Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_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: 3753803
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 18
Found at i:1776578 original size:312 final size:310
Alignment explanation
Indices: 1776013--1776676 Score: 816
Period size: 312 Copynumber: 2.1 Consensus size: 310
1776003 TTAAATCCAA
* * * * * *
1776013 CTTTTATTTTAAGTATGTTTTTACCAAATTTAAACCACATGCTCTTAAGACATCGTAAAATACAT
1 CTTTTATTTTAAGTATGTTTTTATCAAATTTAAACCACATACCCCTAAAACATCATAAAATACAT
* *
1776078 ATGTACTTTCAATTTCTCTTTTAGATAATAAATTTTATAATTTTCAATTTAGGCCTTCAATTTTT
66 ATGTACTTTCAATTTCTCTTTTAGATAAAAAATTTTAT-ATTTTCAATTTAGGCCATCAATTTTT
* * * *
1776143 CATAATTTCCATATTTCTTCAATACATCCTTTATTTTAAGATTATTTTACCAAATTTGAACCACA
130 AATAATTTCCATATTTCTTCAATACATCATTTATTTTAAGATTATTTTAACAAATTTAAACCACA
* *
1776208 TGCTCGTAAACAATCGTAGAAACATATGTACTTTCAATTTATCTTTTTGATAACAAATTTTCTAA
195 TGCTCATAAACAATCGTAGAAACATATGTACTTTCAA-TTATCTTTTTGATAACAAATTTTATAA
* * * * *
1776273 TTTTCAATTTAATCCCTCAATTTTTCATATTTTTCGTATTTATTCAATTTAT
259 TTTTCAATTTAATCCCTCAAATTTTCATAATTTCCGTATTTACTCAATTCAT
* * * * * *
1776325 CTTTTATTTTAAGTCTATTTTTATTAAATTTGAACTACATACCCCTAAAACATCATAGAATACAT
1 CTTTTATTTTAAGTATGTTTTTATCAAATTTAAACCACATACCCCTAAAACATCATAAAATACAT
* * *
1776390 ATTTACTTTCAATTTCTATTTTTA-ATAAAAAAATATTTAT-TTTTCAATTTAGTCCATCAATTT
66 ATGTACTTTCAATTTCT-CTTTTAGAT-AAAAAAT-TTTATATTTTCAATTTAGGCCATCAATTT
* * * *
1776453 TTAATAATTTCCTTATTTCTTCAATTCATTATTTATTTTAAG-TCTGTTTTTAACAAATTTAAAC
128 TTAATAATTTCCATATTTCTTCAATACATCATTTATTTTAAGAT-T-ATTTTAACAAATTTAAAC
* * * *
1776517 CGCATGCTCATAAACCA-CTGTAGAATACATATGTTCTTTCAA-TCTCTTTTTGATAACAAATTT
191 CACATGCTCATAAACAATC-GTAGAA-ACATATGTACTTTCAATTATCTTTTTGATAACAAATTT
* * * * *
1776580 TATATTTTTCTATTTAGTCCCTCAAATTTTCATAATTTCCTTATTTCCTCAATTCAT
254 TATAATTTTCAATTTAATCCCTCAAATTTTCATAATTTCCGTATTTACTCAATTCAT
* * *
1776637 CCTTTATTTTAAATTTGTTTTTATCAAATTTAAACCACAT
1 CTTTTATTTTAAGTATGTTTTTATCAAATTTAAACCACAT
1776677 GCTCATGTAT
Statistics
Matches: 297, Mismatches: 48, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
311 1 0.00
312 230 0.77
313 46 0.15
314 20 0.07
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (310 bp):
CTTTTATTTTAAGTATGTTTTTATCAAATTTAAACCACATACCCCTAAAACATCATAAAATACAT
ATGTACTTTCAATTTCTCTTTTAGATAAAAAATTTTATATTTTCAATTTAGGCCATCAATTTTTA
ATAATTTCCATATTTCTTCAATACATCATTTATTTTAAGATTATTTTAACAAATTTAAACCACAT
GCTCATAAACAATCGTAGAAACATATGTACTTTCAATTATCTTTTTGATAACAAATTTTATAATT
TTCAATTTAATCCCTCAAATTTTCATAATTTCCGTATTTACTCAATTCAT
Found at i:1785399 original size:21 final size:21
Alignment explanation
Indices: 1785373--1785417 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1785363 GATTTCTGGG
* *
1785373 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1785394 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1785415 CAA
1 CAA
1785418 ACGAATAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1785471 original size:22 final size:22
Alignment explanation
Indices: 1785444--1785505 Score: 115
Period size: 22 Copynumber: 2.8 Consensus size: 22
1785434 AGTATGTCAT
1785444 GGGGGAACCGATACCCCCATAG
1 GGGGGAACCGATACCCCCATAG
1785466 GGGGGAACCGATACCCCCATAG
1 GGGGGAACCGATACCCCCATAG
*
1785488 GGGGGAACCGATTCCCCC
1 GGGGGAACCGATACCCCC
1785506 TAAAGGAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.10
Consensus pattern (22 bp):
GGGGGAACCGATACCCCCATAG
Found at i:1786047 original size:18 final size:18
Alignment explanation
Indices: 1786024--1786058 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1786014 CTAGGAGATT
1786024 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
1786042 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
1786059 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:1786302 original size:2 final size:2
Alignment explanation
Indices: 1786295--1786330 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1786285 AATCTTGAGG
1786295 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
1786331 GAAATGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1787184 original size:23 final size:22
Alignment explanation
Indices: 1787096--1787176 Score: 135
Period size: 22 Copynumber: 3.6 Consensus size: 22
1787086 ATCATTATAT
*
1787096 GGCACTACGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
*
1787118 GGTACTTCGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
1787140 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTAC-G
1787163 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
1787177 TTTATACGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 40 0.73
23 15 0.27
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.26
Consensus pattern (22 bp):
GGCACTTCGGTGCAATTCTACG
Found at i:1792522 original size:34 final size:36
Alignment explanation
Indices: 1792478--1792579 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
1792468 TTTCGTCCTA
1792478 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
1792513 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
1792548 GCTAGGGTTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
1792580 GTTATACTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 30 0.49
35 3 0.05
37 28 0.46
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:1793181 original size:16 final size:18
Alignment explanation
Indices: 1793160--1793194 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1793150 TTTACTCATT
1793160 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
1793176 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
1793194 T
1 T
1793195 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:1796383 original size:8 final size:8
Alignment explanation
Indices: 1796372--1796407 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
1796362 CAAAAAGGGC
1796372 AAAAAG-A
1 AAAAAGAA
1796379 AAAAAGAA
1 AAAAAGAA
*
1796387 AAGAAGAA
1 AAAAAGAA
1796395 AAAAAGAA
1 AAAAAGAA
1796403 AAAAA
1 AAAAA
1796408 AACAAGAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:1796402 original size:23 final size:24
Alignment explanation
Indices: 1796371--1796429 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 24
1796361 ACAAAAAGGG
*
1796371 CAAAAAGAAAAAAGAAAAGAAGAA
1 CAAAAAGAAAAAAGAAAACAAGAA
1796395 -AAAAAG-AAAAA-AAAACAAGAA
1 CAAAAAGAAAAAAGAAAACAAGAA
*
1796416 CAAAAATAAAAAAG
1 CAAAAAGAAAAAAG
1796430 GGAACAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 9 0.30
22 10 0.33
23 11 0.37
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (24 bp):
CAAAAAGAAAAAAGAAAACAAGAA
Found at i:1796405 original size:24 final size:23
Alignment explanation
Indices: 1796372--1796421 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
1796362 CAAAAAGGGC
*
1796372 AAAAAGAAAAAAGAA-AAGAAGAA
1 AAAAAGAAAAAA-AACAAGAACAA
1796395 AAAAAGAAAAAAAAACAAGAACAA
1 AAAAAG-AAAAAAAACAAGAACAA
1796419 AAA
1 AAA
1796422 TAAAAAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAAAACAAGAACAA
Found at i:1797066 original size:22 final size:22
Alignment explanation
Indices: 1797038--1797088 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
1797028 CCCCATCAAT
1797038 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
1797060 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
1797082 CCTTTGA
1 CCTTTGA
1797089 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:1797527 original size:18 final size:18
Alignment explanation
Indices: 1797504--1797539 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1797494 TCAACATCAA
* *
1797504 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
1797522 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
1797540 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:1798007 original size:36 final size:35
Alignment explanation
Indices: 1797967--1798300 Score: 290
Period size: 36 Copynumber: 9.5 Consensus size: 35
1797957 ACTCATGATT
* * *
1797967 GTTTTTCTTAAAACAAGATTTGTCTCTCTTGAGACC
1 GTTTCTCTTGAAACAA-ATTTGTCTCTCTTGAGACA
* * * **
1798003 GTTTTCACTAG-AAGAGTTTTGTCTCTCTTGAGACA
1 G-TTTCTCTTGAAACAAATTTGTCTCTCTTGAGACA
*
1798038 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAA-TTTGTCTCTCTTGAGACA
*
1798074 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 GTTTCTCTTGAAACAAATTT-GTCTCTCTTGAGACA
* *
1798110 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAA-TTTGTCTCTCTTGAGACA
* * * *
1798146 GTTTCCCTTGAAACAAA-----ATAT-TTGA-ATA
1 GTTTCTCTTGAAACAAATTTGTCTCTCTTGAGACA
* *
1798174 TGTTT-TCTTTGAAACAAATTTCATCTCCCTTGAGACA
1 -GTTTCTC-TTGAAACAAATTT-GTCTCTCTTGAGACA
* * *
1798211 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAAC-AA-ATTTGTCTCTCTTGAGACA
* *
1798248 GTTTCTCTTGAAACAATTTTCGTCTATCTTGAGACA
1 GTTTCTCTTGAAACAAATTT-GTCTCTCTTGAGACA
*
1798284 GTTTCCCTTGAAACAAA
1 GTTTCTCTTGAAACAAA
1798301 ATCTTTGAAT
Statistics
Matches: 242, Mismatches: 37, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.01
29 18 0.07
30 2 0.01
34 7 0.03
35 29 0.12
36 142 0.59
37 38 0.16
38 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (35 bp):
GTTTCTCTTGAAACAAATTTGTCTCTCTTGAGACA
Found at i:1798260 original size:102 final size:102
Alignment explanation
Indices: 1798075--1798263 Score: 290
Period size: 102 Copynumber: 1.9 Consensus size: 102
1798065 CTTGAGACAG
* *
1798075 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTTCATCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1798140 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
* ** * *
1798177 TTTCT-TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTCATCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
*
1798241 TGAGACAGTTTCTCTTGAAACAA
65 TGAGACAGTTTCCCTTGAAACAA
1798264 TTTTCGTCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 33 0.42
102 45 0.58
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATTTCATCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
Found at i:1798285 original size:138 final size:137
Alignment explanation
Indices: 1798039--1798363 Score: 445
Period size: 138 Copynumber: 2.4 Consensus size: 137
1798029 CTTGAGACAG
*
1798039 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
*
1798104 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTT
66 GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTT
*
1798169 GAATATG
131 GAATATA
* * ** * * * * *
1798176 TTTTCTTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* * *
1798241 TGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCT
65 TGAGACAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAATAT
*
1798305 TTGAATTTA
129 TTGAATATA
* * * *
1798314 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1798364 CAAAATCTTC
Statistics
Matches: 160, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
137 49 0.31
138 111 0.69
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTT
GAATATA
Found at i:1798362 original size:65 final size:67
Alignment explanation
Indices: 1798258--1798415 Score: 196
Period size: 67 Copynumber: 2.4 Consensus size: 67
1798248 GTTTCTCTTG
** * * **
1798258 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCC
1 AAACAAATTTT-GTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCC
1798320 CTA
65 CTA
* *
1798323 AAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
1798388 TA
66 TA
*
1798390 AAACATAATTTTGTTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
1798416 CGTTTCTCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 24 0.30
66 8 0.10
67 29 0.36
68 19 0.24
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:1798392 original size:67 final size:65
Alignment explanation
Indices: 1798249--1798415 Score: 192
Period size: 65 Copynumber: 2.5 Consensus size: 65
1798239 CTTGAGACAG
* * ** * * **
