Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 14 of 290
Found at i:4144197 original size:14 final size:14
Alignment explanation
Indices: 4144178--4144207 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4144168 TGACATTAGG
4144178 TTACCGAGATGTGA
1 TTACCGAGATGTGA
4144192 TTACCGAGATGTGA
1 TTACCGAGATGTGA
4144206 TT
1 TT
4144208 GCATGTAAGA
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:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (14 bp):
TTACCGAGATGTGA
Found at i:4144299 original size:43 final size:43
Alignment explanation
Indices: 4144201--4144390 Score: 217
Period size: 43 Copynumber: 4.5 Consensus size: 43
4144191 ATTACCGAGA
* *
4144201 TGTGATTGCATGTAAGACCATGTCTGGGACA--GCCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
4144242 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
4144285 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATTGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
* * * * * *
4144329 T-TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
4144370 AGGTGATAACATGTAAGACCA
1 -TGTGATTACATGTAAGACCA
4144391 CATCTCGGAT
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
41 31 0.24
43 93 0.73
44 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:4147951 original size:140 final size:140
Alignment explanation
Indices: 4147699--4148207 Score: 581
Period size: 140 Copynumber: 3.6 Consensus size: 140
4147689 TTCTAAGACG
* ** * ***
4147699 ACACTTTTGTGCCAACACTTTTATAAGTGTTGGGATAGACTTGCCAACATACGTTTTGGCCAACT
1 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATACTTTGGCCAACT
* * ** *
4147764 CTTTATATAAGGGTTGGGATATGTATGCCTAATTCAACGCTTAAATAAGAGTCAGCTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAAACAACGCTTAAATAAGAGTCGGCTTTGTCCAA
4147829 CACTATGCCA
131 CACTATGCCA
* ** *
4147839 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGAATAGACTTGTTGACATATACTTTGGCAAACT
1 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATACTTTGGCCAACT
* * *
4147904 CTTTGTATAAGGGTTGGGATATGCATACTTAAAACAATGCTTAAATAAGAGTCGGCTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAAACAACGCTTAAATAAGAGTCGGCTTTGTCCAA
4147969 CACTATGCCGA
131 CACTATGCC-A
** * * * *
4147980 A-ACTTTTGGGCTGACACTTTCCTAAATGTGGGGATAGACTTGTCGAAATATGA-TTTGGCCAAC
1 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATAT-ACTTTGGCCAAC
* * ** * * *
4148043 TCTTTATAAAAGGGTTGGGATATGTATGCTTAAGGCGACGCTTAAATAAGAGTCGGTTTTGTCAA
65 TCTTTATATAAGGGTTGGGATATGCATGCTTAAAACAACGCTTAAATAAGAGTCGGCTTTGTCCA
* * *
4148108 ACATTACGCCG
130 ACACTATGCCA
* * * * * *
4148119 ACCCTTTTGGGCCGACACTTTCCTAAGTGTTGGGACAGACTTGCCGACATATGCTTTGGTCGACT
1 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATACTTTGGCCAACT
* * * *
4148184 CTTTGTATAAAGGTCGGGACATGC
66 CTTTATATAAGGGTTGGGATATGC
4148208 CTTTTCTAAC
Statistics
Matches: 309, Mismatches: 56, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
139 1 0.00
140 305 0.99
141 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (140 bp):
ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATACTTTGGCCAACT
CTTTATATAAGGGTTGGGATATGCATGCTTAAAACAACGCTTAAATAAGAGTCGGCTTTGTCCAA
CACTATGCCA
Found at i:4150415 original size:19 final size:18
Alignment explanation
Indices: 4150393--4150432 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
4150383 TGAATAAAAC
4150393 TTATATACCTAAATAAGAT
1 TTATATACCTAAATAA-AT
*
4150412 TTATCTACCTAAATAAAT
1 TTATATACCTAAATAAAT
4150430 TTA
1 TTA
4150433 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATATACCTAAATAAAT
Found at i:4155087 original size:19 final size:18
Alignment explanation
Indices: 4155065--4155104 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
4155055 TGAATAAAAC
4155065 TTATCTACCTAAATAATAT
1 TTATCTACCTAAATAA-AT
4155084 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
4155102 TTA
1 TTA
4155105 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:4156070 original size:42 final size:43
Alignment explanation
Indices: 4155956--4156070 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
4155946 AGTATCACAC
* * * * *
4155956 CAATGCCATATCCTAGATATGGTTTTACA-TAGGATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAGAATCTCATAT
* *
4155998 CAATGCCAATAGCCCAGCTATGGTCTTACACGA-AATCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAGAATCTCATAT
*
4156041 CGATGCCATATCCCAGATATGGTCTTACAC
1 CAATGCCATATCCCAGATATGGTCTTACAC
4156071 ATAAGCTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
42 28 0.46
43 32 0.52
44 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (43 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAGAATCTCATAT
Found at i:4164120 original size:18 final size:20
Alignment explanation
Indices: 4164097--4164150 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
4164087 TCACATTTTC
* *
4164097 CTCTCAACTT-TCTC-AATT
1 CTCTCAAATTCTCTCAAACT
4164115 CTCTCAAATTCTCTCAAACT
1 CTCTCAAATTCTCTCAAACT
*
4164135 CTCTC-AAGTCTCTCAA
1 CTCTCAAATTCTCTCAA
4164151 GTCCCTTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.29
19 14 0.45
20 8 0.26
ACGTcount: A:0.26, C:0.35, G:0.02, T:0.37
Consensus pattern (20 bp):
CTCTCAAATTCTCTCAAACT
Found at i:4164126 original size:10 final size:10
Alignment explanation
Indices: 4164097--4164150 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
4164087 TCACATTTTC
*
4164097 CTCTCAACTT
1 CTCTCAAATT
4164107 -TCTC-AATT
1 CTCTCAAATT
4164115 CTCTCAAATT
1 CTCTCAAATT
*
4164125 CTCTCAAACT
1 CTCTCAAATT
*
4164135 CTCTC-AAGT
1 CTCTCAAATT
4164144 CTCTCAA
1 CTCTCAA
4164151 GTCCCTTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
8 3 0.08
9 16 0.42
10 19 0.50
ACGTcount: A:0.26, C:0.35, G:0.02, T:0.37
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:4164153 original size:9 final size:9
Alignment explanation
Indices: 4164097--4164150 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
4164087 TCACATTTTC
4164097 CTCTCAACT
1 CTCTCAACT
* *
4164106 TTCTCAATT
1 CTCTCAACT
*
4164115 CTCTCAAATT
1 CTCTC-AACT
4164125 CTCTCAAACT
1 CTCTC-AACT
*
4164135 CTCTCAAGT
1 CTCTCAACT
4164144 CTCTCAA
1 CTCTCAA
4164151 GTCCCTTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
9 21 0.54
10 18 0.46
ACGTcount: A:0.26, C:0.35, G:0.02, T:0.37
Consensus pattern (9 bp):
CTCTCAACT
Found at i:4168674 original size:86 final size:85
Alignment explanation
Indices: 4168554--4168710 Score: 194
Period size: 86 Copynumber: 1.8 Consensus size: 85
4168544 TTCTGATATG
* * * *
4168554 TGATTTCGCGTAAGACCACATCTGGGACGTTGGCATTGACT-TTTGTTTTACGTGTAAGACCATG
1 TGATTTCGCGTAAGACCACATCTGGGAAGTTGGCATCGA-TGTTTG-ATTACATGTAAGACCATG
*
4168618 TCTGGGACATTGACATCGTATC
64 TATGGGACATTGACATCGTATC
* *
4168640 TGATTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATGTTTGATTACATGTAAGACCATG
1 TGATTTCGCGTAAGACCAC-ATCTGGGA-AGTTGGCATCGATGTTTGATTACATGTAAGACCATG
4168703 TATGGGAC
64 TATGGGAC
4168711 GTTGGTATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
85 25 0.41
86 35 0.57
87 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (85 bp):
TGATTTCGCGTAAGACCACATCTGGGAAGTTGGCATCGATGTTTGATTACATGTAAGACCATGTA
TGGGACATTGACATCGTATC
Found at i:4168677 original size:42 final size:43
Alignment explanation
Indices: 4168601--4168710 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 43
4168591 GACTTTTGTT
*
4168601 TTACGTGTAAGACCATGTCTGGGACATTGACATCG-TATCTGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATCTGA
* * * * * *
4168643 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATGTTTGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATCTGA
* *
4168686 TTACATGTAAGACCATGTATGGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
4168711 GTTGGTATTG
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 30 0.55
43 25 0.45
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATCTGA
Found at i:4171258 original size:210 final size:210
Alignment explanation
Indices: 4170896--4171315 Score: 770
Period size: 210 Copynumber: 2.0 Consensus size: 210
4170886 ACCTGGCCTC
* *
4170896 CTGGTTATACTTGAACTCGTGACTGCATCACGGCTGTCGATTAGGACCTTCACGTTGAATTCAAC
1 CTGGTTATACTTGAACTCGTGACTGCATCACGGCTATCGACTAGGACCTTCACGTTGAATTCAAC
4170961 CCCTGATTGCATCATGCATTATTGCCTTGAAATCGAATTTCCCCACAATGGGTTTCTAAGGTTAT
66 CCCTGATTGCATCATGCATTATTGCCTTGAAATCGAATTTCCCCACAATGGGTTTCTAAGGTTAT
*
4171026 GGAATTCCCCTAAAAAATACCTAAAAATTTCTACCGTTTCAGTCGAAAACCCTGAACACTTTCAA
131 GGAATTCCCCTAAAAAATACCTAAAAATTTCTACCATTTCAGTCGAAAACCCTGAACACTTTCAA
4171091 AATACCCTAAACCCT
196 AATACCCTAAACCCT
4171106 CTGGTTATACTTGAACTCGTGACTGCATCACGGCTATCGACTAGGACCTTCACGTTGAATTCAAC
1 CTGGTTATACTTGAACTCGTGACTGCATCACGGCTATCGACTAGGACCTTCACGTTGAATTCAAC
*
4171171 CCCTGATTGTATCATGCATTATTGCGC-TGAAATCGAATTTCCCCACAATGGGTTTCTAAGGTTA
66 CCCTGATTGCATCATGCATTATTGC-CTTGAAATCGAATTTCCCCACAATGGGTTTCTAAGGTTA
* *
4171235 TGGATTTCCCCTAAAAAATACCTAAGAATTTCTACCATTTCAGTCGAAAACCCTGAACACTTTCA
130 TGGAATTCCCCTAAAAAATACCTAAAAATTTCTACCATTTCAGTCGAAAACCCTGAACACTTTCA
4171300 AAATACCCTAAACCCT
195 AAATACCCTAAACCCT
4171316 AACTCTAGGA
Statistics
Matches: 203, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
210 202 1.00
211 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (210 bp):
CTGGTTATACTTGAACTCGTGACTGCATCACGGCTATCGACTAGGACCTTCACGTTGAATTCAAC
CCCTGATTGCATCATGCATTATTGCCTTGAAATCGAATTTCCCCACAATGGGTTTCTAAGGTTAT
GGAATTCCCCTAAAAAATACCTAAAAATTTCTACCATTTCAGTCGAAAACCCTGAACACTTTCAA
AATACCCTAAACCCT
Found at i:4172719 original size:24 final size:24
Alignment explanation
Indices: 4172692--4172739 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4172682 GGATTTTTAT
* *
4172692 CATGATCAATATAAAGTTTTGGTA
1 CATGATCAAGATAAAATTTTGGTA
4172716 CATGATCAAGATAAAATTTTGGTA
1 CATGATCAAGATAAAATTTTGGTA
