Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 130 of 333
Found at i:41923639 original size:19 final size:19
Alignment explanation
Indices: 41923599--41923685 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
41923589 CCTTAATACA
41923599 TTTTATAAATTTTTA-ATGAT
1 TTTTATAAATTTTTACA--AT
*
41923619 TTTTATAAAATTTTACAAT
1 TTTTATAAATTTTTACAAT
* * *
41923638 TTTTTTATATTTTTATAA-
1 TTTTATAAATTTTTACAAT
* *
41923656 TTTTATAATTTTTTTCTAAT
1 TTTTATAAATTTTTAC-AAT
41923676 TTTTAATAAA
1 TTTT-ATAAA
41923686 ATTTAAATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
18 11 0.21
19 18 0.35
20 18 0.35
21 5 0.10
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTATAAATTTTTACAAT
Found at i:41923684 original size:29 final size:28
Alignment explanation
Indices: 41923591--41923724 Score: 105
Period size: 30 Copynumber: 4.7 Consensus size: 28
41923581 TTCAATGACC
* *
41923591 TTAATACATTTTATAAATTTTTAATGATTT
1 TTAATA-ATTTTATAATTTTTTTAT-ATTT
* *
41923621 TTATAAAATTTTACAATTTTTTTATATTT
1 TTA-ATAATTTTATAATTTTTTTATATTT
*
41923650 TT-ATAATTTTATAATTTTTTTCTAATTT
1 TTAATAATTTTATAATTTTTTTAT-ATTT
* * *
41923678 TTAATAAAATTTA-AA-TATTTTATTTTT
1 TTAAT-AATTTTATAATTTTTTTATATTT
*
41923705 ATTAAT-ATTTAATAATTTTT
1 -TTAATAATTTTATAATTTTT
41923725 ACAAATTTTA
Statistics
Matches: 83, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
26 4 0.05
27 23 0.28
28 20 0.24
29 10 0.12
30 24 0.29
31 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (28 bp):
TTAATAATTTTATAATTTTTTTATATTT
Found at i:41923716 original size:35 final size:36
Alignment explanation
Indices: 41923663--41923736 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 36
41923653 TAATTTTATA
* *
41923663 ATTTTTTTCTAATTTTTAATAAAATTTA-AATATTTT
1 ATTTTTATCTAATATTTAATAAAATTTACAA-ATTTT
**
41923699 ATTTTTAT-TAATATTTAATAATTTTTACAAATTTT
1 ATTTTTATCTAATATTTAATAAAATTTACAAATTTT
41923734 ATT
1 ATT
41923737 GATTTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 24 0.73
36 9 0.27
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (36 bp):
ATTTTTATCTAATATTTAATAAAATTTACAAATTTT
Found at i:41923718 original size:24 final size:26
Alignment explanation
Indices: 41923674--41923723 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
41923664 TTTTTTTCTA
41923674 ATTTTTAATAAAATTTAAAT-ATTTT
1 ATTTTTAATAAAATTTAAATAATTTT
* *
41923699 ATTTTTATTAATATTT-AATAATTTT
1 ATTTTTAATAAAATTTAAATAATTTT
41923724 TACAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTTTAATAAAATTTAAATAATTTT
Found at i:41924168 original size:16 final size:16
Alignment explanation
Indices: 41924149--41924199 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
41924139 AAGTTAAATG
41924149 AAATTCAAGTCAAGTA
1 AAATTCAAGTCAAGTA
41924165 AAA-TCGAA-TCAAGTA
1 AAATTC-AAGTCAAGTA
*
41924180 AAATTCAAGTCAATTA
1 AAATTCAAGTCAAGTA
41924196 AAAT
1 AAAT
41924200 CGAATCGAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 14 0.45
16 17 0.55
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (16 bp):
AAATTCAAGTCAAGTA
Found at i:41924178 original size:15 final size:15
Alignment explanation
Indices: 41924158--41924214 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
41924148 GAAATTCAAG
41924158 TCAAGTAAAATCGAA
1 TCAAGTAAAATCGAA
41924173 TCAAGTAAAATTC-AA
1 TCAAGTAAAA-TCGAA
*
41924188 GTCAATTAAAATCGAA
1 -TCAAGTAAAATCGAA
*
41924204 TCGAGTAAAAT
1 TCAAGTAAAAT
41924215 TAGAAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 23 0.64
16 13 0.36
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (15 bp):
TCAAGTAAAATCGAA
Found at i:41924187 original size:31 final size:31
Alignment explanation
Indices: 41924149--41924215 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
41924139 AAGTTAAATG
41924149 AAATTCAAGTCAAGTAAAATCGAATCAAGTA
1 AAATTCAAGTCAAGTAAAATCGAATCAAGTA
* *
41924180 AAATTCAAGTCAATTAAAATCGAATCGAGTA
1 AAATTCAAGTCAAGTAAAATCGAATCAAGTA
41924211 AAATT
1 AAATT
41924216 AGAAAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (31 bp):
AAATTCAAGTCAAGTAAAATCGAATCAAGTA
Found at i:41928173 original size:40 final size:40
Alignment explanation
Indices: 41928118--41928198 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
41928108 TAGATGAAAG
41928118 AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
1 AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
41928158 AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
1 AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
41928198 A
1 A
41928199 CTTTCCTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (40 bp):
AGATGTTAGTTTTACTTTAAATGAAAACTTTAATTAGTTT
Found at i:41949130 original size:59 final size:59
Alignment explanation
Indices: 41949036--41949153 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
41949026 ATAGCTTAGT
41949036 AAGCTAATATGAAAGAAATAAGCTAGCCTTACCATACATTAACATGCAAATAATATAAC
1 AAGCTAATATGAAAGAAATAAGCTAGCCTTACCATACATTAACATGCAAATAATATAAC
*
41949095 AAGCTAATATGAAAGAAATAAGCTAGCCTTTCCATACATTAACATGCAAATAATATAAC
1 AAGCTAATATGAAAGAAATAAGCTAGCCTTACCATACATTAACATGCAAATAATATAAC
41949154 TTAAGGTAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (59 bp):
AAGCTAATATGAAAGAAATAAGCTAGCCTTACCATACATTAACATGCAAATAATATAAC
Found at i:41957955 original size:135 final size:135
Alignment explanation
Indices: 41957765--41958479 Score: 989
Period size: 135 Copynumber: 5.3 Consensus size: 135
41957755 ATCTATAAAT
* * * * *
41957765 TTTAGCCTGTTACC-CTACTGCTTAGTAAAGATAAAGCTGATGATT-AGAATCTGCTCCATCGCC
1 TTTAGCCTGCT-CCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAGAATCTGCTCCATCGCC
* *
41957828 GGTACGTGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGTTCAATGAAGATAAGATC
65 GGTACGTGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATC
41957893 TGGTATA
130 TGG-ATA
* * * ** * *
41957900 TTTAGCCTGCTCTACTCCTGCTCAGTGAAGATAAGGTTGGTGGCTGAG-ATCTGCTCCATTGCTG
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAGAATCTGCTCCATCGCCG
* * * * * *
41957964 ATACATGGAGATAAGATTCACCAAAATTTGATCTGC-TCTGCTCCTGCTCAGCGAAGATAAGACC
66 GTACGTGGAGATAAGATTCTCCAAAATTTGATCTGCTTC-ACTCCTGCTCAGTGAAGATAAGATC
41958028 TGGTATA
130 TGG-ATA
* *
41958035 TTTAGCCTGCTCCACTCCTGCTCAATGAAGATAAAGCTGATGATTGA-AATCTGCTCCATCGCCG
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAGAATCTGCTCCATCGCCG
* ** *
41958099 GTACGTGGAGATAAGATTCTCTAAAATTCAATCTGCTTCACTCCTGCTCAATGAAGATAAGATCT
66 GTACGTGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT
41958164 GGAATA
131 GG-ATA
* * * *
41958170 TTTAGCCTGTTCCACTCCTGCTTAGTGAAGATAAAGCTAATGATT-AGAATCTGCTCCATCGCCG
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAGAATCTGCTCCATCGCCG
* * *
41958234 GTACGTAGAGATAAGATTCTCTAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT
66 GTACGTGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT
*
41958299 AG-TA
131 GGATA
*
41958303 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTTATGATTG-GAATCTGCTCCATCGCCG
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAGAATCTGCTCCATCGCCG
*
41958367 GTACGTGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAATATAAGATCT
66 GTACGTGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT
41958432 GG-TA
131 GGATA
*
41958436 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTTATGAT
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
41958480 ATCTGTAATC
Statistics
Matches: 516, Mismatches: 57, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
133 169 0.33
134 4 0.01
135 339 0.66
136 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (135 bp):
TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAGAATCTGCTCCATCGCCG
GTACGTGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT
GGATA
Found at i:41958157 original size:46 final size:46
Alignment explanation
Indices: 41958107--41958296 Score: 110
Period size: 45 Copynumber: 4.2 Consensus size: 46
41958097 CGGTACGTGG
41958107 AGATAAGATTCTCTAAAATTCAATCTGCTTCACTCCTGCTCAATGA
1 AGATAAGATTCTCTAAAATTCAATCTGCTTCACTCCTGCTCAATGA
** * * ** * *
41958153 AGATAAGA-TCTGGAATATTTAGCCTG-TTCCACTCCTGCTTAGTGA
1 AGATAAGATTCTCTAAAATTCAATCTGCTT-CACTCCTGCTCAATGA
* * * * * * *
41958198 AGATAA-A---GCTAATGATTAGAATCTGCTCCA-TCGCCGGT--ACGTA
1 AGATAAGATTCTCTAA-AATT-CAATCTGCTTCACTC-CTGCTCAATG-A
* *
41958241 GAGATAAGATTCTCTAAAATTCGATCTGCTTCACTCCTGCTCAGTGA
1 -AGATAAGATTCTCTAAAATTCAATCTGCTTCACTCCTGCTCAATGA
41958288 AGATAAGAT
1 AGATAAGAT
41958297 CTAGTATTTA
Statistics
Matches: 101, Mismatches: 29, Indels: 28
0.64 0.18 0.18
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 18 0.18
45 34 0.34
46 29 0.29
47 6 0.06
48 5 0.05
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (46 bp):
AGATAAGATTCTCTAAAATTCAATCTGCTTCACTCCTGCTCAATGA
Found at i:41958319 original size:43 final size:43
Alignment explanation
Indices: 41958266--41958470 Score: 168
Period size: 43 Copynumber: 4.7 Consensus size: 43
41958256 AAAATTCGAT
*
41958266 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGC
* * **
41958309 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTTA-TGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATC-TAGT-ATT-TAGC
* * * ** *
41958353 CTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCTCCAAAATTT-GAT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TCT--AGTATTTAG-C
* * *
41958399 CTGCTTCACTCCTGCTCAGTGAATATAAGATCTGGTATTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGC
41958442 CTGCTCCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
41958471 GCTTATGATA
Statistics
Matches: 125, Mismatches: 23, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
42 2 0.02
43 67 0.54
44 23 0.18
45 4 0.03
46 22 0.18
47 7 0.06
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGC
Found at i:41967275 original size:21 final size:21
Alignment explanation
Indices: 41967213--41967275 Score: 54
Period size: 26 Copynumber: 2.7 Consensus size: 21
41967203 TAAGTATACT
*
41967213 TTTTCCTCCTCTAACTGCTCTA
1 TTTTCCT-TTCTAACTGCTCTA
*
41967235 TTTTTCTTTCTAATCCAACTGCTCTA
1 TTTTCCTTTC---T--AACTGCTCTA
41967261 TTTTCCTTTCTAACT
1 TTTTCCTTTCTAACT
41967276 CCGAGGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
21 6 0.18
22 6 0.18
23 1 0.03
24 1 0.03
26 19 0.58
ACGTcount: A:0.16, C:0.30, G:0.03, T:0.51
Consensus pattern (21 bp):
TTTTCCTTTCTAACTGCTCTA
Found at i:41997673 original size:69 final size:69
Alignment explanation
Indices: 41997562--41997700 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
41997552 GATAGGAAAA
*
41997562 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
41997627 GCTG
66 GCTG
41997631 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
41997696 GCTG
66 GCTG
41997700 A
1 A
41997701 TAGAGTCTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:42009817 original size:23 final size:23
Alignment explanation
Indices: 42009786--42009841 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
42009776 ACATTATTCG
*
42009786 TGAATATGTTCGATTAAGTTAAA
1 TGAATATGTTCGATTAAATTAAA
*
42009809 TGAACATGTTCGATTAAATTAAA
1 TGAATATGTTCGATTAAATTAAA
42009832 TGAATATGTT
1 TGAATATGTT
42009842 TGTGAACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (23 bp):
TGAATATGTTCGATTAAATTAAA
Found at i:42009852 original size:23 final size:23
Alignment explanation
Indices: 42009786--42009854 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
42009776 ACATTATTCG
* * *
42009786 TGAATATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
*
42009809 TGAACATGTTCGATTAAATTAAA
1 TGAACATGTTCGATGAAATTAAA
* *
42009832 TGAATATGTTTG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
42009855 CAAACGAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 3 0.08
23 37 0.93
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:42011430 original size:30 final size:31
Alignment explanation
Indices: 42011360--42011431 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
42011350 CAATTTGGTA
* *
42011360 ACTAAAATATTCAAAAGTTTTCATTTAAGTT
1 ACTAAATTATTCAAAAGTTTTCATTTAAGTC
* *
42011391 ATTAAATTATTCAAAAGTTTT-TTTTAAGTC
1 ACTAAATTATTCAAAAGTTTTCATTTAAGTC
*
42011421 ACTAGATTATT
1 ACTAAATTATT
42011432 AAGGTTTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (31 bp):
ACTAAATTATTCAAAAGTTTTCATTTAAGTC
Found at i:42018420 original size:129 final size:129
Alignment explanation
Indices: 42018190--42018448 Score: 500
Period size: 129 Copynumber: 2.0 Consensus size: 129
42018180 GATCCTTTAG
*
42018190 CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGTGAGTAAGCATAAAAGCTTAGTAAGTT
1 CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGGGAGTAAGCATAAAAGCTTAGTAAGTT
42018255 GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTAGTACAAATATAAA
66 GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTAGTACAAATATAAA
42018319 CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGGGAGTAAGCATAAAAGCTTAGTAAGTT
1 CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGGGAGTAAGCATAAAAGCTTAGTAAGTT
*
42018384 GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTTGTACAAATATAAA
66 GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTAGTACAAATATAAA
42018448 C
1 C
42018449 ATAGGCTTGA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 128 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.25
