Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 156 of 226
Found at i:50566241 original size:38 final size:37
Alignment explanation
Indices: 50566169--50566241 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
50566159 CTTTCATAAT
*
50566169 TTCACTTTTTCACTTTCTATCACAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCTATCACAATTCAATTCAAAA
50566206 TTCACTTTTCCA-TTTCTAAGTCA-ATATTCAATTCAA
1 TTCACTTTTCCACTTTCT-A-TCACA-ATTCAATTCAA
50566242 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 5 0.16
37 13 0.41
38 14 0.44
ACGTcount: A:0.32, C:0.23, G:0.01, T:0.44
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCTATCACAATTCAATTCAAAA
Found at i:50566244 original size:36 final size:36
Alignment explanation
Indices: 50566169--50566241 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
50566159 CTTTCATAAT
*
50566169 TTCACTTTTTCACTTTCTATCACAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCTATCACAATTCAATTC-AAA
50566206 TTCACTTTTCCA-TTTCTAAGTCA-ATATTCAATTCAA
1 TTCACTTTTCCACTTTCT-A-TCACA-ATTCAATTCAA
50566242 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 5 0.16
37 15 0.47
38 12 0.38
ACGTcount: A:0.32, C:0.23, G:0.01, T:0.44
Consensus pattern (36 bp):
TTCACTTTTCCACTTTCTATCACAATTCAATTCAAA
Found at i:50566447 original size:51 final size:50
Alignment explanation
Indices: 50566371--50566802 Score: 352
Period size: 51 Copynumber: 8.5 Consensus size: 50
50566361 CCGGCTCACA
* * *
50566371 TAGTAGCATGCACATAGTACTACACAGGTGACCATCA-CTATCCGATACACG
1 TAGTAGCCTTCACATAGTACTACACATGTGACCA--AGCTATCCGATACACG
* * * * *
50566422 TAGTAGCCTTCACATAGTACCACACACGTGATCGAAGCTATCCGATACGCA
1 TAGTAGCCTTCACATAGTACTACACATGTGA-CCAAGCTATCCGATACACG
* * * * *
50566473 TAGTAGCCTGCACATAGTACTACACATGCGACCTATC-ATTCTGATACACG
1 TAGTAGCCTTCACATAGTACTACACATGTGACCAAGCTA-TCCGATACACG
** * * * * * * *
50566523 TAGTAGCCCACACATAGTACTACACACGTGATCAAGTTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTACACATGTGACCAAGCTATCCGATACACG
* * * * * *
50566573 AAGTAGCCTTCACATAGTACTACACATGTGATCAAAGCTTTTCGGTACACA
1 TAGTAGCCTTCACATAGTACTACACATGTGA-CCAAGCTATCCGATACACG
* **
50566624 TAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTAT-CGATACACG
1 TAGTAGCCTTCACATAGTACTACACATGTGACCA--AGCTATCCGATACACG
* * * *
50566675 TAGTAGCCTTCACACAGTACTACACAAGTGACCAAAGCT-TCTCGGTACACA
1 TAGTAGCCTTCACATAGTACTACACATGTGACC-AAGCTATC-CGATACACG
** * ** *
50566726 TTTTAGCCTTCACTTAGTACTACACATGTGACCATTATTTAT-CGATACATG
1 TAGTAGCCTTCACATAGTACTACACATGTGACCA--AGCTATCCGATACACG
*
50566777 TAGTAGCCTTCACACAGTACTACACA
1 TAGTAGCCTTCACATAGTACTACACA
50566803 CGTGTTCATC
Statistics
Matches: 299, Mismatches: 69, Indels: 26
0.76 0.18 0.07
Matches are distributed among these distances:
49 2 0.01
50 80 0.27
51 208 0.70
52 8 0.03
53 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACTACACATGTGACCAAGCTATCCGATACACG
Found at i:50566646 original size:151 final size:153
Alignment explanation
Indices: 50566381--50566802 Score: 419
Period size: 151 Copynumber: 2.8 Consensus size: 153
50566371 TAGTAGCATG
* * * * * *
50566381 CACATAGTACTACACAGGTGACCATCA-CTATC-CGATACACGTAGTAGCCTTCACATAGTACCA
1 CACACAGTACTACACAAGTGACCA-AAGCT-TCTCGGTACACGAAGTAGCCTTCACATAGTACTA
* * *
50566444 CACACGTGATCGAAGCTATCCGATACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAT
64 CACATGTGATCAAAGCTATCCGATACACATAGTAGCCTGCACATAGTACTACACATGCGACC-AT
*
50566509 CA-TTCT-GATACACGTAGTAGCCCA
128 CATTTATCGATACACGTAGTAGCCCA
* * * * *
50566533 CACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGAAGTAGCCTTCACATAGTACTAC
1 CACACAGTACTACACAAGTGACCAAAGCTTCT-CGGTACACGAAGTAGCCTTCACATAGTACTAC
* * * * * * *
50566596 ACATGTGATCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA
65 ACATGTGATCAAAGCTATCCGATACACATAGTAGCCTGCACATAGTACTACACATGCGACCATCA
**
50566661 TTTATCGATACACGTAGTAGCCTT
130 TTTATCGATACACGTAGTAGCCCA
** *
50566685 CACACAGTACTACACAAGTGACCAAAGCTTCTCGGTACAC-ATTTTAGCCTTCACTTAGTACTAC
1 CACACAGTACTACACAAGTGACCAAAGCTTCTCGGTACACGA-AGTAGCCTTCACATAGTACTAC
* * ** ** * *
50566749 ACATGTGACCATTATTTAT-CGATACATGTAGTAGCCTTCACACAGTACTACACA
65 ACATGTGATCA-AAGCTATCCGATACACATAGTAGCCTGCACATAGTACTACACA
50566803 CGTGTTCATC
Statistics
Matches: 222, Mismatches: 39, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
149 1 0.00
150 5 0.02
151 83 0.37
152 58 0.26
153 69 0.31
154 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (153 bp):
CACACAGTACTACACAAGTGACCAAAGCTTCTCGGTACACGAAGTAGCCTTCACATAGTACTACA
CATGTGATCAAAGCTATCCGATACACATAGTAGCCTGCACATAGTACTACACATGCGACCATCAT
TTATCGATACACGTAGTAGCCCA
Found at i:50566711 original size:102 final size:102
Alignment explanation
Indices: 50566371--50566802 Score: 403
Period size: 102 Copynumber: 4.3 Consensus size: 102
50566361 CCGGCTCACA
* * * * * * *
50566371 TAGTAGCATGCACATAGTACTACACAGGTGACCATCA-CTATC-CGATACACGTAGTAGCCTTCA
1 TAGTAGCCTTCACACAGTACTACACAAGTGACCA-AAGCT-TCTCGGTACACATAGTAGCCTTCA
* * * * ** * *
50566434 CATAGTACCACACACGTGATCGA--AGCTATCCGATACGCA
64 CTTAGTACTACACATGTGA-CCATTATTTAT-CGATACACG
* * * * * * * * **
50566473 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCT-GATACACGTAGTAGCCCACAC
1 TAGTAGCCTTCACACAGTACTACACAAGTGACCAAAGC-TTCTCGGTACACATAGTAGCCTTCAC
* * * * * *
50566536 ATAGTACTACACACGTGATCAAGT-TTTA-CGGTTCACG
65 TTAGTACTACACATGTGA-CCATTATTTATCGATACACG
* * * * *
50566573 AAGTAGCCTTCACATAGTACTACACATGTGATCAAAGCTTTTCGGTACACATAGTAGCCTTCACT
1 TAGTAGCCTTCACACAGTACTACACAAGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACT
50566638 TAGTACTACACATGTGACCATTATTTATCGATACACG
66 TAGTACTACACATGTGACCATTATTTATCGATACACG
**
50566675 TAGTAGCCTTCACACAGTACTACACAAGTGACCAAAGCTTCTCGGTACACATTTTAGCCTTCACT
1 TAGTAGCCTTCACACAGTACTACACAAGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACT
*
50566740 TAGTACTACACATGTGACCATTATTTATCGATACATG
66 TAGTACTACACATGTGACCATTATTTATCGATACACG
50566777 TAGTAGCCTTCACACAGTACTACACA
1 TAGTAGCCTTCACACAGTACTACACA
50566803 CGTGTTCATC
Statistics
Matches: 282, Mismatches: 39, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
100 41 0.15
101 81 0.29
102 160 0.57
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (102 bp):
TAGTAGCCTTCACACAGTACTACACAAGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACT
TAGTACTACACATGTGACCATTATTTATCGATACACG
Found at i:50571271 original size:43 final size:43
Alignment explanation
Indices: 50571206--50571334 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 43
50571196 TACTTCACAT
* *
50571206 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGA
1 TGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCGA
*
50571249 TGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACA-AAAGTCGA
1 TGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATA-TCGA
* *
50571292 TGCCAACATCCCAGACGTGGTCTTACACGAAAACACATATCGA
1 TGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCGA
50571335 AAATCCTATG
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
42 5 0.07
43 64 0.86
44 5 0.07
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
TGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCGA
Found at i:50574785 original size:29 final size:29
Alignment explanation
Indices: 50574753--50574833 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
50574743 ATTAATATAC
50574753 TAATATTTTTATTATTTTTTAAA-AAGTAA
1 TAATATTTTTATTATTTTTTAAACAA-TAA
*
50574782 TAATATTAATATATTA-TTTTTAAACAATAA
1 TAATATT--TTTATTATTTTTTAAACAATAA
50574812 TAAT-TTTATT-TTATTGTTTTAA
1 TAATATTT-TTATTATT-TTTTAA
50574834 TATTTTATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
27 4 0.09
28 2 0.05
29 15 0.34
30 15 0.34
31 8 0.18
