Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 180 of 373
Found at i:60259509 original size:79 final size:79
Alignment explanation
Indices: 60259308--60259511 Score: 200
Period size: 79 Copynumber: 2.6 Consensus size: 79
60259298 GGACTAAGAT
** * * * * *
60259308 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
60259372 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
60259386 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
60259450 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * * *
60259466 CCGAAGGCGTTTGAACGAG-TAGCTATAT-CTGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
60259512 TACGTGGTTT
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 34 0.32
79 50 0.47
80 22 0.21
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:60267584 original size:39 final size:40
Alignment explanation
Indices: 60267486--60267706 Score: 242
Period size: 39 Copynumber: 5.6 Consensus size: 40
60267476 TGAATGATGT
* *
60267486 CGGGCTAAGT-CCGAAGGC-TTTGTGCTA-AGTGAC-CATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TC
*
60267525 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATTC
60267565 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTC
* *
60267604 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTC
* * * *
60267643 CGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-TC
* *
60267683 CGGGCTATGTCCCGAAGGCGTTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
60267707 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 83 0.52
40 66 0.41
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTC
Found at i:60267645 original size:78 final size:80
Alignment explanation
Indices: 60267486--60267706 Score: 240
Period size: 79 Copynumber: 2.8 Consensus size: 80
60267476 TGAATGATGT
* * * * *
60267486 CGGGCTAAGT-CCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCAATTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCATT
*
60267547 TGTGCGAGATACTAATTC
63 TGTGCGAGATACTAAATC
* *
60267565 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCAATTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTTG
*
60267627 TGCGAGTTACTAAATC
65 TGCGAGATACTAAATC
* * * *
60267643 CGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCGTTTG
1 CGGGCTAAGTCCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTG
60267707 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 36 0.29
79 63 0.51
80 23 0.19
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATACTAAATC
Found at i:60267728 original size:79 final size:78
Alignment explanation
Indices: 60267536--60267729 Score: 214
Period size: 79 Copynumber: 2.5 Consensus size: 78
60267526 GGACTAAGAT
** * * * *
60267536 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATACTAA
*
60267601 TTCCGGGCTAAGC
66 TACCGGGCTAAGC
** *
60267614 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGATACTA
*
60267678 ATAACCGGGCTATGTC
65 AT-ACCGGGCTAAG-C
* *
60267694 CCGAAGGCGTTTGAACGAG-TAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAA
60267730 ATTCTGAAGG
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
78 37 0.37
79 40 0.40
80 24 0.24
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:60284765 original size:39 final size:40
Alignment explanation
Indices: 60284648--60284868 Score: 269
Period size: 39 Copynumber: 5.6 Consensus size: 40
60284638 GCTCCTCGTT
* *
60284648 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
60284688 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
60284728 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
60284767 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
60284806 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATCTCGCA
60284847 C-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
60284869 AACATCATCC
Statistics
Matches: 164, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
38 2 0.01
39 87 0.53
40 63 0.38
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:60284825 original size:79 final size:80
Alignment explanation
Indices: 60284648--60284868 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 80
60284638 GCTCCTCGTT
* * *
60284648 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCC
*
60284711 GGATTTAGTAACTCGCA
64 GGAATTAGTAACTCGCA
*
60284728 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
60284791 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * *
60284806 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACCTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGA-CTTAGCCCGGA-ATTAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCC
60284868 G
64 G
60284869 AACATCATCC
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 46 0.37
79 57 0.46
80 22 0.18
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:60285965 original size:13 final size:13
Alignment explanation
Indices: 60285947--60285971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60285937 AGGATGAGCA
60285947 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
60285960 TTTTTTTTCTTT
1 TTTTTTTTCTTT
60285972 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:60292752 original size:39 final size:40
Alignment explanation
Indices: 60292595--60292815 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
60292585 GCTCCTCGTT
* * *
60292595 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
60292635 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
60292675 CAAATGCCTTCGGG-CTTA-CCCGG-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
60292712 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
60292751 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
60292792 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60292816 CATCATTCAA
Statistics
Matches: 163, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
37 31 0.19
38 12 0.07
39 44 0.27
40 66 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:60293906 original size:13 final size:13
Alignment explanation
Indices: 60293888--60293912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60293878 AGGATGAGCA
60293888 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
60293901 TTTTTTTTCTTT
1 TTTTTTTTCTTT
60293913 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:60300479 original size:15 final size:15
Alignment explanation
Indices: 60300431--60300493 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
60300421 CAAAGATAAT
*
60300431 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
60300445 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
60300460 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
60300475 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
60300490 AAGA
1 AAGA
60300494 GATCTAGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.22
15 31 0.76
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:60303332 original size:46 final size:46
Alignment explanation
Indices: 60303265--60303443 Score: 218
Period size: 46 Copynumber: 3.7 Consensus size: 46
60303255 TGTAACCCGC
60303265 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
60303311 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
60303361 CTC-TCGAACTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CAT--AAGT-GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
60303410 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
60303444 AGATGCCCAA
Statistics
Matches: 114, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
46 61 0.54
47 3 0.03
48 4 0.04
49 6 0.05
50 6 0.05
51 4 0.04
52 3 0.03
53 27 0.24
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:60308112 original size:39 final size:39
Alignment explanation
Indices: 60308069--60308249 Score: 299
Period size: 39 Copynumber: 4.6 Consensus size: 39
60308059 AACAGAAATG
*
60308069 CCTTCGGGACTTAGCCCGGATATAACACCAACACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
60308108 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
60308147 CCTTCGTGACTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* * * *
60308186 CCTTCGGGACTTAGCCTGGACATAACACTAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
60308225 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
60308250 ATCTCACACA
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 133 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:60308326 original size:18 final size:17
Alignment explanation
Indices: 60308303--60308337 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
60308293 AATTATCATG
60308303 CACATATATATATCATAA
1 CACATATATATAT-ATAA
60308321 CACATATATATATATAA
1 CACATATATATATATAA
60308338 TCCTCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (17 bp):
CACATATATATATATAA
Found at i:60312767 original size:220 final size:220
Alignment explanation
Indices: 60312385--60312787 Score: 770
Period size: 220 Copynumber: 1.8 Consensus size: 220
60312375 AAGATAAAGA
* *
60312385 ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACCAAGAGGTACACTAACAC
1 ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACAAAAAGGTACACTAACAC
60312450 ACAACCAACCATCAGACTAATGACACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
66 ACAACCAACCATCAGACTAATGACACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
*
60312515 ATCTAGCCACTGGCCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTCAAGGTGTTACAA
131 ATCTAGCCACTGACCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTCAAGGTGTTACAA
60312580 CTCACTAATAGAATAGTTGTCTAAC
196 CTCACTAATAGAATAGTTGTCTAAC
60312605 ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACAAAAAGGTACACTAACAC
1 ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACAAAAAGGTACACTAACAC
*
60312670 ACAACCAACCATCAGACTAATGGCACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
66 ACAACCAACCATCAGACTAATGACACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
60312735 ATCTAGCCACTGACCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTC
131 ATCTAGCCACTGACCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTC
60312788 CCACTAATAG
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
220 179 1.00
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.21
Consensus pattern (220 bp):
ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACAAAAAGGTACACTAACAC
ACAACCAACCATCAGACTAATGACACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
ATCTAGCCACTGACCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTCAAGGTGTTACAA
CTCACTAATAGAATAGTTGTCTAAC
Found at i:60316779 original size:27 final size:27
Alignment explanation
Indices: 60316749--60316926 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
60316739 ATATTGAGTC
**
60316749 CGCACACCCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
** *
60316776 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
*
60316803 CGCACACTTAGTGCTATATAGTCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*** ** *
60316831 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACT
* **
60316858 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTAT-ATAATCAACT
* * * *
60316885 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
60316912 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60316927 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:60316888 original size:82 final size:81
Alignment explanation
Indices: 60316770--60316925 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
60316760 TGCTATATAA
* * *
60316770 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTATATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
60316835 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
60316852 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
60316916 CACTTAGTGC
65 CACTTAGTGC
60316926 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60324881 original size:27 final size:27
Alignment explanation
Indices: 60324851--60325028 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60324841 ATATTGAGTC
* * * *
60324851 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
60324878 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60324905 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
60324933 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
60324960 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
60324987 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60325014 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60325029 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:60324990 original size:82 final size:81
Alignment explanation
Indices: 60324872--60325027 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60324862 TGCTATATAA
* *
60324872 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
60324937 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
60324954 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
60325018 CACTTAGTGC
65 CACTTAGTGC
60325028 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60328812 original size:40 final size:40
Alignment explanation
Indices: 60328754--60328958 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 40
60328744 AAACCAAGTA
* * *
60328754 CCTTCGGGATTTA-ACCGGATATAGCTA-CTCGC-TCAAACG
1 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCGCAT-AAATG
*
60328793 CCTTTGGGACTTAGCCCGGATATAGTAGCTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCATAAATG
*
60328833 CCTTCGGGACTTAGCCCGGATATAGTAGCTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCATAAATG
* * *
60328873 CCTTCGAGACTTAGCCCGGGAT-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGTAGCTCGCATAAATG
* * *
60328913 CCTTCAGGACTTAGCCCGGA-ATTAGTCA-CTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-AGCTCGCATAAATG
60328953 CCTTCG
1 CCTTCG
60328959 TTATCATCCG
Statistics
Matches: 145, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
39 16 0.11
40 123 0.85
41 6 0.04
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCATAAATG
Found at i:60331408 original size:19 final size:20
Alignment explanation
Indices: 60331371--60331410 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
60331361 ATACTGAGCA
60331371 TATATAACATATCATTCATT
1 TATATAACATATCATTCATT
60331391 TATAT-ACAT-TCATATCATT
1 TATATAACATATCAT-TCATT
60331410 T
1 T
60331411 GTTGTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATAACATATCATTCATT
Found at i:60333363 original size:42 final size:42
Alignment explanation
Indices: 60333311--60333394 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
60333301 TCTTAAAATA
* * *
60333311 AACTATGATTTTTCATAAATAACAACGGTTTCAAAAATTATT
1 AACTAAGATTTCTCATAAACAACAACGGTTTCAAAAATTATT
* *
60333353 AACTAAGATTTCTCGTAAACAACAACGGTTTCGAAAATTATT
1 AACTAAGATTTCTCATAAACAACAACGGTTTCAAAAATTATT
60333395 GGGTTTCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.35
Consensus pattern (42 bp):
AACTAAGATTTCTCATAAACAACAACGGTTTCAAAAATTATT
Found at i:60336242 original size:42 final size:43
Alignment explanation
Indices: 60336142--60336254 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 43
60336132 CAATACCAAC
* * * * **
60336142 GTCCCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAATAGCGATGCCGAT
* *
60336185 GTCCCACACAGGGTCTTACACG-AAATCAGAT-GCGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCA-ATAGCGATGCCGAT
*
60336227 GTCCCAGACATGGTCTTATACGTAAATC
1 GTCCCAGACATGGTCTTACACGTAAATC
60336255 TCAATCGAGG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 32 0.56
43 25 0.44
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAATAGCGATGCCGAT
Found at i:60340398 original size:40 final size:40
Alignment explanation
Indices: 60340354--60340537 Score: 257
Period size: 40 Copynumber: 4.6 Consensus size: 40
60340344 GCTACTAGCT
60340354 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
60340394 CAAATGCCTTCGGGACTTATCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
60340434 CAAATTCCTTCGGGACTTAGCTCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
60340474 CAAATGCCTTCGGG-CTTAGCCCAGAATT-T-GTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCC-G-GTTATAGTAACTCGCA
60340513 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
60340538 GTATCAATCC
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 30 0.24
40 96 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:60344148 original size:72 final size:72
Alignment explanation
Indices: 60344031--60344168 Score: 240
Period size: 72 Copynumber: 1.9 Consensus size: 72
60344021 CTCGAGAATG
* * *
60344031 CAACATCTCAACATATCCTCGAGTATCTGAATGACTCGTTCGGACTGACCATCTATTTGCGGATG
1 CAACATCTCAACATATCCTCAAGAATCTGAATGACTCGTTCGGACTGACCATCTATTTGCAGATG
60344096 GCAGTGT
66 GCAGTGT
*
60344103 CAACATCTCAACATATCCTCAAGAATCTGAATGACTCGTTTGGACTGACCATCTATTTGCAGATG
1 CAACATCTCAACATATCCTCAAGAATCTGAATGACTCGTTCGGACTGACCATCTATTTGCAGATG
60344168 G
66 G
60344169 AAAGCAGTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (72 bp):
CAACATCTCAACATATCCTCAAGAATCTGAATGACTCGTTCGGACTGACCATCTATTTGCAGATG
GCAGTGT
Found at i:60350200 original size:55 final size:56
Alignment explanation
Indices: 60350102--60350236 Score: 191
Period size: 55 Copynumber: 2.4 Consensus size: 56
60350092 CCCAGACAGT
* * *
60350102 GTCTTACTCGCACACATATATCGGAGTCACATATTGATGCCAACATATAAAACGTG
1 GTCTTACTCGCACACATATATCGAAGTCACATATCGATACCAACATATAAAACGTG
* * * *
60350158 GTCTTACTCGCACA-ATATATCGAAGTCAGATATCGATACCAACGTGTAAAATGTG
1 GTCTTACTCGCACACATATATCGAAGTCACATATCGATACCAACATATAAAACGTG
*
60350213 GTCTTACTCTCACACATATATCGA
1 GTCTTACTCGCACACATATATCGA
60350237 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
55 47 0.67
56 23 0.33
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (56 bp):
GTCTTACTCGCACACATATATCGAAGTCACATATCGATACCAACATATAAAACGTG
Found at i:60353327 original size:17 final size:16
Alignment explanation
Indices: 60353298--60353331 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
60353288 AAATATTATG
60353298 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
60353314 AAATAAACAACAAACAA
1 AAATAAA-AACAAACAA
60353331 A
1 A
60353332 TGCAATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:60354654 original size:43 final size:41
Alignment explanation
Indices: 60354559--60354678 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 41
60354549 ATAGGATCCG
* *
60354559 ATATGTGATTTCATGTAAGACCATGTCTGGGACGTTGG-CAT
1 ATATGTGATTTCATGTAAGACCATGTCTAGGAC-ATGGACAT
60354600 CGACT-TGTGATTTACATGTAAGACCATGTCTAGGACATGGACATT
1 --A-TATGTGATTT-CATGTAAGACCATGTCTAGGACATGGACA-T
* * * *
60354645 ATATTTGATTTCAAGTAAGGCCCTGTCTAGGACA
1 ATATGTGATTTCATGTAAGACCATGTCTAGGACA
60354679 GTGGTATCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
42 21 0.32
43 20 0.30
44 24 0.36
45 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
ATATGTGATTTCATGTAAGACCATGTCTAGGACATGGACAT
Found at i:60354692 original size:43 final size:42
Alignment explanation
Indices: 60354559--60354697 Score: 106
Period size: 43 Copynumber: 3.2 Consensus size: 42
60354549 ATAGGATCCG
* * * *
60354559 ATATGTGATTT-CATGTAAGACCATGTCTGGGACGTTGG-CAT
1 ATATTTGATTTACAAGTAAGACCATGTCTAGGAC-ATGGACAT
** *
60354600 CGACTTGTGATTTACATGTAAGACCATGTCTAGGACATGGACATT
1 ATA-TT-TGATTTACAAGTAAGACCATGTCTAGGACATGGACA-T
* *
60354645 ATATTTGATTT-CAAGTAAGGCCCTGTCTAGGACAGTGGTATCA-
1 ATATTTGATTTACAAGTAAGACCATGTCTAGGACA-TGG-A-CAT
60354688 ATATTTGATT
1 ATATTTGATT
60354698 ACATTTAAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 21 0.26
43 28 0.35
44 26 0.32
45 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (42 bp):
ATATTTGATTTACAAGTAAGACCATGTCTAGGACATGGACAT
Found at i:60372090 original size:43 final size:41
Alignment explanation
