Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 57 of 325
Found at i:17299607 original size:20 final size:20
Alignment explanation
Indices: 17299582--17299621 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17299572 CCACTTCATT
17299582 TTGCTTAAATTGAGTTAGGG
1 TTGCTTAAATTGAGTTAGGG
17299602 TTGCTTAAATTGAGTTAGGG
1 TTGCTTAAATTGAGTTAGGG
17299622 AAAATTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.30, T:0.40
Consensus pattern (20 bp):
TTGCTTAAATTGAGTTAGGG
Found at i:17302287 original size:7 final size:7
Alignment explanation
Indices: 17302275--17302307 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
17302265 TTACTAATTT
17302275 AAATATA
1 AAATATA
17302282 AAATATA
1 AAATATA
*
17302289 AATTATA
1 AAATATA
17302296 AAATATA
1 AAATATA
17302303 AAATA
1 AAATA
17302308 ATTAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATATA
Found at i:17309927 original size:27 final size:27
Alignment explanation
Indices: 17309863--17309928 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
17309853 GCTGCACACG
* *
17309863 ACAAACGTTTCGTGGGTTCCCCAAACC
1 ACAAACGTTTCATGGATTCCCCAAACC
* * *
17309890 ATAAACATTTCATGGATTCCCCAAACT
1 ACAAACGTTTCATGGATTCCCCAAACC
*
17309917 ACGAACGTTTCA
1 ACAAACGTTTCA
17309929 ACTGATCAGA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
ACAAACGTTTCATGGATTCCCCAAACC
Found at i:17313809 original size:42 final size:43
Alignment explanation
Indices: 17313762--17313874 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
17313752 TGTGTTTTCG
*
17313762 TGTAAGACCACATCCGGGACATTGGCATC-AT-TTGAGATTTA-A
1 TGTAAGACCACATCTGGGACATTGGCATCGATATT-AGA-TTACA
* * * *
17313804 TGTAAGACC-CTGTCTGGGACAGTGGCGTCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGACATTGGCATCGATATTAGATTACA
*
17313847 TGTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACATTGGCAT
17313875 TGTACGAGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.46
43 27 0.47
44 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACATTGGCATCGATATTAGATTACA
Found at i:17313863 original size:43 final size:42
Alignment explanation
Indices: 17313762--17313874 Score: 108
Period size: 42 Copynumber: 2.7 Consensus size: 42
17313752 TGTGTTTTCG
* *
17313762 TGTAAGACCACATCCGGGACATTGGCATCATTTGAGATTTAA
1 TGTAAGACCACATCTGGGACAGTGGCATCATTTGAGATTTAA
* * *
17313804 TGTAAGACC-CTGTCTGGGACAGTGGCGTCGATATT-TGA-TTACA
1 TGTAAGACCAC-ATCTGGGACAGTGGCATC-AT-TTGAGATTTA-A
17313847 TGTAAGACCACATCTGGGAC-GTTGGCAT
1 TGTAAGACCACATCTGGGACAG-TGGCAT
17313875 TGTACGAGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
41 1 0.02
42 27 0.47
43 27 0.47
44 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACAGTGGCATCATTTGAGATTTAA
Found at i:17318337 original size:43 final size:43
Alignment explanation
Indices: 17318276--17318361 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
17318266 TTTGGTGAGA
17318276 AATGTCATGTTTATTCTGATCATAAAAGTTTGAAATATCTGAT
1 AATGTCATGTTTATTCTGATCATAAAAGTTTGAAATATCTGAT
*
17318319 AATGTCATGTTTATTCTGATCATAAAAGTTTGAAATATTTGAT
1 AATGTCATGTTTATTCTGATCATAAAAGTTTGAAATATCTGAT
17318362 GACTGAGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (43 bp):
AATGTCATGTTTATTCTGATCATAAAAGTTTGAAATATCTGAT
Found at i:17321160 original size:38 final size:38
Alignment explanation
Indices: 17321050--17321186 Score: 150
Period size: 38 Copynumber: 3.6 Consensus size: 38
17321040 CGAGGTATAA
* * *
17321050 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGAATATAATACCAGCACGAAGCCTGCGGGA-TTT
* * *
17321089 AAACTC-AGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCGA-ATATAATACCAGCACGAAGCCTGCGGGATTT
* * *
17321128 AACCCGGATATAATACCAACACGAAGCATGCGGGATTT
1 AACCCGAATATAATACCAGCACGAAGCCTGCGGGATTT
*
17321166 AACCCGAATATAATTCCAGCA
1 AACCCGAATATAATACCAGCA
17321187 TATAGCCTGC
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
38 49 0.61
39 4 0.05
40 27 0.34
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (38 bp):
AACCCGAATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:17324862 original size:29 final size:30
Alignment explanation
Indices: 17324826--17325017 Score: 132
Period size: 29 Copynumber: 6.6 Consensus size: 30
17324816 GTTGAAGAAC
*
17324826 TCGCACACACAGTGCCTCAATT-ACGG-AT
1 TCGCACACACAGTGCCTCAATTAAAGGAAT
* * *
17324854 CTTGCACACATAGTG-CTCAGTTAAAGGAAT
1 -TCGCACACACAGTGCCTCAATTAAAGGAAT
**
17324884 TCGCACACACAGTGCCTCAATT--ACCAAT
1 TCGCACACACAGTGCCTCAATTAAAGGAAT
* * * ** *
17324912 CTCGAACACATAATG-CTCGGTTGAAGGAAT
1 -TCGCACACACAGTGCCTCAATTAAAGGAAT
**
17324942 TCGCACACACAGTGCCTCAATT-ACCG-AT
1 TCGCACACACAGTGCCTCAATTAAAGGAAT
* **
17324970 CTCGCACACATAGTG-CTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCCTCAATTAAAGGAAT
*
17325000 TTGCACACACAGTGCCTC
1 TCGCACACACAGTGCCTC
17325018 TAACCATTCG
Statistics
Matches: 122, Mismatches: 30, Indels: 21
0.71 0.17 0.12
Matches are distributed among these distances:
28 22 0.18
29 78 0.64
30 22 0.18
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (30 bp):
TCGCACACACAGTGCCTCAATTAAAGGAAT
Found at i:17324903 original size:58 final size:58
Alignment explanation
Indices: 17324793--17325041 Score: 355
Period size: 58 Copynumber: 4.4 Consensus size: 58
17324783 GCCCACTGAT
* *
17324793 CGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
* * *
17324850 GGATCTTGCACACATAGTGCTCAGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
* * * *
17324908 CAATCTCGAACACATAATGCTCGGTTGAAGGAATTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
* *
17324966 CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC--TAAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
*
17325022 C-AT-TCGCACACATAATGCTC
1 CGATCTCGCACACATAGTGCTC
17325042 ATATTCATTC
Statistics
Matches: 172, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
54 16 0.09
55 2 0.01
56 4 0.02
57 25 0.15
58 125 0.73
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
Found at i:17325235 original size:43 final size:43
Alignment explanation
Indices: 17325183--17325306 Score: 194
Period size: 43 Copynumber: 2.9 Consensus size: 43
17325173 CACCGGTATT
* *
17325183 AAGCTTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACA
*
17325226 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACA
* * *
17325269 AAGCCTGTTAGACACGAAGGCCCAAATACACATCACCG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCG
17325307 AGTTTCATGC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.33, C:0.32, G:0.23, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACA
Found at i:17330707 original size:43 final size:43
Alignment explanation
Indices: 17330646--17330806 Score: 177
Period size: 43 Copynumber: 3.7 Consensus size: 43
17330636 TAAGCTCGTA
*
17330646 CAATGCCAACGTCCCAGACGTGGTCTTAC-CTGTAATCAAATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACAC-GTAATCAAATAT
* *
17330689 CAATGCC-ACTGTCCCAGACAAGGTCTTACACGAAATCAAATA-
1 CAATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCAAATAT
* * *
17330731 CGATGCCAATGTCCCAGACATGGTCTAACACGTAAATCACAA-AT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGT-AATCA-AATAT
* * *
17330775 CGATGCCAACGTCCTAGACGTGGTCTTACACG
1 CAATGCCAACGTCCCAGACATGGTCTTACACG
17330807 ATAACACATA
Statistics
Matches: 100, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 28 0.28
43 41 0.41
44 31 0.31
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATAT
Found at i:17330806 original size:86 final size:85
Alignment explanation
Indices: 17330648--17330807 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
17330638 AGCTCGTACA
* *
17330648 ATGCCAACGTCCCAGACGTGGTCTTACCTGTAATCAAATATCAATGCCACTGTCCCAGACAAGGT
1 ATGCCAACGTCCCAGACATGGTCTAACCTGTAATCAAATATCAATGCCACTGTCCCAGACAAGGT
17330713 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * * *
17330733 ATGCCAATGTCCCAGACATGGTCTAACAC-GTAAATCACAA-ATCGATGCCAAC-GTCCTAGACG
1 ATGCCAACGTCCCAGACATGGTCTAAC-CTGT-AATCA-AATATCAATGCC-ACTGTCCCAGACA
*
17330795 TGGTCTTACACGA
62 AGGTCTTACACGA
17330808 TAACACATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 26 0.41
86 34 0.53
87 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTAACCTGTAATCAAATATCAATGCCACTGTCCCAGACAAGGT
CTTACACGAAATCAAATACG
Found at i:17332717 original size:15 final size:15
Alignment explanation
Indices: 17332679--17332724 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
17332669 AAAGATTATT
17332679 ATAAAGGTTAA-ATTA
1 ATAAAGGTTAATA-TA
*
17332694 GTAAA--TTAATATA
1 ATAAAGGTTAATATA
17332707 ATAAAGGTTAATATA
1 ATAAAGGTTAATATA
17332722 ATA
1 ATA
17332725 TAACAACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
15 15 0.58
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (15 bp):
ATAAAGGTTAATATA
Found at i:17342199 original size:12 final size:12
Alignment explanation
Indices: 17342182--17342211 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
17342172 GTTAGTTATG
17342182 TTTTGGTAATGA
1 TTTTGGTAATGA
17342194 TTTTGGTAATGA
1 TTTTGGTAATGA
17342206 TTTTGG
1 TTTTGG
17342212 CCATTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (12 bp):
TTTTGGTAATGA
Found at i:17348481 original size:46 final size:45
Alignment explanation
Indices: 17348425--17348600 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
17348415 TATTTGGGCA
17348425 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
17348471 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
17348518 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
17348564 -CACGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TC-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17348601 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 66 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:17348580 original size:93 final size:93
Alignment explanation
Indices: 17348421--17348592 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
17348411 AGGATATTTG
