189786 TTACATTATAATTATCGGTTTCGATATTTTTGGATAGATACAATTT--TAAATGTATCGACACTT
65 TTACATTATAATTATCGGTTTCGATGTTTTTGGATCGATAC-TTTTAATAAATGTATCGACACTT
* * *
1189849 TATGCGTGCACCTCG-TTGGGCATTCATTCTGGA-AACAAGTATCGACATAAACTTAAAGAGTGT
129 TATGCGTGCACCTCGTTTGGACATTCATTCTGGACAACAAGTATCGACACAAATTTAAA-AGTGT
1189912 CGATACA
193 CGATACA
* * * * *
1189919 TTAT-TTAGACCTATTTTTTTATAAAACCAGTATATTTCTACCGGGTACATTGTAAATTTACCTA
1 TTATGTT-GACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* * *
1189983 TCACATTGTAATTATCGGTTTCGATGTTTTTGAGATCGATAGTTTTAATAAATGTATCGACACTT
65 TTACATTATAATTATCGGTTTCGATGTTTTTG-GATCGATACTTTTAATAAATGTATCGACACTT
* *
1190048 TATGCGTGCACC-CGTTT-GACATTCATTATGGACAA-AATGTATCGACATAAATTTAATAAGTG
129 TATGCGTGCACCTCGTTTGGACATTCATTCTGGACAACAA-GTATCGACACAAATTTAA-AAGTG
*
1190110 TCGATACT
192 TCGATACA
* * * *
1190118 TTATGATGACCTATTTTCTCATAAAGCCGGTATATTTATACTGGTTACATTGTAAATTTACATAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* *
1190183 TACATTATAATTATCGGTTTCGATGTTTTTTGGATCAATACTTTTTAA-AACATGTATCGACATT
66 TACATTATAATTATCGGTTTCGATG-TTTTTGGATCGATAC-TTTTAATAA-ATGTATCGACACT
* * * * *
1190247 TTATGAGTGCAACC-CTTTTGGA-ATTCATTTTGGACAAAAAGTATCGACACAAATATAAAACGT
128 TTATGCGTGC-ACCTCGTTTGGACATTCATTCTGGACAACAAGTATCGACACAAATTTAAAA-GT
*
1190310 GTAGATACA
191 GTCGATACA
* ** * * * * *
1190319 TTATGTTCACCTATTTTAACATAAAATCGATATATTTATTCCGGTTACATTGTAAGTTTACCAAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
*
1190384 TACATTATAATTATCGGTTTCGAT-TTTATTGGGATCGATACTTTTAATAATTGTATCGACACTT
66 TACATTATAATTATCGGTTTCGATGTTT-TT-GGATCGATACTTTTAATAAATGTATCGACACTT
* * *
1190448 TATGTGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAA-TTACACAAGTG
129 TATGCGTGCACCTCGTTTGGACATTCATTCTGGACAACAAGTATCGACACAAATTTA-A-AAGTG
1190512 TCGATACA
192 TCGATACA
* * * * *
1190520 TTATGTTGACCTGTTTTCTAAT-TAATCGGTATATTTATACCGGTTACATTGTTAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* ** *
1190584 TAAATTATAATTATTAGTTTCGATGTTTTTTG-TCGATACTTTTAGA-AAATGTATCGACAC
66 TACATTATAATTATCGGTTTCGATGTTTTTGGATCGATACTTTTA-ATAAATGTATCGACAC
1190644 ATATTTAGGT
Statistics
Matches: 622, Mismatches: 77, Indels: 51
0.83 0.10 0.07
Matches are distributed among these distances:
196 3 0.00
197 83 0.13
198 49 0.08
199 155 0.25
200 132 0.21
201 194 0.31
202 6 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (199 bp):
TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTTGGATCGATACTTTTAATAAATGTATCGACACTTTA
TGCGTGCACCTCGTTTGGACATTCATTCTGGACAACAAGTATCGACACAAATTTAAAAGTGTCGA
TACA
Found at i:1194812 original size:201 final size:201
Alignment explanation
Indices: 1194467--1196236 Score: 2334
Period size: 201 Copynumber: 8.8 Consensus size: 201
1194457 CGTTATTTAT
* *
1194467 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAATTGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
* *
1194532 ATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
*
1194597 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTT-GGCATTCATTTT
131 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGC-ACCCTTTTGGGCATTCATTCT
1194661 GGACAAA
195 GGACAAA
* * * *
1194668 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTTACCTATTTTAACATAAAACCGAT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
1194733 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * *
1194798 GGATCGATACTTTTT-ATA-ATGTATCGACACTTTATACGTTCACCCTTTTGGGCATTCATTCTG
131 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTG
*
1194861 TACAAA
196 GACAAA
* * * ** * *
1194867 AAGTATCGACAC-AACCTTAAAAAGTGTCGACACATTATGTAGACATATTCTCACATAAAACTGG
1 AAGTATCGACACAAATC-TAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGG
* * ** * * * *
1194931 TATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAACTATAGGTTTCGATGGTTTT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * *
1194996 GGGATCGATACGTTTTAAAACATGTATTGACACTTTATACGTGCAACCCTTTT-GGCATTCATTT
130 GGGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGC-ACCCTTTTGGGCATTCATTC
1195060 TGGACAAA
194 TGGACAAA
*
1195068 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACTGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
* * *
1195133 ACATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* *
1195198 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTT-GACATTCATTTT
131 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGC-ACCCTTTTGGGCATTCATTCT
1195262 GGACAAA
195 GGACAAA
* * *
1195269 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACCGAT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
1195334 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * * *
1195399 CGATCAATACTTTTTATAA-ATGTATCGACACTTTATGTGTTCACCCTTTTGGGCATTCATTCTG
131 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTG
*
1195463 TACAAA
196 GACAAA
* * * ** *
1195469 AAGTATCGACACAACAT-TAAAAAGTGTCGACATATTATGTAGACCTATTCTCACATAAAA-TCG
1 AAGTATCGACACAA-ATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACT-G
* ** * *
1195532 GTATATTTATACCGGTTATATTACAAA-TTACCTATTATATTATAATTATAGGTTTCGATGTTTT