Consensus pattern (129 bp):
CTAGCTAGGTAGCATTGAAAGAAAATGGAAGGAAAGAGGGAGTAAGCATAAAAGCTTAGTAAGTT
GCAGATAAATAATTATACAACAACAATTTTACTATGATCATCAAGCTCTTAGTACAAATATAAA
Found at i:42018759 original size:50 final size:49
Alignment explanation
Indices: 42018650--42018919 Score: 199
Period size: 50 Copynumber: 5.7 Consensus size: 49
42018640 GTAACTGCCA
* *
42018650 ATGCCATGTCCCCGACATGGTCTTACACTGGCTATCATCATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGTCG
* * * *
42018699 ATGCCATGTCCCAGACATGGTCTTATACTAGCTCTTGCAT-ATCCG-TGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-AT-CATCAT-CGAGGTCG
* * * * * *
42018749 ATGCCATGTCCCAGACGTAGTCTTACACTAAC-A-CATC-GCTTA-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATC-GAGGTCG
* * * *
42018795 ATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTC-TCTATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCATCGAGGTCG
* * * * *
42018841 ATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAAT--ATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGA-GGTCG
42018889 ATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT
42018920 CACACAAGTA
Statistics
Matches: 180, Mismatches: 27, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
44 13 0.07
45 16 0.09
46 31 0.17
47 29 0.16
48 21 0.12
49 31 0.17
50 34 0.19
51 5 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGTCG
Found at i:42018843 original size:46 final size:47
Alignment explanation
Indices: 42018748--42018918 Score: 192
Period size: 47 Copynumber: 3.7 Consensus size: 47
42018738 TATCCGTGTT
* *
42018748 GATGCCATGTCCCAGACGTAGTCTTACACTAACACATCG-CTTA-GCC
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCAC-TCGTCTTATGCC
42018794 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCTATGCC
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCACTCGTCT-TATGCC
* * * * * **
42018840 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAATATGGCC
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCACTCGTCTTAT-GCC
42018888 GATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCCAGACATAGTCTTACACTAGC
42018919 TCACACAAGT
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
43 3 0.03
44 16 0.15
45 15 0.14
46 22 0.20
47 31 0.28
48 22 0.20
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATAGTCTTACACTAGCACTCGTCTTATGCC
Found at i:42032106 original size:27 final size:27
Alignment explanation
Indices: 42032071--42032428 Score: 436
Period size: 27 Copynumber: 13.3 Consensus size: 27
42032061 CCAAAGTACT
* *
42032071 CTCGATTTATAGAATTGCCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
42032098 CTC-AGTTTACAGAATTACTGTTTTATC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
42032125 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
42032152 CTC-AGTTTACAGAATTACTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
42032179 CTCGATTTATAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* ** *
42032206 CTCAATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
42032233 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
42032260 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
42032287 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
42032314 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
42032341 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** * *
42032368 CTCGATTTGTAAAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
42032395 CTCGATTTACAGGATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
42032422 CTTGATT
1 CTCGATT
42032429 GTGAAATTAC
Statistics
Matches: 285, Mismatches: 38, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.01
27 277 0.97
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:42032129 original size:54 final size:54
Alignment explanation
Indices: 42032071--42032423 Score: 505
Period size: 54 Copynumber: 6.5 Consensus size: 54
42032061 CCAAAGTACT
* * *
42032071 CTCGATTTATAGAATTGCCGTTTTACCCTCAGTTTACAGAATTACTGTTTTATC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACC
* *
42032125 CTCGATTTATAGAATTATCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACC
* * * ** * *
42032179 CTCGATTTATAAAATTACCGTTTTACCCTCAATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACC
*
42032233 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACC
*
42032287 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACC
* *
42032341 CTCGATTTACAGAATTACCATTTTACCCTCGATTTGTA-A-AATTA-TCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACT-GTTTTACC
*
42032395 CTCGATTTACAGGATTACCGTTTTACCCT
1 CTCGATTTACAGAATTACCGTTTTACCCT
42032424 TGATTGTGAA
Statistics
Matches: 273, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 1 0.00
54 266 0.97
55 4 0.01
56 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.41
Consensus pattern (54 bp):
CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACC
Found at i:42032470 original size:27 final size:27
Alignment explanation
Indices: 42032433--42032627 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
42032423 TTGATTGTGA
*
42032433 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
42032460 AATTTCCGAAATACCC-TATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
42032486 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
42032513 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
42032540 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
42032567 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
42032594 AATTACGGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
42032621 AATTACC
1 AATTACC
42032628 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.16
27 120 0.84
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:42032864 original size:27 final size:26
Alignment explanation
Indices: 42032826--42032908 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
42032816 CGGAGGAAGC
*
42032826 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
42032853 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
42032879 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
42032906 GTT
1 GTT
42032909 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:42033028 original size:22 final size:22
Alignment explanation
Indices: 42032996--42033054 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
42032986 CCCGTTATTA
*
42032996 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
42033018 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
42033040 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
42033055 ACGTATTTGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:42034025 original size:40 final size:40
Alignment explanation
Indices: 42033970--42034418 Score: 846
Period size: 40 Copynumber: 11.2 Consensus size: 40
42033960 TTATAATGAT
42033970 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
42034010 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
* *
42034050 TCCCGGATATATCAATTTGCACAAATGCCTTC-GGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
42034089 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
42034129 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
42034169 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
*
42034209 TCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
*
42034249 GCCCGGATATATCAATTCGCACAAATGCCTTCAGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
42034289 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
42034329 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
42034369 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
1 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
*
42034409 GCCCAGATAT
1 GCCCGGATAT
42034419 CATTCAAATT
Statistics
Matches: 399, Mismatches: 9, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
39 37 0.09
40 362 0.91
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
Found at i:42035543 original size:6 final size:6
Alignment explanation
Indices: 42035534--42035805 Score: 208
Period size: 6 Copynumber: 44.8 Consensus size: 6
42035524 TTGCATTCAC
* *
42035534 ATTCTG ATTCTG ATTCTG -TCACATA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
42035583 -TTACTA ATACTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * * *
42035631 -TCACGTA ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG -TTACTG
1 AT-TC-TG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATT-CTG
* * *
42035680 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
42035729 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
42035777 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
42035806 CATTTTGGTT
Statistics
Matches: 213, Mismatches: 26, Indels: 54
0.73 0.09 0.18
Matches are distributed among these distances:
5 19 0.09
6 173 0.81
7 16 0.08
8 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:42035642 original size:67 final size:66
Alignment explanation
Indices: 42035571--42035800 Score: 289
Period size: 67 Copynumber: 3.5 Consensus size: 66
42035561 TCTGATTCTG
42035571 ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACG
1 ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCAC-
42035636 TA
65 TA
42035638 ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACC
1 ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCA-C
42035703 TA
65 TA
* ** * *
42035705 ATTCTGATTCTG--A-T--T-CTGATTTTG-TTACTAATATTGATTCTGATTCTGATTCTGTTAC
1 ATTCTGATTCTGTTACTAATACTGATTCTGATT-CTGTTACTGATTCTGATTCTGATTCTGTCAC
42035763 TA
65 TA
**
42035765 ATAT-TGATTCTGATT-CTGTTACTGATTCTGATTCTG
1 AT-TCTGATTCTG-TTACTAATACTGATTCTGATTCTG
42035801 ATTCTCATTT
Statistics
Matches: 145, Mismatches: 7, Indels: 23
0.83 0.04 0.13
Matches are distributed among these distances:
60 15 0.10
61 35 0.24
62 1 0.01
63 1 0.01
64 1 0.01
65 2 0.01
66 10 0.07
67 79 0.54
68 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (66 bp):
ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACT
A
Found at i:42043719 original size:46 final size:46
Alignment explanation
Indices: 42043521--42043782 Score: 183
Period size: 46 Copynumber: 5.5 Consensus size: 46
42043511 TGCCGATGCC
* * *
42043521 ATGTCCCAGACATGGTCTTACACT-GACTAACATCACCGAGGCTGATGCC
1 ATGTCCCAGACAT-GTCTTATACTGGCCT-ACATC-CCGAGGCTGATG-T
* * * * *
42043570 ATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGA-GCCGATGCC
1 ATGTCCCAGACAT-GTCTTATACTGGC-CT-ACAT-CCCGAGGCTGATG-T
* * ** * * *
42043620 ATGTCCCAGACATGGTCTTACACT-GAC-ACATTTC-ATAGCCGATGC
1 ATGTCCCAGACAT-GTCTTATACTGGCCTACATCCCGA-GGCTGATGT
* * * *
42043665 ATGTCCCAGATATGTCTTATACTGGCTTACGTCTCGAGGCTGATGT
1 ATGTCCCAGACATGTCTTATACTGGCCTACATCCCGAGGCTGATGT
*
42043711 ATGTCCCAGACATGTCTTATACTGGCCTATATCCCGAGGCTGATGCT
1 ATGTCCCAGACATGTCTTATACTGGCCTACATCCCGAGGCTGATG-T
*
42043758 ATGTCCCAGACATGGTCTTACACTG
1 ATGTCCCAGACAT-GTCTTATACTG
42043783 ACTCTCAAAT
Statistics
Matches: 182, Mismatches: 21, Indels: 21
0.81 0.09 0.09
Matches are distributed among these distances:
44 10 0.05
45 16 0.09
46 62 0.34
47 15 0.08
48 11 0.06
49 25 0.14
50 33 0.18
51 10 0.05
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTATACTGGCCTACATCCCGAGGCTGATGT
Found at i:42044207 original size:30 final size:30
Alignment explanation
Indices: 42044167--42044223 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
42044157 AATTCACACC
* *
42044167 TTTGGTAAAATGACCATTTTGCCCCTAGAT
1 TTTGGCAAAATGACCATTTTACCCCTAGAT
42044197 TTTGGCAAAATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
42044224 TGCTCGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAT
Found at i:42050305 original size:13 final size:13
Alignment explanation
Indices: 42050287--42050312 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42050277 CACAACCGGA
42050287 CAATGGCCCGTGT
1 CAATGGCCCGTGT
42050300 CAATGGCCCGTGT
1 CAATGGCCCGTGT
42050313 TCCTCATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
CAATGGCCCGTGT
Found at i:42057776 original size:14 final size:14
Alignment explanation
Indices: 42057757--42057786 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
42057747 CGTCAATAAC
42057757 TCTATACATTTCAA
1 TCTATACATTTCAA
42057771 TCTATACATTTCAA
1 TCTATACATTTCAA
42057785 TC
1 TC
42057787 GCTAATCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (14 bp):
TCTATACATTTCAA
Found at i:42063106 original size:40 final size:40
Alignment explanation
Indices: 42063029--42063210 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
42063019 AACCCAAGTA
* * *
42063029 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
42063068 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42063108 CCTTCGGCACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42063148 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42063188 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42063211 CATCCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 116 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42071010 original size:40 final size:40
Alignment explanation
Indices: 42070933--42071114 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
42070923 AACCCAAGTA
* * *
42070933 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