Indices: 60372042--60372205 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 41
60372032 ATCTGATATG
*
60372042 TGATTTCATGTAAGACCACGTCTGGGACATTGGCATTGACTT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGGCATCGA-TT
* * **
60372084 ATGATTTACGTGTAAGACCATGT-TGGGACATCAGCATCGTATT
1 -TGATTT-CATGTAAGACCACGTCTGGGACATTGGCATCG-ATT
** *
60372127 TGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGGCATCG--ATT
* * * *
60372170 TGATTACATGTAAGACCACGTTTAGGACGTTGGCAT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
60372206 TGTATGAGGT
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 13 0.13
42 19 0.19
43 54 0.54
44 14 0.14
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
TGATTTCATGTAAGACCACGTCTGGGACATTGGCATCGATT
Found at i:60372153 original size:42 final size:41
Alignment explanation
Indices: 60372042--60372187 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 41
60372032 ATCTGATATG
* *
60372042 TGATTTCATGTAAGACCACGTCTGGGACATTGGCATTG-ACTT
1 TGATTTCATGTAAGACCATGTCTGGGACA-TGGCATCGTA-TT
* *
60372084 ATGATTTACGTGTAAGACCATGT-TGGGACATCAGCATCGTATT
1 -TGATTT-CATGTAAGACCATGTCTGGGACAT-GGCATCGTATT
*
60372127 TGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCATGTCTGGGACA-TGGCATCG-TATT
*
60372170 TGATTACATGTAAGACCA
1 TGATTTCATGTAAGACCA
60372188 CGTTTAGGAC
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
41 13 0.15
42 20 0.23
43 41 0.47
44 14 0.16
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
TGATTTCATGTAAGACCATGTCTGGGACATGGCATCGTATT
Found at i:60379378 original size:46 final size:47
Alignment explanation
Indices: 60379235--60379378 Score: 131
Period size: 46 Copynumber: 3.1 Consensus size: 47
60379225 CCCGCCCATA
* *
60379235 AGTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCCCAATT-CATC-CT
* * * * *
60379284 --CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGC-ATTCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAATTCATCCT
60379328 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT-ATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
60379374 AGTGA
1 AGTGA
60379379 CATGTCACTT
Statistics
Matches: 75, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
44 6 0.08
45 3 0.04
46 34 0.45
47 27 0.36
48 2 0.03
49 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (47 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
Found at i:60381781 original size:15 final size:15
Alignment explanation
Indices: 60381759--60381814 Score: 96
Period size: 15 Copynumber: 3.7 Consensus size: 15
60381749 CAAGGAAACC
60381759 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
60381774 -AGATAAAGAAATCCA
1 GA-ATAAAGAAATCCA
60381789 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
60381804 GAATAAAGAAA
1 GAATAAAGAAA
60381815 CCCAAGATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.62, C:0.11, G:0.14, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:60399693 original size:34 final size:34
Alignment explanation
Indices: 60399621--60399711 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 34
60399611 CTTGGGACTA
* * * * * *
60399621 AGCCCTTATCAATGGCAATATCAGTGTATGCCTT
1 AGCCCATATCAGTAGCAATACCAGTGTAGGCCTC
*
60399655 AGCCCATATCAGTAGCAATACCAGTGTGGGCCTC
1 AGCCCATATCAGTAGCAATACCAGTGTAGGCCTC
*
60399689 AGCCCA-ATTCAGTA-CAGTACCAG
1 AGCCCATA-TCAGTAGCAATACCAG
60399712 AGATGCATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
33 9 0.19
34 39 0.81
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (34 bp):
AGCCCATATCAGTAGCAATACCAGTGTAGGCCTC
Found at i:60404495 original size:48 final size:46
Alignment explanation
Indices: 60404397--60404560 Score: 170
Period size: 46 Copynumber: 3.5 Consensus size: 46
60404387 TGTGCTAGTG
** * ** *
60404397 TAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGTCTCAAGATGAGAGCCAGTA
* * *
60404443 TAAGACCATGTCTGGGACATTGCATTGG-CATTAAGATGAGAGCTAGTA
1 TAAGA-CATGTCTGGGACA-TGCATCGGTC-TCAAGATGAGAGCCAGTA
* * *
60404491 TAAGACATGTCTGGAACATGCATCGGTCTCGAGATGTA-AGCCAGCA
1 TAAGACATGTCTGGGACATGCATCGGTCTCAAGATG-AGAGCCAGTA
60404537 TAAGACATGTCTGGGACATGCATC
1 TAAGACATGTCTGGGACATGCATC
60404561 ATCGGCTACG
Statistics
Matches: 98, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 47 0.48
47 28 0.29
48 23 0.23
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGTCTCAAGATGAGAGCCAGTA
Found at i:60407269 original size:51 final size:51
Alignment explanation
Indices: 60407097--60407378 Score: 278
Period size: 51 Copynumber: 5.6 Consensus size: 51
60407087 ATCTGATACG
* * * * *
60407097 CATAGTAGCCTGCACTTAGTACTACACATGAGACCAACAATC--CG-GTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAA-AGTCATTGAGTACA
* **
60407146 CGTAGTAGCCTGCACTTAGTACTACACACGTGA-C--CTTCCATCTGA-TACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT-CAT-TGAGTACA
* * * * * *
60407195 CGTAGGATCCTGCACTTAATACTACACACGTGATCGAAGTCATTGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGAGTACA
60407246 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGAGTACA
* * * *
60407297 AATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGT-A-TG-GTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-TCAA-AGTCATTGAGTACA
*
60407347 CGTAGTAGCCTGCACTTAGTACTACACACGTG
1 CATAGTAGCCTGCACTTAGTACTACACACGTG
60407379 TACTCACAAT
Statistics
Matches: 196, Mismatches: 26, Indels: 21
0.81 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
48 1 0.01
49 65 0.33
50 37 0.19
51 83 0.42
52 5 0.03
53 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGAGTACA
Found at i:60414202 original size:23 final size:23
Alignment explanation
Indices: 60414176--60414253 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
60414166 ACCAACAATC
60414176 TAGTACACGTAGTAGCCTGCACT
1 TAGTACACGTAGTAGCCTGCACT
**
60414199 TAGTACTACACACGT-GACCT-CACAT
1 TAGTAC-ACGTA-GTAG-CCTGCAC-T
60414224 CT-GATACACGTAGTAGCCTGCACT
1 -TAG-TACACGTAGTAGCCTGCACT
60414248 TAGTAC
1 TAGTAC
60414254 TACACACGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
23 10 0.24
24 14 0.33
25 14 0.33
26 4 0.10
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (23 bp):
TAGTACACGTAGTAGCCTGCACT
Found at i:60414304 original size:51 final size:49
Alignment explanation
Indices: 60414124--60414361 Score: 243
Period size: 49 Copynumber: 4.8 Consensus size: 49
60414114 AGCCGAAGCT
* *
60414124 ATCTGA-TACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
1 ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
* *
60414172 AATCT-AGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAC
1 -ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAC
* **
60414222 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATAGAAGTC
1 ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--C
* * *
60414273 AT-TGAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACTTAAC
1 ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGAC-CAAC
* * * * *
60414322 AGTATG-GTACACGTCGTAGACTGCACGTAGTACTACACAC
1 A-TCTGAGTACACATAGTAGCCTGCACTTAGTACTACACAC
60414362 ATGTACTCAC
Statistics
Matches: 162, Mismatches: 17, Indels: 19
0.82 0.09 0.10
Matches are distributed among these distances:
48 1 0.01
49 84 0.52
50 36 0.22
51 41 0.25
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (49 bp):
ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
Found at i:60418117 original size:19 final size:19
Alignment explanation
Indices: 60418093--60418138 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
60418083 TAGTCTCGAA
60418093 AGAGATAATAATATAACTT
1 AGAGATAATAATATAACTT
60418112 AGAGATAATAATATAACTT
1 AGAGATAATAATATAACTT
*
60418131 AGGGATAA
1 AGAGATAA
60418139 CCAAACCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.28
Consensus pattern (19 bp):
AGAGATAATAATATAACTT
Found at i:60421805 original size:43 final size:41
Alignment explanation
Indices: 60421757--60421894 Score: 127
Period size: 43 Copynumber: 3.3 Consensus size: 41
60421747 TGTGATTTCT
60421757 TGTAAGACCATGTCTTGGACATTGGCATCAATATGAAATTACG
1 TGTAAGACCATGTCTTGGACATTGGCATCAATATG--ATTACG
*
60421800 TGTAAGACCATGT-TTGGGACATTGACATCATATATGATT-CG
1 TGTAAGACCATGTCTT-GGACATTGGCATCA-ATATGATTACG
* * * ** * * *
60421841 TGTAAAACCCTGTCTGGGACAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTTGGACATTGGCATC-A-ATATGATTACG
60421884 TGTAAGACCAT
1 TGTAAGACCAT
60421895 ATCTAGGATA
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
41 23 0.29
42 14 0.18
43 36 0.46
44 5 0.06
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATGTCTTGGACATTGGCATCAATATGATTACG
Found at i:60421859 original size:41 final size:42
Alignment explanation
Indices: 60421757--60421861 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 42
60421747 TGTGATTTCT
* *
60421757 TGTAAGACCATGTCTTGGACATTGGCATCAATATGAAATTACG
1 TGTAAGACCATGTCTGGGACATTGACATCAATATG-AATTACG
*
60421800 TGTAAGACCATGTTTGGGACATTGACATCATATATG-ATT-CG
1 TGTAAGACCATGTCTGGGACATTGACATCA-ATATGAATTACG
* *
60421841 TGTAAAACCCTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
60421862 GAGGCATCGA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 20 0.36
42 3 0.05
43 27 0.49
44 5 0.09
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGACATCAATATGAATTACG
Found at i:60424303 original size:6 final size:6
Alignment explanation
Indices: 60424285--60424372 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
60424275 AAGAAACATT
* *
60424285 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
60424334 ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
60424373 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:60424306 original size:18 final size:18
Alignment explanation
Indices: 60424285--60424372 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
60424275 AAGAAACATT
60424285 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