*
17348421 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
17348486 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
17348514 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CACGAGCTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
*
17348578 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
17348593 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17353142 original size:28 final size:28
Alignment explanation
Indices: 17353102--17353166 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
17353092 ATGTACTATT
*
17353102 ATACCCCTATGTATGCAAAATTACCATC
1 ATACCCCTATGTATGCAAAATGACCATC
* *
17353130 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATC
17353158 ATACCCCTA
1 ATACCCCTA
17353167 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATC
Found at i:17353303 original size:28 final size:26
Alignment explanation
Indices: 17353272--17353361 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 26
17353262 AGGAAGCGTC
17353272 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAA-TATCTGTT
* * *
17353300 CTGGTGGCCCTGCCAGATATATCTGTT
1 CTGGTGG-CATGCCACAAATATCTGTT
17353327 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATATCTGT-T
17353356 CTGGTG
1 CTGGTG
17353362 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 20 0.38
28 23 0.44
29 8 0.15
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (26 bp):
CTGGTGGCATGCCACAAATATCTGTT
Found at i:17353330 original size:27 final size:28
Alignment explanation
Indices: 17353272--17353361 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
17353262 AGGAAGCGTC
*
17353272 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * *
17353300 CTGGTGGCCCTGCCA-GATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
17353327 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
17353356 CTGGTG
1 CTGGTG
17353362 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:17355678 original size:48 final size:48
Alignment explanation
Indices: 17355574--17355749 Score: 257
Period size: 48 Copynumber: 3.7 Consensus size: 48
17355564 GTAGACTAAA
** * * *
17355574 TGCCAATATCATGGCCCAAAGCCAACTCAAT--ATCTCGCACCCAAAG
1 TGCCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
*
17355620 TGCTAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
1 TGCCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
* *
17355668 TGCCAATATCATAGCCTGAAGCCAAATCAATGAAGCTCGCACCTGAAG
1 TGCCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
*
17355716 TGCCAATATCATGGCCTGAAGCCAAATAAATGAA
1 TGCCAATATCATGGCCTGAAGCCAAATCAATGAA
17355750 TCCCCTAATG
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 27 0.23
48 90 0.77
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.19
Consensus pattern (48 bp):
TGCCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
Found at i:17368971 original size:18 final size:18
Alignment explanation
Indices: 17368948--17369004 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
17368938 CTGTTTGTAC
17368948 ACTGCACTGATTACTGTT
1 ACTGCACTGATTACTGTT
*
17368966 ACTGCATTGATTA-TGGTT
1 ACTGCACTGATTACT-GTT
*
17368984 ACTGCACTGATTACTATT
1 ACTGCACTGATTACTGTT
17369002 ACT
1 ACT
17369005 AAAATGGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.03
18 32 0.94
19 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (18 bp):
ACTGCACTGATTACTGTT
Found at i:17369047 original size:34 final size:34
Alignment explanation
Indices: 17369000--17369082 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
17368990 CTGATTACTA
* *
17369000 TTACTAAAATGGGCTAAAACCCAGATTACTACTG
1 TTACTGAAATGGGCTAAAACCCAGATTACCACTG
* ** * *
17369034 TTATTGAAATGGGCTAAGGCTCAGATTGCCACTG
1 TTACTGAAATGGGCTAAAACCCAGATTACCACTG
*
17369068 TTACTGATATGGGCT
1 TTACTGAAATGGGCT
17369083 TAGGCCCCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (34 bp):
TTACTGAAATGGGCTAAAACCCAGATTACCACTG
Found at i:17387762 original size:21 final size:20
Alignment explanation
Indices: 17387719--17387762 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17387709 ATTTCCCACG
*
17387719 TTGGCCCGTTTTCTCTATTT
1 TTGGCCCGTTTTCGCTATTT
*
17387739 TTGGCCCGTTTCTCGCTCTTT
1 TTGGCCCGTTT-TCGCTATTT
17387760 TTG
1 TTG
17387763 CCCTCCTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.02, C:0.27, G:0.18, T:0.52
Consensus pattern (20 bp):
TTGGCCCGTTTTCGCTATTT
Found at i:17392441 original size:15 final size:16
Alignment explanation
Indices: 17392421--17392455 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
17392411 ATTACCAGGT
17392421 AAGTTCGTGTAACTC-
1 AAGTTCGTGTAACTCG
17392436 AAGTTCGTGTAACTCG
1 AAGTTCGTGTAACTCG
17392452 AAGT
1 AAGT
17392456 AGACTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (16 bp):
AAGTTCGTGTAACTCG
Found at i:17393449 original size:19 final size:19
Alignment explanation
Indices: 17393425--17393470 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
17393415 GTAAACCTAC
*
17393425 TAAATGTGCATGTTATGCT
1 TAAATGTGCATGTGATGCT
* *
17393444 TAAATGTTCATGTGATGGT
1 TAAATGTGCATGTGATGCT
17393463 TAAATGTG
1 TAAATGTG
17393471 GTATATCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (19 bp):
TAAATGTGCATGTGATGCT
Found at i:17396516 original size:30 final size:30
Alignment explanation
Indices: 17396480--17396543 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
17396470 ATGGCAATTG
*
17396480 AGTAATAATTAGCGTGCACTCTAGATTCTA
1 AGTAATAATTAGCGTGCACTCTAGAGTCTA
17396510 AGTAATAATTAGCGTGCACTCTAGAGTCTA
1 AGTAATAATTAGCGTGCACTCTAGAGTCTA
17396540 AGTA
1 AGTA
17396544 GTTACTGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (30 bp):
AGTAATAATTAGCGTGCACTCTAGAGTCTA
Found at i:17399100 original size:44 final size:41
Alignment explanation
Indices: 17399051--17399186 Score: 132
Period size: 43 Copynumber: 3.2 Consensus size: 41
17399041 TGTGTTTTTG
*
17399051 TGTAAGACCATGTCTGTGACATTGGCATCG-AGTTATGATTTACA
1 TGTAAGACCATGTCTGGGACATT-GCATCGTA-TT-TGATTT-CA
*
17399095 TGTAAGACCATGTCTGGGACATTGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGCATCGTATTTGATTTCA
* * * * *
17399136 TGTAAGACCCTATCTGGGA-TTGTGGCATTGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAT-T-GCATCG-TATTTGATTTCA
17399179 TGTAAGAC
1 TGTAAGAC
17399187 TACATCTAGG
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
40 1 0.01
41 19 0.24
42 11 0.14
43 26 0.32
44 23 0.29
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGCATCGTATTTGATTTCA
Found at i:17399152 original size:41 final size:44
Alignment explanation
Indices: 17399050--17399154 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 44
17399040 ATGTGTTTTT
*
17399050 GTGTAAGACCATGTCTGTGACATTGGCATCGAGTTATGATTTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGAGTTATGATTTAC
*
17399094 ATGTAAGACCATGTCTGGGACATT-GCATCGTA-TT-TGATTT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATCG-AGTTATGATTTAC
* *
17399135 GTGTAAGACCCTATCTGGGA
1 GTGTAAGACCATGTCTGGGA
17399155 TTGTGGCATT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
41 18 0.33
42 6 0.11
43 8 0.15
44 23 0.42
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGAGTTATGATTTAC
Found at i:17405559 original size:13 final size:13
Alignment explanation
Indices: 17405541--17405578 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
17405531 ATTTGATATC
*
17405541 TGTGAAAGTTTTG
1 TGTGAAAATTTTG
*
17405554 TGTGAAAATTTCG
1 TGTGAAAATTTTG
17405567 TGTGAAAATTTT
1 TGTGAAAATTTT
17405579 ATCGTTTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.45
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:17406799 original size:43 final size:42
Alignment explanation
Indices: 17406677--17406834 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 42
17406667 TATGTGTTTT
* * * *
17406677 CATGTAAGAGCACGT-TTGGACGTTGGCATCGAGT-TATGATTTA
1 CATGTAAGACCACGTCTGGGACATTGGCATC-A-TATTTGA-TTA
* * * *
17406720 CATGCAAGACCATCG-CTAGGACATTGGCATCGTATTTGATTT
1 CATGTAAGACCA-CGTCTGGGACATTGGCATCATATTTGATTA
* *
17406762 CATGTAAGACC-CTGTTTGGGACAGTGGCATCAATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGACATTGGCATC-ATATTTGATTA
17406805 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CATGTAAGACCACGTCTGGGACATTGGCAT
17406835 GGTACAAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 26 0.28
43 49 0.53
44 16 0.17
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGACATTGGCATCATATTTGATTA
Found at i:17410206 original size:6 final size:6
Alignment explanation
Indices: 17410195--17410236 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
17410185 AATCATTTCC
*
17410195 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTC CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
17410237 GATAAAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (6 bp):
CATTTT
Found at i:17410218 original size:18 final size:18
Alignment explanation
Indices: 17410187--17410236 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
17410177 TGCAAATGAA
17410187 TCATTTCCCATTTTCATTT
1 TCATTT-CCATTTTCATTT
*
17410206 TCATTTTCATTTTCATTT
1 TCATTTCCATTTTCATTT
17410224 TCATTTCCATTTT
1 TCATTTCCATTTT
17410237 GATAAAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 23 0.79
19 6 0.21
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (18 bp):
TCATTTCCATTTTCATTT
Found at i:17415404 original size:27 final size:26
Alignment explanation
Indices: 17415362--17415418 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 26
17415352 ATTTCTTTAC
17415362 TTAATTTTTTTTGTTCATTTACAATT
1 TTAATTTTTTTTGTTCATTTACAATT
*
17415388 TTAATTTTTTATTGTTCATTTACCATT
1 TTAATTTTTT-TTGTTCATTTACAATT
17415415 TTAA
1 TTAA
17415419 CCTTTAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.63
Consensus pattern (26 bp):
TTAATTTTTTTTGTTCATTTACAATT
Found at i:17417991 original size:77 final size:77
Alignment explanation
Indices: 17417864--17418006 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 77