42070972 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42071012 CCTTCGGCACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42071052 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42071092 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42071115 CATTCGAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 117 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42084535 original size:879 final size:880
Alignment explanation
Indices: 42078711--42085454 Score: 8060
Period size: 880 Copynumber: 7.7 Consensus size: 880
42078701 GTGGTATCCA
* *
42078711 CAAGTATACAGGTCGAGTTGTCATATAGTTTTACAATGATTTAGGTGAGTACTCCGAGGATCGTA
1 CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGGATCGTA
* * *
42078776 CCCAAAG-AGGCGAGTGCTAGATAAATTCTAACCTAAAAACTAAAAGATCTAATTAGTACTTTAA
66 CCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTTAA
* * * * * * * *
42078840 ATTAGTTATAATATGAAATCATAAAATAAAGGATTTTTAAGGTTGTAATAATAATAAAAGAAATT
131 ATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAACAAAAT
* * * * * *
42078905 ATTAAAAAGTAATAAACATCAAGAGATAGAAAAGGAGAATCAATAAAATCTTGAATATGGTTGAT
196 ATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATGGGTGAT
* * * * * * * *
42078970 TAGCTTGCTTCGATAATCCCCATTAACTGTCGTTTGAAGTTTCTCGTTAATCAACTAGTTGCTAC
261 TAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGCTAC
* * * * * * * *
42079035 CTTAGTAGGACCTT-TAGATCTTCCACTAACATAATGAGTCAACAAGAATTGCTTATCTTTCGAC
326 CCTAGTAGGATCTTCT-GATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCTTCCGAC
* * * * *
42079099 CTCACATTCCAGACTGGCTTAGGATGAAGGTGTTCACAAATGGGTCATACCAAATTTGGGTTAAT
390 CTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTTAAT
* * * *
42079164 TCCCACCTTGATGACTTCCTGGGGTTGTCAGGCCTAGGTTTTGTTTCATATTCATCCTTTCCTAA
455 TCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTTTCCTAA
* * *
42079229 ACAGTTGATCCGTTGAGTAACCCTACAAAACAATCAATAATAGATCATGCCTCCACTCGCTAA-C
520 ACAGCTGATCCGTTGAGTAACCCTACAAAACAATC---AATAGATCATACCTCCACTTGCTAATC
* * *
42079293 CCCCTAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAA-AAAACAAAATCTGGGAAGAG
582 CCCC-AAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATA-AAATTCTGGGAAAAG
** * * *
42079357 TATT-TGCTGGAAACAACTTGGAAGACCATATTATTAAAGAAGTTCTAATAATCCATTAGTAACA
645 TATTCT-CCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAACA
** * * ** * * * * *
42079421 ATGTGCAAGCATTCCGTAGGGAAAAATGATGTTTTTATCACTAAGTTCTGATGAGATTACATGAA
709 ATGTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAG
* * * * **
42079486 TTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCACTTCCGGACGTACTAATGTTCTTAG
774 TTTATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAATGTCCAGAG
** *
42079551 TGTGAATACTGTAATAAAATATAGAAATAGGAGGCAGTATT-T
839 TGTGAATACTGTAATAAAATATAGAAATACAAGGGA-TATTCT
* * * * * *
42079593 GCAAGTA-ACAGGTCAAGTTGTAATATAGTTTTTCAATGATATAGGTGAGTACTCTGAGTATCCT
1 -CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGGATCGT
* * *
42079657 ACCCAACAAAAGGCGAGTGCCAAATCAATTCTAACCTAAACACTAAAAGATCTTATTAGTACTTT
65 ACCCAA-AGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTT
* *
42079722 AAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTCTAGGGTTTTTATAATAATAAAATAAA
129 AAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAACAAA
* * * * *
42079787 AAATTTAAAAGAAATAAACTTCAAGAGATAAAAAAGGAGAA-GAATCAAATCTTGATTATTGGTG
194 ATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATGGGTG
* * * ** * *
42079851 ATTAGCTCGCTTTGGTAATCCCCATCAAGTATCGTTTAATCTTCCTCGTCAAGCAACTAGTTACT
259 ATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGCT
* ** * * * * **
42079916 ACCATAGTAGGATCTTCCAAACTTCCACTAACATAATGAGTCAGCAAAGACTATTTATCTTCTAA
324 ACCCTAGTAGGATCTTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCTTCCGA
* * * ** *
42079981 CCTCACTGTCCAGAATGGCGTGGGGTGAAGGTGTTCATGGATAGGCCATACCAAATTTGGGTTAA
389 CCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTTAA
* * *
42080046 TTCCCACCTTGATGACTTCCTAGAGTTGTCAAACCTAGGTTTTGTTTCATG--C-T-TTTTCC-A
454 TTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTTTCCTA
* * * *
42080106 AACAGCTGATCCATTGAGTAACCCTACAAAACAATCAATAGATCATACCTTCACTCGCCAATCCC
519 AACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGCTAATCCC
** * * *
42080171 TTAAA-ACGGGATTAATTCCTCATGGAAGAATGAGGAATGAAAAATAAAATTTTGGGAAAAGTAT
584 CCAAAGA-GGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAAAAGTAT
* * * * * *
42080235 TCAT-TAGAAATAAGTTGGAAGAACATTTTATTAAAGAAGTTCAAATGATTCTTTAGTAACAATG
648 TC-TCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAACAATG
* ** * *
42080299 TGCAAGAATTGTAAAGGTAAGAGGGATGCTTTTCTCAATAAGTTCTGATTAGCTTACATGAGTTT
712 TGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAGTTT
* * * *** * * * *
42080364 ATATTTTTGTTTCAAGTTGATTGTGAATATGTGACAATCTCTGTACATACTAACGTCCAAAGTGT
777 ATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAATGTCCAGAGTGT
* * * *
42080429 GAATACTATAATCAAAGATAGAAATACAAGGCGATATCCGT
842 GAATACTGTAATAAAATATAGAAATACAAGG-GATATTC-T
* * * *
42080470 -AAGTATACAAGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAATACTCCAAGGATTGTA
1 CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGGATCGTA
* * * * * * *
42080534 CCCAAGGGAGGCGGGAGCCAAATCAATTCTAACCTAAACACTAAAAGTTCTAATTAATACTTTAA
66 CCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTTAA
* * *
42080599 ATTGGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAGTAAAATAAAAT
131 ATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAACAAAAT
* * *
42080664 ATTAAAAAGGGATAAACTTCAAGAGATAAAAGAAAGAGAATGAATCAAATCTTGATTATGGGTGA
196 ATTAAAAAGGAATAAACTTCAAGAGATAGAA-AAGGAGAATGAATCAAATCTTGATTATGGGTGA
* * * *
42080729 TTAGCTCACTTCGGTAATCCCCATCAACTATTGTTTCAAGTTCCTTGTCAATCAACTAGTTGCTA
260 TTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGCTA
* *
42080794 CCCTAGTAGTATCTTTCT-ATCTTCCACTAACATAACGAGTCAGCATGGACTACTTATCTTCCGA
325 CCCTAGTAGGATC-TTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCTTCCGA
* * *
42080858 CCTCATAGTCCAGACTAGCTTGGGGTGAAGGTGTTCATAGATGGGCCATACCAAATTTGGGTTAA
389 CCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTTAA
* * * *
42080923 TTCGCACTTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTT-TTTAATGTTCATCCTTTCCTA
454 TTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTTTCCTA
* ** * ** * * * ** *
42080987 AACAGTTGATCTATTAAGTAACCCTATGAAACAGTCAATAGATCAGACCTCCAATTATTAATCCT
519 AACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGCTAATCCC
* * * * **
42081052 TCAAATAGGGATTAATTCCTTAT-GAAGAATGAGGAATGAAGAATAAAATGATGGGAAAAGTATT
584 CCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAAAAGTATT
* * * * * * *
42081116 CGCTAGAAAAAAGTTGGGAGACAAGATTATTAAAAAAGTTCTAATGATCCTTTAGTAACAATGTG
649 CTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAACAATGTG
* ** * * * *
42081181 CAACCATTGTGCAGGTAAAAATGATGTTTTTATCACTAAGTTTTGATGAGCTTACATGAGTTTAT
714 CAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAGTTTAT
* * * * * * *
42081246 GTTTTTGTTTTAAGTTGATTATGAATACGTGACAGCCTCCGGACGTACTAATGTTC-GAAGTGCG
779 GTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAATGTCCAG-AGTGTG
* * *
42081310 AATACTGTAATAACATATAAAAATACAAGAAGG-TATCCAT
843 AATACTGTAATAAAATATAGAAATACAAG--GGATATTC-T
* * ** * * * *
42081350 -AAGCATACAGGTCGAGTTGTAATATACTTTTACAACAATATAGGTGAGTACTCTG-GTTATCCT
1 CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAG-GATCGT
* * *
42081413 ACCCAAA-AGAGGCAAGTGCTAGATCAATTCTAACCTTAACACTAAAAGATCTAATTAGTACTTT
65 ACCCAAAGA-AGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTT
* *
42081477 AAATTAGTTAGAGTATGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAACAAA
129 AAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAACAAA
* * **
42081542 ATATTAAAAAAGAATAAACTTCAAGAGATAAAAAAGGAGAATGAATCAAATCTTGATTATAAGTG
194 ATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATGGGTG
* * * *
42081607 ATTAGCTCGCCTT-GGTAATCCACATCAACTCTCGTTTTAGGTTCCTCGTCAATAAACTAGTTGC
259 ATTAGCTCG-CTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGC
* * * * * *
42081671 CACCCTAGTAGGATTTTAC-GATCTTCCACTAACATGACGTGTCAACAAAGACTACTTATCTTCC
323 TACCCTAGTAGGATCTT-CTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCTTCC
* * ** * *
42081735 GACCTCACAGTCTAGACTGACTAAGGTTGAAGGTGTTCACGGATGGGCCATACCAAATTTGGGTT
387 GACCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTT
* * * **
42081800 AATTCCCACCATGATGACTTCCT-GGGATTGTCAAGCCTAAGTTTTATTTCATGCACGTCCTTTC
452 AATTCCCACCTTGATGACTTCCTAGGG-TTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTTTC
* * *
42081864 CCAAATAGCTGATCCCTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGCTAAT
516 CTAAACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGCTAAT
* * * *
42081929 CCCTCAAAGAGGGATTAGTTCCTCATGAAAGAATAAGGAATGAAGAATAAAATTCTGAGAAAAGT
581 CCCCCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAAAAGT
* * * *
42081994 ATTCTCCAGAAACAAGTTGAAAGACTATATTATTAAAGAAGTTCAAATGATTCTTTAGTAAC-A-
646 ATTCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAACAAT
* * *
42082057 -TGCAAGCATTGTGCAGGTAAGAGGGATGCTTTTCTCAATAAGTTCTGATTAGCTTACATGATTT
711 GTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAGTT
* * *
42082121 TATGATTTTGTTTTAGGTTGATTGTGAATATGTGACTGCCTCCGTACGTACTAATGTTCAGAGTG
776 TATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAATGTCCAGAGTG
* *
42082186 AGAATACTGTAATAAAATATAGAAATACAAGGCGTTATTCT
841 TGAATACTGTAATAAAATATAGAAATACAAGG-GATATTCT
* * * * *
42082227 CAAGTGTACATGTCAAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGATGATTGTA
1 CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGGATCGTA
* * * * *
42082292 CCCTAAGAAGGCAAGTGCTAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGAACTTTGA
66 CCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTTAA
* *
42082357 ATTAGTTATAGTACAAAAGCATAAAATAAA-GATTTTTAGGGTTTTTATAAT-TTAAAACAAAAT
131 ATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAACAAAAT
42082420 ATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATGGGTGAT
196 ATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATGGGTGAT
* * * *
42082485 TAACTTGCTTCGGTAATCCCCATCAACTGTCGTTTCAGGTTCCTCGTTAATCAACTAGTTGCTAC
261 TAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGCTAC
* * *
42082550 CCTAGTAGGATCTT-TCGATCTTCCCCTAACATAATGAGTCAGCAAGGACTACTTATCTTTCGAC
326 CCTAGTAGGATCTTCT-GATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCTTCCGAC
*
42082614 CTCACAGTCCAGACTAGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTTAAT
390 CTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTTAAT
* * * * ** * *
42082679 TCCTACCTTGCTGACTTCTTAGGTTTGTCTGGCCTAGGTTTTGTTTCATGCTCGTCCTTTCCCAA
455 TCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTTTCCTAA
* * * * * * * *
42082744 ATAACTAATTCGTTGAGT-ACCTTGACAAAATAATTAATAGATCACACCTCCACTTGCTAATCCC
520 ACAGCTGATCCGTTGAGTAACCCT-ACAAAACAATCAATAGATCATACCTCCACTTGCTAATCCC
* *
42082808 CCAAAGAGGGATTAGTTCGCT-ATGGAAGAATGAGGAATGAAGAATAAAATTCTAGGAAAACTAT
584 CCAAAGAGGGATTAGTTC-CTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAAAAGTAT
* *
42082872 TCGCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAAGGATCC--T--T--C-A-GT
648 TCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAACAATGT
* * *
42082929 ---ATCATTGTGCAAGTAAAAGGGATGCTTTTATCAATAAGTTCTGATGAGCTTACATGAGTTTA
713 GCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAGTTTA
* * * * * *
42082991 TGTTTTTGTTTTAGGTTTATTATGAATATGTGACCGTCTCCGTACGTACTAATGTCTAGAGTATA
778 TGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAATGTCCAGAGTGTG
* * * *
42083056 AATACTGTAGTAAAATATACAATTAGAAGAGGATA-TCT
843 AATACTGTAATAAAATATAGAAATACAAG-GGATATTCT
* * * *
42083094 GCAAGTATACAGGTCGAGTTGTAATATAGGTTTACAACGATGTAGGTGAGTACTCTGAGTATCGT
1 -CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGGATCGT
* * * *
42083159 ACCCAAGGGAA-GTGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGACCTAATTAGTGCTTT
65 ACCCAA-AGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTT
* *
42083223 AAATTACTTATAGTACGAAAGCAT--AATATA--A-----AGGGTTTTTATAATAATAAAACAAA
129 AAATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAACAAA
* * * * *
42083279 GTATTAAAAAGGAATAAACTTTAAAAGATAGAAAAGAAGAATGAATCAAATCTTAATTATGGGTG
194 ATATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATGGGTG
* * *
42083344 ATTAGCTCGCTTC-GTAATCCCCATCAACTTTCGTTTTAGGTTCCTCGTCAAACAACTAGTTGCT
259 ATTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGCT
* * * * * ** *
42083408 ACCCTAGTAGGATCTTCCGATCTTCCATTAACATAACGATTTAACAAGGACTGTTTATCTTCTGA
324 ACCCTAGTAGGATCTTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCTTCCGA
* * * * * * *
42083473 CCTCAGAGTCCAAACTGGTTTGGGGTAAAGGTGTTCACGGATGGGCCATACCAAATTTAGATTAA
389 CCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTT-A
* * * * *
42083538 ATTCCCACCTT-ATTGACTTCTTGGGGTTTTCAAGCCTAGGTTTTGTTTCAT-TCACATCCTTTC
453 ATTCCCACCTTGA-TGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGT-TCGTCCTTTC
* * * * * * * * *
42083601 CTAAACAACTGATCCATTGTGTAACCCTACAAAATAGTTAATAGATTATACCTCCAGTCGCTAAT
516 CTAAACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGCTAAT
* * ** *
42083666 CCCCCAAACAAGGATTAGTTCCTCATTAAAGAATGAGGAATGAAGAATTAAATTCTGGGAAAAGT