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (29 bp):
TAATATTTTTATTATTTTTTAAACAATAA
Found at i:50574825 original size:27 final size:27
Alignment explanation
Indices: 50574753--50574826 Score: 71
Period size: 30 Copynumber: 2.7 Consensus size: 27
50574743 ATTAATATAC
* *
50574753 TAATATTTTTATTAT-TTTTTAAAAAG
1 TAATAATTTTATTTTATTTTTAAAAAG
*
50574779 TAATAATATTAATATATTATTTTTAAACAA-
1 TAATAAT-TT--TATTTTATTTTTAAA-AAG
50574809 TAATAATTTTATTTTATT
1 TAATAATTTTATTTTATT
50574827 GTTTTAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
26 6 0.15
27 10 0.26
29 6 0.15
30 15 0.38
31 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
TAATAATTTTATTTTATTTTTAAAAAG
Found at i:50575474 original size:2 final size:2
Alignment explanation
Indices: 50575467--50575528 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
50575457 ATTGTGATAG
50575467 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50575509 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
50575529 CACAATTTTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50575771 original size:21 final size:20
Alignment explanation
Indices: 50575735--50575773 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50575725 AATTTGAAAA
*
50575735 TTAAATAAAAATAGATAATT
1 TTAAAAAAAAATAGATAATT
50575755 TTAAAAAAAAGATAGATAA
1 TTAAAAAAAA-ATAGATAA
50575774 GTGAGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
TTAAAAAAAAATAGATAATT
Found at i:50589226 original size:28 final size:28
Alignment explanation
Indices: 50589192--50589248 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
50589182 GAGCAAAAGT
50589192 ATGTAAAACTTAATACAAAAAGAAAGGA
1 ATGTAAAACTTAATACAAAAAGAAAGGA
*
50589220 ATGTAAAACTTAATACAAAAGGAAAGGA
1 ATGTAAAACTTAATACAAAAAGAAAGGA
50589248 A
1 A
50589249 CTTGAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.60, C:0.07, G:0.16, T:0.18
Consensus pattern (28 bp):
ATGTAAAACTTAATACAAAAAGAAAGGA
Found at i:50589620 original size:15 final size:14
Alignment explanation
Indices: 50589591--50589634 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
50589581 AAAATATCTA
* *
50589591 CTTTTCTTCAGTTT
1 CTTTTCTTAATTTT
50589605 CTTTTTCTTAATTTT
1 C-TTTTCTTAATTTT
*
50589620 CATTTCTTAATTTT
1 CTTTTCTTAATTTT
50589634 C
1 C
50589635 AGTTGATCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.14, C:0.18, G:0.02, T:0.66
Consensus pattern (14 bp):
CTTTTCTTAATTTT
Found at i:50589625 original size:14 final size:14
Alignment explanation
Indices: 50589608--50589635 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50589598 TCAGTTTCTT
50589608 TTTCTTAATTTTCA
1 TTTCTTAATTTTCA
50589622 TTTCTTAATTTTCA
1 TTTCTTAATTTTCA
50589636 GTTGATCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTCTTAATTTTCA
Found at i:50593718 original size:30 final size:30
Alignment explanation
Indices: 50593646--50593758 Score: 140
Period size: 30 Copynumber: 3.8 Consensus size: 30
50593636 TTTGGCCTGT
* * *
50593646 GCCCTATACAGTAGCA-A-TGTGTGGCCATA
1 GCCCAATACAGTAACAGAGTGTG-GGCCTTA
*
50593675 GCCCAATATAGTAACAGAGTGTGGGCCTTA
1 GCCCAATACAGTAACAGAGTGTGGGCCTTA
*
50593705 GCCTAATACAGTAACAGAGTGTGGGCCTTA
1 GCCCAATACAGTAACAGAGTGTGGGCCTTA
* *
50593735 TCCCAATACAGTAATAGAGTGTGG
1 GCCCAATACAGTAACAGAGTGTGG
50593759 TGCAAGTATA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.18
30 56 0.77
31 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (30 bp):
GCCCAATACAGTAACAGAGTGTGGGCCTTA
Found at i:50593993 original size:32 final size:32
Alignment explanation
Indices: 50593938--50594140 Score: 291
Period size: 32 Copynumber: 6.4 Consensus size: 32
50593928 GAATGACTAC
* * * *
50593938 AAGCCATAAGT-ACAGTAATATGATTGGTACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
50593969 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
*
50594001 CAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *
50594033 CAGCCATCAGTAACGGTAATATGATCGGTACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
50594065 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *
50594097 AAGCCATCAATAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
50594129 AAGCCATCAGTA
1 AAGCCATCAGTA
50594141 GCATCGCAGC
Statistics
Matches: 156, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
31 10 0.06
32 146 0.94
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:50594199 original size:27 final size:26
Alignment explanation
Indices: 50594168--50594228 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
50594158 CCAACAATAG
50594168 TAACAGTATATGTGGCCA-AGCCACCAA
1 TAACAGTAT-TGTGG-CAGAGCCACCAA
*
50594195 TAACAGTGATTGTGGCAGAGCCACCAG
1 TAACAGT-ATTGTGGCAGAGCCACCAA
50594222 T-ACAGTA
1 TAACAGTA
50594229 CTTCCTCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 21 0.68
28 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (26 bp):
TAACAGTATTGTGGCAGAGCCACCAA
Found at i:50594327 original size:24 final size:24
Alignment explanation
Indices: 50594291--50594368 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
50594281 TACATGCTCA
* *
50594291 AAATCAGTCATACAAATCACAGAC
1 AAATCAATTATACAAATCACAGAC
*
50594315 AAATCAATTATACTAATCACAGAC
1 AAATCAATTATACAAATCACAGAC
*
50594339 AAATCAACTATTA-AAATCACAGAC
1 AAATCAATTA-TACAAATCACAGAC
50594363 AAATCA
1 AAATCA
50594369 GTCATTTACA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 46 0.96
25 2 0.04
ACGTcount: A:0.53, C:0.22, G:0.05, T:0.21
Consensus pattern (24 bp):
AAATCAATTATACAAATCACAGAC
Found at i:50594381 original size:24 final size:24
Alignment explanation
Indices: 50594304--50594401 Score: 94
Period size: 24 Copynumber: 4.1 Consensus size: 24
50594294 TCAGTCATAC
* *
50594304 AAATCACAGACAAATCAATTATACT
1 AAATCACAGACAAATCAATCAT-TT
*
50594329 -AATCACAGACAAATCAA-CTATTA
1 AAATCACAGACAAATCAATC-ATTT
*
50594352 AAATCACAGACAAATCAGTCATTT
1 AAATCACAGACAAATCAATCATTT
* *
50594376 ACATCAC-GAAAAAATCAATCATTT
1 AAATCACAG-ACAAATCAATCATTT
50594400 AA
1 AA
50594402 CCTCGAGGAG
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 58 0.97
25 1 0.02
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.23
Consensus pattern (24 bp):
AAATCACAGACAAATCAATCATTT
Found at i:50594541 original size:27 final size:27
Alignment explanation
Indices: 50594473--50594616 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
50594463 AGGTACTATA
*
50594473 GTCATTTTA-CCTACAGGGGCATCACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * **
50594499 GTCATTTTACTTTACAGGGGTATTTTG
1 GTCATTTTACCCTACAGGGGCATTACG
*
50594526 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
50594553 GTCATTATACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
50594580 ATCATTTTACCCTACA-GGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
50594606 ATCATTTTACC
1 GTCATTTTACC
50594617 AATATTGGGG
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:50598080 original size:22 final size:22
Alignment explanation
Indices: 50598055--50598098 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
50598045 TATTCTGAAT
50598055 TATCGATATTCTATTTGACTAA
1 TATCGATATTCTATTTGACTAA
50598077 TATCGATATTCTATTTGACTAA
1 TATCGATATTCTATTTGACTAA
50598099 GTAAATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (22 bp):
TATCGATATTCTATTTGACTAA
Found at i:50600941 original size:18 final size:17
Alignment explanation
Indices: 50600915--50600962 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
50600905 AAATAAAAAA
50600915 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
50600933 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
50600951 AATGTTTTGAAA
1 AACGTTTTGAAA
50600963 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:50603172 original size:38 final size:39