1798249 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAATTACCCTTGAAACAAAATCTTCAAATTT
1798313 A
65 A
* *
1798314 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTACCCTTG-AA-ACAAAATCTTCAAATT
1798379 TA
64 TA
*
1798381 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGAC
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGAC
1798416 CGTTTCTCAT
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 30 0.35
66 8 0.09
67 29 0.34
68 19 0.22
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (65 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACAAAATCTTCAAATTTA
Found at i:1799259 original size:105 final size:105
Alignment explanation
Indices: 1799036--1799801 Score: 1051
Period size: 105 Copynumber: 7.3 Consensus size: 105
1799026 GCCATCTGCG
* * * * * *
1799036 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
** *
1799101 GGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* * *
1799145 ATTTCAACTTCACAACGAAGAATATTGGACTCCAGAAAACGCAAGTTCAACTTCACGGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1799210 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
1799250 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
1799315 ACCGCTGCTTGTCAACAACAACTTCTTAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* **
1799355 ATTTCAACTTCACAACAAAGGATATTGGACTTAAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
1799420 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCATAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
1799460 ATTTCAACTTCACAACGAAGGATATTGGACTCCATACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
1799525 ACCGATGCTTGTCAACAACAACTTC-CTAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTC-AATTTCAGAGCCA
* *
1799565 ATTTCAATTTCACAACGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
1799630 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * *
1799665 ATTTCAACTTCACAACGAAGAATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * ** *
1799730 A-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* * *
1799771 ATTTCAACTTCACGACGGAGGATATTAGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
1799802 TGGAACAATG
Statistics
Matches: 592, Mismatches: 56, Indels: 21
0.88 0.08 0.03
Matches are distributed among these distances:
99 2 0.00
100 78 0.13
101 3 0.01
102 2 0.00
103 5 0.01
104 4 0.01
105 395 0.67
106 79 0.13
107 3 0.01
109 21 0.04
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:1800380 original size:34 final size:36
Alignment explanation
Indices: 1800336--1800437 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
1800326 TTTCGTCCTA
1800336 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
1800371 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
1800406 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
1800438 GTTATACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:1801026 original size:16 final size:18
Alignment explanation
Indices: 1801007--1801041 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1800997 TTTACTCATT
1801007 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
1801023 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
1801041 T
1 T
1801042 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:1811887 original size:20 final size:20
Alignment explanation
Indices: 1811843--1811889 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1811833 GAACTAGTCC
*
1811843 AAGTCAACTCAAACCGGACT
1 AAGTCAACTCAAACCGAACT
* *
1811863 AAGTCAACTCGAATCGAACT
1 AAGTCAACTCAAACCGAACT
*
1811883 GAGTCAA
1 AAGTCAA
1811890 TCTAAACTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.17
Consensus pattern (20 bp):
AAGTCAACTCAAACCGAACT
Found at i:1811948 original size:12 final size:12
Alignment explanation
Indices: 1811928--1811956 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1811918 ACTGAATCGT
1811928 TGACT-TTGACA
1 TGACTATTGACA
1811939 TGACTATTGACA
1 TGACTATTGACA
1811951 TGACTA
1 TGACTA
1811957 AAGTTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (12 bp):
TGACTATTGACA
Found at i:1820788 original size:17 final size:18
Alignment explanation
Indices: 1820768--1820802 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1820758 GAATTCAAAT
*
1820768 GCAA-AATTTATTAATAA
1 GCAATAATTTATAAATAA
1820785 GCAATAATTTATAAATAA
1 GCAATAATTTATAAATAA
1820803 TAACAATGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (18 bp):
GCAATAATTTATAAATAA
Found at i:1820967 original size:22 final size:22
Alignment explanation
Indices: 1820942--1820995 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1820932 ATTGAGCCCC
1820942 AAATTGATCACTATTCAAGCTT
1 AAATTGATCACTATTCAAGCTT
*
1820964 AAATTGA-CAACTATTCGAGCTT
1 AAATTGATC-ACTATTCAAGCTT
*
1820986 AACTTGATCA
1 AAATTGATCA
1820996 GACCCCTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (22 bp):
AAATTGATCACTATTCAAGCTT
Found at i:1822218 original size:15 final size:17
Alignment explanation
Indices: 1822189--1822226 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1822179 AATGAGAGGA
*
1822189 GAAAAATGGGGT-AAAT
1 GAAAAATGGGATAAAAT
1822205 GAAAAA-GGGATAAAAT
1 GAAAAATGGGATAAAAT
1822221 GAAAAA
1 GAAAAA
1822227 AAAAGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.26, T:0.13
Consensus pattern (17 bp):
GAAAAATGGGATAAAAT
Found at i:1822592 original size:2 final size:2
Alignment explanation
Indices: 1822585--1822642 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1822575 TCGTATTTAA
1822585 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
1822627 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
1822643 GACACCGTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1823313 original size:29 final size:29
Alignment explanation
Indices: 1823281--1823336 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1823271 AAAAGACTAC
*
1823281 AACTATGAGATCTAAATGTAAAATTCTAA
1 AACTATGAGATCTAAATCTAAAATTCTAA
* * *
1823310 AACTTTGGGATCTAAGTCTAAAATTCT
1 AACTATGAGATCTAAATCTAAAATTCT
1823337 TAAAGTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (29 bp):
AACTATGAGATCTAAATCTAAAATTCTAA
Found at i:1830115 original size:2 final size:2
Alignment explanation
Indices: 1830108--1830136 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1830098 ATTATATCGT
1830108 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1830137 TAATGATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1834057 original size:16 final size:18
Alignment explanation
Indices: 1834015--1834060 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
1834005 TTCACAGAAT
1834015 GTAAGATTACCAGTGGGAA
1 GTAAGATTACCAG-GGGAA
1834034 TGTAAGATTACCA-GGGAA
1 -GTAAGATTACCAGGGGAA
1834052 -TAAGATTAC
1 GTAAGATTAC
1834061 TGGGAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
18 5 0.19
20 12 0.46
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
GTAAGATTACCAGGGGAA
Found at i:1844471 original size:532 final size:532
Alignment explanation
Indices: 1843467--1844526 Score: 2120
Period size: 532 Copynumber: 2.0 Consensus size: 532
1843457 GAAACGGAGA
1843467 AGTCGTCCATAAATATTTCCATGCACTCTTCCACCATATCTGAAAAGATTGCCATCATGAATCGT
1 AGTCGTCCATAAATATTTCCATGCACTCTTCCACCATATCTGAAAAGATTGCCATCATGAATCGT
1843532 TGGAATGTAGCTAGAGCGTTACACAGTCCAAACGGTATTCGCCTAAATGTATAGGTACCATACGG
66 TGGAATGTAGCTAGAGCGTTACACAGTCCAAACGGTATTCGCCTAAATGTATAGGTACCATACGG
1843597 CATGTGAACATTGTTTTCTCCTGGTCTTCGGGTGCTATGGCAATTTGGTTATACCCTGAGTATCC
131 CATGTGAACATTGTTTTCTCCTGGTCTTCGGGTGCTATGGCAATTTGGTTATACCCTGAGTATCC
1843662 ATCGAGGAAGCAATAAAATGCCTTTCCCGCTAATCTATCCAACATTTGATATTTGAAAGGGAGGG
196 ATCGAGGAAGCAATAAAATGCCTTTCCCGCTAATCTATCCAACATTTGATATTTGAAAGGGAGGG
1843727 GGAAATGATACTTCTTTGTGGCTTTGTTGAGCTTCCTATAATCCATGCATATGCGCCAGCCCGTG
261 GGAAATGATACTTCTTTGTGGCTTTGTTGAGCTTCCTATAATCCATGCATATGCGCCAGCCCGTG
1843792 ACTGTTCTCGTGGTGAGTAACTCATCATGCTCGCTTTTAACCACGATTACACCACCTTTCTTTGG
326 ACTGTTCTCGTGGTGAGTAACTCATCATGCTCGCTTTTAACCACGATTACACCACCTTTCTTTGG
1843857 CACGCATTGGACTTGGCTAACCCATGAACTATCAGATATAGGATAAATCACTCCCACATTCAACA
391 CACGCATTGGACTTGGCTAACCCATGAACTATCAGATATAGGATAAATCACTCCCACATTCAACA
1843922 ATTTTATTATTTCCTTTAAGACTACCTTCTTTATGATCGGGTTGAGCCGTCTTTGGGGTTTCACC
456 ATTTTATTATTTCCTTTAAGACTACCTTCTTTATGATCGGGTTGAGCCGTCTTTGGGGTTTCACC
1843987 GAGGTGTTACAC
521 GAGGTGTTACAC
1843999 AGTCGTCCATAAATATTTCCATGCACTCTTCCACCATATCTGAAAAGATTGCCATCATGAATCGT
1 AGTCGTCCATAAATATTTCCATGCACTCTTCCACCATATCTGAAAAGATTGCCATCATGAATCGT
1844064 TGGAATGTAGCTAGAGCGTTACACAGTCCAAACGGTATTCGCCTAAATGTATAGGTACCATACGG
66 TGGAATGTAGCTAGAGCGTTACACAGTCCAAACGGTATTCGCCTAAATGTATAGGTACCATACGG
1844129 CATGTGAACATTGTTTTCTCCTGGTCTTCGGGTGCTATGGCAATTTGGTTATACCCTGAGTATCC
131 CATGTGAACATTGTTTTCTCCTGGTCTTCGGGTGCTATGGCAATTTGGTTATACCCTGAGTATCC
1844194 ATCGAGGAAGCAATAAAATGCCTTTCCCGCTAATCTATCCAACATTTGATATTTGAAAGGGAGGG
196 ATCGAGGAAGCAATAAAATGCCTTTCCCGCTAATCTATCCAACATTTGATATTTGAAAGGGAGGG
1844259 GGAAATGATACTTCTTTGTGGCTTTGTTGAGCTTCCTATAATCCATGCATATGCGCCAGCCCGTG
261 GGAAATGATACTTCTTTGTGGCTTTGTTGAGCTTCCTATAATCCATGCATATGCGCCAGCCCGTG
1844324 ACTGTTCTCGTGGTGAGTAACTCATCATGCTCGCTTTTAACCACGATTACACCACCTTTCTTTGG
326 ACTGTTCTCGTGGTGAGTAACTCATCATGCTCGCTTTTAACCACGATTACACCACCTTTCTTTGG
1844389 CACGCATTGGACTTGGCTAACCCATGAACTATCAGATATAGGATAAATCACTCCCACATTCAACA
391 CACGCATTGGACTTGGCTAACCCATGAACTATCAGATATAGGATAAATCACTCCCACATTCAACA
1844454 ATTTTATTATTTCCTTTAAGACTACCTTCTTTATGATCGGGTTGAGCCGTCTTTGGGGTTTCACC
456 ATTTTATTATTTCCTTTAAGACTACCTTCTTTATGATCGGGTTGAGCCGTCTTTGGGGTTTCACC
1844519 GAGGTGTT
521 GAGGTGTT
1844527 GTGGCTATCT
Statistics
Matches: 528, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
532 528 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (532 bp):
AGTCGTCCATAAATATTTCCATGCACTCTTCCACCATATCTGAAAAGATTGCCATCATGAATCGT
TGGAATGTAGCTAGAGCGTTACACAGTCCAAACGGTATTCGCCTAAATGTATAGGTACCATACGG
CATGTGAACATTGTTTTCTCCTGGTCTTCGGGTGCTATGGCAATTTGGTTATACCCTGAGTATCC
ATCGAGGAAGCAATAAAATGCCTTTCCCGCTAATCTATCCAACATTTGATATTTGAAAGGGAGGG
GGAAATGATACTTCTTTGTGGCTTTGTTGAGCTTCCTATAATCCATGCATATGCGCCAGCCCGTG
ACTGTTCTCGTGGTGAGTAACTCATCATGCTCGCTTTTAACCACGATTACACCACCTTTCTTTGG
CACGCATTGGACTTGGCTAACCCATGAACTATCAGATATAGGATAAATCACTCCCACATTCAACA
ATTTTATTATTTCCTTTAAGACTACCTTCTTTATGATCGGGTTGAGCCGTCTTTGGGGTTTCACC
GAGGTGTTACAC
Found at i:1851781 original size:18 final size:18
Alignment explanation
Indices: 1851758--1851794 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1851748 AGAGGGTTTT
*
1851758 TGGTAAAATGAAATTAAA
1 TGGTAAAAAGAAATTAAA
*
1851776 TGGTAAAAAGAGATTAAA
1 TGGTAAAAAGAAATTAAA
1851794 T
1 T
1851795 AAATAAAAGC
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:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (18 bp):
TGGTAAAAAGAAATTAAA
Found at i:1862964 original size:26 final size:28
Alignment explanation
Indices: 1862907--1862965 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
1862897 CAAATCTCAT
1862907 TAAAAATAAAAATAAACAAGCAAAAATA
1 TAAAAATAAAAATAAACAAGCAAAAATA
* * *
1862935 -AAAAA-AAAAATACATAA-CAACAATA
1 TAAAAATAAAAATAAACAAGCAAAAATA
1862960 TAAAAA
1 TAAAAA
1862966 GGATTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 7 0.26
26 15 0.56
27 5 0.19
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (28 bp):
TAAAAATAAAAATAAACAAGCAAAAATA
Found at i:1864648 original size:81 final size:81
Alignment explanation
Indices: 1864410--1865109 Score: 1001
Period size: 81 Copynumber: 8.7 Consensus size: 81
1864400 AACCTTTCAT
* * * * *
1864410 TTTTACTCAACAGTGTTTAACCGTTTATCTAACTGACATAATTGGCACCTTTCTACTAATTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCAC
1864475 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* * * *
1864491 TTTTTCTCAACGATATTTAATCGTTCATCTAACT-ACATAATTGGCACCTTTCTACCAATTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCAC
*
1864555 AGTTAGGTCATTATTC
66 AGTTAGGCCATTATTC
*
1864571 TTTTACTCAACGGTATTTAATCGTTCA-CTTAACTGGCATAATTGGCACCTTTCTACCAATTGCA
1 TTTTACTCAACGGTATTTAACCGTTCATC-TAACTGGCATAATTGGCACCTTTCTACCAATTGCA
*
1864635 CAATTAGGCCATTATTC
65 CAGTTAGGCCATTATTC
* * * *
1864652 TTTTACTCAACGGTATTTAACTGTTTATCTAACTGGCATAATTGGCATCTTTCTACCAATTGCAT
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCAC
**
1864717 AGTTAAACCATTATTC
66 AGTTAGGCCATTATTC
* * * * *
1864733 TTTTACTCAAGGGTATTTAATCGTTCATCTAACGGGCATAATTGGAACCTTTCTACCAATTACAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCAC
1864798 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* * * *
1864814 TTTTACTCAACGGTATTTAATCGTTCATCTAGCTGGCATAATTGGCACATTTCTACCAATTGTAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCAC
1864879 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* * * ** *
1864895 TTTTACACAACAGTATTTAACCGTTCATCTAACTGGCACAATTGGCATATTTCTACCAATTGCTC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCAC
*
1864960 AGTTAGACCATTATTC
66 AGTTAGGCCATTATTC
* * * * *
1864976 TTTTACTCAATGGTATTTAACCATTCATCTAACTGACATAATTGGCATCTTTCTACCAACTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCAC
1865041 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* *
1865057 TTTTACTCAACGGTATTTAACCGTTCATCTAA-TTGCATAATTGACACCTTTCT
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCT
1865110 GTCATACGCA
Statistics
Matches: 552, Mismatches: 64, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
79 1 0.00
80 91 0.16
81 459 0.83
82 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (81 bp):
TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAATTGCAC
AGTTAGGCCATTATTC
Found at i:1865176 original size:68 final size:68
Alignment explanation
Indices: 1865080--1865331 Score: 389
Period size: 68 Copynumber: 3.7 Consensus size: 68
1865070 TATTTAACCG
* * *
1865080 TTCATCTAA-TTGCATAATTGACACCTTTCTGTCATACGCACAGTTAGGCCTCAAATGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATACGCACAGTTAGGCCTCAAAGGCACTTAG
1865144 CCT
66 CCT
* *
1865147 TTCATCTAATTGGCATAAATGACACCTTTCAGTCATACGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATACGCACAGTTAGGCCTCAAAGGCACTTAG
1865212 CCT
66 CCT
* * *
1865215 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATACACACAATTAAGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATACGCACAGTTAGGCCTCAAAGGCACTTAG
1865280 CCT
66 CCT
* * * *
1865283 TTCATTTAACTAGCATAAATGACACCTTTCTGTCATAAGCACGGTTAGG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATACGCACAGTTAGG
1865332 TCTATAATCT
Statistics
Matches: 168, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
67 9 0.05
68 159 0.95
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCATACGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:1865582 original size:54 final size:55
Alignment explanation
Indices: 1865524--1865660 Score: 188
Period size: 56 Copynumber: 2.5 Consensus size: 55
1865514 CCATACTAAC
* * * *
1865524 ATTCATACACTTGGTATGAATTTCTTAG-TTCGTACACATAGTGCCCATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACAAAGTGCCCATACAGAA
*
1865578 ATTCATACACTTAGTATGAATTTCCTT-GTTTTTGCACACAAAGTGCCCATACAGAA
1 ATTCATACACTTAGTATGAATTT-CTTAG-TTTCGCACACAAAGTGCCCATACAGAA
*
1865634 ATTCATACACTTAGTATGAATATCTTA
1 ATTCATACACTTAGTATGAATTTCTTA
1865661 AAATTTTTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
54 23 0.32
55 6 0.08
56 44 0.60
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (55 bp):
ATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACAAAGTGCCCATACAGAA
Found at i:1866121 original size:20 final size:21
Alignment explanation
Indices: 1866096--1866156 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
1866086 TGATGTTATC
1866096 TGGTATCGATACCCT-TACTA
1 TGGTATCGATACCCTCTACTA
**
1866116 TGGTATCGATACTATTCTACTA
1 TGGTATCGATAC-CCTCTACTA
* *
1866138 GGGTATCGATACCCACTAC
1 TGGTATCGATACCCTCTAC
1866157 CAGTATCGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.36
21 5 0.15
22 16 0.48
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (21 bp):
TGGTATCGATACCCTCTACTA
Found at i:1866166 original size:95 final size:96
Alignment explanation
Indices: 1866038--1866225 Score: 242
Period size: 95 Copynumber: 2.0 Consensus size: 96
1866028 GATACTTCTA
* * * *
1866038 TACTATGGTATCGATACCCCATTCAGGTATCGATACCAAAAACAGGTTTGATGTTATC-TGGTAT
1 TACTAGGGTATCGATACCCCATCCAGGTATCGATACCAAAAACAGATTCGATGTT-TCTTGGTAT
1866102 CGATA-CCCTTA-CTATGGTATCGATACTATTC
65 CGATACCCCTTATC-ATGGTATCGATACTATTC
* *
1866133 TACTAGGGTATCGATA-CCCACTACCA-GTATCGATGCCAAAAATAGATTCGATGTTTCTTGGTA
1 TACTAGGGTATCGATACCCCA-T-CCAGGTATCGATACCAAAAACAGATTCGATGTTTCTTGGTA
*
1866196 TCGGTACCCCTTATCATGGTATCGATACTA
64 TCGATACCCCTTATCATGGTATCGATACTA
1866226 CCTCATCGGT
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
94 6 0.07
95 51 0.63
96 23 0.28
97 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (96 bp):
TACTAGGGTATCGATACCCCATCCAGGTATCGATACCAAAAACAGATTCGATGTTTCTTGGTATC
GATACCCCTTATCATGGTATCGATACTATTC
Found at i:1871404 original size:20 final size:20
Alignment explanation
Indices: 1871379--1871434 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
1871369 TATGACCCAA
1871379 AGTATCGATATTCTTGAAAG
1 AGTATCGATATTCTTGAAAG
*
1871399 AGTATCGAAATTCTTGAAAG
1 AGTATCGATATTCTTGAAAG
*
1871419 AGTATCGATACTCTTG
1 AGTATCGATATTCTTG
1871435 CTTAGAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (20 bp):
AGTATCGATATTCTTGAAAG
Found at i:1877085 original size:21 final size:21
Alignment explanation
Indices: 1877060--1877099 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1877050 AAGGCTTTAT
1877060 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
1877081 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
1877100 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:1880866 original size:23 final size:22
Alignment explanation
Indices: 1880840--1880916 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 22
1880830 TTGTGCGCTA
*
1880840 GGTATTGATACCCCCTTTGAATG
1 GGTACTGATACCCCC-TTGAATG
* *
1880863 GGTACCGATACCATCCTTGAATG
1 GGTACTGATACC-CCCTTGAATG
*
1880886 GGTACTGATACCCCCATG-A-G
1 GGTACTGATACCCCCTTGAATG
*
1880906 GATACTGATAC
1 GGTACTGATAC
1880917 ACTCTTCGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 11 0.24
21 1 0.02
22 4 0.09
23 28 0.61
24 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (22 bp):
GGTACTGATACCCCCTTGAATG
Found at i:1888425 original size:20 final size:23
Alignment explanation
Indices: 1888385--1888429 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1888375 TGCTAGGGCC
1888385 AGTGGAACAGAAGATGACGACAT
1 AGTGGAACAGAAGATGACGACAT
*
1888408 AGTGGAACAGAAGACGACGACA
1 AGTGGAACAGAAGATGACGACA
1888430 GTGAGGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.16, G:0.31, T:0.09
Consensus pattern (23 bp):
AGTGGAACAGAAGATGACGACAT
Found at i:1888437 original size:23 final size:23
Alignment explanation
Indices: 1888388--1888437 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1888378 TAGGGCCAGT
* *
1888388 GGAACAGAAGATGACGACATAGT
1 GGAACAGAAGACGACGACATAGA
1888411 GGAACAGAAGACGACGACAGT-GA
1 GGAACAGAAGACGACGACA-TAGA
1888434 GGAA
1 GGAA
1888438 TAAATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.14, G:0.34, T:0.08
Consensus pattern (23 bp):
GGAACAGAAGACGACGACATAGA
Found at i:1894087 original size:64 final size:65
Alignment explanation
Indices: 1894019--1894140 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 65
1894009 GAACACTTGA
* *
1894019 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGCG
1 TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGCG
*****
1894083 TGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATA
1 TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATA
1894141 TTCAGAGTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
64 40 0.80
65 10 0.20
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGCG
Found at i:1894171 original size:65 final size:65
Alignment explanation
Indices: 1894038--1894197 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 65
1894028 GCACCAAGTG
* * * ****
1894038 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGCGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATAGATGCATGGAGAA
* **
1894102 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATAGATGCATGGAGAA
1 TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATAGATGCATGGAGAA
* *
1894167 TGCATCGGTGCATGGAATGCATTCGATGTTT
1 TGCATCGATGCATGAAATGCATTCGATGTTT
1894198 CAATTAATTC
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 27 0.33
65 55 0.67
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATAGATGCATGGAGAA
Found at i:1900671 original size:22 final size:21
Alignment explanation
Indices: 1900629--1900668 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1900619 GAGTTTGTTT
*
1900629 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1900650 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1900669 ACAGTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1902730 original size:65 final size:65
Alignment explanation
Indices: 1902597--1902756 Score: 214
Period size: 65 Copynumber: 2.5 Consensus size: 65
1902587 GCACCAAGTG
* * ****
1902597 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGCGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGAGAA
* **
1902661 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGAGAA
1 TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGAGAA
* *
1902726 TGCATCGGTGCATGGAATGCATTCGATGTTT
1 TGCATCGATGCATGAAATGCATTCGATGTTT
1902757 CAATTAATTC
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
64 27 0.33
65 56 0.67
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGAGAA
Found at i:1902745 original size:17 final size:19
Alignment explanation
Indices: 1902707--1902753 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1902697 ATATTCAGAG
1902707 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
1902726 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
1902743 TGCATTCGATG
1 TGCA-TCGATG
1902754 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:1905258 original size:20 final size:21
Alignment explanation
Indices: 1905204--1905266 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
1905194 GATTCCCCTG
1905204 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
1905228 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
1905248 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
1905267 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:1916695 original size:271 final size:272
Alignment explanation
Indices: 1916187--1916736 Score: 741
Period size: 271 Copynumber: 2.0 Consensus size: 272
1916177 AAAGGTGAAT
* * *
1916187 GAAATACAAAGTGCTCGAAGTTCAAATCAAGTTGAGAACAACATAAGATTTTTCAAATACAAGAA
1 GAAATACAAAGTGCCCGAAGTTCAAATCAAGTTGAAAACAACATAAGATGTTTCAAATACAAGAA
* *
1916252 ATAAATTATGTTCAAATAGAAATATTGAATTCTCCAAATAAAGAGAACAAATAATATGTTCAAAA
66 ATAAATTATGTTCAAATAGAAATATCGAATTCTCCAAATAAAGAGAACAAATAATATGATCAAAA
* * * * *
1916317 CGAAGATAAGTTCAAAATTCATTAATGAAGAAGACAAGAAGCACATGCAAAGAGTCTCTTAAAAT
131 CAAAGATAAGTTAAAAATTCATCAATGAAGAAGACAAAAAGCACATGCAAAGAGTCCCTTAAAAT
* * *
1916382 AAAATGACTCATCACTCATAAACCACGAGGTTAATTAAGTACAACTGGTTCAAAGATCCAAATTC
196 AAAATGACTAATCACTCATAAAACACGAGGTTAATCAAGTACAACTGGTTC--AGATCCAAATTC
*
1916447 AACTAGAAGAATGA
259 AACCAGAAGAATGA
* *
1916461 GAAATACAAGGTGCCCGAAGTTCAAATCAAGTTGAAAACAACATAAGATGTTTCAAATA-TA-AA
1 GAAATACAAAGTGCCCGAAGTTCAAATCAAGTTGAAAACAACATAAGATGTTTCAAATACAAGAA
* * * * * * **
1916524 A-AAATTATGTTCAAATATAAATGTCGATTTCTTCAAATAAAGTGAACAAATAATGTGATCAAGT