64 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* *
1195596 TGGGATCGATACATTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTT-GGTATTCATT
129 TGGGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGC-ACCCTTTTGGGCATTCATT
*
1195660 TTGGACAAA
193 CTGGACAAA
* *
1195669 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACATATTTTAACATAAAACTGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
*
1195734 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * * * *
1195799 TGATCGATACTTTTTATAA-ATGTATC-ATCACTTTATGTGTTCATCCTTTTGGGCATTCAATCT
131 GGATCGATACTTTTTAAAACATGTATCGA-CACTTTATGCGTGCACCCTTTTGGGCATTCATTCT
**
1195862 ATACAAA
195 GGACAAA
* * * ** * *
1195869 AAGTATCGACACAACAT-TAAAAAGTGTCGACATATTATGTAGACATATTCTCACATAAAACTGG
1 AAGTATCGACACAA-ATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGG
* ** * *
1195933 TATATTTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTTT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* ** * * * * *
1195998 GGGATTGATACGCTTTAAAA-ATATTTTGACACTTTATGAGTGCACCCTTTATGGGCATTCCTTC
130 GGGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCACCCTTT-TGGGCATTCATTC
*
1196062 TAGACAAA
194 TGGACAAA
* * * * * ** * * * *
1196070 CAGTATCGACACAAATTCCAGAA-GTGACGATAAATTATGTAGACCTATTCTCTCATAAAACCGA
1 AAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGG
* * * *
1196134 TTTAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTTAT-GGATTTCGATGTTTC
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGG-TTTCGATGTTTT
1196198 TGGGATCGATACTTTTTAAAAC-TGTATCGACACTTTATG
129 TGGGATCGATACTTTTTAAAACATGTATCGACACTTTATG
1196237 GGAAACTTTA
Statistics
Matches: 1374, Mismatches: 172, Indels: 46
0.86 0.11 0.03
Matches are distributed among these distances:
198 11 0.01
199 230 0.17
200 412 0.30
201 707 0.51
202 14 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (201 bp):
AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTG
GACAAA
Found at i:1195207 original size:400 final size:402
Alignment explanation
Indices: 1194467--1196236 Score: 2318
Period size: 400 Copynumber: 4.4 Consensus size: 402
1194457 CGTTATTTAT
* *
1194467 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAATTGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
* *
1194532 ATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
*
1194597 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTT-GGCATTCATTTT
131 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGC-ACCCTTTTGGGCATTCATTCT
* * ** *
1194661 GGACAAAAAGTATCGACACAA-ATCTAAAACGTGTCGATACATTATGTTTACCTATTTTAACATA
195 GGACAAAAAGTATCGACACAACAT-TAAAAAGTGTCGACACATTATGTAGACCTATTCTAACATA
* * * *
1194725 AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
259 AAACTGGTATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATAGGTTTCGA
* * *
1194790 TGTTTTTGGGATCGATAC-TTTTTATA-ATGTATCGACACTTTATACGTTC-ACCCTTTTGGGCA
324 TGTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTATACGTGCAACCCTTTT-GGCA
*
1194852 TTCATTCTGTACAAA
388 TTCATTCTGGACAAA
* * * ** * *
1194867 AAGTATCGACAC-AACCTTAAAAAGTGTCGACACATTATGTAGACATATTCTCACATAAAACTGG
1 AAGTATCGACACAAATC-TAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGG
* * ** * * * *
1194931 TATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAACTATAGGTTTCGATGGTTTT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * *
1194996 GGGATCGATACGTTTTAAAACATGTATTGACACTTTATACGTGCAACCCTTTT-GGCATTCATTT
130 GGGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGC-ACCCTTTTGGGCATTCATTC
* * ** *
1195060 TGGACAAAAAGTATCGACACAA-ATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACAT
194 TGGACAAAAAGTATCGACACAACAT-TAAAAAGTGTCGACACATTATGTAGACCTATTCTAACAT
* * * *
1195124 AAAACTGGTACATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
258 AAAACTGGTATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATAGGTTTCG
* * * *
1195189 ATGTTTTTTGGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGACA
323 ATGTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTATACGTGCAACCCTTTTGGCA
*
1195254 TTCATTTTGGACAAA
388 TTCATTCTGGACAAA
* * *
1195269 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACCGAT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
1195334 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * * *
1195399 CGATCAATACTTTTTATAA-ATGTATCGACACTTTATGTGTTCACCCTTTTGGGCATTCATTCTG
131 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTG
* * *
1195463 TACAAAAAGTATCGACACAACATTAAAAAGTGTCGACATATTATGTAGACCTATTCTCACATAAA
196 GACAAAAAGTATCGACACAACATTAAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAA
* * *
1195528 A-TCGGTATATTTATACCGGTTATATTACAAA-TTACCTATTATATTATAATTATAGGTTTCGAT
261 ACT-GGTATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATAGGTTTCGAT
* *
1195591 GTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGGTATT
325 GTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTATACGTGCAACCCTTTTGGCATT
*
1195656 CATTTTGGACAAA
390 CATTCTGGACAAA
* *
1195669 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACATATTTTAACATAAAACTGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