Alignment explanation
Indices: 50603093--50603172 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
50603083 AGTCCCTTTA
* **
50603093 TATTTTTTTATATATTAATTAATTTTCATTTTTATTTTG
1 TATTTTTTCATATATTAATTAATTTTCATTTAAATTTTG
50603132 TATTTTTCTCATAT-TTAATT-ATTTT-ATTTAAATTTATG
1 TATTTTT-TCATATATTAATTAATTTTCATTTAAATTT-TG
50603170 TAT
1 TAT
50603173 GTATGTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 8 0.22
38 10 0.28
39 13 0.36
40 5 0.14
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (39 bp):
TATTTTTTCATATATTAATTAATTTTCATTTAAATTTTG
Found at i:50603268 original size:22 final size:22
Alignment explanation
Indices: 50603210--50603272 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 22
50603200 TGTATACGCA
* *
50603210 TATTTTTTTTAATGTAATGTAAT
1 TATTTTTTATAAT-TTATGTAAT
*
50603233 TATTTTTTAT--TTTATGTGAT
1 TATTTTTTATAATTTATGTAAT
50603253 TATTTTTTATAATTTATGTA
1 TATTTTTTATAATTTATGTA
50603273 TGTATACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 17 0.50
21 1 0.03
22 7 0.21
23 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (22 bp):
TATTTTTTATAATTTATGTAAT
Found at i:50603343 original size:6 final size:6
Alignment explanation
Indices: 50603332--50603356 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50603322 TTAATTATTT
50603332 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
50603357 ATATGGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:50603548 original size:20 final size:21
Alignment explanation
Indices: 50603525--50603567 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
50603515 TTATGTGCTG
* *
50603525 TTTATTTTTTTTATTT-TTTA
1 TTTATTTCTTTCATTTGTTTA
50603545 TTTATTTCTTTCATTTGTTTA
1 TTTATTTCTTTCATTTGTTTA
50603566 TT
1 TT
50603568 GACTTATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTATTTCTTTCATTTGTTTA
Found at i:50608921 original size:22 final size:22
Alignment explanation
Indices: 50608864--50608925 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 22
50608854 TGCATACGCA
*
50608864 TATTTTTT-TAATGTAATGTAAT
1 TATTTTTTATAAT-TTATGTAAT
*
50608886 TATTTTTTAT--TTTATGTGAT
1 TATTTTTTATAATTTATGTAAT
50608906 TATTTTTTATAATTTATGTA
1 TATTTTTTATAATTTATGTA
50608926 TGTATACTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 17 0.50
21 1 0.03
22 15 0.44
23 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (22 bp):
TATTTTTTATAATTTATGTAAT
Found at i:50609002 original size:12 final size:12
Alignment explanation
Indices: 50608987--50609029 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
50608977 TTAATTATTT
*
50608987 TTTATATTTATA
1 TTTATATATATA
50608999 TTTATATATATA
1 TTTATATATATA
**
50609011 TGGATATATATA
1 TTTATATATATA
*
50609023 TATATAT
1 TTTATAT
50609030 TTTTAAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (12 bp):
TTTATATATATA
Found at i:50609541 original size:8 final size:9
Alignment explanation
Indices: 50609528--50609660 Score: 56
Period size: 9 Copynumber: 13.7 Consensus size: 9
50609518 GGCATAAATA
50609528 TTTTTT-AT
1 TTTTTTAAT
50609536 TTTTTTAAT
1 TTTTTTAAT
**
50609545 TTTTAAAAT
1 TTTTTTAAT
**
50609554 ACTTTTAAAAT
1 --TTTTTTAAT
50609565 ATTTTTTTTAAT
1 -T-TTTT-TAAT
50609577 TTTTTTAA-
1 TTTTTTAAT
**
50609585 TTTTAAAAT
1 TTTTTTAAT
50609594 TTTTTTAAAAT
1 TTTTTT--AAT
50609605 ACTTTTTTAAT
1 --TTTTTTAAT
50609616 TTTTTTAA-
1 TTTTTTAAT
**
50609624 TTTTAAAAT
1 TTTTTTAAT
50609633 TTTTTTAAAAT
1 TTTTTT--AAT
50609644 ACTTTTTTAAT
1 --TTTTTTAAT
50609655 TTTTTT
1 TTTTTT
50609661 TTAATTTTAA
Statistics
Matches: 97, Mismatches: 13, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
8 18 0.19
9 34 0.35
10 5 0.05
11 25 0.26
12 3 0.03
13 12 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:50609594 original size:17 final size:17
Alignment explanation
Indices: 50609574--50609640 Score: 71
Period size: 17 Copynumber: 3.6 Consensus size: 17
50609564 TATTTTTTTT
50609574 AATTTTTTTAATTTTAA
1 AATTTTTTTAATTTTAA
**
50609591 AATTTTTTTAAAATACTTTTTT
1 AATTTTTTT---A-A-TTTTAA
50609613 AATTTTTTTAATTTTAA
1 AATTTTTTTAATTTTAA
50609630 AATTTTTTTAA
1 AATTTTTTTAA
50609641 AATACTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 24 0.59
18 1 0.02
19 1 0.02
20 1 0.02
21 1 0.02
22 13 0.32
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTTTTAATTTTAA
Found at i:50609660 original size:39 final size:39
Alignment explanation
Indices: 50609523--50609672 Score: 223
Period size: 39 Copynumber: 3.8 Consensus size: 39
50609513 GGCCAGGCAT
**
50609523 AAATA-TTTTTT-ATTTTTTTAATTTTTAAAATACTTTTA
1 AAATACTTTTTTAATTTTTTTAA-TTTTAAAATTTTTTTA
*
50609561 AAATATTTTTTTTAATTTTTTTAATTTTAAAATTTTTTTA
1 AAATA-CTTTTTTAATTTTTTTAATTTTAAAATTTTTTTA
50609601 AAATACTTTTTTAATTTTTTTAATTTTAAAATTTTTTTA
1 AAATACTTTTTTAATTTTTTTAATTTTAAAATTTTTTTA
50609640 AAATACTTTTTTAATTTTTTTTTAATTTTAAAA
1 AAATACTTTTTTAA--TTTTTTTAATTTTAAAA
50609673 ATAAATTTTT
Statistics
Matches: 104, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
38 5 0.05
39 47 0.45
40 25 0.24
41 27 0.26
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (39 bp):
AAATACTTTTTTAATTTTTTTAATTTTAAAATTTTTTTA
Found at i:50611097 original size:14 final size:15
Alignment explanation
Indices: 50611071--50611103 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50611061 TCCCAAGCTG
50611071 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
50611086 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
50611100 GGAA
1 GGAA
50611104 AACATTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:50612500 original size:44 final size:44
Alignment explanation
Indices: 50612450--50612857 Score: 163
Period size: 44 Copynumber: 9.3 Consensus size: 44
50612440 AGATAGCAGA
* * *
50612450 TCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAG
1 TCTTGCCTCCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAG
** ** * ** * * * *
50612494 TCTTGCCTCCCTG-GGTTACAGTGGCGCAGGTTC-AAAATAGCAG
1 TCTTGCCTCCCTGTACTGGCAGCGAAGCA-GATCGAAGACACCAG
* ** *
50612537 ATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACTAG
1 -TCTTGCCTCCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAG
* ** * * * * *
50612582 TTTTGCCTCCCTAGT--TTACAGTGGAGTAGA-CTGAAGATAGCAG
1 TCTTGCCTCCCT-GTACTGGCAGCGAAGCAGATC-GAAGACACCAG
* * *
50612625 ATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAG
1 -TCTTGCCTCCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAG
* * * *
50612670 TCTTGCCTCCCTAGGT--T-GCAGTGTAGCAGA-CTGAAGATAGCAG
1 TCTTGCCTCCCT--GTACTGGCAGCGAAGCAGATC-GAAGACACCAG
* ** * * *
50612713 ATCTTGCCTTCCTGTACCAGCAGCAAAGCAGATCAAATACACCAG
1 -TCTTGCCTCCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAG
* ** * * * * * **
50612758 CCTTGCCTCCCTG-GGTTGCAGC-AGAGCAGGTTGAAAATAGTAG
1 TCTTGCCTCCCTGTACTGGCAGCGA-AGCAGATCGAAGACACCAG
* * * *
50612801 ATCTTGGCTTCCTGTACTGACAGCGAAGCAGATCGAAGACGCCAG
1 -TCTTGCCTCCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAG
50612846 TCTTGCCTCCCT
1 TCTTGCCTCCCT
50612858 AGGTTGCAGT
Statistics
Matches: 252, Mismatches: 90, Indels: 44
0.65 0.23 0.11
Matches are distributed among these distances:
42 5 0.02
43 70 0.28
44 102 0.40
45 70 0.28
46 5 0.02
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (44 bp):
TCTTGCCTCCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAG
Found at i:50612591 original size:88 final size:88
Alignment explanation
Indices: 50612437--50613025 Score: 655
Period size: 88 Copynumber: 6.7 Consensus size: 88
50612427 AACAGATCAT
* * * *
50612437 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
* * **
50612502 CCCTGGGTTACAGTGGCGCAGGT
66 CCCTAGGTTACAGTGGAGCAGAC
* * * *