581 CCCCCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAAAAGT
* ** * *
42083731 ATTCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCAAACAATCCTTCAATAACAAT
646 ATTCTCCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAACAAT
* * * *
42083796 GTACAAGCATTGTGCAGGTAAGAGGGATGCTTTTCTCAATAAGTTCTGATTACCTTACATGAGTT
711 GTGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAGTT
* * * * *
42083861 TATGATTTT-TTTCAGGTTGATTGTGAATATGAGACCGCCTCCATACGTACTAATATCCAGAGTG
776 TATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAATGTCCAGAGTG
* * *
42083925 TGAATACTATAAGAAAATATAGAAATACAAGGTGACATTCT
841 TGAATACTGTAATAAAATATAGAAATACAAGG-GATATTCT
* * * *
42083966 CAAGTGTACAGGTCAAGTTGTAATATAGTTTTACAACGATGTAGGTGAGTACTCCGATGATCGTA
1 CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGGATCGTA
* * * * *
42084031 CCCTAGGAAGGTGAGTGCCAGATCAATTCTAACCTAAAAACTAAAAGATCTAATTAGTACTTTGA
66 CCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTTAA
42084096 ATTAGTTATAGTACGAAAGCATAAAATAAA-GATTTTTAGGGTTTTTATAA-ATATAAAACAAAA
131 ATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATA-ATAAAACAAAA
*
42084159 TATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCCTGATTATGGGTGA
195 TATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATGGGTGA
** * * * * * ** *
42084224 TTAGCTTTCTTCAGTAGTCCACATCAACTGTCGTTTTAGGTTCCTTATCAGTCAACTAGTTGCTA
260 TTAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGCTA
* * *
42084289 TCCTAGTAGGATCTTCTGATCTTCCCCTAACATAACGAGTTAGCAAGGACTACTTATCTTCCGAC
325 CCCTAGTAGGATCTTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCTTCCGAC
* * *
42084354 CTCACAGTCTAGACTGGCTTGAGGTGAAGGTGTTTACAGATGGGCCATACCAAATTTGGGTTAAT
390 CTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTTAAT
* * * * * *
42084419 TCCCACCTTGATGACTTCTTAGGGTTGTTAGGCCTAGGTTTTGTTCCATGTTCGTCCTATCCTGA
455 TCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTTTCCTAA
* * * * * *
42084484 ATAACTAATCCGTTGAGT-ACGCCGT-CAAAATAGTTAATAGATCATACCTCCACTTGCTAATCC
520 ACAGCTGATCCGTTGAGTAAC-CC-TACAAAACAATCAATAGATCATACCTCCACTTGCTAATCC
* * * *
42084547 CCCAAAGAGGGACTAGTTCCTTATGGAAGAATGAGGAATGAAGAATAAAATTTTGGGAAAACTAT
583 CCCAAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAAAAGTAT
* * ** * * * * *
42084612 T-TGCCATAAAGAAGTTGGAAGACCATATTATTAAAGGTGTTCTAACGATCCTTCAATATCAATT
648 TCT-CCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAACAATG
*
42084676 TGAAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAGTTT
712 TGCAAGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAGTTT
* * * * * * *
42084741 ATGTTTTTGTTTCAGGTTCATTGTAAATATGTGACCGTCTCCATATGTACTAAAGTCCAGAGTGT
777 ATGTTTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAATGTCCAGAGTGT
** * * * * *
42084806 GAGCACTATAATAAAATATAGAAACACAAGGCAGTATCCG
842 GAATACTGTAATAAAATATAGAAATACAAGGGA-TATTCT
* * **
42084846 CAAGTATAGAGGTCGAGTTGTAATATAGTTTTACAATGATATAGGTGAGTACTCTAAGGATCGTA
1 CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGGATCGTA
* *
42084911 CCCAAGGGAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTTAA
66 CCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTTAA
* ** *
42084976 ATTAGTTATAGTACGAAAGTATAAAATAAAATATTTTTAGGGTTTTTATAATAGTAAAACAAAAT
131 ATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAACAAAAT
* * * * *
42085041 AATAAAAAGGAAAAAACTTCAAGAGATATAAAAGGAGAATGAATTAAATCATGATTATGGGTGAT
196 ATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATGGGTGAT
42085106 TAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGCTAC
261 TAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGCTAC
* * * * * * * *
42085171 CCTGGTAGGATCTTCCT-ATCTTCCCAGTAACATAATGAGTTAGTAAGGATTTCTTATCTTCCAA
326 CCTAGTAGGATCTT-CTGATCTT-CCACTAACATAACGAGTCAGCAAGGACTACTTATCTTCCGA
* * * *
42085235 CCTCATAGTCCAGACTGGCTTGGGGTGAAGGTATTCACGGATGGGCCATACCAAATTTGGGTAAA
389 CCTCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTTAA
** * * * * *
42085300 TTCCCACCTTGATGACTTCCCGGGGTTGTCAAGCGTAGGGTTTGTTTTATGTTTGTCCTTTCCCA
454 TTCCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTTTCCTA
* * * * **
42085365 AATAGCTGATCTGTTGAGTAACCCAACAAAACAGTCAATAGATCATACCTCGGCTTGCTAATCCC
519 AACAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGCTAATCCC
*
42085430 CCATAGAGGGATTAGTTCCTCATGG
584 CCAAAGAGGGATTAGTTCCTCATGG
42085455 TTTTCATAGA
Statistics
Matches: 5018, Mismatches: 750, Indels: 187
0.84 0.13 0.03
Matches are distributed among these distances:
860 171 0.03
861 284 0.06
862 4 0.00
865 2 0.00
866 5 0.00
867 4 0.00
868 268 0.05
869 6 0.00
870 7 0.00
871 209 0.04
872 66 0.01
873 5 0.00
874 3 0.00
875 409 0.08
876 514 0.10
877 254 0.05
878 327 0.07
879 612 0.12
880 897 0.18
881 320 0.06
882 280 0.06
883 229 0.05
884 142 0.03
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (880 bp):
CAAGTATACAGGTCGAGTTGTAATATAGTTTTACAATGATGTAGGTGAGTACTCCGAGGATCGTA
CCCAAAGAAGGCGAGTGCCAGATCAATTCTAACCTAAACACTAAAAGATCTAATTAGTACTTTAA
ATTAGTTATAGTACGAAAGCATAAAATAAAGGATTTTTAGGGTTTTTATAATAATAAAACAAAAT
ATTAAAAAGGAATAAACTTCAAGAGATAGAAAAGGAGAATGAATCAAATCTTGATTATGGGTGAT
TAGCTCGCTTCGGTAATCCCCATCAACTATCGTTTCAGGTTCCTCGTCAATCAACTAGTTGCTAC
CCTAGTAGGATCTTCTGATCTTCCACTAACATAACGAGTCAGCAAGGACTACTTATCTTCCGACC
TCACAGTCCAGACTGGCTTGGGGTGAAGGTGTTCACAGATGGGCCATACCAAATTTGGGTTAATT
CCCACCTTGATGACTTCCTAGGGTTGTCAAGCCTAGGTTTTGTTTCATGTTCGTCCTTTCCTAAA
CAGCTGATCCGTTGAGTAACCCTACAAAACAATCAATAGATCATACCTCCACTTGCTAATCCCCC
AAAGAGGGATTAGTTCCTCATGGAAGAATGAGGAATGAAGAATAAAATTCTGGGAAAAGTATTCT
CCAGAAACAAGTTGGAAGACCATATTATTAAAGAAGTTCTAATGATCCTTTAGTAACAATGTGCA
AGCATTGTGCAGGTAAAAGGGATGCTTTTCTCAATAAGTTCTGATGAGCTTACATGAGTTTATGT
TTTTGTTTTAGGTTGATTGTGAATATGTGACCGCCTCCGTACGTACTAATGTCCAGAGTGTGAAT
ACTGTAATAAAATATAGAAATACAAGGGATATTCT
Found at i:42085614 original size:35 final size:35
Alignment explanation
Indices: 42085568--42085636 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
42085558 TCCAAAAAGT
42085568 TTGAATGCTTTCCACAATTTAGATCTCTTGAGCAG
1 TTGAATGCTTTCCACAATTTAGATCTCTTGAGCAG
*
42085603 TTGAATGCTTTCTACAATTTAGATCTCTTGAGCA
1 TTGAATGCTTTCCACAATTTAGATCTCTTGAGCA
42085637 CAACAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (35 bp):
TTGAATGCTTTCCACAATTTAGATCTCTTGAGCAG
Found at i:42088336 original size:17 final size:18
Alignment explanation
Indices: 42088316--42088361 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
42088306 TTTTTATCAT
*
42088316 TTATCATTTTTTGGGCA-
1 TTATCATTTATTGGGCAC
* *
42088333 TTATAATTAATTGGGCAC
1 TTATCATTTATTGGGCAC
42088351 TT-TCATTTATT
1 TTATCATTTATT
42088362 AGGCTTTAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (18 bp):
TTATCATTTATTGGGCAC
Found at i:42092058 original size:43 final size:43
Alignment explanation
Indices: 42092010--42092098 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
42092000 GTAGCTATAA
42092010 GTACCAAATAGCTATGGAATTCAAAAATTGAAGTCCTTATATG
1 GTACCAAATAGCTATGGAATTCAAAAATTGAAGTCCTTATATG
*
42092053 GTACCAAATAGCTATGGAATTCAAAAATTGAGGTCCTTATATG
1 GTACCAAATAGCTATGGAATTCAAAAATTGAAGTCCTTATATG
42092096 GTA
1 GTA
42092099 ATTAGACCGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (43 bp):
GTACCAAATAGCTATGGAATTCAAAAATTGAAGTCCTTATATG
Found at i:42093335 original size:24 final size:25
Alignment explanation
Indices: 42093298--42093344 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
42093288 CACTTAAATA
*
42093298 TCCTGTTATATAGCTATTCGGAGCT
1 TCCTGATATATAGCTATTCGGAGCT
*
42093323 TCCTGATA-ATAGCTTTTCGGAG
1 TCCTGATATATAGCTATTCGGAG
42093345 TTACCTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (25 bp):
TCCTGATATATAGCTATTCGGAGCT
Found at i:42096920 original size:27 final size:27
Alignment explanation
Indices: 42096890--42097067 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
42096880 ATATTGAGTC
* * * *
42096890 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42096917 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
42096944 CGCACAGTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42096972 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42096999 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42097026 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42097053 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42097068 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42097029 original size:82 final size:81
Alignment explanation
Indices: 42096911--42097066 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42096901 TGCTATATAA
* * *
42096911 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACAGTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42096976 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42096993 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42097057 CACTTAGTGC
65 CACTTAGTGC
42097067 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42101721 original size:27 final size:27
Alignment explanation
Indices: 42101691--42101865 Score: 181
Period size: 27 Copynumber: 6.4 Consensus size: 27
42101681 ATATTGAGTC
* *
42101691 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
42101718 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
42101745 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
42101773 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
42101800 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
42101827 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
42101854 CGCACACTTAGT
1 CGCACACTTAGT
42101866 CCTGTACAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:42101830 original size:82 final size:81
Alignment explanation
Indices: 42101712--42101865 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 81
42101702 TGCTATATAA
* *
42101712 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42101777 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42101794 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42101858 CACTTAGT
65 CACTTAGT
42101866 CCTGTACAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.22
82 51 0.78
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42101851 original size:54 final size:54
Alignment explanation
Indices: 42101691--42101865 Score: 201
Period size: 54 Copynumber: 3.2 Consensus size: 54
42101681 ATATTGAGTC
* * * *
42101691 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
42101745 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
42101800 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
42101854 CGCACACTTAGT
1 CGCACACTTAGT
42101866 CCTGTACAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 55 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:42108361 original size:27 final size:27
Alignment explanation
Indices: 42108331--42108508 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42108321 ATATTGAGTC
* * * *
42108331 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42108358 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42108385 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42108413 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42108440 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42108467 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42108494 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42108509 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42108470 original size:82 final size:81
Alignment explanation
Indices: 42108352--42108507 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42108342 TGCTATATAA
* *
42108352 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42108417 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42108434 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42108498 CACTTAGTGC
65 CACTTAGTGC
42108508 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42113250 original size:46 final size:45
Alignment explanation
Indices: 42113102--42113272 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
42113092 TGATATGAGC
* * *
42113102 GCCAGTGTAAGACATGTCTAGGACATGCATCGACCACATTATGA-G-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-GC-C-TTAGGACGAA
* ** *
42113148 GCCAGTGTAAGACCATGTCTGGGACAAGGCATCGGTATT-GAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGAC-ATGCATCGGCCTTAG-GACGA-A
*
42113196 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAGGACGTAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAGGACG-AA
*
42113242 GCCAGTGTAAGACATGTCTGGAACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
42113273 AACTACGGGA
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 4 0.04
46 56 0.54
47 25 0.24
48 18 0.17
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAGGACGAA
Found at i:42113366 original size:46 final size:44
Alignment explanation
Indices: 42113248--42113367 Score: 125
Period size: 46 Copynumber: 2.6 Consensus size: 44
42113238 GTAAGCCAGT
* * * *
42113248 GTAAGACATGTCTGGAACATGCATCAACTACGGGATGTGTCAGT
1 GTAAGACATGTCTGGGACATGCGTCAGCTACGGGATGTGTCAGG
* * *
42113292 GTAATACCATGTCTGGGACATGGCGTCAGC-ATGGATATGTGTGCTAGG
1 GTAAGA-CATGTCTGGGACAT-GCGTCAGCTACGG-GATGTGT-C-AGG
42113340 GTAAGACATGTCTGGGACATGCGTCAGC
1 GTAAGACATGTCTGGGACATGCGTCAGC