66 ATAAATTATGTTCAAATAGAAATATCGAATTCTCCAAATAAAGAGAACAAATAATATGATCAAAA
* * *
1916588 CAAAG-TAAAGTTAAAAATTCATCAATGAAGAGGATAAAAAGCACATGCAAATAGTCCCTTAAAA
131 CAAAGAT-AAGTTAAAAATTCATCAATGAAGAAGACAAAAAGCACATGCAAAGAGTCCCTTAAAA
* * * *
1916652 TAAAATGACTAATCACTCCTAAAACA-GAAGGTTGATCAAGTACAACTGGTTCAGATCCAGATTT
195 TAAAATGACTAATCACTCATAAAACACG-AGGTTAATCAAGTACAACTGGTTCAGATCCAAATTC
*
1916716 AACCAGAAGATTGA
259 AACCAGAAGAATGA
1916730 GAAATAC
1 GAAATAC
1916737 CAATGGTATA
Statistics
Matches: 242, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
269 29 0.12
270 2 0.01
271 152 0.63
272 3 0.01
273 1 0.00
274 55 0.23
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.24
Consensus pattern (272 bp):
GAAATACAAAGTGCCCGAAGTTCAAATCAAGTTGAAAACAACATAAGATGTTTCAAATACAAGAA
ATAAATTATGTTCAAATAGAAATATCGAATTCTCCAAATAAAGAGAACAAATAATATGATCAAAA
CAAAGATAAGTTAAAAATTCATCAATGAAGAAGACAAAAAGCACATGCAAAGAGTCCCTTAAAAT
AAAATGACTAATCACTCATAAAACACGAGGTTAATCAAGTACAACTGGTTCAGATCCAAATTCAA
CCAGAAGAATGA
Found at i:1922643 original size:215 final size:215
Alignment explanation
Indices: 1922265--1922691 Score: 755
Period size: 215 Copynumber: 2.0 Consensus size: 215
1922255 GTGGCATATG
1922265 TAAGAGAAAAAGCATTGACACTGACCCCTACTCATGCCTCCTAGCCAATTCAAACTCCATTCATA
1 TAAGAGAAAAAGCATTGACACTGACCCCTACTCATGCCTCCTAGCCAATTCAAACTCCATTCATA
*
1922330 AGGCTAACGGGTGAATCTCATTAATGTTCTCAGATCATGACCAAAACCCTGAAACTGCTTCTTCA
66 AGGCTAACGGGTGAATCTCATTAATGTTCTCAGATCATGACCAAAACCCTGAAACTGCGTCTTCA
*
1922395 TATCTCCCGCTATAGCATTGCCTTGGATTGTGCTGGGAACTCAAGAAGGAAATGACCGAGATTCT
131 TATCTCCCGCTATAGCATTGCCTTGGATTGTGCTGGGAACTCAAGAAGGAAATGACCGAGATCCT
1922460 ACTAATTTAAATGATCAATT
196 ACTAATTTAAATGATCAATT
* * *
1922480 TAAGAGCAAAAGCATTGACACTGACCCCTACTCATGCCTCCTGGCCAATTCAAACTCCATTCCTA
1 TAAGAGAAAAAGCATTGACACTGACCCCTACTCATGCCTCCTAGCCAATTCAAACTCCATTCATA
* **
1922545 AGGCTAACGGGTGAATCTCATTAATGTTCTCAGATCATGACCTAAACCCTGAAACTGCGTCTTTG
66 AGGCTAACGGGTGAATCTCATTAATGTTCTCAGATCATGACCAAAACCCTGAAACTGCGTCTTCA
* *
1922610 TATCTCCCGCTATAGCATTGCCTTGGCTTGTGCTGGGAACTCAGGAAGGAAATGACCGAGATCCT
131 TATCTCCCGCTATAGCATTGCCTTGGATTGTGCTGGGAACTCAAGAAGGAAATGACCGAGATCCT
*
1922675 ACTAATTTAAGTGATCA
196 ACTAATTTAAATGATCA
1922692 TTTTCCATTT
Statistics
Matches: 201, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
215 201 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (215 bp):
TAAGAGAAAAAGCATTGACACTGACCCCTACTCATGCCTCCTAGCCAATTCAAACTCCATTCATA
AGGCTAACGGGTGAATCTCATTAATGTTCTCAGATCATGACCAAAACCCTGAAACTGCGTCTTCA
TATCTCCCGCTATAGCATTGCCTTGGATTGTGCTGGGAACTCAAGAAGGAAATGACCGAGATCCT
ACTAATTTAAATGATCAATT
Found at i:1949520 original size:2 final size:2
Alignment explanation
Indices: 1949513--1949540 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1949503 ATGGTTAAAC
1949513 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
1949541 GCATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1953496 original size:21 final size:21
Alignment explanation
Indices: 1953472--1953511 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1953462 AATTACTCCC
1953472 CCTTACTCTAATACTTTGATA
1 CCTTACTCTAATACTTTGATA
1953493 CCTTACTCTAATACTTTGA
1 CCTTACTCTAATACTTTGA
1953512 AATTTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (21 bp):
CCTTACTCTAATACTTTGATA
Found at i:1953803 original size:2 final size:2
Alignment explanation
Indices: 1953796--1953875 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
1953786 AACAGACCAA
1953796 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
1953838 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
1953876 TAAGTTCAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1955888 original size:23 final size:23
Alignment explanation
Indices: 1955857--1955940 Score: 114
Period size: 23 Copynumber: 3.6 Consensus size: 23
1955847 AGGGGAGTGT
*
1955857 ATCGGTACCCATGCAAATGGGGC
1 ATCGATACCCATGCAAATGGGGC
1955880 ATCGATACCCATGCAAATGGGGC
1 ATCGATACCCATGCAAATGGGGC
* * * *
1955903 ATCGGTACCCATTCAAAGGGGGT
1 ATCGATACCCATGCAAATGGGGC
1955926 ATCGATACCTCATGC
1 ATCGATACC-CATGC
1955941 GCCAAAATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 49 0.92
24 4 0.08
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
ATCGATACCCATGCAAATGGGGC
Found at i:1967168 original size:18 final size:18
Alignment explanation
Indices: 1967134--1967185 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
1967124 TTAAATTTAA
*
1967134 AATT-TTAAAATATAAAT
1 AATTATTAAAATAAAAAT
*
1967151 AATTATTAAGATAAAAAT
1 AATTATTAAAATAAAAAT
1967169 -A-TATTAAATATAAAAAT
1 AATTATTAAA-ATAAAAAT
1967186 CATAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 6 0.20
17 13 0.43
18 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AATTATTAAAATAAAAAT
Found at i:1967183 original size:17 final size:16
Alignment explanation
Indices: 1967118--1967206 Score: 64
Period size: 16 Copynumber: 5.6 Consensus size: 16
1967108 AAAATTAAGG
*
1967118 AATTACTTAAAT-TTAA
1 AATTA-TTAAATATAAA
1967134 AATT-TTAAAATATAAA
1 AATTATT-AAATATAAA
*
1967150 TAATTATT-AAGATAAA
1 -AATTATTAAATATAAA
1967166 AATATATTAAATATAAA
1 AAT-TATTAAATATAAA
*
1967183 AATCA-TAAA-A-AATA
1 AATTATTAAATATAA-A
1967197 AATTATTAAA
1 AATTATTAAA
1967207 AAATTAAGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
13 2 0.03
14 8 0.13
15 15 0.25
16 19 0.32
17 14 0.23
18 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (16 bp):
AATTATTAAATATAAA
Found at i:1971782 original size:23 final size:23
Alignment explanation
Indices: 1971756--1971801 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1971746 TGACTATTAT
1971756 AACGTTCTGATCGAAGGTCTATG
1 AACGTTCTGATCGAAGGTCTATG
1971779 AACGTTCTGATCGAAGGTCTATG
1 AACGTTCTGATCGAAGGTCTATG
1971802 GATGGTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (23 bp):
AACGTTCTGATCGAAGGTCTATG
Found at i:1978930 original size:39 final size:35
Alignment explanation
Indices: 1978886--1978970 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 35
1978876 TTAAATGAAT
* *
1978886 TAAATTATTTCATCTTGACATTTTGAAATTCATATTTTC
1 TAAATTATTTCATCATAACATTTT-AAA-T--TATTTTC
*
1978925 TAAATTACTTCATCATAACATTTTAAATTATTTTC
1 TAAATTATTTCATCATAACATTTTAAATTATTTTC
*
1978960 TGAATTATTTC
1 TAAATTATTTC
1978971 CTTCAAACCT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 16 0.39
37 1 0.02
38 3 0.07
39 21 0.51
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.51
Consensus pattern (35 bp):
TAAATTATTTCATCATAACATTTTAAATTATTTTC
Found at i:1979456 original size:2 final size:2
Alignment explanation
Indices: 1979451--1979478 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1979441 TGTGAATAAT
1979451 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1979479 ACATAGTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1993844 original size:23 final size:23
Alignment explanation
Indices: 1993824--1993875 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1993814 AATAAAAATG
1993824 AGAAAAAGAAAAA-GAAGAAAAGA
1 AGAAAAAGAAAAATG-AGAAAAGA
*
1993847 AGAAAAGGAAAAATGAGAAAA-A
1 AGAAAAAGAAAAATGAGAAAAGA
*
1993869 ATAAAAA
1 AGAAAAA
1993876 TGAGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 6 0.24
23 18 0.72
24 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (23 bp):
AGAAAAAGAAAAATGAGAAAAGA
Found at i:1993859 original size:56 final size:56
Alignment explanation
Indices: 1993785--1993908 Score: 146
Period size: 56 Copynumber: 2.2 Consensus size: 56
1993775 AAGAAGAAAT
1993785 AAAAGGAA-AAAACGAAAAACGAAAAAAATAATAAAAATGAG-AAAAAGAAAAA-GAAG
1 AAAA-GAAGAAAACGAAAAACG-AAAAAA-AATAAAAATGAGAAAAAAGAAAAATGAAG
* * * * *
1993841 AAAAGAAGAAAAGGAAAAATGAGAAAAAATAAAAATGAGAAAAAATAAAAATGATG
1 AAAAGAAGAAAACGAAAAACGAAAAAAAATAAAAATGAGAAAAAAGAAAAATGAAG
*
1993897 AAAAAAAGAAAA
1 AAAAGAAGAAAA
1993909 ATGAAAAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
54 12 0.20
55 18 0.31
56 29 0.49
ACGTcount: A:0.75, C:0.02, G:0.16, T:0.07
Consensus pattern (56 bp):
AAAAGAAGAAAACGAAAAACGAAAAAAAATAAAAATGAGAAAAAAGAAAAATGAAG
Found at i:1993868 original size:16 final size:16
Alignment explanation
Indices: 1993832--1993939 Score: 100
Period size: 16 Copynumber: 6.8 Consensus size: 16
1993822 TGAGAAAAAG
1993832 AAAAAGAAGAAA--AGA
1 AAAAAGAA-AAATGAGA
1993847 AGAAAAGGAAAAATGAGA
1 A-AAAA-GAAAAATGAGA
*
1993865 AAAAATAAAAATGAGA
1 AAAAAGAAAAATGAGA
*
1993881 AAAAATAAAAATGATGAA
1 AAAAAGAAAAATGA-G-A
1993899 AAAAAGAAAAAT--GA
1 AAAAAGAAAAATGAGA
*
1993913 AAAAAGAGAAATGA-A
1 AAAAAGAAAAATGAGA
*
1993928 AAAAAGAGAAAT
1 AAAAAGAAAAAT
1993940 AAAAGGAGGG
Statistics
Matches: 82, Mismatches: 3, Indels: 16
0.81 0.03 0.16
Matches are distributed among these distances:
14 12 0.15
15 15 0.18
16 31 0.38
17 8 0.10
18 16 0.20
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (16 bp):
AAAAAGAAAAATGAGA
Found at i:1993943 original size:14 final size:14
Alignment explanation
Indices: 1993897--1993943 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
1993887 AAAAATGATG
*
1993897 AAAAAAAGAAAAAT
1 AAAAAAAGAGAAAT
*
1993911 GAAAAAAGAGAAAT
1 AAAAAAAGAGAAAT
1993925 GAAAAAAAGAGAAAT
1 -AAAAAAAGAGAAAT
1993940 AAAA
1 AAAA
1993944 GGAGGGTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (14 bp):
AAAAAAAGAGAAAT
Found at i:1995350 original size:51 final size:51
Alignment explanation
Indices: 1995282--1995784 Score: 765
Period size: 51 Copynumber: 9.7 Consensus size: 51
1995272 AAGATTATTC
* *
1995282 GAGTCTTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATT
1 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
*
1995333 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATT
1 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
*
1995384 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATT
1 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
1995435 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
1 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
*
1995486 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATC
1 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
1995537 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
1 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
*
1995588 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATT
1 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
* * ** *
1995639 GAGTCCTATACTCTCTGAAGGAATAGAGAACGGACTCGTTTTGTTGAAGATTGTT
1 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAG-TTCGTTGAAGA---TT
* * *
1995694 CGAGTTCTGTACTCTCTG-ATAGAATAGAGAGCGGACAAGTTTGTTGAAGATTGTT
1 -GAGTCCTATACTCTCTGAAT-GAATAGAGAGCGGACAAGTTCGTTGAAGA---TT
* *
1995749 CGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 -GAGTCCTATACTCTCTGAATGAATAGAGAGCGGAC
1995785 CCGTTTCATA
Statistics
Matches: 426, Mismatches: 19, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
51 334 0.78
52 10 0.02
55 51 0.12
56 31 0.07
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAAGATT
Found at i:1995719 original size:56 final size:56
Alignment explanation
Indices: 1995270--1995900 Score: 446
Period size: 51 Copynumber: 11.9 Consensus size: 56
1995260 ATTCGTTTAC
* * * * *
1995270 TGAAGATTATTCGAG-TCTTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTCGT
1 TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* * * * *
1995325 TGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTCGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* * * * *
1995376 TGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTCGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* * * *
1995427 TGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAG-TTCGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* * * *
1995478 TGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAG-TTCGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* * * *