17417854 AGACATTGAG
* * *
17417864 TTGGCTTCAGGCCATGATATTAGCACTTCGGGTACGAGTTATACTGATTTGGCTTCGGGCCATGA
1 TTGGCTTCAGGCCATGATATCAGCACTTCGGATACAAGTTATACTGATTTGGCTTCGGGCCATGA
17417929 TTATCGACTAAT
66 TTATCGACTAAT
* * * * *
17417941 TTGGCTTCGGGCCATGATATCAGTACTTTGGATATAAGTTA-CCTTGATTTGGCTTCGGGCCATG
1 TTGGCTTCAGGCCATGATATCAGCACTTCGGATACAAGTTATAC-TGATTTGGCTTCGGGCCATG
17418005 AT
65 AT
17418007 ATAAGTACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 1 0.02
77 56 0.98
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (77 bp):
TTGGCTTCAGGCCATGATATCAGCACTTCGGATACAAGTTATACTGATTTGGCTTCGGGCCATGA
TTATCGACTAAT
Found at i:17432648 original size:15 final size:16
Alignment explanation
Indices: 17432619--17432649 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17432609 CAAACATGCT
17432619 TTAACACATTATCAAA
1 TTAACACATTATCAAA
17432635 TTAACACA-TATCAAA
1 TTAACACATTATCAAA
17432650 AAGGCACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:17434449 original size:13 final size:13
Alignment explanation
Indices: 17434433--17434457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17434423 TTAAATTAGT
17434433 TAATTAGTTTAAA
1 TAATTAGTTTAAA
17434446 TAATTAGTTTAA
1 TAATTAGTTTAA
17434458 TAAAAAAATC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:17438858 original size:26 final size:26
Alignment explanation
Indices: 17438827--17438934 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
17438817 TGAAATGCCC
*
17438827 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
17438853 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
17438879 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
17438905 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17438931 ATCA
1 ATCA
17438935 ATTTTTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17445893 original size:26 final size:26
Alignment explanation
Indices: 17445862--17445969 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
17445852 TGAAATGCCC
17445862 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
17445888 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* * *
17445914 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAAACCATT
*
17445940 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
17445966 ATCA
1 ATCA
17445970 ATTTTTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 3 0.04
26 69 0.93
27 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:17447972 original size:21 final size:20
Alignment explanation
Indices: 17447940--17447983 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
17447930 GCCATTCAGC
*
17447940 CGTGTACAATAATACACGGG
1 CGTGTACAATAAAACACGGG
*
17447960 CGTGCTACCATAAAACACGGG
1 CGTG-TACAATAAAACACGGG
17447981 CGT
1 CGT
17447984 AGGAGAAGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (20 bp):
CGTGTACAATAAAACACGGG
Found at i:17449926 original size:16 final size:16
Alignment explanation
Indices: 17449905--17449961 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
17449895 TGAATCCTCC
*
17449905 TATTTTTATTTATTCT
1 TATTTTTATTTATTTT
17449921 TATTTTTTATTT-TTTT
1 TA-TTTTTATTTATTTT
17449937 TA-TTTT-TTTATTTT
1 TATTTTTATTTATTTT
*
17449951 TCTTTTTATTT
1 TATTTTTATTT
17449962 TTATTTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
15 4 0.11
16 10 0.29
17 9 0.26
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (16 bp):
TATTTTTATTTATTTT
Found at i:17449933 original size:6 final size:6
Alignment explanation
Indices: 17449905--17449973 Score: 65
Period size: 6 Copynumber: 11.8 Consensus size: 6
17449895 TGAATCCTCC
*
17449905 TATTTT TA--TT TATTCT TATTTTT TATTTT T-TTTAT T-TTTT TATTTT
1 TATTTT TATTTT TATTTT TA-TTTT TATTTT TATTT-T TATTTT TATTTT
* *
17449951 TCTTTT TATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTT
17449974 CAATTTTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
4 4 0.08
5 5 0.09
6 39 0.74
7 5 0.09
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:17449939 original size:26 final size:26
Alignment explanation
Indices: 17449905--17449968 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
17449895 TGAATCCTCC
17449905 TATTTTTATTTATTCTTATTTTT-TATT
1 TATTTTTATTT-TT-TTATTTTTCTATT
*
17449932 T-TTTTTATTTTTTTATTTTTCTTTT
1 TATTTTTATTTTTTTATTTTTCTATT
17449957 TATTTTTATTTT
1 TATTTTTATTTT
17449969 CATTTCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
24 8 0.24
25 6 0.18
26 19 0.56
27 1 0.03
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (26 bp):
TATTTTTATTTTTTTATTTTTCTATT
Found at i:17449944 original size:18 final size:17
Alignment explanation
Indices: 17449907--17449968 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
17449897 AATCCTCCTA
*
17449907 TTTTTATTTATTC-TTAT
1 TTTTTATTT-TTCTTTTT
17449924 TTTTTATTTTT-TTTATT
1 TTTTTATTTTTCTTT-TT
17449941 TTTTTATTTTTCTTTTT
1 TTTTTATTTTTCTTTTT
17449958 ATTTTTATTTT
1 -TTTTTATTTT
17449969 CATTTCAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 4 0.10
17 23 0.57
18 13 0.32
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTATTTTTCTTTTT
Found at i:17449969 original size:17 final size:17
Alignment explanation
Indices: 17449905--17449983 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
17449895 TGAATCCTCC
* *
17449905 TATTTTTA-TTTATTCT
1 TATTTTTATTTTCTTTT
17449921 TATTTTTTATTTT-TTTT
1 TA-TTTTTATTTTCTTTT
*
17449938 ATTTTTTTATTTTTCTTTT
1 -TATTTTTA-TTTTCTTTT
*
17449957 TATTTTTATTTTCATTT
1 TATTTTTATTTTCTTTT
* *
17449974 CAATTTTATT
1 TATTTTTATT
17449984 ATTTTATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
16 2 0.04
17 31 0.60
18 15 0.29
19 4 0.08
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TATTTTTATTTTCTTTT
Found at i:17453809 original size:28 final size:28
Alignment explanation
Indices: 17453769--17453847 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
17453759 GCAATCAAAT
* * *
17453769 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
17453797 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
17453825 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
17453848 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:17456074 original size:13 final size:13
Alignment explanation
Indices: 17456058--17456090 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17456048 TTTAATTAAA
*
17456058 TTAGTTAATTAGT
1 TTAGATAATTAGT
17456071 TTAGATAATTAGT
1 TTAGATAATTAGT
17456084 TTA-ATAA
1 TTAGATAA
17456091 AATAAATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:17458953 original size:8 final size:8
Alignment explanation
Indices: 17458940--17458970 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
17458930 AGAAAGTTTA
17458940 TATATATG
1 TATATATG
17458948 TATATATG
1 TATATATG
17458956 TATATATG
1 TATATATG
17458964 TATATAT
1 TATATAT
17458971 ATATTTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:17469147 original size:60 final size:61
Alignment explanation
Indices: 17469054--17469168 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 61
17469044 TTCTATAATA
17469054 AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGA-CAAAAAAATTTGAT
1 AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGACCAAAAAAATTTGAT
* * *
17469114 AAAATTAGATCCATGGCACTTGATTGTCGTGAGAGTATAATTAGGACCAAAAAAA
1 AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGACCAAAAAAA
17469169 AAATGTAGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 43 0.84
61 8 0.16
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (61 bp):
AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGACCAAAAAAATTTGAT
Found at i:17476057 original size:21 final size:20
Alignment explanation
Indices: 17476005--17476059 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
17475995 ACCGTTATTT
*
17476005 TTAATCTCACCGCTACAGTA
1 TTAATCTCACTGCTACAGTA
*
17476025 TCTAATCTCACTGTTACAGTAA
1 T-TAATCTCACTGCTACAGT-A
17476047 TTAATCTCACTGC
1 TTAATCTCACTGC
17476060 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (20 bp):
TTAATCTCACTGCTACAGTA
Found at i:17484636 original size:47 final size:46
Alignment explanation
Indices: 17484572--17484681 Score: 143
Period size: 46 Copynumber: 2.4 Consensus size: 46
17484562 GACATTGAGT
*
17484572 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTT-CGGATTTGTTC
* * *
17484619 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCGGATTTGTTC
17484665 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
17484682 CTTATCCCGA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
46 26 0.47
47 25 0.45
48 4 0.07
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (46 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCGGATTTGTTC
Found at i:17490841 original size:14 final size:15
Alignment explanation
Indices: 17490802--17490847 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
17490792 CTAGATTAAG
*
17490802 TTATTTTATTAGAATA
1 TTATATTATT-GAATA
17490818 TTATATTATT-AATA
1 TTATATTATTGAATA
17490832 TTAT-TATATTGAATA
1 TTATAT-TATTGAATA
17490847 T
1 T
17490848 AGATTTATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 1 0.04
14 12 0.44
15 5 0.19
16 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (15 bp):
TTATATTATTGAATA
Found at i:17504307 original size:13 final size:14
Alignment explanation
Indices: 17504278--17504304 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17504268 TGAAAAGTAA
17504278 ATTAAATTTTTTTT
1 ATTAAATTTTTTTT
17504292 ATTAAATTTTTTT
1 ATTAAATTTTTTT
17504305 ATTTTTACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTAAATTTTTTTT
Found at i:17505043 original size:17 final size:16
Alignment explanation
Indices: 17505017--17505055 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
17505007 ATTTTTTATT
17505017 TTAATTGATATA-ATTA
1 TTAATTGATA-ACATTA
17505033 TTAAGTTGATAACATTA
1 TTAA-TTGATAACATTA
17505050 TTAATT
1 TTAATT
