Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 150 of 171
Found at i:45209597 original size:86 final size:88
Alignment explanation
Indices: 45209406--45209605 Score: 219
Period size: 86 Copynumber: 2.3 Consensus size: 88
45209396 AGAAATTATA
* * *
45209406 TTTTAACCCCCAAACTTCTCTAAAATTATATTTTTGACCCTAAAACTTTCAAAAATTACATTCTT
1 TTTTAACCCCAAAACTTC-CAAAAATTATA-TTTTGACCCTAAAACGTTCAAAAATTACATTCTT
*
45209471 ACACTCAAACTCCCAAAAATTCCAT
64 ACACTCAAACTCCCAAAAACTCCAT
* ** *
45209496 TTTTGACCTTAAAACTTCCAAAAATTATA-TTT-ACCCCTAAAA-GTTCTAAAATTACCATT-TT
1 TTTTAACCCCAAAACTTCCAAAAATTATATTTTGA-CCCTAAAACGTTCAAAAATTA-CATTCTT
* * *
45209557 ACCCTCGAACTTCCAAAAACTCCAT
64 ACACTCAAACTCCCAAAAACTCCAT
* *
45209582 TTTTAACCCCGAAACTTTCAAAAA
1 TTTTAACCCCAAAACTTCCAAAAA
45209606 ATACCATTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
86 53 0.58
87 15 0.16
89 10 0.11
90 14 0.15
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.34
Consensus pattern (88 bp):
TTTTAACCCCAAAACTTCCAAAAATTATATTTTGACCCTAAAACGTTCAAAAATTACATTCTTAC
ACTCAAACTCCCAAAAACTCCAT
Found at i:45209620 original size:29 final size:29
Alignment explanation
Indices: 45209525--45209620 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
45209515 AAAAATTATA
* ** * *
45209525 TTTACCCCTAAAAGTTCTAAAATTACCAT
1 TTTACCCCGAAACTTTCAAAAAATACCAT
* *
45209554 TTTACCCTCG-AACTTCCAAAAACT-CCATT
1 TTTACCC-CGAAACTTTCAAAAAATACCA-T
45209583 TTTAACCCCGAAACTTTCAAAAAATACCAT
1 TTT-ACCCCGAAACTTTCAAAAAATACCAT
45209613 TTTACCCC
1 TTTACCCC
45209621 CGGATGTCCA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
28 3 0.06
29 27 0.50
30 21 0.39
31 3 0.06
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.31
Consensus pattern (29 bp):
TTTACCCCGAAACTTTCAAAAAATACCAT
Found at i:45216171 original size:13 final size:14
Alignment explanation
Indices: 45216153--45216210 Score: 59
Period size: 13 Copynumber: 4.4 Consensus size: 14
45216143 TTCAAAAAAA
*
45216153 TCAACGATCAA-AG
1 TCAACGGTCAACAG
*
45216166 TCAACGGTCAACGG
1 TCAACGGTCAACAG
*
45216180 TCAAC-GTCAACGG
1 TCAACGGTCAACAG
*
45216193 TCAATGGTCAA-AG
1 TCAACGGTCAACAG
45216206 TCAAC
1 TCAAC
45216211 AACTGGTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
13 27 0.71
14 11 0.29
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (14 bp):
TCAACGGTCAACAG
Found at i:45216175 original size:7 final size:7
Alignment explanation
Indices: 45216165--45216203 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
45216155 AACGATCAAA
45216165 GTCAACG
1 GTCAACG
45216172 GTCAACG
1 GTCAACG
45216179 GTCAAC-
1 GTCAACG
45216185 GTCAACG
1 GTCAACG
*
45216192 GTCAATG
1 GTCAACG
45216199 GTCAA
1 GTCAA
45216204 AGTCAACAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:45216178 original size:20 final size:20
Alignment explanation
Indices: 45216153--45216210 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
45216143 TTCAAAAAAA
*
45216153 TCAACGATCAAAGTCAACGG
1 TCAACGGTCAAAGTCAACGG
*
45216173 TCAACGGTCAACGTCAACGG
1 TCAACGGTCAAAGTCAACGG
*
45216193 TCAATGGTCAAAGTCAAC
1 TCAACGGTCAAAGTCAAC
45216211 AACTGGTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (20 bp):
TCAACGGTCAAAGTCAACGG
Found at i:45223544 original size:201 final size:200
Alignment explanation
Indices: 45223179--45223811 Score: 851
Period size: 201 Copynumber: 3.1 Consensus size: 200
45223169 GATGCGATAG
* *
45223179 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCGAGGCTCAAAGGCGAGCAAATCTTTGAACC
1 TCTTCCTGATGAGATACTGAGAAGTATACCAACTCGAGGCTC-AATGCGAGCAAATCTTTGAACC
*
45223244 CCAGCTTTCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATGAGA
65 CCAGC-TTCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTTCTTGATGAGA
* * *
45223309 TACTGAGAAG-CAGACCAAATTCGTCTTACTGATGAGATACAGAGAAGCGAATTGAAACAAATGA
129 TACTGAGAAGTGA-ACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAATGA
*
45223373 GGCGGTCA
193 TGCGGTCA
* ** *
45223381 TATTTTTGATGAGATA-TAGAGAAGTATACCAACTCGAGGCTCAATGCGAGCAAATCTTCGAACC
1 TCTTCCTGATGAGATACT-GAGAAGTATACCAACTCGAGGCTCAATGCGAGCAAATCTTTGAACC
* *
45223445 CCAGCTTCATGATGAGATACTGAGAAGCAGGTTGAAGTAATAAAATGGTTAGCTTCCTGATGAGA
65 CCAGCTTC-TGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTTCTTGATGAGA
* * **
45223510 TACTGAGAAGTGAACCAAATTTGTCTTCCTGATGAGATACAGAGAAGAGGATT-AAAGCAAGCGA
129 TACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAA-CAAATGA
45223574 TGCGGTCA
193 TGCGGTCA
* * * * * * ***
45223582 TCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCTATGCTCGATAAAAGCAAATCTTTG
1 TCTTCCTGATGAGATACTGAGAAGTATACC-AA-C---TCGAGGCTCAATGCGAGCAAATCTTTG
* *
45223647 AA-CCCAGCTTCCTGATGAGATGCTGAGAGGCAGGTCGAAGTAATAAAATGGTTAGCTTCTTGAT
61 AACCCCAGCTT-CTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTTCTTGAT
* *
45223711 GAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAA
125 GAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAA
45223776 GTGATGCGGTCA
190 -TGATGCGGTCA
45223788 TCTTCCTGATGAGATACTGAGAAG
1 TCTTCCTGATGAGATACTGAGAAG
45223812 AAGGCCAAGT
Statistics
Matches: 378, Mismatches: 40, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
200 6 0.02
201 159 0.42
202 41 0.11
203 1 0.00
205 112 0.30
206 59 0.16
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (200 bp):
TCTTCCTGATGAGATACTGAGAAGTATACCAACTCGAGGCTCAATGCGAGCAAATCTTTGAACCC
CAGCTTCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTTCTTGATGAGATA
CTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAATGATGC
GGTCA
Found at i:45224183 original size:17 final size:17
Alignment explanation
Indices: 45224161--45224201 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
45224151 ACTCATTCTA
* *
45224161 AAATTTATTTTAAGGTT
1 AAATTTATATTAAAGTT
*
45224178 AAATTTATATTAAATTT
1 AAATTTATATTAAAGTT
45224195 AAATTTA
1 AAATTTA
45224202 AAACTTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
AAATTTATATTAAAGTT
Found at i:45224398 original size:28 final size:28
Alignment explanation
Indices: 45224342--45224399 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
45224332 ACCCATACCA
* *
45224342 AATTGCCTAAACCCTATACCATTAACCC
1 AATTGCCTAAACCCAATACAATTAACCC
*
45224370 AATT-CCTAAACCCAATTACAATTGACCC
1 AATTGCCTAAACCCAA-TACAATTAACCC
45224398 AA
1 AA
45224400 AAGGGCCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.40, C:0.33, G:0.03, T:0.24
Consensus pattern (28 bp):
AATTGCCTAAACCCAATACAATTAACCC
Found at i:45225034 original size:30 final size:31
Alignment explanation
Indices: 45224991--45225051 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
45224981 CCCTAAGTTG
* *
45224991 TCCAGAAATTATA-TTTTGACACCTAAACTTC
1 TCCAGAAACTATATTTTTGAC-CCGAAACTTC
45225022 TCCA-AAACTATATTTTTGACCCGAAACTTC
1 TCCAGAAACTATATTTTTGACCCGAAACTTC
45225052 CAAAAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (31 bp):
TCCAGAAACTATATTTTTGACCCGAAACTTC
Found at i:45225106 original size:59 final size:59
Alignment explanation
Indices: 45225033--45225203 Score: 183
Period size: 59 Copynumber: 2.9 Consensus size: 59
45225023 CCAAAACTAT
*
45225033 ATTTTTGACCCGAAACTTCCAAAAATTACATTTTTACCCC-CAAACTTCCAAAAATTCA
1 ATTTTTGACCCGAAACTTCCAAAAATTACATTTTTACCCCTAAAACTTCCAAAAATTCA
* * *
45225091 ATTTTTGATCTCGAAACTTCCAAAAATTATATTTTTACCCCTAAAACTTCC-AAAATTACC
1 ATTTTTGA-CCCGAAACTTCCAAAAATTACATTTTTACCCCTAAAACTTCCAAAAATT-CA
* * * *
45225151 A-TTTT-ACCCTCG-AACTTCTAAAAATTTCATTTTTA-ACCTCAAAACTTTCAAAA
1 ATTTTTGA-CC-CGAAACTTCCAAAAATTACATTTTTACCCCT-AAAACTTCCAAAA
45225204 TTTACCATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
57 3 0.03
58 38 0.40
59 45 0.47
60 10 0.10
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (59 bp):
ATTTTTGACCCGAAACTTCCAAAAATTACATTTTTACCCCTAAAACTTCCAAAAATTCA
Found at i:45225110 original size:30 final size:29
Alignment explanation
Indices: 45224991--45225273 Score: 140
Period size: 29 Copynumber: 9.6 Consensus size: 29
45224981 CCCTAAGTTG
* * *
45224991 TCCAGAAATTATA-TTTTGACACCTAAACT
1 TCCAAAAATTACATTTTTGAC-CCGAAACT
* * *
45225020 TCTCCAAAACTATATTTTTGACCCGAAACT
1 TC-CAAAAATTACATTTTTGACCCGAAACT
*
45225050 TCCAAAAATTACATTTTT-ACCCCCAAACT
1 TCCAAAAATTACATTTTTGA-CCCGAAACT
*
45225079 TCCAAAAATT-CAATTTTTGATCTCGAAACT
1 TCCAAAAATTAC-ATTTTTGA-CCCGAAACT
* *
45225109 TCCAAAAATTATATTTTT-ACCCCTAAAACT
1 TCCAAAAATTACATTTTTGA-CCC-GAAACT
45225139 TCC-AAAATTACCA-TTTT-ACCCTCG-AACT
1 TCCAAAAATTA-CATTTTTGA-CC-CGAAACT
* * * *
45225167 TCTAAAAATTTCATTTTTAACCTCAAAACT
1 TCCAAAAATTACATTTTTGACC-CGAAACT
* *
45225197 TTCAAAATTTACCA-TTTT-ACCCTTG-AA-T
1 TCCAAAAATTA-CATTTTTGACCC--GAAACT
* * *
45225225 GTCCAAAAACTCCATTTTTGACCCTAAAACT
1 -TCCAAAAATTACATTTTTGACCC-GAAACT
**
45225256 TTTAAAAATTACCATTTT
1 TCCAAAAATTA-CATTTT
45225274 ACCCCTAGAT
Statistics
Matches: 198, Mismatches: 34, Indels: 42
0.72 0.12 0.15
Matches are distributed among these distances:
28 14 0.07
29 88 0.44
30 80 0.40
31 16 0.08
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTGACCCGAAACT
Found at i:45225217 original size:59 final size:59
Alignment explanation
Indices: 45225109--45225308 Score: 223
Period size: 59 Copynumber: 3.4 Consensus size: 59
45225099 TCTCGAAACT
* *
45225109 TCCAAAAATTAT-ATTTTT-ACCCCTAAAACTTCCAAAATTACCATTTTACCCTCGAACT-
1 TCCAAAAATT-TCATTTTTAACCTCTAAAACTTTCAAAATTACCATTTTACCCTCGAA-TG
* *
45225167 TCTAAAAATTTCATTTTTAACCTC-AAAACTTTCAAAATTTACCATTTTACCCTTGAATG
1 TCCAAAAATTTCATTTTTAACCTCTAAAACTTTCAAAA-TTACCATTTTACCCTCGAATG
* * * * *
45225226 TCCAAAAACTCCATTTTTGACC-CTAAAACTTTTAAAAATTACCATTTTACCC-CTAGATG
1 TCCAAAAATTTCATTTTTAACCTCTAAAAC-TTTCAAAATTACCATTTTACCCTCGA-ATG
45225285 TCCAAAAATTTCATTTTTGAACCT
1 TCCAAAAATTTCATTTTT-AACCT
45225309 ATTTTTCTAA
Statistics
Matches: 119, Mismatches: 14, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
57 1 0.01
58 30 0.25
59 78 0.66
60 10 0.08
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (59 bp):
TCCAAAAATTTCATTTTTAACCTCTAAAACTTTCAAAATTACCATTTTACCCTCGAATG
Found at i:45225405 original size:29 final size:29
Alignment explanation
Indices: 45225373--45225437 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
45225363 CCCTAAATTT
*
45225373 TCCAAAAACTACCATTTTGCCCCCAAGAA
1 TCCAAAAACTACCATTTTACCCCCAAGAA
* * *
45225402 TCC-AAAATTACCATTTTACCCCCGAGTA
1 TCCAAAAACTACCATTTTACCCCCAAGAA
45225430 TCCAAAAA
1 TCCAAAAA
45225438 GTCTCATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.38, C:0.32, G:0.06, T:0.23
Consensus pattern (29 bp):
TCCAAAAACTACCATTTTACCCCCAAGAA
Found at i:45230438 original size:16 final size:17
Alignment explanation
Indices: 45230417--45230450 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45230407 TCGATTGAAT
45230417 AAATTA-TCAAAAATAA
1 AAATTATTCAAAAATAA
*
45230433 AAATTATTTAAAAATAA
1 AAATTATTCAAAAATAA
45230450 A
1 A
45230451 TTGTTGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTATTCAAAAATAA
Found at i:45230501 original size:11 final size:10
Alignment explanation
Indices: 45230484--45230535 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
45230474 GGCCCAACAG
45230484 ATTTAAATTT
1 ATTTAAATTT
45230494 ATTTTAAATTT
1 A-TTTAAATTT
* *
45230505 AAGTTTATATTAA
1 -A-TTTAAATT-T
45230518 ATTTAAATTT
1 ATTTAAATTT
45230528 ATTTAAAT
1 ATTTAAAT
45230536 AATGTCCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 9 0.26
11 16 0.47
12 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:45230506 original size:17 final size:17
Alignment explanation
Indices: 45230484--45230535 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
45230474 GGCCCAACAG
45230484 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
* *
45230501 ATTTAAGTTTATATTAA
1 ATTTAAATTTATTTTAA
45230518 ATTTAAATTTA-TTTAA
1 ATTTAAATTTATTTTAA
45230534 AT
1 AT
45230536 AATGTCCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 6 0.19
17 25 0.81
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:45231288 original size:3 final size:3
Alignment explanation
Indices: 45231272--45231334 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
45231262 AATGAATCAG
* * *
45231272 TAA TAA TATT TAA TAA TAA TAA TAT TAA TTAA TAA TAC TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
* *
45231319 TAT TAA TAA TAT TAA T
1 TAA TAA TAA TAA TAA T
45231335 TTTAATAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
3 43 0.90
4 5 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:45231293 original size:16 final size:15
Alignment explanation
Indices: 45231272--45231342 Score: 71
Period size: 15 Copynumber: 5.0 Consensus size: 15
45231262 AATGAATCAG
45231272 TAATAATATTTAATAA
1 TAATAATA-TTAATAA
45231288 TAATAATATTAAT--
1 TAATAATATTAATAA
*
45231301 TAAT-A-A-TACTAA
1 TAATAATATTAATAA
45231313 TAATAATATTAATAA
1 TAATAATATTAATAA
* *
45231328 TATTAATTTTAATAA