50612525 TCAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACTAGTTTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
* *
50612590 CCCTAGTTTACAGTGGAGTAGAC
66 CCCTAGGTTACAGTGGAGCAGAC
* *
50612613 TGAAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
* *
50612678 CCCTAGGTTGCAGTGTAGCAGAC
66 CCCTAGGTTACAGTGGAGCAGAC
* * * * * *
50612701 TGAAGATAGCAGATCTTGCCTTCCTGTAC-CAGCAGCAAAGCAGATCAAATACACCAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGA-CAGCGAAGCAGATCGAAGACACCAGTCTTGCC
* * ** **
50612765 TCCCTGGGTTGCAGCAGAGCAGGT
65 TCCCTAGGTTACAGTGGAGCAGAC
* * *
50612789 TGAAAATAGTAGATCTTGGCTTCCTGTACTGACAGCGAAGCAGATCGAAGACGCCAGTCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
* *
50612854 CCCTAGGTTGCAGTGGAGTAGAC
66 CCCTAGGTTACAGTGGAGCAGAC
* * * * * * * * * *
50612877 TGAAGATAGTAGATCTTGCCTTCTTGTACCGGCAGTGAAGCAGATCGAA-AAATCCGGCCTTGTC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA-CCAGTCTTGCC
* **
50612941 TCCCT-GAG-TAGCAGTGGAGTAGGT
65 TCCCTAG-GTTA-CAGTGGAGCAGAC
* * *
50612965 TGAAAATAGCAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACATCAGTCTT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTT
50613026 ATTGCCTTGA
Statistics
Matches: 422, Mismatches: 73, Indels: 12
0.83 0.14 0.02
Matches are distributed among these distances:
87 4 0.01
88 415 0.98
89 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
CCCTAGGTTACAGTGGAGCAGAC
Found at i:50612919 original size:264 final size:264
Alignment explanation
Indices: 50612437--50613017 Score: 806
Period size: 264 Copynumber: 2.2 Consensus size: 264
50612427 AACAGATCAT
* * *
50612437 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCAGCAGCAAAGCAGATCAAAGACACCAGCCTTGCCT
** * *
50612502 CCCTGGGTTACAGTGGCGCAGGTTCAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCA
66 CCCTGGGTTACAGCAGAGCAGGTTCAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA
* * *
50612567 GATCGAAGACACTAGTTTTGCCTCCCTAGTTTACAGTGGAGTAGACTGAAGATAGCAGATCTTGC
131 GATCGAAGACACCAGTCTTGCCTCCCTAGGTTACAGTGGAGTAGACTGAAGATAGCAGATCTTGC
* * * * *
50612632 CTTCTTGTACTGACAGCGAAGCAGATCGAAGACA-CCAGTCTTGCCTCCCT-AGGTTGCAGTGTA
196 CTTCTTGTACCGACAGCGAAGCAGATCGAA-AAATCCAGCCTTGCCTCCCTGA-GTAGCAGTGGA
50612695 GCAGAC
259 GCAGAC
*
50612701 TGAAGATAGCAGATCTTGCCTTCCTGTACCAGCAGCAAAGCAGATCAAATACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCAGCAGCAAAGCAGATCAAAGACACCAGCCTTGCCT
* * * *
50612766 CCCTGGGTTGCAGCAGAGCAGGTTGAAAATAGTAGATCTTGGCTTCCTGTACTGACAGCGAAGCA
66 CCCTGGGTTACAGCAGAGCAGGTTCAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA
* * *
50612831 GATCGAAGACGCCAGTCTTGCCTCCCTAGGTTGCAGTGGAGTAGACTGAAGATAGTAGATCTTGC
131 GATCGAAGACACCAGTCTTGCCTCCCTAGGTTACAGTGGAGTAGACTGAAGATAGCAGATCTTGC
* * * * *
50612896 CTTCTTGTACCGGCAGTGAAGCAGATCGAAAAATCCGGCCTTGTCTCCCTGAGTAGCAGTGGAGT
196 CTTCTTGTACCGACAGCGAAGCAGATCGAAAAATCCAGCCTTGCCTCCCTGAGTAGCAGTGGAGC
**
50612961 AGGT
261 AGAC
* ** ** *
50612965 TGAAAATAGCAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCAGCAGCAAAGCAGATCAAAGACA
50613018 TCAGTCTTAT
Statistics
Matches: 278, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
263 2 0.01
264 275 0.99
265 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (264 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACCAGCAGCAAAGCAGATCAAAGACACCAGCCTTGCCT
CCCTGGGTTACAGCAGAGCAGGTTCAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCA
GATCGAAGACACCAGTCTTGCCTCCCTAGGTTACAGTGGAGTAGACTGAAGATAGCAGATCTTGC
CTTCTTGTACCGACAGCGAAGCAGATCGAAAAATCCAGCCTTGCCTCCCTGAGTAGCAGTGGAGC
AGAC
Found at i:50613000 original size:45 final size:45
Alignment explanation
Indices: 50612863--50613001 Score: 111
Period size: 44 Copynumber: 3.1 Consensus size: 45
50612853 TCCCTAGGTT
* * * * *
50612863 GCAGTGGAGTAGACTGAAGATAGTAGATCTTGCCTTCTTGTACCG
1 GCAGTGGAGTAGATTGAAAATAGCAGATCTTGCCTTCCTGTACTG
* * * * * ** * * * *
50612908 GCAGTGAAGCAGATCGAAAA-ATCCGGCCTTGTCTCCCTG-AGTA
1 GCAGTGGAGTAGATTGAAAATAGCAGATCTTGCCTTCCTGTACTG
*
50612951 GCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTG
1 GCAGTGGAGTAGATTGAAAATAGCAGATCTTGCCTTCCTGTACTG
50612996 GCAGTG
1 GCAGTG
50613002 AAGCAGATCG
Statistics
Matches: 64, Mismatches: 28, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
43 17 0.27
44 24 0.38
45 23 0.36
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (45 bp):
GCAGTGGAGTAGATTGAAAATAGCAGATCTTGCCTTCCTGTACTG
Found at i:50613253 original size:44 final size:44
Alignment explanation
Indices: 50613205--50613308 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
50613195 CTCTTTGGCA
* *
50613205 TTGCAGTGGAGCAGATTAAAGCCAATAG-TCCTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATTAAA-ACAACAGATCCTATCTCCCTGAAG
* * * *
50613249 TTGCAGTGGAGCGGATTAAAACTACAGATCTTATCTCTCTGAAG
1 TTGCAGTGGAGCAGATTAAAACAACAGATCCTATCTCCCTGAAG
* *
50613293 TTGCAGTAGAGTAGAT
1 TTGCAGTGGAGCAGAT
50613309 CACATCGGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 4 0.08
44 46 0.92
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TTGCAGTGGAGCAGATTAAAACAACAGATCCTATCTCCCTGAAG
Found at i:50613915 original size:19 final size:20
Alignment explanation
Indices: 50613873--50613924 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
50613863 TTCAAGGAAG
50613873 TGCAATCTTAGATATGATATA
1 TGCAATCTTAGATATGA-ATA
50613894 TGCAATCTTAGATATG-ATA
1 TGCAATCTTAGATATGAATA
50613913 TGCAATCTTAGA
1 TGCAATCTTAGA
50613925 AGATATGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 15 0.48
21 16 0.52
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (20 bp):
TGCAATCTTAGATATGAATA
Found at i:50613946 original size:23 final size:22
Alignment explanation
Indices: 50613873--50613947 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 22
50613863 TTCAAGGAAG
*
50613873 TGCAATCTTAG-ATATGAT-ATA
1 TGCAATCTTAGAAGAT-ATGATA
50613894 TGCAATCTT---AGATATGATA
1 TGCAATCTTAGAAGATATGATA
*
50613913 TGCAATCTTAGAAGATATGATTT
1 TGCAATCTTAGAAGATATGA-TA
*
50613936 TGTAATCTTAGA
1 TGCAATCTTAGA
50613948 GATTTAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.04
19 15 0.33
21 9 0.20
22 8 0.17
23 12 0.26
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
TGCAATCTTAGAAGATATGATA
Found at i:50614242 original size:21 final size:20
Alignment explanation
Indices: 50614218--50614303 Score: 84
Period size: 21 Copynumber: 4.2 Consensus size: 20
50614208 TAGTCTTTTT
*
50614218 TTAATTTATTATTTATTTTTA
1 TTAATTTATTA-TTATTATTA
* *
50614239 TTAAATTTGATT-TTCTTGTTA
1 TT-AATTT-ATTATTATTATTA
*
50614260 TTAAGTTATTATTATTATTA
1 TTAATTTATTATTATTATTA
*
50614280 TTATTGTTATTATTATTATTA
1 TTAAT-TTATTATTATTATTA
50614301 TTA
1 TTA
50614304 TTACTATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 3 0.06
20 14 0.26
21 29 0.54
22 5 0.09
23 3 0.06
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (20 bp):
TTAATTTATTATTATTATTA
Found at i:50614273 original size:3 final size:3
Alignment explanation
Indices: 50614265--50614306 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
50614255 TGTTATTAAG
*
50614265 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50614307 CTATATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50614399 original size:2 final size:2
Alignment explanation
Indices: 50614388--50614422 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
50614378 AAACACATGC
50614388 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50614423 TATTATTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:50614478 original size:17 final size:17
Alignment explanation
Indices: 50614456--50614490 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
50614446 TATATTCATA
*
50614456 TATATACATTTACATTT
1 TATATACATATACATTT