*
1195734 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * * * *
1195799 TGATCGATACTTTTTATAA-ATGTATC-ATCACTTTATGTGTTCATCCTTTTGGGCATTCAATCT
131 GGATCGATACTTTTTAAAACATGTATCGA-CACTTTATGCGTGCACCCTTTTGGGCATTCATTCT
** * * *
1195862 ATACAAAAAGTATCGACACAACATTAAAAAGTGTCGACATATTATGTAGACATATTCTCACATAA
195 GGACAAAAAGTATCGACACAACATTAAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAA
* * *
1195927 AACTGGTATATTTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATAGGTTTCGAT
260 AACTGGTATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATAGGTTTCGAT
* ** * * *
1195992 GTTTTTGGGATTGATACGCTTTAAAA-ATATTTTGACACTTTATGA-GTGC-ACCCTTTATGGGC
325 GTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTAT-ACGTGCAACCCTTT-T-GGC
* *
1196054 ATTCCTTCTAGACAAA
387 ATTCATTCTGGACAAA
* * * * * ** * * * *
1196070 CAGTATCGACACAAATTCCAGAA-GTGACGATAAATTATGTAGACCTATTCTCTCATAAAACCGA
1 AAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGG
* * * *
1196134 TTTAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTTAT-GGATTTCGATGTTTC
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGG-TTTCGATGTTTT
1196198 TGGGATCGATACTTTTTAAAAC-TGTATCGACACTTTATG
129 TGGGATCGATACTTTTTAAAACATGTATCGACACTTTATG
1196237 GGAAACTTTA
Statistics
Matches: 1230, Mismatches: 122, Indels: 35
0.89 0.09 0.03
Matches are distributed among these distances:
399 11 0.01
400 720 0.59
401 320 0.26
402 168 0.14
403 11 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (402 bp):
AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCACATAAAACTGGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTG
GACAAAAAGTATCGACACAACATTAAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAA
ACTGGTATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATAGGTTTCGATG
TTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTATACGTGCAACCCTTTTGGCATTC
ATTCTGGACAAA
Found at i:1195615 original size:601 final size:600
Alignment explanation
Indices: 1194467--1196235 Score: 2687
Period size: 601 Copynumber: 2.9 Consensus size: 600
1194457 CGTTATTTAT
** *
1194467 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAATTGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACTGGT
*
1194532 ATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTT
1194597 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTTTG
131 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTTTG
*
1194662 GACAAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTTACCTATTTTAACATAAA
196 GACAAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAA
1194727 ACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG
261 ACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG
1194792 TTTTTGGGATCGATACTTTTTAT-AATGTATCGACACTTTAT-ACGTTCACCCTTTTGGGCATTC
326 TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGA-GTTCACCCTTTTGGGCATTC
* * *
1194855 ATTCTGTACAAAAAGTATCGACACAACCTTAAAAAGTGTCGACACATTATGTAGACATATTCTCA
390 ATTCTGTACAAAAAGTATCGACACAACATTAAAAAGTGTCGACAAATTATGTAGACCTATTCTCA
* *
1194920 CATAAAACTGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAACTATAGGTT
455 CATAAAAC-GGTATATTTATACCGGTTATATTAC-AAATTACCTATTACATTATAATTATAGGTT
* * *
1194985 TCGATGGTTTTGGGATCGATACGTTTTAAAACATGTATTGACACTTTATACGTGCAACCCTTTTG
518 TCGATGTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTATACGTGCAACCCTTTTG
1195050 GCATTCATTTTGGACAAA
583 GCATTCATTTTGGACAAA
1195068 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACTGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACTGGT
* *
1195133 ACATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTT
*
1195198 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGACATTCATTTTG
131 GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTTTG
1195263 GACAAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAA
196 GACAAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAA
1195328 ACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG
261 ACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG
* * *
1195393 TTTTTGCGATCAATACTTTTTATAAATGTATCGACACTTTATGTGTTCACCCTTTTGGGCATTCA
326 TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGAGTTCACCCTTTTGGGCATTCA
*
1195458 TTCTGTACAAAAAGTATCGACACAACATTAAAAAGTGTCGACATATTATGTAGACCTATTCTCAC
391 TTCTGTACAAAAAGTATCGACACAACATTAAAAAGTGTCGACAAATTATGTAGACCTATTCTCAC
*
1195523 ATAAAATCGGTATATTTATACCGGTTATATTACAAATTACCTATTATATTATAATTATAGGTTTC
456 ATAAAA-CGGTATATTTATACCGGTTATATTACAAATTACCTATTACATTATAATTATAGGTTTC
* *
1195588 GATGTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGGT
520 GATGTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTATACGTGCAACCCTTTTGGC
1195653 ATTCATTTTGGACAAA
585 ATTCATTTTGGACAAA
*
1195669 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACATATTTTAACATAAAACTGGT
1 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACTGGT
*
1195734 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT-ATTTTT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTT
* * * * *