1 TAATAATATTAATAA
45231343 AAAAGAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
10 3 0.07
11 1 0.02
12 5 0.11
13 5 0.11
14 1 0.02
15 23 0.50
16 8 0.17
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATATTAATAA
Found at i:45232563 original size:29 final size:29
Alignment explanation
Indices: 45232458--45232807 Score: 223
Period size: 29 Copynumber: 11.9 Consensus size: 29
45232448 ACCTAAATAT
*
45232458 CCCTAAACTATCCAAAAATTACATTTTTAC
1 CCCTAAACTTTCC-AAAATTACATTTTTAC
*
45232488 CCCTCAAACTTTTCAAAATT-CTATTTTTGA-
1 CCCT-AAACTTTCCAAAATTAC-ATTTTT-AC
* * * ** *
45232518 ACTTGATTTTTCAAAAATTACATTTTTAC
1 CCCTAAACTTTCCAAAATTACATTTTTAC
* * *
45232547 CCCTAAACTATCCAAAATTCCATTTTTAG
1 CCCTAAACTTTCCAAAATTACATTTTTAC
**
45232576 CCCTAATTTTTCCAAAAATTACATTTTTAC
1 CCCTAAACTTTCC-AAAATTACATTTTTAC
* * * *
45232606 CCCCAAACTTTTCAAAATTCCATTTTTAA
1 CCCTAAACTTTCCAAAATTACATTTTTAC
* **
45232635 CTCTAATTTTTCCAAAAATTACATTTTTA-
1 CCCTAAACTTTCC-AAAATTACATTTTTAC
*
45232664 CCCTCGAACTTTCCAAAATT-CTATTTTTA-
1 CCCT-AAACTTTCCAAAATTAC-ATTTTTAC
* ** *
45232693 CCTTAATTTTTCCAGAATTACCA-TTTTAC
1 CCCTAAACTTTCCAAAATTA-CATTTTTAC
* *
45232722 CCCCAAACTTTCCAAAATTCCATTTTTA-
1 CCCTAAACTTTCCAAAATTACATTTTTAC
* **
45232750 ACCTCAATTTTTTCCAAAATTACCA-TTTTAC
1 CCCT-AA-ACTTTCCAAAATTA-CATTTTTAC
* * *
45232781 CCCCAAAC-TTCTAAAAATTCCATTTTT
1 CCCTAAACTTTC-CAAAATTACATTTTT
45232808 GACTCCGATT
Statistics
Matches: 240, Mismatches: 61, Indels: 39
0.71 0.18 0.11
Matches are distributed among these distances:
28 27 0.11
29 120 0.50
30 81 0.34
31 12 0.05
ACGTcount: A:0.33, C:0.25, G:0.01, T:0.41
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAATTACATTTTTAC
Found at i:45232879 original size:60 final size:59
Alignment explanation
Indices: 45232470--45232962 Score: 421
Period size: 59 Copynumber: 8.4 Consensus size: 59
45232460 CTAAACTATC
* * * **
45232470 CAAAAATTA-CATTTTTACCCCTCAAACTTTTC-AAAATTCTATTTTTGAACTTGATTTT-T
1 CAAAAATTACCA-TTTTACCCC-CAAAC-TTCCAAAAATTCCATTTTTGACCTCAATTTTCT
* *
45232529 CAAAAATTA-CATTTTTACCCCTAAACTATCC-AAAATTCCATTTTTAGCCCT-AATTTT-T
1 CAAAAATTACCA-TTTTACCCCCAAACT-TCCAAAAATTCCATTTTT-GACCTCAATTTTCT
* *
45232587 CCAAAAATTA-CATTTTTACCCCCAAACTTTTC-AAAATTCCATTTTT-AACTCTAATTTT-T
1 -CAAAAATTACCA-TTTTACCCCCAAAC-TTCCAAAAATTCCATTTTTGACCTC-AATTTTCT
* * * *
45232646 CCAAAAATTA-CATTTTTACCCTCGAACTTTCC-AAAATTCTATTTTT-ACCTTAATTTT-T
1 -CAAAAATTACCA-TTTTACCCCCAAAC-TTCCAAAAATTCCATTTTTGACCTCAATTTTCT
* * * *
45232704 CCAGAATTACCATTTTACCCCCAAACTTTCC-AAAATTCCATTTTTAACCTCAATTTTTT
1 CAAAAATTACCATTTTACCCCCAAAC-TTCCAAAAATTCCATTTTTGACCTCAATTTTCT
* * *
45232763 CCAAAATTACCATTTTACCCCCAAACTTCTAAAAATTCCATTTTTGA-CTCCGATTTTCT
1 CAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCT-CAATTTTCT
* * *
45232822 -AAAAATTACCATTTTACCCCCCTAAACTTCCAAAAATTTCATTTATGACCTCAATTTTTT
1 CAAAAATTACCATTTTA-CCCCC-AAACTTCCAAAAATTCCATTTTTGACCTCAATTTTCT
* * * * *
45232882 CCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCTATTTTTGACCCCGATTTT-T
1 -CAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCTCAATTTTCT
* *
45232941 CCAAAAGTACCATTTTACCCCC
1 CAAAAATTACCATTTTACCCCC
45232963 GGACGACTAA
Statistics
Matches: 375, Mismatches: 43, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
57 40 0.11
58 83 0.22
59 171 0.46
60 59 0.16
61 6 0.02
62 16 0.04
ACGTcount: A:0.32, C:0.26, G:0.02, T:0.40
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCTCAATTTTCT
Found at i:45232919 original size:29 final size:29
Alignment explanation
Indices: 45232529--45232919 Score: 131
Period size: 29 Copynumber: 13.3 Consensus size: 29
45232519 CTTGATTTTT
45232529 CAAAAATTA-CATTTTTACCC-CTAAACTATC
1 CAAAAATTACCA-TTTTACCCTC-AAACT-TC
**
45232559 C-AAAATT-CCATTTTTAGCCCT-AATTTTTC
1 CAAAAATTACCA-TTTTA-CCCTCAA-ACTTC
* *
45232588 CAAAAATTA-CATTTTTACCCCCAAACTTTT
1 CAAAAATTACCA-TTTTACCCTCAAAC-TTC
* **
45232618 C-AAAATT-CCATTTTTA-ACTCTAATTTTTC
1 CAAAAATTACCA-TTTTACCCTC-AA-ACTTC
*
45232647 CAAAAATTA-CATTTTTACCCTCGAACTTTC
1 CAAAAATTACCA-TTTTACCCTCAAAC-TTC
* * **
45232677 C-AAAATT-CTATTTTTA-CCTTAATTTTTC
1 CAAAAATTACCA-TTTTACCCTCAA-ACTTC
* *
45232705 C-AGAATTACCATTTTACCCCCAAACTTTC
1 CAAAAATTACCATTTTACCCTCAAAC-TTC
* **
45232734 C-AAAATT-CCATTTTTAACCTCAATTTTTTC
1 CAAAAATTACCA-TTTTACCCTCAA--ACTTC
*
45232764 C-AAAATTACCATTTTACCCCCAAACTTC
1 CAAAAATTACCATTTTACCCTCAAACTTC
* * * **
45232792 TAAAAATT-CCATTTTTGACTC-CGATTTTC
1 CAAAAATTACCA-TTTT-ACCCTCAAACTTC
* *
45232821 TAAAAATTACCATTTTACCCCCCTAAACTTC
1 CAAAAATTACCATTTTA-CCCTC-AAACTTC
* **
45232852 CAAAAATT-TCATTTATGA-CCTCAATTTTTTC
1 CAAAAATTACCATTT-T-ACCCTCAA--ACTTC
*
45232883 CAAAAATTACCATTTTACCCTCGAACTTC
1 CAAAAATTACCATTTTACCCTCAAACTTC
45232912 CAAAAATT
1 CAAAAATT
45232920 CTATTTTTGA
Statistics
Matches: 271, Mismatches: 53, Indels: 75
0.68 0.13 0.19
Matches are distributed among these distances:
28 30 0.11
29 121 0.45
30 79 0.29
31 35 0.13
32 6 0.02
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCTCAAACTTC
Found at i:45232962 original size:29 final size:29
Alignment explanation
Indices: 45232698--45232963 Score: 96
Period size: 29 Copynumber: 9.0 Consensus size: 29
45232688 TTTTACCTTA
* * *
45232698 ATTTTTCCAGAATTACCATTTTACCCCCA
1 ATTTTTCCAAAAATACCATTTTACCCCCG
** * * * *
45232727 AACTTTCC-AAAATTCCATTTTTAACCTCA
1 ATTTTTCCAAAAATACCA-TTTTACCCCCG
*
45232756 ATTTTTTCCAAAATTACCATTTTACCCCC-
1 A-TTTTTCCAAAAATACCATTTTACCCCCG
*** * * *
45232785 AAACTTCTAAAAATTCCATTTTTGA-CTCCG
1 ATTTTTCCAAAAATACCA-TTTT-ACCCCCG
* *
45232815 A-TTTTCTAAAAATTACCATTTTACCCCCCT
1 ATTTTTCCAAAAA-TACCATTTTA-CCCCCG
*** ** * *
45232845 AAACTTCCAAAAATTTCATTTATGA-CCTCA
1 ATTTTTCCAAAAATACCATTT-T-ACCCCCG
*
45232875 ATTTTTTCCAAAAATTACCATTTTACCCTCG
1 A-TTTTTCCAAAAA-TACCATTTTACCCCCG
** * *
45232906 A-ACTTCCAAAAATTCTATTTTTGA-CCCCG
1 ATTTTTCCAAAAATACCA-TTTT-ACCCCCG
*
45232935 ATTTTTCCAAAAGTACCATTTTACCCCCG
1 ATTTTTCCAAAAATACCATTTTACCCCCG
45232964 GACGACTAAA
Statistics
Matches: 170, Mismatches: 48, Indels: 38
0.66 0.19 0.15
Matches are distributed among these distances:
28 22 0.13
29 64 0.38
30 46 0.27
31 31 0.18
32 7 0.04
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTTTTCCAAAAATACCATTTTACCCCCG
Found at i:45232985 original size:58 final size:58
Alignment explanation
Indices: 45232502--45233015 Score: 303
Period size: 59 Copynumber: 8.7 Consensus size: 58
45232492 CAAACTTTTC
* ** * ** *
45232502 AAAATTCTATTTTTGAACTTGATTTTTCAAAAATTA-CATTTTTACCCCTAAACTA-TCC
1 AAAATTCTATTTTTGACCCCGATTTTTCCAAAATTACCA-TTTTACCCCCGAACTACT-A
* ** * ** *
45232560 AAAATTCCATTTTT-AGCCCTAATTTTTCCAAAAATTA-CATTTTTACCCCCAAACTTTTC
1 AAAATTCTATTTTTGA-CCCCGATTTTTCC-AAAATTACCA-TTTTACCCCCGAACTACTA
* * * ** * * *
45232619 AAAATTCCATTTTTAACTCTAATTTTTCCAAAAATTA-CATTTTTACCCTCGAACT-TTCC
1 AAAATTCTATTTTTGACCCCGATTTTTCC-AAAATTACCA-TTTTACCCCCGAACTACT-A
*** * * * *
45232678 AAAATTCTATTTTT-ACCTTAATTTTTCCAGAATTACCATTTTACCCCCAAACT-TTCC
1 AAAATTCTATTTTTGACCCCGATTTTTCCAAAATTACCATTTTACCCCCGAACTACT-A
* * * * * *
45232735 AAAATTCCATTTTTAACCTCAATTTTTTCCAAAATTACCATTTTACCCCCAAACTTCTA
1 AAAATTCTATTTTTGACCCCGA-TTTTTCCAAAATTACCATTTTACCCCCGAACTACTA
* * * * * *
45232794 AAAATTCCATTTTTGACTCCGA-TTTTCTAAAAATTACCATTTTACCCCCCTAAACTTCCA
1 AAAATTCTATTTTTGACCCCGATTTTTC-CAAAATTACCATTTTA-CCCCC-GAACTACTA
* * * * * *
45232854 AAAATT-TCATTTATGACCTCAATTTTTTCCAAAAATTACCATTTTACCCTCGAACTTCCA
1 AAAATTCT-ATTTTTGACCCCGA-TTTTTCC-AAAATTACCATTTTACCCCCGAACTACTA
* * *
45232914 AAAATTCTATTTTTGACCCCGATTTTTCCAAAAGTACCATTTTACCCCCGGACGACTA
1 AAAATTCTATTTTTGACCCCGATTTTTCCAAAATTACCATTTTACCCCCGAACTACTA
* * * *
45232972 AAAATT-TAGTTTTTGACCCCCAACTTTCCCAAATTTACCATTTT
1 AAAATTCTA-TTTTTGA-CCCCGATTTTTCCAAAATTACCATTTT
45233016 GCCCTAAGTG
Statistics
Matches: 388, Mismatches: 49, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
57 44 0.11
58 95 0.24
59 172 0.44
60 52 0.13
61 5 0.01
62 20 0.05
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.39
Consensus pattern (58 bp):
AAAATTCTATTTTTGACCCCGATTTTTCCAAAATTACCATTTTACCCCCGAACTACTA
Found at i:45254078 original size:26 final size:28
Alignment explanation
Indices: 45254039--45254091 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
45254029 AACAATCATT
*
45254039 GCATAGTCATGAA-TAAAGCAAA-GAAAA
1 GCATAGTCAAGAATTAAA-CAAATGAAAA
45254066 GCAT-GTCAAGAATTAAACAAATGAAA
1 GCATAGTCAAGAATTAAACAAATGAAA
45254092 GAAAATCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (28 bp):
GCATAGTCAAGAATTAAACAAATGAAAA
Found at i:45259966 original size:18 final size:19
Alignment explanation
Indices: 45259933--45259973 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
45259923 CAAAAATTCT
45259933 TATAACAATATTTTTTTAAA
1 TATAACAATATTTTTTT-AA
45259953 TATAA-AAT-TTTTTTTAA
1 TATAACAATATTTTTTTAA
45259970 TATA
1 TATA
45259974 TTTAAACAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 7 0.33
19 3 0.14
20 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAACAATATTTTTTTAA
Found at i:45266473 original size:12 final size:12
Alignment explanation
Indices: 45266456--45266481 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45266446 GTCCATCAAC
45266456 ATCAAGATAAAG
1 ATCAAGATAAAG
45266468 ATCAAGATAAAG
1 ATCAAGATAAAG
45266480 AT
1 AT
45266482 AAGGTTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (12 bp):
ATCAAGATAAAG
Found at i:45268480 original size:23 final size:22
Alignment explanation
Indices: 45268454--45268591 Score: 118
Period size: 23 Copynumber: 5.9 Consensus size: 22
45268444 TTACCGTTCA
*
45268454 GCACTGTGTGTGCTTACTGTTTC
1 GCACT-TGTGTGCCTACTGTTTC
45268477 GCACTTTGTGTGCCTACTGTTTC
1 GCAC-TTGTGTGCCTACTGTTTC
45268500 GCACTTCGTGTGCCTACTGATTT-
1 GCACTT-GTGTGCCTACTG-TTTC
* * *
45268523 GCGCTATGTGCGCCTACTGATT-
1 GCACT-TGTGTGCCTACTGTTTC
*
45268545 GCACTGTGTGTGCTTACTGTTTCCCC
1 GCACT-TGTGTGCCTACTGTTT---C
*
45268571 AGCACTTGTGTGCTTACTGTT
1 -GCACTTGTGTGCCTACTGTT
45268592 AAGTACTTCG
Statistics
Matches: 97, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
22 21 0.22
23 51 0.53
24 5 0.05
26 15 0.15
27 5 0.05
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (22 bp):
GCACTTGTGTGCCTACTGTTTC
Found at i:45268538 original size:46 final size:45
Alignment explanation
Indices: 45268454--45268567 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 45
45268444 TTACCGTTCA
* * *
45268454 GCACTGTGTGTGCTTACTGTTTCGCACTTTGTGTGCCTACTGTTT
1 GCACTGTGTGTGCTTACTGTTTCGCACTATGTGCGCCTACTGATT
* *
45268499 CGCACT-TCGTGTGCCTACTGATTT-GCGCTATGTGCGCCTACTGATT
1 -GCACTGT-GTGTGCTTACTG-TTTCGCACTATGTGCGCCTACTGATT
45268545 GCACTGTGTGTGCTTACTGTTTC
1 GCACTGTGTGTGCTTACTGTTTC
45268568 CCCAGCACTT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
44 3 0.05
45 17 0.29
46 35 0.60
47 3 0.05
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.40
Consensus pattern (45 bp):
GCACTGTGTGTGCTTACTGTTTCGCACTATGTGCGCCTACTGATT
Found at i:45283271 original size:61 final size:61
Alignment explanation
Indices: 45283203--45283323 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 61
45283193 ATTTCACAAT
* * *
45283203 GTTTTGTAATATCAGTTCTTGATATTCTTTAAGAGCGTGAAATTCAATTTG-TATATATTAG
1 GTTTTGTAATATCAGTTCTTGATATTATTTAAGAGCATGAAACTCAATTTGATA-ATATTAG
* *
45283264 GTTTTGTAATATCAGTTCTTGATGTTATTTAAGAGTATGAAACTCAATTTGATAATATTA
1 GTTTTGTAATATCAGTTCTTGATATTATTTAAGAGCATGAAACTCAATTTGATAATATTA
45283324 TTAATTTGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 52 0.96
62 2 0.04
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (61 bp):
GTTTTGTAATATCAGTTCTTGATATTATTTAAGAGCATGAAACTCAATTTGATAATATTAG
Found at i:45290005 original size:43 final size:43
Alignment explanation
Indices: 45289930--45290018 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 43
45289920 ACTATCGACA
* *
45289930 TTGAGGTGAGCTTAATTTCGAACAATTGTTTTACCTTTAACGT
1 TTGAGGTGAGCTTAATTTCGAACAATTATTTTAACTTTAACGT
* ** *
45289973 TTGAGGTGAGCTTAATTTTGAATGATTATTTTAACTTTAATGT
1 TTGAGGTGAGCTTAATTTCGAACAATTATTTTAACTTTAACGT
45290016 TTG
1 TTG
45290019 CATAATTCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (43 bp):
TTGAGGTGAGCTTAATTTCGAACAATTATTTTAACTTTAACGT
Found at i:45290542 original size:21 final size:20
Alignment explanation
Indices: 45290518--45290574 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 20
45290508 CCCGTGATAG
*
45290518 TTCTACGAGTACAAGGGAGAC
1 TTCTACGA-AACAAGGGAGAC
45290539 TTCTATCGAAACAAGGGAGAC
1 TTCTA-CGAAACAAGGGAGAC
45290560 TTCTACCGAAACAAG
1 TTCTA-CGAAACAAG
45290575 TCATGCTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 30 0.91
22 3 0.09
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (20 bp):
TTCTACGAAACAAGGGAGAC
Found at i:45295964 original size:13 final size:12