42113368 CACATCGTGA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
44 5 0.08
45 16 0.25
46 20 0.32
47 15 0.24
48 7 0.11
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (44 bp):
GTAAGACATGTCTGGGACATGCGTCAGCTACGGGATGTGTCAGG
Found at i:42113387 original size:138 final size:138
Alignment explanation
Indices: 42113150--42113449 Score: 331
Period size: 138 Copynumber: 2.2 Consensus size: 138
42113140 TTATGAGAGC
* * * *
42113150 CAGTGTAAGACCATGTCTGGGACAAGGCATCGGTATTGAGACGAGTGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACAAGGCATCAGCATGGAGACGAGTGCTAGGGTAAGACATGTCT
* *
42113215 GGGACATGCATCGGCCTTAGGACGTAAGCCAGTGTAAGA-CATGTCTGGAACAT-GCATCAACTA
66 GGGACATGCATCAGCC-TAGCACGTAAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAACT-
*
42113278 CGGGATGTGT
129 CGAGATGTGT
* * * * * *
42113288 CAGTGTAATACCATGTCTGGGACATGGCGTCAGCATGGATATGTGTGCTAGGGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACAAGGCATCAGCATGGAGACGAGTGCTAGGGTAAGACATGTCT
* * * * *
42113353 GGGACATGCGTCAGCC-A-CATCGTGAAAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGAC
66 GGGACATGCATCAGCCTAGCA-CGT--AAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAAC
* *
42113416 TTGATATGTGT
128 TCGAGATGTGT
*
42113427 TAGTGTAAGACC-TGTCTGGGACA
1 CAGTGTAAGACCATGTCTGGGACA
42113450 CGGTATCGAC
Statistics
Matches: 135, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
135 1 0.01
136 4 0.03
138 93 0.69
139 29 0.21
140 8 0.06
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (138 bp):
CAGTGTAAGACCATGTCTGGGACAAGGCATCAGCATGGAGACGAGTGCTAGGGTAAGACATGTCT
GGGACATGCATCAGCCTAGCACGTAAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAACTCG
AGATGTGT
Found at i:42117126 original size:96 final size:96
Alignment explanation
Indices: 42116979--42117896 Score: 1433
Period size: 96 Copynumber: 9.6 Consensus size: 96
42116969 AATTCTAAAT
*
42116979 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
*
42117044 GGCCGATGTGATGAATGTGAAAGTGTATATG
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
42117075 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
*
42117140 GGCCGATGTGATGAATGTGAAAGTGTATATG
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
*
42117171 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
*
42117236 GGCCGATGTGATGAATGTGAAAGTGTATATG
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
42117267 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
* *
42117332 GGCCGATGTGATGAATGTAAAAGTGTATATG
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
*
42117363 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
42117428 GGCCGATGTGATGAATGTGAAAGTGTATATA
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
*
42117459 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
42117522 GGCCGATGTGATGAATGTGAAAGTGTATATATA
66 GGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
42117555 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGCGATAAGGCCTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
*
42117618 AGCCGATGTGATGAATGTGAAAGTGTATATATA
66 GGCCGATGTGATGAATGTGAAAGTG--TATATA
**
42117651 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGCGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
42117714 GGCCGATGTGATGAATGTGAAAGTGTATATATA
66 GGCCGATGTGATGAATGTGAAAGTG--TATATA
**
42117747 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGCGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
42117810 GGCCGATGTGATGAATGTGAAAGTGTATATA
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * ** * * * *
42117841 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
42117897 TCCCGAAGGG
Statistics
Matches: 783, Mismatches: 35, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
94 94 0.12
95 1 0.00
96 688 0.88
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:42117591 original size:335 final size:335
Alignment explanation
Indices: 42116979--42117896 Score: 1592
Period size: 335 Copynumber: 2.7 Consensus size: 335
42116969 AATTCTAAAT
* **
42116979 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGCGTGATAAGGCTTAAT
* * * *
42117044 GGCCGATGTGATGAATGTGAAAGTG--TATATGTGCGATAAGGCCTAATAGCCGATGTGATGAAT
64 GGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAAT
**
42117107 GTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGC
129 GTGAAAGTG--TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
42117172 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATG
192 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATG
42117237 GCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTG
257 GCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTG
42117302 AAAGTGTATATATA
322 AAAGTGTATATATA
*
42117316 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTAAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
42117381 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGT
66 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGT
42117446 GAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 GAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
42117511 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
196 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
42117576 ATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
261 ATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
42117641 TGTATATATA
326 TGTATATATA
42117651 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
42117716 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGT
66 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGT
**
42117781 GAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 GAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
42117846 CAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
196 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
42117897 TCCCGAAGGG
Statistics
Matches: 558, Mismatches: 21, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
333 10 0.02
334 1 0.00
335 465 0.83
337 82 0.15
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (335 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGT
GAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
TGTATATATA
Found at i:42118070 original size:37 final size:37
Alignment explanation
Indices: 42118014--42118092 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42118004 TCGAGCTCTA
* * *
42118014 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
42118051 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42118088 AAGAC
1 AAGAC
42118093 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:42121964 original size:43 final size:44
Alignment explanation
Indices: 42121903--42122035 Score: 151
Period size: 51 Copynumber: 2.9 Consensus size: 44
42121893 TAAATCTGAA
* *
42121903 CTCGTTGAGTGGTTCGAGTTCATTATGGATGTG-AGCATCCGAG
1 CTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTAACATCCGAG
42121946 CTCGTTGAGTGGTCCGAGTTCATGATGGATGCGATGCATGTAACATCCGAG
1 CTCGTTGAGTGGTCCGAGTTCAT--T--ATG-GATG--TGTAACATCCGAG
* * *
42121997 CTCGTTAAGTGGTCCGAGTTCGTTATGGATGTGTTACAT
1 CTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTAACAT
42122036 GTTATGAGTT
Statistics
Matches: 77, Mismatches: 5, Indels: 15
0.79 0.05 0.15
Matches are distributed among these distances:
43 22 0.29
44 7 0.09
45 1 0.01
46 4 0.05
47 6 0.08
48 4 0.05
49 1 0.01
50 2 0.03
51 30 0.39
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (44 bp):
CTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTAACATCCGAG
Found at i:42126103 original size:34 final size:34
Alignment explanation
Indices: 42126065--42126132 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
42126055 ATAAGTTTAA
42126065 CATGGCATAATCCAACCACAACTTGGCCAAAGCC
1 CATGGCATAATCCAACCACAACTTGGCCAAAGCC
42126099 CATGGCATAATCCAACCACAACTTGGCCAAAGCC
1 CATGGCATAATCCAACCACAACTTGGCCAAAGCC
42126133 TAAGCATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (34 bp):
CATGGCATAATCCAACCACAACTTGGCCAAAGCC
Found at i:42129800 original size:40 final size:40
Alignment explanation
Indices: 42129726--42129867 Score: 209
Period size: 40 Copynumber: 3.6 Consensus size: 40
42129716 AACCCAAGTA
* *
42129726 CCTTCGGGATTTAGC-CGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCTCGGATATAGTC-ACTAGCACAAATG
*
42129765 CCTTCGGGTCTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATG
42129805 CCTTCGGGACTTAG-TCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCT-CGGATATAGTCACTAGCACAAATG
*
42129845 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCTCGGATAT
42129868 CATTCGAATA
Statistics
Matches: 94, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
39 14 0.15
40 79 0.84
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATG
Found at i:42140531 original size:26 final size:27
Alignment explanation
Indices: 42140502--42140596 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 27
42140492 TCGGGTTTTT
42140502 TGTGT-TTCTGTGATTTTTAAAATTTG
1 TGTGTGTTCTGTGATTTTTAAAATTTG
* *
42140528 TGTGTGTTCTG-G-TTGGTTAAAATATATATT
1 TGTGTGTTCTGTGATT--TTTAAA-AT-T-TG
*
42140558 TCTGTGTTTCTGTGATTTTTAAAATTTG
1 TGTGTG-TTCTGTGATTTTTAAAATTTG
42140586 TGTGTGTTCTG
1 TGTGTGTTCTG
42140597 GTTGGTTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 6 0.11
27 15 0.28
28 8 0.15
29 2 0.04
30 8 0.15
31 10 0.19
32 1 0.02
33 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.22, T:0.55
Consensus pattern (27 bp):
TGTGTGTTCTGTGATTTTTAAAATTTG
Found at i:42140592 original size:58 final size:58
Alignment explanation
Indices: 42140502--42140614 Score: 226
Period size: 58 Copynumber: 1.9 Consensus size: 58
42140492 TCGGGTTTTT
42140502 TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATATTTC
1 TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATATTTC
42140560 TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATAT
1 TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATAT
42140615 ATTTTAGTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.53
Consensus pattern (58 bp):
TGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTCTGGTTGGTTAAAATATATATTTC
Found at i:42140605 original size:26 final size:26
Alignment explanation
Indices: 42140518--42140608 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 26
42140508 TCTGTGATTT
42140518 TTAAAATTTGTGTGTGTTCTGGTTGG
1 TTAAAATTTGTGTGTGTTCTGGTTGG
* * *
42140544 TTAAAATATATATTTCTGTGTTTCTGTGATT-T
1 TT-AAA-AT-T-TGTGTGTG-TTCTG-G-TTGG
42140576 TTAAAATTTGTGTGTGTTCTGGTTGG
1 TTAAAATTTGTGTGTGTTCTGGTTGG
42140602 TTAAAAT
1 TTAAAAT
42140609 ATATATATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 10 0.20
27 8 0.16
28 8 0.16
29 2 0.04
30 8 0.16
31 8 0.16
32 3 0.06
33 2 0.04
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.52
Consensus pattern (26 bp):
TTAAAATTTGTGTGTGTTCTGGTTGG
Found at i:42142091 original size:27 final size:26
Alignment explanation
Indices: 42142039--42142098 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
42142029 CCACATATAT
*
42142039 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
42142065 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
42142092 ATATCTG
1 ATATCTG
42142099 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:42144531 original size:47 final size:47
Alignment explanation
Indices: 42144407--42144533 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 47
42144397 ATTGATAAGG
* * * * *
42144407 ACCTACACCATGGCTCATAGCCAAATCAAGCTAACTTATCCCGGAGT
1 ACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTCATCCCGGAAT
* * * * * *
42144454 ATCTATACCATGGCTTGTAACCAAATCAAGGTAACTCCTCTCTGAAT
1 ACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTCATCCCGGAAT
*
42144501 ACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 ACCTATACCATGGCTCGTAGCCAAATCAAGGTA
42144534 TTATTCACAC
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (47 bp):
ACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTCATCCCGGAAT
Found at i:42147760 original size:23 final size:24
Alignment explanation
Indices: 42147732--42147778 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
42147722 TTTCATCTTG
* * *
42147732 TGAATATATCAAAATATC-ATCTA
1 TGAATAAAACAAAAAATCGATCTA
42147755 TGAATAAAACAAAAAATCGATCTA
1 TGAATAAAACAAAAAATCGATCTA
42147779 GATATGGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (24 bp):
TGAATAAAACAAAAAATCGATCTA
Found at i:42149431 original size:47 final size:48
Alignment explanation
Indices: 42149240--42149454 Score: 297
Period size: 48 Copynumber: 4.5 Consensus size: 48
42149230 GACATTGCTG
* * * *
42149240 TTATGTGAGCCACTGTAAGTCCATGTCTAGGACATGGCATCAGTATTA
1 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
* *
42149288 TTATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTG
1 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
*
42149336 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTA
1 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
* * * *
42149384 TTATGAGAGCCAGTGTAAGA-TATGTCTGGGACATGGCATCGGTATTA
1 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
* * *
42149431 TTATGAGAGCCAATGAAAGACCAT
1 TTATGTGAGCCAGTGTAAGACCAT
42149455 ATCTATGATA
Statistics
Matches: 151, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 43 0.28