60424303 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* *
60424320 GTGACAGAATCAGGATCAGA
1 AT--CAGAATCAGAATCAGA
* *
60424340 ATCAGTATTAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
60424359 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
60424373 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
17 3 0.06
18 22 0.41
19 27 0.50
20 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:60424332 original size:31 final size:31
Alignment explanation
Indices: 60424294--60424372 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
60424284 TATCAGAACT
*
60424294 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
60424325 AGAATCAGGATCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
60424356 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
60424373 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:60424551 original size:27 final size:26
Alignment explanation
Indices: 60424512--60424610 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 26
60424502 CAGTTATCAT
* *
60424512 ATATTGTGACAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
60424539 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
*
60424565 ATATTTGTGGCATAGCCACCAGAAACAG
1 ATA-TTGTGGCAGAGCCACCAG-AACAG
* *
60424593 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
60424611 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:60424803 original size:22 final size:22
Alignment explanation
Indices: 60424769--60424833 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
60424759 GCAAATACGT
*
60424769 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
60424791 TTGGTACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
60424813 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
60424834 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:60434432 original size:32 final size:32
Alignment explanation
Indices: 60434396--60434492 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
60434386 TGTATGCATT
*
60434396 TTAGCATTTTAATAGTTAATCGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
60434428 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
60434460 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
60434492 T
1 T
60434493 GGTAAGCATT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:60436003 original size:26 final size:26
Alignment explanation
Indices: 60435974--60436024 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
60435964 TACAATTTTT
60435974 CCCCTAGGAGTTAAATT-ACCGAAATA
1 CCCCTAGG-GTTAAATTGACCGAAATA
*
60436000 CCCCTAGGGTTAAATTGACCTAAAT
1 CCCCTAGGGTTAAATTGACCGAAAT
60436025 GTATGTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (26 bp):
CCCCTAGGGTTAAATTGACCGAAATA
Found at i:60447527 original size:9 final size:9
Alignment explanation
Indices: 60447513--60447568 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
60447503 CATCATGTGT
60447513 ATATCATAC
1 ATATCATAC
60447522 ATATCATATGC
1 ATATCATA--C
*
60447533 ATATCGTAC
1 ATATCATAC
*
60447542 ATATCATGTGC
1 ATATCA--TAC
60447553 ATATCATAC
1 ATATCATAC
60447562 ATATCAT
1 ATATCAT
60447569 GTATATCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 23 0.59
11 16 0.41
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (9 bp):
ATATCATAC
Found at i:60447569 original size:20 final size:20
Alignment explanation
Indices: 60447504--60447570 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
60447494 TTATGAATAC
*
60447504 ATCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
* *
60447524 ATCATATGCATATCGTACAT
1 ATCATGTGCATATCATACAT
60447544 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
60447564 ATCATGT
1 ATCATGT
60447571 ATATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:60451105 original size:14 final size:14
Alignment explanation
Indices: 60451086--60451122 Score: 53
Period size: 11 Copynumber: 2.9 Consensus size: 14
60451076 TTCTTCCACT
60451086 TCACCACCACCTCC
1 TCACCACCACCTCC
60451100 T---CACCACCTCC
1 TCACCACCACCTCC
60451111 TCACCACCACCT
1 TCACCACCACCT
60451123 TGTAGCACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
11 11 0.55
14 9 0.45
ACGTcount: A:0.22, C:0.62, G:0.00, T:0.16
Consensus pattern (14 bp):
TCACCACCACCTCC
Found at i:60455117 original size:21 final size:22
Alignment explanation
Indices: 60455077--60455123 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
60455067 CTCTGCTCAA
*
60455077 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
60455098 ACTCCACCTGCTGTGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
60455120 ACTC
1 ACTC
60455124 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:60461825 original size:46 final size:46
Alignment explanation
Indices: 60461772--60461935 Score: 199
Period size: 46 Copynumber: 3.5 Consensus size: 46
60461762 TGGGCATCCA
60461772 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *** * *
60461818 AACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA--TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCG
*
60461865 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
60461911 AACTCGTTGAGTTGAGTCTGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTC
60461936 GAGAGATGTA
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 55 0.57
47 31 0.32
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:60461881 original size:47 final size:47
Alignment explanation
Indices: 60461814--60461982 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 47
60461804 GATGCGAATG
*
60461814 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* *** * *
60461861 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA
*
60461905 TGTCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
60461954 TCCGAGA-TCGTTGAGTTGAGTCCGAGTTC
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTC
60461983 ACTTATGGGC
Statistics
Matches: 99, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.31
47 57 0.58
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
Found at i:60461923 original size:93 final size:93
Alignment explanation
Indices: 60461764--60461990 Score: 427
Period size: 93 Copynumber: 2.4 Consensus size: 93
60461754 AGGATATTTG
* *
60461764 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
60461829 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCTGAGTTCGAGAGATGTAACTA
60461857 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
60461922 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCTGAGTTCGAGAGATGTAACTA
*
60461950 GGCATCCGAGATCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60461991 GCGAGTTACA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 131 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCTGAGTTCGAGAGATGTAACTA
Found at i:60465557 original size:80 final size:79
Alignment explanation
Indices: 60465473--60465644 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
60465463 GGACTAAGAT
*
60465473 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
60465537 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
60465553 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
60465618 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
60465632 CCGAAGGCATTTG
1 CCGAAGGCATTTG
60465645 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:60465624 original size:39 final size:39
Alignment explanation
Indices: 60465420--60465642 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
60465410 TTGAATGCTG
* * * * *
60465420 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
60465460 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
60465499 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
60465540 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
60465580 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
60465619 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
60465643 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:60465662 original size:79 final size:80
Alignment explanation
Indices: 60465500--60465677 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
60465490 AGATACAAAT
* * * *
60465500 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
60465565 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
60465580 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
60465644 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
60465659 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
60465678 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:60472765 original size:39 final size:39
Alignment explanation
Indices: 60472608--60472777 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 39
60472598 GGACTAAGAT
* * *
60472608 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
60472648 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
60472688 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* *
60472728 CCGAAGGCATTGTGTGAGTTACTAAAAT-CGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACT-AAATCCGGGTTATGTC
60472767 CCGAAGGCATT
1 CCGAAGGCATT
60472778 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:60472797 original size:79 final size:80
Alignment explanation
Indices: 60472635--60472812 Score: 184
Period size: 79 Copynumber: 2.2 Consensus size: 80
60472625 AGATACAAAT
* * *
60472635 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTC
** * *
60472700 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
60472715 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAAT-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACT-AAATCCGGGCTAAGTCCCGAAGGCATT
* *
60472778 TGAACGAG-GAGCTATA
65 CGAACGAGTGA-CTAAA
*
60472794 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
60472813 TACGTGATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
78 15 0.19
79 44 0.54
80 22 0.27