Alignment explanation
Indices: 45295903--45295975 Score: 60
Period size: 13 Copynumber: 6.0 Consensus size: 12
45295893 TATATATTAG
*
45295903 TTAATAATAATA
1 TTAATTATAATA
*
45295915 ATAA-TATAATA
1 TTAATTATAATA
*
45295926 CTAATTA-AATA
1 TTAATTATAATA
* *
45295937 ATAATTTATATTA
1 TTAA-TTATAATA
45295950 TTATATTATAATA
1 TTA-ATTATAATA
45295963 TTAATTAATAATA
1 TTAATT-ATAATA
45295976 AATTAAATTC
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 16 0.33
12 11 0.22
13 21 0.43
14 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAATTATAATA
Found at i:45300578 original size:14 final size:14
Alignment explanation
Indices: 45300559--45300595 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
45300549 TATATTAGTT
45300559 AATAATAATAATAA
1 AATAATAATAATAA
* *
45300573 AATAATACTAATTA
1 AATAATAATAATAA
45300587 AATAATAAT
1 AATAATAAT
45300596 TTATATTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:45302677 original size:43 final size:42
Alignment explanation
Indices: 45302578--45302977 Score: 437
Period size: 43 Copynumber: 9.3 Consensus size: 42
45302568 TTATGAGGAA
* * *
45302578 AAACGCCGTTATAA-AACATGATCTTTAGCGGCGCTTAT-CCAC
1 AAACGCCGCTA-AAGAACATGGTCTTTAGCGACGCTT-TCCCAC
*
45302620 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTT-TCCCAC
*
45302663 AAACGCCGCTAAAGAACATGGTTTTTAGCGACGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTT-CCCAC
* * * * **
45302706 AAACACCGCTAAAAAACATGATCTTTAGCGGCGCTTTACTTAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTT-CCCAC
* * *
45302749 AAATGCCGCTAAAGAACATAGTCTTTAGCGACGCTTCTCCAAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTT-TCCCAC
* * *
45302792 GAACACCGTTAAAGAACATGGTCTTTAGCGACGCTTCTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTT-TCCCAC
45302835 AAACGCCGCTAAAGAACATGGTCTTTTAGCGACGCTTTCCCAAC
1 AAACGCCGCTAAAGAACATGGTC-TTTAGCGACGCTTTCCC-AC
* *
45302879 AAACGTCGCTAAAGAACATGGTTTTTAGCGACGCTTTCCCAAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTCCC-AC
* * * * *
45302922 AAACGCTGGTTAAA-AACATAGTCTTTAGCGGCACTTCTCCCAC
1 AAACGC-CGCTAAAGAACATGGTCTTTAGCGACGCTT-TCCCAC
* *
45302965 AAACACCACTAAA
1 AAACGCCGCTAAA
45302978 ATTAATAAAT
Statistics
Matches: 307, Mismatches: 43, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 37 0.12
43 222 0.72
44 46 0.15
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTCCCAC
Found at i:45302766 original size:129 final size:129
Alignment explanation
Indices: 45302590--45302978 Score: 491
Period size: 129 Copynumber: 3.0 Consensus size: 129
45302580 ACGCCGTTAT
* *
45302590 AAAACATGATCTTTAGCGGCGC-TTA-TCCACAAACGCCGCTAAAGAACATGGTCTTTAGCGGCG
1 AAAACATGATCTTTAGCGGCGCTTTACT-AACAAACGCCGCTAAAGAACATGGTCTTTAGCGACG
* *
45302653 CTTCTCCCACAAACGCCGCTAAAGAACATGGTTTTTAGCGACGCTT-TCCCCACAAACACCGCTA
65 CTTCTCCCACAAACGCCGTTAAAGAACATGGTCTTTAGCGACGCTTCT-CCCACAAACACCGCTA
45302717 A
129 A
* * *
45302718 AAAACATGATCTTTAGCGGCGCTTTACTTACAAATGCCGCTAAAGAACATAGTCTTTAGCGACGC
1 AAAACATGATCTTTAGCGGCGCTTTACTAACAAACGCCGCTAAAGAACATGGTCTTTAGCGACGC
* * * *
45302783 TTCTCCAACGAACACCGTTAAAGAACATGGTCTTTAGCGACGCTTCTCCCACAAACGCCGCTAA
66 TTCTCCCACAAACGCCGTTAAAGAACATGGTCTTTAGCGACGCTTCTCCCACAAACACCGCTAA
* * * * * * *
45302847 AGAACATGGTCTTTTAGCGACGCTTTCCCAACAAACGTCGCTAAAGAACATGGTTTTTAGCGACG
1 AAAACATGATC-TTTAGCGGCGCTTTACTAACAAACGCCGCTAAAGAACATGGTCTTTAGCGACG
* * * * *
45302912 CTT-TCCCAACAAACGCTGGTTAAA-AACATAGTCTTTAGCGGCACTTCTCCCACAAACACCACT
65 CTTCTCCC-ACAAACGC-CGTTAAAGAACATGGTCTTTAGCGACGCTTCTCCCACAAACACCGCT
45302975 AA
128 AA
45302977 AA
1 AA
45302979 TTAATAAATT
Statistics
Matches: 225, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
128 22 0.10
129 104 0.46
130 93 0.41
131 6 0.03
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (129 bp):
AAAACATGATCTTTAGCGGCGCTTTACTAACAAACGCCGCTAAAGAACATGGTCTTTAGCGACGC
TTCTCCCACAAACGCCGTTAAAGAACATGGTCTTTAGCGACGCTTCTCCCACAAACACCGCTAA
Found at i:45305272 original size:17 final size:17
Alignment explanation
Indices: 45305216--45305274 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
45305206 TAAAACCAAT
45305216 TTTTTAGTTTATATAAG
1 TTTTTAGTTTATATAAG
* * *
45305233 TTTTAAAATTTA-ATAATTT
1 TTTT-TAGTTTATATAA--G
45305252 TTTTTAGTTTATATAAG
1 TTTTTAGTTTATATAAG
45305269 TTTTTA
1 TTTTTA
45305275 AATAATTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 14 0.44
18 10 0.31
19 8 0.25
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (17 bp):
TTTTTAGTTTATATAAG
Found at i:45305385 original size:40 final size:41
Alignment explanation
Indices: 45305341--45305420 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
45305331 TTAACGACGC
* ** *
45305341 TTATGAAAAAATGCCGCT-ATTGTTTAACCTTTAGCGGCGT
1 TTATGAAAAAACGCCGCTAATACTCTAACCTTTAGCGGCGT
* *
45305381 TTATGATAAAGCGCCGCTAATACTCTAACCTTTAGCGGCG
1 TTATGAAAAAACGCCGCTAATACTCTAACCTTTAGCGGCG
45305421 CTTTCTCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
40 15 0.45
41 18 0.55
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
TTATGAAAAAACGCCGCTAATACTCTAACCTTTAGCGGCGT
Found at i:45311596 original size:24 final size:24
Alignment explanation
Indices: 45311563--45311609 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
45311553 AAAAATAATC
*
45311563 TTTCAGTTAAACTCTATTTATTTA
1 TTTCAATTAAACTCTATTTATTTA
*
45311587 TTTCAATTAAACTCTGTTTATTT
1 TTTCAATTAAACTCTATTTATTT
45311610 GTTTGAGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTA
Found at i:45311622 original size:24 final size:24
Alignment explanation
Indices: 45311571--45311625 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
45311561 TCTTTCAGTT
*
45311571 AAACTCTATTTATTTATTTCAATT
1 AAACTCTATTTATTTATTTCAATC
* * * *
45311595 AAACTCTGTTTATTTGTTTGAGTC
1 AAACTCTATTTATTTATTTCAATC
45311619 AAACTCT
1 AAACTCT
45311626 TATTACTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (24 bp):
AAACTCTATTTATTTATTTCAATC
Found at i:45313994 original size:44 final size:44
Alignment explanation
Indices: 45313931--45314016 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
45313921 ATCGCCAACA
45313931 CTATGAGACTCCCAAACAAGCTATAAGCTGAAGGAGGAGTATCT
1 CTATGAGACTCCCAAACAAGCTATAAGCTGAAGGAGGAGTATCT
*
45313975 CTATGAGACTCCCAAACAAGTTATAAGCTGAAGGAGGAGTAT
1 CTATGAGACTCCCAAACAAGCTATAAGCTGAAGGAGGAGTAT
45314017 ATGTGAGTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (44 bp):
CTATGAGACTCCCAAACAAGCTATAAGCTGAAGGAGGAGTATCT
Found at i:45314159 original size:26 final size:26
Alignment explanation
Indices: 45314130--45314236 Score: 88
Period size: 26 Copynumber: 3.8 Consensus size: 26
45314120 GAGAATATTG
*
45314130 AAGACAGCAAGCAAAGTGTGAGCCTA
1 AAGACAGCAAGCAAAGTGCGAGCCTA
*
45314156 AAGACAGTAAGCAAAGTGCGAGCCTATCA
1 AAGACAGCAAGCAAAGTGCGAGCC--T-A
** * *
45314185 AAGACAATAAGCCAAAGTGCGGGCCTGTTG
1 AAGACAGCAAG-CAAAGTGCGAGCC---TA
*
45314215 AAGACAACAAGCAAAGTGCGAG
1 AAGACAGCAAGCAAAGTGCGAG
45314237 TCTGTCAAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 22 0.33
28 1 0.01
29 21 0.31
30 22 0.33
31 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.12
Consensus pattern (26 bp):
AAGACAGCAAGCAAAGTGCGAGCCTA
Found at i:45314203 original size:30 final size:29
Alignment explanation
Indices: 45314138--45314246 Score: 116
Period size: 29 Copynumber: 3.8 Consensus size: 29
45314128 TGAAGACAGC
* *
45314138 AAGCAAAGTGTGAGCC--T-AAAGACAGT
1 AAGCAAAGTGCGAGCCTGTCAAAGACAAT
*
45314164 AAGCAAAGTGCGAGCCTATCAAAGACAAT
1 AAGCAAAGTGCGAGCCTGTCAAAGACAAT
* ** *
45314193 AAGCCAAAGTGCGGGCCTGTTGAAGACAAC
1 AAG-CAAAGTGCGAGCCTGTCAAAGACAAT
*
45314223 AAGCAAAGTGCGAGTCTGTCAAAG
1 AAGCAAAGTGCGAGCCTGTCAAAG
45314247 TGTGAGCCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 15 0.22
28 1 0.01
29 28 0.41
30 24 0.35
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.15
Consensus pattern (29 bp):
AAGCAAAGTGCGAGCCTGTCAAAGACAAT
Found at i:45314368 original size:44 final size:44
Alignment explanation
Indices: 45314283--45314369 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
45314273 GGTGGCGGAC
* * **
45314283 AGTCTAAATGCAAACCCGAGTGGGTGCAGGCCGATGCGGCAAAT
1 AGTCTAAATGCAAACCCGAGTGGGTGCAAGCCAAAACGGCAAAT
* *
45314327 AGTCTAAATGCAAGA-TCGAGTGGGTGCAAGCCAAAATGGCAAA
1 AGTCTAAATGCAA-ACCCGAGTGGGTGCAAGCCAAAACGGCAAA
45314370 CTGAAGGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
44 35 0.97
45 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.30, T:0.16
Consensus pattern (44 bp):
AGTCTAAATGCAAACCCGAGTGGGTGCAAGCCAAAACGGCAAAT
Found at i:45317069 original size:16 final size:16
Alignment explanation
Indices: 45317048--45317080 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45317038 AGGTAGCAAG
*
45317048 CAAAGTGTGAGTCTGT
1 CAAAGTGTGAGCCTGT
45317064 CAAAGTGTGAGCCTGT
1 CAAAGTGTGAGCCTGT
45317080 C
1 C
45317081 GAATTGCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (16 bp):
CAAAGTGTGAGCCTGT
Found at i:45317148 original size:44 final size:44
Alignment explanation
Indices: 45317085--45317183 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 44
45317075 CCTGTCGAAT
* * *
45317085 TGCAAGCCGAGGTGGCGGACGGTCTAAATGCAA-ACCCGAGTGGG
1 TGCAAGCCAAAGTGGCGGACAGTCTAAATGCAAGA-CCGAGTGGG
*
45317129 TGCAAGCCAAAGTGGCGGACAGTCTAAATGCAAGATCGAGTGGG
1 TGCAAGCCAAAGTGGCGGACAGTCTAAATGCAAGACCGAGTGGG
45317173 TGCAAGCCAAA
1 TGCAAGCCAAA
45317184 ATCGTAAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 49 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.34, T:0.14
Consensus pattern (44 bp):
TGCAAGCCAAAGTGGCGGACAGTCTAAATGCAAGACCGAGTGGG
Found at i:45318510 original size:37 final size:37
Alignment explanation
Indices: 45318469--45318553 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
45318459 ATCGTTCGAA
*
45318469 ATTAAGCTAATTTCCGAGACGATAGAAACTATTCAGG
1 ATTAAGCTAATTTCCAAGACGATAGAAACTATTCAGG
45318506 ATTAAGCTAATTTCCAAGACGATAGAAACTATTCAGG
1 ATTAAGCTAATTTCCAAGACGATAGAAACTATTCAGG
* *
45318543 ACTATGCTAAT
1 ATTAAGCTAAT
45318554 ATAATAAAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (37 bp):
ATTAAGCTAATTTCCAAGACGATAGAAACTATTCAGG
Found at i:45319836 original size:20 final size:20
Alignment explanation
Indices: 45319813--45319852 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45319803 AAATAATAAA
45319813 AAATAATATAAT-ATAAAATT
1 AAATAA-ATAATAATAAAATT
*
45319833 AAATAAGTAATAATAAAATT
1 AAATAAATAATAATAAAATT
45319853 TTATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATAAATAATAATAAAATT
Found at i:45322504 original size:45 final size:45
Alignment explanation
Indices: 45322440--45322530 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
45322430 GACGATCAAA
45322440 GATATGAAGGAAACTAGTCATGCATCCCATTTGTTTCCCTATTTG
1 GATATGAAGGAAACTAGTCATGCATCCCATTTGTTTCCCTATTTG
45322485 GATATGAAGGAAACTAGTCATGCATCCCATTTGTTTCCCTATTTG
1 GATATGAAGGAAACTAGTCATGCATCCCATTTGTTTCCCTATTTG
45322530 G
1 G
45322531 TTATCAAGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (45 bp):
GATATGAAGGAAACTAGTCATGCATCCCATTTGTTTCCCTATTTG
Found at i:45323381 original size:22 final size:22
Alignment explanation
Indices: 45323353--45323395 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45323343 TTGGGTCTTT
45323353 GGTTTT-AATTAAATTTTAAATG
1 GGTTTTAAATT-AATTTTAAATG
*
45323375 GGTTTTAAATTTATTTTAAAT
1 GGTTTTAAATTAATTTTAAAT
45323396 TTAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
GGTTTTAAATTAATTTTAAATG
Found at i:45323387 original size:28 final size:27
Alignment explanation
Indices: 45323356--45323416 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
45323346 GGTCTTTGGT
*
45323356 TTTAATTAAATTTTAAATGGGTTTTAAA
1 TTTAATTAAA-TTTAAATGGATTTTAAA
* **
45323384 TTTATTTTAAATTTAAATTTATTTTAAA
1 TTTA-ATTAAATTTAAATGGATTTTAAA
45323412 TTTAA
1 TTTAA
45323417 ATTCACTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (27 bp):
TTTAATTAAATTTAAATGGATTTTAAA
Found at i:45323398 original size:6 final size:6
Alignment explanation
Indices: 45323378--45323453 Score: 59
Period size: 6 Copynumber: 12.8 Consensus size: 6
45323368 TTAAATGGGT
* * * *
45323378 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTCACTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
* *
45323426 TTTAAA TTT-AC TTTAAA TTTAAG TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
45323454 TCAAATTTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
5 12 0.22
6 38 0.70
8 4 0.07
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:45323398 original size:17 final size:17
Alignment explanation
Indices: 45323378--45323452 Score: 93
Period size: 17 Copynumber: 4.6 Consensus size: 17
45323368 TTAAATGGGT
45323378 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
45323395 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
