Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 225 of 290
Found at i:77726567 original size:33 final size:33
Alignment explanation
Indices: 77726523--77726591 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
77726513 TATGAAAACT
77726523 TAGTGTGTAATCCCTTATCAGTCGATCAGTATA
1 TAGTGTGTAATCCCTTATCAGTCGATCAGTATA
*
77726556 TAGTGTTTAATCCCTTATCAGTCGATCAGTATA
1 TAGTGTGTAATCCCTTATCAGTCGATCAGTATA
77726589 TAG
1 TAG
77726592 CATACAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (33 bp):
TAGTGTGTAATCCCTTATCAGTCGATCAGTATA
Found at i:77726841 original size:27 final size:27
Alignment explanation
Indices: 77726811--77726875 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
77726801 AGCGAAGCTG
*
77726811 CCAGTATCAATATATGTGGCAAAGCCA
1 CCAGTATCAATATATATGGCAAAGCCA
* * **
77726838 CCAGTAACAGTATATATGGTGAAGCCA
1 CCAGTATCAATATATATGGCAAAGCCA
77726865 CCAGTAT-AATA
1 CCAGTATCAATA
77726876 CACTTTTTCC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (27 bp):
CCAGTATCAATATATATGGCAAAGCCA
Found at i:77727013 original size:26 final size:28
Alignment explanation
Indices: 77726976--77727029 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
77726966 ATCAAAGCAC
*
77726976 AAATCAGTCA-TTTACCCTCGAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
*
77727003 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
77727030 TTTTGGGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTAGAGGGGTA
Found at i:77735156 original size:42 final size:43
Alignment explanation
Indices: 77735102--77735203 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
77735092 TATTTACGTA
* * *
77735102 TAAGACCATGTCTGGGAC-ATCGCTATC-GTATTTGATTTCATG
1 TAAGACCCTGTCTGGGACAATCGC-ATCAATATTTGATTACATG
* *
77735144 TAAGACCCTGTCTAGGACAATGGCATCAATATTTGATTACATG
1 TAAGACCCTGTCTGGGACAATCGCATCAATATTTGATTACATG
*
77735187 TAAAACCAC-GTCTGGGA
1 TAAGACC-CTGTCTGGGA
77735204 TGTTGGCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 19 0.38
43 30 0.60
44 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (43 bp):
TAAGACCCTGTCTGGGACAATCGCATCAATATTTGATTACATG
Found at i:77736685 original size:43 final size:43
Alignment explanation
Indices: 77736535--77736685 Score: 123
Period size: 42 Copynumber: 3.5 Consensus size: 43
77736525 TCGGAGATAT
* * *
77736535 CGTGTAAGACCGTGTCTAGGACACAGGCCTCGAT-TTGAGATTTA
1 CGTGTAAGACCGCGTCTGGGACACAGGCATCGATATTGA-A-TTA
** * *
77736579 CGTGTAAGACCATGTTTGGGACATCA-GCATCG-TATCTG-ATTT
1 CGTGTAAGACCGCGTCTGGGACA-CAGGCATCGATAT-TGAATTA
* * *
77736621 TGTGTAAGACC-CTGTCAGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCGC-GTCTGGGACACAGGCATCGATATTGAATTA
*
77736664 CATGTAAGACCGCGTCTGGGAC
1 CGTGTAAGACCGCGTCTGGGAC
77736686 GTCGGCATTG
Statistics
Matches: 85, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
41 1 0.01
42 28 0.33
43 25 0.29
44 27 0.32
45 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCGCGTCTGGGACACAGGCATCGATATTGAATTA
Found at i:77736778 original size:15 final size:16
Alignment explanation
Indices: 77736751--77736780 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77736741 AGAGTACAAG
77736751 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
77736767 ATATGA-AATGTATA
1 ATATGAGAATGTATA
77736781 ATCTTTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:77739637 original size:44 final size:44
Alignment explanation
Indices: 77739588--77739672 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
77739578 AACAGAAATA
*
77739588 GTACGACAC-ATAAAGTGCCTCATTGACACAAAGTCGAAGTAACC
1 GTACGACACTAT-AAGTGCCTCATCGACACAAAGTCGAAGTAACC
*
77739632 GTACGACACTATTAGTGCCTCATCGACACAAAGTCGAAGTA
1 GTACGACACTATAAGTGCCTCATCGACACAAAGTCGAAGTA
77739673 TCCCTGTACA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (44 bp):
GTACGACACTATAAGTGCCTCATCGACACAAAGTCGAAGTAACC
Found at i:77740568 original size:8 final size:8
Alignment explanation
Indices: 77740555--77740602 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
77740545 CTTGTATGTT
77740555 TTATTATA
1 TTATTATA
77740563 TTATTA-A
1 TTATTATA
77740570 --ATTACTA
1 TTATTA-TA
77740577 -TATTATA
1 TTATTATA
*
77740584 TTAATATA
1 TTATTATA
77740592 TTATTATA
1 TTATTATA
77740600 TTA
1 TTA
77740603 ATTTCTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
5 4 0.12
7 4 0.12
8 26 0.76
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:77740580 original size:21 final size:21
Alignment explanation
Indices: 77740556--77740602 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
77740546 TTGTATGTTT
*
77740556 TATTATATTATTAAATTACTA
1 TATTATATTAATAAATTACTA
* *
77740577 TATTATATTAATATATTATTA
1 TATTATATTAATAAATTACTA
77740598 TATTA
1 TATTA
77740603 ATTTCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATATTAATAAATTACTA
Found at i:77742366 original size:40 final size:40
Alignment explanation
Indices: 77742323--77742480 Score: 255
Period size: 40 Copynumber: 4.0 Consensus size: 40
77742313 TCGATATATT
* * *
77742323 GTATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAAT
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
77742363 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
*
77742403 GTATATCCGGGTTAAATCCCGCAGGCTTCATGTTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
*
77742443 GTATATCCGGGTTAAATCTCGCAGGCTT-AGTGCTGGTA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTA
77742481 CTATATTCGG
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 110 0.99
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
Found at i:77742503 original size:80 final size:79
Alignment explanation
Indices: 77742324--77742510 Score: 234
Period size: 80 Copynumber: 2.3 Consensus size: 79
77742314 CGATATATTG
* * * *
77742324 TATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAATGTATATCCGGGTTAAATCCCGCAGGC
1 TATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGC
*
77742389 TTCATGCTGGTAAAG
66 TTCATGCTGGT-AAC
* * *
77742404 TATATCCGGGTTAAATCCCGCAGGCTTCATGTTGGTAAAGTATATCCGGGTTAAATCTCGCAGGC
1 TATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGC
77742469 TT-AGTGCTGGT-AC
66 TTCA-TGCTGGTAAC
* *
77742482 TATATTCGGGCCTAAAGTCCCGTAGGCTT
1 TATATCCGGG-CTAAA-TCCCGCAGGCTT
77742511 TGTGCTAGTA
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
78 10 0.11
79 5 0.05
80 80 0.84
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (79 bp):
TATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGC
TTCATGCTGGTAAC
Found at i:77747698 original size:46 final size:46
Alignment explanation
Indices: 77747578--77747707 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
77747568 TGTAACCTGC
* * * *
77747578 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
* *** *
77747624 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-AT
77747671 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
77747708 TGCCCAAATA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 36 0.52
47 33 0.48
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
Found at i:77747726 original size:46 final size:45
Alignment explanation
Indices: 77747583--77747726 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
77747573 CCTGCCCATA
* * * *
77747583 AGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * *
77747631 --TCGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
77747676 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
77747722 AGTGA
1 AGTGA
77747727 CATGTCATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
43 4 0.05
46 38 0.50
47 30 0.39
48 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:77753248 original size:40 final size:40
Alignment explanation
Indices: 77753205--77753362 Score: 255
Period size: 40 Copynumber: 4.0 Consensus size: 40
77753195 TCGATATATT
* * *
77753205 GTATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAAT
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
77753245 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
*
77753285 GTATATCCGGGTTAAATCCCGCAGGCTTCATGTTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
*
77753325 GTATATCCGGGTTAAATCTCGCAGGCTT-AGTGCTGGTA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTA
77753363 CTATATTCGG
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 110 0.99
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
Found at i:77753385 original size:80 final size:79
Alignment explanation
Indices: 77753206--77753392 Score: 234
Period size: 80 Copynumber: 2.3 Consensus size: 79
77753196 CGATATATTG
* * * *
77753206 TATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAATGTATATCCGGGTTAAATCCCGCAGGC
1 TATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGC
*
77753271 TTCATGCTGGTAAAG
66 TTCATGCTGGT-AAC
* * *
77753286 TATATCCGGGTTAAATCCCGCAGGCTTCATGTTGGTAAAGTATATCCGGGTTAAATCTCGCAGGC
1 TATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGC
77753351 TT-AGTGCTGGT-AC
66 TTCA-TGCTGGTAAC
* *
77753364 TATATTCGGGCCTAAAGTCCCGTAGGCTT
1 TATATCCGGG-CTAAA-TCCCGCAGGCTT
77753393 TGTGCTAGTA
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
78 10 0.11
79 5 0.05
80 80 0.84
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (79 bp):
TATATCCGGGCTAAATCCCGCAGGCTTCATGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGC
TTCATGCTGGTAAC
Found at i:77758580 original size:46 final size:46
Alignment explanation
Indices: 77758460--77758589 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
77758450 TGTAACCTGC
* * * *
77758460 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
* *** *
77758506 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-AT
77758553 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
77758590 TGCCCAAATA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 36 0.52
47 33 0.48
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
Found at i:77758608 original size:46 final size:45
Alignment explanation
Indices: 77758465--77758608 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
77758455 CCTGCCCATA
* * * *
77758465 AGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * *
77758513 --TCGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
77758558 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
77758604 AGTGA
1 AGTGA