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:60475653 original size:15 final size:15
Alignment explanation
Indices: 60475633--60475675 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
60475623 TCTTATATAT
* * *
60475633 TGAAACTTTAGATTG
1 TGAAACTATAGACTA
60475648 TGAAACTATAGACTA
1 TGAAACTATAGACTA
60475663 TGAAACTATAGAC
1 TGAAACTATAGAC
60475676 AGTGAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (15 bp):
TGAAACTATAGACTA
Found at i:60475681 original size:15 final size:15
Alignment explanation
Indices: 60475633--60475682 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
60475623 TCTTATATAT
* **
60475633 TGAAACTTTAGATTG
1 TGAAACTATAGACAG
60475648 TGAAACTATAGACTA-
1 TGAAACTATAGAC-AG
60475663 TGAAACTATAGACAG
1 TGAAACTATAGACAG
60475678 TGAAA
1 TGAAA
60475683 TTGTGACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.97
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (15 bp):
TGAAACTATAGACAG
Found at i:60477721 original size:40 final size:40
Alignment explanation
Indices: 60477640--60477860 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
60477630 AAACCAAGTA
** * *
60477640 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
60477679 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
60477719 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
60477759 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
60477799 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
60477839 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
60477861 CAATCCGAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 26 0.15
40 144 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:60481242 original size:29 final size:29
Alignment explanation
Indices: 60481209--60481264 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
60481199 TTTTCGGGCA
* *
60481209 TAGGGGTAAAATGGTCATTTTGCCAAATC
1 TAGGGGCAAAATGGTCATTTTACCAAATC
60481238 TAGGGGCAAAATGGTCATTTTACCAAA
1 TAGGGGCAAAATGGTCATTTTACCAAA
60481265 AATGTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (29 bp):
TAGGGGCAAAATGGTCATTTTACCAAATC
Found at i:60481657 original size:46 final size:44
Alignment explanation
Indices: 60481604--60481872 Score: 165
Period size: 46 Copynumber: 5.8 Consensus size: 44
60481594 TCATTTCTGT
*
60481604 GAGCTAGTGTAACACATGTCTGGGACATGCATCGGCAACATT-ATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-G--ACATTGATGA
* *
60481650 GAGCTAGTGTAAGACCATGTCTTGGAGATGGCATCGACATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATT--GATGA
* * * *
60481698 GTGCTAGTGTAAGACATGTCTGGGACATGCATC-AGCCTCG-GGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGA-CATTGATGA
* * * * *
60481741 CGTAAGCCAGTATAAGACAAGTTTGGGACATGCATCGGC--T-ATGA
1 -G--AGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGATGA
*
60481785 GATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGTT-ATGTGA
1 GA-G-CT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGACA---TTGA--TGA
60481838 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
60481873 AGCCTCGAAG
Statistics
Matches: 176, Mismatches: 24, Indels: 42
0.73 0.10 0.17
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 3 0.02
44 12 0.07
45 18 0.10
46 55 0.31
47 25 0.14
48 22 0.12
50 30 0.17
51 3 0.02
52 1 0.01
53 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGATGA
Found at i:60489496 original size:46 final size:45
Alignment explanation
Indices: 60489329--60489547 Score: 153
Period size: 46 Copynumber: 4.6 Consensus size: 45
60489319 TCTGAGAGCC
* * * *
60489329 AGTGTAAGACCACGTCTGGGACATGGCATCGGC-ATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTA-CGAGATGTGT-CT
* *
60489377 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGTAAG-CT
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTACGAGATGT--GTCT
* *
60489423 AATATAAGACATGTCTGGGACATGCATCGACTACGAGATGTGTC-
1 AGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATGTGTCT
* *
60489467 AGTGTAAGACTATGCCTGGGACATGGCATCGAC-ACG-GTTATGTGAAAGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGACTACGAG--ATGTG---TCT
*
60489517 AGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
60489548 GCCTCGAAGG
Statistics
Matches: 141, Mismatches: 15, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
44 10 0.07
45 19 0.13
46 58 0.41
47 15 0.11
48 10 0.07
49 1 0.01
50 27 0.19
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATGTGTCT
Found at i:60496116 original size:78 final size:78
Alignment explanation
Indices: 60496025--60496184 Score: 293
Period size: 78 Copynumber: 2.1 Consensus size: 78
60496015 GGGAGTAACA
*
60496025 AGAAAGGTTTTAGAAGCTTAAGTTCGTGTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
1 AGAAAGGTTTTAGAAGCTTAAGTTCGTCTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
60496090 GGAAGGACTATAT
66 GGAAGGACTATAT
* *
60496103 AGAAAGTTTTTAGAAGCTTAAGTTTGTCTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
1 AGAAAGGTTTTAGAAGCTTAAGTTCGTCTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
60496168 GGAAGGACTATAT
66 GGAAGGACTATAT
60496181 AGAA
1 AGAA
60496185 GACAGTGATG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (78 bp):
AGAAAGGTTTTAGAAGCTTAAGTTCGTCTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
GGAAGGACTATAT
Found at i:60502983 original size:37 final size:37
Alignment explanation
Indices: 60502933--60503008 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
60502923 AGAACAAATT
* *
60502933 AAAATTTAGCAATGCAAATGATGAGGCATAGTCAAGA
1 AAAATTCAGCAATGCAAATGATGAGACATAGTCAAGA
*
60502970 AAAATTCAGCAATGCAAATGATGAGACATAGTCAGGA
1 AAAATTCAGCAATGCAAATGATGAGACATAGTCAAGA
60503007 AA
1 AA
60503009 CTAACCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (37 bp):
AAAATTCAGCAATGCAAATGATGAGACATAGTCAAGA
Found at i:60505269 original size:20 final size:20
Alignment explanation
Indices: 60505244--60505284 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
60505234 GGGCATACCT
60505244 AGTAGAATAATTTTGGTATA
1 AGTAGAATAATTTTGGTATA
*
60505264 AGTAGAATCATTTTGGTATA
1 AGTAGAATAATTTTGGTATA
60505284 A
1 A
60505285 TGGCATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (20 bp):
AGTAGAATAATTTTGGTATA
Found at i:60507769 original size:12 final size:12
Alignment explanation
Indices: 60507752--60507776 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60507742 CGCAACTGGG
60507752 GCTACTTGGTGT
1 GCTACTTGGTGT
60507764 GCTACTTGGTGT
1 GCTACTTGGTGT
60507776 G
1 G
60507777 TAGGGATGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.36, T:0.40
Consensus pattern (12 bp):
GCTACTTGGTGT
Found at i:60508200 original size:16 final size:17
Alignment explanation
Indices: 60508179--60508211 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
60508169 CACATTGAAG
60508179 TGTTTT-TCGAAAACCT
1 TGTTTTATCGAAAACCT
60508195 TGTTTTCATCGAAAACC
1 TGTTTT-ATCGAAAACC
60508212 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (17 bp):
TGTTTTATCGAAAACCT
Found at i:60508823 original size:11 final size:11
Alignment explanation
Indices: 60508807--60508832 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60508797 TGAAGCCCAC
60508807 ATCACAATAAT
1 ATCACAATAAT
60508818 ATCACAATAAT
1 ATCACAATAAT
60508829 ATCA
1 ATCA
60508833 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:60509236 original size:27 final size:27
Alignment explanation
Indices: 60509196--60509267 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
60509186 CCTTAGGGGC
* * *
60509196 ATTTCGGTAATTTTACAAGTCGAGGGT
1 ATTTCGATAATTTTACAAGTCAAGGAT
* *
60509223 ATTTCGATAGTTTTACAGGTCAAGGAT
1 ATTTCGATAATTTTACAAGTCAAGGAT
* *
60509250 ATTTCGGTAATTTCACAA
1 ATTTCGATAATTTTACAA
60509268 ATTATGGGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (27 bp):
ATTTCGATAATTTTACAAGTCAAGGAT
Found at i:60509637 original size:29 final size:29
Alignment explanation
Indices: 60509583--60509639 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
60509573 AAGTCTACAT
*
60509583 ACATGCATATGGCCCACTAGGCCCAAATG
1 ACATGCATATGGCCCACTAGGACCAAATG
*
60509612 ACATTCATATGGCCCATCT-GGACCAAAT
1 ACATGCATATGGCCCA-CTAGGACCAAAT
60509640 CAATTGCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (29 bp):
ACATGCATATGGCCCACTAGGACCAAATG
Found at i:60515069 original size:30 final size:30
Alignment explanation
Indices: 60515034--60515094 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60515024 TCCTTAACTC
*
60515034 AAACTTTGGCAAAATTATAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
60515064 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
60515094 A
1 A
60515095 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:60521922 original size:57 final size:57
Alignment explanation
Indices: 60521788--60521923 Score: 222
Period size: 57 Copynumber: 2.4 Consensus size: 57
60521778 ACGATTAGGC
*
60521788 TTTAGCCTGGACTGGTAATCCTAATTGAGCATTTTTGAGCTTACGTTATATAAAGGA
1 TTTAGCCTGGACTGGTAATCTTAATTGAGCATTTTTGAGCTTACGTTATATAAAGGA
*
60521845 TTTAGCCTGGACTGGTAATCTTAATTGAGC-TCTTTTTAGCTTACGTTA-AGTAAAGGA
1 TTTAGCCTGGACTGGTAATCTTAATTGAGCAT-TTTTGAGCTTACGTTATA-TAAAGGA
60521902 TTTAGCCTGGACTGGTAATCTT
1 TTTAGCCTGGACTGGTAATCTT
60521924 GTTATACGAT
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
56 2 0.03
57 73 0.97
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (57 bp):
TTTAGCCTGGACTGGTAATCTTAATTGAGCATTTTTGAGCTTACGTTATATAAAGGA
Found at i:60539614 original size:6 final size:6
Alignment explanation
Indices: 60539596--60539691 Score: 74
Period size: 6 Copynumber: 15.7 Consensus size: 6
60539586 AAGAAACATT
* *
60539596 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCA-A CATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA -ATCAGA ATCAGA
* *
60539643 ATGACAGA ATCAGA ATCAGA ATTAGA ATTAG- ATGACAGA ATCAGA ATCA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCA
60539692 AAATGTGAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
5 6 0.08
6 59 0.79
7 6 0.08
8 4 0.05
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:60539651 original size:31 final size:30
Alignment explanation
Indices: 60539616--60539693 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 30
60539606 GAATCAGAAT
*
60539616 CAGAATCAAAATCAACATCAGAATTAGATGA
1 CAGAATCAGAATCAA-ATCAGAATTAGATGA
*
60539647 CAGAATCAGAATCAGAATTAGAATTAGATGA
1 CAGAATCAGAATCA-AATCAGAATTAGATGA
60539678 CAGAATCAGAATCAAA
1 CAGAATCAGAATCAAA
60539694 ATGTGAATGC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 2 0.05
31 41 0.93
32 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.19
Consensus pattern (30 bp):
CAGAATCAGAATCAAATCAGAATTAGATGA
Found at i:60540155 original size:27 final size:27
Alignment explanation
Indices: 60540098--60540616 Score: 666
Period size: 27 Copynumber: 19.3 Consensus size: 27
60540088 GGGGCAAAAT
* * * *
60540098 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60540124 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
60540151 AGTAATTTTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60540178 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60540205 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
60540232 AGTAATTCTACCCTACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60540259 GGTAATTCTACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
60540286 AATAATTCTAGCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60540313 AGAAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60540339 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
60540367 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
60540394 GATAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
60540421 GGTAATTCTACCCTACAGGTTTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
60540448 GGTAATTCTACCCTATAGGTGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60540475 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60540502 GATAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60540528 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
60540556 GGTAATTCTACACTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60540583 AGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60540610 GGTAATT
1 GGTAATT
60540617 TCACAAATCA
Statistics
Matches: 437, Mismatches: 51, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.05
27 411 0.94
28 6 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:60540659 original size:81 final size:80
Alignment explanation
Indices: 60540139--60540824 Score: 299
Period size: 81 Copynumber: 8.5 Consensus size: 80
60540129 TTCTACCCTA
** ** * * * *
60540139 CAGGGGTATTTCAGTAATTTTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTA-CAAACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
**
60540204 CGGTAA-TTCTAC-CCT
65 CGGTAATTTC-ACAAAT
* ** * ** * *
60540219 ACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGGGGTATT
1 -CAGGGGTATTTTGGTAATTTTA-CAAACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
* ** **
60540284 ACAATAA-TTCTAGCCTA-
64 TCGGTAATTTC-A-CAAAT
** * * **
60540301 CAGGGGTATTTCAGAAATTCTACCCTACAGGGGTA-TTCTGGTAATTCTACCCTACAGGGGTATT
1 CAGGGGTATTTTGGTAATTTTA-CAAACAGGGGTATTTC-GGTAATTCTACCCTACAGGGGTATT
**
60540365 TCGGTAA-TTCTAC-CCT
64 TCGGTAATTTC-ACAAAT
* ** * * ** * * **
60540381 ACAAGGGTATTGCGATAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGTTTATT
1 -CAGGGGTATTTTGGTAATTTTA-CAAACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
* **
60540446 CCGGTAA-TTCTACCCTAT
64 TCGGTAATTTC-A-CAAAT
* ** * ** * *
60540464 -AGGTGTATTCCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTA-TT
1 CAGGGGTATTTTGGTAATTTTA-CAAACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
**
60540527 CTGGTAA-TTCTAC-CCT
65 C-GGTAATTTC-ACAAAT
* * * * * *
60540543 ACAGGGGTATTTCGGTAATTCTACACTACAAGGGTATTTCAGTAATTCTACCCTACATGGGTATT
1 -CAGGGGTATTTTGGTAATTTTACA-AACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
60540608 TCGGTAATTTCACAAAT
64 TCGGTAATTTCACAAAT
* * *
60540625 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACC-A-A-GGGTA
1 CAGGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTCGGTAA--TTCT-ACCCTACAGGGGTA
* * *
60540687 TTTTGGTAATTTTATAAAT
62 TTTCGGTAATTTCACAAAT
* * * * **
60540706 CAGGCGTATTTTGGTAATTTTATAAACAAAGGGTATTTTGGTAAATT-TA-CAAACCAGGGGTAT
1 CAGGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTCGGT-AATTCTACCCTA-CAGGGGTAT
* * * * *
60540769 TTTGGTGATTTTATAAAC
63 TTCGGTAATTTCACAAAT
* *
60540787 CAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTT
60540825 TGGTTATTTT
Statistics
Matches: 503, Mismatches: 77, Indels: 50
0.80 0.12 0.08
Matches are distributed among these distances:
77 1 0.00
78 2 0.00
79 2 0.00
80 12 0.02
81 463 0.92
82 15 0.03
83 5 0.01
84 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (80 bp):
CAGGGGTATTTTGGTAATTTTACAAACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
GGTAATTTCACAAAT
Found at i:60540671 original size:54 final size:54
Alignment explanation
Indices: 60540601--60540956 Score: 424
Period size: 54 Copynumber: 6.6 Consensus size: 54
60540591 TACCCTACAT
* * * * * *
60540601 GGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
60540655 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTATAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
60540709 GCGTATTTTGGTAATTTTATAAACAAAGGGTATTTTGGTAAATTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
60540763 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
60540817 GGGTATTTTGGTTATTTTATAAACCAATGGTATTTTAGTAATTTTAAAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* ** * * * ** *
60540871 GGGTATTTTGGTACTTTTATTGATCGAGGGTATTTGGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
** * * *
60540925 GGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTA
60540957 AAATGGTAAT
Statistics
Matches: 261, Mismatches: 41, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 261 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:60540954 original size:27 final size:27
Alignment explanation
Indices: 60540601--60540956 Score: 381
Period size: 27 Copynumber: 13.2 Consensus size: 27
60540591 TACCCTACAT
* * * * *
60540601 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
60540628 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
60540655 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
60540682 GGGTATTTTGGTAATTTTATAAATC-A
1 GGGTATTTTGGTAATTTTATAAACCAA
*
60540708 GGCGTATTTTGGTAATTTTATAAACAAA
1 GG-GTATTTTGGTAATTTTATAAACCAA
* * *
60540736 GGGTATTTTGGTAAATTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
60540763 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
60540790 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
60540817 GGGTATTTTGGTTATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
60540844 TGGTATTTTAGTAATTTTAAAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* ** * *
60540871 GGGTATTTTGGTACTTTTATTGATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
60540898 GGGTATTTGGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
** * * *
60540925 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
60540952 GGGTA
1 GGGTA
60540957 AAATGGTAAT
Statistics
Matches: 274, Mismatches: 53, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
26 3 0.01
27 268 0.98
28 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:60540965 original size:27 final size:27
Alignment explanation
Indices: 60540935--60540996 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
60540925 GGGTATTTCA
*
60540935 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
60540962 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
60540989 GTAATTCT
1 GTAATTCT
60540997 ATCTTATTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.34
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:60551625 original size:17 final size:17
Alignment explanation
Indices: 60551581--60551627 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
60551571 TCTCTTTGCT
* *
60551581 TTAATTAAATCAGTTAA
1 TTAATTAAAACAATTAA
* *
60551598 TTAATTTAAACAATTAG
1 TTAATTAAAACAATTAA
60551615 TTAATTAAAACAA
1 TTAATTAAAACAA
60551628 ACCCTTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.38
Consensus pattern (17 bp):
TTAATTAAAACAATTAA
Found at i:60557037 original size:40 final size:40
Alignment explanation
Indices: 60556988--60557136 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 40
60556978 CAGAATTTAA
** *
60556988 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* *
60557028 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * * * * *
60557068 CCGGATTTAGTAACTTGCACCAATGCATTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* *
60557107 CCGGA-ATTAGTATCTCGCACAAATCCCTTC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTC
60557137 AGATCTTAGT
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
39 29 0.32
40 61 0.68
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:60557178 original size:79 final size:80
Alignment explanation
Indices: 60557007--60557191 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 80
60556997 GCTACTCGTT
* * * *
60557007 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATCCCTTCGAGACTTAACCCG
*
60557071 GATTTAGTAACTTGCA
65 GATATAGTAACTTGCA
* * * **
60557087 CCAATGCATTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATCCCTTC-AGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATCCCTTCGAGA-CTTAACCCG
* *
60557150 GATATGGTCACTTAGCA
65 GATATAGTAACTT-GCA
*
60557167 CAAAT-CCTTCGGAACTTAGCCCGGA
1 CAAATGCCTTCGG-GCTTAGCCCGGA
60557192 CATCATTCGA
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
78 2 0.02
79 53 0.62
80 31 0.36