1195798 GTGATCGATACTTTTTATAA-ATGTATC-ATCACTTTATGTGTTC-ATCCTTTTGGGCATTCAAT
131 G-GATCGATACTTTTTAAAACATGTATCGA-CACTTTATGCGTGCAACCCTTTT-GGCATTCATT
* ** * * * ** * * *
1195860 CTATACAAAAAGTATCGACACAACAT-TAAAAAGTGTCGACATATTATGTAGACATATTCTCACA
193 TTGGACAAAAAGTATCGACACAA-ATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACA
* * * ** * *
1195924 TAAAACTGGTATATTTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATAGGTTTC
257 TAAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* ** * * * * *
1195989 GATGTTTTTGGGATTGATACGCTTTAAAAATATTTTGACACTTTATGAGTGCACCCTTTATGGGC
322 GATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGAGTTCACCCTTT-TGGGC
* * * * * *
1196054 ATTCCTTCTAG-ACAAACAGTATCGACACAA-ATTCCAGAAGTGACGATAAATTATGTAGACCTA
386 ATTCATTCT-GTACAAAAAGTATCGACACAACATT-AAAAAGTGTCGACAAATTATGTAGACCTA
* * * * * ** *
1196117 TTCTCTCATAAAACCGATTTAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTTA
449 TTCTCACATAAAA-CGGTATATTTATACCGGTTATATTACAAA-TTACCTATTACATTATAATTA
* *
1196182 T-GGATTTCGATGTTTCTGGGATCGATACTTTTTAAAAC-TGTATCGACACTTTAT
512 TAGG-TTTCGATGTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTAT
1196236 GGGAAACTTT
Statistics
Matches: 1076, Mismatches: 80, Indels: 24
0.91 0.07 0.02
Matches are distributed among these distances:
599 8 0.01
600 192 0.18
601 691 0.64
602 184 0.17
603 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (600 bp):
AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACTGGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTT
GGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTTTG
GACAAAAAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAA
ACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG
TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGAGTTCACCCTTTTGGGCATTCA
TTCTGTACAAAAAGTATCGACACAACATTAAAAAGTGTCGACAAATTATGTAGACCTATTCTCAC
ATAAAACGGTATATTTATACCGGTTATATTACAAATTACCTATTACATTATAATTATAGGTTTCG
ATGTTTTTGGGATCGATACATTTTAAAACATGTATCGACACTTTATACGTGCAACCCTTTTGGCA
TTCATTTTGGACAAA
Found at i:1196257 original size:15 final size:15
Alignment explanation
Indices: 1196237--1196275 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1196227 ACACTTTATG
*
1196237 GGAAACTTTAAGTTT
1 GGAAACTTTAAGTAT
*
1196252 GGAAACTTTATGTAT
1 GGAAACTTTAAGTAT
*
1196267 GAAAACTTT
1 GGAAACTTT
1196276 GTTGTGGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (15 bp):
GGAAACTTTAAGTAT
Found at i:1197558 original size:3 final size:3
Alignment explanation
Indices: 1197544--1197584 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1197534 TGTTTGGAAA
* * *
1197544 ATC ATA ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC GTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1197585 TGACCTCTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.29, G:0.02, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:1198411 original size:2 final size:2
Alignment explanation
Indices: 1198404--1198449 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1198394 TAGTTTCCAG
1198404 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
1198446 AT AT
1 AT AT
1198450 CCTTCCCCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1199586 original size:200 final size:198
Alignment explanation
Indices: 1199092--1200250 Score: 1226
Period size: 200 Copynumber: 5.8 Consensus size: 198
1199082 ATTTAAAATG
* * * * * * *
1199092 GTATCGACACAAATTTAATAATTGTCTATACTTTATG-ATGACCTATTTTCTCATAAAACCAGTA
1 GTATCGACACAAATTAAAAAAGTGTCGATACATTATGTA-GACCTATTCTCTCATAAAACCGGTA
* * * * * *
1199156 AATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATG-TTCTTA
65 TATTTATACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGA
* * * * **
1199220 GGATCGACACTTTTTAAAAAAGTATCGACACTTTATGCATGCAACCCTTT-GGCATTCATTCTGG
129 -GATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCATCATTTTGGGCATTCATTCTGG
1199284 ACAAAAA
193 AC-AAAA
* * ** * *
1199291 GTATCGACGCCAATTCCACAAGTATCGATACA-TATTGTAGACCTATTCTCTCATAAAACCGGTA
1 GTATCGACACAAATTAAAAAAGTGTCGATACATTA-TGTAGACCTATTCTCTCATAAAACCGGTA
* * * * *
1199355 TAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTTATGGGTTTCGATGTTTCTGA
65 TATTTATACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGA
* * * * * **
1199420 TATCAACACTTTCTATAAATATATCGACACTTTATGCATTTATCATTTTGGGCATTCATTCTGGA
129 GATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCATCATTTTGGGCATTCATTCTGGA
1199485 CAAAA
194 CAAAA
* * *
1199490 CGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTA
1 -GTATCGACACAAATTAAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
* *
1199555 TATTTATACC-GTTAATATTACAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTT-TT
65 TATTTATACCGGTT-ATATTA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
* * * * *
1199618 AGGATCGACACTTTGTATAAATGTATCGACAC-TTAGTG-GTGCACCCTTTTTGGGCTTTCCTTC
128 A-GATCGACACTTTTTATAAATGTATCGACACTTTA-TGCGTGCA-TCATTTTGGGCATTCATTC
1199681 TGGACCAAAA
190 TGGA-CAAAA
* * * * *
1199691 GTATCGACACAAATTACACAAGTGTCGATACA-TATTGTACACCTATTCTGTCATAAAATCGGTA
1 GTATCGACACAAATTAAAAAAGTGTCGATACATTA-TGTAGACCTATTCTCTCATAAAACCGGTA