77758609 CATGTCATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
43 4 0.05
46 38 0.50
47 30 0.39
48 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:77763953 original size:40 final size:40
Alignment explanation
Indices: 77763909--77764027 Score: 193
Period size: 40 Copynumber: 3.0 Consensus size: 40
77763899 CTTGATATAT
*
77763909 TGTATATCCGGGTTAAATCCCGCAGGCATCGTGTTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAA
* *
77763949 TGTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAA
* *
77763989 AGTATATCCGGGTTAAATCCCGCAGGCTTAGTGTTGGTA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTA
77764028 CTATATCTAG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAA
Found at i:77764050 original size:80 final size:80
Alignment explanation
Indices: 77763910--77764057 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 80
77763900 TTGATATATT
* * * **
77763910 GTATATCCGGGTTAAATCCCGCAGGCATCGTGTTGGTAATGTATATCCGGGTTAAATCCCGCAGG
1 GTATATCCGGGTTAAATCCCGCAGGCATAGTGTTGGTAATCTATATCAGGACTAAATCCCGCAGG
77763975 CTTCATGCTGGTAAA
66 CTTCATGCTGGTAAA
* *
77763990 GTATATCCGGGTTAAATCCCGCAGGCTTAGTGTTGGT-A-CTATATCTAGGACTAAAGTCCCGTA
1 GTATATCCGGGTTAAATCCCGCAGGCATAGTGTTGGTAATCTATATC-AGGACTAAA-TCCCGCA
77764053 GGCTT
64 GGCTT
77764058 TGTGCTAGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
78 6 0.10
79 7 0.12
80 46 0.78
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (80 bp):
GTATATCCGGGTTAAATCCCGCAGGCATAGTGTTGGTAATCTATATCAGGACTAAATCCCGCAGG
CTTCATGCTGGTAAA
Found at i:77768175 original size:40 final size:40
Alignment explanation
Indices: 77768116--77768268 Score: 211
Period size: 40 Copynumber: 3.9 Consensus size: 40
77768106 GTATGATATT
* * *
77768116 TGGAATTGTATCCGAGCTTAAAGACCCTCAGGCTATATGT
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATATGC
77768156 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATATGC
* * *
77768196 TGGAATTGTATCCGGGCATAAAGATCCGCAGGCT-TCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGC
* *
77768236 TGGAATGGTATCCGGG-TTAAAGACCCGTAGGCT
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCT
77768269 TGCGCTAGAA
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
39 15 0.15
40 87 0.85
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATATGC
Found at i:77774134 original size:33 final size:32
Alignment explanation
Indices: 77774097--77774162 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
77774087 TGTAGGGAAC
*
77774097 TCGAGATTTGTTAAACCCGAGTGCCAGCGGTG
1 TCGAGATTTGTTAAACCCGAGTGCCAGAGGTG
*
77774129 NTCGAGATTTGTTAAACCTGAGTGCCAGAGGTG
1 -TCGAGATTTGTTAAACCCGAGTGCCAGAGGTG
77774162 T
1 T
77774163 GGTAGAAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.27
Consensus pattern (32 bp):
TCGAGATTTGTTAAACCCGAGTGCCAGAGGTG
Found at i:77776354 original size:54 final size:54
Alignment explanation
Indices: 77776270--77776737 Score: 866
Period size: 54 Copynumber: 8.7 Consensus size: 54
77776260 TGGAGGAAGC
*
77776270 GTCCTGGTGGCTATGCCACAATTATTTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
77776324 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
77776378 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
77776432 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
77776486 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
77776540 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
77776594 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
*
77776648 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
* * * *
77776702 GTTCTGGTGGCTCTACCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCT-AATCTGGTG
77776738 ACTTCGTCAC
Statistics
Matches: 407, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
53 5 0.01
54 402 0.99
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
Found at i:77776733 original size:32 final size:27
Alignment explanation
Indices: 77776298--77776737 Score: 379
Period size: 27 Copynumber: 16.3 Consensus size: 27
77776288 CAATTATTTA
*
77776298 ATCTGGTGGCTCTGCCACATATATCTG
1 ATCTGGTGGCTCTACCACATATATCTG
* * *
77776325 -TCCTGGTGGCTATGCCACA-ATTATCTA
1 AT-CTGGTGGCTCTACCACATA-TATCTG
*
77776352 ATCTGGTGGCTCTGCCACATATATCTG
1 ATCTGGTGGCTCTACCACATATATCTG
* * *
77776379 -TCCTGGTGGCTATGCCACA-ATTATCTA
1 AT-CTGGTGGCTCTACCACATA-TATCTG
*
77776406 ATCTGGTGGCTCTGCCACATATATCTG
1 ATCTGGTGGCTCTACCACATATATCTG
* * *
77776433 -TCCTGGTGGCTATGCCACA-ATTATCTA
1 AT-CTGGTGGCTCTACCACATA-TATCTG
*
77776460 ATCTGGTGGCTCTGCCACATATATCTG
1 ATCTGGTGGCTCTACCACATATATCTG
* * *
77776487 -TCCTGGTGGCTATGCCACA-ATTATCTA
1 AT-CTGGTGGCTCTACCACATA-TATCTG
*
77776514 ATCTGGTGGCTCTGCCACATATATCTG
1 ATCTGGTGGCTCTACCACATATATCTG
* * *
77776541 -TCCTGGTGGCTATGCCACA-ATTATCTA
1 AT-CTGGTGGCTCTACCACATA-TATCTG
*
77776568 ATCTGGTGGCTCTGCCACATATATCTG
1 ATCTGGTGGCTCTACCACATATATCTG
* * *
77776595 -TCCTGGTGGCTATGCCACA-ATTATCTA
1 AT-CTGGTGGCTCTACCACATA-TATCTG
*
77776622 ATCTGGTGGCTCTGCCACATATATCTG
1 ATCTGGTGGCTCTACCACATATATCTG
* *
77776649 -TCCTGGTGGCTATGCCACA-ATTATCTG
1 AT-CTGGTGGCTCTACCACATA-TATCTG
*
77776676 ATCTGGTGGCTCTGCCACATATATCTG
1 ATCTGGTGGCTCTACCACATATATCTG
*
77776703 TTCTGGTGGCTCTACCACA-ATATCTG
1 ATCTGGTGGCTCTACCACATATATCTG
77776729 TATCTGGTG
1 -ATCTGGTG
77776738 ACTTCGTCAC
Statistics
Matches: 355, Mismatches: 29, Indels: 58
0.80 0.07 0.13
Matches are distributed among these distances:
26 21 0.06
27 320 0.90
28 14 0.04
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
ATCTGGTGGCTCTACCACATATATCTG
Found at i:77784348 original size:27 final size:27
Alignment explanation
Indices: 77784308--77784718 Score: 508
Period size: 27 Copynumber: 15.2 Consensus size: 27
77784298 AGGAAGCGTC
* *
77784308 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
77784335 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
77784361 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
77784389 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
77784415 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
77784443 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
77784469 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
77784497 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
77784523 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
77784551 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
77784577 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
77784605 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
77784631 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
77784659 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
77784686 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
77784713 CTGGTG
1 CTGGTG
77784719 ACTTCGTCAC
Statistics
Matches: 340, Mismatches: 17, Indels: 54
0.83 0.04 0.13
Matches are distributed among these distances:
26 26 0.08
27 295 0.87
28 19 0.06
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:77784391 original size:54 final size:54
Alignment explanation
Indices: 77784305--77784718 Score: 776
Period size: 54 Copynumber: 7.7 Consensus size: 54
77784295 TGGAGGAAGC
*
77784305 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
77784359 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
77784413 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
77784467 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
77784521 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
77784575 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
77784629 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
77784683 GTTCTGGTGGCTCTACCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
77784719 ACTTCGTCAC
Statistics
Matches: 355, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
53 6 0.02
54 349 0.98
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:77787986 original size:268 final size:268
Alignment explanation
Indices: 77787509--77788043 Score: 1052
Period size: 268 Copynumber: 2.0 Consensus size: 268
77787499 TGCATATTTG
*
77787509 CACTTTTTCCCCAATGCTCGTAAAATAATTTTGATCACATTTATTTACTCCTTGAGTCTAGATGA
1 CACTTTTGCCCCAATGCTCGTAAAATAATTTTGATCACATTTATTTACTCCTTGAGTCTAGATGA
77787574 ACCATTTTCATAACTATAGCAACTCATAATTTCAACTATTTTACACATTACAACTCATTTACAAC
66 ACCATTTTCATAACTATAGCAACTCATAATTTCAACTATTTTACACATTACAACTCATTTACAAC
77787639 TTAGCAATCTAGCCCTTTTTTAAGGTGTTTTCATGCAATTTCTTTCACAAAAGTTGTTTATTAGA
131 TTAGCAATCTAGCCCTTTTTTAAGGTGTTTTCATGCAATTTCTTTCACAAAAGTTGTTTATTAGA
77787704 CAATTAGGACTCATAATCTTCCATAAAAACACAGAAAACAACACATTTACTCTCATGGAAAAACC
196 CAATTAGGACTCATAATCTTCCATAAAAACACAGAAAACAACACATTTACTCTCATGGAAAAACC
77787769 CTAGACTA
261 CTAGACTA
77787777 CACTTTTGCCCCAATGCTCGTAAAATAATTTTGATCACATTTATTTACTCCTTGAGTCTAGATGA
1 CACTTTTGCCCCAATGCTCGTAAAATAATTTTGATCACATTTATTTACTCCTTGAGTCTAGATGA
77787842 ACCATTTTCATAACTATAGCAACTCATAATTTCAACTATTTTACACATTACAACTCATTTACAAC
66 ACCATTTTCATAACTATAGCAACTCATAATTTCAACTATTTTACACATTACAACTCATTTACAAC
77787907 TTAGCAATCTAGCCCTTTTTTAAGGTGTTTTCATGCAATTTCTTTCACAAAAGTTGTTTATTAGA
131 TTAGCAATCTAGCCCTTTTTTAAGGTGTTTTCATGCAATTTCTTTCACAAAAGTTGTTTATTAGA
*
77787972 CAATTAGGACTCATAATCTTCCATAAAAACACAGCAAACAACACATTTACTCTCATGGAAAAACC
196 CAATTAGGACTCATAATCTTCCATAAAAACACAGAAAACAACACATTTACTCTCATGGAAAAACC
77788037 CTAGACT
261 CTAGACT
77788044 CTTCATCATT
Statistics
Matches: 265, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
268 265 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (268 bp):
CACTTTTGCCCCAATGCTCGTAAAATAATTTTGATCACATTTATTTACTCCTTGAGTCTAGATGA
ACCATTTTCATAACTATAGCAACTCATAATTTCAACTATTTTACACATTACAACTCATTTACAAC
TTAGCAATCTAGCCCTTTTTTAAGGTGTTTTCATGCAATTTCTTTCACAAAAGTTGTTTATTAGA
CAATTAGGACTCATAATCTTCCATAAAAACACAGAAAACAACACATTTACTCTCATGGAAAAACC
CTAGACTA
Found at i:77793314 original size:42 final size:43
Alignment explanation
Indices: 77793220--77793380 Score: 152
Period size: 44 Copynumber: 3.7 Consensus size: 43
77793210 TATAATGCTA
* *
77793220 ATGTCCCAGAC-GTGGTCTTACATGT-AATTCAGTATCGATGCCT
1 ATGTCCCAGACAG-GGTCTTACACGTAAATTCA-AATCGATGCCT
* * * *
77793263 CTGTCCCAGATAGGGTCTTATACG-AAA-TCAAATACGATGCCG
1 ATGTCCCAGACAGGGTCTTACACGTAAATTCAAAT-CGATGCCT
*
77793305 ATGTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCT
1 ATGTCCCAGACAGGGTCTTACACGTAAA-TTCAAATCGATGCCT
* **