50614473 TATATACATATACATTT
1 TATATACATATACATTT
50614490 T
1 T
50614491 TTATTTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATACATATACATTT
Found at i:50614689 original size:30 final size:30
Alignment explanation
Indices: 50614628--50614717 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
50614618 ATTAATTTCA
* * *
50614628 ATATATGTAATTATTATTTTTTGTTTTTAT
1 ATATATGTAATTATTATTTTTTATATCTAT
*
50614658 ATATATGTAATTA-TCTTTTTTATAATCTAT
1 ATATATGTAATTATTATTTTTTAT-ATCTAT
*
50614688 ATATAAATGTAGATAATTATTTTTTTATAT
1 ATAT--ATGTA-ATTATTA-TTTTTTATAT
50614718 ATGTACATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
29 8 0.17
30 21 0.44
32 5 0.10
33 3 0.06
34 3 0.06
35 8 0.17
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (30 bp):
ATATATGTAATTATTATTTTTTATATCTAT
Found at i:50617477 original size:20 final size:20
Alignment explanation
Indices: 50617452--50617517 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
50617442 TTAAGATATA
50617452 AATAAACAAACATAAATAAT
1 AATAAACAAACATAAATAAT
*
50617472 AATAAACAAATTATAAATAAAT
1 AATAAACAAA-CATAAAT-AAT
*
50617494 AA-AAGA-AACACATAAACAAT
1 AATAA-ACAA-ACATAAATAAT
50617514 AATA
1 AATA
50617518 GTATTAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 15 0.39
21 16 0.42
22 7 0.18
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.20
Consensus pattern (20 bp):
AATAAACAAACATAAATAAT
Found at i:50618098 original size:25 final size:23
Alignment explanation
Indices: 50618047--50618097 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 23
50618037 CCTATCGGTT
50618047 AAAACTAGTTATTTTTCCTTTTAA
1 AAAACTAGTTATTTTT-CTTTTAA
50618071 AAAATCTAGTTATTTTT-TTTTAA
1 AAAA-CTAGTTATTTTTCTTTTAA
50618094 AAAA
1 AAAA
50618098 AGTAATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 10 0.38
24 4 0.15
25 12 0.46
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (23 bp):
AAAACTAGTTATTTTTCTTTTAA
Found at i:50618252 original size:20 final size:20
Alignment explanation
Indices: 50618227--50618286 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
50618217 ATTATGCATT
50618227 TTAATATTTATATTTATATA
1 TTAATATTTATATTTATATA
** * ** *
50618247 TTAATATAAAAACATATATT
1 TTAATATTTATATTTATATA
*
50618267 TTAATATTTTTATTTATATA
1 TTAATATTTATATTTATATA
50618287 CATTAATATA
Statistics
Matches: 27, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATATTTATATTTATATA
Found at i:50618380 original size:31 final size:30
Alignment explanation
Indices: 50618307--50618386 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
50618297 TAAATATTTT
*
50618307 TATTATTTTATTATTTTAAAAAAGTAATAA
1 TATTATTTTATTATTTTAAAAAAATAATAA
* * *
50618337 TATTAATATATTATTTGTAAAAAAATAATTA
1 TATTATTTTATTATTT-TAAAAAAATAATAA
*
50618368 TTTTATTTTATTATTTTAA
1 TATTATTTTATTATTTTAA
50618387 TATTTCATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 17 0.40
31 25 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (30 bp):
TATTATTTTATTATTTTAAAAAAATAATAA
Found at i:50619670 original size:9 final size:10
Alignment explanation
Indices: 50619655--50619689 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
50619645 CCCCAAATTA
*
50619655 TTTTTTTTTC
1 TTTTTTCTTC
50619665 TTTTTTCTT-
1 TTTTTTCTTC
50619674 TTTTTTCTTC
1 TTTTTTCTTC
50619684 TTTTTT
1 TTTTTT
50619690 TTTATTATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:50619675 original size:12 final size:11
Alignment explanation
Indices: 50619655--50619692 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
50619645 CCCCAAATTA
*
50619655 TTTTTT-TTTC
1 TTTTTTCTTTT
50619665 TTTTTTCTTTT
1 TTTTTTCTTTT
50619676 TTTTCTTCTTTT
1 TTTT-TTCTTTT
50619688 TTTTT
1 TTTTT
50619693 ATTATGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 6 0.24
11 8 0.32
12 11 0.44
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:50619677 original size:16 final size:16
Alignment explanation
Indices: 50619655--50619692 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
50619645 CCCCAAATTA
50619655 TTTTTTTTTCTT-TTT
1 TTTTTTTTTCTTCTTT
50619670 TCTTTTTTTTCTTCTTT
1 T-TTTTTTTTCTTCTTT
50619687 TTTTTT
1 TTTTTT
50619693 ATTATGCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.76
17 4 0.19
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTTTTTCTTCTTT
Found at i:50622696 original size:52 final size:50
Alignment explanation
Indices: 50622619--50622754 Score: 184
Period size: 52 Copynumber: 2.6 Consensus size: 50
50622609 TTGCATGTTC
50622619 GATTGAAAAATTTGTTCAATCCTTAAGCTAAATAGTTTTATGGGTTGCGTTGT
1 GATTGAAAAA-TTGTT--ATCCTTAAGCTAAATAGTTTTATGGGTTGCGTTGT
*
50622672 GATTGAAGAATATTTGTT-TCCTTAAGCGAAATAGTTTTATGGGTTGCGTTGT
1 GATTGAA-AA-A-TTGTTATCCTTAAGCTAAATAGTTTTATGGGTTGCGTTGT
50622724 GATTGAAAAATTGTTCAATCCTTAAGCTAAA
1 GATTGAAAAATTGTT--ATCCTTAAGCTAAA
50622755 ACTCTTTGTA
Statistics
Matches: 76, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
49 5 0.07
50 1 0.01
51 2 0.03
52 52 0.68
53 7 0.09
54 2 0.03
55 7 0.09
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (50 bp):
GATTGAAAAATTGTTATCCTTAAGCTAAATAGTTTTATGGGTTGCGTTGT
Found at i:50624451 original size:18 final size:18
Alignment explanation
Indices: 50624428--50624462 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50624418 ATTGGTTAAA
*
50624428 ATAAAAATATTTAAATTC
1 ATAAAAATAATTAAATTC
*
50624446 ATAAAACTAATTAAATT
1 ATAAAAATAATTAAATT
50624463 ATATATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAAAATAATTAAATTC
Found at i:50624826 original size:33 final size:33
Alignment explanation
Indices: 50624789--50624854 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
50624779 AAATAGAATT
50624789 TTAATTTTAGCTCAATTATACATATACCAACAA
1 TTAATTTTAGCTCAATTATACATATACCAACAA
*
50624822 TTAATTTTAGCTCAATTATACATATACCTACAA
1 TTAATTTTAGCTCAATTATACATATACCAACAA
50624855 ATTTTAATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAATTTTAGCTCAATTATACATATACCAACAA
Found at i:50626729 original size:49 final size:49
Alignment explanation
Indices: 50626672--50626775 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
50626662 TCATGTGTTA
* * * *
50626672 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTTAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
50626721 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
50626770 TAATTT
1 TAATTT
50626776 GTTTTTTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:50628104 original size:15 final size:16
Alignment explanation
Indices: 50628076--50628105 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50628066 TAAATTCATA
50628076 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
50628092 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
50628106 AATTATATAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:50628181 original size:120 final size:120
Alignment explanation
Indices: 50628050--50628635 Score: 1102
Period size: 120 Copynumber: 4.9 Consensus size: 120
50628040 ATTCTCAAGT
50628050 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATA
50628115 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
50628170 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATA
50628235 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
* *
50628290 TTTATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATCATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATA
*
50628355 TTTTTATTAAATTATATTTAATAATAATCATTTTAAATTATATTTTATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
*
50628410 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATCATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATA
*
50628475 TTTTTATTAAATTATATTTAATAATTATTATTTT-AATTATATTTTATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