17505056 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (16 bp):
TTAATTGATAACATTA
Found at i:17507076 original size:43 final size:43
Alignment explanation
Indices: 17507015--17507101 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
17507005 AATCCTAACT
17507015 ATGACAAAATCCTTCTCGTAACTGACACCCACCAAGTTGTGGC
1 ATGACAAAATCCTTCTCGTAACTGACACCCACCAAGTTGTGGC
17507058 ATGACAAAATCCTTCTCGTAACTGACACCCACCAAGTTGTGGC
1 ATGACAAAATCCTTCTCGTAACTGACACCCACCAAGTTGTGGC
17507101 A
1 A
17507102 CACATTCGGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGACAAAATCCTTCTCGTAACTGACACCCACCAAGTTGTGGC
Found at i:17510841 original size:79 final size:81
Alignment explanation
Indices: 17510702--17510886 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
17510692 TTGAATGATG
*
17510702 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATT
*
17510766 TGTGCGAGATACTA-A
66 TGTCCGAGATACTATA
* * * ** *
17510781 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCA
*
17510843 TTTGTCCGAGTTACTATA
64 TTTGTCCGAGATACTATA
* *
17510861 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17510887 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATT
TGTCCGAGATACTATA
Found at i:17510893 original size:40 final size:40
Alignment explanation
Indices: 17510702--17510893 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
17510692 TTGAATGATG
* * * * *
17510702 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
* * * * *
17510742 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
*
17510782 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* *
17510821 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
17510862 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
17510894 AGCTATATCC
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
39 34 0.26
40 85 0.66
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:17510908 original size:79 final size:79
Alignment explanation
Indices: 17510758--17510919 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 79
17510748 CTAAGATCCA
* * **
17510758 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTCCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
*
17510823 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * *
17510837 AAGGCATTTGTCCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTCCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
*
17510900 ATCC-GGTTAAATTCCG
63 ATCCGGGTTAAATCCCG
17510916 AAGG
1 AAGG
17510920 TACGTGATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.62
80 25 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTCCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:17514215 original size:36 final size:36
Alignment explanation
Indices: 17514175--17514247 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
17514165 ATCGGTAGAT
17514175 AATCGAGGAAAAGAAAAAATTACAGAATAGTCCCTA
1 AATCGAGGAAAAGAAAAAATTACAGAATAGTCCCTA
17514211 AATCGAGGAAAAGAAAAAATTACAGAATAGTCCCTA
1 AATCGAGGAAAAGAAAAAATTACAGAATAGTCCCTA
17514247 A
1 A
17514248 CACTCCTATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.16
Consensus pattern (36 bp):
AATCGAGGAAAAGAAAAAATTACAGAATAGTCCCTA
Found at i:17514320 original size:14 final size:15
Alignment explanation
Indices: 17514296--17514336 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
17514286 TGATATATTT
17514296 TTGTGTATTTTGGAA
1 TTGTGTATTTTGGAA
*
17514311 -TGTTTATTTT-GAA
1 TTGTGTATTTTGGAA
17514324 TTGTGTATTTTGG
1 TTGTGTATTTTGG
17514337 GAAGTTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 18 0.82
15 1 0.05
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (15 bp):
TTGTGTATTTTGGAA
Found at i:17526222 original size:17 final size:17
Alignment explanation
Indices: 17526202--17526280 Score: 104
Period size: 17 Copynumber: 4.6 Consensus size: 17
17526192 TTATACCATG
17526202 TGCGAACCTATGTTATA
1 TGCGAACCTATGTTATA
*
17526219 TGCGAACCCATGTTATA
1 TGCGAACCTATGTTATA
* *
17526236 TGCGAGCCTGTGTTATA
1 TGCGAACCTATGTTATA
* *
17526253 TGCGAACCCATGATATA
1 TGCGAACCTATGTTATA
*
17526270 TACGAACCTAT
1 TGCGAACCTAT
17526281 ATGATATTGC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 52 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (17 bp):
TGCGAACCTATGTTATA
Found at i:17526250 original size:34 final size:34
Alignment explanation
Indices: 17526202--17526280 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
17526192 TTATACCATG
*
17526202 TGCGAACCTATGTTATATGCGAACCCATGTTATA
1 TGCGAACCTATGTTATATGCGAACCCATGATATA
* *
17526236 TGCGAGCCTGTGTTATATGCGAACCCATGATATA
1 TGCGAACCTATGTTATATGCGAACCCATGATATA
*
17526270 TACGAACCTAT
1 TGCGAACCTAT
17526281 ATGATATTGC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (34 bp):
TGCGAACCTATGTTATATGCGAACCCATGATATA
Found at i:17527290 original size:22 final size:22
Alignment explanation
Indices: 17527252--17527293 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17527242 AGAAATAAGG
17527252 TGTGATATGTTACATTGATGCC
1 TGTGATATGTTACATTGATGCC
*
17527274 TGTGATCTGTCTA-ATTGATG
1 TGTGATATGT-TACATTGATG
17527294 TATGAATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (22 bp):
TGTGATATGTTACATTGATGCC
Found at i:17527657 original size:27 final size:29
Alignment explanation
Indices: 17527583--17527657 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
17527573 GCACGATAAG
* *
17527583 TTGCGAACTAGTGGTTCACAGGGTAAGTT
1 TTGCGAACTAGGGGTTCACAGGGTAAGTA
* *
17527612 TTACGAACTAGGTGTTCACAGGGT-AG-A
1 TTGCGAACTAGGGGTTCACAGGGTAAGTA
*
17527639 TTGCGAGCTAGGGGTTCAC
1 TTGCGAACTAGGGGTTCAC
17527658 CGAGTCATCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 16 0.41
28 2 0.05
29 21 0.54
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (29 bp):
TTGCGAACTAGGGGTTCACAGGGTAAGTA
Found at i:17528279 original size:54 final size:54
Alignment explanation
Indices: 17528218--17528326 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
17528208 AGAACTTGAG
*
17528218 ATAATTTTCAAACATCCCATCCCAGGAATCCTAAACGGTCATGGGCTCCAACAT
1 ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTCATGGGCTCCAACAT
*
17528272 ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTTATGGGCTCCAACAT
1 ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTCATGGGCTCCAACAT
17528326 A
1 A
17528327 ATTTTTTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (54 bp):
ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTCATGGGCTCCAACAT
Found at i:17531324 original size:56 final size:56
Alignment explanation
Indices: 17531264--17531377 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
17531254 ATCAAAGCCT
17531264 AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
1 AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
17531320 AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
1 AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
17531376 AA
1 AA
17531378 GGTATGTAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (56 bp):
AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
Found at i:17531557 original size:15 final size:15
Alignment explanation
Indices: 17531537--17531567 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17531527 AAATATGAAA
17531537 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
17531552 GATATGTTTTGTATT
1 GATATGTTTTGGATT
17531567 G
1 G
17531568 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:17536637 original size:37 final size:37
Alignment explanation
Indices: 17536587--17536665 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17536577 TTATTACGAA
* * *
17536587 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17536624 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17536661 GTCTT
1 GTCTT
17536666 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17536862 original size:47 final size:47
Alignment explanation
Indices: 17536784--17537006 Score: 322
Period size: 47 Copynumber: 4.7 Consensus size: 47
17536774 CCCTTCGGGA
* ** * * * *
17536784 CTTATCACATTTATACACTTTCACACCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17536831 CCTGTCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17536878 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17536925 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17536972 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
17537007 AGAATCCTAA
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 159 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17543146 original size:30 final size:30
Alignment explanation
Indices: 17543112--17543170 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
17543102 TTTTTCAAGC
* *
17543112 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTATCAAAGT
17543142 CTAGGGGCAAAATGGTCATTTTATCAAAG
1 CTAGGGGCAAAATGGTCATTTTATCAAAG
17543171 ATGTGAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTATCAAAGT
Found at i:17549905 original size:78 final size:78
Alignment explanation
Indices: 17549823--17549972 Score: 169
Period size: 78 Copynumber: 1.9 Consensus size: 78
17549813 TTAAACCCAG
* * * * * *
17549823 TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCCTGCG
1 TATAATACCAGCAC-ATAGCCTAC-GGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCA
*
17549886 GACCTTAAGTCCGGT
64 GACCCTAAGTCCGGT
* * * *
17549901 TATAATTCCTGCACATAGCCTACGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTGCAGA
1 TATAATACCAGCACATAGCCTACGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCAGA
17549966 CCCTAAG
66 CCCTAAG
17549973 CCTGGATAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
77 4 0.07
78 55 0.93
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTACGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCAGA
CCCTAAGTCCGGT
Found at i:17549920 original size:39 final size:39
Alignment explanation
Indices: 17549839--17549980 Score: 162
Period size: 39 Copynumber: 3.6 Consensus size: 39