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATCCCTTCGAGACTTAACCCGG
ATATAGTAACTTGCA
Found at i:60565278 original size:79 final size:81
Alignment explanation
Indices: 60565169--60565351 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
60565159 TACTCGTTCA
* *
60565169 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
60565232 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
60565249 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
60565312 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
60565328 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
60565352 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:60565351 original size:40 final size:40
Alignment explanation
Indices: 60565148--60565351 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
60565138 CGGAATTTAA
** *
60565148 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60565188 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60565228 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60565267 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60565307 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60565347 CCGGA
1 CCGGA
60565352 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60567315 original size:11 final size:11
Alignment explanation
Indices: 60567276--60567315 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
60567266 GCACTCAAAC
*
60567276 AAAAAAACATG
1 AAAAAAACATA
*
60567287 AAAATAACATA
1 AAAAAAACATA
*
60567298 TAAAAAACATA
1 AAAAAAACATA
60567309 AAAAAAA
1 AAAAAAA
60567316 AAATTAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (11 bp):
AAAAAAACATA
Found at i:60568902 original size:48 final size:49
Alignment explanation
Indices: 60568818--60568946 Score: 133
Period size: 48 Copynumber: 2.7 Consensus size: 49
60568808 AGGGGATATA
* *
60568818 TTGATTTGGCTTCGGGCCATGATATCGGCACTTTGGGTCCG-AGTT-AC
1 TTGATTTGGCTTCGGGCCATGATATAGGCACTTTGGGTCCGAACTTCAC
* * * *
60568865 TTTGATTTGGCTTCGGGTCATGATATATGTA-TCTTGGGTGCGAACTTCAC
1 -TTGATTTGGCTTCGGGCCATGATATAGGCACT-TTGGGTCCGAACTTCAC
*
60568915 -TGATTTGGCTACGGGCCATGATATTA-GCACTT
1 TTGATTTGGCTTCGGGCCATGATA-TAGGCACTT
60568947 GGGCGCGAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
47 1 0.01
48 58 0.87
49 6 0.09
50 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (49 bp):
TTGATTTGGCTTCGGGCCATGATATAGGCACTTTGGGTCCGAACTTCAC
Found at i:60583977 original size:91 final size:91
Alignment explanation
Indices: 60583812--60583978 Score: 264
Period size: 91 Copynumber: 1.8 Consensus size: 91
60583802 GGATGGTTGA
*** *
60583812 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTATGGATGCGAATTTCTGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTATGGATGCGAACGCCCGAACTCGTTGAGTT
60583877 GAGTCCGAGTTGTGAGATGTAACTAG
66 GAGTCCGAGTTGTGAGATGTAACTAG
* *
60583903 GCATCCGAACTCGTTGAGTTGCGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACGCCCGAACTCGTTGAGT
60583968 TGAGT-CGAGTT
65 TGAGTCCGAGTT
60583979 CGCTTATGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 38 0.55
92 31 0.45
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTGTGAGATGTAACTAG
Found at i:60585382 original size:19 final size:18
Alignment explanation
Indices: 60585341--60585382 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
60585331 AATAGGAATA
60585341 TTAAACACATTTAAACAC
1 TTAAACACATTTAAACAC
*
60585359 ATAAA-ACATATTAAACAAC
1 TTAAACACAT-TTAAAC-AC
60585378 TTAAA
1 TTAAA
60585383 TAAATGAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (18 bp):
TTAAACACATTTAAACAC
Found at i:60586066 original size:19 final size:20
Alignment explanation
Indices: 60586023--60586066 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
60586013 ATTGAGACAG
*
60586023 AAAAAGAGAATGAAAGAGAGC
1 AAAAAGAGAATG-AAGAGAGA
*
60586044 AAAAAGAGAATG-AGAGTGA
1 AAAAAGAGAATGAAGAGAGA
60586063 AAAA
1 AAAA
60586067 GAATGTCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
21 12 0.57
ACGTcount: A:0.64, C:0.02, G:0.27, T:0.07
Consensus pattern (20 bp):
AAAAAGAGAATGAAGAGAGA
Found at i:60586067 original size:18 final size:18
Alignment explanation
Indices: 60585990--60586068 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
60585980 GAGATACACA
60585990 AAAAAGA-AATGA-A-AG
1 AAAAAGAGAATGAGAGAG
*
60586005 AAAAAGA-AATTGAGACAG
1 AAAAAGAGAA-TGAGAGAG
60586023 AAAAAGAGAATGAAAGAGAG
1 AAAAAGAGAATG--AGAGAG
*
60586043 CAAAAAGAGAATGAGAGTG
1 -AAAAAGAGAATGAGAGAG
60586062 AAAAAGA
1 AAAAAGA
60586069 ATGTCCAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
15 9 0.16
16 3 0.05
17 1 0.02
18 18 0.33
19 7 0.13
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.08
Consensus pattern (18 bp):
AAAAAGAGAATGAGAGAG
Found at i:60592844 original size:45 final size:45
Alignment explanation
Indices: 60592780--60592912 Score: 140
Period size: 45 Copynumber: 3.0 Consensus size: 45
60592770 TAGGATTTTG
* * * * *
60592780 ATATGTATTTCTGAGTAAGACCATGTCTGGGACATTGGCATCGGT
1 ATATGTGTTTATGTGTAAGACCATGTCTGGGACATCGGCATCGAT
* * * **
60592825 ATATGTGTTTTTGTGTAAGACCACGTTTGGGATGTCGGCATCGAT
1 ATATGTGTTTATGTGTAAGACCATGTCTGGGACATCGGCATCGAT
* * * *
60592870 ACATGTGGTTATGTGTAAGACCATGTCTGGAACATCAGCATCG
1 ATATGTGTTTATGTGTAAGACCATGTCTGGGACATCGGCATCG
60592913 TATTAGATTC
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (45 bp):
ATATGTGTTTATGTGTAAGACCATGTCTGGGACATCGGCATCGAT
Found at i:60602951 original size:27 final size:26
Alignment explanation
Indices: 60602889--60603002 Score: 138
Period size: 27 Copynumber: 4.3 Consensus size: 26
60602879 AGCATGGCTG
* *
60602889 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
60602915 CCAGAACAGATAATCATGGCGGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
60602942 CCAGAACAGATAAATGTGGCAGAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
* * *
60602969 CCAGATCAGGTAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
60602996 CCAGAAC
1 CCAGAAC
60603003 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 16 0.21
27 56 0.75
28 3 0.04
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:60604465 original size:24 final size:24
Alignment explanation
Indices: 60604420--60604472 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
60604410 CCAACACCGT
**
60604420 TCTCCCTAATCAGCTCTTAAATCC
1 TCTCCCTAATCAGCTCCCAAATCC
* *
60604444 TCTCCCTTATCAGCTCCCAAATCT
1 TCTCCCTAATCAGCTCCCAAATCC
60604468 TCTCC
1 TCTCC
60604473 TGATAGCCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCCCAAATCC
Found at i:60610796 original size:27 final size:26
Alignment explanation
Indices: 60610733--60610843 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
60610723 AGCATGGCTG
* *
60610733 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
60610759 CCAGAACAGATAATCGTGGCGGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
60610786 CCAGAAGAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
60610813 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
60610840 CCAG
1 CCAG
60610844 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:60613647 original size:45 final size:45
Alignment explanation
Indices: 60613583--60613701 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 45
60613573 TAGGATTTTC
* *
60613583 ATATGTATTTTCAAGTAAGACCACGTCTGAGACGTTGGAATCGAT
1 ATATGTGTTTTCATGTAAGACCACGTCTGAGACGTTGGAATCGAT
* * * *
60613628 ATATGTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATTGAT
1 ATATGTGTTTTCATGTAAGACCACGTCTGAGACGTTGGAATCGAT
* * *
60613673 ATATGTGCTTAT-GTGTAAGACCATGTCTG
1 ATATGTG-TTTTCATGTAAGACCACGTCTG
60613702 GGACATCGAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 61 0.95
46 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (45 bp):
ATATGTGTTTTCATGTAAGACCACGTCTGAGACGTTGGAATCGAT
Found at i:60613756 original size:41 final size:42
Alignment explanation
Indices: 60613687--60613789 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 42
60613677 GTGCTTATGT
* *
60613687 GTAAGACCATGTCTGGGACATCGACATC-GTATTAGATTCGA
1 GTAAGACCATGTCTAGGACATCGACATCGGTATGAGATTCGA
* * *
60613728 GTAAGACCCTGTCTAGGACAGT-GGCATCGGTATGAGA-TAGCA
1 GTAAGACCATGTCTAGGACA-TCGACATCGGTATGAGATTCG-A
*
60613770 TGTAAGACCATGTCTGGGAC
1 -GTAAGACCATGTCTAGGAC
60613790 GTTGGCATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
41 25 0.49
42 9 0.18
43 17 0.33
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (42 bp):
GTAAGACCATGTCTAGGACATCGACATCGGTATGAGATTCGA
Found at i:60613784 original size:43 final size:42
Alignment explanation
Indices: 60613686--60613804 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
60613676 TGTGCTTATG
* * *
60613686 TGTAAGACCATGTCTGGGACA-TCGACATCGTATTAGATTCGA
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGTATGAGATGCGA
* *
60613728 -GTAAGACCCTGTCTAGGACAGTGGCATCGGTATGAGATAGC-A
1 TGTAAGACCATGTCTGGGACAGTGGCATC-GTATGAGAT-GCGA
*
60613770 TGTAAGACCATGTCTGGGAC-GTTGGCATTGTATGA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGTATGA
60613805 CCTATGTGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
41 23 0.36
42 17 0.27
43 24 0.38
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATGAGATGCGA
Found at i:60621028 original size:23 final size:23
Alignment explanation
Indices: 60621000--60621075 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
60620990 TTGAGTTGAA
60621000 CAGTAAGCTCTTTCGAGCTAAAT
1 CAGTAAGCTCTTTCGAGCTAAAT
* **
60621023 CGGTAAGCTCCAAT-GAGCTGAAA-
1 CAGTAAGCT-CTTTCGAGCT-AAAT
*
60621046 CAGTAAGCTCTTACGAGCTAAAT
1 CAGTAAGCTCTTTCGAGCTAAAT
60621069 CAGTAAG
1 CAGTAAG
60621076 ATCATATGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
22 4 0.10
23 33 0.79
24 5 0.12
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (23 bp):
CAGTAAGCTCTTTCGAGCTAAAT
Found at i:60621048 original size:46 final size:46
Alignment explanation