50628529 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATA
* *
50628594 TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATA
66 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATA
50628636 ATTAAATTAT
Statistics
Matches: 455, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
119 116 0.25
120 339 0.75
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATA
TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
Found at i:50628224 original size:15 final size:16
Alignment explanation
Indices: 50628196--50628225 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50628186 TAAATTCATA
50628196 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
50628212 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
50628226 AATTATATAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:50628270 original size:26 final size:25
Alignment explanation
Indices: 50628232--50628292 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
50628222 ATTAAATTAT
*
50628232 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
50628258 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
*
50628284 GTATTATTT
1 ATATTATTT
50628293 ATTATGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.23
26 19 0.61
27 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:50628344 original size:15 final size:16
Alignment explanation
Indices: 50628316--50628345 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50628306 TAAATTCATA
50628316 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
50628332 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
50628346 AATCATATAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:50628372 original size:16 final size:17
Alignment explanation
Indices: 50628338--50628373 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
50628328 TTATTAAGAA
50628338 TTTTATTAAATCATATAT
1 TTTTATTAAAT-ATATAT
50628356 TTTTATTAAAT-TATAT
1 TTTTATTAAATATATAT
50628372 TT
1 TT
50628374 AATAATAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
18 11 0.61
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:50628464 original size:15 final size:16
Alignment explanation
Indices: 50628436--50628465 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50628426 TAAATTCATA
50628436 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
50628452 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
50628466 AATCATATAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:50628492 original size:16 final size:17
Alignment explanation
Indices: 50628458--50628493 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
50628448 TTATTAAGAA
50628458 TTTTATTAAATCATATAT
1 TTTTATTAAAT-ATATAT
50628476 TTTTATTAAAT-TATAT
1 TTTTATTAAATATATAT
50628492 TT
1 TT
50628494 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
18 11 0.61
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:50628583 original size:15 final size:16
Alignment explanation
Indices: 50628555--50628584 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50628545 TAAATTCATA
50628555 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
50628571 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
50628585 AATTATATAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:50628863 original size:16 final size:16
Alignment explanation
Indices: 50628838--50628893 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
50628828 AAGATTACAT
*
50628838 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
50628854 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
50628870 ATTACACTTCTATTCT
1 ATTACACCTCTATTCC
50628886 ATTACACC
1 ATTACACC
50628894 GAACCAAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:50630996 original size:162 final size:162
Alignment explanation
Indices: 50630755--50631101 Score: 613
Period size: 162 Copynumber: 2.1 Consensus size: 162
50630745 TTGGGAACAG
* **
50630755 CTCTTTATCCTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACATGTTGGGAAGAGAAATTT
1 CTCTCTATCCTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACAAATTGGGAAGAGAAATTT
*
50630820 CAACTTATTGCATTCTGTGACTTGTACTTCTCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAACTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
*
50630885 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAA
* * *
50630917 CTCTCTATCTTCAAAGTTTGCAATTTCCCAAGACTATTAGCAACACAAATTGGGAAGAGAAATTT
1 CTCTCTATCCTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACAAATTGGGAAGAGAAATTT
*
50630982 CAATTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAACTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
50631047 AGTCTTGGATTATTTCTTCCATTCCAAAGCAA
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAA
50631079 CTCTCTATCCTCAGAGTTTGCAA
1 CTCTCTATCCTCAGAGTTTGCAA
50631102 ATTGGGCGCA
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
162 174 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (162 bp):
CTCTCTATCCTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACAAATTGGGAAGAGAAATTT
CAACTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
AGTCTTGGATTATTTCTTCCATTCCAAAGCAA
Found at i:50645740 original size:22 final size:22
Alignment explanation
Indices: 50645715--50645757 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50645705 TATTCTCTTT
50645715 AAAT-TAACATTAATATAAAATA
1 AAATGTAA-ATTAATATAAAATA
*
50645737 AAATGTAAATTAATTTAAAAT
1 AAATGTAAATTAATATAAAAT
50645758 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATGTAAATTAATATAAAATA
Found at i:50647516 original size:15 final size:15
Alignment explanation
Indices: 50647491--50647528 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
50647481 CATACATTAC
50647491 CAAAAAA-AAAATCA
1 CAAAAAATAAAATCA
*
50647505 CAAAAAATAAAATCT
1 CAAAAAATAAAATCA
*
50647520 CCAAAAATA
1 CAAAAAATA
50647529 TGGTGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (15 bp):
CAAAAAATAAAATCA
Found at i:50647589 original size:2 final size:2
Alignment explanation
Indices: 50647582--50647612 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
50647572 AGTGGTTGCA
50647582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50647613 AGAAACTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50648312 original size:162 final size:162
Alignment explanation
Indices: 50648074--50648420 Score: 640
Period size: 162 Copynumber: 2.1 Consensus size: 162
50648064 TTGGGAACAA
*
50648074 CTCTCTATCGTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
50648139 CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
*
50648204 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AATCTTGGATTATTTCTTCCATTCCAAAGCAC
50648236 CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* *
50648301 CAACTTATTGCATTTTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
*
50648366 AATCTTGGATTATTTCTTCCATTCTAAAGCAC
131 AATCTTGGATTATTTCTTCCATTCCAAAGCAC
*
50648398 CTCTCTATCCTCAGAGTTTGCAA
1 CTCTCTATCATCAGAGTTTGCAA
50648421 ATTGGGCGCG
Statistics
Matches: 179, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 179 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (162 bp):
CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
AATCTTGGATTATTTCTTCCATTCCAAAGCAC
Found at i:50652695 original size:16 final size:15
Alignment explanation
Indices: 50652658--50652701 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
50652648 AAAACTAGGG
* *
50652658 TTTTTAAAACATTTA
1 TTTTTAAAATATTCA
50652673 TTTTTAAAATATTCA
1 TTTTTAAAATATTCA
50652688 TTTCTTAAAATATT
1 TTT-TTAAAATATT
50652702 ATATCACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTTAAAATATTCA
Found at i:50655004 original size:26 final size:22
Alignment explanation
Indices: 50654940--50654994 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
50654930 AATTCATTTT
*
50654940 CTTATGTACGTTAAACATGAGAG
1 CTTA-GTACGTGAAACATGAGAG
50654963 CTTAGTACGTGAAACATGAGAG
1 CTTAGTACGTGAAACATGAGAG
50654985 CTTAGTACGT
1 CTTAGTACGT
50654995 ACTATCAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (22 bp):
CTTAGTACGTGAAACATGAGAG
Found at i:50655985 original size:162 final size:162
Alignment explanation
Indices: 50655796--50656168 Score: 595
Period size: 162 Copynumber: 2.3 Consensus size: 162
50655786 TATATTGCGA
* * * * * *
50655796 GCAACTCTTTTATCTTCAAATTATGCAATTACCCAAGGCTATTAGCAATAGACATTGGGAAGAGA
1 GCAACTC-TTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGA
* *
50655861 TACTTCAAATTATCACAGTTTT-TAACTTCTATTTCCCTTAAACTTTGGAGGCTTATGCATGGCA
65 TACTTCAAATTATCACA-TTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGCATGGCA
50655925 CTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
129 CTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
50655959 GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGAT
1 GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGAT
* * * *
50656024 ACTTTAAATTATCGCATTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGTATGGCAGT
66 ACTTCAAATTATCACATTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGCATGGCACT
50656089 TGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
131 TGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
* *
50656121 ACAACTTTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAAC
1 GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAAC
50656169 TAGGAAGATA
Statistics
Matches: 195, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
161 4 0.02
162 184 0.94
163 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (162 bp):
GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGAT
ACTTCAAATTATCACATTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGCATGGCACT
TGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
Found at i:50663921 original size:7 final size:7
Alignment explanation
Indices: 50663902--50663941 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
50663892 CTGTCATATA
50663902 TATAGATT
1 TATAGA-T
50663910 TATAGAT
1 TATAGAT
50663917 TATAGAT
1 TATAGAT
50663924 TATAGAT
1 TATAGAT
*
50663931 GATAGAT
1 TATAGAT
50663938 TATA
1 TATA
50663942 TATATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (7 bp):
TATAGAT
Found at i:50670137 original size:6 final size:6
Alignment explanation
Indices: 50670126--50670153 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
50670116 ATTATAGACA
50670126 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
50670154 TGCTTTCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:50670930 original size:25 final size:25
Alignment explanation
Indices: 50670902--50670964 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 25
50670892 TTAAATTTGT
*
50670902 ATAATAATATTGATATTAAATAAAA
1 ATAATAATATTAATATTAAATAAAA
50670927 ATAACT-ATATTAATATTAAATAAAA
1 ATAA-TAATATTAATATTAAATAAAA
50670952 ATACATAAATATT
1 ATA-AT-AATATT
50670965 TCAACTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 26 0.79
26 2 0.06
27 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (25 bp):
ATAATAATATTAATATTAAATAAAA
Found at i:50672549 original size:22 final size:22
Alignment explanation
Indices: 50672524--50672566 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50672514 TATTCTCTTT
50672524 AAAT-TAACATTAATATAAAATA
1 AAATGTAA-ATTAATATAAAATA
*
50672546 AAATGTAAATTAATTTAAAAT
1 AAATGTAAATTAATATAAAAT
50672567 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATGTAAATTAATATAAAATA
Found at i:50673412 original size:23 final size:23
Alignment explanation
Indices: 50673385--50673431 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
50673375 AAGCTTATTG
50673385 TTGAGTTTTGAAGAGTAGTGTAC
1 TTGAGTTTTGAAGAGTAGTGTAC
50673408 TTGAGTTTTGAAGAGTAGTGTAC
1 TTGAGTTTTGAAGAGTAGTGTAC
50673431 T
1 T
50673432 GCATTTTCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.40
Consensus pattern (23 bp):
TTGAGTTTTGAAGAGTAGTGTAC
Found at i:50688009 original size:25 final size:27
Alignment explanation
Indices: 50687962--50688011 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
50687952 TAAAATGAAA
*
50687962 TAATATATATAAACAATATACATATTT
1 TAATATATATAAACAATAAACATATTT
50687989 TAATATATATAAA-AA-AAACATAT
1 TAATATATATAAACAATAAACATAT
50688012 ATATACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
27 13 0.59
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (27 bp):
TAATATATATAAACAATAAACATATTT
Found at i:50688083 original size:26 final size:26
Alignment explanation
Indices: 50688054--50688106 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
50688044 ATTAAATAGG
50688054 TTAGAAAAGAAAAATAAATAAATACA
1 TTAGAAAAGAAAAATAAATAAATACA
50688080 TTAGAAAAGAAAAATAAATAAATACA
1 TTAGAAAAGAAAAATAAATAAATACA
50688106 T
1 T
50688107 ATATATATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.68, C:0.04, G:0.08, T:0.21
Consensus pattern (26 bp):
TTAGAAAAGAAAAATAAATAAATACA
Found at i:50688220 original size:3 final size:3
Alignment explanation
Indices: 50688205--50688279 Score: 64
Period size: 3 Copynumber: 24.3 Consensus size: 3
50688195 ATAAGAAAAC
* * * *
50688205 ATA ATA CTA ATA ATA ATG TTA ATGA AT- ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
50688250 A-A GATA ATA ATA ATA ATA ACTGA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA A-T-A ATA ATA A
50688280 AATTGCTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
2 3 0.05
3 47 0.81
4 6 0.10
5 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:50689854 original size:26 final size:25
Alignment explanation
Indices: 50689825--50689884 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
50689815 CAATATAACA
50689825 AAAATATGTGT-ATATATGTAAATTAT
1 AAAATATGTGTAATATATGT--ATTAT
*
50689851 AAAATATATGTACATATATGTATTAT
1 AAAATATGTGTA-ATATATGTATTAT
50689877 AAAA-ATGT
1 AAAATATGT
50689885 ATAGATGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 3 0.10
26 19 0.63
28 8 0.27
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (25 bp):
AAAATATGTGTAATATATGTATTAT
Found at i:50689938 original size:44 final size:45
Alignment explanation
Indices: 50689889--50689975 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 45
50689879 AAATGTATAG
*
50689889 ATGTATGCATA-TA-TTTTAAGACTATAAAATATATGGAAGAATAT
1 ATGTATGCATACTAGTTTTAAG-CTACAAAATATATGGAAGAATAT
* * *
50689933 ATGTATGTATACGTAGTTTTAAGTTACAAAATATATGTAAGAA
1 ATGTATGCATAC-TAGTTTTAAGCTACAAAATATATGGAAGAA
50689976 AAATGTAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 10 0.28
46 19 0.53
47 7 0.19
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (45 bp):
ATGTATGCATACTAGTTTTAAGCTACAAAATATATGGAAGAATAT
Found at i:50690078 original size:23 final size:25
Alignment explanation
Indices: 50690052--50690098 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
50690042 TAAGAAGATT
* *
50690052 TATGATGAAA-TTAA-ATATTAATA
1 TATGAAGAAACTTAATATAATAATA
50690075 TATGAAGAAACTTAATATAATAAT
1 TATGAAGAAACTTAATATAATAAT
50690099 GCATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (25 bp):
TATGAAGAAACTTAATATAATAATA
Found at i:50694319 original size:20 final size:20
Alignment explanation
Indices: 50694263--50694322 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
50694253 TTTTCCAGAA
50694263 AAATTGTTTTTACATATATT
1 AAATTGTTTTTACATATATT
* * *
50694283 -AATATATTTATATATATATT
1 AAAT-TGTTTTTACATATATT
50694303 AAATTGTTTTTACATATATT