1995529 TGAAGA----TCGAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAG-TTCGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* * * * *
1995580 TGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTCGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* * *
1995631 TGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGAGAACGGACTCGTTTTGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* *
1995683 TGAAGATTGTTCGAGTTCTGTACTCTCTGATA-GAATAGAGAGCGGACAAG-TTTGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGA-AGGAATAGAGAGCGGACACGTTTTGT
* **
1995738 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCG-TTTCA
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* * * * * * *
1995793 TAAAGATTGTTTGAG-TCTTATACTCCCTGAACGAATAGGGAGCAGACACG-GTTGT
1 TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
* * * * * **
1995848 TGAAGATTGTTTGAG-TCTTATATTCCCTGAATGAATAGGGAGAAGACACGTTT
1 TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACACGTTT
1995901 GCCAAGGATT
Statistics
Matches: 530, Mismatches: 34, Indels: 23
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.00
51 330 0.62
52 14 0.03
54 3 0.01
55 149 0.28
56 32 0.06
57 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (56 bp):
TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTTGT
Found at i:1998785 original size:20 final size:20
Alignment explanation
Indices: 1998760--1998818 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
1998750 CGAATAGCTG
1998760 TAAAAGGTAAGATGTAAGAA
1 TAAAAGGTAAGATGTAAGAA
1998780 TAAAA-G-AA-A-GCT--G--
1 TAAAAGGTAAGATG-TAAGAA
1998793 TAAAAGGTAAGATGTAAGAA
1 TAAAAGGTAAGATGTAAGAA
1998813 TAAAAG
1 TAAAAG
1998819 AAAGAGAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 18
0.62 0.00 0.38
Matches are distributed among these distances:
13 5 0.17
14 1 0.03
15 3 0.10
16 3 0.10
17 3 0.10
18 3 0.10
19 1 0.03
20 11 0.37
ACGTcount: A:0.56, C:0.02, G:0.24, T:0.19
Consensus pattern (20 bp):
TAAAAGGTAAGATGTAAGAA
Found at i:1998797 original size:33 final size:33
Alignment explanation
Indices: 1998755--1998822 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
1998745 TCCTTCGAAT
1998755 AGCTGTAAAAGGTAAGATGTAAGAATAAAAGAA
1 AGCTGTAAAAGGTAAGATGTAAGAATAAAAGAA
1998788 AGCTGTAAAAGGTAAGATGTAAGAATAAAAGAA
1 AGCTGTAAAAGGTAAGATGTAAGAATAAAAGAA
1998821 AG
1 AG
1998823 AGAGACGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.54, C:0.03, G:0.25, T:0.18
Consensus pattern (33 bp):
AGCTGTAAAAGGTAAGATGTAAGAATAAAAGAA
Found at i:2014617 original size:29 final size:28
Alignment explanation
Indices: 2014585--2014643 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
2014575 AATTTAAGGC
*
2014585 AAAATGGTTTTTGGACTTGAATTGAATTTAA
1 AAAAT-GTATTTGGACTT-AATTGAATTT-A
2014616 AAAATGTATTTGGACTTAATTGAATTTA
1 AAAATGTATTTGGACTTAATTGAATTTA
2014644 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 1 0.04
29 10 0.37
30 11 0.41
31 5 0.19
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.42
Consensus pattern (28 bp):
AAAATGTATTTGGACTTAATTGAATTTA
Found at i:2014630 original size:30 final size:30
Alignment explanation
Indices: 2014585--2014643 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
2014575 AATTTAAGGC
*
2014585 AAAATGGTTTTTGGACTTGAATTGAATTTAA
1 AAAATGGTATTTGGACTT-AATTGAATTTAA
2014616 AAAAT-GTATTTGGACTTAATTGAATTTA
1 AAAATGGTATTTGGACTTAATTGAATTTA
2014644 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 11 0.41
31 5 0.19
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.42
Consensus pattern (30 bp):
AAAATGGTATTTGGACTTAATTGAATTTAA
Found at i:2014735 original size:19 final size:19
Alignment explanation
Indices: 2014708--2014755 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
2014698 AATGTTTTTA
* *
2014708 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
2014727 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
2014746 TGAACAGTAA
1 TGAACAGTAA
2014756 CCCGAGGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:2014886 original size:21 final size:21
Alignment explanation
Indices: 2014860--2014901 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2014850 ATTTGAATAT
* *
2014860 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGATACCGATTCCC
2014881 TATGAAGGGATACCGATTCCC
1 TATGAAGGGATACCGATTCCC
2014902 CCCATTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (21 bp):
TATGAAGGGATACCGATTCCC
Found at i:2015224 original size:34 final size:32
Alignment explanation
Indices: 2015185--2015254 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
2015175 TTTTGTAAAG
*
2015185 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
2015219 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
2015251 GGGA
1 GGGA
2015255 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:2019977 original size:32 final size:32
Alignment explanation
Indices: 2019941--2020003 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2019931 AATTATCTTA
*
2019941 TAGTAATCATAATATATATATTTATCAAATAT
1 TAGTAATCATAATATATATATTTATAAAATAT
2019973 TAGTAATCATAATATATATATTTATAAAATA
1 TAGTAATCATAATATATATATTTATAAAATA
2020004 CGTCCATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (32 bp):
TAGTAATCATAATATATATATTTATAAAATAT
Found at i:2019986 original size:15 final size:16
Alignment explanation
Indices: 2019939--2019990 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
2019929 AAAATTATCT
2019939 TATAGTAATCATAATA
1 TATAGTAATCATAATA
2019955 TATA-TATTTATCA-AATA
1 TATAGTA---ATCATAATA
2019972 T-TAGTAATCATAATA
1 TATAGTAATCATAATA
2019987 TATA
1 TATA
2019991 TATTTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 8 0.27
17 7 0.23
18 4 0.13
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (16 bp):
TATAGTAATCATAATA
Found at i:2019989 original size:17 final size:17
Alignment explanation
Indices: 2019941--2019989 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
2019931 AATTATCTTA
2019941 TAGTAATCATAATATA-
1 TAGTAATCATAATATAT
* *
2019957 TA-TATTTATCAA-ATAT
1 TAGTAATCAT-AATATAT
2019973 TAGTAATCATAATATAT
1 TAGTAATCATAATATAT
2019990 ATATTTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (17 bp):
TAGTAATCATAATATAT
Found at i:2026027 original size:52 final size:52
Alignment explanation
Indices: 2025912--2026020 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 52
2025902 TTTTTAATAC
*
2025912 TATTACAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
1 TATTTCAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
2025964 TATTTCAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
1 TATTTCAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
2026016 TATTT
1 TATTT
2026021 TTATTTTCGT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (52 bp):
TATTTCAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
Found at i:2029470 original size:55 final size:55
Alignment explanation
Indices: 2029386--2029495 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
2029376 CACTTTTCTG
2029386 GATCAATGCCTCCAATTGCATACATCATGCAATGCATTTCTTGCGTTTTATATTT
1 GATCAATGCCTCCAATTGCATACATCATGCAATGCATTTCTTGCGTTTTATATTT
*
2029441 GATCAATGCCTCCAATTGCATACATCATGCATTGCATTTCTTGCGTTTTATATTT
1 GATCAATGCCTCCAATTGCATACATCATGCAATGCATTTCTTGCGTTTTATATTT
2029496 CATGTTTGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.41
Consensus pattern (55 bp):
GATCAATGCCTCCAATTGCATACATCATGCAATGCATTTCTTGCGTTTTATATTT
Found at i:2036672 original size:50 final size:52
Alignment explanation
Indices: 2036593--2036691 Score: 148
Period size: 50 Copynumber: 1.9 Consensus size: 52
2036583 AATACTTCGC
* * *
2036593 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGA-AAAA-AAAAAGAACGT
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAGAACGT
*
2036643 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAGAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAGAA
2036692 AAAGAGGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 31 0.72
51 4 0.09
52 8 0.19
ACGTcount: A:0.45, C:0.14, G:0.26, T:0.14
Consensus pattern (52 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAGAACGT
Found at i:2038054 original size:106 final size:105
Alignment explanation
Indices: 2037476--2038038 Score: 937
Period size: 105 Copynumber: 5.3 Consensus size: 105
2037466 AGGTTTTACC
* *
2037476 CAGAGTCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
2037541 ACAAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
* *
2037581 CAGAGCTAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
2037646 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
2037686 CAGAGCCAGTTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
2037751 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
* *
2037791 CGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
2037856 ATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
**
2037897 CAGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
2037962 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
* * * *
2038003 CGGAGCCAATTTCAACTTCATAGCGAAAGATATTGG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
2038039 CCTCGAAACA
Statistics
Matches: 434, Mismatches: 23, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
105 291 0.67
106 143 0.33
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:2039747 original size:52 final size:52
Alignment explanation
Indices: 2039632--2039740 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 52
2039622 TTTTTAATAC
*
2039632 TATTACAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
1 TATTTCAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
2039684 TATTTCAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
1 TATTTCAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
2039736 TATTT
1 TATTT
2039741 TTATTTTCGT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (52 bp):
TATTTCAATTTTGGGTCTTTTATTTTACTATATATACGTGTATATATTTATT
Found at i:2039911 original size:17 final size:17
Alignment explanation
Indices: 2039889--2039921 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2039879 TTTTTGTCTT
2039889 TATTATT-TATATATATA
1 TATTATTGTAT-TATATA
2039906 TATTATTGTATTATAT
1 TATTATTGTATTATAT
2039922 TACATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTATTGTATTATATA
Found at i:2042603 original size:22 final size:23
Alignment explanation
Indices: 2042573--2042619 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
2042563 AAAATATATT
2042573 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
2042596 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
2042618 TA
1 TA
2042620 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:2042633 original size:32 final size:32
Alignment explanation
Indices: 2042567--2042646 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
2042557 ATATTTAAAA
* *
2042567 TATATTTATTAATATTTCTAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
2042599 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
2042631 TATATTATAATAATAT
1 TATATT-TATTAATAT
2042647 AAGATATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 13 0.32
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:2042821 original size:23 final size:23
Alignment explanation
Indices: 2042795--2042839 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2042785 AATAATATTT
2042795 TAATAAAGATATT-TAAAATATAC
1 TAATAAAGAT-TTGTAAAATATAC
* *
2042818 TAATTAATATTTGTAAAATATA
1 TAATAAAGATTTGTAAAATATA
2042840 ATATAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
TAATAAAGATTTGTAAAATATAC
Found at i:2042962 original size:18 final size:19
Alignment explanation
Indices: 2042935--2042988 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