4172740 TACTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (24 bp):
CATGATCAAGATAAAATTTTGGTA
Found at i:4176564 original size:26 final size:26
Alignment explanation
Indices: 4176534--4176641 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
4176524 TGAAATGCCC
4176534 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
4176560 ATCATGGAATATTTACTTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
4176586 ATCATGGAATATTTACCTGATCCATT
1 ATCATGGAACATTTACCTAACCCATT
4176612 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4176638 ATCA
1 ATCA
4176642 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:4182660 original size:13 final size:13
Alignment explanation
Indices: 4182642--4182675 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4182632 TATGGATAAG
4182642 AATACTAAAAACT
1 AATACTAAAAACT
*
4182655 AATACTAACAACT
1 AATACTAAAAACT
*
4182668 ATTACTAA
1 AATACTAA
4182676 TTGTACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (13 bp):
AATACTAAAAACT
Found at i:4199980 original size:40 final size:40
Alignment explanation
Indices: 4199936--4200880 Score: 1639
Period size: 40 Copynumber: 23.6 Consensus size: 40
4199926 GCTCCTCGTT
* * * *
4199936 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TTGTGACTCGCA
4199976 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
* *
4200016 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
*
4200056 CCAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200096 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200136 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200176 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200216 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200256 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200296 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200336 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200376 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200416 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200456 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200496 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200536 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200576 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200616 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200656 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
4200696 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
* *
4200736 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
* * * *
4200776 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTGA-CTCGCA
** * * * *
4200815 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTTGTGAC-TCGCA
*
4200856 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
4200881 CATCATTCAA
Statistics
Matches: 876, Mismatches: 22, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
38 3 0.00
39 31 0.04
40 828 0.95
41 14 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTTGTGACTCGCA
Found at i:4210528 original size:43 final size:43
Alignment explanation
Indices: 4210471--4210675 Score: 207
Period size: 43 Copynumber: 4.8 Consensus size: 43
4210461 TATGTGATAT
*
4210471 TTACATGTAAGACCACGTCTGGGACGTTGGCATAAATATGTGA
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGA
* * *
4210514 TTACATGTAGGACCATGTCTAGGACGTTGGCATCAATATGTGA
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGA
* * * * * *
4210557 TTACGTGTAAGACCACGGCTAGGATGTTGGCATCGATATGTGT
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGA
* ** * * * *
4210600 TTATGA-GTAAGACCTTGTCTGGGACAG-TGGCTTCGATATGAGG
1 TTA-CATGTAAGACCACGTCTGGGAC-GTTGGCATCAATATGTGA
* *
4210643 TTACATGTAAGACCACATCTGGGACATTGGCAT
1 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
4210676 TGTACGATAT
Statistics
Matches: 131, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 129 0.98
44 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGA
Found at i:4213154 original size:15 final size:16
Alignment explanation
Indices: 4213125--4213154 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4213115 CAAACATGCT
4213125 TTAACACATTATCAAA
1 TTAACACATTATCAAA
4213141 TTAACACA-TATCAA
1 TTAACACATTATCAA
4213155 CAATGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:4215408 original size:25 final size:25
Alignment explanation
Indices: 4215315--4215400 Score: 145
Period size: 25 Copynumber: 3.4 Consensus size: 25
4215305 AGCCCATGTA
4215315 AGCATACTGATCTATAGCTCGTGAG
1 AGCATACTGATCTATAGCTCGTGAG
**
4215340 AGCATACCAATCTATAGCTCGTGAG
1 AGCATACTGATCTATAGCTCGTGAG
*
4215365 AGCATACTGATCTATAGCTCGCGAG
1 AGCATACTGATCTATAGCTCGTGAG
4215390 AGCATACTGAT
1 AGCATACTGAT
4215401 TTACAGCTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCATACTGATCTATAGCTCGTGAG
Found at i:4215418 original size:50 final size:50
Alignment explanation
Indices: 4215315--4215421 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
4215305 AGCCCATGTA
* * ***
4215315 AGCATACTGATCTATAGCTCGTGAGAGCATACCAATCTATAGCTCGTGAG
1 AGCATACTGATCTATAGCTCGCGAGAGCATACCAATCTACAGCTAAAGAG
** * *
4215365 AGCATACTGATCTATAGCTCGCGAGAGCATACTGATTTACAGCTAAAGTG
1 AGCATACTGATCTATAGCTCGCGAGAGCATACCAATCTACAGCTAAAGAG
4215415 AGCATAC
1 AGCATAC
4215422 AGATTCACAG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (50 bp):
AGCATACTGATCTATAGCTCGCGAGAGCATACCAATCTACAGCTAAAGAG
Found at i:4223366 original size:79 final size:82
Alignment explanation
Indices: 4223255--4223439 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
4223245 GCTACTCGTT
* * *
4223255 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
4223318 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
4223335 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
4223398 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
4223415 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4223440 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:4223439 original size:40 final size:40
Alignment explanation
Indices: 4223236--4223439 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
4223226 CGGAATTTAA
** *
4223236 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
4223276 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
4223316 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
4223355 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
4223395 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
4223435 CCGGA
1 CCGGA
4223440 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:4231533 original size:12 final size:13
Alignment explanation
Indices: 4231516--4231553 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
4231506 ATCCTGGAAT
4231516 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
4231528 ATTAAGAACACATA
1 ATTAAGAACA-AGA
4231542 ATTAAGAACAAG
1 ATTAAGAACAAG
4231554 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:4232334 original size:40 final size:38
Alignment explanation
Indices: 4232279--4232386 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 38
4232269 CAACAATTCG
* **
4232279 GCTATGTACGGCACTTAGTGTGCGATTCAGGATAGCTTC
1 GCTATGTAAGGCACTTAGTGTGCGATT-AAAATAGCTTC
*
4232318 AGCTATGTAAGGCACTTAGTGTACGACATTAAAATAGCTTC
1 -GCTATGTAAGGCACTTAGTGTGCG--ATTAAAATAGCTTC
*
4232359 GACTATGTATTGGCACTTAGTGTGCGAT
1 G-CTATGTA-AGGCACTTAGTGTGCGAT
4232387 AATTCGAGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
40 25 0.43
41 16 0.28
42 17 0.29
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (38 bp):
GCTATGTAAGGCACTTAGTGTGCGATTAAAATAGCTTC
Found at i:4241401 original size:261 final size:261
Alignment explanation
Indices: 4240937--4241459 Score: 897
Period size: 261 Copynumber: 2.0 Consensus size: 261
4240927 GATAAACCGT
*
4240937 AATTTATACATATTTTTATCTCATGCTTAGCACATTTATGGATGATTTCTCCTTAGATTTGGTAC
1 AATTTATACATATTTTTATCTCATGCTTAGCACATTTATGGACGATTTCTCCTTAGATTTGGTAC
4241002 ATTCGATGCTCCTAACCCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGACAGTAAAAAGA
66 ATTCGATGCTCCTAACCCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGACAGTAAAAAGA
* *
4241067 GCAAGAAACGGTCCAAAAATAGAGAAAATGGGTCAACATGAGAAATCAACACGGCCTGGGCTTCC
131 GCAAGAAACGGGCCAAAAATAGAGAAAATGGGCCAACATGAGAAATCAACACGGCCTGGGCTTCC
** *
4241132 TCACACGGGTAGACCACACGTTAGTGCCTATTTAACAGCCTTGACCATGATCTGAAGCAATCACA
196 TCACACGGGTAGACCACACGCCAGTGCCTATTTAACAGCCTTGACCACGATCTGAAGCAATCACA
4241197 C
261 C
4241198 AATTTATACATATTTTTATCTCATGCTTAGCACATTTATGGACGATTTCTCCTTAGATTTGGTGA
1 AATTTATACATATTTTTATCTCATGCTTAGCACATTTATGGACGATTTCTCCTTAGATTTGGT-A
* *
4241263 -ATTCGATGCTCCTAACCCTTTAATTTCATTTTTTATACTTAGGTGAGCATAGGAGAGTAAAAAG
65 CATTCGATGCTCCTAACCCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGACAGTAAAAAG
* *
4241327 AGCGAGAAACGGGCCAAAAA-AGAAGAAAATGGGCCAACATGGGAAATCAACACGGCCTGGGCTT
130 AGCAAGAAACGGGCCAAAAATAG-AGAAAATGGGCCAACATGAGAAATCAACACGGCCTGGGCTT
* * *
4241391 CCTCACACGGGTAGACCATACGCCCGTGCCTATTTAACAGCCTTGACCACGGTCTGAAGCAATCA
194 CCTCACACGGGTAGACCACACGCCAGTGCCTATTTAACAGCCTTGACCACGATCTGAAGCAATCA
4241456 CAC
259 CAC
4241459 A
1 A
4241460 CGGGCATGTC
Statistics
Matches: 247, Mismatches: 13, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
260 2 0.01
261 244 0.99
262 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (261 bp):
AATTTATACATATTTTTATCTCATGCTTAGCACATTTATGGACGATTTCTCCTTAGATTTGGTAC
ATTCGATGCTCCTAACCCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGACAGTAAAAAGA
GCAAGAAACGGGCCAAAAATAGAGAAAATGGGCCAACATGAGAAATCAACACGGCCTGGGCTTCC
TCACACGGGTAGACCACACGCCAGTGCCTATTTAACAGCCTTGACCACGATCTGAAGCAATCACA
C
Found at i:4241862 original size:12 final size:13
Alignment explanation
Indices: 4241826--4241863 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