17549829 ACCAGCTCGA
* * * * *
17549839 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
17549878 AGCCTGCGGACCTTAAGTCCGGTTATAATTCCTGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
17549917 AGCCTACGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
17549956 AGCCTGCAGACCCTAAG-CCTGGATA
1 AGCCTGCGGACCTTAAGTCC-GGATA
17549981 AACATCACTG
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 5 0.06
39 83 0.94
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:17554200 original size:46 final size:46
Alignment explanation
Indices: 17554098--17554263 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
17554088 TTATGAAAGA
* *
17554098 CAGTGTAAGACCATGTCTGGGACATGCCATCGGCATCGAGACG-AGT
1 CAGTGTAAGACCATGTCTGGGACATG-CATCGGCCTTGAGACGAAGT
* *
17554144 GCTAGGGTAAGA-CATGTCTAGGACATGCATCGGCCTTGAGACGTAAGT
1 -C-AGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACG-AAGT
* * * *
17554192 CAGTGTAAGA-CATGTCTGGGACATACATCAG-CTATGATATGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGACGA-AGT
*
17554238 CAGTGTAAGACCATGTTTGGGACATG
1 CAGTGTAAGACCATGTCTGGGACATG
17554264 GAATCTTCAT
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
45 3 0.03
46 58 0.57
47 29 0.29
48 11 0.11
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACGAAGT
Found at i:17556857 original size:19 final size:21
Alignment explanation
Indices: 17556820--17556858 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
17556810 TCGATATGGT
17556820 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
17556841 CACAC-GGCGTG-TGCCCTT
1 CACACGGGCGTGTTGCCCTT
17556859 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:17558257 original size:26 final size:26
Alignment explanation
Indices: 17558228--17558335 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
17558218 TGGTACAAAT
*
17558228 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
17558254 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
17558280 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
17558306 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
17558332 TGAT
1 TGAT
17558336 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
25 2 0.03
26 73 0.95
27 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:17559997 original size:27 final size:26
Alignment explanation
Indices: 17559957--17560097 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 26
17559947 AGGAAGCGTC
*
17559957 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
17559984 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
*
17560011 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
17560038 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
17560065 CTGGTGGCTCTGCCACAATATTTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
17560092 CTGGTG
1 CTGGTG
17560098 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.10
27 86 0.87
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:17560039 original size:54 final size:53
Alignment explanation
Indices: 17559957--17560097 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
17559947 AGGAAGCGTC
*
17559957 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTATT
*
17560011 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTATT
* * *
17560065 CTGGTGGCTCTGCCACAATATTTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
17560098 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTATT
Found at i:17564023 original size:23 final size:24
Alignment explanation
Indices: 17563986--17564031 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
17563976 TTATGTATGG
* *
17563986 AAAATTACTGTTATACCCGTAGGC
1 AAAATTACCGTTATACCCCTAGGC
17564010 AAAATT-CCGTTATACCCCTAGG
1 AAAATTACCGTTATACCCCTAGG
17564032 GTTAATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AAAATTACCGTTATACCCCTAGGC
Found at i:17564175 original size:26 final size:27
Alignment explanation
Indices: 17564127--17564230 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
17564117 AGGAAGCGTC
17564127 CTGGTGGCTATGCCACAAT-TATCTGAT
1 CTGGTGGCTATG-CACAATATATCTGAT
* * *
17564154 CTGGGGGCTTTGCAC-ATATATCTGTT
1 CTGGTGGCTATGCACAATATATCTGAT
*
17564180 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTATG-CACAATATATCTGAT
*
17564207 CTGGTGGCTCTGC-CAATATATCTG
1 CTGGTGGCTATGCACAATATATCTG
17564231 TTATCGTGGT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
25 5 0.08
26 27 0.42
27 31 0.48
28 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCACAATATATCTGAT
Found at i:17564207 original size:53 final size:52
Alignment explanation
Indices: 17564127--17564262 Score: 168
Period size: 53 Copynumber: 2.6 Consensus size: 52
17564117 AGGAAGCGTC
*
17564127 CTGGTGGCTATGCCACAATTATCTGATCTGGGGGCTTTG-CACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGGGGCTCTGCCA-ATATATCTGTT
*
17564180 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCAATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGGGGCTCTGCCAATATATCTGTT
* * * *
17564233 ATCGTGG-TCTGCCACAATATCTGTATCTGG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGG
17564263 TGACTTCGTC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
51 7 0.09
52 13 0.18
53 52 0.70
54 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.35
Consensus pattern (52 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGGGGCTCTGCCAATATATCTGTT
Found at i:17564209 original size:27 final size:26
Alignment explanation
Indices: 17564127--17564264 Score: 129
Period size: 26 Copynumber: 5.2 Consensus size: 26
17564117 AGGAAGCGTC
17564127 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* * *
17564154 CTGGGGGCTTTG-CACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
17564180 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
17564207 CTGGTGGCTCTGCCA-ATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* * * *
17564233 ATCGTGG-TCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACATTATCTG-AT
17564259 CTGGTG
1 CTGGTG
17564265 ACTTCGTCAC
Statistics
Matches: 91, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
25 17 0.19
26 38 0.42
27 34 0.37
28 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:17564252 original size:25 final size:24
Alignment explanation
Indices: 17564210--17564263 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
17564200 ATCTGATCTG
17564210 GTGGCTCTGCCAATATATCTGTTATC
1 GTGG-TCTGCCAATATATCTG-TATC
17564236 GTGGTCTGCCACA-ATATCTGTATC
1 GTGGTCTGCCA-ATATATCTGTATC
17564260 -TGGT
1 GTGGT
17564264 GACTTCGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.15
24 4 0.15
25 14 0.52
26 5 0.19
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (24 bp):
GTGGTCTGCCAATATATCTGTATC
Found at i:17578780 original size:5 final size:5
Alignment explanation
Indices: 17578770--17578848 Score: 50
Period size: 5 Copynumber: 14.4 Consensus size: 5
17578760 GAGTTAGCAA
* * *
17578770 TTTAT TTTAT TTTAT TTTATT TTTCT TTTAT TTAATT GCTTTAC TTTAGT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTA-T --TTTAT TTTA-T
* *
17578820 TTTGT CTTTAT TTTAT TTTGT TTTCAT TT
1 TTTAT -TTTAT TTTAT TTTAT TTT-AT TT
17578849 CTACCTTTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
5 39 0.68
6 15 0.26
8 3 0.05
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:17578785 original size:10 final size:10
Alignment explanation
Indices: 17578770--17578848 Score: 50
Period size: 11 Copynumber: 7.2 Consensus size: 10
17578760 GAGTTAGCAA
17578770 TTTATTTTAT
1 TTTATTTTAT
17578780 TTTATTTTATT
1 TTTATTTTA-T
*
17578791 TTTCTTTTAT
1 TTTATTTTAT
* *
17578801 TTAATTGCTTTAC
1 TTTA-T--TTTAT
*
17578814 TTTAGTTTTGT
1 TTTA-TTTTAT
17578825 CTTTATTTTAT
1 -TTTATTTTAT
*
17578836 TTTGTTTTCAT
1 TTTATTTT-AT
17578847 TT
1 TT
17578849 CTACCTTTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
10 19 0.36
11 22 0.42
12 4 0.08
13 8 0.15
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.73
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:17578834 original size:17 final size:16
Alignment explanation
Indices: 17578770--17578840 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 16
17578760 GAGTTAGCAA
* *
17578770 TTTATTTTAT-TTTAT
1 TTTATTTTGTCTTTAC
17578785 TTTATTTT-TCTTTTA-
1 TTTATTTTGTC-TTTAC
*
17578800 TTTA-ATTG-CTTTAC
1 TTTATTTTGTCTTTAC
*
17578814 TTTAGTTTTGTCTTTAT
1 TTTA-TTTTGTCTTTAC
17578831 TTTATTTTGT
1 TTTATTTTGT
17578841 TTTCATTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.09
14 8 0.17
15 12 0.26
16 13 0.28
17 9 0.20
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTATTTTGTCTTTAC
Found at i:17578840 original size:16 final size:16
Alignment explanation
Indices: 17578770--17578840 Score: 62
Period size: 15 Copynumber: 4.6 Consensus size: 16
17578760 GAGTTAGCAA
*
17578770 TTTATTTTAT-TTTAT
1 TTTATTTTGTCTTTAT
17578785 TTTATTTT-TCTTT-T
1 TTTATTTTGTCTTTAT
* *
17578799 ATTTA-ATTG-CTTTAC
1 -TTTATTTTGTCTTTAT
17578814 TTTAGTTTTGTCTTTAT
1 TTTA-TTTTGTCTTTAT
17578831 TTTATTTTGT
1 TTTATTTTGT
17578841 TTTCATTTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
14 12 0.27
15 15 0.33
16 9 0.20
17 9 0.20
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTATTTTGTCTTTAT
Found at i:17578848 original size:16 final size:17
Alignment explanation
Indices: 17578808--17578840 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17578798 TATTTAATTG
*
17578808 CTTTACTTTAGTTTTGT
1 CTTTATTTTAGTTTTGT
17578825 CTTTATTTTA-TTTTGT
1 CTTTATTTTAGTTTTGT
17578841 TTTCATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (17 bp):
CTTTATTTTAGTTTTGT
Found at i:17587438 original size:20 final size:20
Alignment explanation
Indices: 17587415--17587462 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
17587405 TACTTGTCCA
* *
17587415 CAATACTGCCAGTTTGTCTG
1 CAATACTGCCACTTTATCTG
*
17587435 CAATACTGTCACTTTATCTG
1 CAATACTGCCACTTTATCTG
*
17587455 CATTACTG
1 CAATACTG