2042925 TAATAAAATT
2042935 ATAA-AAATAATATT-TTA
1 ATAATAAATAATATTATTA
2042952 ATAATAAATAA-ATTATTA
1 ATAATAAATAATATTATTA
* * *
2042970 ATATTAAAAAATAATATTA
1 ATAATAAATAATATTATTA
2042989 TGTTTTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 7 0.23
18 18 0.58
19 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAATAAATAATATTATTA
Found at i:2043860 original size:15 final size:15
Alignment explanation
Indices: 2043840--2043870 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2043830 TCCTATTATG
2043840 TTTAGGAGTGTTTTA
1 TTTAGGAGTGTTTTA
2043855 TTTAGGAGTGTTTTA
1 TTTAGGAGTGTTTTA
2043870 T
1 T
2043871 GACACTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
TTTAGGAGTGTTTTA
Found at i:2044068 original size:11 final size:12
Alignment explanation
Indices: 2044037--2044069 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2044027 TAATTATTTC
2044037 TTAAAATTATAT
1 TTAAAATTATAT
*
2044049 TTAAAATTATGT
1 TTAAAATTATAT
2044061 TT-AAATTAT
1 TTAAAATTAT
2044070 CTATCATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (12 bp):
TTAAAATTATAT
Found at i:2045386 original size:2 final size:2
Alignment explanation
Indices: 2045379--2045407 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2045369 GAAATTTACA
2045379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2045408 ATGTAACTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2048265 original size:22 final size:24
Alignment explanation
Indices: 2048221--2048267 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
2048211 TCCATAAAAT
2048221 ATAAACAATAAACTGAAAATTTAA
1 ATAAACAATAAACTGAAAATTTAA
2048245 ATAAA-AAT-AACT-AAAACTTTAA
1 ATAAACAATAAACTGAAAA-TTTAA
2048267 A
1 A
2048268 CCGGGCTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 10 0.45
23 3 0.14
24 5 0.23
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (24 bp):
ATAAACAATAAACTGAAAATTTAA
Found at i:2048567 original size:472 final size:472
Alignment explanation
Indices: 2047681--2048571 Score: 1390
Period size: 472 Copynumber: 1.9 Consensus size: 472
2047671 CCTACGCATG
*
2047681 AAAATCATCACGTGCTAAGTAAAACTTAGTGAGACAGAAGTATAGCTAAAACATAAAATCCATAA
1 AAAATCATCACGCGCTAAGTAAAACTTAGTGAGACAGAAGTATAGCTAAAACATAAAATCCATAA
*** * * * *
2047746 AATATAAACAATACGTTGAAAATTTAAATAAAAATAATTAACACTTCAAATCGGGCTAGTTACCC
66 AATATAAACAATAAACTGAAAATTTAAATAAAAATAACTAAAACTTCAAACCGGGCTAGTCACCC
* * *
2047811 TGTTTTAATTCTAAAAACTTGAAAATCATCATTTCATAATTTTATAAAAAATCATGTAAGTCATC
131 TGTTTTAATTCTAAAAACCTAAAAATCATCATCTCATAATTTTATAAAAAATCATGTAAGTCATC
*
2047876 ATCAAATATCATAAATAACTTTTGTTATTTTCATTCAAGAATATTTTATAGCTTTCTTTTCAATT
196 ATCAAATATCATAAATAACTTTTGTTATTTTCATTCAAGAATATTTTATAACTTTCTTTTCAATT
* * * * *
2047941 CTATGTTCTTTTCTTTTATATATTGTCATAAATTTCACACTTACTGTTATAGCCCAATATATGCG
261 CTATGATCTTTTCTTTTATATACTGTCATAAATTTCACACTCACTATTATAGCCCAATATATACG
* * *
2048006 TAAGAGAATACAAGGTACATGAGTATAAGGTGTGCACTCGGCACAACACGGTGCCGAATCATAAC
326 TAAGAGAATACAAGGTACATGAGTATAAGGTGAGCACTAGGCACAACACGGTACCGAATCATAAC
*
2048071 TAAAACTACGATATTATGCACTTCAATGCAATCATAACCTAAGCACCAATGGTGCTAAACATTGG
391 TAAAACTACGATATTATACACTTCAATGCAATCATAACCTAAGCACCAATGGTGCTAAACATTGG
2048136 TACACGAATGTAAACAT
456 TACACGAATGTAAACAT
* *
2048153 AAAATCATTACGCGCTAAGTAAAACTTAGTGAGGCAGAAGTATAGCTAAAATC-TAAAATCCATA
1 AAAATCATCACGCGCTAAGTAAAACTTAGTGAGACAGAAGTATAGCTAAAA-CATAAAATCCATA
* **
2048217 AAATATAAACAATAAACTGAAAATTTAAATAAAAATAACTAAAACTTTAAACCGGGCTAGTCAGG
65 AAATATAAACAATAAACTGAAAATTTAAATAAAAATAACTAAAACTTCAAACCGGGCTAGTCACC
* ** ** *
2048282 TTGTTTTCCTTCTAAAAACCTAAAAATCATCATCTCATGTTTTTATAAAAAATCATGTAAGTTAT
130 CTGTTTTAATTCTAAAAACCTAAAAATCATCATCTCATAATTTTATAAAAAATCATGTAAGTCAT
* *
2048347 CATCAAATATCATAAATAACTTTTGTTCTTTTCATTCAA-ACATATTTTATAACTTTCTTTTTAA
195 CATCAAATATCATAAATAACTTTTGTTATTTTCATTCAAGA-ATATTTTATAACTTTCTTTTCAA
*
2048411 TTCTATGATCTTTTCTTTTATATACTGTCATAACTTTCACACTCACTATTATAGCCCAATATATA
259 TTCTATGATCTTTTCTTTTATATACTGTCATAAATTTCACACTCACTATTATAGCCCAATATATA
* ***
2048476 TGTAAGAGAATACAAGGTGTGTGAGTATAAGGTGAGCACTAGGCACAACACGGTACCGAATCATA
324 CGTAAGAGAATACAAGGTACATGAGTATAAGGTGAGCACTAGGCACAACACGGTACCGAATCATA
*
2048541 ACTAAAACTGCGATATTATACACTTCAATGC
389 ACTAAAACTACGATATTATACACTTCAATGC
2048572 GATATTATAC
Statistics
Matches: 377, Mismatches: 40, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
471 1 0.00
472 375 0.99
473 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (472 bp):
AAAATCATCACGCGCTAAGTAAAACTTAGTGAGACAGAAGTATAGCTAAAACATAAAATCCATAA
AATATAAACAATAAACTGAAAATTTAAATAAAAATAACTAAAACTTCAAACCGGGCTAGTCACCC
TGTTTTAATTCTAAAAACCTAAAAATCATCATCTCATAATTTTATAAAAAATCATGTAAGTCATC
ATCAAATATCATAAATAACTTTTGTTATTTTCATTCAAGAATATTTTATAACTTTCTTTTCAATT
CTATGATCTTTTCTTTTATATACTGTCATAAATTTCACACTCACTATTATAGCCCAATATATACG
TAAGAGAATACAAGGTACATGAGTATAAGGTGAGCACTAGGCACAACACGGTACCGAATCATAAC
TAAAACTACGATATTATACACTTCAATGCAATCATAACCTAAGCACCAATGGTGCTAAACATTGG
TACACGAATGTAAACAT
Found at i:2048574 original size:20 final size:20
Alignment explanation
Indices: 2048549--2048591 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2048539 TAACTAAAAC
2048549 TGCGATATTATACACTTCAA
1 TGCGATATTATACACTTCAA
2048569 TGCGATATTATACACTTCAA
1 TGCGATATTATACACTTCAA
2048589 TGC
1 TGC
2048592 AATCATAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
TGCGATATTATACACTTCAA
Found at i:2048803 original size:17 final size:17
Alignment explanation
Indices: 2048763--2048827 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 17
2048753 AATGTACGTT
**
2048763 TGATAACTGTAAAAAATC
1 TGATAACTGT-AATCATC
* *
2048781 TTATAATTGTAATCATC
1 TGATAACTGTAATCATC
*
2048798 TGATAACTGAAAATCATC
1 TGATAACTG-TAATCATC
2048816 TGATAACTGTAA
1 TGATAACTGTAA
2048828 ATATCTAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
17 14 0.37
18 24 0.63
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (17 bp):
TGATAACTGTAATCATC
Found at i:2048814 original size:18 final size:18
Alignment explanation
Indices: 2048791--2048833 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
2048781 TTATAATTGT
2048791 AATCATCTGATAACTGAA
1 AATCATCTGATAACTGAA
*
2048809 AATCATCTGATAACTGTA
1 AATCATCTGATAACTGAA
2048827 AAT-ATCT
1 AATCATCT
2048834 AGAATTGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (18 bp):
AATCATCTGATAACTGAA
Found at i:2061335 original size:64 final size:64
Alignment explanation
Indices: 2061256--2061381 Score: 157
Period size: 64 Copynumber: 2.0 Consensus size: 64
2061246 GATGCATCAA
* * *
2061256 TCTATGCATCGATGCACCATT-GAATAAATT-GAACATCGAATGCATTTCATGCATCGATGCACT
1 TCTATGCATCAATGCA-C-TTGGAATAAATTAAAACATCGAATGCATTCCATGCATCGATGCACT
2061319 C
64 C
** **
2061320 TCTATGCATCAATGCACTTGGGTTTTATTAAAACATCGAATGCATTCCATGCATCGATGCAC
1 TCTATGCATCAATGCACTTGGAATAAATTAAAACATCGAATGCATTCCATGCATCGATGCAC
2061382 AAGCAATGCA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 6 0.11
64 45 0.85
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (64 bp):
TCTATGCATCAATGCACTTGGAATAAATTAAAACATCGAATGCATTCCATGCATCGATGCACTC
Found at i:2061391 original size:64 final size:64
Alignment explanation
Indices: 2061287--2061446 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
2061277 GAATAAATTG
*** * * * * *
2061287 AACATCGAATGCATTTCATGCATCGATGCACTCTCTATGCATCAATGCACT-TGGGTTTTATTAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCACCAATGCACTCAGGCTATT-TTAA
* *
2061351 AACATCGAATGCATTCCATGCATCGATGCACAAGCAATGCACCAATGCACTCAGGCTATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCACCAATGCACTCAGGCTATTTTAA
* * *
2061415 AACATCGAATACATTTTATACATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
2061447 CTTGGTGCAC
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 76 0.94
65 5 0.06
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCACCAATGCACTCAGGCTATTTTAA
Found at i:2069419 original size:15 final size:15
Alignment explanation
Indices: 2069399--2069427 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2069389 TGTTTTAAAG
2069399 GGGGAGAAATGTTAA
1 GGGGAGAAATGTTAA
2069414 GGGGAGAAATGTTA
1 GGGGAGAAATGTTA
2069428 TAGTAAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (15 bp):
GGGGAGAAATGTTAA
Found at i:2069850 original size:45 final size:46
Alignment explanation
Indices: 2069794--2069898 Score: 126
Period size: 45 Copynumber: 2.3 Consensus size: 46
2069784 TGCATCAATC
*
2069794 CATGCATCGATGCACCATT-GAATAAATT-GAACATCGAATGCATTT
1 CATGCATCGATGCACC-TTGGAATAAATTAAAACATCGAATGCATTT
* ** **
2069839 CATGCATCGATG-AACTTGGGTTTTATTAAAACATCGAATGCATTT
1 CATGCATCGATGCACCTTGGAATAAATTAAAACATCGAATGCATTT
2069884 CATGCATCGATGCAC
1 CATGCATCGATGCAC
2069899 AAGCAATGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
43 2 0.04
44 7 0.14
45 40 0.80
46 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGCATCGATGCACCTTGGAATAAATTAAAACATCGAATGCATTT
Found at i:2069914 original size:64 final size:64
Alignment explanation
Indices: 2069840--2069963 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
2069830 AATGCATTTC
* **
2069840 ATGCATCGATGAACTTGGGTT-TTATTAAAACATCGAATGCATTTCATGCATCGATGCACAAGCA
1 ATGCACCGATGAACTCAGGTTATT-TTAAAACATCGAATGCATTTCATGCATCGATGCACAAGCA
* * *
2069904 ATGCACCGATGCACTCAGGTTATTTTCAAACATCGAATGCATTTTATGCATCGATGCACA
1 ATGCACCGATGAACTCAGGTTATTTTAAAACATCGAATGCATTTCATGCATCGATGCACA
2069964 CTTGGTGCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 51 0.96
65 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (64 bp):
ATGCACCGATGAACTCAGGTTATTTTAAAACATCGAATGCATTTCATGCATCGATGCACAAGCA
Found at i:2100042 original size:20 final size:20
Alignment explanation
Indices: 2100017--2100057 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2100007 TTCGATTGTC
* *
2100017 ATATTGATATTGGATGAACA
1 ATATTGATAATAGATGAACA
*
2100037 ATATTGTTAATAGATGAACA
1 ATATTGATAATAGATGAACA
2100057 A
1 A
2100058 AGGCAAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (20 bp):
ATATTGATAATAGATGAACA
Found at i:2102134 original size:237 final size:240
Alignment explanation
Indices: 2101715--2102188 Score: 568
Period size: 237 Copynumber: 2.0 Consensus size: 240
2101705 TTCATACTTG
*
2101715 ATGTAAAGGTTTTGAAACTTGAGTATGATTTAGAGGAAAAAAAACTAGTTAATCACTTCGACGAT
1 ATGTAAAGGTTTTGAAACTTGAGTATGATTTAGA-GAAAAAAAACTAGTGAATCACTTCGACGAT
*
2101780 TCCGTGTGACACTCAAAATATATGAGATTACAATATTCTAATTATGAGAGGAAAAAAAGTTTTCT
65 TCCGTGTGACACTCAAAATATATGAGATTACAATATTCTAATTATGAGAGGAAAAAAAGTTTCCT
* * * * * * * ** *
2101845 CTTTTGATTGATTGCTAAATGATGCTTGTTTAGTAAATCTACCTTGATTGGCTTTTTATGTCAAA
130 CATTTGATTAATAGCAAAATAAAGCTTGTTTAGTAAAACTACCTTGATTGGCTTGGTATGGCAAA
* *
2101910 TGTTATACATAAGGCCTATGGGTATTATTGTGTATTGTATCAATTT
195 TGTGATACATAAGGCCTATGAGTATTATTGTGTATTGTATCAATTT
* * * **
2101956 ATGTAAATGTTTTGAAAGTTGAGTATGATTTAGA-AAAAAATAACTAGTGAATCACTTTGGTGAT
1 ATGTAAAGGTTTTGAAACTTGAGTATGATTTAGAGAAAAAA-AACTAGTGAATCACTTCGACGA-
* * * * ** *
2102020 TTCC-TGTGACATTCAAAATCTATTAGATTA-AGGTATTCT-ATTGATGAGA-G-AGGAGA-TTT
64 TTCCGTGTGACACTCAAAATATATGAGATTACA-ATATTCTAATT-ATGAGAGGAAAAAAAGTTT
*
2102079 CCTCATTTGATTAAATAG-AAAATAAAGCTTGTTTAGTAAAACTACCTTGATTGGCTTGGTGTGG
127 CCTCATTTGATT-AATAGCAAAATAAAGCTTGTTTAGTAAAACTACCTTGATTGGCTTGGTATGG
** *
2102143 CAAATGTGATATGTGAGGCCTATGAGTATTATTGTGTATTGTATCA
191 CAAATGTGATACATAAGGCCTATGAGTATTATTGTGTATTGTATCA
2102189 GTGTATGGTG
Statistics
Matches: 198, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
237 92 0.46
238 6 0.03
239 11 0.06
240 53 0.27
241 36 0.18
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (240 bp):
ATGTAAAGGTTTTGAAACTTGAGTATGATTTAGAGAAAAAAAACTAGTGAATCACTTCGACGATT
CCGTGTGACACTCAAAATATATGAGATTACAATATTCTAATTATGAGAGGAAAAAAAGTTTCCTC
ATTTGATTAATAGCAAAATAAAGCTTGTTTAGTAAAACTACCTTGATTGGCTTGGTATGGCAAAT