77793349 ATGCCCCAGACACAGTCTTACACG-ATAATTCA
1 ATGTCCCAGACAGGGTCTTACACGTA-AATTCA
77793381 GATTAATACC
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.31
43 28 0.29
44 31 0.32
45 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGTCCCAGACAGGGTCTTACACGTAAATTCAAATCGATGCCT
Found at i:77793357 original size:44 final size:43
Alignment explanation
Indices: 77793220--77793380 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 43
77793210 TATAATGCTA
* * *
77793220 ATGTCCCAGACGTGGTCTTACATGT-AATTCAGTATCGATGCCT
1 ATGTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCCT
* * * * *
77793263 CTGTCCCAGATAGGGTCTTATACG-AAA-TCAAATACGATGCCG
1 ATGTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCT
77793305 ATGTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCT
1 ATGTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCCT
* **
77793349 ATGCCCCAGACACAGTCTTACACG-ATAATTCA
1 ATGTCCCAGACATGGTCTTACACGTA-AATTCA
77793381 GATTAATACC
Statistics
Matches: 96, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 30 0.31
43 28 0.29
44 30 0.31
45 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCT
Found at i:77802987 original size:41 final size:41
Alignment explanation
Indices: 77802850--77803034 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
77802840 CGATTCTTAA
* * *
77802850 CACTGGCTCAAAA-CCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
77802889 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
77802930 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
77802971 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
77803012 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
77803035 CCCAAGCTCG
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 46 0.37
41 76 0.61
43 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:77802988 original size:81 final size:81
Alignment explanation
Indices: 77802849--77803048 Score: 262
Period size: 81 Copynumber: 2.5 Consensus size: 81
77802839 ACGATTCTTA
* * *
77802849 ACACTGGCTCAAAA-CCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTCGGA
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
77802913 ACTAAGTCCGGTTATG
66 ACTAAGTCCGGTTATG
* *
77802929 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG
* * * *
77802992 TAATTAAGTTCGGTTATT
64 GAACTAAGTCCGGTTATG
*
77803010 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
77803049 TACACCCCGA
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
80 17 0.16
81 51 0.49
82 32 0.31
83 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (81 bp):
ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
ACTAAGTCCGGTTATG
Found at i:77806128 original size:20 final size:20
Alignment explanation
Indices: 77806095--77806133 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
77806085 GTAGTGTTTA
*
77806095 TTGAATTAGGATTTCAAAAT
1 TTGAATTAGAATTTCAAAAT
* *
77806115 TTGAATTTGAATTTTAAAA
1 TTGAATTAGAATTTCAAAA
77806134 ATAATATGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (20 bp):
TTGAATTAGAATTTCAAAAT
Found at i:77811943 original size:23 final size:22
Alignment explanation
Indices: 77811913--77811974 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
77811903 GCATAATTTT
77811913 ATATATTTTTAATTTATTAAATA
1 ATATATTTTTAATTTATTAAA-A
*
77811936 ATATATTTTTTATAATT-TTAAAA
1 ATATA-TTTTTA-ATTTATTAAAA
*
77811959 ATATA-ATTTAATTTAT
1 ATATATTTTTAATTTAT
77811975 ATTAAAGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.09
21 5 0.15
23 11 0.33
24 11 0.33
25 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATATTTTTAATTTATTAAAA
Found at i:77816077 original size:6 final size:6
Alignment explanation
Indices: 77816067--77816100 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
77816057 TATTGTGTTT
* *
77816067 TTTGGT TTTGGT TTTGGC TTTGGC TTTGGC TTTG
1 TTTGGC TTTGGC TTTGGC TTTGGC TTTGGC TTTG
77816101 CATTTTTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.09, G:0.32, T:0.59
Consensus pattern (6 bp):
TTTGGC
Found at i:77818936 original size:16 final size:16
Alignment explanation
Indices: 77818915--77818948 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
77818905 ATATCTCAAA
77818915 CACTTGTTGCATCTTG
1 CACTTGTTGCATCTTG
77818931 CACTTGTTGCATCTTG
1 CACTTGTTGCATCTTG
77818947 CA
1 CA
77818949 TTTGAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (16 bp):
CACTTGTTGCATCTTG
Found at i:77831035 original size:129 final size:129
Alignment explanation
Indices: 77830805--77831061 Score: 505
Period size: 129 Copynumber: 2.0 Consensus size: 129
77830795 TTCTTGGTTG
77830805 GTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGAT
1 GTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGAT
*
77830870 ACATGAATTATTGTTAAATAATGGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGTC
66 ACATGAATTACTGTTAAATAATGGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGTC
77830934 GTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGAT
1 GTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGAT
77830999 ACATGAATTACTGTTAAATAATGGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGT
66 ACATGAATTACTGTTAAATAATGGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGT
77831062 TAAGGAGGTT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (129 bp):
GTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGAT
ACATGAATTACTGTTAAATAATGGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGTC
Found at i:77832310 original size:29 final size:29
Alignment explanation
Indices: 77832275--77832348 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
77832265 GTTGTGAGAT
* *
77832275 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
77832304 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
77832333 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
77832349 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:77833082 original size:64 final size:64
Alignment explanation
Indices: 77833010--77833137 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
77833000 GTTTGTTTTT
* *
77833010 GTAACAGATGCTGACAGCAGCAGTGATGTGAGATTGAAAAATCACTAAAAATAGTAGAAATGGA
1 GTAACAGATGCTGACAACAACAGTGATGTGAGATTGAAAAATCACTAAAAATAGTAGAAATGGA
77833074 GTAACAGATGCTGACAACAACAGTGATGTGAGATTGAAAAATCACTAAAAATAGTAGAAATGGA
1 GTAACAGATGCTGACAACAACAGTGATGTGAGATTGAAAAATCACTAAAAATAGTAGAAATGGA
77833138 ATTAAATAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.20
Consensus pattern (64 bp):
GTAACAGATGCTGACAACAACAGTGATGTGAGATTGAAAAATCACTAAAAATAGTAGAAATGGA
Found at i:77833690 original size:65 final size:66
Alignment explanation
Indices: 77833586--77833716 Score: 237
Period size: 65 Copynumber: 2.0 Consensus size: 66
77833576 TTTCATAACT
* *
77833586 CAAAATATGATTTTTAAAGCGACCCCGATACAGTAGCCAGCTTGCCTGGAACAAAAAAAAA-ATA
1 CAAAATATGATTTTTAAAGCGACCACGATACAGTAGCCAGCTTGCCTAGAACAAAAAAAAATATA
77833650 G
66 G
77833651 CAAAATATGATTTTTAAAGCGACCACGATACAGTAGCCAGCTTGCCTAGAACAAAAAAAAATATA
1 CAAAATATGATTTTTAAAGCGACCACGATACAGTAGCCAGCTTGCCTAGAACAAAAAAAAATATA
77833716 G
66 G
77833717 GGGGAAATAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 59 0.94
66 4 0.06
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (66 bp):
CAAAATATGATTTTTAAAGCGACCACGATACAGTAGCCAGCTTGCCTAGAACAAAAAAAAATATA
G
Found at i:77858725 original size:43 final size:44
Alignment explanation
Indices: 77858585--77858747 Score: 149
Period size: 43 Copynumber: 3.8 Consensus size: 44
77858575 TATTGAGATG
* * *
77858585 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATGA
1 TGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATATAA
* *
77858628 -GATTACATGTAAGACCATGTCCGGGAGAATGGCATC-AT-TAA
1 TGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATATAA
* * * *
77858669 TCGATTTCGTGTAAGACCCTGTCTAGGACAATGGCATCGATAT-A
1 T-GATTACATGTAAGACCATGTCTGGGACAATGGCATCGATATAA
** * * *
77858713 TGATGGCATGTAAGACTATATCTGGGA-TATGGCAT
1 TGATTACATGTAAGACCATGTCTGGGACAATGGCAT
77858748 TGTATGATCT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
42 40 0.42
43 49 0.51
44 4 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
TGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATATAA
Found at i:77868208 original size:84 final size:84
Alignment explanation
Indices: 77868111--77868277 Score: 307
Period size: 84 Copynumber: 2.0 Consensus size: 84
77868101 ATAGGATTTT
77868111 TCCTATATAATTTATCACCTTTTTACTTAAATTCGTTGTTAAAACTAAGTAATTATTTAATAAAT
1 TCCTATATAATTTATCACCTTTTTACTTAAATTCGTTGTTAAAACTAAGTAATTATTTAATAAAT
77868176 TAATAAAATATGTGAAAAG
66 TAATAAAATATGTGAAAAG
*
77868195 TCCTATATAATTTATCACCTTTTTACTTAAATTCGTTGTTAAAACTAAGTAATTGTTTAATAAAT
1 TCCTATATAATTTATCACCTTTTTACTTAAATTCGTTGTTAAAACTAAGTAATTATTTAATAAAT
* *
77868260 TAATGACATATGTGAAAA
66 TAATAAAATATGTGAAAA
77868278 TATGAAATTA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (84 bp):
TCCTATATAATTTATCACCTTTTTACTTAAATTCGTTGTTAAAACTAAGTAATTATTTAATAAAT
TAATAAAATATGTGAAAAG
Found at i:77872563 original size:39 final size:40
Alignment explanation
Indices: 77872468--77872651 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
77872458 TTGAATGATG
* *
77872468 TCCGGCCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
77872506 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
77872547 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
77872586 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
77872625 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
77872652 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
39 54 0.43
40 59 0.47
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:77872673 original size:79 final size:79
Alignment explanation
Indices: 77872520--77872684 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
77872510 GGACTAAGAT
* ** *
77872520 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
77872585 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
77872599 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
77872661 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
77872678 CCGAAGG
1 CCGAAGG
77872685 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:77880985 original size:27 final size:27
Alignment explanation
Indices: 77880954--77881104 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