17587463 GTGGCTTGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (20 bp):
CAATACTGCCACTTTATCTG
Found at i:17587492 original size:60 final size:60
Alignment explanation
Indices: 17587378--17587501 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
17587368 AACGAGGAAG
* * * * *
17587378 TACTGACAGTTTATCTGCATTTCTGGTTACTTGTCCACAATACTGCCAGTTTGTCTGCAA
1 TACTGACACTTTATCTGCATTACTGGTGACTTGTCCACAATACTGCCAGCTTGTCTACAA
* * * * *
17587438 TACTGTCACTTTATCTGCATTACTGGTGGCTTGTCCA-TATAATTGGCAGCTTGTCTACAA
1 TACTGACACTTTATCTGCATTACTGGTGACTTGTCCACAAT-ACTGCCAGCTTGTCTACAA
17587498 TACT
1 TACT
17587502 CGTAACTTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 2 0.04
60 51 0.96
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.39
Consensus pattern (60 bp):
TACTGACACTTTATCTGCATTACTGGTGACTTGTCCACAATACTGCCAGCTTGTCTACAA
Found at i:17590404 original size:856 final size:856
Alignment explanation
Indices: 17588699--17591261 Score: 4885
Period size: 856 Copynumber: 3.0 Consensus size: 856
17588689 ATGGTTTTTT
17588699 TCTGAAAGATTTGAATTTGGTTTATTTAGTGTTGTTCACAGAGAACTTTGATAGAATTGAAAATG
1 TCTGAAAGATTTGAATTTGGTTTATTTAGTGTTGTTCACAGAGAACTTTGATAGAATTGAAAATG
* *
17588764 CAATAAAAAATCAAAGAAGTTGATAAAAGAGTAGCATCCAGACAAGTCCCAAGCTAATTTGAAGT
66 TAATAAAAAATCAAAGAAGTTGATAAAAGAGTAGCGTCCAGACAAGTCCCAAGCTAATTTGAAGT
* * *
17588829 TGTTTCGAGAGAGGATTCTATTTTGACTCGGTGGCTCCAAACCGAATTCTGATGTCTTGGACAAC
131 TGTTTCGAGAGAGGATTCTATTTTGACTCGGTGACTCCAAACCGAATTCTGATGTATTGGACAGC
* * *
17588894 AAGCAAGATGAGTTTTTATGCCTGATAATAACAAAGGAAAAATGGAAATTAAAACTAATAATTGA
196 AAGCAATATGAGTTTTTATGCCTGATAATAACAAAGAAAAAATGGAAATTAAAACTAACAATTGA
*
17588959 AGTAAAGAAAAGACAAAGACAAGTGAAGAAAAAGAAAGAATAGAGTCGATTTTAAGGCGAGAACA
261 AGTAAAGAAAAGACAAAGACAAGTGAAGAAAAAGAAAGAATAGAGTCGATTTTAAGGTGAGAACA
* *
17589024 AGGTAGTCAATACCACACCAGTGGGCACACCATTTTTCTACTTGAACTGGTACGTATCGGTACCG
326 AGGTAGTCAATACCACACCAGTGGGCACACCATTTTTCTACTTGAACTAGTACGTATCGGTACCA
* *
17589089 TTCTATTTTGGTGTACTGTTTTGAATTTACCGGTGTTCT-AAAATAATAATATTTAATTATTTAA
391 TTCTATTTTGGTGTATTGTTTTGAATTTAGCGGTGTTCTAAAAATAATAATATTTAATTATTTAA
*
17589153 ATATATCAAATGAATTAGATTAAATATTTTCAAATATAAAATTATTAATTGATTATATAAATTAT
456 ATATATAAAATGAATTAGATTAAATATTTTCAAATATAAAATTATTAATTGATTATATAAATTAT
17589218 TTATCAATAAACTTCACAAATAAATTTTAATTATTTAACAAATCTAAGGTAAACAATGACAAAGT
521 TTATCAATAAACTTCACAAATAAATTTTAATTATTTAACAAATCTAAGGTAAACAATGACAAAGT
17589283 TTGTGGAGTTATGCCTTCCATTTTGGACTAAATAGTGTGTGACGTTGCAACGAGAAAGTGTTTTT
586 TTGTGGAGTTATGCCTTCCATTTTGGACTAAATAGTGTGTGACGTTGCAACGAGAAAGTGTTTTT
17589348 CATCCGAACAAGCAACCGACTTCAAGATGAGAAGAAAGCCCTCGTCCCGACAATGCAATCCTTTT
651 CATCCGAACAAGCAACCGACTTCAAGATGAGAAGAAAGCCCTCGTCCCGACAATGCAATCCTTTT
17589413 TCGTCTTAATGACGCGATGCCACGTCACGACGTGGCGACGTGCAATTCAAGTATTTTGGTTTTCT
716 TCGTCTTAATGACGCGATGCCACGTCACGACGTGGCGACGTGCAATTCAAGTATTTTGGTTTTCT
17589478 TCCCCCAATTAAACTCTATTTCTAGCTACCTATTTAAACTCTAATTAACTTAGAGTTATTCCAAT
781 TCCCCCAATTAAACTCTATTTCTAGCTACCTATTTAAACTCTAATTAACTTAGAGTTATTCCAAT
17589543 CAAATATTATA
846 CAAATATTATA
17589554 TCTGAAAGATTTGAATTTGGTTTATTTAGTGTTGTTCACAGAGAACTTTGATAGAATTGAAAATG
1 TCTGAAAGATTTGAATTTGGTTTATTTAGTGTTGTTCACAGAGAACTTTGATAGAATTGAAAATG
17589619 TAATAAAAAATCAAAGAAGTTGATAAAAGAGTAGCGTCCAGACAAGTCCCAAGCTAATTTGAAGT
66 TAATAAAAAATCAAAGAAGTTGATAAAAGAGTAGCGTCCAGACAAGTCCCAAGCTAATTTGAAGT
17589684 TGTTTCGAGAGAGGATTCTATTTTGACTCGGTGACTCCAAACCGAATTCTGATGTATTGGACAGC
131 TGTTTCGAGAGAGGATTCTATTTTGACTCGGTGACTCCAAACCGAATTCTGATGTATTGGACAGC
17589749 AAGCAATATGAGTTTTTATGCCTGATAATAACAAAGAAAAAATGGAAATTAAAACTAACAATTGA
196 AAGCAATATGAGTTTTTATGCCTGATAATAACAAAGAAAAAATGGAAATTAAAACTAACAATTGA
17589814 AGTAAAGAAAAGACAAAGACAAGTGAAGAAAAAGAAAGAATAGAGTCGATTTTAAGGTGAGAACA
261 AGTAAAGAAAAGACAAAGACAAGTGAAGAAAAAGAAAGAATAGAGTCGATTTTAAGGTGAGAACA
17589879 AGGTAGTCAATACCACACCAGTGGGCACACCATTTTTCTACTTGAACTAGTACGTATCGGTACCA
326 AGGTAGTCAATACCACACCAGTGGGCACACCATTTTTCTACTTGAACTAGTACGTATCGGTACCA
17589944 TTCTATTTTGGTGTATTGTTTTGAATTTAGCGGTGTTCTAAAAATAATAATATTTAATTATTTAA
391 TTCTATTTTGGTGTATTGTTTTGAATTTAGCGGTGTTCTAAAAATAATAATATTTAATTATTTAA
17590009 ATATATAAAATGAATTAGATTAAATATTTTCAAATATAAAATTATTAATTGATTATATAAATTAT
456 ATATATAAAATGAATTAGATTAAATATTTTCAAATATAAAATTATTAATTGATTATATAAATTAT
17590074 TTATCAATAAACTTCACAAATAAATTTTAATTATTTAACAAATCTAAGGTAAACAATGACAAAGT
521 TTATCAATAAACTTCACAAATAAATTTTAATTATTTAACAAATCTAAGGTAAACAATGACAAAGT
17590139 TTGTGGAGTTATGCCTTCCATTTTGGACTAAATAGTGTGTGACGTTGCAACGAGAAAGTGTTTTT
586 TTGTGGAGTTATGCCTTCCATTTTGGACTAAATAGTGTGTGACGTTGCAACGAGAAAGTGTTTTT
17590204 CATCCGAACAAGCAACCGACTTCAAGATGAGAAGAAAGCCCTCGTCCCGACAATGCAATCCTTTT
651 CATCCGAACAAGCAACCGACTTCAAGATGAGAAGAAAGCCCTCGTCCCGACAATGCAATCCTTTT
17590269 TCGTCTTAATGACGCGATGCCACGTCACGACGTGGCGACGTGCAATTCAAGTATTTTGGTTTTCT
716 TCGTCTTAATGACGCGATGCCACGTCACGACGTGGCGACGTGCAATTCAAGTATTTTGGTTTTCT
17590334 TCCCCCAATTAAACTCTATTTCTAGCTACCTATTTAAACTCTAATTAACTTAGAGTTATTCCAAT
781 TCCCCCAATTAAACTCTATTTCTAGCTACCTATTTAAACTCTAATTAACTTAGAGTTATTCCAAT
17590399 CAAATATTATA
846 CAAATATTATA
17590410 TCTGAAAGATTTGAATTTGGTTTATTTAGTGTTGTTCACAGAGAACTTTGATAGAATTGAAAATG
1 TCTGAAAGATTTGAATTTGGTTTATTTAGTGTTGTTCACAGAGAACTTTGATAGAATTGAAAATG
17590475 TAATAAAAAATCAAAGAAGTTGATAAAAGAGTAGCGTCCAGACAAGTCCCAAGCTAATTTGAAGT
66 TAATAAAAAATCAAAGAAGTTGATAAAAGAGTAGCGTCCAGACAAGTCCCAAGCTAATTTGAAGT
17590540 TGTTTCGAGAGAGGATTCTATTTTGACTCGGTGACTCCAAACCGAATTCTGATGTATTGGACAGC
131 TGTTTCGAGAGAGGATTCTATTTTGACTCGGTGACTCCAAACCGAATTCTGATGTATTGGACAGC
17590605 AAGCAATATGAGTTTTTATGCCTGATAATAACAAAGAAAAAATGGAAATTAAAACTAACAATTGA
196 AAGCAATATGAGTTTTTATGCCTGATAATAACAAAGAAAAAATGGAAATTAAAACTAACAATTGA
17590670 AGTAAAGAAAAGACAAAGACAAGTGAAGAAAAAGAAAGAATAGAGTCGATTTTAAGGTGAGAACA
261 AGTAAAGAAAAGACAAAGACAAGTGAAGAAAAAGAAAGAATAGAGTCGATTTTAAGGTGAGAACA
17590735 AGGTAGTCAATACCACACCAGTGGGCACACCATTTTTCTACTTGAACTAGTACGTATCGGTACCA
326 AGGTAGTCAATACCACACCAGTGGGCACACCATTTTTCTACTTGAACTAGTACGTATCGGTACCA
17590800 TTCTATTTTGGTGTATTGTTTTGAATTTAGCGGTGTTCTAAAAATAATAATATTTAATTATTTAA
391 TTCTATTTTGGTGTATTGTTTTGAATTTAGCGGTGTTCTAAAAATAATAATATTTAATTATTTAA
17590865 ATATATAAAATGAATTAGATTAAATATTTTCAAATATAAAATTATTAATTGATTATATAAATTAT
456 ATATATAAAATGAATTAGATTAAATATTTTCAAATATAAAATTATTAATTGATTATATAAATTAT
* *
17590930 TTATCAATAAACTTCACAAATAAATTTTAATTATTTAACAAATGTAAGGTAAACAAGGACAAAGT
521 TTATCAATAAACTTCACAAATAAATTTTAATTATTTAACAAATCTAAGGTAAACAATGACAAAGT
*
17590995 TTGTGGAGTTATGCCTTCCATTTTGGACTAAATAGTGTGTGACATTGCAACGAGAAAGTGTTTTT
586 TTGTGGAGTTATGCCTTCCATTTTGGACTAAATAGTGTGTGACGTTGCAACGAGAAAGTGTTTTT
* * *
17591060 CATCCGAACAAGCAACTGACTTCAAGATGAGAAGAAAGCCCTCGTCCTGACAATGCAATCATTTT
651 CATCCGAACAAGCAACCGACTTCAAGATGAGAAGAAAGCCCTCGTCCCGACAATGCAATCCTTTT
* * *
17591125 TCGTCCTGATGACGTGATGCCACGTCACGACGTGGCGACGTGCAATTCAAGTATTTTGGTTTTCT
716 TCGTCTTAATGACGCGATGCCACGTCACGACGTGGCGACGTGCAATTCAAGTATTTTGGTTTTCT
* * *
17591190 TCCCCCAATTAAACTCTATTTCTAGTTACCTATTTAAACTCTGATTAACTTAGAGTTATTACAAT
781 TCCCCCAATTAAACTCTATTTCTAGCTACCTATTTAAACTCTAATTAACTTAGAGTTATTCCAAT
17591255 CAAATAT
846 CAAATAT
17591262 GCTATGAATT
Statistics
Matches: 1681, Mismatches: 26, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
855 416 0.25
856 1265 0.75
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (856 bp):
TCTGAAAGATTTGAATTTGGTTTATTTAGTGTTGTTCACAGAGAACTTTGATAGAATTGAAAATG
TAATAAAAAATCAAAGAAGTTGATAAAAGAGTAGCGTCCAGACAAGTCCCAAGCTAATTTGAAGT
TGTTTCGAGAGAGGATTCTATTTTGACTCGGTGACTCCAAACCGAATTCTGATGTATTGGACAGC
AAGCAATATGAGTTTTTATGCCTGATAATAACAAAGAAAAAATGGAAATTAAAACTAACAATTGA
AGTAAAGAAAAGACAAAGACAAGTGAAGAAAAAGAAAGAATAGAGTCGATTTTAAGGTGAGAACA
AGGTAGTCAATACCACACCAGTGGGCACACCATTTTTCTACTTGAACTAGTACGTATCGGTACCA
TTCTATTTTGGTGTATTGTTTTGAATTTAGCGGTGTTCTAAAAATAATAATATTTAATTATTTAA
ATATATAAAATGAATTAGATTAAATATTTTCAAATATAAAATTATTAATTGATTATATAAATTAT
TTATCAATAAACTTCACAAATAAATTTTAATTATTTAACAAATCTAAGGTAAACAATGACAAAGT
TTGTGGAGTTATGCCTTCCATTTTGGACTAAATAGTGTGTGACGTTGCAACGAGAAAGTGTTTTT
CATCCGAACAAGCAACCGACTTCAAGATGAGAAGAAAGCCCTCGTCCCGACAATGCAATCCTTTT
TCGTCTTAATGACGCGATGCCACGTCACGACGTGGCGACGTGCAATTCAAGTATTTTGGTTTTCT
TCCCCCAATTAAACTCTATTTCTAGCTACCTATTTAAACTCTAATTAACTTAGAGTTATTCCAAT
CAAATATTATA
Found at i:17594479 original size:46 final size:44
Alignment explanation
Indices: 17594375--17594482 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
17594365 TATCTTTGAC
** * * *
17594375 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
17594419 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
17594465 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
17594483 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:17601814 original size:44 final size:45
Alignment explanation
Indices: 17601755--17601841 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 45
17601745 ATGAATTATT
*
17601755 CTGTCTCCAATGCCATA-TATAATATGGACTTACATGGCTCAATC
1 CTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAATC
*
17601799 CTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 CTGTCTCCAAAGCCATA-TTATAATATGGACTTACATGGCTCA
17601842 TTTCTGTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 16 0.41
46 23 0.59
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (45 bp):
CTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAATC
Found at i:17610000 original size:25 final size:25
Alignment explanation
Indices: 17609971--17610023 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
17609961 TCTAAGGACT
17609971 AAATTGCAAAGAGTACAAAACTAAG
1 AAATTGCAAAGAGTACAAAACTAAG
*
17609996 AAATTGCAAATAGTACAAAACTAAG
1 AAATTGCAAAGAGTACAAAACTAAG
17610021 AAA
1 AAA
17610024 ATAACCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.17
Consensus pattern (25 bp):
AAATTGCAAAGAGTACAAAACTAAG
Found at i:17614952 original size:46 final size:45
Alignment explanation
Indices: 17614809--17614971 Score: 181
Period size: 46 Copynumber: 3.6 Consensus size: 45