4241816 ATATATTTAA
4241826 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
4241839 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
4241853 CTTG-TCTTAAT
1 CTTGTTCTTAAT
4241864 ATTCTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:4243624 original size:17 final size:17
Alignment explanation
Indices: 4243602--4243663 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
4243592 TGAATAATGA
4243602 ATGTATGAAATGATGTT
1 ATGTATGAAATGATGTT
* *
4243619 ATGTATGCTAAATGGTGATGA
1 ATGTATG--AAATGATG-T-T
*
4243640 ATGTATGGAATGATGTT
1 ATGTATGAAATGATGTT
4243657 ATGTATG
1 ATGTATG
4243664 CTAAATGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 14 0.39
18 1 0.03
19 13 0.36
20 1 0.03
21 7 0.19
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (17 bp):
ATGTATGAAATGATGTT
Found at i:4243652 original size:38 final size:38
Alignment explanation
Indices: 4243598--4243672 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
4243588 AGTTTGAATA
4243598 ATGAATGTATGAAATGATGTTATGTATGCTAAATGGTG
1 ATGAATGTATGAAATGATGTTATGTATGCTAAATGGTG
*
4243636 ATGAATGTATGGAATGATGTTATGTATGCTAAATGGT
1 ATGAATGTATGAAATGATGTTATGTATGCTAAATGGT
4243673 TGTTTAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (38 bp):
ATGAATGTATGAAATGATGTTATGTATGCTAAATGGTG
Found at i:4243670 original size:19 final size:19
Alignment explanation
Indices: 4243609--4243670 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
4243599 TGAATGTATG
4243609 AAATGATGTTATGTATGCT
1 AAATGATGTTATGTATGCT
* *
4243628 AAATGGTGATGAATGTATG--
1 AAATGATG-T-TATGTATGCT
*
4243647 GAATGATGTTATGTATGCT
1 AAATGATGTTATGTATGCT
4243666 AAATG
1 AAATG
4243671 GTTGTTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 7 0.21
18 1 0.03
19 17 0.52
20 1 0.03
21 7 0.21
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (19 bp):
AAATGATGTTATGTATGCT
Found at i:4247534 original size:20 final size:20
Alignment explanation
Indices: 4247501--4247571 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
4247491 GATACTGGGA
4247501 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
4247518 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
4247539 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
4247559 TATGAAATGCACA
1 TATGATATGCACA
4247572 AGATGTATTC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.16
20 39 0.80
21 2 0.04
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:4247536 original size:11 final size:11
Alignment explanation
Indices: 4247520--4247558 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4247510 CATGATTGAT
4247520 ATGATATGCAC
1 ATGATATGCAC
*
4247531 ATGATATG--T
1 ATGATATGCAC
4247540 ATGATATGCAC
1 ATGATATGCAC
4247551 ATGATATG
1 ATGATATG
4247559 TATGAAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:4247655 original size:26 final size:26
Alignment explanation
Indices: 4247625--4248619 Score: 1897
Period size: 26 Copynumber: 38.3 Consensus size: 26
4247615 GAGGAAGTGC
**
4247625 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247651 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247677 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247703 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247729 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247755 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247781 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247807 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247833 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247859 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247885 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247911 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247937 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247963 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4247989 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248015 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248041 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248067 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248093 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248119 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248145 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248171 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248197 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248223 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248249 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248275 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248301 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248327 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248353 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248379 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248405 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248431 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248457 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248483 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248509 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
4248535 AAAAGGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
4248561 AAAAGGGCTTATGCCCCAGATTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
4248587 -AAAGGGCTTTTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
4248610 AAAAGAGGCT
1 AAAAG-GGCT
4248620 AGGCCTCCAG
Statistics
Matches: 957, Mismatches: 10, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
24 7 0.01
25 21 0.02
26 929 0.97
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:4256423 original size:9 final size:10
Alignment explanation
Indices: 4256411--4256467 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
4256401 TACGTGGGAT
4256411 ATGATAT-AC
1 ATGATATGAC
*
4256420 ATGAT-TGAT
1 ATGATATGAC
4256429 ATGATATGCAC
1 ATGATATG-AC
*
4256440 ATGATATG-T
1 ATGATATGAC
4256449 ATGATATGCAC
1 ATGATATG-AC
4256460 ATGATATG
1 ATGATATG
4256468 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:4256443 original size:20 final size:20
Alignment explanation
Indices: 4256410--4256484 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
4256400 ATACGTGGGA
4256410 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
4256427 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
4256448 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
4256468 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
4256485 GTATTCATGC
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:4256445 original size:11 final size:11
Alignment explanation
Indices: 4256429--4256484 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
4256419 CATGATTGAT
4256429 ATGATATGCAC
1 ATGATATGCAC
*
4256440 ATGATATG--T
1 ATGATATGCAC
4256449 ATGATATGCAC
1 ATGATATGCAC
*
4256460 ATGATATG--T
1 ATGATATGCAC
*
4256469 ATGAAATGCAC
1 ATGATATGCAC
4256480 ATGAT
1 ATGAT
4256485 GTATTCATGC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:4257337 original size:26 final size:26
Alignment explanation
Indices: 4256529--4257327 Score: 1580
Period size: 26 Copynumber: 30.7 Consensus size: 26
4256519 GAGGAAGTGC
**
4256529 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256555 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256581 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256607 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256633 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256659 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256685 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256711 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256737 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256763 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256789 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256815 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256841 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256867 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256893 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256919 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256945 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256971 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4256997 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257023 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257049 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257075 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257101 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257127 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257153 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257179 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257205 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257231 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257257 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257283 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
4257309 AAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTATGCCCCAG
4257328 ATTTCCGAAA
Statistics
Matches: 771, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 771 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:4259028 original size:24 final size:26
Alignment explanation
Indices: 4258998--4259046 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
4258988 AGTTCATACA
4258998 ATATTAAAGC-ATTTAA-ATACAATT
1 ATATTAAAGCTATTTAACATACAATT
4259022 ATATTAAAGCTTATTTAACATACAA
1 ATATTAAAGC-TATTTAACATACAA
4259047 ACTTACCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATACAATT
Found at i:4259364 original size:14 final size:15
Alignment explanation
Indices: 4259336--4259366 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4259326 TGAAAGCCCA
4259336 CACATTTCATCTATT
1 CACATTTCATCTATT
4259351 CACATTTC-TCTATT
1 CACATTTCATCTATT
4259365 CA
1 CA
4259367 TTTTATAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (15 bp):
CACATTTCATCTATT
Found at i:4264067 original size:12 final size:12
Alignment explanation
Indices: 4264052--4264078 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4264042 ACAGCCTAGC
4264052 ACACGGCCTGGT
1 ACACGGCCTGGT
4264064 ACACGGCCTGGT
1 ACACGGCCTGGT
4264076 ACA
1 ACA
4264079 TGGGCATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (12 bp):
ACACGGCCTGGT
Found at i:4266701 original size:25 final size:26
Alignment explanation
Indices: 4266673--4266728 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
4266663 GATATTGAAT
*
4266673 GATATTGTATGTG-AAC-TGAAAATGG
1 GATATTG-ATGTGAAACATGAAAATGA
* *
4266698 GATAGTGATTTGAAACATGAAAATGA
1 GATATTGATGTGAAACATGAAAATGA
4266724 GATAT
1 GATAT
4266729 ATGAGTTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 4 0.16
25 9 0.36
26 12 0.48
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.30
Consensus pattern (26 bp):
GATATTGATGTGAAACATGAAAATGA
Found at i:4269507 original size:18 final size:18
Alignment explanation
Indices: 4269484--4269519 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4269474 TGTAGGGATG
4269484 GGTGGGTCGATTTTATCC
1 GGTGGGTCGATTTTATCC
4269502 GGTGGGTCGATTTTATCC
1 GGTGGGTCGATTTTATCC
4269520 CCACTAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.33, T:0.39
Consensus pattern (18 bp):
GGTGGGTCGATTTTATCC
Found at i:4269673 original size:34 final size:34
Alignment explanation
Indices: 4269580--4269678 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 34
4269570 CATTTTTGAA
*
4269580 ACTG-TACTGATTTGGGCTAAGGCCCACACTGAT
1 ACTGCTACTGATATGGGCTAAGGCCCACACTGAT
* *
4269613 ACTGCTATTG-TAATGGGCTAAAGCCCACACTGAT
1 ACTGCTACTGAT-ATGGGCTAAGGCCCACACTGAT
* * *
4269647 ATTGCTACTGATATGGGCTTAGGCCCAGACTG
1 ACTGCTACTGATATGGGCTAAGGCCCACACTG
4269679 TACGACACTG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 5 0.09
34 49 0.89
35 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (34 bp):
ACTGCTACTGATATGGGCTAAGGCCCACACTGAT
Found at i:4272465 original size:79 final size:79
Alignment explanation
Indices: 4272364--4272586 Score: 276
Period size: 79 Copynumber: 2.8 Consensus size: 79
4272354 GCTCCTCGTT
* * *
4272364 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
4272429 AATTAGTATCTCGCA
65 AATTAGTATCTCGCA
*
4272444 CAAATGCCTTCGGGCTTAGCCC-GAAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCG
*
4272506 GAATTAGTATGTCGCA
64 GAATTAGTATCTCGCA
* * * * *
4272522 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
4272585 GA
64 GA
4272587 CAACATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 49 0.39
79 53 0.42
80 22 0.18
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTATCTCGCA
Found at i:4272483 original size:39 final size:40
Alignment explanation
Indices: 4272364--4272586 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
4272354 GCTCCTCGTT
* *
4272364 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
*
4272404 CAAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
4272444 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
4272483 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATGTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
4272522 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
4272563 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4272587 CAACATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 63 0.38
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:4272547 original size:118 final size:119
Alignment explanation
Indices: 4272364--4272584 Score: 278
Period size: 118 Copynumber: 1.9 Consensus size: 119
4272354 GCTCCTCGTT
*
4272364 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
4272429 A-ATTAGT-A-TCTCGCACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
66 ATATT-GTCACT-TAGCAC-AA-GCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
* **
4272483 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATGTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
4272544 CGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCG
63 CGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCG
4272585 GACAACATTC
Statistics
Matches: 90, Mismatches: 5, Indels: 15
0.82 0.05 0.14
Matches are distributed among these distances:
117 15 0.17
118 51 0.57
119 23 0.26
120 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
Found at i:4275646 original size:34 final size:34
Alignment explanation
Indices: 4275603--4275669 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
4275593 ACCAAGTCTT
*
4275603 CCCATTTCATACCTGTTCGTACAAATTACTCACA
1 CCCATTTCATACCTGTTCATACAAATTACTCACA
* *
4275637 CCCATTTCATTCCTGTTCATACAGATTACTCAC
1 CCCATTTCATACCTGTTCATACAAATTACTCAC
4275670 TGCAGAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.06, T:0.34
Consensus pattern (34 bp):
CCCATTTCATACCTGTTCATACAAATTACTCACA
Found at i:4278818 original size:34 final size:34
Alignment explanation
Indices: 4278772--4278865 Score: 120
Period size: 34 Copynumber: 2.8 Consensus size: 34
4278762 TTCTGAAACT
*
4278772 TACTGATTTGGGCTGAGGCCCACACTGATACTGC
1 TACTGATATGGGCTGAGGCCCACACTGATACTGC
* * *
4278806 TACTG-TAATGGGCTAAAGCCCACACTGATATTGC
1 TACTGAT-ATGGGCTGAGGCCCACACTGATACTGC
*
4278840 TACTGATATGGGCTG-GGCCTACACTG
1 TACTGATATGGGCTGAGGCCCACACTG
4278866 TACGACACTG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
33 10 0.20
34 40 0.78
35 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (34 bp):
TACTGATATGGGCTGAGGCCCACACTGATACTGC
Found at i:4281516 original size:43 final size:43
Alignment explanation
Indices: 4281436--4281692 Score: 236
Period size: 43 Copynumber: 6.0 Consensus size: 43
4281426 CATAGGATTT
* * * * *
4281436 TCGATATGTGTTTTCGTGTAAGACCAGGTCTGGGACGTTAGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCA
* * *
4281479 TCGACATGTAATTACGTGTAAGACCACGTCTGTGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCA
* * **
4281522 TCGATGTGTGATTACATGTAAGACC-CTGTCTGAGACAATGGCA
1 TCGATATGTGATTACGTGTAAGACCAC-GTCTGAGACGTTGGCA
* * * * *
4281565 TCGATATGTGATTACGTGTAAGACCATGTTTGGGACATCGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCA
* * * *
4281608 TCG-TATTTGATT-CATGTAAGACCATGTCTGGGACAG-TGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGAGAC-GTTGGCA
* * *
4281649 TCGATATGTGATTACATGTAAGACCACATCTTG-GATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTC-TGAGACGTTGGCA
4281692 T
1 T
4281693 TGTATGATAT
Statistics
Matches: 177, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
41 27 0.15
42 18 0.10
43 130 0.73
44 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCA
Found at i:4281654 original size:84 final size:86
Alignment explanation
Indices: 4281452--4281675 Score: 285
Period size: 86 Copynumber: 2.6 Consensus size: 86
4281442 TGTGTTTTCG
* * * * * *
4281452 TGTAAGACCAGGTCTGGGAC-GTTAGCATCGACATGTAATTACGTGTAAGACCACGTCTGTGACG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACA
*
4281516 TTGGCATCGATGTGTGATTACA
65 TCGGCATCGATGTGTGATTACA
* * * * *
4281538 TGTAAGACCCTGTCTGAGACAATGGCATCGATATGTGATTACGTGTAAGACCATGTTTGGGACAT
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACAT
4281603 CGGCATCGTAT-T-TGATT-CA
66 CGGCATCG-ATGTGTGATTACA
*
4281622 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCAC
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACCAC
4281676 ATCTTGGATG
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
84 51 0.43
85 5 0.04
86 61 0.51
87 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (86 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACAT
CGGCATCGATGTGTGATTACA
Found at i:4281692 original size:84 final size:87
Alignment explanation
Indices: 4281452--4281698 Score: 292
Period size: 84 Copynumber: 2.9 Consensus size: 87
4281442 TGTGTTTTCG
* * * *
4281452 TGTAAGACCAGGTCTGGGAC-GTTAGCATCGACATGTAATTACGTGTAAGACCACGTC-TGTGAC
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGATATGTGATTACGTGTAAGACCACGTCTTG-GAC
4281515 GTTGGCATCG-ATGTGTGATTACA
64 GTTGGCATCGTATGTGTGATTACA
* * * * *
4281538 TGTAAGACCCTGTCTGAGACAATGGCATCGATATGTGATTACGTGTAAGACCATGT-TTGGGACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACCACGTCTT-GGACG
*
4281602 TCGGCATCGTAT-T-TGATT-CA
65 TTGGCATCGTATGTGTGATTACA
* * *
4281622 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCACATCTTGGATGT
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACCACGTCTTGGACGT
*
4281687 TGGCATTGTATG
66 TGGCATCGTATG
4281699 ATATGTGTGA
Statistics
Matches: 135, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
84 65 0.48
85 7 0.05
86 60 0.44
87 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (87 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACCACGTCTTGGACGT
TGGCATCGTATGTGTGATTACA
Found at i:4281884 original size:19 final size:18
Alignment explanation
Indices: 4281860--4281903 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
4281850 GATACAAATT
4281860 ATATATGATGCAAATGAAA
1 ATATATG-TGCAAATGAAA
* *
4281879 ATATATGTGTATATGAAA
1 ATATATGTGCAAATGAAA
4281897 AGTATAT
1 A-TATAT
4281904 TCGGCCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATATGTGCAAATGAAA
Found at i:4282974 original size:2 final size:2
Alignment explanation
Indices: 4282969--4282996 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4282959 GCTATATATA