77880944 TAAATTGTAC
*
77880954 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
77880981 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
77881007 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
77881035 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
77881063 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
77881090 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77881105 GACTCGATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:77881068 original size:82 final size:81
Alignment explanation
Indices: 77880955--77881104 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
77880945 AAATTGTACA
*
77880955 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
77881019 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
77881036 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
77881101 TGCG
65 TGCG
77881105 GACTCGATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77881095 original size:55 final size:53
Alignment explanation
Indices: 77880954--77881104 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 53
77880944 TAAATTGTAC
* *
77880954 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
* ** ** *
77881007 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * * *
77881062 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
77881105 GACTCGATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 38 0.47
55 41 0.51
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:77884583 original size:11 final size:11
Alignment explanation
Indices: 77884554--77884586 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
77884544 AATTATTAAC
77884554 ATAATGAATTTT
1 ATAAT-AATTTT
77884566 A-AATAATTTT
1 ATAATAATTTT
77884576 ATAATAATTTT
1 ATAATAATTTT
77884587 TGATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.35
11 12 0.60
12 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (11 bp):
ATAATAATTTT
Found at i:77887363 original size:22 final size:22
Alignment explanation
Indices: 77887338--77887403 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 22
77887328 CGAGCTATCA
77887338 ACGGGTCTGCTCACACAAGCTG
1 ACGGGTCTGCTCACACAAGCTG
77887360 AC-GGTCATG---ACA-AAGCT-
1 ACGGGTC-TGCTCACACAAGCTG
*
77887377 ACACGGTGCTGCTCACACAAGCTG
1 AC-GGGT-CTGCTCACACAAGCTG
77887401 ACG
1 ACG
77887404 AGTATCTGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 17
0.65 0.02 0.33
Matches are distributed among these distances:
17 2 0.06
18 5 0.15
19 8 0.24
20 1 0.03
21 4 0.12
22 7 0.21
23 5 0.15
24 2 0.06
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.17
Consensus pattern (22 bp):
ACGGGTCTGCTCACACAAGCTG
Found at i:77900598 original size:27 final size:27
Alignment explanation
Indices: 77900568--77900698 Score: 176
Period size: 27 Copynumber: 4.9 Consensus size: 27
77900558 ATTACCAAAG
* * *
77900568 TACCCTTGATTTATAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
77900595 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
77900622 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
77900649 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
77900676 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
77900699 AAAATACCCT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 94 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:77900615 original size:54 final size:54
Alignment explanation
Indices: 77900557--77900739 Score: 145
Period size: 54 Copynumber: 3.4 Consensus size: 54
77900547 TAAATTGTAA
*
77900557 AATTACCAAAGTACCCTTGATTTATAAAATTA-TCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTATAAAATTACT-GTTTTACCCTCGATTTACAG
* **** * *
77900611 AATTATCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAG
1 AATTACCAAAGTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAG
***** * **** * *
77900665 AATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACA-
1 AATTACCAAAGTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAG
*
77900718 AAGTTACCAAAATACCCTCGAT
1 AA-TTACCAAAGTACCCTCGAT
77900740 CAGTAAAATT
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
53 2 0.02
54 102 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (54 bp):
AATTACCAAAGTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAG
Found at i:77900706 original size:27 final size:27
Alignment explanation
Indices: 77900622--77901006 Score: 167
Period size: 27 Copynumber: 14.2 Consensus size: 27
77900612 ATTATCGTTT
* ****
77900622 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * * ****
77900649 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
77900676 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * * *
77900703 TACCCTTGGTTTACAAAGTTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
77900730 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAA
* * * *
77900757 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
77900783 TACCC-CTGGTTTGTAAAATTAC-AGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAA
* * *
77900810 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
77900837 TACCCT-TATTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * * **
77900864 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACTAAAA
* * *
77900891 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
77900918 TACCC-CTGATTTACAAAGTTA-TAGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAA
* * *
77900945 TACCCTTGACTTTCTAAAAATTA-TGGAAA
1 TACCCTCGA-TTTAT-AAAATTACT-AAAA
* * * * *
77900974 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
77901001 TACCCT
1 TACCCT
77901007 TGGTTTGTAG
Statistics
Matches: 289, Mismatches: 51, Indels: 36
0.77 0.14 0.10
Matches are distributed among these distances:
26 26 0.09
27 235 0.81
28 11 0.04
29 17 0.06
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:77900761 original size:81 final size:80
Alignment explanation
Indices: 77900676--77900952 Score: 262
Period size: 81 Copynumber: 3.4 Consensus size: 80
77900666 ATTACTGTTT
* *
77900676 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAGTTACCAAAATACCCTCGATC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAA-TTACCAAAATACCCTCAATT
*
77900741 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** * *
77900757 TACCCTAG-TCTGTAAAATTGCTAAAATACCCCTGGTTTGTA-AAATTA-CAGAAATACCCTCAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGG-TT-TACAAATTACCA-AAATACCCTCAA
77900819 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
* ** * * ** *
77900837 TACCCT-TATTTTGTAAAATTACCAAAATACCAC-TAGTTTGTGAAATTACCGAAATACCCTCAA
1 TACCCTCGA-TTTACAAAATTACTAAAATACC-CTTGGTTT-ACAAATTACCAAAATACCCTCAA
77900900 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
*
77900918 TACCC-CTGATTTACAAAGTTA-TAGAAATACCCTTG
1 TACCCTC-GATTTACAAAATTACTA-AAATACCCTTG
77900953 ACTTTCTAAA
Statistics
Matches: 161, Mismatches: 22, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
79 3 0.02
80 62 0.39
81 91 0.57
82 5 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAATTACCAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:77900850 original size:54 final size:53
Alignment explanation
Indices: 77900690--77900922 Score: 245
Period size: 54 Copynumber: 4.3 Consensus size: 53
77900680 CTCGATTTAC
* * * ** **
77900690 AAAATTACTAAAATACCCTTGGTT-TACAAAGTTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTAGTTTGTA-AAA-TTACCAAAATACCCTTAATTTGT
* * * * **
77900744 AAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAATTTGT
* *
77900797 AAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTATTTTGT
1 AAAATTACCA-AAATACCCT-AGTTTGTAAAATTACCAAAATACCCTTAATTTGT
* * *
77900851 AAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCTTAATTTGT
77900905 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
77900923 CTGATTTACA
Statistics
Matches: 151, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.01
53 33 0.22
54 110 0.73
55 6 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAATTTGT
Found at i:77901009 original size:27 final size:27
Alignment explanation
Indices: 77900676--77901035 Score: 181
Period size: 27 Copynumber: 13.3 Consensus size: 27
77900666 ATTACTGTTT
* * * *
77900676 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
77900703 TACCCTTGGTTTACAAAGTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
77900730 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-TAAAATTACCAAAA
* * * * *
77900757 TACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
77900783 TACCCCTGGTTTGTAAAATTA-CAGAAA
1 TACCCTTGGTTTATAAAATTACCA-AAA
*** *
77900810 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
** *
77900837 TACCCTTATTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
77900864 TACCAC-TAGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTATAAAATTACCAAAA
*** *
77900891 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * * *
77900918 TACCCCTGATTTACAAAGTTA-TAGAAA
1 TACCCTTGGTTTATAAAATTACCA-AAA
* * ***
77900945 TACCCTTGACTTTCTAAAAATTATGGAAA
1 TACCCTTG-GTTTAT-AAAATTACCAAAA
* * **
77900974 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
77901001 TACCCTTGGTTTGTAGATTTACAAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
77901028 CACCCTTG
1 TACCCTTG
77901036 TAGGATGAAA
Statistics
Matches: 262, Mismatches: 61, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
26 24 0.09
27 213 0.81
28 9 0.03
29 16 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:77901113 original size:26 final size:27
Alignment explanation
Indices: 77901065--77901151 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
77901055 TACCCCTAAT
*
77901065 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAGAGACCGTAAAGCCCCTGTA
77901092 AGGTAAAGAGA-CGTAAAGCCCCTGTA
1 AGGTAAAGAGACCGTAAAGCCCCTGTA
* * *
77901118 GGGTAAAGTGACCGTAATGCCCCTGTA
1 AGGTAAAGAGACCGTAAAGCCCCTGTA
*
77901145 TGGTAAA
1 AGGTAAA
77901152 ATGACGAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 24 0.44
27 30 0.56
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (27 bp):
AGGTAAAGAGACCGTAAAGCCCCTGTA
Found at i:77902054 original size:25 final size:26
Alignment explanation
Indices: 77901957--77902067 Score: 165
Period size: 26 Copynumber: 4.3 Consensus size: 26
77901947 GAGGAAGTGC