45323412 TTTAAATTCA-CTT--A
1 TTTAAATTTATTTTAAA
*
45323426 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
*
45323443 TTTAAGTTTA
1 TTTAAATTTA
45323453 ATCAAATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
14 10 0.20
15 2 0.04
16 2 0.04
17 36 0.72
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:45324198 original size:16 final size:16
Alignment explanation
Indices: 45324174--45324204 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45324164 ATACTTATTG
45324174 TTATCATTATTATTTA
1 TTATCATTATTATTTA
*
45324190 TTATTATTATTATTT
1 TTATCATTATTATTT
45324205 CTGACTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATCATTATTATTTA
Found at i:45325212 original size:162 final size:162
Alignment explanation
Indices: 45325044--45325542 Score: 788
Period size: 162 Copynumber: 3.1 Consensus size: 162
45325034 AGTTTTCAAT
* *
45325044 TTAGTCCTTTGACTATTTGACTGTACCAGAGGCTACCACGTGTCATTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATTTTTTGGCTTATTTATGTA
45325109 TCTAGTCCCTCTTATTTTTAATTTGTCTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
66 TCTAGTCCCTCTTATTTTTAATTTGTCTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
*
45325174 AATTGGCAAAAGAATTTTTCAAGATTTATAAA
131 AATTGGCCAAAGAATTTTTCAAGATTTATAAA
45325206 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATTTTTTGGCTTATTTATGTA
* * *
45325271 TCTAATCCCTGTTATTTTTAATTTGTCTTAATTTAATCCTTAAATCAACTTTTATTTAATTGCAA
66 TCTAGTCCCTCTTATTTTTAATTTGTCTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
*
45325336 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
131 AATTGGCCAAAGAATTTTTCAAGATTTATAAA
* * *
45325368 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTC-TTTTTTGGTTTATTTATATA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATTTTTTGGCTTATTTATGTA
* * * * *
45325432 TCTAGTCCCTGC-CATTTTTAATTTGTTTTAATTTAATCTTTAAATCAACCTTTAATTAATTACA
66 TCTAGTCCCT-CTTATTTTTAATTTGTCTTAATTTAATCCTTAAATCAACTTTTATTTAATTACA
** * *
45325496 AAATTGGCCCAAA-TTTTTTTTAAGATTTACAAA
130 AAATTGG-CCAAAGAATTTTTCAAGATTTATAAA
45325529 TTAGTCCTTTGACT
1 TTAGTCCTTTGACT
45325543 TCTGGATGCC
Statistics
Matches: 312, Mismatches: 23, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
161 110 0.35
162 202 0.65
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.44
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCATTTTTTGGCTTATTTATGTA
TCTAGTCCCTCTTATTTTTAATTTGTCTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
AATTGGCCAAAGAATTTTTCAAGATTTATAAA
Found at i:45325893 original size:29 final size:27
Alignment explanation
Indices: 45325617--45325894 Score: 124
Period size: 29 Copynumber: 9.6 Consensus size: 27
45325607 GGACAGTTCG
*
45325617 AAAATTACCA-TTTTACCCCGTACTTTCC
1 AAAATT-CCATTTTTACCCC-AACTTTCC
* *
45325645 AAAATTCCATTTTAAACCCC-ATTTTCACC
1 AAAATTCCATTTT-TACCCCAACTTT--CC
*
45325674 AAAAATTACCA-TTTTACCCCCGAACTTTCG
1 -AAAATT-CCATTTTTA-CCCC-AACTTTCC
* * *
45325704 AAAATTCCATTTTAACCTCGA-TTTCACC
1 AAAATTCCATTTTTACCCCAACTTT--CC
45325732 AAAAATTACCA-TTTTACCCCCGAACTTTCC
1 -AAAATT-CCATTTTTA-CCCC-AACTTTCC
* * *
45325762 AAAATCCCATTTTTAATCCCGA-TTTCACC
1 AAAATTCCATTTTT-ACCCCAACTTT--CC
45325791 AAAAATTACCA-TTTTACCCCCGAACTTTCC
1 -AAAATT-CCATTTTTA-CCCC-AACTTTCC
*
45325821 AAAATTCCATTTTTAACCCCGA-TTTCACC
1 AAAATTCCATTTTT-ACCCCAACTTT--CC
45325850 AAAAATTACCA-TTTTACCCCTAAACTTTCC
1 -AAAATT-CCATTTTTACCCC--AACTTTCC
*
45325880 AAAATTCAATTTTTA
1 AAAATTCCATTTTTA
45325895 GCCTCGATTT
Statistics
Matches: 193, Mismatches: 21, Indels: 71
0.68 0.07 0.25
Matches are distributed among these distances:
26 3 0.02
27 14 0.07
28 26 0.13
29 75 0.39
30 50 0.26
31 12 0.06
32 13 0.07
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAATTCCATTTTTACCCCAACTTTCC
Found at i:45325893 original size:59 final size:59
Alignment explanation
Indices: 45325617--45325911 Score: 452
Period size: 59 Copynumber: 5.0 Consensus size: 59
45325607 GGACAGTTCG
* *
45325617 AAAATTACCATTTTA-CCCCGTACTTTCCAAAATTCCATTTTAAACCCC-ATTTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACCA
* *
45325675 AAAATTACCATTTTACCCCCGAACTTTCGAAAATTCCA-TTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
45325733 AAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAATCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
45325792 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
** * * * *
45325851 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCAATTTTTAGCCTCGATTTCGCCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
45325910 AA
1 AA
45325912 GTTTCCAAAA
Statistics
Matches: 218, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
58 67 0.31
59 151 0.69
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:45325949 original size:38 final size:38
Alignment explanation
Indices: 45325875--45325949 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 38
45325865 ACCCCTAAAC
** * * **
45325875 TTTCCAAAATTCAATTTTTAGCCTCGATTTCGCCAAAG
1 TTTCCAAAATTCAATTACTAACCCCGATTTAACCAAAG
*
45325913 TTTCCAAAATTCCATTACTAACCCCGATTTAACCAAA
1 TTTCCAAAATTCAATTACTAACCCCGATTTAACCAAA
45325950 ATTACCATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (38 bp):
TTTCCAAAATTCAATTACTAACCCCGATTTAACCAAAG
Found at i:45326003 original size:28 final size:28
Alignment explanation
Indices: 45325915--45326006 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
45325905 CGCCAAAGTT
* *
45325915 TCCAAAATT-CCATTACTAACCCCGATTTA
1 TCCAAAATTACCATT-TTACCCCCGA-TTA
* * * **
45325944 ACCAAAATTACCATTTTGCCTCCGCA-CG
1 TCCAAAATTACCATTTTACCCCCG-ATTA
45325972 TCCAAAATTACCATTTTACCCCCGATTA
1 TCCAAAATTACCATTTTACCCCCGATTA
45326000 TCCAAAA
1 TCCAAAA
45326007 GTCCCGTTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
27 1 0.02
28 28 0.58
29 13 0.27
30 6 0.12
ACGTcount: A:0.34, C:0.33, G:0.05, T:0.28
Consensus pattern (28 bp):
TCCAAAATTACCATTTTACCCCCGATTA
Found at i:45329280 original size:6 final size:7
Alignment explanation
Indices: 45329258--45329282 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45329248 ACCCACGCCG
45329258 CCCATCC
1 CCCATCC
45329265 CCCATCC
1 CCCATCC
45329272 CCCATCC
1 CCCATCC
45329279 CCCA
1 CCCA
45329283 AACCCCAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.72, G:0.00, T:0.12
Consensus pattern (7 bp):
CCCATCC
Found at i:45330832 original size:26 final size:28
Alignment explanation
Indices: 45330795--45330847 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
45330785 AACAATCATT
*
45330795 GCATAGTCATGAATTAAGCAAA-GAAAA
1 GCATAGTCATGAATTAAACAAATGAAAA
45330822 GCAT-GTCATGAATTAAACAAATGAAA
1 GCATAGTCATGAATTAAACAAATGAAA
45330848 GAAAATCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (28 bp):
GCATAGTCATGAATTAAACAAATGAAAA
Found at i:45334547 original size:237 final size:237
Alignment explanation
Indices: 45334132--45334606 Score: 932
Period size: 237 Copynumber: 2.0 Consensus size: 237
45334122 CAATTAGAGA
45334132 ACATAGCAAATAGAATATCAGTTTTTCAGATCAATAAATCAATGTAGCATTTCAGAATTTTCAGC
1 ACATAGCAAATAGAATATCAGTTTTTCAGATCAATAAATCAATGTAGCATTTCAGAATTTTCAGC
45334197 TTGCTTGAACATGCTTAAATATAGTAATGCAATTCAGTTTATTAGAAAAGATACTACTCAACTCC
66 TTGCTTGAACATGCTTAAATATAGTAATGCAATTCAGTTTATTAGAAAAGATACTACTCAACTCC
*
45334262 GCTACACACCACATTAACAGTTCCCCATAGCTCATTCATCCCTACACACCGCGTTGTGGATAAAT
131 GCCACACACCACATTAACAGTTCCCCATAGCTCATTCATCCCTACACACCGCGTTGTGGATAAAT
45334327 CACCAGTAATTTGCAGATAAATTGCTAGTAAAAATTGTGGGT
196 CACCAGTAATTTGCAGATAAATTGCTAGTAAAAATTGTGGGT
45334369 ACATAGCAAATAGAATATCAGTTTTTCAGATCAATAAATCAATGTAGCATTTCAGAATTTTCAGC
1 ACATAGCAAATAGAATATCAGTTTTTCAGATCAATAAATCAATGTAGCATTTCAGAATTTTCAGC
*
45334434 TTGCTTGAACATGCTTAGATATAGTAATGCAATTCAGTTTATTAGAAAAGATACTACTCAACTCC
66 TTGCTTGAACATGCTTAAATATAGTAATGCAATTCAGTTTATTAGAAAAGATACTACTCAACTCC
45334499 GCCACACACCACATTAACAGTTCCCCATAGCTCATTCATCCCTACACACCGCGTTGTGGATAAAT
131 GCCACACACCACATTAACAGTTCCCCATAGCTCATTCATCCCTACACACCGCGTTGTGGATAAAT
45334564 CACCAGTAATTTGCAGATAAATTGCTAGTAAAAATTGTGGGT
196 CACCAGTAATTTGCAGATAAATTGCTAGTAAAAATTGTGGGT
45334606 A
1 A
45334607 AACCACCATT
Statistics
Matches: 236, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
237 236 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (237 bp):
ACATAGCAAATAGAATATCAGTTTTTCAGATCAATAAATCAATGTAGCATTTCAGAATTTTCAGC
TTGCTTGAACATGCTTAAATATAGTAATGCAATTCAGTTTATTAGAAAAGATACTACTCAACTCC
GCCACACACCACATTAACAGTTCCCCATAGCTCATTCATCCCTACACACCGCGTTGTGGATAAAT
CACCAGTAATTTGCAGATAAATTGCTAGTAAAAATTGTGGGT
Found at i:45348194 original size:16 final size:17
Alignment explanation
Indices: 45348169--45348200 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45348159 TATAATTTTA
45348169 TAAATAAATAAAATTTG
1 TAAATAAATAAAATTTG
45348186 TAAAT-AATAAAATTT
1 TAAATAAATAAAATTT
45348201 AAACAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAATAAATAAAATTTG
Found at i:45357086 original size:17 final size:18
Alignment explanation
Indices: 45357047--45357086 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
45357037 TCCGCAAATG
45357047 ATAAAA-CAAAAACACAA
1 ATAAAACCAAAAACACAA
*
45357064 AT-AAACCAAAAACA-AT
1 ATAAAACCAAAAACACAA
45357080 ATAAAAC
1 ATAAAAC
45357087 AACACATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.10
Consensus pattern (18 bp):
ATAAAACCAAAAACACAA
Found at i:45358453 original size:23 final size:23
Alignment explanation
Indices: 45358399--45358453 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
45358389 TGACGTGGCA
45358399 TCTAGTCAGCAACTTCTAGAAGG
1 TCTAGTCAGCAACTTCTAGAAGG
* *
45358422 TCCAATCAGCAACTTCTAGAAGG
1 TCTAGTCAGCAACTTCTAGAAGG
45358445 TCTAGTCAG
1 TCTAGTCAG
45358454 TAAGGACGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (23 bp):
TCTAGTCAGCAACTTCTAGAAGG
Found at i:45360367 original size:19 final size:20
Alignment explanation
Indices: 45360340--45360381 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
45360330 TTCCAAGGAA
*
45360340 GTGTTTGATATAGAC-TTAT
1 GTGTCTGATATAGACTTTAT
45360359 GTGTCTGATATAGACTTTAT
1 GTGTCTGATATAGACTTTAT
45360379 GTG
1 GTG
45360382 GGAAGGGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (20 bp):
GTGTCTGATATAGACTTTAT
Found at i:45364813 original size:28 final size:28
Alignment explanation
Indices: 45364782--45364836 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
45364772 AATAGCATAA
*
45364782 TACA-AATATAAAGTTTAAAAATTCAAAT
1 TACATAATATAAAG-ATAAAAATTCAAAT
* *
45364810 TACATAATCTAAAGATAAAATTTCAAA
1 TACATAATATAAAGATAAAAATTCAAA
45364837 AGAATACAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (28 bp):
TACATAATATAAAGATAAAAATTCAAAT
Found at i:45369022 original size:20 final size:20
Alignment explanation
Indices: 45368999--45369051 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
45368989 AAATAATAAA
45368999 AAATAATATAAT-ATAAAATT
1 AAATAAT-TAATAATAAAATT
45369019 AAATAATTAATAATAAAATT
1 AAATAATTAATAATAAAATT
**
45369039 TTATAATT-ATAAT
1 AAATAATTAATAAT
45369052 TGTAAGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATAATTAATAATAAAATT
Found at i:45382020 original size:17 final size:16
Alignment explanation
Indices: 45382000--45382090 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 16
45381990 TGCTTTGAAA
45382000 TTAAATTTATGCTAAAT
1 TTAAATTTAT-CTAAAT
45382017 TTAAATTTATTTCT-AAT
1 TTAAATTTA--TCTAAAT
* *
45382034 TTAAATTTAATTTAATT
1 TTAAATTT-ATCTAAAT
45382051 TTAAATTTAATCTAAAT
1 TTAAATTT-ATCTAAAT
*
45382068 TT-AATATTATTGTAAAT
1 TTAAAT-TTA-TCTAAAT
45382085 TTAAAT
1 TTAAAT
45382091 GTCCCTTTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
16 6 0.10
17 49 0.79
18 6 0.10
19 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (16 bp):
TTAAATTTATCTAAAT
Found at i:45382023 original size:6 final size:6
Alignment explanation
Indices: 45382012--45382071 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
45382002 AAATTTATGC
* *
45382012 TAAATT TAAATT T--ATT TCTAATT TAAATT T-AATT TAATTT TAAATT
1 TAAATT TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT TAAATT
*
45382058 T-AATC TAAATT TAA
1 TAAATT TAAATT TAA
45382072 TATTATTGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.09
5 9 0.20
6 27 0.61
7 4 0.09
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (6 bp):
TAAATT
Found at i:45382038 original size:34 final size:33
Alignment explanation
Indices: 45382000--45382090 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 33
45381990 TGCTTTGAAA
*
45382000 TTAAATTTATGCTAAATTTAAATTTATTTCT-AAT
1 TTAAATTTATG-TAAATTTAAATTTA-ATCTAAAT
* *
45382034 TTAAATTTAATTTAATTTTAAATTTAATCTAAAT
1 TTAAATTT-ATGTAAATTTAAATTTAATCTAAAT
45382068 TT-AATATTATTGTAAATTTAAAT
1 TTAAAT-TTA-TGTAAATTTAAAT
45382091 GTCCCTTTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
33 7 0.15
34 39 0.81