* * * * *
1199755 TATGTATACCGGTTACAATGAAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTCTGG
65 TATTTATACCGGTTA-TATTAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGA
* *
1199820 GATCGATACTTATTTATAAATGTATCGACACTTTTTGCGTGCACTC-TTTTGGGCATTCATTCTG
129 GATCGACACTT-TTTATAAATGTATCGACACTTTATGCGTGCA-TCATTTTGGGCATTCATTCTG
*
1199884 GAGAAATA
192 GACAAA-A
* * ** * * * *
1199892 ATATCGACACATATTCCAGAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCAGTTT
1 GTATCGACACAAATTAAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT
* * * * * *
1199957 AGTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCTATGTTTCTGGG
66 ATTTATACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGAG
* ** * * *
1200022 ATCGATACTTTCAATAAATGTATCGACACGTTATGCGTTCATCATTTTGGGAATTCATTCTGGAT
130 ATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCATCATTTTGGGCATTCATTCTGGA-
*
1200087 AAAAA
194 CAAAA
* * * *
1200092 GTATCGATACATAA-TGAAAAAGTGTCGATACATTATGTAGACTTATTCTCAT-ATAAAATCGGT
1 GTATCGACACA-AATTAAAAAAGTGTCGATACATTATGTAGACCTATTCTC-TCATAAAACCGGT
* * *
1200155 ATATTTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTTTG
64 ATATTTATACCGGTTATATTA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
*
1200220 GGATCGACACTTTTTATAAATGTATCGACAC
128 AGATCGACACTTTTTATAAATGTATCGACAC
1200251 ATATGCTTAC
Statistics
Matches: 813, Mismatches: 120, Indels: 53
0.82 0.12 0.05
Matches are distributed among these distances:
198 2 0.00
199 158 0.19
200 468 0.58
201 174 0.21
202 11 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (198 bp):
GTATCGACACAAATTAAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT
ATTTATACCGGTTATATTAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGAGA
TCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCATCATTTTGGGCATTCATTCTGGACA
AAA
Found at i:1200026 original size:401 final size:398
Alignment explanation
Indices: 1199093--1200250 Score: 1329
Period size: 401 Copynumber: 2.9 Consensus size: 398
1199083 TTTAAAATGG
* * * * * * * *
1199093 TATCGACACAAATTTAATAATTGTCTATACTTTATG-ATGACCTATTTTCTCATAAAACCAGTAA
1 TATCGACACAAAATAAAAAAGTGTCAATACATTATGTA-GACCTATTCTCTCATAAAACCAGTAT
* * *
1199157 ATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATG-TTCTTAG
65 ATTTATA-CGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCTATGTTTC-TAG
* * * * *
1199221 GATCGACACTTTTTAAAAAAGTATCGACACTTTATGCATGCAACCC-TTT-GGCATTCATTCTGG
127 GATCGACACTTTCTATAAATGTATCGACACGTTATGCGTGC-ACCCTTTTGGGCATTCATTCTGG
* * * * *
1199284 ACAAAAAGTATCGACGCCAATTCCACAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAA
191 ACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATATTGTAGACCTATTCTATCATAAAA
* * * * *
1199349 CCGGTATA-GTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTTATGGGTTTCGATG
256 TCGGTATATG-TATACCGGTTACAATGAAAAATTACCTATTACATTATAATTATGGGTTTCGATG
** * * * **
1199413 TTTCTGATATCAACACTTTCTATAAATATATCGACACTTTATGCATTTATCATTTTGGGCATTCA
320 TTTCTGGGATCGACACTTTTTATAAATGTATCGACACTTTATGCATGCATCATTTTGGGCATTCA
*
1199478 TTCTGGACAAAACG
385 TTCTGGACAAAACA
* * * *
1199492 TATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTATA
1 TATCGACACAAAATAAAAAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCAGTATA
* * *
1199557 TTTATACCGTTA-ATATTACAAAATTACCTATTACATTATAATTATGGGTTT-TGATGTTTTTAG
66 TTTATACGGTTACAT-TGA-AAAATTACCTATTACATTATAATTAT-GGTTTCT-ATGTTTCTAG
* * *
1199620 GATCGACACTTTGTATAAATGTATCGACAC-TTAGTG-GTGCACCCTTTTTGGGCTTTCCTTCTG
127 GATCGACACTTTCTATAAATGTATCGACACGTTA-TGCGTGCACCC-TTTTGGGCATTCATTCTG
* * *
1199683 GACCAAAAGTATCGACACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTGTCATAAA
190 GACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATATTGTAGACCTATTCTATCATAAA
*
1199748 ATCGGTATATGTATACCGGTTACAATGAAAAATTACCTATTACATTATAATTATGGGTTTTGATG
255 ATCGGTATATGTATACCGGTTACAATGAAAAATTACCTATTACATTATAATTATGGGTTTCGATG
* * *
1199813 TTTCTGGGATCGATACTTATTTATAAATGTATCGACACTTTTTGCGTGCACTC-TTTTGGGCATT
320 TTTCTGGGATCGACACTT-TTTATAAATGTATCGACACTTTATGCATGCA-TCATTTTGGGCATT
*
1199877 CATTCTGGAGAAATA-A
383 CATTCTGGACAAA-ACA
* * ** * *
1199893 TATCGACACATATTCCAGAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCAGTTTA
1 TATCGACACAAAATAAAAAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCAGTATA
* *
1199958 GTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCTATGTTTCTGGGA
66 TTTATA-CGGTTACATTGAAAAATTACCTATTACATTATAATTATG-GTTTCTATGTTTCTAGGA
* * * * * * *
1200023 TCGATACTTTCAATAAATGTATCGACACGTTATGCGTTCATCATTTTGGGAATTCATTCTGGATA
129 TCGACACTTTCTATAAATGTATCGACACGTTATGCGTGCACCCTTTTGGGCATTCATTCTGGACA
* * * *
1200088 AAAAGTATCGATACATAATGA-AAAAGTGTCGATACAT-TATGTAGACTTATTCTCAT-ATAAAA
194 AAAAGTATCGACACA-AATTACACAAGTGTCGATACATAT-TGTAGACCTATTCT-ATCATAAAA
* * * * *
1200150 TCGGTATATTTATACTGGTTA-TATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATA
256 TCGGTATATGTATACCGGTTACAATGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATG
*
1200214 TTTTTGGGATCGACACTTTTTATAAATGTATCGACAC
320 TTTCTGGGATCGACACTTTTTATAAATGTATCGACAC