*
77901957 AAAAGAGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
77901983 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
77902009 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
77902035 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
77902058 AAAAGAGGCT
1 AAAAG-GGCT
77902068 AGCCCTCCAG
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
23 5 0.06
24 9 0.11
25 8 0.10
26 57 0.72
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:77902259 original size:42 final size:42
Alignment explanation
Indices: 77902200--77902291 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
77902190 TAGTCTCCCT
* ** *
77902200 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
77902242 AAATGGGCTTGCATACATCCATTGACATTACATGTGTTATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
77902284 AAATGGGC
1 AAATGGGC
77902292 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:77902350 original size:31 final size:31
Alignment explanation
Indices: 77902315--77902393 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
77902305 CGTTTACAAT
77902315 AAAGGCTTCGGCCCAGTGAAATAATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATAATTTATGA
* *
77902346 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATAATTTATGA
77902377 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
77902394 ATATGTTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATAATTTATGA
Found at i:77904855 original size:27 final size:27
Alignment explanation
Indices: 77904825--77905002 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
77904815 ATATCGAGTC
* *
77904825 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
77904852 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
77904879 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
77904907 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
77904934 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
77904961 CGCACACTTAGTGCAACATAGTTGAA-T
1 CGCACACTTAGTGCTACATA-ATCAACT
77904988 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77905003 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 104 0.79
28 27 0.21
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:77904964 original size:82 final size:81
Alignment explanation
Indices: 77904846--77905001 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
77904836 TGCTATATAA
*
77904846 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
77904911 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** **
77904928 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTTGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
77904992 CACTTAGTGC
65 CACTTAGTGC
77905002 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:77912424 original size:27 final size:27
Alignment explanation
Indices: 77912394--77912571 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
77912384 ATATCGAGTC
* * * *
77912394 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
77912421 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
77912448 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
77912476 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
77912503 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
77912530 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
77912557 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77912572 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:77912533 original size:82 final size:81
Alignment explanation
Indices: 77912415--77912570 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
77912405 TGCTATATAA
*
77912415 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
77912480 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
77912497 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
77912561 CACTTAGTGC
65 CACTTAGTGC
77912571 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:77914399 original size:100 final size:101
Alignment explanation
Indices: 77914202--77914402 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
77914192 ATTCGGCCAA
77914202 AGGTGTTCAAGAATGAACACACATTTTTTTTTTGTTTTCTTTCCTCAACTCACGGCAACAAGGGG
1 AGGTGTTCAAGAATGAACACACATTTTTTTTTTGTTTTCTTTCCTCAACTCACGGCAACAAGGGG
77914267 GGGGTATGGATGAGACCATTTTTTTTTTCATCACCC
66 GGGGTATGGATGAGACCATTTTTTTTTTCATCACCC
77914303 AGGTGTTCAAGAATGAACACACATTTTTTTTTTGTTTTCTTTCCTCAACTCACGGCAACAA-GGG
1 AGGTGTTCAAGAATGAACACACATTTTTTTTTTGTTTTCTTTCCTCAACTCACGGCAACAAGGGG
77914367 GGGGTATGGATGAGACCATTTTTTTTTTCATCACCC
66 GGGGTATGGATGAGACCATTTTTTTTTTCATCACCC
77914403 TTCCTTTTCA
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 39 0.39
101 61 0.61
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (101 bp):
AGGTGTTCAAGAATGAACACACATTTTTTTTTTGTTTTCTTTCCTCAACTCACGGCAACAAGGGG
GGGGTATGGATGAGACCATTTTTTTTTTCATCACCC
Found at i:77917354 original size:29 final size:29
Alignment explanation
Indices: 77917305--77917372 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
77917295 CAAGGAAGTT
* * *
77917305 AATTTCGACTGTGGCTACGAAATCTTAGC
1 AATTTCGACTATGGCTACGAAATCTCAAC
* * *
77917334 AATTTCGACTATGGTTGCGAACTCTCAAC
1 AATTTCGACTATGGCTACGAAATCTCAAC
*
77917363 AATTTTGACT
1 AATTTCGACT
77917373 GGCAACAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (29 bp):
AATTTCGACTATGGCTACGAAATCTCAAC
Found at i:77929425 original size:37 final size:37
Alignment explanation
Indices: 77929375--77929453 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
77929365 TTATTACGAA
* *
77929375 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
77929412 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
77929449 GTCTT
1 GTCTT
77929454 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:77929650 original size:47 final size:47
Alignment explanation
Indices: 77929572--77929951 Score: 589
Period size: 47 Copynumber: 8.1 Consensus size: 47
77929562 CCCTTCGGGA
* * * * * * * *
77929572 CTTATCACATTTATGCACTTTCGCATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
77929619 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77929666 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77929713 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77929760 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77929807 CTTATTACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77929854 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77929901 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77929948 CTTA
1 CTTA
77929952 CTATCATTTC
Statistics
Matches: 304, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 304 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77932557 original size:3 final size:3
Alignment explanation
Indices: 77932549--77932636 Score: 54
Period size: 3 Copynumber: 29.7 Consensus size: 3
77932539 ATATTGCATG
* * * * * * *
77932549 TAA TAA TAA TAA TAA TAA TTA TTA TTA TTA TAA T-A TAT TGCA T-G
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * *
77932593 TAA TAA TAA TAA TAA TAA TAA TTA TTA TAA TAG TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
77932637 TATTGCATGC
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
2 3 0.04
3 65 0.94
4 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:77932599 original size:44 final size:44
Alignment explanation
Indices: 77932536--77932620 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
77932526 TCATGGGTAG
*
77932536 AATATATTGCATGTAATAATAATAATAATAATTATTATTATTAT
1 AATATATTGCATGTAATAATAATAATAATAATAATTATTATTAT
77932580 AATATATTGCATGTAATAATAATAATAATAATAATTATTAT
1 AATATATTGCATGTAATAATAATAATAATAATAATTATTAT
77932621 AATAGTAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (44 bp):
AATATATTGCATGTAATAATAATAATAATAATAATTATTATTAT
Found at i:77946332 original size:39 final size:40
Alignment explanation
Indices: 77946287--77946458 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
77946277 GCTCCTCGTT
* * * *
77946287 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
*
77946327 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* * * *
77946366 CGAATGCCTTCGGGACTTAACCCGGATTTACTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
* * * * *
77946406 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAATAACTCGCA
77946446 CAAATGCCTTCGG
1 CAAATGCCTTCGG
77946459 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
Found at i:77946471 original size:80 final size:80
Alignment explanation
Indices: 77946287--77946511 Score: 199
Period size: 80 Copynumber: 2.8 Consensus size: 80
77946277 GCTCCTCGTT
* * * * * * * * *
77946287 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATACTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
** *
77946351 -ATTTAACAACTCGCA
66 AATTT-GTATCTCGCA
* * * *
77946366 CGAATGCCTTCGGGACTTAACCCGGATTTACT-A-TCTCGCACAAAGGCCTTCGGGGCTTAACCC
1 CAAATGCCTTCGGGACTTAACCCGGATATACTCACT-TAGCACAAA-GCCTTCGGGACTTAACCC
77946429 GGAATTTGTATCTCGCA
64 GGAATTTGTATCTCGCA
** * *
77946446 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATATACTCACTTAGCACAAAGCCTTCGGGACTTAACCCG
77946510 GA
65 GA
77946512 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 35 0.30
80 67 0.57
81 13 0.11
82 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATACTCACTTAGCACAAAGCCTTCGGGACTTAACCCGG
AATTTGTATCTCGCA
Found at i:77946520 original size:41 final size:41
Alignment explanation
Indices: 77946443--77946520 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
77946433 TTTGTATCTC
* * *
77946443 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
77946484 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
77946521 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:77959566 original size:48 final size:47
Alignment explanation
Indices: 77959505--77959727 Score: 166
Period size: 48 Copynumber: 4.7 Consensus size: 47
77959495 GGGTTGATGA
* * * *
77959505 GATCCCGTATAAGACCATATTTGGGATATGGCATCAGCATCGATATGT
1 GATCCCGTGTAAGACCATGTCTGGGACATGGCAT-AGCATCGATATGT
* * **
77959553 GATCCCGTGTAAGACCATGTCTGGGACATGGCATTGGCACCTTTATGT
1 GATCCCGTGTAAGACCATGTCTGGGACATGGCA-TAGCATCGATATGT
* * * * *
77959601 GATCCCATGTAAGACCGTGTCTGGGACATGGCATTGCATCGATTTGA
1 GATCCCGTGTAAGACCATGTCTGGGACATGGCATAGCATCGATATGT
* ** ** * * *