35 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (33 bp):
TTAAATTTATGTAAATTTAAATTTAATCTAAAT
Found at i:45382044 original size:11 final size:11
Alignment explanation
Indices: 45382014--45382072 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
45382004 ATTTATGCTA
45382014 AATTTAAATTT
1 AATTTAAATTT
*
45382025 -ATTTCTAATTT
1 AATTT-AAATTT
45382036 AAATTT-AATTT
1 -AATTTAAATTT
45382047 AATTTTAAATTT
1 AA-TTTAAATTT
*
45382059 AATCTAAATTT
1 AATTTAAATTT
45382070 AAT
1 AAT
45382073 ATTATTGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 6 0.15
11 24 0.59
12 7 0.17
13 4 0.10
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:45382083 original size:28 final size:28
Alignment explanation
Indices: 45382030--45382088 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
45382020 AATTTATTTC
* *
45382030 TAATTTAAATTTAATTTAATTTTAAATT
1 TAATCTAAATTTAATTTAATTGTAAATT
45382058 TAATCTAAATTTAATATT-ATTGTAAATT
1 TAATCTAAATTTAAT-TTAATTGTAAATT
45382086 TAA
1 TAA
45382089 ATGTCCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (28 bp):
TAATCTAAATTTAATTTAATTGTAAATT
Found at i:45382089 original size:23 final size:23
Alignment explanation
Indices: 45382012--45382090 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 23
45382002 AAATTTATGC
45382012 TAAATTTAAATTT-ATTTCTAATT
1 TAAATTTAAATTTAATTT-TAATT
45382035 TAAATTT-AATTTAATTTTAAATT
1 TAAATTTAAATTTAATTTT-AATT
* *
45382058 T-AATCTAAATTTAATATT-ATT
1 TAAATTTAAATTTAATTTTAATT
45382079 GTAAATTTAAAT
1 -TAAATTTAAAT
45382091 GTCCCTTTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
21 3 0.06
22 11 0.23
23 34 0.71
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (23 bp):
TAAATTTAAATTTAATTTTAATT
Found at i:45382857 original size:12 final size:12
Alignment explanation
Indices: 45382842--45382883 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
45382832 ATAATATCAT
*
45382842 TAATAACAATAA
1 TAATAACGATAA
**
45382854 TAATAGTGATAA
1 TAATAACGATAA
45382866 TAATAACGATAA
1 TAATAACGATAA
45382878 TAATAA
1 TAATAA
45382884 TAAATATTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.29
Consensus pattern (12 bp):
TAATAACGATAA
Found at i:45383984 original size:30 final size:30
Alignment explanation
Indices: 45383942--45384206 Score: 125
Period size: 29 Copynumber: 9.0 Consensus size: 30
45383932 AAACTATCCA
*
45383942 AAAATGACATTTTGACCCCCAAATTTTTCC
1 AAAATTACATTTTGACCCCCAAATTTTTCC
* **** *
45383972 AAAATTATATTTTGACATTAAAAATTTTT-G
1 AAAATTACATTTTGAC-CCCCAAATTTTTCC
* * *
45384002 AAAATTACATTTTGAACCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCCAAATTTTTCC
** **
45384032 AAAATTTTATTTTGA-CCCCAAA-ACTTCC
1 AAAATTACATTTTGACCCCCAAATTTTTCC
* * * *
45384060 AAAAATTACATTTTTACCCTC-AAGTTATCC
1 -AAAATTACATTTTGACCCCCAAATTTTTCC
* * * * **
45384090 AAAATTCCATTTTTACCCTC-GATTTCACC
1 AAAATTACATTTTGACCCCCAAATTTTTCC
** *
45384119 AAAATTACTATTTT-ACCCCCAAA-CATTCT
1 AAAATTAC-ATTTTGACCCCCAAATTTTTCC
* * * *
45384148 AAAATTCCATTTTTAACCCC-AATTTTACC
1 AAAATTACATTTTGACCCCCAAATTTTTCC
* *
45384177 AAAAATTACCATTTT-ACCCTCAAACTTTTC
1 -AAAATTA-CATTTTGACCCCCAAATTTTTC
45384207 AATATCCCAT
Statistics
Matches: 172, Mismatches: 51, Indels: 23
0.70 0.21 0.09
Matches are distributed among these distances:
28 11 0.06
29 78 0.45
30 63 0.37
31 20 0.12
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCCAAATTTTTCC
Found at i:45384072 original size:29 final size:29
Alignment explanation
Indices: 45383932--45384078 Score: 98
Period size: 30 Copynumber: 4.9 Consensus size: 29
45383922 AAAAGTCCCT
* *
45383932 AAACTATCCAAAAATGACATTTTGACCCCCA
1 AAACTTTCC-AAAATTACATTTTGA-CCCCA
** * ***
45383963 AATTTTTCCAAAATTATATTTTGACATTAA
1 AAACTTTCCAAAATTACATTTTGAC-CCCA
* ** * *
45383993 AAATTTTTGAAAATTACATTTTGAACCCT
1 AAACTTTCCAAAATTACATTTTGACCCCA
**
45384022 AAACTTTTCCAAAATTTTATTTTGACCCCA
1 AAAC-TTTCCAAAATTACATTTTGACCCCA
*
45384052 AAAC-TTCCAAAAATTACATTTTTACCC
1 AAACTTTCC-AAAATTACATTTTGACCC
45384079 TCAAGTTATC
Statistics
Matches: 86, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
28 4 0.05
29 19 0.22
30 57 0.66
31 6 0.07
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (29 bp):
AAACTTTCCAAAATTACATTTTGACCCCA
Found at i:45384123 original size:58 final size:59
Alignment explanation
Indices: 45384002--45384365 Score: 313
Period size: 58 Copynumber: 6.2 Consensus size: 59
45383992 AAAATTTTTG
* ** * * *
45384002 AAAATTA-CATTTTGAACCCT-AAACTTTTCCAAAATTTTA-TTTTGACCCCAAAACTTC-CA
1 AAAATTACCATTTT-TACCCTCAAAC-TTTCCAAAATTCCATTTTTAACCCC--AATTTCACC
* *
45384061 AAAATTA-CATTTTTACCCTC-AAGTTATCCAAAATTCCATTTTT-ACCCTCGATTTCACC
1 AAAATTACCATTTTTACCCTCAAACTT-TCCAAAATTCCATTTTTAACCC-CAATTTCACC
* * * * *
45384119 AAAATTACTA-TTTTACCCCCAAACATTCTAAAATTCCATTTTTAACCCCAATTTTACC
1 AAAATTACCATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACC
* * * *
45384177 AAAAATTACCA-TTTTACCCTCAAACTTTTCAATATCCCATTTTTAACCCCGATTTCACC
1 -AAAATTACCATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACC
* * *
45384236 AAAATTACCA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCAATTTCATC
1 AAAATTACCATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACC
* * ** * *
45384294 AGAATTACCA-TTTTATCCC-CGAACTTTTAAAAATGCCATTTTTGA-CCCAATTTCTACC
1 AAAATTACCATTTTTA-CCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTC-ACC
*
45384352 AAAATTACCGTTTT
1 AAAATTACCATTTT
45384366 GCCCCCCGGT
Statistics
Matches: 254, Mismatches: 39, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
57 14 0.06
58 159 0.63
59 81 0.32
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.37
Consensus pattern (59 bp):
AAAATTACCATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACC
Found at i:45384131 original size:88 final size:87
Alignment explanation
Indices: 45384030--45384197 Score: 202
Period size: 87 Copynumber: 1.9 Consensus size: 87
45384020 CTAAACTTTT
*
45384030 CCAAAATTTTATTTTGACCCCAAAAC-TTCCAAAAATTACATTTTT-ACCCTCAAGTTAT-CC-A
1 CCAAAATTCTATTTT-ACCCCAAAACATT-CAAAAATTACATTTTTAACCC-CAA-TTATACCAA
45384091 AAATT-CCATTTTTACCCTCGATTTCA
62 AAATTACCA-TTTTACCCTCGATTTCA
* * * *
45384117 CCAAAATTACTATTTTACCCCCAAACATTCTAAAATTCCATTTTTAACCCCAATTTTACCAAAAA
1 CCAAAATT-CTATTTTACCCCAAAACATTCAAAAATTACATTTTTAACCCCAATTATACCAAAAA
45384182 TTACCATTTTACCCTC
65 TTACCATTTTACCCTC
45384198 AAACTTTTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
86 3 0.04
87 36 0.51
88 28 0.40
89 3 0.04
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.36
Consensus pattern (87 bp):
CCAAAATTCTATTTTACCCCAAAACATTCAAAAATTACATTTTTAACCCCAATTATACCAAAAAT
TACCATTTTACCCTCGATTTCA
Found at i:45384179 original size:117 final size:117
Alignment explanation
Indices: 45384058--45384371 Score: 352
Period size: 117 Copynumber: 2.7 Consensus size: 117
45384048 CCCAAAACTT
* *
45384058 CCAAAAATTA-CATTTTTACCCTC-AAGTTATCCAAAATTCCATTTTT-ACCCTCGATTTCACCA
1 CCAAAAATTACCA-TTTTACCCTCAAACTT-TCCAAAATCCCATTTTTAACCC-CGATTTCACCA
* *
45384120 AAATTACTATTTTACCCCCAAACATTCTAAAATTCCATTTTTAACCCCAATTTTA
63 AAATTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTTAACCCCAATTTTA
* *
45384175 CCAAAAATTACCATTTTACCCTCAAACTTTTCAATATCCCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
* * * * *
45384240 TTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCAATTTCA
66 TTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTTAACCCCAATTTTA
* * * ** * * *
45384292 TC-AGAATTACCATTTTATCCC-CGAACTTTTAAAAATGCCATTTTTGA-CCCAATTTCTACCAA
1 CCAAAAATTACCATTTTA-CCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTC-ACCAA
* *
45384354 AATTACCGTTTTGCCCCC
64 AATTACCATTTTACCCCC
45384372 CGGTATCCAA
Statistics
Matches: 170, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
115 8 0.05
116 55 0.32
117 97 0.57
118 10 0.06
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
TTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTTAACCCCAATTTTA
Found at i:45384299 original size:29 final size:29
Alignment explanation
Indices: 45384061--45384307 Score: 131
Period size: 29 Copynumber: 8.5 Consensus size: 29
45384051 AAAACTTCCA
*
45384061 AAAATTA-CATTTTTACCCTCAAGTTATC-C
1 AAAATTACCATTTTTAACCTCAA-TT-TCAC
* *
45384090 AAAATT-CCATTTTTACCCTCGATTTCACC
1 AAAATTACCATTTTTAACCTCAATTTCA-C
* * * * *
45384119 AAAATTACTA-TTTTACCCCCAAACATTC-T
1 AAAATTACCATTTTTAACCTC-AA-TTTCAC
* *
45384148 AAAATT-CCATTTTTAACCCCAATTTTACC
1 AAAATTACCATTTTTAACCTCAATTTCA-C
* *
45384177 AAAAATTACCA-TTTTACCCTCAAACTTT-TC
1 -AAAATTACCATTTTTAACCTC-AA-TTTCAC
* * * *
45384207 AATA-TCCCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTTAACCTCAATTTCA-C
*
45384236 AAAATTACCA-TTTTACCCTCGAACTTTC-C
1 AAAATTACCATTTTTAACCTC-AA-TTTCAC
45384265 AAAATT-CCATTTTTAACCTCAATTTCATC
1 AAAATTACCATTTTTAACCTCAATTTCA-C
*
45384294 AGAATTACCATTTT
1 AAAATTACCATTTT
45384308 ATCCCCGAAC
Statistics
Matches: 168, Mismatches: 27, Indels: 45
0.70 0.11 0.19
Matches are distributed among these distances:
27 11 0.07
28 16 0.10
29 96 0.57
30 30 0.18
31 12 0.07
32 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATTACCATTTTTAACCTCAATTTCAC
Found at i:45389026 original size:18 final size:18
Alignment explanation
Indices: 45389003--45389043 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45388993 ACCCAAATAT
45389003 AAAAGAG-AGAAAAAAGAA
1 AAAAGAGAAG-AAAAAGAA
*
45389021 AAAAGAGAAGAAGAAGAA
1 AAAAGAGAAGAAAAAGAA
45389039 AAAAG
1 AAAAG
45389044 TCAAGATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAGAGAAGAAAAAGAA
Found at i:45389027 original size:16 final size:18
Alignment explanation
Indices: 45389003--45389043 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
45388993 ACCCAAATAT
*
45389003 AAAAGAGAGAA-AA-AAG
1 AAAAAAGAGAAGAAGAAG
45389019 AAAAAAGAGAAGAAGAAG
1 AAAAAAGAGAAGAAGAAG
45389037 AAAAAAG
1 AAAAAAG
45389044 TCAAGATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 2 0.09
18 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAAAGAGAAGAAGAAG
Found at i:45391245 original size:50 final size:49
Alignment explanation
Indices: 45391091--45391545 Score: 203
Period size: 50 Copynumber: 9.1 Consensus size: 49
45391081 AATCTAAGAC
**
45391091 CGCAATGGCGGATCCAGTACCATAAAGATACTAAAGGGAAAGGTAC-AAGTT
1 CGCAATGGCGGATCCAGTACCGCAAAGATAC-AAAGGGAAAGGT-CTAAG-T
* * * ** * * * *
45391142 C-CAACGGTGGAACGTGTACCTCAGAA-ACACGATAA--GAAAGATCTAAGAC
1 CGCAATGGCGGATCCAGTACCGCA-AAGATAC-A-AAGGGAAAGGTCTAAG-T
* * *
45391191 CGCAATGGCGGATCCAGTACCACAAAGATACTAAAGGTAAGGGTCTAAGT
1 CGCAATGGCGGATCCAGTACCGCAAAGATAC-AAAGGGAAAGGTCTAAGT
* * * * * * *
45391241 CGCAATGGCGGA--CAGTGTACCTCAAAAACACGACGGGAAAGATCTAAGAC
1 CGCAATGGCGGATCCA--GTACCGCAAAGATACAAAGGGAAAGGTCTAAG-T
*
45391291 CGCAATGGTGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGT
1 CGCAATGGCGGATCCAGTACCGCAAAGATAC-AAAGGGAAAGGTCTAAGT
* * * * * * * * * *
45391341 CACAACGGCGGA-CCGTGTACCTCAAAAGACACGACGAGAAAGATCTAAGAC
1 CGCAATGGCGGATCC-AGTACCGC-AAAGATACAAAGGGAAAGGTCTAAG-T
* * *
45391392 CACAATGGCGGATCCAATACCGCAAATATACAAAAGGGAAAGGTCTAAGT
1 CGCAATGGCGGATCCAGTACCGCAAAGATAC-AAAGGGAAAGGTCTAAGT
* * * * * *
45391442 CGCAACGGCGGA-CCGTGTACCTC--AGAAACAAGAAGGAAAGGATCTAAGAC
1 CGCAATGGCGGATCC-AGTACCGCAAAGATACAA-AGGGAAAGG-TCTAAG-T
* * *** *** *
45391492 CGCAACGGCGGATCCAATACCATGAAGATTTGAAGGGAAAGGTTTAAGT
1 CGCAATGGCGGATCCAGTACCGCAAAGATACAAAGGGAAAGGTCTAAGT
45391541 CGCAA
1 CGCAA
45391546 CGACGAACCC
Statistics
Matches: 296, Mismatches: 83, Indels: 52
0.69 0.19 0.12
Matches are distributed among these distances:
47 2 0.01
48 15 0.05
49 41 0.14
50 156 0.53
51 74 0.25
52 8 0.03
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.15
Consensus pattern (49 bp):
CGCAATGGCGGATCCAGTACCGCAAAGATACAAAGGGAAAGGTCTAAGT
Found at i:45391259 original size:100 final size:100
Alignment explanation
Indices: 45391082--45391547 Score: 582
Period size: 100 Copynumber: 4.7 Consensus size: 100
45391072 TTCGACGGGA
*
45391082 ATCTAAGACCGCAATGGCGGATCCAGTACCATAAAGATACTAAAGGGAAAGGTAC-AAGTTC-CA
1 ATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGT-CTAAG-TCGCA
* * *
45391145 ACGGTGGA-ACGTGTACCTCAGAAACACGATAAGAAAG
64 ACGGCGGACA-GTGTACCTCAAAAACACGACAAGAAAG
* * *
45391182 ATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAGGTAAGGGTCTAAGTCGCAAT
1 ATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTAAGTCGCAAC
**
45391247 GGCGGACAGTGTACCTCAAAAACACGACGGGAAAG
66 GGCGGACAGTGTACCTCAAAAACACGACAAGAAAG
* * *
45391282 ATCTAAGACCGCAATGGTGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGTCACAAC
1 ATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTAAGTCGCAAC
* *
45391347 GGCGGACCGTGTACCTCAAAAGACACGACGAGAAAG
66 GGCGGACAGTGTACCTCAAAA-ACACGACAAGAAAG
* * * * *
45391383 ATCTAAGACCACAATGGCGGATCCAATACCGCAAATATACAAAAGGGAAAGGTCTAAGTCGCAAC