GTGATACATAAGGCCTATGAGTATTATTGTGTATTGTATCAATTT
Found at i:2107086 original size:18 final size:18
Alignment explanation
Indices: 2107060--2107107 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 18
2107050 AGAAGACATC
*
2107060 TATTTTATTTTAAAAATA
1 TATTCTATTTTAAAAATA
2107078 TATTCTA--TT-AAAATA
1 TATTCTATTTTAAAAATA
2107093 TATTACTATTTTAAA
1 TATT-CTATTTTAAA
2107108 TTGTTTGTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 10 0.40
16 5 0.20
18 8 0.32
19 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTCTATTTTAAAAATA
Found at i:2116059 original size:131 final size:130
Alignment explanation
Indices: 2115817--2116182 Score: 529
Period size: 131 Copynumber: 2.8 Consensus size: 130
2115807 AATTCTAAGT
*
2115817 GAGAAAACGATAATATCTAATTATTTAC-AATCGAAAATAAATGACCTCTCATGCCTTAAAGCAG
1 GAGAAAACGATAATATCTAATTATTT-CTAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
* * *
2115881 TCGTTTATTACTCCAATCGAAATGAAGAGATATCATTATTTCGTCTTAAAATTTAATACTAATTC
65 TCATTTATTACTCCAATCGAAATGAAGAGATATCATTA-TTCATCTTAAAATTCAATACTAATTC
*
2115946 GA
129 AA
* * *
2115948 GTGAAAACGATAATATCTAATGATTTCTAATCGAGAATAAATGACCTCTCATGCGTTAAAGCAGT
1 GAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGT
* * * *
2116013 CATTTATTACTCCAATTGAAATGAAGAGTTATCATTATTCAATCTTAAAATTCAATATTGATTCA
66 CATTTATTACTCCAATCGAAATGAAGAGATATCATTATTC-ATCTTAAAATTCAATACTAATTCA
2116078 A
130 A
* *
2116079 GAGAAAATGGTAATATCTAATTATTT-TCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
1 GAGAAAACGATAATATCTAATTATTTCT-AATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
* * *
2116143 TCATTTATTACTCCAACCGAAATGAAAAGATATTATTATT
65 TCATTTATTACTCCAATCGAAATGAAGAGATATCATTATT
2116183 ATCAATACCG
Statistics
Matches: 210, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
130 5 0.02
131 205 0.98
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (130 bp):
GAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGT
CATTTATTACTCCAATCGAAATGAAGAGATATCATTATTCATCTTAAAATTCAATACTAATTCAA
Found at i:2119131 original size:132 final size:131
Alignment explanation
Indices: 2118698--2119151 Score: 502
Period size: 132 Copynumber: 3.4 Consensus size: 131
2118688 TTCAGGGTAG
* * *
2118698 ATCAGATCTGGAAACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
1 ATCAGATCTGGAGACATTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGGAAGACTTG
* * *
2118763 TTCCACTACTACTTAGGGAAGATCAAATCTAGAAAGAGGGGATTTGTTTCACTGCTTTTTCAGGA
66 TTCCACTACTACTCAGGGAAGATCAAATCTAGAAAGAGGGGATCTGTTCCACTGC-TTTTCAGGA
2118828 AA
130 AA
* * *** * * * *
2118830 ATTAGATATGGAGACATTGATTCATTCTGTTGTTATTTAGGGAAGATTGAATCGAGTCAA-ACTT
1 ATCAGATCTGGAGACATTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAG-GAAGACTT
* **
2118894 GTTTCACTACTACTCAGGGAAGATCAAATCTAGAAAGAGGGGATCTGTTCCACTGGTCTTTTGGG
65 GTTCCACTACTACTCAGGGAAGATCAAATCTAGAAAGAGGGGATCTGTTCCACT-G-CTTTTCAG
2118959 GAAA
128 GAAA
* * *
2118963 ATCAGATCTGGTA-ACATTGATTCATTCCAATGTTCTTC-GAGGAAGATTGAATCAAGGAAGACT
1 ATCAGATCTGG-AGACATTGATTCATTCCACTATTCTTCAG-GGAAGATTGAATCGAGGAAGACT
* * * * * * *
2119026 TATTCCATTGCTACTCAGGGAATATCATATCTGGAAAGA-GGGATCTGTTCCGCTGCTTCTTCAG
64 TGTTCCACTACTACTCAGGGAAGATCAAATCTAGAAAGAGGGGATCTGTTCCACTGCTT-TTCAG
2119090 TGAAA
128 -GAAA
* ** ** *
2119095 ATCATATCTGGAGATGTTGATTCATTATACTATTCTTCAGGGAAGATTAAATCGAGG
1 ATCAGATCTGGAGACATTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGG
2119152 TATATTTGTT
Statistics
Matches: 266, Mismatches: 46, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
130 3 0.01
131 5 0.02
132 165 0.62
133 91 0.34
134 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (131 bp):
ATCAGATCTGGAGACATTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGGAAGACTTG
TTCCACTACTACTCAGGGAAGATCAAATCTAGAAAGAGGGGATCTGTTCCACTGCTTTTCAGGAA
A
Found at i:2120010 original size:197 final size:197
Alignment explanation
Indices: 2119615--2120386 Score: 979
Period size: 197 Copynumber: 3.9 Consensus size: 197
2119605 AAGATTTAAA
* * * * ** *
2119615 TAAGAAACTTTGGAAATTGTTTTCTCATTTTTCGAAAATCATGTGAGAACATCCTATCCAAATGT
1 TAAGAAACTTTGGAAATTGTTTTCTTACTTTTCGAAAAACATGTGAAAACATCCTGCCCGAATGT
* * * * **
2119680 CTTATGGATG-GCTCGAA-GACTTATAATCTTGGTTGAAAGGCTTATAGATGACCTGAAGGA--T
66 CTTATGGATGTCCT-GAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCAAAGGATTT
* *
2119741 --TCATCATGCTCGAAAGACTTATTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGATTACT
130 AATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGATTACT
2119804 AGG
195 AGG
* * * *
2119807 TAAGAAACTTTGGAAATTGATTTATTACTTTTTGAAAAACATGTGAAAACATCCTGCACGAATGT
1 TAAGAAACTTTGGAAATTGTTTTCTTACTTTTCGAAAAACATGTGAAAACATCCTGCCCGAATGT
* *
2119872 CTTATGGATGTCCTGAAGGACTTATCATCTTTCTCGAAATGCTTATAGATGACCCAAAGGATTTA
66 CTTATGGATGTCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCAAAGGATTTA
* * * * * *
2119937 ATCATCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTATCAATTTTTGAATTAGCTTACTA
131 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGATTACTA
2120002 GG
196 GG
* * *
2120004 TAAGAAACTTTGGAAATAGTTTTCTTACTTTTCGAAAATCATGTGAAAACATCCTGCCCGAAGGT
1 TAAGAAACTTTGGAAATTGTTTTCTTACTTTTCGAAAAACATGTGAAAACATCCTGCCCGAATGT
** * ** * *
2120069 CTTATGGATGGT-AAGGAGGACTTATCATCTTAATCAAAAGGCTTATAAATGACCCGAAA-GATT
66 CTTATGGAT-GTCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCC-AAAGGATT
* * * *
2120132 TAATTATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACCAATTTTGGAAATAGTTTAC
129 TAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGATTAC
2120197 TAGG
194 TAGG
* *
2120201 TAAGAAACTTTGGAAATCT-TTTTCTTACTTTTCAAAAAACATGTGAAAACATCTTGCCCGAA-G
1 TAAGAAACTTTGGAAAT-TGTTTTCTTACTTTTCGAAAAACATGTGAAAACATCCTGCCCGAATG
* * * ***
2120264 ATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGGAGGATT
65 -TCTTATGGATGTCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCAAAGGATT
*
2120329 TAATCATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAAT
129 TAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAAT
2120387 CAAGCTTAGT
Statistics
Matches: 499, Mismatches: 69, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
192 67 0.13
193 38 0.08
195 1 0.00
196 3 0.01
197 385 0.77
198 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (197 bp):
TAAGAAACTTTGGAAATTGTTTTCTTACTTTTCGAAAAACATGTGAAAACATCCTGCCCGAATGT
CTTATGGATGTCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCAAAGGATTTA
ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGATTACTA
GG
Found at i:2120295 original size:41 final size:40
Alignment explanation
Indices: 2120250--2120372 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 40
2120240 CATGTGAAAA
*
2120250 CATCTTGCCCG-AAGATCTTATGGATGGCCCGAAGGACTTAT
1 CATCTTGCTCGAAAGA-CTTAT-GATGGCCCGAAGGACTTAT
* * * *
2120291 CATCTTGCTCGAAAGACTTATAGATGACCTGGAGGATTTAAT
1 CATCTTGCTCGAAAGACTTAT-GATGGCCCGAAGGACTT-AT
**
2120333 CATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
1 CATCTTGCTCGAAAGACTTA-TGATGGCCCGAAGGACTTA
2120373 CCAATTTTGG
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 29 0.43
42 37 0.55
43 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (40 bp):
CATCTTGCTCGAAAGACTTATGATGGCCCGAAGGACTTAT
Found at i:2120350 original size:394 final size:389
Alignment explanation
Indices: 2119615--2120380 Score: 1081
Period size: 394 Copynumber: 2.0 Consensus size: 389
2119605 AAGATTTAAA
* * * * *
2119615 TAAGAAACTTTGGAAATTGTTTTCTCATTTTTCGAAAATCATGTGAGAACATCCTATCCAAATGT
1 TAAGAAACTTTGGAAATAGTTTTCTCACTTTTCGAAAATCATGTGAAAACATCCTACCCAAAGGT
** ** * * *
2119680 CTTATGGATGGCTCGAAGACTTATAATCTTGGTTGAAAGGCTTATAGATGACCTGAAGGATTCAT
66 CTTATGGATGGCTCGAAGACTTATAATCTTAATCAAAAGGCTTATAAATGACCCGAAAGATTCAT
*
2119745 CATGCTCGAAAGACTTATTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGATTACTAGGTAA
131 CATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGATTACTAGGTAA
**
2119810 GAAACTTTGGAAATTGATTTATTACTTTTTGAAAAACATGTGAAAACATCCTGCACGAATGTCTT
196 GAAACTTTGGAAATTGATTTATTACTTTTCAAAAAACATGTGAAAACATCCTGCACGAATGTCTT
* * *
2119875 ATGGATGTCCTGAAGGACTTATCATCTTTCTCGAAATGCTTATAGATGACCCAAAGGATTTAATC
261 ATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAATGCTTATAGATGACCCAAAGGATTTAATC
* * *
2119940 ATCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTATCAATTTTTGAATTAGCTTACTAGG
326 ATCAAGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTTGAATTAGCTTACTAGG
* * *
2120004 TAAGAAACTTTGGAAATAGTTTTCTTACTTTTCGAAAATCATGTGAAAACATCCTGCCCGAAGGT
1 TAAGAAACTTTGGAAATAGTTTTCTCACTTTTCGAAAATCATGTGAAAACATCCTACCCAAAGGT
* * *
2120069 CTTATGGATGG-TAAGGAGGACTTATCATCTTAATCAAAAGGCTTATAAATGACCCGAAAGATTT
66 CTTATGGATGGCT--CGAAGACTTATAATCTTAATCAAAAGGCTTATAAATGACCCGAAAGA--T
* * *
2120133 AATTATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACCAATTTTGGAAATAGTTTACT
127 --TCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGATTACT
* * * *
2120198 AGGTAAGAAACTTTGGAAATCT-TTTTCTTACTTTTCAAAAAACATGTGAAAACATCTTGCCCGA
190 AGGTAAGAAACTTTGGAAAT-TGATTTATTACTTTTCAAAAAACATGTGAAAACATCCTGCACGA
***
2120262 A-GATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA-GACTTATAGATGACCTGGAG
254 ATG-TCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAATG-CTTATAGATGACCCAAAG
*
2120325 GATTTAATCATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTT
317 GATTTAATCATCAAGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTT
2120381 GGAAATCAAG
Statistics
Matches: 330, Mismatches: 38, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
388 1 0.00
389 68 0.21
390 37 0.11
392 1 0.00
393 2 0.01
394 220 0.67
395 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (389 bp):
TAAGAAACTTTGGAAATAGTTTTCTCACTTTTCGAAAATCATGTGAAAACATCCTACCCAAAGGT
CTTATGGATGGCTCGAAGACTTATAATCTTAATCAAAAGGCTTATAAATGACCCGAAAGATTCAT
CATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGATTACTAGGTAA
GAAACTTTGGAAATTGATTTATTACTTTTCAAAAAACATGTGAAAACATCCTGCACGAATGTCTT
ATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAATGCTTATAGATGACCCAAAGGATTTAATC
ATCAAGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTTGAATTAGCTTACTAGG
Found at i:2120825 original size:41 final size:40
Alignment explanation
Indices: 2120780--2120902 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 40
2120770 CATGTGAAAA
*
2120780 CATCTTGCCCG-AAGATCTTATGGATGGCCCGAAGGACTTAT
1 CATCTTGCTCGAAAGA-CTTAT-GATGGCCCGAAGGACTTAT
* * * *
2120821 CATCTTGCTCGAAAGACTTATAGATGACCTGGAGGATTTAAT
1 CATCTTGCTCGAAAGACTTAT-GATGGCCCGAAGGACTT-AT
**
2120863 CATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
1 CATCTTGCTCGAAAGACTTA-TGATGGCCCGAAGGACTTA
2120903 CCAATTTTGG
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 29 0.43
42 37 0.55
43 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (40 bp):
CATCTTGCTCGAAAGACTTATGATGGCCCGAAGGACTTAT
Found at i:2121134 original size:530 final size:530
Alignment explanation
Indices: 2120133--2121726 Score: 3188
Period size: 530 Copynumber: 3.0 Consensus size: 530
2120123 CGAAAGATTT
2120133 AATTATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACCAATTTTGGAAATAGTTTACT
1 AATTATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACCAATTTTGGAAATAGTTTACT
2120198 AGGTAAGAAACTTTGGAAATCTTTTTCTTACTTTTCAAAAAACATGTGAAAACATCTTGCCCGAA
66 AGGTAAGAAACTTTGGAAATCTTTTTCTTACTTTTCAAAAAACATGTGAAAACATCTTGCCCGAA
2120263 GATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGGAGGAT
131 GATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGGAGGAT
2120328 TTAATCATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATCAAGCT
196 TTAATCATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATCAAGCT
2120393 TAGTTTTTTGAAAAATCCATCAGGTATAGAAACCTCTAAAAACAGACTTAGTTTTTTTGAAAACA
261 TAGTTTTTTGAAAAATCCATCAGGTATAGAAACCTCTAAAAACAGACTTAGTTTTTTTGAAAACA