48 108 0.72
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (48 bp):
TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA
Found at i:42165504 original size:30 final size:30
Alignment explanation
Indices: 42165470--42165529 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
42165460 ATGAATTGGA
42165470 AGCTTTGGCACTAAGTCCGCGATTTAAACT
1 AGCTTTGGCACTAAGTCCGCGATTTAAACT
**
42165500 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTCCGCGATTTAAACT
42165530 TGAGGCACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTCCGCGATTTAAACT
Found at i:42165556 original size:27 final size:27
Alignment explanation
Indices: 42165506--42165557 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
42165496 AACTAGCTTT
* **
42165506 GGCACTAAGTGTGCGATTTAAACTTGA
1 GGCACTAAGTGTACGATACAAACTTGA
*
42165533 GGCACTAAGTGTACGATACCAACTT
1 GGCACTAAGTGTACGATACAAACTT
42165558 AATCTTGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (27 bp):
GGCACTAAGTGTACGATACAAACTTGA
Found at i:42167861 original size:47 final size:46
Alignment explanation
Indices: 42167756--42167886 Score: 129
Period size: 47 Copynumber: 2.8 Consensus size: 46
42167746 CACAATCGAT
* * *
42167756 AAGTACCTACACCATGGCCCGTAGCCAAATCAAGGTAACTTATTCCA
1 AAGTACCTATACCAT-GCCCTTAGCCAAATCAAGGTAACTCATTCCA
* * * **
42167803 AAGTACTTATACCATAGCCCTTAACCAAATCAAGGTAACTCCTCTCTG
1 AAGTACCTATACCAT-GCCCTTAGCCAAATCAAGGTAACTCAT-TCCA
**
42167851 AA-TACCTATACCATGTTCTGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGCCCT-TAGCCAAATCAAGGTA
42167887 TTATTCACAC
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 3 0.04
47 62 0.90
48 4 0.06
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.25
Consensus pattern (46 bp):
AAGTACCTATACCATGCCCTTAGCCAAATCAAGGTAACTCATTCCA
Found at i:42173769 original size:28 final size:28
Alignment explanation
Indices: 42173706--42173856 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
42173696 ATATTAAGTC
*
42173706 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
42173733 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
42173761 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
42173789 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42173817 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
42173846 CGCACACTTAG
1 CGCACACTTAG
42173857 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 22 0.20
28 74 0.67
29 15 0.14
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42191855 original size:25 final size:25
Alignment explanation
Indices: 42191818--42191888 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
42191808 GGGTGTTACA
* * *
42191818 AGCTTACTATTACATGGCTCACATG
1 AGCTCACTGTTACATGGATCACATG
*
42191843 AGCTCACTGTTACATGGATCACATT
1 AGCTCACTGTTACATGGATCACATG
*
42191868 AGCTTC-CTGTTATATGGATCA
1 AGC-TCACTGTTACATGGATCA
42191889 AGACTGTGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (25 bp):
AGCTCACTGTTACATGGATCACATG
Found at i:42196863 original size:20 final size:21
Alignment explanation
Indices: 42196829--42196868 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
42196819 GCAGATTATG
*
42196829 TGTACCAAAGAATTTAGAACT
1 TGTACAAAAGAATTTAGAACT
*
42196850 TGTACAAAAG-ATTTTGAAC
1 TGTACAAAAGAATTTAGAAC
42196869 GAAGCTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTACAAAAGAATTTAGAACT
Found at i:42218900 original size:45 final size:45
Alignment explanation
Indices: 42218851--42218941 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
42218841 CCAAAACATG
42218851 TGTCACATATATCATGAACTAAGACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCATGAACTAAGACCACAACTCAATGAGTTCAGA
*
42218896 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCATGAACTAAGACCACAACTCAATGAGTTCAGA
42218941 T
1 T
42218942 CACATAATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (45 bp):
TGTCACATATATCATGAACTAAGACCACAACTCAATGAGTTCAGA
Found at i:42218939 original size:21 final size:21
Alignment explanation
Indices: 42218872--42218945 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
42218862 TCATGAACTA
42218872 AGACCACAACTCAATGAGTTC
1 AGACCACAACTCAATGAGTTC
* * **
42218893 AGATGTCACATATATC-ATGAACTC
1 AGA--CCACA-A-CTCAATGAGTTC
42218917 AGACCACAACTCAATGAGTTC
1 AGACCACAACTCAATGAGTTC
*
42218938 AGATCACA
1 AGACCACA
42218946 TAATTCCTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
20 2 0.05
21 17 0.44
22 4 0.10
23 4 0.10
24 10 0.26
25 2 0.05
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
AGACCACAACTCAATGAGTTC
Found at i:42223750 original size:40 final size:40
Alignment explanation
Indices: 42223705--42224409 Score: 1205
Period size: 40 Copynumber: 17.6 Consensus size: 40
42223695 CAAGCTCAAT
* * * * *
42223705 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
42223745 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
*
42223785 TGCCTTCGGGTCTTAGCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
42223825 CGCCGTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
42223865 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
42223905 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
42223945 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
42223985 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
42224025 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
42224065 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGGACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
42224105 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGGACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
42224145 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
42224185 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
42224225 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
42224265 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
42224305 TGCCTTCGGGTCTTATCCCTGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
42224345 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
42224385 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
42224410 CATTCAAATG
Statistics
Matches: 634, Mismatches: 29, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.00
40 631 1.00
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:42263955 original size:39 final size:40
Alignment explanation
Indices: 42263854--42264038 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
42263844 TTGAATGATG
* * * *
42263854 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
42263893 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
42263934 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42263973 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42264012 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42264039 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:42263990 original size:79 final size:81
Alignment explanation
Indices: 42263854--42264038 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
42263844 TTGAATGATG
* * *
42263854 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
42263918 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
42263933 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
42263995 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
42264013 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42264039 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:42264060 original size:79 final size:79
Alignment explanation
Indices: 42263907--42264071 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
42263897 GGACTAAGAT
* * **
42263907 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
42263972 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
42263986 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
42264049 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42264065 CCGAAGG
1 CCGAAGG
42264072 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42271698 original size:40 final size:39
Alignment explanation
Indices: 42271614--42271798 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
42271604 TTGAATGATG
* * * *
42271614 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
42271654 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
42271694 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42271733 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
42271774 -CCGGGCTATGTATCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
42271799 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42271750 original size:79 final size:80
Alignment explanation
Indices: 42271614--42271770 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
42271604 TTGAATGATG
* *
42271614 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
42271679 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* * * **
42271694 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
42271756 TTGTGCGAGTTACTA
64 TTGTGCGAGATACTA
42271771 TAACCGGGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 48 0.72
80 18 0.27
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTAAT
Found at i:42271820 original size:79 final size:79
Alignment explanation
Indices: 42271667--42271831 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
42271657 GGACTAAGAT
* * * **
42271667 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGACCGAAGGCATTTGAACGAGTTACTAA
*
42271732 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
42271746 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTATCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-ACCGAAGGCATTTGAACGAGTTA-C
* *
42271809 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42271825 CCGAAGG
1 CCGAAGG
42271832 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGACCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42278517 original size:18 final size:17
Alignment explanation
Indices: 42278490--42278531 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
42278480 TTAAATCAAG
42278490 AAAAAACAAAAACAAAA
1 AAAAAACAAAAACAAAA
*
42278507 AAAAAACCAAAAAGAAAA
1 AAAAAA-CAAAAACAAAA
42278525 AGAAAAA
1 A-AAAAA
42278532 GTAAACGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 11 0.50
19 5 0.23
ACGTcount: A:0.86, C:0.10, G:0.05, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAAACAAAA
Found at i:42278532 original size:12 final size:12
Alignment explanation
Indices: 42278491--42278532 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
42278481 TAAATCAAGA
*
42278491 AAAAACAAAAAC
1 AAAAAGAAAAAC
42278503 AAAAA-AAAAACC
1 AAAAAGAAAAA-C
*
42278515 AAAAAGAAAAAG
1 AAAAAGAAAAAC
42278527 AAAAAG
1 AAAAAG
42278533 TAAACGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAC
Found at i:42279024 original size:42 final size:42
Alignment explanation
Indices: 42278957--42279414 Score: 558
Period size: 42 Copynumber: 10.9 Consensus size: 42
42278947 AAATTAATTG
*
42278957 CATTTAGAGGCCCAGGTGTGTAGGTCCATTTACTTTTCATTA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * *
42278999 CATTTAGAGGCCCAGATGTGGAGGTCAATTTACTTTTCATTG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * * *
42279041 CATTTAAAGTCCCAGGTGTGAAGGTCCATTCACTTTTCAATA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * *
42279083 CATTTAGAGGCACAAGTGTGGAGGTCCATTTACTTTTCAATG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * *
42279125 CATTTAGAGGCCCAGGTGTTGAGGTTCATTAAATTTTCATTA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * *
42279167 CATTTAGAGACCCAGGTGTGGAGGTTCATTCACTTTTCATTG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * * *
42279209 CATTTAGAGGCCCAAGTATGGGGGCCCATTTACTTTTCATTG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * *
42279251 TATTTAGAGACCCAGGTGTAGAGGTCCATTTACTTTTCATTA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * *
42279293 CATTTAGAGGCCTAGGTATTGAGGTCCATTCACTTTTCATTA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * *
42279335 CATTTAGAGACCCAGGTGTGGAGGTCC-TCTGACTTTTCATTG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCAT-TTACTTTTCATTA
**
42279377 CATTTAGAAACCCAGGTGTGGAGGTCCATTTACTTTTC
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
42279415 TAGTTTACAT
Statistics
Matches: 353, Mismatches: 61, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
41 1 0.00
42 351 0.99
43 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (42 bp):
CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
Found at i:42281212 original size:27 final size:27
Alignment explanation
Indices: 42281174--42281352 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
42281164 TAAATTGTAC
42281174 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
42281201 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** * *
42281227 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGGTTTGACTATGT
*
42281255 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
42281283 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
42281310 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
42281337 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
42281353 GCTCAATATA
Statistics
Matches: 126, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.82
28 22 0.17