1 ATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTAAGTCGCAAC
* * * *
45391448 GGCGGACCGTGTACCTCAGAAACAAGA-AGGAAAGG
66 GGCGGACAGTGTACCTCAAAAACACGACAAGAAA-G
* * ** * * *
45391483 ATCTAAGACCGCAACGGCGGATCCAATACCATGAAGAT-TTGAAGGGAAAGGTTTAAGTCGCAAC
1 ATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTAAGTCGCAAC
45391547 G
66 G
45391548 ACGAACCCGG
Statistics
Matches: 324, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
99 30 0.09
100 201 0.62
101 93 0.29
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.15
Consensus pattern (100 bp):
ATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTAAGTCGCAAC
GGCGGACAGTGTACCTCAAAAACACGACAAGAAAG
Found at i:45391465 original size:201 final size:199
Alignment explanation
Indices: 45391082--45391547 Score: 623
Period size: 201 Copynumber: 2.3 Consensus size: 199
45391072 TTCGACGGGA
45391082 ATCTAAGACCGCAATGGCGGATCCAGTACCATAAAGATACTAAAGGGAAAGGTAC-AAGTTCCAA
1 ATCTAAGACCGCAATGGCGGATCCAGTACCATAAAGATACTAAAGGGAAAGGT-CTAAG-TCCAA
* * * * *
45391146 CGGTGGAACGTGTACCTCAGAAACACGATAAGAAAGATCTAAGACCGCAATGGCGGATCCAGTAC
64 CGGCGGAACGTGTACCTCAAAAACACGACAAGAAAGATCTAAGACCACAATGGCGGATCCAATAC
* * * * * *
45391211 CACAAAGATACTAAAGGTAAGGGTCTAAGTCGCAATGGCGGACAGTGTACCTCAAAAACACGACG
129 CACAAAGATACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACAGTGTACCTCAAAAACAAGA-A
45391276 GGAAA-G
193 GGAAAGG
* **
45391282 ATCTAAGACCGCAATGGTGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTAAGTCACAAC
1 ATCTAAGACCGCAATGGCGGATCCAGTACCATAAAGATACTAAAGGGAAAGGTCTAAGTC-CAAC
* *
45391347 GGCGGACCGTGTACCTCAAAAGACACGACGAGAAAGATCTAAGACCACAATGGCGGATCCAATAC
65 GGCGGAACGTGTACCTCAAAA-ACACGACAAGAAAGATCTAAGACCACAATGGCGGATCCAATAC
* * * *
45391412 CGCAAATATACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAACAAGAAG
129 CACAAAGATACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACAGTGTACCTCAAAAACAAGAAG
45391477 GAAAGG
194 GAAAGG
* * * * * *
45391483 ATCTAAGACCGCAACGGCGGATCCAATACCATGAAGAT-TTGAAGGGAAAGGTTTAAGTCGCAAC
1 ATCTAAGACCGCAATGGCGGATCCAGTACCATAAAGATACTAAAGGGAAAGGTCTAAGTC-CAAC
45391547 G
65 G
45391548 ACGAACCCGG
Statistics
Matches: 232, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
199 3 0.01
200 103 0.44
201 126 0.54
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.15
Consensus pattern (199 bp):
ATCTAAGACCGCAATGGCGGATCCAGTACCATAAAGATACTAAAGGGAAAGGTCTAAGTCCAACG
GCGGAACGTGTACCTCAAAAACACGACAAGAAAGATCTAAGACCACAATGGCGGATCCAATACCA
CAAAGATACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACAGTGTACCTCAAAAACAAGAAGGA
AAGG
Found at i:45391715 original size:52 final size:49
Alignment explanation
Indices: 45391658--45392182 Score: 151
Period size: 52 Copynumber: 11.3 Consensus size: 49
45391648 TTTATCTCTC
*
45391658 TGAAGTTATAGTAGGAGCAAGATGAAGCTTCAAACGTCATTTCTTATCCTTT
1 TGAAGTTATAGTA-GAGCAAGATGAAG-TT-GAACGTCATTTCTTATCCTTT
* *** *
45391710 TGAAGTTATAGTAAAGTTGGAT-AA--TGAAC--C---T-TTAT-CTCTC
1 TGAAGTTATAGTAGAGCAAGATGAAGTTGAACGTCATTTCTTATCCT-TT
*
45391750 TGAAGTTATAGTAAGAGCAAGATGAAGCTTTGAACGTCATTTCTTATCCTCT
1 TGAAGTTATAGT-AGAGCAAGATGAAG--TTGAACGTCATTTCTTATCCTTT
* * * ** *
45391802 TGAAGTTATAGT--A--AAGTTG--GAT-AACG-AACCT-TTAT-CTCTC
1 TGAAGTTATAGTAGAGCAAGATGAAGTTGAACGTCATTTCTTATCCT-TT
*
45391842 TGAAGTTATAGTAAGAGCAAGATGAAGATTCGAACGTCATTTCTTATCCTGT
1 TGAAGTTATAGT-AGAGCAAGATGAAG-TT-GAACGTCATTTCTTATCCTTT
* * * **
45391894 TGAAGTTATAGT--A--AAGTTG--GAT-AACG-AACCT-TTAT-CTCTT
1 TGAAGTTATAGTAGAGCAAGATGAAGTTGAACGTCATTTCTTATCCT-TT
* *
45391934 TGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCATTTCTTATCCTCT
1 TGAAGTTATAGT-AGAGCAAGATGAAG-TT-GAACGTCATTTCTTATCCTTT
* * * ** *
45391986 TGAAGTTATAGT--A--AAGTTG--GAT-AACG-AACCT-TTAT-CTCTC
1 TGAAGTTATAGTAGAGCAAGATGAAGTTGAACGTCATTTCTTATCCT-TT
* * * *
45392026 TGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTATTATCCTCT
1 TGAAGTTATAGT-AGAGCAAGATGAAG-TT-GAACGTCATTTCTTATCCTTT
* * * ** *
45392078 TGAAGTTATAGT--A--AAGTTG--GAT-AACG-GACCT-TTAT-CTCTC
1 TGAAGTTATAGTAGAGCAAGATGAAGTTGAACGTCATTTCTTATCCT-TT
*
45392118 TGAAGTTATAGTAAGAGCAAGATGAAGCTTCGAACGTCATTTCTTATCCTCT
1 TGAAGTTATAGT-AGAGCAAGATGAAG-TT-GAACGTCATTTCTTATCCTTT
45392170 TGAAGTTATAGTA
1 TGAAGTTATAGTA
45392183 AAGTTGGATA
Statistics
Matches: 337, Mismatches: 66, Indels: 141
0.62 0.12 0.26
Matches are distributed among these distances:
39 10 0.03
40 82 0.24
41 15 0.04
42 18 0.05
43 5 0.01
44 4 0.01
45 24 0.07
46 8 0.02
47 25 0.07
48 5 0.01
49 4 0.01
50 18 0.05
51 15 0.04
52 94 0.28
53 10 0.03
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (49 bp):
TGAAGTTATAGTAGAGCAAGATGAAGTTGAACGTCATTTCTTATCCTTT
Found at i:45392265 original size:52 final size:50
Alignment explanation
Indices: 45392199--45392737 Score: 167
Period size: 52 Copynumber: 11.5 Consensus size: 50
45392189 GATAACGAAC
*
45392199 CTTATCC-CTCTGAAGTTATAGTAAGAGTATGATGAAGTTTCAAATGTCATTT
1 CTTATCCTCT-TGAAGTTATAGTAA-AGTATGATGAAG-TTCAAATGTCAATT
*
45392251 CTTATCCTCTTGAAGTTATAGTAAAGT-TG--G-A--T--AATG--AA-C
1 CTTATCCTCTTGAAGTTATAGTAAAGTATGATGAAGTTCAAATGTCAATT
** *
45392290 CTTTAT-CTCTCTGAAGTTATAGTAATAGTAAAATGAAGCTTCAAACGTCAATT
1 C-TTATCCTCT-TGAAGTTATAGTAA-AGTATGATGAAG-TTCAAATGTCAATT
* * *
45392343 CTTATCCTCTTGAAGTTATAGTATAGT-TG--G-A--T--AACG--AA-C
1 CTTATCCTCTTGAAGTTATAGTAAAGTATGATGAAGTTCAAATGTCAATT
* * * *
45392382 CTTTAT-CTCTCTAAAGTTACAGTAAGAGCAAGATGAAGCTTCAAATGTCAATT
1 C-TTATCCTCT-TGAAGTTATAGTAA-AGTATGATGAAG-TTCAAATGTCAATT
* * *
45392435 ATTATCCTCTTGAAGTTATAGTAAAGT-TG--G-A--T--AACG--AA-C
1 CTTATCCTCTTGAAGTTATAGTAAAGTATGATGAAGTTCAAATGTCAATT
* * *
45392474 CTTTAT-CTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATT
1 C-TTATCCTCT-TGAAGTTATAGTAA-AGTATGATGAAG-TTCAAATGTCAATT
* *
45392527 CTTATCCTCTTGAAGTTATAGTAAAGT-TG--G-A--T--AACG--AA-C
1 CTTATCCTCTTGAAGTTATAGTAAAGTATGATGAAGTTCAAATGTCAATT
* *
45392566 CTTTAT-CTCTCTGAAGTTATAGT-AAGTGCAAGATGAAGCTTCAAACGTCAATT
1 C-TTATCCTCT-TGAAGTTATAGTAAAGT--ATGATGAAG-TTCAAATGTCAATT
* * *
45392619 CTTATCCTCTTGAAGTTATAGTAAA-T-T--TG--GAT--AACG--AA-C
1 CTTATCCTCTTGAAGTTATAGTAAAGTATGATGAAGTTCAAATGTCAATT
* * * *
45392658 CTTTAT-CTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAGACGTCAATT
1 C-TTATCCTCT-TGAAGTTATAGTAA-AGTATGATGAAG-TTCAAATGTCAATT
45392711 CTTATCCTCTTGAAGTTATAGTAAAGT
1 CTTATCCTCTTGAAGTTATAGTAAAGT
45392738 TGGATAACGA
Statistics
Matches: 362, Mismatches: 42, Indels: 167
0.63 0.07 0.29
Matches are distributed among these distances:
39 28 0.08
40 94 0.26
41 8 0.02
42 22 0.06
44 9 0.02
45 7 0.02
47 7 0.02
48 9 0.02
50 21 0.06
51 12 0.03
52 117 0.32
53 28 0.08
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (50 bp):
CTTATCCTCTTGAAGTTATAGTAAAGTATGATGAAGTTCAAATGTCAATT
Found at i:45392675 original size:40 final size:40
Alignment explanation
Indices: 45392620--45392774 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
45392610 ACGTCAATTC
*
45392620 TTATCCTCTTGAAGTTATAGTAAATTTGGATAACGAACCT
1 TTATCCTCTTGAAGTTATAGTAAAGTTGGATAACGAACCT
*** *
45392660 TTAT-CTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAGACGTCAATT
1 TTATCCTCT-TGAAGTTATAGTAA-AGTTGGAT-AA-C--GA-AC--C---T
45392711 CTTATCCTCTTGAAGTTATAGTAAAGTTGGATAACGAACCT
1 -TTATCCTCTTGAAGTTATAGTAAAGTTGGATAACGAACCT
45392752 TTAT-CTCTCTGAAGTTATAGTAA
1 TTATCCTCT-TGAAGTTATAGTAA
45392775 GAGCAAGATG
Statistics
Matches: 91, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
39 8 0.09
40 36 0.40
41 5 0.05
42 2 0.02
43 1 0.01
44 1 0.01
45 1 0.01
46 4 0.04
47 1 0.01
48 1 0.01
49 1 0.01
50 2 0.02
51 6 0.07
52 18 0.20
53 4 0.04
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (40 bp):
TTATCCTCTTGAAGTTATAGTAAAGTTGGATAACGAACCT
Found at i:45392915 original size:52 final size:51
Alignment explanation
Indices: 45392848--45393003 Score: 156
Period size: 52 Copynumber: 3.2 Consensus size: 51
45392838 AAGTCTTTAT
45392848 CTCTCTGAAGTTGTAGTAAGAGCAAGGTAAAGCATCAAACATCAATTCCTATC
1 CTCT-TGAAGTTGTAGTAAGAGCAAGGTAAAGCATCAAA-ATCAATTCCTATC
** * *
45392901 CTCTTGAAGTTGTAGTAA-AG-TTGG-ATAG---C-AAGTC--TT--TAT-
1 CTCTTGAAGTTGTAGTAAGAGCAAGGTAAAGCATCAAAATCAATTCCTATC
45392940 CTCTCTGAAGTTGTAGTAAGAGCAAGGTAAAGCATCAAATATCAATTCCTATC
1 CTCT-TGAAGTTGTAGTAAGAGCAAGGTAAAGCATCAAA-ATCAATTCCTATC
45392993 CTCTTGAAGTT
1 CTCTTGAAGTT
45393004 TCAGTAAAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 29
0.69 0.07 0.25
Matches are distributed among these distances:
39 4 0.05
40 17 0.21
41 2 0.02
42 4 0.05
43 3 0.04
44 2 0.02
45 2 0.02
46 2 0.02
47 2 0.02
48 2 0.02
49 3 0.04
50 4 0.05
51 2 0.02
52 24 0.30
53 8 0.10
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (51 bp):
CTCTTGAAGTTGTAGTAAGAGCAAGGTAAAGCATCAAAATCAATTCCTATC
Found at i:45393066 original size:92 final size:92
Alignment explanation
Indices: 45391647--45393064 Score: 2198
Period size: 92 Copynumber: 15.4 Consensus size: 92
45391637 AATAACAAGT
* * *
45391647 CTTTATCTCTCTGAAGTTATAGTAGGAGCAAGATGAAGCTTCAAACGTCATTTCTTATCCTTTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
*
45391712 AAGTTATAGTAAAGTTGGATAATGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
** *
45391739 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTTGAACGTCATTTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
45391804 AAGTTATAGTAAAGTTGGATAACGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
* * * *
45391831 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGATTCGAACGTCATTTCTTATCCTGTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
45391896 AAGTTATAGTAAAGTTGGATAACGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
* * *
45391923 CTTTATCTCTTTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCATTTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
45391988 AAGTTATAGTAAAGTTGGATAACGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
*
45392015 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTATTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
*
45392080 AAGTTATAGTAAAGTTGGATAACGGAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
* *
45392107 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCGAACGTCATTTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
45392172 AAGTTATAGTAAAGTTGGATAACGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
* * * * * *
45392199 C-TTATCCCTCTGAAGTTATAGTAAGAGTATGATGAAGTTTCAAATGTCATTTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
*
45392263 AAGTTATAGTAAAGTTGGATAATGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
* * *
45392290 CTTTATCTCTCTGAAGTTATAGTAATAGTAAAATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
*
45392355 AAGTTATAGTATAGTTGGATAACGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
* * * *
45392382 CTTTATCTCTCTAAAGTTACAGTAAGAGCAAGATGAAGCTTCAAATGTCAATTATTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
45392447 AAGTTATAGTAAAGTTGGATAACGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
45392474 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
45392539 AAGTTATAGTAAAGTTGGATAACGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
*
45392566 CTTTATCTCTCTGAAGTTATAGTAAGTGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
*
45392631 AAGTTATAGTAAATTTGGATAACGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
*
45392658 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAGACGTCAATTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
45392723 AAGTTATAGTAAAGTTGGATAACGAAC
66 AAGTTATAGTAAAGTTGGATAACGAAC
* *
45392750 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
* * * * *
45392815 AAGTTGTAGTAAAATTAGATAGC-AAGT
66 AAGTTATAGTAAAGTTGGATAACGAA-C
* * * * * *
45392842 CTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGGTAAAGCATCAAACATCAATTCCTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
* * *
45392907 AAGTTGTAGTAAAGTTGGATAGC-AAGT
66 AAGTTATAGTAAAGTTGGATAACGAA-C
* * * * ** *
45392934 CTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGGTAAAGCATCAAATATCAATTCCTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
* *
45392999 AAGTT-TCAGTAAAGTTGGATAGC-AAGT
66 AAGTTAT-AGTAAAGTTGGATAACGAA-C
* *
45393026 ATTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGC
45393065 ATTGACACTA
Statistics
Matches: 1251, Mismatches: 72, Indels: 6
0.94 0.05 0.00
Matches are distributed among these distances:
91 87 0.07
92 1164 0.93
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (92 bp):
CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
AAGTTATAGTAAAGTTGGATAACGAAC
Found at i:45393503 original size:118 final size:113
Alignment explanation
Indices: 45393300--45393516 Score: 317
Period size: 118 Copynumber: 1.9 Consensus size: 113
45393290 CACAAGTGAG