17614799 CTCGGGAAAT
* *
17614809 TCGCACAATAAGTGCCAAATA-A-ATAGTCGAAGCTATTTCGATC
1 TCGCACACTAAGTGCCAAATATATATAGCCGAAGCTATTTCGATC
* * *
17614852 TCGTACACTAAGTGCCAATATATATATATAGCCGAAGCTATCTC-ATT
1 TCGCACACTAAGTGCC-A-A-ATATATATAGCCGAAGCTATTTCGATC
* *
17614899 TATGCACACTAAGTGCCAACATATATATAGCCGAAGCTATTTCGGTC
1 T-CGCACACTAAGTGCCAA-ATATATATAGCCGAAGCTATTTCGATC
*
17614946 TCGCACACTAAGTGCC-AATGTATATA
1 TCGCACACTAAGTGCCAAATATATATA
17614972 AATATAGTCG
Statistics
Matches: 100, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
43 14 0.14
44 9 0.09
45 2 0.02
46 40 0.40
47 7 0.07
48 28 0.28
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (45 bp):
TCGCACACTAAGTGCCAAATATATATAGCCGAAGCTATTTCGATC
Found at i:17615535 original size:21 final size:20
Alignment explanation
Indices: 17615511--17615549 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17615501 AAACTTGTAT
17615511 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
*
17615532 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
17615550 AAACTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:17617061 original size:558 final size:558
Alignment explanation
Indices: 17616007--17617691 Score: 3041
Period size: 558 Copynumber: 3.0 Consensus size: 558
17615997 AGTAAAATTT
17616007 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
1 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
* *
17616072 ATTTTGACTTCGGATTTGTGGTTCCAAAACCACTGTT-TCGGTTTGACTAAAAACGGGCTCTTAC
66 ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTGTTCT-GGTTTGACTAAAAACGGGCTATTAC
17616136 AATCTTTCTTCAGATCCTTCTAAAACGATCCCTCCTCTAATCGGTTGCACAAATACAAACATTGT
130 AATCTTTCTTCAGATCCTTCTAAAACGATCCCTCCTCTAATCGGTTGCACAAATACAAACATTGT
*
17616201 GCTTGTTGTGTTCTGACCTCTACTAGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCC
195 GCTTGTTGTGTTCTGACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCC
17616266 TATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCTT
260 TATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCTT
* *
17616331 TTTCTCTCTCATGGTTGCACGCACATCTTTCTACATAAAAATTCATAACTTCGATTATTTAGGAG
325 TTTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATTTAGGAG
*
17616396 TCGTAACATTTTGGCTCCATTAGCTCA-TCAAGTCATTTTTGAATGCTTTTCAACATGTTTTCTA
390 TCATAACATTTTGGCTCCATTAGCT-AGTCAAGTCATTTTTGAATGCTTTTCAACATGTTTTCTA
* *
17616460 TTTTTGATTTTGTTAGGTATGATTGCGTCTATTCTTCCTCTTTTTCATGTATTCGCTCTCATTTG
454 TTTTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTCATTTT
* *
17616525 TCATGTTGCTCCTATTAGAATGCCTTGAATTTCTTATAGA
519 TCATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
17616565 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
1 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
*
17616630 ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTGTTCTGGTTTGACTAAAAACGGGCTGTTACA
66 ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTGTTCTGGTTTGACTAAAAACGGGCTATTACA
*
17616695 ATCTTTCTTCAGATCCTTCTAAAATGATCCCTCCTCTAATCGGTTGCACAAATACAAACATTGTG
131 ATCTTTCTTCAGATCCTTCTAAAACGATCCCTCCTCTAATCGGTTGCACAAATACAAACATTGTG
17616760 CTTGTTGTGTTCTGACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCCT
196 CTTGTTGTGTTCTGACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCCT
17616825 ATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCTTT
261 ATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCTTT
17616890 TTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATTTAGGAGT
326 TTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATTTAGGAGT
17616955 CATAACATTTTGGCTCCATTAGCTAGTCAAGTCATTTTTGAATGCTTTTCAACATGTTTTCTATT
391 CATAACATTTTGGCTCCATTAGCTAGTCAAGTCATTTTTGAATGCTTTTCAACATGTTTTCTATT
17617020 TTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTCATTTTTC
456 TTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTCATTTTTC
17617085 ATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
521 ATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
17617123 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
1 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
* * * *
17617188 ATTTCAACTTCGGATTTGTGGTTCCAAAACCACTATTCCGGTTTGACTAAAAACAGGCTATTACA
66 ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTGTTCTGGTTTGACTAAAAACGGGCTATTACA
*
17617253 ATCTTTCTTCAGATCCTTCTAAAACGATCCGTCCTCTAATCGGTTGCACAAATACAAACATTGTG
131 ATCTTTCTTCAGATCCTTCTAAAACGATCCCTCCTCTAATCGGTTGCACAAATACAAACATTGTG
* * *
17617318 CTTGTTGTGTTCTGACTTCTACTGGATTTTTCGTTCCTCATTTTTTCATTCCTTTCCTTTCTCCT
196 CTTGTTGTGTTCTGACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCCT
17617383 ATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCAAG
261 ATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGG-C---
* *
17617448 CTAGTTTTTCTCCCTCATGGTTGCATGCACATCTTTCCACATAAAAATTCAAAACTTCGATTATT
322 C---TTTTTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATT
* * * *
17617513 TAAGAGTCATAACATTTTGGCTGCATTAGCTCGTCAAGTCGTTTTTGAATGCTTTTCAACATGTT
384 TAGGAGTCATAACATTTTGGCTCCATTAGCTAGTCAAGTCATTTTTGAATGCTTTTCAACATGTT
17617578 TTCTATTTTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTC
449 TTCTATTTTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTC
17617643 ATTTTTCATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
514 ATTTTTCATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
17617688 TTGA
1 TTGA
17617692 GTCATCTATC
Statistics
Matches: 1091, Mismatches: 27, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
557 1 0.00
558 853 0.78
559 2 0.00
562 1 0.00
565 234 0.21
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (558 bp):
TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTGTTCTGGTTTGACTAAAAACGGGCTATTACA
ATCTTTCTTCAGATCCTTCTAAAACGATCCCTCCTCTAATCGGTTGCACAAATACAAACATTGTG
CTTGTTGTGTTCTGACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCCT
ATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCTTT
TTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATTTAGGAGT
CATAACATTTTGGCTCCATTAGCTAGTCAAGTCATTTTTGAATGCTTTTCAACATGTTTTCTATT
TTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTCATTTTTC
ATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
Found at i:17618758 original size:17 final size:18
Alignment explanation
Indices: 17618725--17618758 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17618715 CATGTGGACT
17618725 ACCCGTGTGGACCCACAC
1 ACCCGTGTGGACCCACAC
17618743 ACCCGTGTGG-CCCACA
1 ACCCGTGTGGACCCACA
17618759 TGGCCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
ACCCGTGTGGACCCACAC
Found at i:17619422 original size:6 final size:6
Alignment explanation
Indices: 17619413--17619444 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
17619403 AAAATTTAAC
17619413 AAAATA AAAATA AAAATA AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
17619445 TCTTATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:17627240 original size:17 final size:17
Alignment explanation
Indices: 17627185--17627262 Score: 83
Period size: 17 Copynumber: 4.6 Consensus size: 17
17627175 AAGCCTGTAC
17627185 ATTTAATTCATTTA-TT
1 ATTTAATTCATTTATTT
*
17627201 ATTTAACTGTCA---AATT
1 ATTTAA-T-TCATTTATTT
17627217 ATATTAATTCATTTATTT
1 AT-TTAATTCATTTATTT
*
17627235 ATTTAATTCATTTATTA
1 ATTTAATTCATTTATTT
17627252 ATTTAATTCAT
1 ATTTAATTCAT
17627263 GTGAAAACTA
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
15 4 0.08
16 11 0.21
17 30 0.57
18 8 0.15
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.56
Consensus pattern (17 bp):
ATTTAATTCATTTATTT
Found at i:17631675 original size:17 final size:17
Alignment explanation
Indices: 17631638--17631675 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
17631628 CACATAATAT
17631638 TTTTTATTTTTTTCGTA
1 TTTTTATTTTTTTCGTA
17631655 -TTTTATTTTTTT-GTA
1 TTTTTATTTTTTTCGTA
17631670 CTTTTT
1 -TTTTT
17631676 TCGATCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.16
16 12 0.63
17 4 0.21
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTTTTCGTA
Found at i:17635626 original size:40 final size:40
Alignment explanation
Indices: 17635387--17635612 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
17635377 TCGAATGATG
* * * *
17635387 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* * *
17635427 TCCGGACTAAGAT-CTGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17635467 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17635507 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
17635547 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
17635588 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17635613 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 156 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17638217 original size:48 final size:47
Alignment explanation
Indices: 17638163--17638308 Score: 229
Period size: 48 Copynumber: 3.0 Consensus size: 47
17638153 TTACACGATG
* * *
17638163 TCTCATATCGACGCCAATGTCATATCCCAAATATGGTCTTACATGGGA
1 TCTCATATCGATGCCAATG-CATGTCCCAAACATGGTCTTACATGGGA
17638211 TCTCATATCGATGCCAATGCTATGTCCCAAACATGGTCTTACATGGGA
1 TCTCATATCGATGCCAATGC-ATGTCCCAAACATGGTCTTACATGGGA
*
17638259 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TCTCATATCGATGCCAATG-CATGTCCCAAACATGGTCTTACATGGGA
17638307 TC
1 TC
17638309 ATATAACCCT
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
47 1 0.01
48 90 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (47 bp):
TCTCATATCGATGCCAATGCATGTCCCAAACATGGTCTTACATGGGA
Found at i:17653909 original size:12 final size:12
Alignment explanation
Indices: 17653892--17653928 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
17653882 AAACCTAGAG
17653892 AAAACTAAGGCT
1 AAAACTAAGGCT
17653904 AAAACTAAGGCT
1 AAAACTAAGGCT
17653916 AAAACTAA-GCT
1 AAAACTAAGGCT
17653927 AA
1 AA
17653929 TGTGTGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (12 bp):