1200251 ATATGCTTAC
Statistics
Matches: 647, Mismatches: 89, Indels: 45
0.83 0.11 0.06
Matches are distributed among these distances:
397 6 0.01
398 12 0.02
399 126 0.19
400 167 0.26
401 310 0.48
402 24 0.04
403 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (398 bp):
TATCGACACAAAATAAAAAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCAGTATA
TTTATACGGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCTATGTTTCTAGGATC
GACACTTTCTATAAATGTATCGACACGTTATGCGTGCACCCTTTTGGGCATTCATTCTGGACAAA
AAGTATCGACACAAATTACACAAGTGTCGATACATATTGTAGACCTATTCTATCATAAAATCGGT
ATATGTATACCGGTTACAATGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
GGATCGACACTTTTTATAAATGTATCGACACTTTATGCATGCATCATTTTGGGCATTCATTCTGG
ACAAAACA
Found at i:1200623 original size:19 final size:19
Alignment explanation
Indices: 1200599--1200647 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1200589 TTACATCCAC
1200599 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1200618 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1200637 ATACAAAATTA
1 ATACAAAATTA
1200648 ACTCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1202183 original size:21 final size:18
Alignment explanation
Indices: 1202145--1202200 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
1202135 TCCTCCTCAT
*
1202145 TTCCTCCATCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
1202163 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
*
1202181 TTCCTCCCTCTTTTATTC
1 TTCCTCCCTCTTTTCTTC
1202199 TT
1 TT
1202201 TATATTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.04, C:0.39, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:1202477 original size:21 final size:21
Alignment explanation
Indices: 1202452--1202495 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1202442 CCCCTTATGC
1202452 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
*
1202473 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
1202494 CT
1 CT
1202496 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.34, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:1202911 original size:22 final size:23
Alignment explanation
Indices: 1202883--1202938 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
1202873 AACTTGCATT
1202883 TATAATAAAAT-TTATAATTTTA
1 TATAATAAAATATTATAATTTTA
* *
1202905 TATAATAACTATATTATCATTTTA
1 TATAATAA-AATATTATAATTTTA
*
1202929 TATAAAAAAA
1 TATAATAAAA
1202939 ACAGAAACGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATAAAATATTATAATTTTA
Found at i:1204313 original size:20 final size:20
Alignment explanation
Indices: 1204244--1204314 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
1204234 CATTTATACA
*
1204244 ACCTAAAATA-TTATTTTCT
1 ACCTATAATATTTATTTTCT
* * *
1204263 TCCTATAATATTTATATAC-
1 ACCTATAATATTTATTTTCT
** *
1204282 ATGTATCCATATTTATTTTCT
1 ACCTAT-AATATTTATTTTCT
1204303 ACCTATAATATT
1 ACCTATAATATT
1204315 ATATAATCGG
Statistics
Matches: 36, Mismatches: 13, Indels: 5
0.67 0.24 0.09
Matches are distributed among these distances:
19 11 0.31
20 21 0.58
21 4 0.11
ACGTcount: A:0.34, C:0.15, G:0.01, T:0.49
Consensus pattern (20 bp):
ACCTATAATATTTATTTTCT
Found at i:1205218 original size:182 final size:181
Alignment explanation
Indices: 1204903--1205393 Score: 714
Period size: 182 Copynumber: 2.7 Consensus size: 181
1204893 TACGCGTACT
* * * *
1204903 TATTAAATTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTGTCATTTAGAGACCG
1 TATTAAAGTATCGACA-TTTCAATATATCCGGTAGCACTTTACCGGTTTTGTCTTTTCGTGACCG
* * * * * * *
1204968 ATTTTATCATATTTTTACCTTTTATATCGTTATGGATCAATACATTTTTATAAAAAATCGATACT
65 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGAATCGACACT
*
1205033 TTATAGGCACTAAAACTACTTCTCCTTTAAATTCACAATATGTCGATACTTA
130 TTATAAGCACTAAAACTACTTCTCCTTTAAATTCACAATATGTCGATACTTA
* * *
1205085 TATTAAAGTATCGACAGTTTCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCG
1 TATTAAAGTATCGACA-TTTCAATATATCCGGTAGCACTTTACCGGTTTTGTCTTTTCGTGACCG
*
1205150 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
65 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGAATCGACACT
* * * *
1205215 TTATAAGCGCTAAAACTGCTTCTCCTTTAAATTCACTATGTGTCGATACTTA
130 TTATAAGCACTAAAACTACTTCTCCTTTAAATTCACAATATGTCGATACTTA
* *
1205267 TATTAAAGTAGCGACATTTGCATTATATCCGGTAGCACTTTACCGGTTTTGTCTTTTCGTGACCG
1 TATTAAAGTATCGACATTT-CAATATATCCGGTAGCACTTTACCGGTTTTGTCTTTTCGTGACCG
* * * *
1205332 GTTTTGTCATATTTTT-CCTGTTATATTGATGTCGATCGATACATTTTTATAAAGTATCGACA
65 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGAATCGACA
1205394 TAAACCGACA
Statistics
Matches: 277, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 44 0.16
182 233 0.84
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (181 bp):
TATTAAAGTATCGACATTTCAATATATCCGGTAGCACTTTACCGGTTTTGTCTTTTCGTGACCGG
TTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGAATCGACACTT
TATAAGCACTAAAACTACTTCTCCTTTAAATTCACAATATGTCGATACTTA
Found at i:1206070 original size:18 final size:19
Alignment explanation
Indices: 1206031--1206072 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