2120458 CATTTAAAAAATACCATGCCAAGAAACCTCTGAAAACCATACTTAGTTTCTAAAAAACTCGTTAA
326 CATTTAAAAAATACCATGCCAAGAAACCTCTGAAAACCATACTTAGTTTCTAAAAAACTCGTTAA
2120523 CTAGGTAACATGCCCCATTTCAAAAATGATGATTGTCCTGCGGATTGGGTTCTCAATTCTTGAGT
391 CTAGGTAACATGCCCCATTTCAAAAATGATGATTGTCCTGCGGATTGGGTTCTCAATTCTTGAGT
2120588 TTCTACAACTCTTAATGTAATTCCCTCCATTTGAGGCTTGAATTCTGATTTTTCTTTTCTTTTCT
456 TTCTACAACTCTTAATGTAATTCCCTCCATTTGAGGCTTGAATTCTGATTTTTCTTTTCTTTTCT
2120653 TTTCTTGAAA
521 TTTCTTGAAA
2120663 AATTATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACCAATTTTGGAAATAGTTTACT
1 AATTATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACCAATTTTGGAAATAGTTTACT
2120728 AGGTAAGAAACTTTGGAAATCTTTTTCTTACTTTTCAAAAAACATGTGAAAACATCTTGCCCGAA
66 AGGTAAGAAACTTTGGAAATCTTTTTCTTACTTTTCAAAAAACATGTGAAAACATCTTGCCCGAA
2120793 GATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGGAGGAT
131 GATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGGAGGAT
2120858 TTAATCATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATCAAGCT
196 TTAATCATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATCAAGCT
2120923 TAGTTTTTTGAAAAATCCATCAGGTATAGAAACCTCTAAAAACAGACTTAGTTTTTTTGAAAACA
261 TAGTTTTTTGAAAAATCCATCAGGTATAGAAACCTCTAAAAACAGACTTAGTTTTTTTGAAAACA
2120988 CATTTAAAAAATACCATGCCAAGAAACCTCTGAAAACCATACTTAGTTTCTAAAAAACTCGTTAA
326 CATTTAAAAAATACCATGCCAAGAAACCTCTGAAAACCATACTTAGTTTCTAAAAAACTCGTTAA
2121053 CTAGGTAACATGCCCCATTTCAAAAATGATGATTGTCCTGCGGATTGGGTTCTCAATTCTTGAGT
391 CTAGGTAACATGCCCCATTTCAAAAATGATGATTGTCCTGCGGATTGGGTTCTCAATTCTTGAGT
2121118 TTCTACAACTCTTAATGTAATTCCCTCCATTTGAGGCTTGAATTCTGATTTTTCTTTTCTTTTCT
456 TTCTACAACTCTTAATGTAATTCCCTCCATTTGAGGCTTGAATTCTGATTTTTCTTTTCTTTTCT
2121183 TTTCTTGAAA
521 TTTCTTGAAA
2121193 AATTATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACCAATTTTGGAAATAGTTTACT
1 AATTATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACCAATTTTGGAAATAGTTTACT
2121258 AGGTAAGAAACTTTGGAAATCTTTTTCTTACTTTTCAAAAAACATGTGAAAACATCTTGCCCGAA
66 AGGTAAGAAACTTTGGAAATCTTTTTCTTACTTTTCAAAAAACATGTGAAAACATCTTGCCCGAA
2121323 GATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGGAGGAT
131 GATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGGAGGAT
2121388 TTAATCATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATCAAGCT
196 TTAATCATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATCAAGCT
2121453 TAGTTTTTTGAAAAATCCATCAGGTATAGAAACCTCTAAAAACAGACTTAGTTTTTTTGAAAACA
261 TAGTTTTTTGAAAAATCCATCAGGTATAGAAACCTCTAAAAACAGACTTAGTTTTTTTGAAAACA
2121518 CATTTAAAAAATACCATGCCAAGAAACCTCTGAAAACCATACTTAGTTTCTAAAAAACTCGTTAA
326 CATTTAAAAAATACCATGCCAAGAAACCTCTGAAAACCATACTTAGTTTCTAAAAAACTCGTTAA
2121583 CTAGGTAACATGCCCCATTTCAAAAATGATGATTGTCCTGCGGATTGGGTTCTCAATTCTTGAGT
391 CTAGGTAACATGCCCCATTTCAAAAATGATGATTGTCCTGCGGATTGGGTTCTCAATTCTTGAGT
2121648 TTCTACAACTCTTAATGTAATTCCCTCCATTTGAGGCTTGAATTCTGATTTTTCTTTTCTTTTCT
456 TTCTACAACTCTTAATGTAATTCCCTCCATTTGAGGCTTGAATTCTGATTTTTCTTTTCTTTTCT
2121713 TTTCTTGAAA
521 TTTCTTGAAA
2121723 AATT
1 AATT
2121727 TGTAAGAAAT
Statistics
Matches: 1064, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
530 1064 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (530 bp):
AATTATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACCAATTTTGGAAATAGTTTACT
AGGTAAGAAACTTTGGAAATCTTTTTCTTACTTTTCAAAAAACATGTGAAAACATCTTGCCCGAA
GATCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGGAGGAT
TTAATCATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATCAAGCT
TAGTTTTTTGAAAAATCCATCAGGTATAGAAACCTCTAAAAACAGACTTAGTTTTTTTGAAAACA
CATTTAAAAAATACCATGCCAAGAAACCTCTGAAAACCATACTTAGTTTCTAAAAAACTCGTTAA
CTAGGTAACATGCCCCATTTCAAAAATGATGATTGTCCTGCGGATTGGGTTCTCAATTCTTGAGT
TTCTACAACTCTTAATGTAATTCCCTCCATTTGAGGCTTGAATTCTGATTTTTCTTTTCTTTTCT
TTTCTTGAAA
Found at i:2121355 original size:41 final size:40
Alignment explanation
Indices: 2121310--2121432 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 40
2121300 CATGTGAAAA
*
2121310 CATCTTGCCCG-AAGATCTTATGGATGGCCCGAAGGACTTAT
1 CATCTTGCTCGAAAGA-CTTAT-GATGGCCCGAAGGACTTAT
* * * *
2121351 CATCTTGCTCGAAAGACTTATAGATGACCTGGAGGATTTAAT
1 CATCTTGCTCGAAAGACTTAT-GATGGCCCGAAGGACTT-AT
**
2121393 CATCAAGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
1 CATCTTGCTCGAAAGACTTA-TGATGGCCCGAAGGACTTA
2121433 CCAATTTTGG
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 29 0.43
42 37 0.55
43 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (40 bp):
CATCTTGCTCGAAAGACTTATGATGGCCCGAAGGACTTAT
Found at i:2135818 original size:3 final size:3
Alignment explanation
Indices: 2135810--2135854 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
2135800 AAAATAAAAT
2135810 TAA TAA TAA T-A TAA TATA TAA -AA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA T-AA TAA TAA TAA TAA TAA TAA
2135855 GCTTAATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.11
3 28 0.74
4 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2135838 original size:24 final size:24
Alignment explanation
Indices: 2135802--2135854 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2135792 AAAAACTGAA
*
2135802 AATAAAATTAATAATAAT-ATAAT
1 AATAAAATAAATAATAATAATAAT
2135825 ATATAAAATAAATAATAATAATAAT
1 A-ATAAAATAAATAATAATAATAAT
2135850 AATAA
1 AATAA
2135855 GCTTAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 20 0.74
25 6 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AATAAAATAAATAATAATAATAAT
Found at i:2135932 original size:21 final size:21
Alignment explanation
Indices: 2135898--2135945 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2135888 AAACTATATA
*
2135898 ATATATTATATTTTCAAAATC
1 ATATAATATATTTTCAAAATC
* *
2135919 ATATAATATGTTTTCAAAATT
1 ATATAATATATTTTCAAAATC
2135940 ATATAA
1 ATATAA
2135946 CAATATGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (21 bp):
ATATAATATATTTTCAAAATC
Found at i:2135950 original size:24 final size:24
Alignment explanation
Indices: 2135908--2136085 Score: 84
Period size: 24 Copynumber: 7.4 Consensus size: 24
2135898 ATATATTATA
*
2135908 TTTTCAAAATCATAT---AATATG
1 TTTTCAAAATTATATAACAATATG
2135929 TTTTCAAAATTATATAACAATATG
1 TTTTCAAAATTATATAACAATATG
* * * *
2135953 TTTTTAAAAACTACATTAC-ATA--
1 -TTTTCAAAATTATATAACAATATG
** *
2135975 TTTTCAAAAACTATATATATATTATATA
1 TTTTC-AAAA-T-TATATA-ACAATATG
*
2136003 TTTTCAAAATTATATAACAATTTG
1 TTTTCAAAATTATATAACAATATG
* * *
2136027 TTTTTAAAA-TACTAT-ACTATATA
1 TTTTCAAAATTA-TATAACAATATG
* **
2136050 TTTTCGAAAACTATATATTATATATG
1 TTTTC-AAAATTATATAACA-ATATG
2136076 TTTTCCAAAA
1 TTTT-CAAAA
2136086 ACCATTTTTT
Statistics
Matches: 117, Mismatches: 23, Indels: 29
0.69 0.14 0.17
Matches are distributed among these distances:
21 18 0.15
22 4 0.03
23 11 0.09
24 35 0.30
25 23 0.20
26 16 0.14
27 5 0.04
28 5 0.04
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (24 bp):
TTTTCAAAATTATATAACAATATG
Found at i:2135996 original size:21 final size:21
Alignment explanation
Indices: 2135898--2135997 Score: 60
Period size: 21 Copynumber: 4.5 Consensus size: 21
2135888 AAACTATATA
*
2135898 ATATATTATATTTTCAAAATC-
1 ATATA-TATATTTTCAAAAACT
*
2135919 ATATAATATGTTTTCAAAATTA-T
1 ATAT-ATATATTTTCAAAA--ACT
* * *
2135942 ATAACAATATGTTTTTAAAAACT
1 AT-A-TATATATTTTCAAAAACT
* *
2135965 ACATTACATATTTTCAAAAACT
1 ATA-TATATATTTTCAAAAACT
2135987 ATATATATATT
1 ATATATATATT
2135998 ATATATTTTC
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
21 23 0.38
22 19 0.32
23 4 0.07
24 14 0.23
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATATATATTTTCAAAAACT
Found at i:2136016 original size:74 final size:75
Alignment explanation
Indices: 2135919--2136085 Score: 241
Period size: 74 Copynumber: 2.3 Consensus size: 75
2135909 TTTCAAAATC
* *
2135919 ATATAATATGTTTTCAAAATTATATAACAATATGTTTTTAAAA-ACTACATTACATATTTTCAAA
1 ATATTATATGTTTTCAAAATTATATAACAATATGTTTTTAAAATACTACACTACATATTTTCAAA
2135983 AACTATATAT
66 AACTATATAT
* * * * *
2135993 ATATTATATATTTTCAAAATTATATAACAATTTGTTTTTAAAATACTATACTATATATTTTCGAA
1 ATATTATATGTTTTCAAAATTATATAACAATATGTTTTTAAAATACTACACTACATATTTTCAAA
2136058 AACTATATAT
66 AACTATATAT
2136068 -TA-TATATGTTTTCCAAAA
1 ATATTATATGTTTT-CAAAA
2136086 ACCATTTTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
73 9 0.11
74 47 0.57
75 27 0.33
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (75 bp):
ATATTATATGTTTTCAAAATTATATAACAATATGTTTTTAAAATACTACACTACATATTTTCAAA
AACTATATAT
Found at i:2136117 original size:39 final size:39
Alignment explanation
Indices: 2136056--2136203 Score: 149
Period size: 41 Copynumber: 3.7 Consensus size: 39
2136046 TATATTTTCG
*
2136056 AAAACTATATATTATATATGTTTTCCAAAAACCATTTTTTA
1 AAAACTATATA-TATATATGTTTT-CAAAAACCATTTTTAA
* * *
2136097 AAAACTATATAT-TATATGTTTTCAAAAATACA-CTTTCA
1 AAAACTATATATATATATGTTTTCAAAAA-CCATTTTTAA
* * *
2136135 AATACTATATTATATATATGTTTTAAAAAAACAATTTTTAA
1 AAAACTATA-TATATATATGTTTT-CAAAAACCATTTTTAA
*
2136176 TAAAACTATATAT-TATATGTTTTTAAAA
1 -AAAACTATATATATATATGTTTTCAAAA
2136204 TTGTGTTTTC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 18 0.20
39 19 0.21
40 22 0.24
41 23 0.26
42 8 0.09
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (39 bp):
AAAACTATATATATATATGTTTTCAAAAACCATTTTTAA
Found at i:2136193 original size:40 final size:39
Alignment explanation
Indices: 2136056--2136203 Score: 149
Period size: 39 Copynumber: 3.7 Consensus size: 39
2136046 TATATTTTCG
* * *
2136056 AAAACTATATATTATATATGTTTTCCAAAAACCATTTTTTA
1 AAAACTATATA-TATATATGTTTT-AAAAAAACATTTTTAA
* * *
2136097 AAAACTATATAT-TATATGTTTTCAAAAATACA-CTTTCA
1 AAAACTATATATATATATGTTTT-AAAAAAACATTTTTAA
*
2136135 AATACTATATTATATATATGTTTTAAAAAAACAATTTTTAA
1 AAAACTATA-TATATATATGTTTTAAAAAAAC-ATTTTTAA
*
2136176 TAAAACTATATAT-TATATGTTTTTAAAA
1 -AAAACTATATATATATATGTTTTAAAAA
2136204 TTGTGTTTTC
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
38 12 0.13
39 27 0.30
40 26 0.29
41 18 0.20
42 8 0.09
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (39 bp):
AAAACTATATATATATATGTTTTAAAAAAACATTTTTAA
Found at i:2136204 original size:79 final size:79
Alignment explanation
Indices: 2136051--2136203 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 79
2136041 TACTATATAT
** * *
2136051 TTTCGAAAACTATATATTATATATGTTTTCCAAAAACCATTTTTTAAAAACTATATATTATATGT
1 TTTCGAAAACTATATATTATATATGTTTTAAAAAAACAATTTTTAAAAAACTATATATTATATGT
2136116 TTTCAAAAATACAC
66 TTTCAAAAATACAC
2136130 TTTC-AAATACTATAT-TATATATATGTTTTAAAAAAACAATTTTTAATAAAACTATATATTATA
1 TTTCGAAA-ACTATATAT-TATATATGTTTTAAAAAAACAATTTTTAA-AAAACTATATATTATA
*
2136193 TGTTTTTAAAA
63 TGTTTTCAAAA
2136204 TTGTGTTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
78 4 0.06
79 36 0.55
80 26 0.39
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (79 bp):
TTTCGAAAACTATATATTATATATGTTTTAAAAAAACAATTTTTAAAAAACTATATATTATATGT
TTTCAAAAATACAC
Found at i:2136223 original size:80 final size:79
Alignment explanation
Indices: 2136049--2136223 Score: 217
Period size: 80 Copynumber: 2.2 Consensus size: 79
2136039 TATACTATAT
* ** * *
2136049 ATTTTCGAAAACTATATATTATATATGTTTTCCAAAAACCATTTTTTAAAAACTATATATTATAT
1 ATTTTCAAAAACTATATATTATATATGTTTTAAAAAAACAATTTTTAAAAAACTATATATTATAT
2136114 GTTTTCAAAAATAC
66 GTTTTCAAAAATAC
* *
2136128 ACTTTCAAATACTATAT-TATATATATGTTTTAAAAAAACAATTTTTAATAAAACTATATATTAT
1 ATTTTCAAAAACTATATAT-TATATATGTTTTAAAAAAACAATTTTTAA-AAAACTATATATTAT
* * **
2136192 ATGTTTTTAAAATTGT
64 ATGTTTTCAAAAATAC
*
2136208 GTTTTCAAAAACTATA
1 ATTTTCAAAAACTATA
2136224 CTATGTATTT
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
78 1 0.01
79 39 0.49
80 40 0.50
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (79 bp):
ATTTTCAAAAACTATATATTATATATGTTTTAAAAAAACAATTTTTAAAAAACTATATATTATAT
GTTTTCAAAAATAC
Done.