4282969 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4282997 CATAGTCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4284773 original size:17 final size:16
Alignment explanation
Indices: 4284729--4284781 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
4284719 CTTTGAGGTT
*
4284729 TTTGTAATTTTTTAAA
1 TTTGTACTTTTTTAAA
**
4284745 TTTAAACTTTTTTTAAA
1 TTTGTAC-TTTTTTAAA
*
4284762 TTGTGTACTTTTTTGAA
1 TT-TGTACTTTTTTAAA
4284779 TTT
1 TTT
4284782 TTTATATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
16 5 0.17
17 21 0.72
18 3 0.10
ACGTcount: A:0.26, C:0.04, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTGTACTTTTTTAAA
Found at i:4289555 original size:29 final size:29
Alignment explanation
Indices: 4289522--4289579 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
4289512 GTGAAAGTAA
4289522 AAATTTTCATCTTAAACGTATAGTTTCGG
1 AAATTTTCATCTTAAACGTATAGTTTCGG
4289551 AAATTTTCATCTTAAACGTATAGTTTCGG
1 AAATTTTCATCTTAAACGTATAGTTTCGG
4289580 CTTTGTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (29 bp):
AAATTTTCATCTTAAACGTATAGTTTCGG
Found at i:4293464 original size:33 final size:33
Alignment explanation
Indices: 4293358--4293448 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 33
4293348 ATATATATGT
* *
4293358 AAGACCATAGCTGGGTTATGGCATTCTAATGAG
1 AAGACCATAACCGGGTTATGGCATTCTAATGAG
4293391 AAGACCATAACCGGGTTATGGCATTCTAATGAG
1 AAGACCATAACCGGGTTATGGCATTCTAATGAG
4293424 AAGACCATAACCGGGTTATGGCATT
1 AAGACCATAACCGGGTTATGGCATT
4293449 ATGAGCGTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (33 bp):
AAGACCATAACCGGGTTATGGCATTCTAATGAG
Found at i:4295632 original size:47 final size:47
Alignment explanation
Indices: 4295563--4295831 Score: 225
Period size: 46 Copynumber: 5.7 Consensus size: 47
4295553 GTAAGGTGCT
* *
4295563 GATGCTATG-CCCTAGACATGGTCTTACACTAGCTCAT-ATCTCAAGTC
1 GATGCCATGTCCC-AGACAT-GTCTTACACTAGCTCATCATCTCAAGCC
*
4295610 GATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGCAGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCATCATCTC-AAGCC
* * * * *
4295658 GAT-ACATGTCCCAGACATGTCTTACACTGGCTTA-CGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTC-AAGCC
* * *
4295704 GATG-CATGTCCCAGACATGCCTTACACTAGCTC-TCATCTAAATACC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCAA-GCC
* * * ***
4295750 GAGGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCAT-CTCAAGCC
*
4295798 AATG-CATGTCCCAGACATGTCTTACACTAGCTCA
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCA
4295832 CACACAAATG
Statistics
Matches: 184, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 76 0.41
47 76 0.41
48 30 0.16
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCAAGCC
Found at i:4303328 original size:46 final size:46
Alignment explanation
Indices: 4303240--4303455 Score: 219
Period size: 46 Copynumber: 4.6 Consensus size: 46
4303230 GTAAGGTGCT
* *
4303240 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGAAGCC
* *
4303288 AATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCC
* *
4303334 GATGCATGTCCTAGACATGTCTTACACTAGCTCT-CATCTC-AATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAA-GCC
* * *
4303380 GATGCCATGTCCCAGACATGGTCTTACACTGGCTGTTATAATGT-G--GTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC--TTA-CATCTCGAAGCC
4303428 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
4303456 AGCTCACACA
Statistics
Matches: 145, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
45 2 0.01
46 73 0.50
47 44 0.30
48 21 0.14
49 1 0.01
50 1 0.01
51 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCC
Found at i:4303437 original size:94 final size:91
Alignment explanation
Indices: 4303240--4303460 Score: 252
Period size: 94 Copynumber: 2.4 Consensus size: 91
4303230 GTAAGGTGCT
* *
4303240 GATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCGTAGCCAATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTCATAGCCAATGCATGTCCCAGAC
*
4303304 ATGTCTTACACTGGCTTACGTCTCGAAGCC
63 ATGTCTTACACTGGCTTAC-TATCGAAGCC
* *
4303334 GATGCATGTCCTAGACATGTCTTACACTAGCTCTCATCTCA-ATGCCGATGCCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATA-GCCAATG-CATGTCCCAGACA
** *
4303398 TGGTCTTACACTGGCTGTTA-TAAT-GTGGTC
64 T-GTCTTACACTGGC--TTACT-ATCGAAGCC
4303428 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
4303461 ACACACAAAT
Statistics
Matches: 111, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
91 1 0.01
92 25 0.23
93 28 0.25
94 53 0.48
95 1 0.01
96 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (91 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATAGCCAATGCATGTCCCAGACATG
TCTTACACTGGCTTACTATCGAAGCC
Found at i:4306631 original size:22 final size:22
Alignment explanation
Indices: 4306602--4306679 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
4306592 ATAGCTCGTA
* *
4306602 AGAGCTTACTGTTCAGTTCATT
1 AGAGCTTACTGTTCAGCTCAAT
* *
4306624 GGAGCTTATTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
4306646 AGAGCTTACAGTTTTCAGCTCAAT
1 AGAGCTTAC--TGTTCAGCTCAAT
4306670 AGAGCTTACT
1 AGAGCTTACT
4306680 ATTTATCAGC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 26 0.55
24 21 0.45
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:4306665 original size:24 final size:24
Alignment explanation
Indices: 4306630--4306692 Score: 92
Period size: 24 Copynumber: 2.5 Consensus size: 24
4306620 CATTGGAGCT
4306630 TATTGTTCAGCTCAATAGAGCTTAC
1 TATT-TTCAGCTCAATAGAGCTTAC
4306655 -AGTTTTCAGCTCAATAGAGCTTAC
1 TA-TTTTCAGCTCAATAGAGCTTAC
4306679 TATTTATCAGCTCA
1 TATTT-TCAGCTCA
4306693 TGAAGAGCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 24 0.69
25 11 0.31
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (24 bp):
TATTTTCAGCTCAATAGAGCTTAC
Found at i:4309097 original size:29 final size:29
Alignment explanation
Indices: 4309065--4309163 Score: 146
Period size: 29 Copynumber: 3.4 Consensus size: 29
4309055 TACCTTTATC
4309065 TGGCCCATTAGGCCCAAATCACTTGTATA
1 TGGCCCATTAGGCCCAAATCACTTGTATA
* * *
4309094 TGGCCGATTAGGTCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACTTGTATA
4309123 TGGCCCATTAGGCCCAAATCACATT-TATA
1 TGGCCCATTAGGCCCAAATCAC-TTGTATA
*
4309152 TGGCCCGTTAGG
1 TGGCCCATTAGG
4309164 ACCAGTCACA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 61 0.98
30 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACTTGTATA
Found at i:4309425 original size:24 final size:24
Alignment explanation
Indices: 4309396--4309441 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4309386 CAAACTTTTG
*
4309396 GCTTTTCGATATTTCGACTTTTCT
1 GCTTTTCGACATTTCGACTTTTCT
*
4309420 GCTTTTCGGCATTTCGACTTTT
1 GCTTTTCGACATTTCGACTTTT
4309442 GTCGATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.22, G:0.15, T:0.52
Consensus pattern (24 bp):
GCTTTTCGACATTTCGACTTTTCT
Found at i:4319469 original size:22 final size:22
Alignment explanation
Indices: 4319443--4319522 Score: 108
Period size: 22 Copynumber: 3.6 Consensus size: 22
4319433 ATAGCTCGTA
*
4319443 AGAGCTTACTGTTCAGCTCATT
1 AGAGCTTACTGTTCAGCTCAAT
*
4319465 GGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
4319487 AGAGCTTACAGTTTTCA-CTCAAT
1 AGAGCTTAC--TGTTCAGCTCAAT
4319510 AGAGCTTACTGTT
1 AGAGCTTACTGTT
4319523 TATCAGCTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.06
22 28 0.55
23 15 0.29
24 5 0.10
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:4319511 original size:23 final size:24
Alignment explanation
Indices: 4319454--4319532 Score: 92
Period size: 23 Copynumber: 3.4 Consensus size: 24
4319444 GAGCTTACTG
* * *
4319454 TTCAGCTCATTGGAGCTTAC--TG
1 TTCAGCTCAATAGAGCTTACAGTT
4319476 TTCAGCTCAATAGAGCTTACAGTT
1 TTCAGCTCAATAGAGCTTACAGTT
*
4319500 TTCA-CTCAATAGAGCTTACTGTT
1 TTCAGCTCAATAGAGCTTACAGTT
4319523 TATCAGCTCA
1 T-TCAGCTCA
4319533 TGAAAAGCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 18 0.37
23 19 0.39
24 8 0.16
25 4 0.08
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (24 bp):
TTCAGCTCAATAGAGCTTACAGTT
Found at i:4333354 original size:17 final size:17
Alignment explanation
Indices: 4333332--4333365 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4333322 AGTAAAGGAT
4333332 GGAGATCTGATGAGGCA
1 GGAGATCTGATGAGGCA
*
4333349 GGAGATTTGATGAGGCA
1 GGAGATCTGATGAGGCA
4333366 TTACGAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.41, T:0.21
Consensus pattern (17 bp):
GGAGATCTGATGAGGCA
Found at i:4338129 original size:32 final size:32
Alignment explanation
Indices: 4338069--4338138 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
4338059 CACAGCTTAC
* * *
4338069 AGCCATCAGTAGAGGTAATTTGATCGGCACAA
1 AGCCATCAGTAGAGATAATATGACCGGCACAA
** *
4338101 AGCCATCAGTAGCTATAATATGACCGGCACAC
1 AGCCATCAGTAGAGATAATATGACCGGCACAA
4338133 AGCCAT
1 AGCCAT
4338139 GGGTAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (32 bp):
AGCCATCAGTAGAGATAATATGACCGGCACAA
Found at i:4338654 original size:27 final size:27
Alignment explanation
Indices: 4338624--4338821 Score: 172
Period size: 27 Copynumber: 7.3 Consensus size: 27
4338614 CAAAACAGTC
**
4338624 ATTTTACCCTACAAGGGTATTTCGGTA
1 ATTTTACAATACAAGGGTATTTCGGTA
** **
4338651 ATTTTACAA-ATTAGGGATATTTTTGTA
1 ATTTTACAATACAAGGG-TATTTCGGTA
* * *
4338678 ATTTTAAAATCCAAGGGTATTTCGATA
1 ATTTTACAATACAAGGGTATTTCGGTA
* *
4338705 ATTTTTCAA-ACTAGTGGTATTTCGGTA
1 ATTTTACAATACAAG-GGTATTTCGGTA
* *
4338732 ATTTTACAAT-CTGAGTGTATTTCGGTA
1 ATTTTACAATAC-AAGGGTATTTCGGTA
* *
4338759 ATTTTACAA-ACTAAAGGAATTTCGGTA
1 ATTTTACAATAC-AAGGGTATTTCGGTA
*
4338786 ATTTTACAATACGAA-GGTATTTCGATA
1 ATTTTACAATAC-AAGGGTATTTCGGTA
4338813 ATTTTACAA
1 ATTTTACAA
4338822 ACCCGGGGTC
Statistics
Matches: 136, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
26 8 0.06
27 118 0.87
28 10 0.07