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:42281235 original size:54 final size:55
Alignment explanation
Indices: 42281174--42281351 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 55
42281164 TAAATTGTAC
* * *
42281174 AGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
* * ** * *
42281229 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * * *
42281283 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
*
42281337 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42281352 GGCTCAATAT
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
54 60 0.58
55 43 0.42
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:42281288 original size:82 final size:81
Alignment explanation
Indices: 42281175--42281330 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42281165 AAATTGTACA
* *
42281175 GCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42281239 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42281256 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42281321 TGCGAGTTGA
65 TGCGAATTGA
42281331 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 52 0.78
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42281342 original size:82 final size:81
Alignment explanation
Indices: 42281171--42281352 Score: 231
Period size: 82 Copynumber: 2.2 Consensus size: 81
42281161 GATTAAATTG
* *
42281171 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42281236 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
42281252 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
42281316 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42281334 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
42281353 GCTCAATATA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42282684 original size:1 final size:1
Alignment explanation
Indices: 42282678--42282783 Score: 212
Period size: 1 Copynumber: 106.0 Consensus size: 1
42282668 GGTTCGGGTC
42282678 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
42282743 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
42282784 TTGTATAAAT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 105 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:42282985 original size:12 final size:12
Alignment explanation
Indices: 42282951--42282992 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
42282941 AATCAGAATG
* *
42282951 TAAAAATTAAAC
1 TAAAAAATAAAA
*
42282963 TAAATAA-AAAA
1 TAAAAAATAAAA
42282974 TAAAAAATAAAA
1 TAAAAAATAAAA
42282986 TAAAAAA
1 TAAAAAA
42282993 GGCTAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:42283094 original size:37 final size:37
Alignment explanation
Indices: 42283039--42283109 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
42283029 AGTCCCCAAT
42283039 AATGGTGCCAAAAACTTGATAGTCACAAAACTAAAAC
1 AATGGTGCCAAAAACTTGATAGTCACAAAACTAAAAC
*
42283076 AATGGTGCCAAAACCTTGATAGTCACAAAACTAA
1 AATGGTGCCAAAAACTTGATAGTCACAAAACTAA
42283110 CTATAAATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (37 bp):
AATGGTGCCAAAAACTTGATAGTCACAAAACTAAAAC
Found at i:42286431 original size:14 final size:14
Alignment explanation
Indices: 42286412--42286438 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42286402 AATACTTAGT
42286412 TTTGTTCTTAATTA
1 TTTGTTCTTAATTA
42286426 TTTGTTCTTAATT
1 TTTGTTCTTAATT
42286439 CTTAGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTGTTCTTAATTA
Found at i:42292785 original size:40 final size:40
Alignment explanation
Indices: 42292731--42293107 Score: 571
Period size: 40 Copynumber: 9.7 Consensus size: 40
42292721 GAGCATTGGA
*
42292731 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
42292771 ATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
42292810 ATATAT-C-GGCT-AGA-CCGAA--C-ATTATGCGA-TT-
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
42292841 A-ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42292880 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
42292920 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42292960 ATATATCCGGGCTAAGACCCGAA-GCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * **
42292999 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGACG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42293039 ATATATCCGGGCTAAGACCCGAAGGCAAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGC-AATTATGCGAGTTG
* *
42293080 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
42293108 ATGTGTTTGC
Statistics
Matches: 309, Mismatches: 16, Indels: 24
0.89 0.05 0.07
Matches are distributed among these distances:
30 4 0.01
31 2 0.01
32 6 0.02
33 12 0.04
34 6 0.02
36 9 0.03
37 13 0.04
38 3 0.01
39 64 0.21
40 155 0.50
41 35 0.11
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:42293035 original size:79 final size:80
Alignment explanation
Indices: 42292731--42293107 Score: 589
Period size: 79 Copynumber: 4.8 Consensus size: 80
42292721 GAGCATTGGA
42292731 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGA-CCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
42292795 CAATTATGCGAGTTG
66 CAATTATGCGAGTTG
42292810 ATATAT-C-GGCT-AGA-CCGAA--C-ATTATGCGA-TT-A-ATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
42292865 CAATTATGCGAGTTG
66 CAATTATGCGAGTTG
42292880 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
42292945 CAATTATGCGAGTTG
66 CAATTATGCGAGTTG
* *
42292960 ATATATCCGGGCTAAGACCCGAA-GCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
**
42293024 CAATTATGCGAGACG
66 CAATTATGCGAGTTG
* * * *
42293039 ATATATCCGGGCTAAGACCCGAAGGCAAATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAG
1 ATATATCCGGGCTAAGACCCGAAGGC-AATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAG
42293104 GCAA
65 GCAA
42293108 ATGTGTTTGC
Statistics
Matches: 277, Mismatches: 8, Indels: 24
0.90 0.03 0.08
Matches are distributed among these distances:
69 15 0.05
70 29 0.10
71 3 0.01
72 13 0.05
73 4 0.01
74 5 0.02
75 5 0.02
76 4 0.01
77 13 0.05
78 3 0.01
79 82 0.30
80 63 0.23
81 38 0.14
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
CAATTATGCGAGTTG
Found at i:42293054 original size:119 final size:120
Alignment explanation
Indices: 42292731--42293107 Score: 580
Period size: 119 Copynumber: 3.2 Consensus size: 120
42292721 GAGCATTGGA
42292731 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGA-CCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
42292795 CAATTATGCGAGTTGATATAT-C-GGCT-AGA-CCGAA--C-ATTATGCGA-TT-
66 CAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
42292841 A-ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
*
42292905 CAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
66 CAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
42292960 ATATATCCGGGCTAAGACCCGAA-GCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
** *
42293024 CAATTATGCGAGACGATATATCCGGGCTAAGACCCGAAGGCAAATTATGCAAGTTG
66 CAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC-AATTATGCGAGTTG
* *
42293080 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
42293108 ATGTGTTTGC
Statistics
Matches: 243, Mismatches: 11, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
109 54 0.22
110 28 0.12
111 1 0.00
112 4 0.02
113 3 0.01
114 5 0.02
116 1 0.00
117 9 0.04
118 2 0.01
119 77 0.32
120 55 0.23
121 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (120 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
CAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:42310429 original size:46 final size:46
Alignment explanation
Indices: 42310379--42310554 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
42310369 TGGTTGAGCA
*
42310379 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
42310425 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
42310472 TTCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
42310518 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42310555 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 60 0.57
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:42310540 original size:93 final size:93
Alignment explanation
Indices: 42310376--42310547 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
42310366 GGATGGTTGA
* * *
42310376 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCATTGAGT
42310441 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
42310469 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-GAACTCATTGAG
42310533 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
42310548 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42315344 original size:16 final size:17
Alignment explanation
Indices: 42315318--42315350 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
42315308 ATACCAATAC
42315318 CATATCAACATTTATCA
1 CATATCAACATTTATCA
42315335 CATA-CAACATTTATCA
1 CATATCAACATTTATCA
42315351 TGCCATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.33
Consensus pattern (17 bp):
CATATCAACATTTATCA
Found at i:42316975 original size:42 final size:42
Alignment explanation
Indices: 42316874--42317031 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
42316864 ATGTGATCTT
* *
42316874 GTGTAAGACCATGTTTGGGACATTGGCATCG-ATTTGAGATTTAC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGTATTT--GATTT-C
*
42316918 GTGTAAGACCATGTCTGGGACGTCGGCATCGTATTTGATTTC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTTC
* * *
42316960 GTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATCTGATTAC
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATCG-TATTTGATTTC
* *
42317003 ATGTAAGACCACT-TCTAGGACGTTGGCAT
1 GTGTAAGACCA-TGTCTGGGACGTTGGCAT
42317032 TGTACGAGTT
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
42 29 0.29
43 37 0.37
44 29 0.29
45 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTTC
Found at i:42324108 original size:44 final size:42
Alignment explanation
Indices: 42324021--42324181 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 42
42324011 CATAGGATTT
* * * **
42324021 TCGATTTGTGATTTCATGTAAGACCACGTTTG-GGACGCTGGCA
1 TCGATTT-TGATTTCATGTAAGACCATGTCTGAGAAATC-GGCA
*
42324064 TCGATTTGAGATTTACATGTAAGACCATGTCTGAGAAATCGGCA
1 TCGATTT-TGATTT-CATGTAAGACCATGTCTGAGAAATCGGCA
* *
42324108 TCG-TATTTGATTTCGTGTAAGACCCTGTCT-AGAAGAGT-GGCA
1 TCGAT-TTTGATTTCATGTAAGACCATGTCTGAGAA-A-TCGGCA
* * *
42324150 CCGATATTTGATTACATGTAAGAGCATGTCTG
1 TCGAT-TTTGATTTCATGTAAGACCATGTCTG
42324182 GGACATTGGC
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
41 4 0.04
42 22 0.23
43 43 0.44
44 25 0.26
45 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TCGATTTTGATTTCATGTAAGACCATGTCTGAGAAATCGGCA
Found at i:42324137 original size:42 final size:44
Alignment explanation
Indices: 42324076--42324181 Score: 130
Period size: 42 Copynumber: 2.5 Consensus size: 44
42324066 GATTTGAGAT
*
42324076 TTACATGTAAGACCATGTCTGAGAA-A-TCGGCATCG-TATTTGA
1 TTACATGTAAGACCATGTCTGAGAAGAGT-GGCACCGATATTTGA
* * *
42324118 TTTCGTGTAAGACCCTGTCT-AGAAGAGTGGCACCGATATTTGA
1 TTACATGTAAGACCATGTCTGAGAAGAGTGGCACCGATATTTGA
*
42324161 TTACATGTAAGAGCATGTCTG
1 TTACATGTAAGACCATGTCTG
42324182 GGACATTGGC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
41 4 0.08
42 24 0.46
43 24 0.46
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (44 bp):
TTACATGTAAGACCATGTCTGAGAAGAGTGGCACCGATATTTGA
Found at i:42326026 original size:43 final size:42
Alignment explanation
Indices: 42325927--42326017 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 42
42325917 AAGATTATGC
* * * *
42325927 CTGGGACATTAGCATCGTATTTGATTTCATGTAAGACCCTGT
1 CTGGGACAGTGGCATCGTATTTGATTACATGTAAGACCCTAT
*
42325969 TTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCAC-AT
1 CTGGGACAGTGGCATCG-TATTTGATTACATGTAAGACC-CTAT
42326012 CTGGGA
1 CTGGGA
42326018 TGTTGGCATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 14 0.34
43 26 0.63
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
CTGGGACAGTGGCATCGTATTTGATTACATGTAAGACCCTAT
Found at i:42338924 original size:17 final size:17
Alignment explanation
Indices: 42338902--42338942 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
42338892 GTGTGTCTCA
42338902 GCCATGTGCAACACACG
1 GCCATGTGCAACACACG
*
42338919 GCCATGTGCGACACACG
1 GCCATGTGCAACACACG
*
42338936 GTCATGT
1 GCCATGT
42338943 TACACAGCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.27, T:0.17
Consensus pattern (17 bp):
GCCATGTGCAACACACG
Found at i:42340515 original size:42 final size:43
Alignment explanation
Indices: 42340407--42340521 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
42340397 TACCAACACC
42340407 ATATCCC-AGATATGGTCTTACATGAAATCTCGTATCGATGCCA
1 ATATCCCAAG-TATGGTCTTACATGAAATCTCGTATCGATGCCA
* * * *
42340450 ATAGCCCAACTATGGTCTTACATGAAGTCTCGTATCGATG-CT
1 ATATCCCAAGTATGGTCTTACATGAAATCTCGTATCGATGCCA
* * *
42340492 ATATCCCAAGTATGGACTCACATGTAATCT
1 ATATCCCAAGTATGGTCTTACATGAAATCT
42340522 TACTAACCCT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 25 0.41
43 35 0.57
44 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
ATATCCCAAGTATGGTCTTACATGAAATCTCGTATCGATGCCA
Found at i:42341506 original size:54 final size:54
Alignment explanation
Indices: 42341429--42341536 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