77959648 GAACGTTGTGTAAGACCATAG-CTGGGTTATTGGCTTCG-AT--ATGTGT
1 GATC-CCGTGTAAGACCAT-GTCTGGGACA-TGGCATAGCATCGATATGT
* *
77959694 GATCCCATGTAAGAACATGTCTGGGACATGGCAT
1 GATCCCGTGTAAGACCATGTCTGGGACATGGCAT
77959728 TGGAATCAAT
Statistics
Matches: 135, Mismatches: 35, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
44 6 0.04
45 16 0.12
46 7 0.05
47 11 0.08
48 87 0.64
49 8 0.06
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (47 bp):
GATCCCGTGTAAGACCATGTCTGGGACATGGCATAGCATCGATATGT
Found at i:77963679 original size:47 final size:47
Alignment explanation
Indices: 77963625--77964687 Score: 1991
Period size: 47 Copynumber: 22.6 Consensus size: 47
77963615 TATTTGAATA
* *
77963625 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGTTG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
77963672 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
77963721 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77963768 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77963815 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77963862 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77963909 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77963956 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964003 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964050 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964097 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964144 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964191 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964238 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964285 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964332 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964379 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964426 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964473 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964520 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
77964567 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
77964614 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
77964661 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGCGTATATATGTGATAAG
77964688 TCCCGAAGGG
Statistics
Matches: 1001, Mismatches: 13, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
47 956 0.96
49 45 0.04
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:77964862 original size:37 final size:37
Alignment explanation
Indices: 77964806--77964884 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
77964796 CCGAGCTCTA
* *
77964806 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
77964843 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
77964880 AAGAC
1 AAGAC
77964885 TTAGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:77970064 original size:27 final size:27
Alignment explanation
Indices: 77970033--77970157 Score: 187
Period size: 27 Copynumber: 4.6 Consensus size: 27
77970023 CCCCAAAATA
77970033 GGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
77970060 GGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
** *
77970087 GGTAAAATGATAGTAATGCCCATATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * *
77970114 GGTAAAAAGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
*
77970141 GATAAAATGACCGTAAT
1 GGTAAAATGACCGTAAT
77970158 ATCCCTGTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTATAG
Found at i:77970173 original size:54 final size:52
Alignment explanation
Indices: 77970030--77970174 Score: 139
Period size: 54 Copynumber: 2.7 Consensus size: 52
77970020 AAACCCCAAA
** *
77970030 ATAGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCT
1 ATAGGTAAAATGACCGTAAT-CCCCTATATAGTAAAAAGACCGTAATGCCCCT
** * *
77970083 ATAGGGTAAAATGATAGTAATGCCC-ATATAGGGTAAAAAGACCGTAATGCCCTT
1 ATA-GGTAAAATGACCGTAATCCCCTATATA--GTAAAAAGACCGTAATGCCCCT
* * *
77970137 GTAGGATAAAATGACCGTAATATCCCTGTATAGTAAAA
1 ATAGG-TAAAATGACCGTAAT-CCCCTATATAGTAAAA
77970175 TGACGATTAT
Statistics
Matches: 74, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
52 3 0.04
53 8 0.11
54 56 0.76
55 3 0.04
56 4 0.05
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (52 bp):
ATAGGTAAAATGACCGTAATCCCCTATATAGTAAAAAGACCGTAATGCCCCT
Found at i:77972078 original size:19 final size:19
Alignment explanation
Indices: 77972047--77972098 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
77972037 ATAAAGTATT
*
77972047 TAAAAAAT-TTTAAGTAAA
1 TAAAAAATAATTAAGTAAA
*
77972065 TAAAAAATAATTAATTAAA
1 TAAAAAATAATTAAGTAAA
77972084 -ATAAAAATAATTAAG
1 TA-AAAAATAATTAAG
77972099 AATTATCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
TAAAAAATAATTAAGTAAA
Found at i:77976818 original size:25 final size:25
Alignment explanation
Indices: 77976790--77976838 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
77976780 TGGAATACCC
77976790 TTGTGTT-GTTGGTACCAAGGGAAAT
1 TTGTGTTGGTT-GTACCAAGGGAAAT
*
77976815 TTGTGTTGGTTGTACCAAGTGAAA
1 TTGTGTTGGTTGTACCAAGGGAAA
77976839 GAGTTAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.24, C:0.08, G:0.31, T:0.37
Consensus pattern (25 bp):
TTGTGTTGGTTGTACCAAGGGAAAT
Found at i:77983692 original size:46 final size:46
Alignment explanation
Indices: 77983629--77983780 Score: 189
Period size: 46 Copynumber: 3.5 Consensus size: 46
77983619 TCCGAGATCG
*
77983629 TTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCT
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCT
* * *
77983675 TTGAGTTGAGTCCGAGTTCACTTA--AAT-C---CG----AGATCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCT
*
77983711 TTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCT
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCT
77983757 TTGAGTTGAGTCCGAGTTCACTTA
1 TTGAGTTGAGTCCGAGTTCACTTA
77983781 CGGCCGGGTT
Statistics
Matches: 87, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
36 27 0.31
38 2 0.02
39 1 0.01
40 2 0.02
42 2 0.02
43 1 0.01
44 2 0.02
46 50 0.57
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCT
Found at i:77983730 original size:82 final size:82
Alignment explanation
Indices: 77983617--77983780 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
77983607 TGTAACTAGG
77983617 AATCCGAGATCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCTTTGAGTT
1 AATCCGAGATCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCTTTGAGTT
77983682 GAGTCCGAGTTCACTTA
66 GAGTCCGAGTTCACTTA
77983699 AATCCGAGATCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCTTTGAGTT
1 AATCCGAGATCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCTTTGAGTT
77983764 GAGTCCGAGTTCACTTA
66 GAGTCCGAGTTCACTTA
77983781 CGGCCGGGTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (82 bp):
AATCCGAGATCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCTTTGAGTT
GAGTCCGAGTTCACTTA
Found at i:77986578 original size:15 final size:15
Alignment explanation
Indices: 77986558--77986613 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
77986548 GTATCTTGGG
77986558 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
77986573 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
77986588 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
77986603 TTTCTTTATTC
1 TTTCTTTATTC
77986614 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:77998798 original size:34 final size:34
Alignment explanation
Indices: 77998760--77998825 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
77998750 AGGTATTTAA
*
77998760 GGGATTTAGTTCATAACTAAAAATGAAAACATAG
1 GGGATTTAGTTCATAACTAAAAAGGAAAACATAG
77998794 GGGATTTAGTTCATAACTAAAAAGGAAAACAT
1 GGGATTTAGTTCATAACTAAAAAGGAAAACAT
77998826 CTCAGAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (34 bp):
GGGATTTAGTTCATAACTAAAAAGGAAAACATAG
Found at i:78001343 original size:64 final size:64
Alignment explanation
Indices: 78001273--78001402 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
78001263 TGTCAGCATT
78001273 TATTTTTAAGGTAAACTTTACCTATTTCATGGTTTTCCATGAATCAACTAGAATTTGTCATACA
1 TATTTTTAAGGTAAACTTTACCTATTTCATGGTTTTCCATGAATCAACTAGAATTTGTCATACA
*
78001337 TATTTTTACGGTAAACTTTACCTATTTCATGGTTTTCCATGAATCAACTAGAATTTGTCATACA
1 TATTTTTAAGGTAAACTTTACCTATTTCATGGTTTTCCATGAATCAACTAGAATTTGTCATACA
78001401 TA
1 TA
78001403 GCACCAAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (64 bp):
TATTTTTAAGGTAAACTTTACCTATTTCATGGTTTTCCATGAATCAACTAGAATTTGTCATACA
Found at i:78002110 original size:40 final size:40
Alignment explanation
Indices: 78002049--78002185 Score: 215
Period size: 40 Copynumber: 3.5 Consensus size: 40
78002039 CCTTCAGGAT
*
78002049 TTAG-CCGGATATAGCT-ACTCACTCAAATGCCTTCGAGAC
1 TTAGCCCGGATATAG-TAACTCACACAAATGCCTTCGAGAC
*
78002088 TTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGAGAC
1 TTAGCCCGGATATAGTAACTCACACAAATGCCTTCGAGAC
* *
78002128 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCACACAAATGCCTTCGAGAC
78002168 TTAGCCCGGATATAGTAA
1 TTAGCCCGGATATAGTAA
78002186 GATATGGTCA
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 5 0.05
40 86 0.95
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCACACAAATGCCTTCGAGAC
Found at i:78003967 original size:55 final size:55
Alignment explanation
Indices: 78003898--78004005 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
78003888 GCAATCGACT
*
78003898 AAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTTTAGACAATAACC
1 AAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACAATAACC
*
78003953 AAATTGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACAATAA
1 AAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACAATAA
78004006 GTATCACATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (55 bp):
AAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACAATAACC
Found at i:78004352 original size:50 final size:50
Alignment explanation
Indices: 78004297--78004540 Score: 231
Period size: 50 Copynumber: 4.9 Consensus size: 50
78004287 CATGCTGAAC
* * *
78004297 TACTAAGTGCCGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAG
1 TACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTTACATGTGTAG
* * * * * * * * **
78004347 TACTAAATGCAGGCTGCTATGCGTACCCGACAACTTCA-ATCATGTGTGTAG
1 TACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGTTACATGTGTAG
* * * * *
78004398 TACTAAGTGCACGCTACTACGTGTATCAGATGGTTAGGTTACATGTTTAG
1 TACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTTACATGTGTAG
* * * *
78004448 TACTAAGTGCAGCCTTCTATGTGTACCAGATTGTT-GGTCACATGTGTAG
1 TACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTTACATGTGTAG
* *
78004497 TACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTGGGTTACA
1 TACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTAGGTTACA
78004541 AGGGTGGTAA
Statistics
Matches: 148, Mismatches: 41, Indels: 9
0.75 0.21 0.05
Matches are distributed among these distances:
49 42 0.28
50 65 0.44
51 40 0.27
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (50 bp):
TACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTTACATGTGTAG
Found at i:78004492 original size:101 final size:99
Alignment explanation
Indices: 78004297--78004540 Score: 260
Period size: 101 Copynumber: 2.4 Consensus size: 99
78004287 CATGCTGAAC
* *
78004297 TACTAAGTGC-CGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAATGCAGGC
1 TACTAAGTGCAC-GCTACTACGTGTACCAGATAGTTAGGTTACATGTGTAGTACTAAATGCAGCC
*
78004361 TGCTATGCGTACCCGACAACTTCAATCATGTGTGTAG
65 TGCTATGCGTACCAGACAACTTCAATCA--TGTGTAG
* * * *
78004398 TACTAAGTGCACGCTACTACGTGTATCAGATGGTTAGGTTACATGTTTAGTACTAAGTGCAGCCT
1 TACTAAGTGCACGCTACTACGTGTACCAGATAGTTAGGTTACATGTGTAGTACTAAATGCAGCCT
* * ****
78004463 TCTATGTGTACCAGATTGTTGGTC-A-CATGTGTAG
66 GCTATGCGTACCAGACAACT--TCAATCATGTGTAG
* * * *
78004497 TACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTGGGTTACA
1 TACTAAGTGCACGCTACTACGTGTACCAGATAG-TTAGGTTACA
78004541 AGGGTGGTAA
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
99 35 0.29
100 9 0.08
101 72 0.60
102 2 0.02
103 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (99 bp):
TACTAAGTGCACGCTACTACGTGTACCAGATAGTTAGGTTACATGTGTAGTACTAAATGCAGCCT
GCTATGCGTACCAGACAACTTCAATCATGTGTAG
Found at i:78010846 original size:67 final size:67
Alignment explanation
Indices: 78010738--78010871 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
78010728 AAGTCTCAAC
78010738 GTGAATCTTGGACCCCTATCTGAAATGTTCGACAATGGTACCCCTTATAGCCTCACAATCTCAGA
1 GTGAATCTTGGACCCCTATCTGAAATGTTCGACAATGGTACCCCTTATAGCCTCACAATCTCAGA
78010803 TA
66 TA
*
78010805 GTGAATCTTGGATCCCTATCTGAAATGTTCGACAATGGTACCCCTTATAGCCTCACAATCTCAGA
1 GTGAATCTTGGACCCCTATCTGAAATGTTCGACAATGGTACCCCTTATAGCCTCACAATCTCAGA
78010870 TA
66 TA
78010872 TGTACAAGTC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (67 bp):
GTGAATCTTGGACCCCTATCTGAAATGTTCGACAATGGTACCCCTTATAGCCTCACAATCTCAGA
TA
Found at i:78018309 original size:38 final size:38
Alignment explanation
Indices: 78018253--78018327 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
78018243 TCAAGCAATG
*
78018253 TAGCATTAATCTTAGGTGAGCTTATCAATTCAAACATA
1 TAGCATTAATCTTAGGTGAGCTCATCAATTCAAACATA
*
78018291 TAGCATTAATCTTTGGTGAGCTCATCAATTCAAACAT
1 TAGCATTAATCTTAGGTGAGCTCATCAATTCAAACAT
78018328 TTCCATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (38 bp):
TAGCATTAATCTTAGGTGAGCTCATCAATTCAAACATA
Found at i:78030647 original size:41 final size:41
Alignment explanation
Indices: 78030602--78030705 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 41
78030592 GCTACTTAGG
* * *
78030602 GGTACCGAACTACAAACAGTGGCATGTATATGCAATTCAGA
1 GGTACCGAACTACAAACAGGGGCACGCATATGCAATTCAGA
* * * * *
78030643 GGTACCG-GCGTACAAATAGGGGCACGCATGTGCAATTTAGG
1 GGTACCGAAC-TACAAACAGGGGCACGCATATGCAATTCAGA
* *
78030684 GGTACAGAAGTACAAACAGGGG
1 GGTACCGAACTACAAACAGGGG
78030706 ATTATTCGGT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
40 1 0.02
41 48 0.98
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (41 bp):
GGTACCGAACTACAAACAGGGGCACGCATATGCAATTCAGA
Found at i:78032679 original size:47 final size:47
Alignment explanation
Indices: 78032616--78032720 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
78032606 CCCTTCGGGA
* * *
78032616 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTAGCCATTCGGC
78032663 CTTATCACATATATACACTTTCACATCCATCACATTAGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTAGCCATTCGGC
*
78032710 CTTACCACATA
1 CTTATCACATA
78032721 ATTAATACTA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTAGCCATTCGGC
Found at i:78037184 original size:14 final size:14
Alignment explanation
Indices: 78037165--78037196 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
78037155 GCTTAGGAGG
78037165 AGCTTACTGATCAT
1 AGCTTACTGATCAT
78037179 AGCTTACTGATCAT
1 AGCTTACTGATCAT
78037193 AGCT
1 AGCT
78037197 CGAAAGAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (14 bp):
AGCTTACTGATCAT
Found at i:78037360 original size:19 final size:20
Alignment explanation
Indices: 78037338--78037376 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
78037328 GTGTTACATA
78037338 GATGAATTACCG-TTATATG
1 GATGAATTACCGTTTATATG
*
78037357 GATGAATTACTGTTTATATG
1 GATGAATTACCGTTTATATG
78037377 ATTGTGAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (20 bp):
GATGAATTACCGTTTATATG
Found at i:78041253 original size:13 final size:13
Alignment explanation
Indices: 78041235--78041259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78041225 CGTGTGTGAC
78041235 ACACGGTCATGTT
1 ACACGGTCATGTT
78041248 ACACGGTCATGT
1 ACACGGTCATGT
78041260 GTCCCCTGGT
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:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:78043608 original size:37 final size:37
Alignment explanation
Indices: 78043535--78043613 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
78043525 TTATTACGAA
* * * * *
78043535 GTCTTACCCGGACATAATCTCCACTCGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
78043572 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
78043609 GTCTT
1 GTCTT
78043614 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:78043835 original size:46 final size:47
Alignment explanation
Indices: 78043732--78043875 Score: 200
Period size: 47 Copynumber: 3.1 Consensus size: 47
78043722 CCCTTCGGGA
* * * * * * *
78043732 CTTATCACATTTATCCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78043779 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78043825 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78043872 CTTA
1 CTTA
78043876 CTATCATTTC
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 40 0.47
47 45 0.53
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78047660 original size:48 final size:48
Alignment explanation
Indices: 78047585--78047859 Score: 169
Period size: 48 Copynumber: 5.7 Consensus size: 48
78047575 TGATATGTGT
* *
78047585 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGAC-CACATCATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACAT-ATGAGA
* * * * *** * *
78047633 GCCAGTGTAAGACAATGTCTGGGACATGACATAGGCGTTGATATGTGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACATATGAGA
* * *** * *
78047681 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAAATGTGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACATATGAG-A
* * ** *** *
78047730 -CTAGTGTAAGACCAAGTCTGGGACATGGCATCGGTGTTGATATGTGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACATATGAG-A
* * * *** * *
78047778 -CTAGTGTAAGACCAAGTCTGGGACATGGCATCGGCGTTGATATGTGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACATATGAGA
***
78047825 TTTAGTGTAAGACCATGTCTGGGACATGGCATCGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
78047860 ACATGACATC
Statistics
Matches: 199, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
48 197 0.99
49 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACATATGAGA
Found at i:78047853 original size:96 final size:96
Alignment explanation
Indices: 78047636--78047858 Score: 356
Period size: 96 Copynumber: 2.3 Consensus size: 96
78047626 CATGAGAGCC
* * * * *
78047636 AGTGTAAGACAATGTCTGGGACATGACATAGGCGTTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCACTAGTGTAAGACCAAGTCT
78047701 GGGACATGGCATCGGCGTTGAAATGTGCACT
66 GGGACATGGCATCGGCGTTGAAATGTGCACT
* *
78047732 AGTGTAAGACCAAGTCTGGGACATGGCATCGGTGTTGATATGTGCACTAGTGTAAGACCAAGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCACTAGTGTAAGACCAAGTCT
* **
78047797 GGGACATGGCATCGGCGTTGATATGTGCTTT
66 GGGACATGGCATCGGCGTTGAAATGTGCACT
78047828 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
78047859 AACATGACAT
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 116 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCACTAGTGTAAGACCAAGTCT
GGGACATGGCATCGGCGTTGAAATGTGCACT
Found at i:78051931 original size:18 final size:18
Alignment explanation
Indices: 78051910--78051947 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
78051900 ATTTATTATT
78051910 TATTAATAA-AACATAAAA
1 TATTAA-AATAACATAAAA
*
78051928 TATTAAAATATCATAAAA
1 TATTAAAATAACATAAAA
78051946 TA
1 TA
78051948 ATATTACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
TATTAAAATAACATAAAA
Found at i:78070938 original size:2 final size:2
Alignment explanation
Indices: 78070926--78070997 Score: 126
Period size: 2 Copynumber: 36.0 Consensus size: 2
78070916 TACATCAACT
*
78070926 AC AC TC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
78070968 AC AC AC AC AC AC AC AC AC AC AC CC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
78070998 CCACCATACA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.47, C:0.51, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:78074837 original size:12 final size:12
Alignment explanation
Indices: 78074820--78074844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78074810 GCCGACTACT
78074820 GTTACTGTTACC
1 GTTACTGTTACC
78074832 GTTACTGTTACC
1 GTTACTGTTACC
78074844 G
1 G
78074845 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:78074946 original size:6 final size:6
Alignment explanation
Indices: 78074932--78074962 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
78074922 CTGTGTACCG
*
78074932 TACTGT TACTAT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
78074963 CCGACTTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:78083620 original size:5 final size:5
Alignment explanation
Indices: 78083610--78083673 Score: 112
Period size: 5 Copynumber: 13.0 Consensus size: 5
78083600 AATAATTAAG
*