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTTACAATACAAGGGTATTTCGGTA
Found at i:4338693 original size:54 final size:54
Alignment explanation
Indices: 4338635--4338822 Score: 211
Period size: 54 Copynumber: 3.5 Consensus size: 54
4338625 TTTTACCCTA
* ** *
4338635 CAAGGGTATTTCGGTAATTTTACAAATTAGGGATATTTTTGTAATTTTAAAATC
1 CAAGGGTATTTCGATAATTTTACAAATTAGGGATATTTCGGTAATTTTACAATC
* *
4338689 CAAGGGTATTTCGATAATTTTTCAAACTAGTGG-TATTTCGGTAATTTTACAATC
1 CAAGGGTATTTCGATAATTTTACAAATTAG-GGATATTTCGGTAATTTTACAATC
** * * * *
4338743 TGAGTGTATTTCGGTAATTTTACAAACTAAAGGA-ATTTCGGTAATTTTACAATAC
1 CAAGGGTATTTCGATAATTTTACAAA-TTAGGGATATTTCGGTAATTTTACAAT-C
*
4338798 GAA-GGTATTTCGATAATTTTACAAA
1 CAAGGGTATTTCGATAATTTTACAAA
4338823 CCCGGGGTCT
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
54 107 0.96
55 5 0.04
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTCGATAATTTTACAAATTAGGGATATTTCGGTAATTTTACAATC
Found at i:4338724 original size:81 final size:82
Alignment explanation
Indices: 4338639--4338822 Score: 207
Period size: 81 Copynumber: 2.3 Consensus size: 82
4338629 ACCCTACAAG
** * *
4338639 GGTATTTCGGTAATTTTACAAAT-T-AGGGATATTTTTGTAATTTTA-AAATCCAAGGGTATTTC
1 GGTATTTCGGTAATTTTACAAATCTGAGGG-TATTTCGGTAATTTTACAAA-CCAAAGGAATTTC
* * *
4338701 GATAATTTTTCAA-ACTAGT
64 GATAATTTTACAATACGA-A
* * *
4338720 GGTATTTCGGTAATTTTAC-AATCTGAGTGTATTTCGGTAATTTTACAAACTAAAGGAATTTCGG
1 GGTATTTCGGTAATTTTACAAATCTGAGGGTATTTCGGTAATTTTACAAACCAAAGGAATTTCGA
4338784 TAATTTTACAATACGAA
66 TAATTTTACAATACGAA
*
4338801 GGTATTTCGATAATTTTACAAA
1 GGTATTTCGGTAATTTTACAAA
4338823 CCCGGGGTCT
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
80 3 0.03
81 73 0.84
82 11 0.13
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (82 bp):
GGTATTTCGGTAATTTTACAAATCTGAGGGTATTTCGGTAATTTTACAAACCAAAGGAATTTCGA
TAATTTTACAATACGAA
Found at i:4340515 original size:16 final size:16
Alignment explanation
Indices: 4340494--4340528 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4340484 ATGTATCGGC
*
4340494 AAAAGCCGAAATGTCG
1 AAAAGCCGAAAAGTCG
*
4340510 AAAAGCTGAAAAGTCG
1 AAAAGCCGAAAAGTCG
4340526 AAA
1 AAA
4340529 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.11
Consensus pattern (16 bp):
AAAAGCCGAAAAGTCG
Found at i:4340849 original size:28 final size:29
Alignment explanation
Indices: 4340740--4340853 Score: 144
Period size: 29 Copynumber: 4.0 Consensus size: 29
4340730 TGAGCATGAT
* *
4340740 TATGAATGTGA-CTGGGCCTAACGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
4340768 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
4340797 TAT-ACAGGTGATTTGGGCCTAATGGGCCA
1 TATGA-ATGTGATTTGGGCCTAATGGGCCA
* *
4340826 TATGAATATGA-TTGGGCTTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
4340854 GATACAGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 27 0.36
29 48 0.63
30 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:4340861 original size:57 final size:58
Alignment explanation
Indices: 4340752--4340862 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
4340742 TGAATGTGAC
* *
4340752 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * *
4340810 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
4340863 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 24 0.50
58 24 0.50
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:4344427 original size:32 final size:32
Alignment explanation
Indices: 4344384--4344446 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
4344374 CACGGCTTAC
*
4344384 AGCCATCAGTAGCGGTAATTTGATCAGCACAA
1 AGCCATCAGTAGCGGTAATATGATCAGCACAA
* * *
4344416 AGCCATTAGTAGCTGTAATATGATCGGCACA
1 AGCCATCAGTAGCGGTAATATGATCAGCACA
4344447 CAACCATGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (32 bp):
AGCCATCAGTAGCGGTAATATGATCAGCACAA
Found at i:4344971 original size:27 final size:27
Alignment explanation
Indices: 4344939--4345000 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
4344929 CAAAATAGTC
*
4344939 ATTTTACCCTAC-AGGGATATTTC-AGTA
1 ATTTTACACTACAAGGG-TATTTCGA-TA
4344966 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
4344993 ATTTTACA
1 ATTTTACA
4345001 AATTGGGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:4345010 original size:27 final size:27
Alignment explanation
Indices: 4344979--4345222 Score: 228
Period size: 27 Copynumber: 9.1 Consensus size: 27
4344969 TTACACTACA
*
4344979 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
* ** *
4345006 GGGGTATTTTAGTAATTTTA-TAATCTG
1 AGGGTATTTCGGTAATTTTACAAAT-TG
* * *
4345033 AGGGTATTTTGGTAATTTTATAAACTG
1 AGGGTATTTCGGTAATTTTACAAATTG
* * *
4345060 AGGGTATTTTGGTAATTTTACAATTTT
1 AGGGTATTTCGGTAATTTTACAAATTG
* *
4345087 AGGGCATTTCGGTAATTTTACAAACTG
1 AGGGTATTTCGGTAATTTTACAAATTG
*
4345114 -GGGATATTTCAGTAATTTTAC-AATCTG
1 AGGG-TATTTCGGTAATTTTACAAAT-TG
* **
4345141 AAGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATTG
*
4345168 AGGATATTTCGGTAATTTTAC-AATCTG
1 AGGGTATTTCGGTAATTTTACAAAT-TG
* * *
4345195 A-GATATTTCGATAATTTTACAATTTG
1 AGGGTATTTCGGTAATTTTACAAATTG
4345221 AG
1 AG
4345223 ATCTTAACGA
Statistics
Matches: 177, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
26 32 0.18
27 138 0.78
28 7 0.04
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATTG
Found at i:4345076 original size:81 final size:81
Alignment explanation
Indices: 4344952--4345216 Score: 259
Period size: 81 Copynumber: 3.3 Consensus size: 81
4344942 TTACCCTACA
* * * * * *
4344952 GGGATATTTCAGTAATTTTACACTAC-AAGGGTATTTCGATAATTTTACAAATTGGGGGTATTTT
1 GGGATATTTCAGTAATTTTACA-AACTGAGGGTATTTCGGTAATTTTACAAATTGAGGGCATTTC
* *
4345016 AGTAATTTTATAATCTG
65 AGTAATTTTACAAACTG
** * * * *
4345033 AGGG-TATTTTGGTAATTTTATAAACTGAGGGTATTTTGGTAATTTTACAATTTTAGGGCATTTC
1 -GGGATATTTCAGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAATTGAGGGCATTTC
*
4345097 GGTAATTTTACAAACTG
65 AGTAATTTTACAAACTG
* * ** ** *
4345114 GGGATATTTCAGTAATTTTACAATCTGAAGGTATTTCGGTAATTTTACAAATCAAGGATATTTCG
1 GGGATATTTCAGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAATTGAGGGCATTTCA
*
4345179 GTAATTTTACAATCT-
66 GTAATTTTACAAACTG
*
4345194 GAGATATTTC-GATAATTTTACAA
1 GGGATATTTCAG-TAATTTTACAA
4345217 TTTGAGATCT
Statistics
Matches: 152, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
79 1 0.01
80 25 0.16
81 123 0.81
82 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (81 bp):
GGGATATTTCAGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAATTGAGGGCATTTCA
GTAATTTTACAAACTG
Found at i:4345526 original size:35 final size:35
Alignment explanation
Indices: 4345487--4345556 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
4345477 CCCCGAATAG
4345487 CCCAAGACCATGAGAGCGCTCATGGTGGCCTCTAC
1 CCCAAGACCATGAGAGCGCTCATGGTGGCCTCTAC
4345522 CCCAAGACCATGAGAGCGCTCATGGTGGCCTCTAC
1 CCCAAGACCATGAGAGCGCTCATGGTGGCCTCTAC
4345557 AGTCTAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (35 bp):
CCCAAGACCATGAGAGCGCTCATGGTGGCCTCTAC
Found at i:4350944 original size:48 final size:48
Alignment explanation
Indices: 4350874--4351005 Score: 176
Period size: 48 Copynumber: 2.8 Consensus size: 48
4350864 GTGCGAGTTA
* * *
4350874 TACCTTGATTTAGCTTCAGGCCATGGTATAGGTA-TTTCAGAGATGAGT
1 TACCTTGATTTAGCTTCGGGCCATGGTATAGGTACTCT-AGAGATAAGT
* * * *
4350922 TGCTTTGATTTAGCTTCGGGCCATGGTATAGGTACTCTGGGGATAAGT
1 TACCTTGATTTAGCTTCGGGCCATGGTATAGGTACTCTAGAGATAAGT
*
4350970 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACT
1 TACCTTGATTTAGCTTCGGGCCATGGTATAGGTACT
4351006 TATCGTGTGA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 71 0.97
49 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (48 bp):
TACCTTGATTTAGCTTCGGGCCATGGTATAGGTACTCTAGAGATAAGT
Found at i:4355929 original size:11 final size:11
Alignment explanation
Indices: 4355913--4355937 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4355903 CTCCAAATCA
4355913 TTTTTTTTATT
1 TTTTTTTTATT
4355924 TTTTTTTTATT
1 TTTTTTTTATT
4355935 TTT
1 TTT
4355938 CCTCTTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:4359705 original size:9 final size:9
Alignment explanation
Indices: 4359691--4359716 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4359681 GGCTTGGAAA
4359691 ATGAAATTC
1 ATGAAATTC
4359700 ATGAAATTC
1 ATGAAATTC
4359709 ATGAAATT
1 ATGAAATT
4359717 TAACCCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (9 bp):
ATGAAATTC
Found at i:4367886 original size:20 final size:20
Alignment explanation
Indices: 4367861--4367906 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
4367851 AATAAGGATC
4367861 AGTAAAATGCATATTTACTA
1 AGTAAAATGCATATTTACTA
4367881 AGTAAAATGCATATTTACTA
1 AGTAAAATGCATATTTACTA
4367901 AGTAAA
1 AGTAAA
4367907 TGATTCCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.33
Consensus pattern (20 bp):
AGTAAAATGCATATTTACTA
Found at i:4371317 original size:30 final size:30
Alignment explanation
Indices: 4371272--4371331 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4371262 ATTTAATACG
*
4371272 AACTTTAGCAAAATTACATTTTTGCCCCTA
1 AACTTTAGCAAAATTACACTTTTGCCCCTA
* *
4371302 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGCAAAATTACACTTTTGCCCCTA
4371332 GCCTTGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTAGCAAAATTACACTTTTGCCCCTA
Found at i:4371450 original size:13 final size:13
Alignment explanation
Indices: 4371432--4371460 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4371422 AACATGTACT
4371432 TATGACTATTAGG
1 TATGACTATTAGG
4371445 TATGACTATTAGG
1 TATGACTATTAGG
4371458 TAT
1 TAT
4371461 TTTTACTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (13 bp):
TATGACTATTAGG
Found at i:4381390 original size:34 final size:34
Alignment explanation
Indices: 4381317--4381406 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