AAAACTAAGGCT
Found at i:17656704 original size:27 final size:27
Alignment explanation
Indices: 17656673--17656850 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17656663 TAAATTGTAC
17656673 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17656700 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17656726 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17656754 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17656782 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17656809 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17656836 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17656851 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17656787 original size:82 final size:81
Alignment explanation
Indices: 17656674--17656829 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17656664 AAATTGTACA
* *
17656674 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17656738 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17656755 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17656820 TGCGAGTTGA
65 TGCGAATTGA
17656830 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17656841 original size:82 final size:81
Alignment explanation
Indices: 17656670--17656850 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17656660 GATTAAATTG
* *
17656670 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17656735 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17656751 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17656815 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17656833 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17656851 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17664797 original size:27 final size:27
Alignment explanation
Indices: 17664766--17664943 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17664756 TAAATTGTAC
17664766 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17664793 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17664819 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17664847 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17664875 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17664902 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17664929 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17664944 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17664880 original size:82 final size:81
Alignment explanation
Indices: 17664767--17664922 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17664757 AAATTGTACA
* *
17664767 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17664831 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17664848 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17664913 TGCGAGTTGA
65 TGCGAATTGA
17664923 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17664934 original size:82 final size:81
Alignment explanation
Indices: 17664763--17664943 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17664753 GATTAAATTG
* *
17664763 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17664828 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17664844 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17664908 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17664926 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17664944 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17668844 original size:160 final size:160
Alignment explanation
Indices: 17668580--17668900 Score: 624
Period size: 160 Copynumber: 2.0 Consensus size: 160
17668570 GAGGCCCCGG
17668580 GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
1 GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
17668645 GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
66 GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
17668710 AGATCTGTGTACCCAATGTATGGTGATAGA
131 AGATCTGTGTACCCAATGTATGGTGATAGA
17668740 GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
1 GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
17668805 GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
66 GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
* *
17668870 AGATCTGTGTATCCAATGTGTGGTGATAGA
131 AGATCTGTGTACCCAATGTATGGTGATAGA
17668900 G
1 G
17668901 CCCACTTTTA
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 159 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.35
Consensus pattern (160 bp):
GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
AGATCTGTGTACCCAATGTATGGTGATAGA
Found at i:17670203 original size:64 final size:65
Alignment explanation
Indices: 17670114--17670244 Score: 228
Period size: 64 Copynumber: 2.0 Consensus size: 65
17670104 CAATTCAAAA
* *
17670114 TAGATTAGAATAAAATGTTGCTATAATCAAACATAGTCAAGTCAATATCCATTTCAAGGATATAT
1 TAGATCAGAATAAAATGTTGCTATAATCAAACATAATCAAGTCAATATCCATTTCAAGGATATAT
*
17670179 TAGATCAGAAT-AGATGTTGCTATAATCAAACATAATCAAGTCAATATCCATTTCAAGGATATAT
1 TAGATCAGAATAAAATGTTGCTATAATCAAACATAATCAAGTCAATATCCATTTCAAGGATATAT
17670243 TA
1 TA
17670245 CTAATCATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
64 53 0.84
65 10 0.16
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (65 bp):
TAGATCAGAATAAAATGTTGCTATAATCAAACATAATCAAGTCAATATCCATTTCAAGGATATAT
Found at i:17672618 original size:16 final size:18
Alignment explanation
Indices: 17672597--17672634 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17672587 TTCTATATGG
17672597 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
17672613 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
17672631 ATTT
1 ATTT
17672635 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:17682989 original size:42 final size:41
Alignment explanation
Indices: 17682921--17683001 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
17682911 CAATTTAAGA
17682921 TTTTAAAAATTTGTTTTAATGATTTATTTAATTTTTTATTT
1 TTTTAAAAATTTGTTTTAATGATTTATTTAATTTTTTATTT
**
17682962 TTTTAAAATATTAT-TTTTAATTCTTTATTTAATTTTTTAT
1 TTTTAAAA-ATT-TGTTTTAATGATTTATTTAATTTTTTAT
17683002 ATCTTTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 8 0.22
42 27 0.75
43 1 0.03
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (41 bp):
TTTTAAAAATTTGTTTTAATGATTTATTTAATTTTTTATTT
Found at i:17685917 original size:22 final size:23
Alignment explanation
Indices: 17685884--17685933 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
17685874 AATACTTACT
17685884 AATATCTGTAGGAATATTCTGTA
1 AATATCTGTAGGAATATTCTGTA
*
17685907 AATATCT-TAGGAATATTTTGTA
1 AATATCTGTAGGAATATTCTGTA
*
17685929 GATAT
1 AATAT
17685934 TTTTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (23 bp):
AATATCTGTAGGAATATTCTGTA
Found at i:17690509 original size:22 final size:22
Alignment explanation
Indices: 17690481--17690525 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17690471 AGGGGAAGTG
17690481 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
17690503 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
17690525 T
1 T
17690526 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:17696755 original size:30 final size:29
Alignment explanation
Indices: 17696705--17696769 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
17696695 CGTAAATTTG
*
17696705 AATTTAAATTTTTTACTTTTATATTTAAA
1 AATTTAAATTTTTTACTTTTAAATTTAAA
* *
17696734 AATTTAATTTTTTTATTTTTTAAATTTAAA
1 AATTTAAATTTTTTA-CTTTTAAATTTAAA
17696764 AATTTA
1 AATTTA
17696770 GGTTCAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
AATTTAAATTTTTTACTTTTAAATTTAAA
Found at i:17696963 original size:31 final size:32
Alignment explanation
Indices: 17696928--17696987 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
17696918 ATAATTATAC
*
17696928 TTAAATTTT-AAAATTTAAAAA-ATAAAAAAAA
1 TTAAATTTTCAAAA-ATAAAAATATAAAAAAAA
17696959 TTAAATTTTCAAAAATAAAAATATAAAAA
1 TTAAATTTTCAAAAATAAAAATATAAAAA
17696988 TGAAATTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (32 bp):
TTAAATTTTCAAAAATAAAAATATAAAAAAAA
Found at i:17697713 original size:27 final size:28
Alignment explanation
Indices: 17697683--17697740 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
17697673 TATTCTTAAA
17697683 TTTTAATT-TTTT-TAAAAAATTATGATT
1 TTTTAATTCTTTTGT-AAAAATTATGATT
* * *
17697710 TTTTTATTCTTTTGTAAATATTTTGATT
1 TTTTAATTCTTTTGTAAAAATTATGATT
17697738 TTT
1 TTT
17697741 AAAAAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 7 0.27
28 18 0.69
29 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTTAATTCTTTTGTAAAAATTATGATT
Found at i:17699333 original size:15 final size:16
Alignment explanation
Indices: 17699305--17699334 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17699295 CTAAAAGAAT
17699305 AAAAATAAATAAAAGC
1 AAAAATAAATAAAAGC
17699321 AAAAATAAA-AAAAG
1 AAAAATAAATAAAAG
17699335 GCTTTACGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (16 bp):
AAAAATAAATAAAAGC
Found at i:17701730 original size:4 final size:4
Alignment explanation
Indices: 17701721--17701748 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
17701711 TCAACACTAA
17701721 GTTT GTTT GTTT GTTT GTTT GTTT GTTT
1 GTTT GTTT GTTT GTTT GTTT GTTT GTTT
17701749 TATTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.25, T:0.75
Consensus pattern (4 bp):
GTTT
Found at i:17715542 original size:38 final size:36
Alignment explanation
Indices: 17715500--17715573 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 36
17715490 AAATCATGCC
* * *
17715500 AAAAAAATTGTCAGCTTTGTATAAAGAAAACATCAAAT
1 AAAAAAAATATCAGCATTGTATAAA-AAAA-ATCAAAT
17715538 AAAAAAAATATCAGCATTGTATAAAAAAAATCAAAT
1 AAAAAAAATATCAGCATTGTATAAAAAAAATCAAAT
17715574 TACTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 7 0.21
37 4 0.12
38 22 0.67
ACGTcount: A:0.58, C:0.09, G:0.08, T:0.24
Consensus pattern (36 bp):
AAAAAAAATATCAGCATTGTATAAAAAAAATCAAAT
Done.