* * * * **
45393300 GCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAACTCAGGGCTCGATGTGAGCAAATATT
1 GCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAACGCTCGATGTGAGCAAATATT
45393365 CGAACCCCAGCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGC
66 CGAACCCCAGCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGC
45393413 GCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAA
1 GCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATC--A---ACGCTCGATGTGAGCAA
* *
45393478 ATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGC
61 ATATTCGAACCCCAGCTTCCTGATGAGATACAGAGAAGC
45393517 AGGTCGAAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
113 38 0.42
115 1 0.01
118 52 0.57
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (113 bp):
GCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAACGCTCGATGTGAGCAAATATT
CGAACCCCAGCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGC
Found at i:45394030 original size:17 final size:17
Alignment explanation
Indices: 45394010--45394168 Score: 166
Period size: 17 Copynumber: 9.4 Consensus size: 17
45394000 TGCTTTGAAA
45394010 TTAAATTTATGCTAAAT
1 TTAAATTTATGCTAAAT
**
45394027 TTAAATTTATTTTAAAT
1 TTAAATTTATGCTAAAT
45394044 TTAAATTTATGCTAAAT
1 TTAAATTTATGCTAAAT
45394061 TTAAATTTATGCTAAAT
1 TTAAATTTATGCTAAAT
**
45394078 TTAAATTTATTTTAAAT
1 TTAAATTTATGCTAAAT
*
45394095 TTAAATTTATTTCT-AAT
1 TTAAATTTA-TGCTAAAT
* *
45394112 TTAAATTTAAT-TTAAGT
1 TTAAATTT-ATGCTAAAT
*
45394129 TTGAATTTAAT-CTAAAT
1 TTAAATTT-ATGCTAAAT
45394146 TT-AATATTATTG-TAAAT
1 TTAAAT-TTA-TGCTAAAT
45394163 TTAAAT
1 TTAAAT
45394169 GTCCCTTTAT
Statistics
Matches: 123, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
16 5 0.04
17 111 0.90
18 7 0.06
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (17 bp):
TTAAATTTATGCTAAAT
Found at i:45394030 original size:34 final size:34
Alignment explanation
Indices: 45393992--45394120 Score: 140
Period size: 34 Copynumber: 3.8 Consensus size: 34
45393982 CCCAAACCAT
45393992 TTTAAATTTGCTTTGAAA-TTAAATTTATGCTAAA
1 TTTAAATTTGCTTT-AAATTTAAATTTATGCTAAA
**
45394026 TTTAAATTTATTTTAAATTTAAATTTATGCTAAA
1 TTTAAATTTGCTTTAAATTTAAATTTATGCTAAA
**
45394060 TTTAAATTTATGC--TAAATTTAAATTTATTTTAAA
1 TTTAAA-TT-TGCTTTAAATTTAAATTTATGCTAAA
* *
45394094 TTTAAATTT-ATTTCTAATTTAAATTTA
1 TTTAAATTTGCTTT-AAATTTAAATTTA
45394121 ATTTAAGTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
32 1 0.01
33 6 0.07
34 71 0.88
35 2 0.02
36 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (34 bp):
TTTAAATTTGCTTTAAATTTAAATTTATGCTAAA
Found at i:45394065 original size:51 final size:52
Alignment explanation
Indices: 45394010--45394168 Score: 211
Period size: 51 Copynumber: 3.1 Consensus size: 52
45394000 TGCTTTGAAA
45394010 TTAAATTTATGCTAAATTTAAATTTATTTTAAATTTAAATTTA-TGCTAAAT
1 TTAAATTTATGCTAAATTTAAATTTATTTTAAATTTAAATTTATTGCTAAAT
*
45394061 TTAAATTTATGCTAAATTTAAATTTATTTTAAATTTAAATTTATTTCT-AAT
1 TTAAATTTATGCTAAATTTAAATTTATTTTAAATTTAAATTTATTGCTAAAT
* * * * *
45394112 TTAAATTTAAT-TTAAGTTTGAATTTAATCTAAATTT-AATATTATTG-TAAAT
1 TTAAATTT-ATGCTAAATTTAAATTTATTTTAAATTTAAAT-TTATTGCTAAAT
45394163 TTAAAT
1 TTAAAT
45394169 GTCCCTTTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
50 4 0.04
51 88 0.91
52 5 0.05
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (52 bp):
TTAAATTTATGCTAAATTTAAATTTATTTTAAATTTAAATTTATTGCTAAAT
Found at i:45394123 original size:28 final size:28
Alignment explanation
Indices: 45394092--45394150 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
45394082 ATTTATTTTA
* *
45394092 AATTTAAATTT-ATTTCTAATTTAAATTT
1 AATTTAAATTTGAATT-TAATCTAAATTT
*
45394120 AATTTAAGTTTGAATTTAATCTAAATTT
1 AATTTAAATTTGAATTTAATCTAAATTT
45394148 AAT
1 AAT
45394151 ATTATTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTTAAATTTGAATTTAATCTAAATTT
Found at i:45394928 original size:12 final size:12
Alignment explanation
Indices: 45394913--45394955 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
45394903 ATAATATCAT
*
45394913 TAATAACGATAA
1 TAATAATGATAA
*
45394925 TAATAGTGATAA
1 TAATAATGATAA
*
45394937 TAATAATGGTAA
1 TAATAATGATAA
45394949 TAATAAT
1 TAATAAT
45394956 AAATATTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (12 bp):
TAATAATGATAA
Found at i:45394941 original size:15 final size:15
Alignment explanation
Indices: 45394921--45394957 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
45394911 ATTAATAACG
*
45394921 ATAATAATAGTGATA
1 ATAATAATAGTAATA
*
45394936 ATAATAATGGTAATA
1 ATAATAATAGTAATA
45394951 ATAATAA
1 ATAATAA
45394958 ATATTTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (15 bp):
ATAATAATAGTAATA
Found at i:45395512 original size:16 final size:14
Alignment explanation
Indices: 45395494--45395524 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
45395484 CTTCTAAAGA
45395494 AGAAGAA-AAGGAG
1 AGAAGAAGAAGGAG
45395507 AGAAGAAGAAGGAG
1 AGAAGAAGAAGGAG
45395521 AGAA
1 AGAA
45395525 AAGGAGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAAGGAG
Found at i:45395526 original size:24 final size:22
Alignment explanation
Indices: 45395490--45395533 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
45395480 TGGCCTTCTA
45395490 AAGAAGAAGAAAAGGAGAGAAG
1 AAGAAGAAGAAAAGGAGAGAAG
45395512 AAGAAGGAGAGAAAAGGAGAGA
1 AAGAA-GA-AGAAAAGGAGAGA
45395534 TTTTGAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 2 0.10
24 13 0.65
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (22 bp):
AAGAAGAAGAAAAGGAGAGAAG
Found at i:45396065 original size:30 final size:30
Alignment explanation
Indices: 45396021--45396126 Score: 140
Period size: 30 Copynumber: 3.5 Consensus size: 30
45396011 AGAAATAGCA
* *
45396021 TTTGACCCCCAAACTTTTTCAAAATCATAT
1 TTTGACCCCAAAACTTTTTCAAAATTATAT
* * *
45396051 TTTGACACCAAAACTTTTTGAAAATTACAT
1 TTTGACCCCAAAACTTTTTCAAAATTATAT
* * *
45396081 TTTAACCCCTAAACTTTTCCAAAATTATAT
1 TTTGACCCCAAAACTTTTTCAAAATTATAT
45396111 TTTGACCCCAAAACTT
1 TTTGACCCCAAAACTT
45396127 CCAAAAATTA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.37
Consensus pattern (30 bp):
TTTGACCCCAAAACTTTTTCAAAATTATAT
Found at i:45396138 original size:59 final size:57
Alignment explanation
Indices: 45396002--45396275 Score: 185
Period size: 59 Copynumber: 4.6 Consensus size: 57
45395992 TAAAGTCCCT
* * * * * * *
45396002 AAACTATCCAGAAA-TAGCATTTGACCCCCAAACTTTTTCAAAATCATATTTTGACACCA
1 AAACT-TCCAAAAATTA-CATTTTACCCCTAAACTTTTCCAAAATTACATTTTGAC-CCC
*** *
45396061 AAACTTTTTGAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTATATTTTGACCCC
1 AAAC-TTCCAAAAATTACATTTT-ACCCCTAAACTTTTCCAAAATTACATTTTGACCCC
* * * *
45396120 AAAACTTCCAAAAATTACATTTTTA-CCCTCAAAGTTATCCAAAATTCCATTTTTACCCC
1 -AAACTTCCAAAAATTACA-TTTTACCCCT-AAACTTTTCCAAAATTACATTTTGACCCC
** * * * * *
45396179 CGATTTCACCAAAATTACTATTTTACCCCTAAAC-TTTCTAAAATTCCATTTTAACCCC
1 AAACTTC-CAAAAATTAC-ATTTTACCCCTAAACTTTTCCAAAATTACATTTTGACCCC
* ** *
45396237 GATTTTACCAAAAATTACCATTTTACCCCCAAACTTTTC
1 AAACTT-CCAAAAATTA-CATTTTACCCCTAAACTTTTC
45396276 AATATCCTAT
Statistics
Matches: 173, Mismatches: 30, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
58 54 0.31
59 74 0.43
60 45 0.26
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (57 bp):
AAACTTCCAAAAATTACATTTTACCCCTAAACTTTTCCAAAATTACATTTTGACCCC
Found at i:45396147 original size:29 final size:27
Alignment explanation
Indices: 45396071--45396272 Score: 111
Period size: 29 Copynumber: 6.9 Consensus size: 27
45396061 AAACTTTTTG
*
45396071 AAAATTACATTTTAACCCCTAAACTTTTCC
1 AAAATTACATTTTTACCCC-AAAC--TTCC
* *
45396101 AAAATTATATTTTGACCCCAAAACTTCC
1 AAAATTACATTTTTACCCC-AAACTTCC
*
45396129 AAAAATTACATTTTTACCCTCAAAGTTATCC
1 -AAAATTACATTTTTACCC-CAAA-CT-TCC
* ** *
45396160 AAAATTCCATTTTTACCCCCGATTTCACC
1 AAAATTACATTTTTACCCCAAACTT--CC
*
45396189 AAAATTAC-TATTTTACCCCTAAACTTTCT
1 AAAATTACAT-TTTTACCCC-AAAC-TTCC
* * * **
45396218 AAAATTCCATTTTAACCCCGATTTTACC
1 AAAATTACATTTTTACCCCAAACTT-CC
45396246 AAAAATTACCA-TTTTACCCCCAAACTT
1 -AAAATTA-CATTTTTA-CCCCAAACTT
45396273 TTCAATATCC
Statistics
Matches: 133, Mismatches: 25, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
27 3 0.02
28 9 0.07
29 65 0.49
30 51 0.38
31 5 0.04
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAATTACATTTTTACCCCAAACTTCC
Found at i:45396251 original size:58 final size:58
Alignment explanation
Indices: 45396071--45396439 Score: 303
Period size: 58 Copynumber: 6.3 Consensus size: 58
45396061 AAACTTTTTG
* * * *
45396071 AAAATTA-CATTTTAACCCCTAAACTTTTCCAAAATT--ATATTTTGACCCCAAAACTTC-CA
1 AAAATTACCATTTT-ACCCCTAAAC-TTTCCAAAATTCCAT-TTTTAACCCC--GATTTCACC
* *
45396130 AAAATTA-CATTTTTA-CCCTCAAAGTTATCCAAAATTCCATTTTTACCCCCGATTTCACC
1 AAAATTACCA-TTTTACCCCT-AAACTT-TCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
45396189 AAAATTACTATTTTACCCCTAAACTTTCTAAAATTCCA-TTTTAACCCCGATTTTACC
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * * *
45396246 AAAAATTACCATTTTACCCCCAAACTTTTCAATA-TCCTATTTTTAACCTCGATTTCAGC
1 -AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC-ATTTTTAACCCCGATTTCACC
* * ** *
45396305 AAAATTACCATTTTA-CCCTCGAACTTTCCAAAATCCCATTTTTAACCTTGATTTCATC
1 AAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * *
45396363 AAAATTACCATTTTATCCCC-AAAC-TTCTAAAAATGCCATTTTTGA-CCCAATTTCCACC
1 AAAATTACCATTTTA-CCCCTAAACTTTC-CAAAATTCCATTTTTAACCCCGATTT-CACC
* *
45396421 AAAATTACCGTTTTGCCCC
1 AAAATTACCATTTTACCCC
45396440 CCGGTATCCA
Statistics
Matches: 257, Mismatches: 36, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
57 35 0.14
58 142 0.55
59 58 0.23
60 20 0.08
61 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:45396376 original size:30 final size:29
Alignment explanation
Indices: 45396284--45396376 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 29
45396274 TCAATATCCT
45396284 ATTTTTAACCTCGATTTCAGCAAAATTACC
1 ATTTTTAACCTCGATTTCA-CAAAATTACC
* *
45396314 A-TTTTACCCTCGAACTTTC-CAAAA-TCCC
1 ATTTTTAACCTCG-A-TTTCACAAAATTACC
*
45396342 ATTTTTAACCTTGATTTCATCAAAATTACC
1 ATTTTTAACCTCGATTTCA-CAAAATTACC
45396372 ATTTT
1 ATTTT
45396377 ATCCCCAAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 29 0.56
30 10 0.19
31 4 0.08
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (29 bp):
ATTTTTAACCTCGATTTCACAAAATTACC
Found at i:45396822 original size:95 final size:96
Alignment explanation
Indices: 45396643--45396828 Score: 218
Period size: 95 Copynumber: 1.9 Consensus size: 96
45396633 AAAAATTTAA
* * * *
45396643 AATCAAGGCAATATTCTTTTATTTCGAGTTTCGAAATCTTGCACCTTAACTTACTAGGTGCGATT
1 AATCAAGGCAATATTCTCTTATTTCGAGTTTCGAAATCTTGCACCTTAACTCACTAGGTGCAACT
* *
45396708 TTTCTTCAAATTGAAATAATCGAATACCCTT
66 CTTCTTCAAATTCAAATAATCGAATACCCTT
* * *
45396739 AATCAAGGCGATATT-TCTTATCTTCGA-TTTTGAAAAT-TTGCGCCTTAACTCACTAGGTGCAA
1 AATCAAGGCAATATTCTCTTAT-TTCGAGTTTCG-AAATCTTGCACCTTAACTCACTAGGTGCAA
* *
45396801 CTCTTCTTTAAA-TCAAGATAATTGAATA
64 CTCTTCTTCAAATTCAA-ATAATCGAATA
45396829 TCTCTTTTCC
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
94 3 0.04
95 50 0.66
96 23 0.30
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (96 bp):
AATCAAGGCAATATTCTCTTATTTCGAGTTTCGAAATCTTGCACCTTAACTCACTAGGTGCAACT
CTTCTTCAAATTCAAATAATCGAATACCCTT
Found at i:45399817 original size:38 final size:38
Alignment explanation
Indices: 45399740--45399855 Score: 99
Period size: 38 Copynumber: 3.0 Consensus size: 38
45399730 TTAACATGTT
* * *
45399740 TTCGGTTCATCACTAGCAATTAATATGTTTATCATGTA
1 TTCGATTCATCACTAGCAATTAACATGTTTATCAAGTA
* * *
45399778 TTCGATTCGTCACTAGTATTTAACATGCTTT-TCAAGTA
1 TTCGATTCATCACTAGCAATTAACATG-TTTATCAAGTA
* * * * * *
45399816 TTCAATTTATCACTACCATTTATCATGTTTTAACAAGTA
1 TTCGATTCATCACTAGCAATTAACATG-TTTATCAAGTA
45399855 T
1 T
45399856 CCAATAGGGT
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
38 52 0.84
39 10 0.16
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.43
Consensus pattern (38 bp):
TTCGATTCATCACTAGCAATTAACATGTTTATCAAGTA
Found at i:45401910 original size:433 final size:433
Alignment explanation
Indices: 45401104--45402589 Score: 2945
Period size: 433 Copynumber: 3.4 Consensus size: 433
45401094 AAAGGAAGCA
*
45401104 AAATTAACTTTTGAATAAGAAATGTAATATGTAGCATGTTACAACATCCTTGCTAAATACTTAAC
1 AAATTAACATTTGAATAAGAAATGTAATATGTAGCATGTTACAACATCCTTGCTAAATACTTAAC
*
45401169 AAGAAGAAGAAAGTGGAAAGAAAGGCAAGCACAATTCTGAGTCAATATTTACGGTCTCGGCTGCT
66 AAGAAGAAGAAAGTGGAAAGAAAAGCAAGCACAATTCTGAGTCAATATTTACGGTCTCGGCTGCT
45401234 AATTTCGTGGTAGGTTTAGCCTTTTCCTTTCTTGTCTTGTCTGCCATTAATATTGAATGTGTAAA
131 AATTTCGTGGTAGGTTTAGCCTTTTCCTTTCTTGTCTTGTCTGCCATTAATATTGAATGTGTAAA
*
45401299 CAAGCAATATTAGGAATCAATTTTTATGGACTTTGGGTGCAACTTTCCTTTTAATTTCCAGAAAG