4381307 CTGCATACTG
* * * **
4381317 CACTGATATGGGCTAAGGCCCAGACTGCTTTTAT
1 CACTGAAATGGGTTAAGGCCCAGACTACTACTAT
4381351 CACTGAAATGGGTTAAGGCCCAGACTACTACTAT
1 CACTGAAATGGGTTAAGGCCCAGACTACTACTAT
* *
4381385 TACTGAAAAGGGGTTAAGGCCC
1 CACTG-AAATGGGTTAAGGCCC
4381407 TAACTAAACA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 33 0.69
35 15 0.31
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (34 bp):
CACTGAAATGGGTTAAGGCCCAGACTACTACTAT
Found at i:4385726 original size:21 final size:21
Alignment explanation
Indices: 4385687--4385726 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4385677 AGCTTAAATG
*
4385687 ATGGTTGAATAAGTAGAATTC
1 ATGGTTGAACAAGTAGAATTC
4385708 ATGGTTG-ACAAGTATGAAT
1 ATGGTTGAACAAGTA-GAAT
4385727 CGAAATTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (21 bp):
ATGGTTGAACAAGTAGAATTC
Found at i:4387055 original size:39 final size:38
Alignment explanation
Indices: 4387008--4387117 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 38
4386998 CATGGTATTT
* * *
4387008 GAAATATATCCGAATATGAGGTCTGTAGGCTATATGCTA
1 GAAATATATCCGAAT-TGAAGTCCGCAGGCTATATGCTA
* * *
4387047 GGAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTA
1 GAAATATATCC-GAATTGAAGTCCGCAGGCTATATGCTA
*
4387086 GAAATATATCCGGACTTGAAGTCCGCAGGCTA
1 GAAATATATCC-GAATTGAAGTCCGCAGGCTA
4387118 CGTGCTGGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 60 0.95
40 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (38 bp):
GAAATATATCCGAATTGAAGTCCGCAGGCTATATGCTA
Found at i:4387123 original size:39 final size:39
Alignment explanation
Indices: 4387042--4387123 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
4387032 GTAGGCTATA
* *
4387042 TGCTAGGAATATATCCGGACTTGAAGTCCGCAGGCTATG
1 TGCTAGAAATATATCCGGACTTGAAGTCCGCAGGCTACG
4387081 TGCTAGAAATATATCCGGACTTGAAGTCCGCAGGCTACG
1 TGCTAGAAATATATCCGGACTTGAAGTCCGCAGGCTACG
4387120 TGCT
1 TGCT
4387124 GGAATGGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TGCTAGAAATATATCCGGACTTGAAGTCCGCAGGCTACG
Found at i:4403490 original size:17 final size:19
Alignment explanation
Indices: 4403451--4403491 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4403441 TGGGCCATTT
4403451 TGGGCCAAACTGGGCCGTG
1 TGGGCCAAACTGGGCCGTG
*
4403470 TGGGCCCAA-TGGGCC-TG
1 TGGGCCAAACTGGGCCGTG
4403487 TGGGC
1 TGGGC
4403492 TCCACTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 6 0.29
19 8 0.38
ACGTcount: A:0.12, C:0.27, G:0.44, T:0.17
Consensus pattern (19 bp):
TGGGCCAAACTGGGCCGTG
Found at i:4406122 original size:13 final size:13
Alignment explanation
Indices: 4406104--4406145 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
4406094 AGCACGCATG
*
4406104 AAACATATCTTTA
1 AAACATATCTTAA
*
4406117 AAACATAACTTAA
1 AAACATATCTTAA
4406130 AAACATATCTTGAA
1 AAACATATCTT-AA
4406144 AA
1 AA
4406146 TAGAGTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (13 bp):
AAACATATCTTAA
Found at i:4412168 original size:29 final size:27
Alignment explanation
Indices: 4412150--4412219 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
4412140 ATATTAAGTC
4412150 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
4412177 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
4412205 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
4412220 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:4412213 original size:28 final size:28
Alignment explanation
Indices: 4412150--4412247 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
4412140 ATATTAAGTC
*
4412150 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
4412177 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
4412205 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
4412234 CGCACACTTAGTGC
1 CGCACACTTAGTGC
4412248 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:4418181 original size:28 final size:27
Alignment explanation
Indices: 4418149--4418206 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 27
4418139 ATCGAGGAAC
4418149 TATGTAGCACTAAGTGTGCGAGTTTGAT
1 TATGTAGCACTAAGTGTGCGAG-TTGAT
4418177 TATGTAGCACTAAGTGTGCGAGTTGAT
1 TATGTAGCACTAAGTGTGCGAGTTGAT
4418204 TAT
1 TAT
4418207 TATCCCATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (27 bp):
TATGTAGCACTAAGTGTGCGAGTTGAT
Found at i:4421151 original size:34 final size:34
Alignment explanation
Indices: 4421078--4421153 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
4421068 CTGTGTACTG
* * *
4421078 TACTAAAATGGGCTAAGGCCCAGACTACTTTTAT
1 TACTGAAATAGGCTAAGGCCCAGACTACTATTAT
* * *
4421112 CACTGAAATAGGCTAAGGCCCAGACTGCTATTGT
1 TACTGAAATAGGCTAAGGCCCAGACTACTATTAT
4421146 TACTGAAA
1 TACTGAAA
4421154 AGGGGCAAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (34 bp):
TACTGAAATAGGCTAAGGCCCAGACTACTATTAT
Found at i:4423226 original size:13 final size:13
Alignment explanation
Indices: 4423208--4423249 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
4423198 AGCACGCATG
*
4423208 AAACATATCTTTA
1 AAACATATCTTAA
*
4423221 AAACATAACTTAA
1 AAACATATCTTAA
4423234 AAACATATCTTGAA
1 AAACATATCTT-AA
4423248 AA
1 AA
4423250 TAGAGTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (13 bp):
AAACATATCTTAA
Found at i:4424698 original size:20 final size:22
Alignment explanation
Indices: 4424662--4424701 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
4424652 CTTTAATAAT
4424662 CTTTTAAATTGAGTTCAAAAAC
1 CTTTTAAATTGAGTTCAAAAAC
4424684 CTTTT-AATT-AGTTCAAAA
1 CTTTTAAATTGAGTTCAAAA
4424702 TAAGTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (22 bp):
CTTTTAAATTGAGTTCAAAAAC
Found at i:4431218 original size:20 final size:20
Alignment explanation
Indices: 4431193--4431240 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
4431183 AAACAGGATC
*
4431193 ACACGCTCATGTGACTTGGG
1 ACACGCCCATGTGACTTGGG
*
4431213 ACACGCCCGTGTGACTTGGG
1 ACACGCCCATGTGACTTGGG
4431233 ACACGCCC
1 ACACGCCC
4431241 GTGTCCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.33, G:0.29, T:0.19
Consensus pattern (20 bp):
ACACGCCCATGTGACTTGGG
Found at i:4431241 original size:20 final size:20
Alignment explanation
Indices: 4431202--4431244 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
4431192 CACACGCTCA
4431202 TGTGACTTGGGACACGCCCG
1 TGTGACTTGGGACACGCCCG
4431222 TGTGACTTGGGACACGCCCG
1 TGTGACTTGGGACACGCCCG
4431242 TGT
1 TGT
4431245 CCCTAACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.23
Consensus pattern (20 bp):
TGTGACTTGGGACACGCCCG
Found at i:4439480 original size:40 final size:40
Alignment explanation
Indices: 4439425--4439567 Score: 232
Period size: 40 Copynumber: 3.6 Consensus size: 40
4439415 ATTTGAATAC
4439425 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
4439465 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
4439505 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
4439545 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
4439568 ATTGAGCTTG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:4439586 original size:80 final size:80
Alignment explanation
Indices: 4439425--4439594 Score: 243
Period size: 80 Copynumber: 2.1 Consensus size: 80
4439415 ATTTGAATAC
* *
4439425 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAAT
* *
4439490 TGTGCAAGTTGATAT
66 TGAGCAAGTGGATAT
* * *
4439505 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAAT
** *
4439570 TGAGCTTGTGGTTAT
66 TGAGCAAGTGGATAT
4439585 ATCC-GGCTAA
1 ATCCGGGCTAA
4439595 ATTCCAAAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 6 0.08
80 74 0.93
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAAT
TGAGCAAGTGGATAT
Found at i:4447517 original size:16 final size:17
Alignment explanation
Indices: 4447498--4447530 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4447488 CACAGGAAAA
4447498 ATAAATAAT-GTAAGCT
1 ATAAATAATAGTAAGCT
*
4447514 ATAAATATTAGTAAGCT
1 ATAAATAATAGTAAGCT
4447531 CATATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (17 bp):
ATAAATAATAGTAAGCT
Found at i:4454475 original size:48 final size:48
Alignment explanation
Indices: 4454404--4454625 Score: 435
Period size: 48 Copynumber: 4.6 Consensus size: 48
4454394 AGATAAATAT
*
4454404 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
4454452 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
4454500 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
4454548 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
4454596 ATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
4454626 GTGATTCGGC
Statistics
Matches: 173, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 173 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
Found at i:4454853 original size:37 final size:37
Alignment explanation
Indices: 4454798--4454900 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
4454788 GGAAATATAT
*
4454798 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
4454835 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
4454872 TCCGAGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
4454901 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:4457807 original size:5 final size:5
Alignment explanation
Indices: 4457797--4457833 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
4457787 TTGTGTGTTC
4457797 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
4457834 TCACAGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:4458525 original size:16 final size:16
Alignment explanation
Indices: 4458472--4458526 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
4458462 TTCTGAATTT
4458472 TTTTTCCAATTTTT-TA
1 TTTTTCC-ATTTTTGTA
**
4458488 TTTTTTGGATTTTCTGTA
1 -TTTTTCCATTTT-TGTA
4458506 -TTTTCCATTTTTGTA
1 TTTTTCCATTTTTGTA
4458521 TTTTTC