Indices: 60620998--60621088 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
60620988 TATTGAGTTG
* * *
60620998 AACAGTAAGCTCTTTCGAGCTAAATCGGTAAGCTCCA-ATGAGCTGA
1 AACAGTAAGCTCTTACGAGCTAAATCAGTAAGAT-CATATGAGCTGA
60621044 AACAGTAAGCTCTTACGAGCTAAATCAGTAAGATCATATGAGCTG
1 AACAGTAAGCTCTTACGAGCTAAATCAGTAAGATCATATGAGCTG
60621089 TGGTGAGTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.05
46 39 0.95
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (46 bp):
AACAGTAAGCTCTTACGAGCTAAATCAGTAAGATCATATGAGCTGA
Found at i:60621086 original size:23 final size:23
Alignment explanation
Indices: 60621000--60621087 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 23
60620990 TTGAGTTGAA
*
60621000 CAGTAAGCTC-TTTCGAGCTAAAT
1 CAGTAAGCTCATAT-GAGCTAAAT
*
60621023 CGGTAAGCTCCA-ATGAGCTGAAA-
1 CAGTAAGCT-CATATGAGCT-AAAT
* *
60621046 CAGTAAGCTCTTACGAGCTAAAT
1 CAGTAAGCTCATATGAGCTAAAT
*
60621069 CAGTAAGATCATATGAGCT
1 CAGTAAGCTCATATGAGCT
60621088 GTGGTGAGTC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
22 4 0.08
23 43 0.83
24 5 0.10
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (23 bp):
CAGTAAGCTCATATGAGCTAAAT
Found at i:60621716 original size:21 final size:21
Alignment explanation
Indices: 60621669--60621718 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
60621659 AAATCAATTT
*
60621669 ATAAAAC-TTGTTAATCTAGC
1 ATAAAACATTATTAATCTAGC
* * *
60621689 TTCAAACATTATTAATCTATC
1 ATAAAACATTATTAATCTAGC
60621710 ATAAAACAT
1 ATAAAACAT
60621719 CTAAAAAACC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (21 bp):
ATAAAACATTATTAATCTAGC
Found at i:60624165 original size:18 final size:20
Alignment explanation
Indices: 60624144--60624189 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
60624134 GCATCTGAGC
60624144 AAGAAAAGA-AAATTGAA-A
1 AAGAAAAGAGAAATTGAAGA
* *
60624162 AAG-AGAGAGAGATTGAAGA
1 AAGAAAAGAGAAATTGAAGA
60624181 AAGAAAAGA
1 AAGAAAAGA
60624190 TAGTGAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 4 0.18
18 10 0.45
19 4 0.18
20 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (20 bp):
AAGAAAAGAGAAATTGAAGA
Found at i:60624322 original size:15 final size:15
Alignment explanation
Indices: 60624302--60624339 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
60624292 AAATGAGTTA
60624302 GAAAAAGATACGAGT
1 GAAAAAGATACGAGT
60624317 GAAAAAGATACGAGT
1 GAAAAAGATACGAGT
*
60624332 GAACAAGA
1 GAAAAAGA
60624340 AAAAGTGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.08, G:0.26, T:0.11
Consensus pattern (15 bp):
GAAAAAGATACGAGT
Found at i:60633921 original size:20 final size:20
Alignment explanation
Indices: 60633898--60633942 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
60633888 AGCTCCATCT
*
60633898 AGCTCAAATCAGCTCACTTG
1 AGCTCAAATCAACTCACTTG
* * *
60633918 AGCTTAACTCAACTCATTTG
1 AGCTCAAATCAACTCACTTG
60633938 AGCTC
1 AGCTC
60633943 GATTTAGTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (20 bp):
AGCTCAAATCAACTCACTTG
Found at i:60635805 original size:30 final size:29
Alignment explanation
Indices: 60635766--60635826 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
60635756 GTAGCCGAAG
60635766 CTAGTTAAATCGCACACTTAGTGCCAAAA
1 CTAGTTAAATCGCACACTTAGTGCCAAAA
*
60635795 CTAGTTTAAATCGCACTCTTAGTGCCAAAA
1 CTAG-TTAAATCGCACACTTAGTGCCAAAA
60635825 CT
1 CT
60635827 TCCGATTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (29 bp):
CTAGTTAAATCGCACACTTAGTGCCAAAA
Found at i:60645842 original size:30 final size:29
Alignment explanation
Indices: 60645803--60645863 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
60645793 GTAGCTGAAG
60645803 CTAGTTAAATCGCA-TACTTAGTGCCAAAA
1 CTAGTTAAATCGCACT-CTTAGTGCCAAAA
60645832 CTAGTTTAAATCGCACTCTTAGTGCCAAAA
1 CTAG-TTAAATCGCACTCTTAGTGCCAAAA
60645862 CT
1 CT
60645864 TCTGATTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 4 0.13
30 25 0.83
31 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (29 bp):
CTAGTTAAATCGCACTCTTAGTGCCAAAA
Found at i:60655610 original size:9 final size:9
Alignment explanation
Indices: 60655596--60655663 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
60655586 GACACATGCA
60655596 ATTAAACAC
1 ATTAAACAC
60655605 ATTAAA-AC
1 ATTAAACAC
*
60655613 ---AAACAT
1 ATTAAACAC
60655619 ATTAAACAC
1 ATTAAACAC
60655628 ATTTAAACAC
1 A-TTAAACAC
60655638 TTATTAAACAC
1 --ATTAAACAC
60655649 A--AAACAC
1 ATTAAACAC
60655656 ATTAAACA
1 ATTAAACA
60655664 TTTAACTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 7 0.15
8 2 0.04
9 18 0.38
10 8 0.17
11 8 0.17
12 1 0.02
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (9 bp):
ATTAAACAC
Found at i:60655644 original size:11 final size:11
Alignment explanation
Indices: 60655596--60655649 Score: 58
Period size: 10 Copynumber: 4.9 Consensus size: 11
60655586 GACACATGCA
60655596 ATTAAACACAT
1 ATTAAACACAT
*
60655607 -TAAAACAAACAT
1 ATTAAAC--ACAT
60655619 ATTAAACACAT
1 ATTAAACACAT
*
60655630 -TTAAACACTT
1 ATTAAACACAT
60655640 ATTAAACACA
1 ATTAAACACA
60655650 AAACACATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 14 0.40
11 12 0.34
12 4 0.11
13 5 0.14
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (11 bp):
ATTAAACACAT
Found at i:60655644 original size:21 final size:22
Alignment explanation
Indices: 60655596--60655649 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
60655586 GACACATGCA
60655596 ATTAAACACATTAAAACAAACAT
1 ATTAAACACATTAAAAC-AACAT
* *
60655619 ATTAAACACATTTAAAC-ACTT
1 ATTAAACACATTAAAACAACAT
60655640 ATTAAACACA
1 ATTAAACACA
60655650 AAACACATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 13 0.45
23 16 0.55
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
ATTAAACACATTAAAACAACAT
Found at i:60655668 original size:35 final size:33
Alignment explanation
Indices: 60655597--60655663 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 33
60655587 ACACATGCAA
*
60655597 TTAAACACATTAAAACAAACATATTAAACACAT
1 TTAAACACATTAAAACAAACACATTAAACACAT
60655630 TTAAACACTTATTAAACACAAAACACATTAAACA
1 TTAAACAC--ATTAAA-AC-AAACACATTAAACA
60655664 TTTAACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 8 0.28
35 6 0.21
36 2 0.07
37 13 0.45
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (33 bp):
TTAAACACATTAAAACAAACACATTAAACACAT
Found at i:60655847 original size:19 final size:21
Alignment explanation
Indices: 60655811--60655849 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
60655801 AACAGATGAG
60655811 TTAATTAATGCAAGACTTAAT
1 TTAATTAATGCAAGACTTAAT
60655832 TTAA-TAATGC-AGACTTAA
1 TTAATTAATGCAAGACTTAA
60655850 ACTAACATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
TTAATTAATGCAAGACTTAAT
Found at i:60655872 original size:52 final size:50
Alignment explanation
Indices: 60655808--60655924 Score: 121
Period size: 50 Copynumber: 2.3 Consensus size: 50
60655798 AGAAACAGAT
* *
60655808 GAGTTA-ATTAATGCAAGAC-TTAATTTAATAATGCAGACTTAAACTAACATGG
1 GAGTTACA-TAATGCAAGACATT-ATCT-ATAATGCAGACTT-AACTAACATGA
* * * *
60655860 GAGTTACATAATGCAAGTCATTATCTATGATGCATACTTAACTACCATGA
1 GAGTTACATAATGCAAGACATTATCTATAATGCAGACTTAACTAACATGA
*
60655910 AAGTTACATAATGCA
1 GAGTTACATAATGCA
60655925 TTACTTTATT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
50 23 0.41
51 11 0.20
52 19 0.34
53 3 0.05
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (50 bp):
GAGTTACATAATGCAAGACATTATCTATAATGCAGACTTAACTAACATGA
Found at i:60659419 original size:40 final size:40
Alignment explanation
Indices: 60659375--60659454 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
60659365 GTTTCCCTTT
60659375 TCATTGAGGAACAAAGCTAAAAAGTGGTTGAACTCGTTAC
1 TCATTGAGGAACAAAGCTAAAAAGTGGTTGAACTCGTTAC
60659415 TCATTGAGGAACAAAGCTAAAAAGTGGTTGAACTCGTTAC
1 TCATTGAGGAACAAAGCTAAAAAGTGGTTGAACTCGTTAC
60659455 CACGAGGGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (40 bp):
TCATTGAGGAACAAAGCTAAAAAGTGGTTGAACTCGTTAC
Found at i:60661800 original size:14 final size:14
Alignment explanation
Indices: 60661781--60661808 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60661771 CCAACAAGGA
60661781 CAGTCACATGATGG
1 CAGTCACATGATGG
60661795 CAGTCACATGATGG
1 CAGTCACATGATGG
60661809 AGACTTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (14 bp):
CAGTCACATGATGG
Found at i:60666250 original size:49 final size:50
Alignment explanation
Indices: 60666165--60666410 Score: 262
Period size: 49 Copynumber: 4.9 Consensus size: 50
60666155 ATCTATTGTG
* * *
60666165 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAAAT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
60666215 -GGTCGCATGTGTAGTACTAAGTGCAGGCTATTATGTGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TT
* * * * * * * **
60666265 CGATCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
60666315 AGGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
** * * *
60666365 -GGTTGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
60666411 GCTTTGGCTA
Statistics
Matches: 163, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 81 0.50
50 45 0.28
51 37 0.23
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:60669314 original size:13 final size:13
Alignment explanation
Indices: 60669296--60669320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60669286 AAGTAATCGC
60669296 ACACGGGCGTGTT
1 ACACGGGCGTGTT
60669309 ACACGGGCGTGT
1 ACACGGGCGTGT
60669321 CCCTGCCGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:60684792 original size:18 final size:19
Alignment explanation
Indices: 60684758--60684794 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
60684748 TGAATTAAAC
60684758 TCATAAAGGTATAAAAAGT
1 TCATAAAGGTATAAAAAGT
*
60684777 TCATAAA-GTATCAAAAGT
1 TCATAAAGGTATAAAAAGT
60684795 CTGAAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (19 bp):
TCATAAAGGTATAAAAAGT
Done.