78083610 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TACAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
78083660 T-TAT TATAT TATAT
1 TATAT TATAT TATAT
78083674 ATAAAAGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
4 3 0.05
5 53 0.95
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:78086992 original size:6 final size:6
Alignment explanation
Indices: 78086973--78087003 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
78086963 GTGTGTCGAA
*
78086973 TACTGT TACCGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
78087004 TCAGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:78088114 original size:47 final size:46
Alignment explanation
Indices: 78088060--78088224 Score: 167
Period size: 47 Copynumber: 3.5 Consensus size: 46
78088050 GTGCCGATGC
*
78088060 CATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTATGGCCAATG
* * *
78088107 CATGTCCCAGACATGTCTTACACTAGCCCTCGTC-TAG-AT-GCCGATG
1 CATGTCCCAGACATGTCTTACACT-G-GCT-ATCATAGTATGGCCAATG
* * * *
78088153 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGAA-G
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTATGGCC-AATG
78088201 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
78088225 AGCGCACAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
45 2 0.02
46 29 0.29
47 46 0.46
48 19 0.19
49 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCATAGTATGGCCAATG
Found at i:78088212 original size:94 final size:94
Alignment explanation
Indices: 78088051--78088227 Score: 293
Period size: 94 Copynumber: 1.9 Consensus size: 94
78088041 CTCATCTCTG
* * *
78088051 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTAATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATATGGCGAATGCATGTCCCA
78088116 GACATGTCTTACACTAGCCCTCGTCTAGA
66 GACATGTCTTACACTAGCCCTCGTCTAGA
* *
78088145 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGAA-GCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATATGG-CGAATGCATGTCCC
78088209 AGACATGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
78088228 GCACAAATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 74 0.96
95 3 0.04
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATATGGCGAATGCATGTCCCA
GACATGTCTTACACTAGCCCTCGTCTAGA
Found at i:78105839 original size:27 final size:27
Alignment explanation
Indices: 78105808--78105895 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
78105798 CATCCACATG
78105808 ACAGACTTCACCACAAAGGTGCATTTA
1 ACAGACTTCACCACAAAGGTGCATTTA
* * * *
78105835 ACAGAATT-AGCCACAAGGGCTCACATATA
1 ACAGACTTCA-CCACAAAGG-T-GCATTTA
* * *
78105864 ACATACTTCACCACAAAGGCGCATTTG
1 ACAGACTTCACCACAAAGGTGCATTTA
78105891 ACAGA
1 ACAGA
78105896 ATTAGCCACA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
26 1 0.02
27 23 0.51
28 1 0.02
29 19 0.42
30 1 0.02
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (27 bp):
ACAGACTTCACCACAAAGGTGCATTTA
Found at i:78105872 original size:56 final size:56
Alignment explanation
Indices: 78105812--78105928 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 56
78105802 CACATGACAG
*
78105812 ACTTCACCACAAAGGTGCATTTAACAGAATTAGCCACAAGGGCTCACATATAACAT
1 ACTTCACCACAAAGGCGCATTTAACAGAATTAGCCACAAGGGCTCACATATAACAT
* *
78105868 ACTTCACCACAAAGGCGCATTTGACAGAATTAGCCACAAGGGCTCACATATATCAT
1 ACTTCACCACAAAGGCGCATTTAACAGAATTAGCCACAAGGGCTCACATATAACAT
78105924 ACTTC
1 ACTTC
78105929 CCTACTAAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (56 bp):
ACTTCACCACAAAGGCGCATTTAACAGAATTAGCCACAAGGGCTCACATATAACAT
Found at i:78105877 original size:29 final size:30
Alignment explanation
Indices: 78105843--78105928 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 30
78105833 TAACAGAATT
78105843 AGCCACAAGGGCTCACATATAACATACTTC
1 AGCCACAAGGGCTCACATATAACATACTTC
* * * * * *
78105873 A-CCACAAAGG--CGCATTTGACAGAATT-
1 AGCCACAAGGGCTCACATATAACATACTTC
*
78105899 AGCCACAAGGGCTCACATATATCATACTTC
1 AGCCACAAGGGCTCACATATAACATACTTC
78105929 CCTACTAAGA
Statistics
Matches: 39, Mismatches: 13, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
26 1 0.03
27 19 0.49
29 18 0.46
30 1 0.03
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (30 bp):
AGCCACAAGGGCTCACATATAACATACTTC
Found at i:78105906 original size:27 final size:27
Alignment explanation
Indices: 78105818--78105906 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
78105808 ACAGACTTCA
*
78105818 CCACAAAGGTGCATTTAACAGAATTAG
1 CCACAAAGGCGCATTTAACAGAATTAG
* * * * *
78105845 CCACAAGGGCTCACATATAACATACTTCA-
1 CCACAAAGG--CGCATTTAACAGAATT-AG
*
78105874 CCACAAAGGCGCATTTGACAGAATTAG
1 CCACAAAGGCGCATTTAACAGAATTAG
78105901 CCACAA
1 CCACAA
78105907 GGGCTCACAT
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
26 1 0.02
27 25 0.54
29 19 0.41
30 1 0.02
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (27 bp):
CCACAAAGGCGCATTTAACAGAATTAG
Found at i:78109439 original size:10 final size:10
Alignment explanation
Indices: 78109407--78109440 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
78109397 CGTTTTATCC
78109407 CTTTTTGGCT
1 CTTTTTGGCT
78109417 CATTTTTGGCT
1 C-TTTTTGGCT
*
78109428 CTTTTTGACT
1 CTTTTTGGCT
78109438 CTT
1 CTT
78109441 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.06, C:0.21, G:0.15, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:78112310 original size:33 final size:34
Alignment explanation
Indices: 78112243--78112311 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
78112233 TTTCTGTTAT
*
78112243 TGTTACTGTAATGGGCTAAGGCCCACACTGATAC
1 TGTTACTGTAATGGGCTAAGGCCCACACTAATAC
*
78112277 TGTTATTGTAATGGGCTAA-GCCCACACTAATAC
1 TGTTACTGTAATGGGCTAAGGCCCACACTAATAC
78112310 TG
1 TG
78112312 GACTGTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 15 0.45
34 18 0.55
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (34 bp):
TGTTACTGTAATGGGCTAAGGCCCACACTAATAC
Found at i:78113094 original size:32 final size:31
Alignment explanation
Indices: 78113058--78113142 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 31
78113048 TCTTAATAAT
78113058 ACCAA-ATCATCGAACATCATCAACAT-CATTAG
1 ACCAAGATCAT-GAACATC--CAACATACATTAG
* *
78113090 ACCAAGAACATGAACATCCAAGATAACATTAG
1 ACCAAGATCATGAACATCCAACAT-ACATTAG
78113122 ACCAAGATCATGAACATCCAA
1 ACCAAGATCATGAACATCCAA
78113143 GATAACTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 5 0.11
32 38 0.81
33 4 0.09
ACGTcount: A:0.47, C:0.26, G:0.09, T:0.18
Consensus pattern (31 bp):
ACCAAGATCATGAACATCCAACATACATTAG
Found at i:78113143 original size:32 final size:32
Alignment explanation
Indices: 78113084--78113148 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
78113074 TCATCAACAT
78113084 CATTAGACCAAGAACATGAACATCCAAGATAA
1 CATTAGACCAAGAACATGAACATCCAAGATAA
*
78113116 CATTAGACCAAGATCATGAACATCCAAGATAA
1 CATTAGACCAAGAACATGAACATCCAAGATAA
78113148 C
1 C
78113149 TTAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (32 bp):
CATTAGACCAAGAACATGAACATCCAAGATAA
Found at i:78113145 original size:16 final size:16
Alignment explanation
Indices: 78113091--78113145 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
78113081 CATCATTAGA
*
78113091 CCAAGAACATGAACAT
1 CCAAGATCATGAACAT
* *
78113107 CCAAGATAACAT-TAGA-
1 CCAAGAT--CATGAACAT
78113123 CCAAGATCATGAACAT
1 CCAAGATCATGAACAT
78113139 CCAAGAT
1 CCAAGAT
78113146 AACTTAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 3 0.10
15 2 0.07
16 20 0.67
17 2 0.07
18 3 0.10
ACGTcount: A:0.47, C:0.24, G:0.13, T:0.16
Consensus pattern (16 bp):
CCAAGATCATGAACAT
Found at i:78116913 original size:21 final size:21
Alignment explanation
Indices: 78116887--78116929 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
78116877 TTAATCATGT
78116887 TTTACTTAATTAAGT-TAATTA
1 TTTACTT-ATTAAGTATAATTA
*
78116908 TTTACTTATTAATTATAATTA
1 TTTACTTATTAAGTATAATTA
78116929 T
1 T
78116930 AAACTAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTACTTATTAAGTATAATTA
Found at i:78120247 original size:27 final size:27
Alignment explanation
Indices: 78120181--78120239 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
78120171 CTAATTTGTG
78120181 AAATTACCGAAATACCCTCGACCTGTA
1 AAATTACCGAAATACCCTCGACCTGTA
* *
78120208 CAATTACCGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGACCTGTA
78120235 AAATT
1 AAATT
78120240 GTCGAAATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.25
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGACCTGTA
Found at i:78120647 original size:19 final size:19
Alignment explanation
Indices: 78120619--78120657 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
78120609 AGAGTGAAAG
78120619 AAACGAGAAA-CAGGCCAA
1 AAACGAGAAAGCAGGCCAA
*
78120637 AAACGGAGAAAGTAGGCCAA
1 AAAC-GAGAAAGCAGGCCAA
78120657 A
1 A
78120658 GTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.54, C:0.18, G:0.26, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAGCAGGCCAA
Found at i:78137494 original size:43 final size:43
Alignment explanation
Indices: 78137406--78137510 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
78137396 GATGATTACA
* * * * *
78137406 TGTAAGACCATGTCTAGGACATTGGCATTGTATTGTGATTATG
1 TGTAAGACCATGTCTGGGAAATTGGCATCGTAATGCGATTATG
* *
78137449 TGTAAGACCATGTCTGGGAAATTGGCGTCGTCAAT-CGATTTTG
1 TGTAAGACCATGTCTGGGAAATTGGCATCGT-AATGCGATTATG
*
78137492 TGTAACACTC-TGTCTGGGA
1 TGTAAGAC-CATGTCTGGGA
78137511 CAATAGTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
43 49 0.94
44 3 0.06
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGAAATTGGCATCGTAATGCGATTATG
Found at i:78146844 original size:20 final size:20
Alignment explanation
Indices: 78146815--78146859 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
78146805 AGCACATGTA
* *
78146815 TTCATAAAATTTTATAATTT
1 TTCATAAAATTTTACAACTT
*
78146835 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
78146855 TTCAT
1 TTCAT
78146860 TTTAGCCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:78147932 original size:15 final size:16
Alignment explanation
Indices: 78147904--78147933 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78147894 ACATATCATT
78147904 TATTTCATTATACCAA
1 TATTTCATTATACCAA
78147920 TATTTCA-TATACCA
1 TATTTCATTATACCA
78147934 TAGTTCCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTTCATTATACCAA
Done.