1 TTTTTC
4458527 TGCTTCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 4 0.13
16 19 0.61
17 6 0.19
18 2 0.06
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (16 bp):
TTTTTCCATTTTTGTA
Found at i:4459865 original size:15 final size:16
Alignment explanation
Indices: 4459841--4459874 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4459831 TTAAAGCTAT
*
4459841 AATGATTTTTTAA-AA
1 AATGAATTTTTAATAA
4459856 AATGAATTTTTAATAA
1 AATGAATTTTTAATAA
4459872 AAT
1 AAT
4459875 TAGGGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
AATGAATTTTTAATAA
Found at i:4460987 original size:24 final size:24
Alignment explanation
Indices: 4460955--4461004 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
4460945 ATAATTTCTC
*
4460955 TTAGTTTTTAAATGATATATAAAT
1 TTAGTTTTTAAATAATATATAAAT
4460979 TTAGTTTTTAAATAATATATAAAT
1 TTAGTTTTTAAATAATATATAAAT
4461003 TT
1 TT
4461005 GGTCTACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (24 bp):
TTAGTTTTTAAATAATATATAAAT
Found at i:4474145 original size:53 final size:54
Alignment explanation
Indices: 4474065--4474271 Score: 222
Period size: 53 Copynumber: 3.8 Consensus size: 54
4474055 ATCCTTTTGA
* * *
4474065 AACTTACCATTGCCATGTCTCGACATGGTTTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
4474118 AACTCACCAATGCCATGTCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG
* * * * * *
4474172 CAACTTATCAATGCCATGTCTTGACATGGACTTACAT-GAATTTCTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTA-TCCTTGCCTTATAG
* * * *
4474227 AAATTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
4474272 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 43 0.34
54 37 0.29
55 43 0.34
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:4474209 original size:108 final size:109
Alignment explanation
Indices: 4474065--4474260 Score: 261
Period size: 108 Copynumber: 1.8 Consensus size: 109
4474055 ATCCTTTTGA
* ** * * *
4474065 AACTTACCATTGCCATGTCTCGACATGGTTTTACATG-GTATCCTTGCCTTAT-GAACTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGACTTACATGAAT-TCCTTGCCTTATAAAAATCACCAA
*
4474128 TGCCATGTCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGC
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGC
* * * * *
4474173 AACTTATCAATGCCATGTCTTGACATGGACTTACATGAATTTCTTGCCTTGTAAAAATTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGACTTACATGAATTCCTTGCCTTATAAAAATCACCAAT
4474238 GCCATGCCTTGGCATGGTCTTAC
66 GCCATGCCTTGGCATGGTCTTAC
4474261 TTGGTATCCT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
108 42 0.57
109 32 0.43
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTCGACATGGACTTACATGAATTCCTTGCCTTATAAAAATCACCAAT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGC
Found at i:4475937 original size:46 final size:48
Alignment explanation
Indices: 4475840--4476065 Score: 188
Period size: 46 Copynumber: 4.8 Consensus size: 48
4475830 TTATTTATGT
* * * * * *
4475840 GCTAGTTTAAGACCATGTCAGGGATATGGCATCGG--TATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGTGATA-TA-A
*
4475888 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGTGATATAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGTGATATAA
* * *
4475934 GCTAGTGTAAGA-CATGTCTGGGACAT-GTATCGG-CTAAGAGATGT--
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-AGTGATATAA
*
4475978 G-TCAGTGTAAGACCATGTCTGGGACATGGCATAGGCAC-AGAT-ATATGATA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTAG-TGATAT-A-A
*
4476028 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
4476066 CAATTTCGAT
Statistics
Matches: 147, Mismatches: 16, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 16 0.11
46 55 0.37
47 13 0.09
48 17 0.12
49 1 0.01
50 33 0.22
51 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGTGATATAA
Found at i:4476096 original size:49 final size:50
Alignment explanation
Indices: 4475978--4476104 Score: 163
Period size: 50 Copynumber: 2.6 Consensus size: 50
4475968 TAAGAGATGT
4475978 GTCAGTGTAAGACCATGTCTGGGACATGGCATAGGCACAGATATATGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATAGGCACAGATATATGATA
* *
4476028 G-CTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCA-AT-T-TCGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATAGG-CACAGATATAT-GATA
* *
4476077 GTCAGTGTAACACCATGTCTAGGACATG
1 GTCAGTGTAAGACCATGTCTGGGACATG
4476105 ACATCGACTT
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
48 1 0.01
49 30 0.43
50 35 0.51
51 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATAGGCACAGATATATGATA
Found at i:4480009 original size:6 final size:6
Alignment explanation
Indices: 4480000--4480038 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
4479990 TTGCTTTCCC
* *
4480000 TTTTGT TTTTGT TTTTGT TTTTGT TTTTAT TTTTAT TTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTT
4480039 CATTTTTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:4486557 original size:68 final size:66
Alignment explanation
Indices: 4486485--4486656 Score: 179
Period size: 67 Copynumber: 2.6 Consensus size: 66
4486475 CATCATGTGT
* * * *
4486485 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
4486548 TGTAG
62 TGTAG
* * *
4486553 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
4486618 AG
65 AG
* * * *
4486620 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
4486657 GGTGGTACTG
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
64 24 0.26
65 3 0.03
66 18 0.20
67 33 0.36
68 13 0.14
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:4487027 original size:19 final size:19
Alignment explanation
Indices: 4487003--4487040 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4486993 GAAAGTGTGA
4487003 AAGAGTGGAACACCTCTAT
1 AAGAGTGGAACACCTCTAT
*
4487022 AAGAGTGTAACACCTCTAT
1 AAGAGTGGAACACCTCTAT
4487041 CCCGTAACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (19 bp):
AAGAGTGGAACACCTCTAT
Found at i:4489961 original size:16 final size:16
Alignment explanation
Indices: 4489940--4489976 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
4489930 TTAAATCAAG
4489940 TTCATGAGTTTCTAAT
1 TTCATGAGTTTCTAAT
4489956 TTCATGAGTTTCTAAT
1 TTCATGAGTTTCTAAT
4489972 TTCAT
1 TTCAT
4489977 TACTTCAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (16 bp):
TTCATGAGTTTCTAAT
Found at i:4492071 original size:31 final size:30
Alignment explanation
Indices: 4492036--4492096 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4492026 ATTTAATACG
4492036 AACTTTAGAAAAAATTACACTTTTGCCCCTA
1 AACTTTAG-AAAAATTACACTTTTGCCCCTA
* * *
4492067 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
4492097 GGCTCGGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:4498366 original size:46 final size:45
Alignment explanation
Indices: 4498299--4498468 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
4498289 AACCCGTCCC
* *
4498299 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
*
4498345 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
4498393 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
4498438 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
4498469 AGATGCTCAA
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.54
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:4498412 original size:93 final size:93
Alignment explanation
Indices: 4498304--4498474 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
4498294 GTCCCTAAGT
* * *
4498304 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
4498369 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
4498397 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
4498462 CGAGTTCAGATGC
66 CGAGTTCAGATGC
4498475 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:4498490 original size:46 final size:45
Alignment explanation
Indices: 4498347--4498490 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 45
4498337 CGCATCCATA
*
4498347 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACCATCT
* * * * *
4498394 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC--AGATGCT-CAACCATCT
4498440 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-CT
4498486 AGTGA
1 AGTGA
4498491 CATGTCACTT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 31 0.41
47 29 0.38
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCT
Found at i:4503200 original size:29 final size:29
Alignment explanation
Indices: 4503133--4503257 Score: 153
Period size: 29 Copynumber: 4.3 Consensus size: 29
4503123 AAGTCTACAT
* * *
4503133 ACATGCATATGGCCCACTGGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
4503161 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
4503190 ATATTCGTATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
4503219 ACATTCATACGGCTCATTAGGCTCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
4503248 ACATTCATAT
1 ACATTCATAT
4503258 ACTTGCTTTC
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 20 0.25
29 61 0.75
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:4520519 original size:43 final size:42
Alignment explanation
Indices: 4520465--4520622 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 42
4520455 AACATATACA
* *
4520465 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACA-CG
* * *
4520508 ATGCCACTGTCCCAAACA-GAGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATG-GTCTTACACGAAATCAAACACG
* * **
4520550 ATGCCAATGTCCCAGACATGGTCTTACACACAAAACAGAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCA-AACACG
* * *
4520594 ATGCGAACGTCCCAAACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
4520623 AATAACACAT
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.29
43 39 0.40
44 30 0.31
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACACG
Done.