42341419 CTGCCAGGAT
* * * *
42341429 AGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGTAGAGCCACTAGAAC
1 AGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCACAAGAAC
* * *
42341482 AGATATTTGTGGCATAGCCACCAGAAACAGATATTTGTGGCATAGCCACAAGAAC
1 AGATA-TTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCACAAGAAC
42341537 GCTTCCTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
53 5 0.11
54 23 0.50
55 18 0.39
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (54 bp):
AGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCACAAGAAC
Found at i:42341519 original size:28 final size:27
Alignment explanation
Indices: 42341429--42341535 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
42341419 CTGCCAGGAT
* * *
42341429 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGAAAC
* *
42341456 AGATATTGTGGTAGAGCCACTAG-AAC
1 AGATATTGTGGCAGAGCCACCAGAAAC
*
42341482 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAAC
* *
42341510 AGATATTTGTGGCATAGCCACAAGAA
1 AGATA-TTGTGGCAGAGCCACCAGAA
42341536 CGCTTCCTCC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.10
27 34 0.49
28 28 0.41
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGAAAC
Found at i:42344520 original size:17 final size:17
Alignment explanation
Indices: 42344498--42344531 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
42344488 TGAGTTCTAG
42344498 TAGCTAT-AAATATCAAA
1 TAGCTATGAAAT-TCAAA
42344515 TAGCTATGAAATTCAAA
1 TAGCTATGAAATTCAAA
42344532 ACTTATGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (17 bp):
TAGCTATGAAATTCAAA
Found at i:42344890 original size:35 final size:35
Alignment explanation
Indices: 42344844--42344915 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
42344834 AAGTGTCGAG
42344844 GTAAGTTTGTGTAACTAAATTATGTATATTAATAT
1 GTAAGTTTGTGTAACTAAATTATGTATATTAATAT
42344879 GTAAGTTTGTGTAACTAAATTATGTATATTAATAT
1 GTAAGTTTGTGTAACTAAATTATGTATATTAATAT
42344914 GT
1 GT
42344916 TTGAATTGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (35 bp):
GTAAGTTTGTGTAACTAAATTATGTATATTAATAT
Found at i:42345229 original size:63 final size:64
Alignment explanation
Indices: 42345151--42345279 Score: 172
Period size: 65 Copynumber: 2.0 Consensus size: 64
42345141 GTGAGCATCC
* * * * *
42345151 TGATCGGTAGTGATCCTGCATGTGTTGCGG-AC-TGTTGCAGCTCTTTATGAGCATCCTGTTATA
1 TGATCGGTAGTGATCCTACATATATTGCGGAACAAG-TGCAGCTCATTATGAGCATCCTGTTATA
*
42345214 TGATCGGTTGTGATCCTACATATATTGCGGACACAAGTGCAGCTCATTATGAGCATCCTGTTATA
1 TGATCGGTAGTGATCCTACATATATTGCGGA-ACAAGTGCAGCTCATTATGAGCATCCTGTTATA
42345279 T
1 T
42345280 CTCACTTGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 26 0.46
65 30 0.53
66 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (64 bp):
TGATCGGTAGTGATCCTACATATATTGCGGAACAAGTGCAGCTCATTATGAGCATCCTGTTATA
Found at i:42345443 original size:56 final size:56
Alignment explanation
Indices: 42345377--42345483 Score: 187
Period size: 56 Copynumber: 1.9 Consensus size: 56
42345367 GTTAAAACTT
* *
42345377 TTATGAGTTTCCTGTTTAGCCTGGATAAGCTTGCTGATACACGGCTCACATAAATC
1 TTATGAGTTTCCTGTTTAGCCTGGATAACCTTCCTGATACACGGCTCACATAAATC
*
42345433 TTATGAGTTTCCTGTTTAGCCTGGATAACCTTCCTGATACATGGCTCACAT
1 TTATGAGTTTCCTGTTTAGCCTGGATAACCTTCCTGATACACGGCTCACAT
42345484 GAGCATCTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (56 bp):
TTATGAGTTTCCTGTTTAGCCTGGATAACCTTCCTGATACACGGCTCACATAAATC
Found at i:42356412 original size:46 final size:46
Alignment explanation
Indices: 42356320--42356412 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
42356310 ACAATAGGTG
* *
42356320 CCAAATCTAGGTCATGTGTCAAATAATTCTTTTTGTGCGGCTTTAA
1 CCAAATCTAGGTCATGTGTCAAATAATTCTTTTTGTGCGACATTAA
*
42356366 CCAAATGTAGGTCATGTGTCAAATAATTCTTTTTGTGCGACATTAA
1 CCAAATCTAGGTCATGTGTCAAATAATTCTTTTTGTGCGACATTAA
42356412 C
1 C
42356413 TGTCTGGAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (46 bp):
CCAAATCTAGGTCATGTGTCAAATAATTCTTTTTGTGCGACATTAA
Found at i:42357819 original size:72 final size:72
Alignment explanation
Indices: 42357702--42357845 Score: 227
Period size: 72 Copynumber: 2.0 Consensus size: 72
42357692 TGTGTAAAGT
* * *
42357702 TAGCCAATCCATGCCCAAAATCATGTAAAATTCATCAAACGGTAATAGCCTCAAATTAGCCAGAA
1 TAGCCAATCCATGCCCAAAATCATGTAAAATTCATCAAACGGTAATAGCATCAAATTAACCAAAA
42357767 AATTGTA
66 AATTGTA
* *
42357774 TAGCCAATCCATGCCTAAAATCATG-ACAAATTCATCAAATGGTAATAGCATCAAATTAACCAAA
1 TAGCCAATCCATGCCCAAAATCATGTA-AAATTCATCAAACGGTAATAGCATCAAATTAACCAAA
42357838 AAATTGTA
65 AAATTGTA
42357846 ACCCCGAGTC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 1 0.02
72 65 0.98
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (72 bp):
TAGCCAATCCATGCCCAAAATCATGTAAAATTCATCAAACGGTAATAGCATCAAATTAACCAAAA
AATTGTA
Found at i:42361529 original size:21 final size:21
Alignment explanation
Indices: 42361503--42361547 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
42361493 ATTTTATTAC
42361503 ATGGTCAACAATATGTTAGAA
1 ATGGTCAACAATATGTTAGAA
42361524 ATGGTCAACAATATGTTAGAA
1 ATGGTCAACAATATGTTAGAA
42361545 ATG
1 ATG
42361548 ACATGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (21 bp):
ATGGTCAACAATATGTTAGAA
Found at i:42364213 original size:22 final size:22
Alignment explanation
Indices: 42364178--42364236 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
42364168 TAAATACGTT
* *
42364178 TGGCACAAACCCATAGTCAAGA
1 TGGCACAGAGCCATAGTCAAGA
** * * *
42364200 TGGCACAGAGCCATTTTTAGGT
1 TGGCACAGAGCCATAGTCAAGA
42364222 TGGCACAGAGCCATA
1 TGGCACAGAGCCATA
42364237 ATCAGATTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (22 bp):
TGGCACAGAGCCATAGTCAAGA
Found at i:42364611 original size:27 final size:27
Alignment explanation
Indices: 42364550--42364602 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
42364540 ATTTTACCCT
*
42364550 ACAGTGGTATTTCGATAATTTTACAAC
1 ACAGGGGTATTTCGATAATTTTACAAC
*
42364577 CCAGGGGTATTTC-AGTAATTTTACAA
1 ACAGGGGTATTTCGA-TAATTTTACAA
42364603 ATAGGGGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (27 bp):
ACAGGGGTATTTCGATAATTTTACAAC
Found at i:42372168 original size:3 final size:3
Alignment explanation
Indices: 42372160--42372188 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
42372150 AATTGGGTAA
42372160 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
42372189 GAGGTTATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:42373742 original size:6 final size:6
Alignment explanation
Indices: 42373724--42373817 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
42373714 AAGAAACATT
* * *
42373724 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATTAGT ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
42373773 ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
42373818 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.07
6 56 0.80
7 7 0.10
8 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:42373773 original size:31 final size:31
Alignment explanation
Indices: 42373738--42373817 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
42373728 GAACTAGAAT
* * *
42373738 CAGAATCAGAATTAGAATTAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
42373769 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
42373800 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
42373818 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:42374009 original size:27 final size:27
Alignment explanation
Indices: 42373969--42374044 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
42373959 GACAGAGTCT
42373969 ACAGATATTGTGGCAAAGCCACCA-AA
1 ACAGATATTGTGGCAAAGCCACCAGAA
* *
42373995 ATAGATATTTGTGGCATAGCCACCAGAA
1 ACAGATA-TTGTGGCAAAGCCACCAGAA
*
42374023 ACAGATAATGTGGCAAAGCCAC
1 ACAGATATTGTGGCAAAGCCAC
42374045 TTAATAGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.14
27 29 0.67
28 8 0.19
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (27 bp):
ACAGATATTGTGGCAAAGCCACCAGAA
Found at i:42374231 original size:22 final size:22
Alignment explanation
Indices: 42374203--42374267 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
42374193 GCAAATACGT
*
42374203 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
42374225 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
42374247 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
42374268 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:42374751 original size:27 final size:26
Alignment explanation
Indices: 42374695--42375122 Score: 536
Period size: 27 Copynumber: 16.0 Consensus size: 26
42374685 GGGCAAAATG
* * * *
42374695 GTAATTTTACCCCACA-AGGTATCTC
1 GTAATTCTACCCTACAGGGGTATTTC
*
42374720 GGTAATTCCACCCTACAGGGGTATTTTC
1 -GTAATTCTACCCTACAGGGGTA-TTTC
*
42374748 GTAATTTTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
* *
42374774 GGTAATTCTACCCTACAAGGGTATTGC
1 -GTAATTCTACCCTACAGGGGTATTTC
42374801 GATAATTCTACCCTACAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
* *
42374828 GGTAATTCTACCCTGCAGGGGTATTGC
1 -GTAATTCTACCCTACAGGGGTATTTC
42374855 GATAATTCTACCCTACAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
*
42374882 GATAATTCTGCCCTACAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
* *
42374909 GGTAATTCTACCCTATAGGGGTATTGC
1 -GTAATTCTACCCTACAGGGGTATTTC
*
42374936 GGTAATTCTACCCTACAGGGGTATTGC
1 -GTAATTCTACCCTACAGGGGTATTTC
* *
42374963 GATAATTCTACCCTATAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTA-TTTC
*
42374991 GTAATTCTACCCTACAGAGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
* *
42375017 GGTAATTCTACCCTACAGGAGTATTGC
1 -GTAATTCTACCCTACAGGGGTATTTC
42375044 GATAATTCTACCCTACAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
42375071 GGTAATTCTACCCTACAGGGGTATTTC
1 -GTAATTCTACCCTACAGGGGTATTTC
42375098 GATAATTCTACCCTACA-GGGTATTT
1 G-TAATTCTACCCTACAGGGGTATTT
42375123 TGGTAATTTT
Statistics
Matches: 357, Mismatches: 32, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
26 33 0.09
27 315 0.88
28 9 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (26 bp):
GTAATTCTACCCTACAGGGGTATTTC
Found at i:42374833 original size:81 final size:81
Alignment explanation
Indices: 42374694--42375121 Score: 632
Period size: 81 Copynumber: 5.3 Consensus size: 81
42374684 AGGGCAAAAT
* * * * *
42374694 GGTAATTTTACCCCACAA-GGTATCT-CGGTAATTCCACCCTACAGGGGTATTTTC-GTAATTTT
1 GGTAATTCTACCCTACAAGGGTAT-TGCGATAATTCTACCCTACAGGGGTA-TTTCGGTAATTCT
42374756 ACCCTACAGGGGTATTTC
64 ACCCTACAGGGGTATTTC
42374774 GGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
* *
42374839 CCTGCAGGGGTATTGC
66 CCTACAGGGGTATTTC
* * * *
42374855 GATAATTCTACCCTACAGGGGTATTTCGATAATTCTGCCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
* *
42374920 CCTATAGGGGTATTGC
66 CCTACAGGGGTATTTC
* * *
42374936 GGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTATAGGGGTATTTTGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
42375001 CCTACAGAGGTATTTC
66 CCTACAGGGGTATTTC
42375017 GGTAATTCTACCCTAC-AGGAGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 GGTAATTCTACCCTACAAGG-GTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
42375081 CCCTACAGGGGTATTTC
65 CCCTACAGGGGTATTTC
*
42375098 GATAATTCTACCCTAC-AGGGTATT
1 GGTAATTCTACCCTACAAGGGTATT
42375122 TTGGTAATTT
Statistics
Matches: 318, Mismatches: 26, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
80 28 0.09
81 290 0.91
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:42375149 original size:27 final size:27
Alignment explanation
Indices: 42375118--42375190 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
42375108 CCCTACAGGG
*
42375118 TATTTTGGTAATTTTACAAATCGAGGA
1 TATTTTGGTAATTTTACAAACCGAGGA
* * * *
42375145 TATTTGGGTAATTTTATAAACCGGGGG
1 TATTTTGGTAATTTTACAAACCGAGGA
*
42375172 TACTTTGGTAATTTTACAA
1 TATTTTGGTAATTTTACAA
42375191 CTGGGGTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAACCGAGGA
Found at i:42376469 original size:46 final size:47
Alignment explanation
Indices: 42376307--42376617 Score: 192
Period size: 47 Copynumber: 6.6 Consensus size: 47
42376297 TTATTTGTGT
* * * **
42376307 GCCAGTGTAAGACATGTCTGGGATATGCATCAGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAGATGAGA
* * * * * *
42376353 GCCAGTGTAAGGCCATGTCTGGAACATGGCATCGGCATTG-AGACGAGT
1 GCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCTCGAAGATGAGA
* *
42376401 GCTAGTGTAAGACATGTGTGGGACATGCATCGGCCTCGAAGATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAGATGAGA
* * * *
42376448 GCCAGTGCAAGACA-GTCTGGGACATGTATCGG-CT--AAGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAGATG-AGA
* * ** * *
42376491 GCTAGTATAAGACCATGTCTGGGACATGGCATC--AATACGTATATACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-CG-A-AGATGAGA
** * *
42376541 GCTGGTGTAAGACGATGTCTAGGACATGGCATCGGCCTC-AATGATGATA
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAA-GATGAGA
*
42376590 GCCAGTGTAAGACCATGTCTGAGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
42376618 GTATCGTCAA
Statistics
Matches: 200, Mismatches: 45, Indels: 38
0.71 0.16 0.13
Matches are distributed among these distances:
42 1 0.00
43 14 0.07
44 2 0.01
45 14 0.07
46 40 0.20
47 44 0.22
48 22 0.11
49 28 0.14
50 32 0.16
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAGATGAGA
Done.