1206021 AACATTTAAT
1206031 TTATTGATAATATAAAAAA
1 TTATTGATAATATAAAAAA
* *
1206050 TTATTGATCAT-TAAAACA
1 TTATTGATAATATAAAAAA
1206068 TTATT
1 TTATT
1206073 ATATGAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (19 bp):
TTATTGATAATATAAAAAA
Found at i:1206689 original size:29 final size:29
Alignment explanation
Indices: 1206599--1206678 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
1206589 GTTCATTTAT
* *
1206599 TATTAAAAGTTATAAAATAATCCGTCGAC
1 TATTAAAAGTTACAAAATAGTCCGTCGAC
1206628 TATTAAAAGTTACAAAATAGTCCGTCGAC
1 TATTAAAAGTTACAAAATAGTCCGTCGAC
1206657 TATTAAAAGTTACAAAATAGTC
1 TATTAAAAGTTACAAAATAGTC
1206679 ACATAATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (29 bp):
TATTAAAAGTTACAAAATAGTCCGTCGAC
Found at i:1215170 original size:44 final size:44
Alignment explanation
Indices: 1215107--1215193 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
1215097 TGTCAGAGAA
*
1215107 TATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGGC
1 TATGTTATCATTACCCTATTATGTCACTCATGTCCCTCGGGGGC
*
1215151 TATGTTATCATTACCCTATTATGTCACTCATGTCTCTCGGGGG
1 TATGTTATCATTACCCTATTATGTCACTCATGTCCCTCGGGGG
1215194 TACTATTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (44 bp):
TATGTTATCATTACCCTATTATGTCACTCATGTCCCTCGGGGGC
Found at i:1215476 original size:60 final size:60
Alignment explanation
Indices: 1215353--1215498 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 60
1215343 CATAGTGGTG
* * * * * ** *
1215353 AAAGCGCGTTCCCGGAGATGCGCCTTACCCACGTGGCATCCGACTCAGCAGATCCCATAT
1 AAAGCGCGTCCCCGGGGATGCGCCTTACACACGTGGCATCCCACTCAGCAAAAACCAGAT
* * * * *
1215413 AAAGCGCATCCCCGGGGATGCGCCTTACACGCGTGGCATCCCAGTCAGCAAAAATCAGGT
1 AAAGCGCGTCCCCGGGGATGCGCCTTACACACGTGGCATCCCACTCAGCAAAAACCAGAT
*
1215473 AAAGCGCGTCCCCGGGGATGCACCTT
1 AAAGCGCGTCCCCGGGGATGCGCCTT
1215499 TATGCCACCT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (60 bp):
AAAGCGCGTCCCCGGGGATGCGCCTTACACACGTGGCATCCCACTCAGCAAAAACCAGAT
Found at i:1219351 original size:16 final size:16
Alignment explanation
Indices: 1219327--1219361 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1219317 AGGGTGATAT
*
1219327 ACTCTCTATTTCAACG
1 ACTCACTATTTCAACG
1219343 ACTCACTATTTCAACG
1 ACTCACTATTTCAACG
1219359 ACT
1 ACT
1219362 TAATTGACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.34
Consensus pattern (16 bp):
ACTCACTATTTCAACG
Found at i:1221308 original size:90 final size:91
Alignment explanation
Indices: 1221201--1221373 Score: 244
Period size: 90 Copynumber: 1.9 Consensus size: 91
1221191 GGTACACTAA
1221201 GAGTGCAACGATGCATAAAATGCATTCGATGTTTCAAAAT-AGCCA-GAATGCATCGATGCATGG
1 GAGTGCAACGATGCATAAAATGCATTCGATG-TTCAAAATAAGCCATG-ATGCATCGATGCATGG
*
1221264 -TTTGTGCATCGATGCATCAAATGCACT
64 ATTGGTGCATCGATGCATCAAATGCACT
* ** * *
1221291 GAGTGCATCGATGCATAAAATGCATTCGATGTTCAATTTAATCCATGGTGCATCGATGCATGGAT
1 GAGTGCAACGATGCATAAAATGCATTCGATGTTCAAAATAAGCCATGATGCATCGATGCATGGAT
*
1221356 TGGTGCATCGGTGCATCA
66 TGGTGCATCGATGCATCA
1221374 CTTTGAAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 6 0.08
90 49 0.67
91 18 0.25
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (91 bp):
GAGTGCAACGATGCATAAAATGCATTCGATGTTCAAAATAAGCCATGATGCATCGATGCATGGAT
TGGTGCATCGATGCATCAAATGCACT
Found at i:1227913 original size:20 final size:20
Alignment explanation
Indices: 1227871--1227913 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1227861 TTATTTTCAT
* *
1227871 TTTTTAATTTTGAAATATCA
1 TTTTTAATTTTGAAAAATAA
1227891 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
1227911 TTT
1 TTT
1227914 CTCATAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:1237519 original size:21 final size:20
Alignment explanation
Indices: 1237489--1237535 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1237479 ACTGCAAGTA
1237489 TTCTTTATTAT-CCTTTGATT
1 TTCTTTATTATACCTTT-ATT
*
1237509 TTCTTATATTATATCTTTATT
1 TTCTT-TATTATACCTTTATT
1237530 TTCTTT
1 TTCTTT
1237536 TGGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 14 0.58
22 4 0.17
ACGTcount: A:0.17, C:0.13, G:0.02, T:0.68
Consensus pattern (20 bp):
TTCTTTATTATACCTTTATT
Found at i:1237625 original size:23 final size:24
Alignment explanation
Indices: 1237566--1237626 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
1237556 AGGCTATCTG
**
1237566 TATGACATGTTTTTCATCTGTCTT
1 TATGACACATTTTTCATCTGTCTT
*
1237590 TATGACACA-TTTTCTTCTGAT-TT
1 TATGACACATTTTTCATCTG-TCTT
1237613 T-TGACACATTTTTC
1 TATGACACATTTTTC
1237627 GATCATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 7 0.22
23 17 0.53
24 8 0.25
ACGTcount: A:0.20, C:0.18, G:0.10, T:0.52
Consensus pattern (24 bp):
TATGACACATTTTTCATCTGTCTT
Found at i:1238363 original size:22 final size:22
Alignment explanation
Indices: 1238337--1238380 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1238327 TCTATTTTTA
1238337 TATTTCTAAAATTTTATAAATT
1 TATTTCTAAAATTTTATAAATT
*
1238359 TATTTTTAAAATTTTATAAATT
1 TATTTCTAAAATTTTATAAATT
1238381 CGTTACTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTCTAAAATTTTATAAATT
Found at i:1240126 original size:36 final size:36
Alignment explanation
Indices: 1240052--1240126 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
1240042 TTTTTATATT
*
1240052 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* * *
1240088 TTTAATTTTTTAAAGAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTAT-CAA
1240124 TTT
1 TTT
1240127 GTAATATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:1240148 original size:17 final size:18
Alignment explanation
Indices: 1240103--1240149 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
1240093 TTTTTTAAAG
1240103 AAATATATAAATATTTTAC
1 AAATATAT-AATATTTTAC
* *
1240122 -AATTTGTAATA-TTTAC
1 AAATATATAATATTTTAC
1240138 AAATATATAATA
1 AAATATATAATA
1240150 AGGACAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.22
17 13 0.57
18 5 0.22
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATATATAATATTTTAC
Found at i:1240306 original size:20 final size:20
Alignment explanation
Indices: 1240270--1240307 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1240260 ATCCTATTCC
**
1240270 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1240290 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1240308 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1241425 original size:175 final size:175
Alignment explanation
Indices: 1241057--1241425 Score: 527
Period size: 176 Copynumber: 2.1 Consensus size: 175
1241047 ATTAAATTTT
*
1241057 AATATTAAATA-TATTATATAACATATGGGCTCAACCCAAATCATTAAAAACCCAATTAATAATT
1 AATATTAAATATTA-TATATAACATATGGGCTCAACCCAAACCATTAAAAACCCAATTAATAATT
*
1241121 TAAGATCTAATAACTTTTAAACTTAAATCAATATAATTAATTAAAAAATTATATAAATTTTTTTT
65 TAAGATCCAATAACTTTTAAACTTAAATCAATATAATTAATTAAAAAATTATATAAATTTTTTTT
* *
1241186 ATAATTATATATATTAAATTAATTGTAAACTGTTTTTTAATTAAAAA
130 ATAATTATATATATTAAATTAATTATAAACTGTTTTTGAATT-AAAA
*
1241233 AATATTAAATATTATATATAACATATGGGCT-AAGCCCAAACCATTTAAAACCCAATTAATAA-T
1 AATATTAAATATTATATATAACATATGGGCTCAA-CCCAAACCATTAAAAACCCAATTAATAATT
* * *
1241296 TAATATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTTTATCTAAAATTTTT
65 TAAGATCCAATAACTTTTAAACTTAAATCAATA-TAATTAATTAAAAA-ATTATAT-AAATTTTT
1241361 ATTTATAATTAT-TATATTTAAATTAATTAT-AACT-TTTTTGAATT-AAA
127 -TTTATAATTATATATA-TTAAATTAATTATAAACTGTTTTTGAATTAAAA
* *
1241408 AATATTTAATTTTATATA
1 AATATTAAATATTATATA
1241426 AATTAGACAA
Statistics
Matches: 176, Mismatches: 10, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
175 53 0.30
176 68 0.39
177 16 0.09
178 16 0.09
179 23 0.13
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (175 bp):
AATATTAAATATTATATATAACATATGGGCTCAACCCAAACCATTAAAAACCCAATTAATAATTT
AAGATCCAATAACTTTTAAACTTAAATCAATATAATTAATTAAAAAATTATATAAATTTTTTTTA
TAATTATATATATTAAATTAATTATAAACTGTTTTTGAATTAAAA
Found at i:1246878 original size:3 final size:3
Alignment explanation
Indices: 1246815--1246862 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
1246805 ACAAATGTAA
* * * *
1246815 AAT ATT AAT ATT AAT AAT AAT AAT AAT -AT AGT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1246862 A
1 A
1246863 TTATTATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:1247124 original size:20 final size:21
Alignment explanation
Indices: 1247099--1247157 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
1247089 AGGTTGAACA
*
1247099 AGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTG
*
1247120 A-TTCTTCCTC-TT-TGGA-TG
1 AGTTCTT-CTCATTATGAACTG
1247138 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
1247158 CTCTATTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
18 5 0.17
19 10 0.33
20 10 0.33
21 5 0.17
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (21 bp):
AGTTCTTCTCATTATGAACTG
Found at i:1247439 original size:136 final size:128
Alignment explanation
Indices: 1247205--1247483 Score: 380
Period size: 136 Copynumber: 2.1 Consensus size: 128
1247195 GAGTCGAAAG
* * *
1247205 GAACAAGTTCTTCTCATTATGAACTTTCTCTTTTAGGATGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGCTCTTCTCATTATGAACTTTCTCTTTTAGGATAAGTTCTTCTCATTATGAACTCTCCT
* **
1247270 GGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTTGAAATGCCGTGAATCAAGTGATAGGTC
66 GGAAATGTCAATACCTCAAGCGAGGCGTCACTGATTCAAAATGCCGTGAATCAAGTGA-AGGTC
1247334 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCTTCTATCA-GATAAGTTCTTCTCATTATGAAC
1 GAACAAGCTCTTCTCATTATGAAC-T-TTCT-CTT-T-T-AGGATAAGTTCTTCTCATTATGAAC
* * *
1247398 TCTCCATTGGAAATGTTAATACCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCGAGTG
60 TCTCC--TGGAAATGTCAATACCTCAAGCGAGGCGTCACTGATTCAAAATGCCGTGAATCAAGTG
1247463 AAGGTC
123 AAGGTC
1247469 GAACAAGCTTCTTCT
1 GAACAAGC-TCTTCT
1247484 TCCTCGTTGG
Statistics
Matches: 132, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
129 23 0.17
130 1 0.01
131 4 0.03
132 3 0.02
133 1 0.01
134 27 0.20
135 14 0.11
136 59 0.45
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (128 bp):
GAACAAGCTCTTCTCATTATGAACTTTCTCTTTTAGGATAAGTTCTTCTCATTATGAACTCTCCT
GGAAATGTCAATACCTCAAGCGAGGCGTCACTGATTCAAAATGCCGTGAATCAAGTGAAGGTC
Done.