196 CAAGCACTATTAGGAATCAATTTTTATGGACTTTGGGTGCAACTTTCCTTTTAATTTCCAGAAAG
45401364 GTAAAGTAAATCCCATCTCTTCTTTTCTAATTATAAGTTTATAATTTAATTGTTATATATAGATA
261 GTAAAGTAAATCCCATCTCTTCTTTTCTAATTATAAGTTTATAATTTAATTGTTATATATAGATA
45401429 TATTATAAATTAAAATATTTAGAAGGCTATTTTGGAAAGTACATATATTTTAGAAAATAATAAGA
326 TATTATAAATTAAAATATTTAGAAGGCTATTTTGGAAAGTACATATATTTTAGAAAATAATAAGA
45401494 AAAAGTTTATTTACAGGGGAAGCAGCTTGACTGAGCTGGAATC
391 AAAAGTTTATTTACAGGGGAAGCAGCTTGACTGAGCTGGAATC
45401537 AAATTAACATTTGAATAAGAAATGTAATATGTAGCATGTTACAACATCCTTGCTAAATACTTAAC
1 AAATTAACATTTGAATAAGAAATGTAATATGTAGCATGTTACAACATCCTTGCTAAATACTTAAC
45401602 AAGAAGAAGAAAGTGGAAAGAAAAGCAAGCACAATTCTGAGTCAATATTTACGGTCTCGGCTGCT
66 AAGAAGAAGAAAGTGGAAAGAAAAGCAAGCACAATTCTGAGTCAATATTTACGGTCTCGGCTGCT
45401667 AATTTCGTGGTAGGTTTAGCCTTTTCCTTTCTTGTCTTGTCTGCCATTAATATTGAATGTGTAAA
131 AATTTCGTGGTAGGTTTAGCCTTTTCCTTTCTTGTCTTGTCTGCCATTAATATTGAATGTGTAAA
45401732 CAAGCACTATTAGGAATCAATTTTTATGGACTTTGGGTGCAACTTTCCTTTTAATTTCCAGAAAG
196 CAAGCACTATTAGGAATCAATTTTTATGGACTTTGGGTGCAACTTTCCTTTTAATTTCCAGAAAG
45401797 GTAAAGTAAATCCCATCTCTTCTTTTCTAATTATAAGTTTATAATTTAATTGTTATATATAGATA
261 GTAAAGTAAATCCCATCTCTTCTTTTCTAATTATAAGTTTATAATTTAATTGTTATATATAGATA
45401862 TATTATAAATTAAAATATTTAGAAGGCTATTTTGGAAAGTACATATATTTTAGAAAATAATAAGA
326 TATTATAAATTAAAATATTTAGAAGGCTATTTTGGAAAGTACATATATTTTAGAAAATAATAAGA
45401927 AAAAGTTTATTTACAGGGGAAGCAGCTTGACTGAGCTGGAATC
391 AAAAGTTTATTTACAGGGGAAGCAGCTTGACTGAGCTGGAATC
45401970 AAATTAACATTTGAATAAGAAATGTAATATGTAGCATGTTACAACATCCTTGCTAAATACTTAAC
1 AAATTAACATTTGAATAAGAAATGTAATATGTAGCATGTTACAACATCCTTGCTAAATACTTAAC
45402035 AAGAAGAAGAAAGTGGAAAGAAAAGCAAGCACAATTCTGAGTCAATATTTACGGTCTCGGCTGCT
66 AAGAAGAAGAAAGTGGAAAGAAAAGCAAGCACAATTCTGAGTCAATATTTACGGTCTCGGCTGCT
45402100 AATTTCGTGGTAGGTTTAGCCTTTTCCTTTCTTGTCTTGTCTGCCATTAATATTGAATGTGTAAA
131 AATTTCGTGGTAGGTTTAGCCTTTTCCTTTCTTGTCTTGTCTGCCATTAATATTGAATGTGTAAA
45402165 CAAGCACTATTAGGAATCAATTTTTATGGACTTTGGGTGCAACTTTCCTTTTAATTTCCAGAAAG
196 CAAGCACTATTAGGAATCAATTTTTATGGACTTTGGGTGCAACTTTCCTTTTAATTTCCAGAAAG
45402230 GTAAAGTAAATCCCATCTCTTCTTTTCTAATTATAAGTTTATAATTTAATTGTTATATATAGATA
261 GTAAAGTAAATCCCATCTCTTCTTTTCTAATTATAAGTTTATAATTTAATTGTTATATATAGATA
45402295 TATTATAAATTAAAATATTTAGAAGGCTATTTTGGAAAGTACATATATTTTAGAAAATAATAAGA
326 TATTATAAATTAAAATATTTAGAAGGCTATTTTGGAAAGTACATATATTTTAGAAAATAATAAGA
45402360 AAAAGTTTATTTACAGGGGAAGCAGCTTGACTGAGCTGGAATC
391 AAAAGTTTATTTACAGGGGAAGCAGCTTGACTGAGCTGGAATC
45402403 AAATTAACATTTGAATAAGAAATGTAATATGTAGCATGTTACAACATCCTTGCTAAATACTTAAC
1 AAATTAACATTTGAATAAGAAATGTAATATGTAGCATGTTACAACATCCTTGCTAAATACTTAAC
45402468 AAGAAGAAGAAAGTGGAAAGAAAAGCAAGCACAATTCTGAGTCAATATTTACGGTCTCGGCTGCT
66 AAGAAGAAGAAAGTGGAAAGAAAAGCAAGCACAATTCTGAGTCAATATTTACGGTCTCGGCTGCT
45402533 AATTTCGTGGTAGGTTTAGCCTTTTCCTTTCTTGTCTTGTCTGCCATTAATATTGAA
131 AATTTCGTGGTAGGTTTAGCCTTTTCCTTTCTTGTCTTGTCTGCCATTAATATTGAA
45402590 ATTTGGTAAA
Statistics
Matches: 1050, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
433 1050 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (433 bp):
AAATTAACATTTGAATAAGAAATGTAATATGTAGCATGTTACAACATCCTTGCTAAATACTTAAC
AAGAAGAAGAAAGTGGAAAGAAAAGCAAGCACAATTCTGAGTCAATATTTACGGTCTCGGCTGCT
AATTTCGTGGTAGGTTTAGCCTTTTCCTTTCTTGTCTTGTCTGCCATTAATATTGAATGTGTAAA
CAAGCACTATTAGGAATCAATTTTTATGGACTTTGGGTGCAACTTTCCTTTTAATTTCCAGAAAG
GTAAAGTAAATCCCATCTCTTCTTTTCTAATTATAAGTTTATAATTTAATTGTTATATATAGATA
TATTATAAATTAAAATATTTAGAAGGCTATTTTGGAAAGTACATATATTTTAGAAAATAATAAGA
AAAAGTTTATTTACAGGGGAAGCAGCTTGACTGAGCTGGAATC
Found at i:45408962 original size:4 final size:4
Alignment explanation
Indices: 45408953--45408979 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
45408943 TTGGTTTATA
45408953 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
45408980 AGATAGATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:45416436 original size:82 final size:82
Alignment explanation
Indices: 45416299--45416454 Score: 285
Period size: 82 Copynumber: 1.9 Consensus size: 82
45416289 ATGCCTCCAA
*
45416299 ATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCGTTTCTTTGTTGATAA
1 ATAACTCTGCCATCACTTCATTTTCTTGAAGTCTGACACCTGGCAATGCGTTTCTTTGTTGATAA
45416364 GCATGAATTTTTATCAG
66 GCATGAATTTTTATCAG
* *
45416381 ATAACTCTGCCATTACTTCATTTTCTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGATAA
1 ATAACTCTGCCATCACTTCATTTTCTTGAAGTCTGACACCTGGCAATGCGTTTCTTTGTTGATAA
45416446 GCATGAATT
66 GCATGAATT
45416455 CTTCCGGATT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (82 bp):
ATAACTCTGCCATCACTTCATTTTCTTGAAGTCTGACACCTGGCAATGCGTTTCTTTGTTGATAA
GCATGAATTTTTATCAG
Found at i:45432626 original size:21 final size:22
Alignment explanation
Indices: 45432600--45432645 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
45432590 ATAACCACAA
45432600 AATATTAAGAGTTCATTAC-AG
1 AATATTAAGAGTTCATTACTAG
45432621 AATATTAAGAGTTCATTACTAG
1 AATATTAAGAGTTCATTACTAG
45432643 AAT
1 AAT
45432646 TTTCAGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (22 bp):
AATATTAAGAGTTCATTACTAG
Found at i:45439192 original size:60 final size:61
Alignment explanation
Indices: 45439091--45439221 Score: 158
Period size: 60 Copynumber: 2.1 Consensus size: 61
45439081 GATGCCCTTA
* ** * * **
45439091 GATAAGGATGCTGTCATTTTCCCTTATTGGAGTGAAGCATCTGTC-TTTGCTTTTCTTGTT
1 GATAAGCATGCTGTCATTTTCCCTTATTCCAATGAAGCATCTGGCAAATGCTTTTCTTGTT
*
45439151 GATAAGCATGCTGTCATTTTCTCTTATTCCAATAGAA-CATCTGGCAAAATGCTTTTCTTGTT
1 GATAAGCATGCTGTCATTTTCCCTTATTCCAAT-GAAGCATCTGGC-AAATGCTTTTCTTGTT
45439213 GATAAGCAT
1 GATAAGCAT
45439222 TAACCTTTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 35 0.58
61 3 0.05
62 22 0.37
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (61 bp):
GATAAGCATGCTGTCATTTTCCCTTATTCCAATGAAGCATCTGGCAAATGCTTTTCTTGTT
Found at i:45446277 original size:60 final size:61
Alignment explanation
Indices: 45446176--45446306 Score: 140
Period size: 60 Copynumber: 2.1 Consensus size: 61
45446166 GATGCCCTTA
* * ** * * **
45446176 GATAAGGATGCTGTCATTTTCCCTTATTGGAGTGAAGCATCTGTC-TTTGCTTTTCTTATT
1 GATAAGCATGCTGTCATTTTCCCTTACTCCAATGAAGCATCTGGCAAATGCTTTTCTTATT
* *
45446236 GATAAGCATGCTGTCATTTTCTCTTACTCCAATAGAA-CATCTGGCAAAATGCTTTTCTTGTT
1 GATAAGCATGCTGTCATTTTCCCTTACTCCAAT-GAAGCATCTGGC-AAATGCTTTTCTTATT
45446298 GATAAGCAT
1 GATAAGCAT
45446307 TAACCTTTCC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
60 34 0.59
61 3 0.05
62 21 0.36
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (61 bp):
GATAAGCATGCTGTCATTTTCCCTTACTCCAATGAAGCATCTGGCAAATGCTTTTCTTATT
Found at i:45453187 original size:60 final size:61
Alignment explanation
Indices: 45453086--45453216 Score: 158
Period size: 60 Copynumber: 2.1 Consensus size: 61
45453076 GATGCCCTTA
* ** * * **
45453086 GATAAGGATGCTGTCATTTTCCCTTATTGGAGTGAAGCATCTGTC-TTTGCTTTTCTTGTT
1 GATAAGCATGCTGTCATTTTCCCTTATTCCAATGAAGCATCTGGCAAATGCTTTTCTTGTT
*
45453146 GATAAGCATGCTGTCATTTTCTCTTATTCCAATAGAA-CATCTGGCAAAATGCTTTTCTTGTT
1 GATAAGCATGCTGTCATTTTCCCTTATTCCAAT-GAAGCATCTGGC-AAATGCTTTTCTTGTT
45453208 GATAAGCAT
1 GATAAGCAT
45453217 TAACCTTTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 35 0.58
61 3 0.05
62 22 0.37
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (61 bp):
GATAAGCATGCTGTCATTTTCCCTTATTCCAATGAAGCATCTGGCAAATGCTTTTCTTGTT
Found at i:45459861 original size:3 final size:3
Alignment explanation
Indices: 45459853--45459880 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45459843 TACAATAGCC
45459853 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
45459881 AGTGAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:45466294 original size:42 final size:41
Alignment explanation
Indices: 45466247--45466329 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
45466237 AAAAAGAGTT
* *
45466247 GTTTATGAGTGTTATTTAGGAA-TAAAATTATATTTGGGTTTA
1 GTTTATGAGTGTT-TTGA-AAAGTAAAATTATATTTGGGTTTA
*
45466289 GTTTATGAGTGTTTTGAAAAGTGAAATTATATTTGGGTTTA
1 GTTTATGAGTGTTTTGAAAAGTAAAATTATATTTGGGTTTA
45466330 AAAATTGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 2 0.05
41 22 0.59
42 13 0.35
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (41 bp):
GTTTATGAGTGTTTTGAAAAGTAAAATTATATTTGGGTTTA
Found at i:45466343 original size:54 final size:58
Alignment explanation
Indices: 45466276--45466406 Score: 225
Period size: 55 Copynumber: 2.3 Consensus size: 58
45466266 GAATAAAATT
45466276 ATATTTGGGTTTAGTTTATGAGTG-TTTTGAAAAGTGAAATTATATTTGGGTTT-AAA
1 ATATTTGGGTTTAGTTTATGAGTGTTTTTGAAAAGTGAAATTATATTTGGGTTTAAAA
*
45466332 A-A-TTGGGTTTAGTTTATGAGTGTTTTTGAAAAGTGAAATTCTATTTGGGTTTAAAA
1 ATATTTGGGTTTAGTTTATGAGTGTTTTTGAAAAGTGAAATTATATTTGGGTTTAAAA
45466388 ATATTTGGGTTTAGTTTAT
1 ATATTTGGGTTTAGTTTAT
45466407 TGATAGGTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
54 20 0.29
55 29 0.41
56 5 0.07
57 1 0.01
58 15 0.21
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (58 bp):
ATATTTGGGTTTAGTTTATGAGTGTTTTTGAAAAGTGAAATTATATTTGGGTTTAAAA
Found at i:45467827 original size:59 final size:58
Alignment explanation
Indices: 45467737--45467956 Score: 259
Period size: 59 Copynumber: 3.8 Consensus size: 58
45467727 ATTTAGGGTT
* * * * *
45467737 AAAATGGGATTTTGGAAGGTT-TGAGGTTAAAATGGTAATTTTTGGTGAAATCATGGTTA
1 AAAATGGAATTTTGGAAAGTTCAG-GGGTAAAATGGTAATTTTTGGTGAAATCA-GGTCA
* *
45467796 AAAATAGAATTTTGGAAAGTTC-GGGAGTAAAATGGCAATTTTTGGTGAAATCGAGGTCA
1 AAAATGGAATTTTGGAAAGTTCAGGG-GTAAAATGGTAATTTTTGGTGAAATC-AGGTCA
* *
45467855 AAAATGGAAATTTGGAAAGTTCAGGGGTAAAATGGTAACTTTTGGTGAAATC-GCGATCA
1 AAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCAG-G-TCA
* *
45467914 AAAATGGGATTTTGGAAAGTTCAAGGGTAAAAT-GTAATTTTTG
1 AAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTG
45467957 AAAAGTTCGA
Statistics
Matches: 141, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
57 1 0.01
58 12 0.09
59 124 0.88
60 4 0.03
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (58 bp):
AAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCAGGTCA
Found at i:45467962 original size:88 final size:88
Alignment explanation
Indices: 45467865--45468076 Score: 257
Period size: 88 Copynumber: 2.4 Consensus size: 88
45467855 AAAATGGAAA
* * *
45467865 TTTGGAAAGTTC-AGGGGTAAAATGGTAACTTTTGGTGAAATCGCGATCAAAAATGGGATTTTGG
1 TTTGAAAAGTTCGA-GGGTAAAAT-GTAACTTTTAGTGAAATCGCGATCAAAAATGGGATTTTGA
* *
45467929 AAAGTTCAAGGGT-AAAATGTAATT
64 AAAGCTCAAGGGTAAAAACGTAATT
* * * * *
45467953 TTTGAAAAGTTCGAGGGTAAAAATGTAATTTTTAGTGAAATTGGGGTTAAAAATGGGATTTTGAA
1 TTTGAAAAGTTCGAGGGT-AAAATGTAACTTTTAGTGAAATCGCGATCAAAAATGGGATTTTGAA
*
45468018 AAGCTCTAGGGTAAAAACGTAATT
65 AAGCTCAAGGGTAAAAACGTAATT
* *
45468042 TTTGAAAAGCTCGAGGGTAAAAATGTAATTTTTAG
1 TTTGAAAAGTTCGAGGGT-AAAATGTAACTTTTAG
45468077 AAATTTTGAG
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
88 59 0.54
89 50 0.46
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (88 bp):
TTTGAAAAGTTCGAGGGTAAAATGTAACTTTTAGTGAAATCGCGATCAAAAATGGGATTTTGAAA
AGCTCAAGGGTAAAAACGTAATT
Found at i:45467978 original size:30 final size:30
Alignment explanation
Indices: 45467923--45468079 Score: 162
Period size: 30 Copynumber: 5.3 Consensus size: 30
45467913 AAAAATGGGA
* *
45467923 TTTTGGAAAGTTCAAGGGT-AAAATGTAAT
1 TTTTGAAAAGTTCGAGGGTAAAAATGTAAT
45467952 TTTTGAAAAGTTCGAGGGTAAAAATGTAAT
1 TTTTGAAAAGTTCGAGGGTAAAAATGTAAT
* **
45467982 TTTTAGTGAAA-TT-G-GGGTTAAAAATGGGA-
1 TTTT-G-AAAAGTTCGAGGG-TAAAAATGTAAT
* * *
45468011 TTTTGAAAAGCTCTAGGGTAAAAACGTAAT
1 TTTTGAAAAGTTCGAGGGTAAAAATGTAAT
*
45468041 TTTTGAAAAGCTCGAGGGTAAAAATGTAAT
1 TTTTGAAAAGTTCGAGGGTAAAAATGTAAT
45468071 TTTTAGAAA
1 TTTT-GAAA
45468080 TTTTGAGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
27 3 0.03
28 2 0.02
29 32 0.30
30 59 0.56
31 7 0.07
32 3 0.03
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (30 bp):
TTTTGAAAAGTTCGAGGGTAAAAATGTAAT
Found at i:45468062 original size:89 final size:88
Alignment explanation
Indices: 45467913--45468076 Score: 274
Period size: 89 Copynumber: 1.9 Consensus size: 88
45467903 AATCGCGATC
* * * *
45467913 AAAAATGGGATTTTGGAAAGTTCAAGGGTAAAATGTAATTTTTGAAAAGTTCGAGGGTAAAAATG
1 AAAAATGGGATTTTGAAAAGCTCAAGGGTAAAACGTAATTTTTGAAAAGCTCGAGGGTAAAAATG
45467978 TAATTTTTAGTGAAATTGGGGTT
66 TAATTTTTAGTGAAATTGGGGTT
*
45468001 AAAAATGGGATTTTGAAAAGCTCTAGGGTAAAAACGTAATTTTTGAAAAGCTCGAGGGTAAAAAT
1 AAAAATGGGATTTTGAAAAGCTCAAGGGT-AAAACGTAATTTTTGAAAAGCTCGAGGGTAAAAAT
45468066 GTAATTTTTAG
65 GTAATTTTTAG
45468077 AAATTTTGAG
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
88 26 0.37
89 44 0.63
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.32
Consensus pattern (88 bp):
AAAAATGGGATTTTGAAAAGCTCAAGGGTAAAACGTAATTTTTGAAAAGCTCGAGGGTAAAAATG
TAATTTTTAGTGAAATTGGGGTT
Done.