1 AAATTGTTTTTACATATATT
50694323 GTAATGATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
AAATTGTTTTTACATATATT
Found at i:50694346 original size:40 final size:40
Alignment explanation
Indices: 50694263--50694346 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
50694253 TTTTCCAGAA
* *
50694263 AAATTGTTTTTACATATATTAATATATTTATATATATATT
1 AAATTGTTTTTACATATATTAATAGATTTATATATATAAT
*
50694303 AAATTGTTTTTACATATATTGTAAT-GATTTATTTATA-AAT
1 AAATTGTTTTTACATATA-T-TAATAGATTTATATATATAAT
50694343 AAAT
1 AAAT
50694347 AAATCTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
40 24 0.62
41 11 0.28
42 4 0.10
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (40 bp):
AAATTGTTTTTACATATATTAATAGATTTATATATATAAT
Found at i:50699674 original size:25 final size:25
Alignment explanation
Indices: 50699625--50699674 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
50699615 AAGAGAAGAT
*
50699625 GAAGAACGGAAGAAGGAAAATGAAC
1 GAAGAACGGAAGAACGAAAATGAAC
50699650 GAAGAACGGAAGAACGAGAAA-GAAC
1 GAAGAACGGAAGAACGA-AAATGAAC
50699675 CTTACCTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.56, C:0.10, G:0.32, T:0.02
Consensus pattern (25 bp):
GAAGAACGGAAGAACGAAAATGAAC
Found at i:50701588 original size:18 final size:18
Alignment explanation
Indices: 50701553--50701588 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50701543 AAAGAAAATT
*
50701553 ATCTTTGATTAGACACTC
1 ATCTTTGATTACACACTC
*
50701571 ATCTTTGATTACATACTC
1 ATCTTTGATTACACACTC
50701589 TGTGTGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (18 bp):
ATCTTTGATTACACACTC
Found at i:50704224 original size:20 final size:21
Alignment explanation
Indices: 50704199--50704237 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
50704189 TTAAGATATA
*
50704199 AATAAACATA-TATAAATAGC
1 AATAAACAGATTATAAATAGC
50704219 AATAAACAGATTATAAATA
1 AATAAACAGATTATAAATA
50704238 AATAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (21 bp):
AATAAACAGATTATAAATAGC
Found at i:50704760 original size:21 final size:22
Alignment explanation
Indices: 50704727--50704768 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
50704717 ATCTGAGAAT
*
50704727 ATTTTAATTTTTATAATTAATAA
1 ATTTTAA-TTTTACAATTAATAA
50704750 ATTTTAA-TTTACAATTAAT
1 ATTTTAATTTTACAATTAAT
50704769 TTTTACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
23 7 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTAATTTTACAATTAATAA
Found at i:50705111 original size:38 final size:41
Alignment explanation
Indices: 50705041--50705128 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 41
50705031 AAATAAAAAC
* * *
50705041 ATATATTTTAATTTTTTTATTTATATACATTAAT-ATA-TA
1 ATATATTTTAATTTTATTATTTATAAAAATTAATAATATTA
*
50705080 A-ATATTTT-ATTTTATTATTTTTAAAAAATTAATAATATTA
1 ATATATTTTAATTTTATTATTTAT-AAAAATTAATAATATTA
50705120 ATATATTTT
1 ATATATTTT
50705129 TAAAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 12 0.29
38 15 0.37
39 4 0.10
40 3 0.07
41 7 0.17
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (41 bp):
ATATATTTTAATTTTATTATTTATAAAAATTAATAATATTA
Found at i:50705186 original size:35 final size:33
Alignment explanation
Indices: 50705122--50705189 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 33
50705112 TAATATTAAT
* **
50705122 ATATTTTTAAAAAAAAATTTTATTTTATTTTTA
1 ATATTTTTAAAAAAAAATGTTATAATATTTTTA
*
50705155 ATATTTTATAAAAATTAAATGTTATAATATTTTTA
1 ATATTTT-TAAAAA-AAAATGTTATAATATTTTTA
50705190 TTTTGTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 7 0.24
34 6 0.21
35 16 0.55
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (33 bp):
ATATTTTTAAAAAAAAATGTTATAATATTTTTA
Found at i:50710227 original size:24 final size:24
Alignment explanation
Indices: 50710200--50710273 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
50710190 AAGAAACAAT
*
50710200 TTTTTATATTTACGTTCTGTAATG
1 TTTTTATATTTACATTCTGTAATG
* * *
50710224 TTTTTCATATTAACATTAT-TGATG
1 TTTTT-ATATTTACATTCTGTAATG
* * *
50710248 TTTCTAAATTTACCTTCTGTAATG
1 TTTTTATATTTACATTCTGTAATG
50710272 TT
1 TT
50710274 AGAGATAGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
23 9 0.24
24 19 0.50
25 10 0.26
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.55
Consensus pattern (24 bp):
TTTTTATATTTACATTCTGTAATG
Found at i:50710227 original size:25 final size:25
Alignment explanation
Indices: 50710199--50710273 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 25
50710189 AAAGAAACAA
*
50710199 TTTTTTATATTTACGTTCTGTAATG
1 TTTTTTATATTTACATTCTGTAATG
* * * *
50710224 TTTTTCATATTAACATTAT-TGATG
1 TTTTTTATATTTACATTCTGTAATG
* * *
50710248 -TTTCTAAATTTACCTTCTGTAATG
1 TTTTTTATATTTACATTCTGTAATG
50710272 TT
1 TT
50710274 AGAGATAGTT
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
23 12 0.33
24 8 0.22
25 16 0.44
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (25 bp):
TTTTTTATATTTACATTCTGTAATG
Found at i:50713285 original size:162 final size:162
Alignment explanation
Indices: 50713035--50713381 Score: 622
Period size: 162 Copynumber: 2.1 Consensus size: 162
50713025 TTGGAAACAA
* *
50713035 CTCTCTATCCTCAAAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
50713100 CAACTGATTGCATTCTCTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAACTGATTGCATTCTCTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
50713165 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
*
50713197 CTCTCTATCTTCAGAGTTTGCAATTTCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* * * *
50713262 CAACTTATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGGTAGTTGTG
66 CAACTGATTGCATTCTCTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
*
50713327 AGTCTTGGATTATTTCTTCCATTCCAAGGCAC
131 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
50713359 CTCTCTATCTTCAGAGTTTGCAA
1 CTCTCTATCTTCAGAGTTTGCAA
50713382 ATTGGGCACA
Statistics
Matches: 177, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 177 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (162 bp):
CTCTCTATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
CAACTGATTGCATTCTCTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
Found at i:50718702 original size:37 final size:37
Alignment explanation
Indices: 50718637--50718710 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
50718627 TCAACTTTAT
50718637 TTTTTTATTAAAATTATCTCAACATTTTT-ATAAATTA
1 TTTTTTATTAAAATTATCTCAACATTTTTCA-AAATTA
** *
50718674 TTTTTTATTACAAATTAT-TCGGCGTTTTTCAAAATTA
1 TTTTTTATTA-AAATTATCTCAACATTTTTCAAAATTA
50718711 GCAATGACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.75
38 8 0.25
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (37 bp):
TTTTTTATTAAAATTATCTCAACATTTTTCAAAATTA
Found at i:50725524 original size:25 final size:24
Alignment explanation
Indices: 50725479--50725528 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
50725469 TCCACTAACT
**
50725479 TGTTTTATGTTTTTTTATTATATTA
1 TGTTTTATGTTTTAATATTAT-TTA
50725504 TGTTTTATGTTATTAAT-TTATTTA
1 TGTTTTATGTT-TTAATATTATTTA
50725528 T
1 T
50725529 TTTAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 4 0.18
25 15 0.68
26 3 0.14
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (24 bp):
TGTTTTATGTTTTAATATTATTTA
Found at i:50726742 original size:17 final size:18
Alignment explanation
Indices: 50726709--50726745 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
50726699 TCAAATTTAT
*
50726709 CAAGTTTTATTTCAAAAA
1 CAAGTTTTATCTCAAAAA
50726727 CAAGTTTTA-CTCAAAAA
1 CAAGTTTTATCTCAAAAA
50726744 CA
1 CA
50726746 TTATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (18 bp):
CAAGTTTTATCTCAAAAA
Found at i:50730584 original size:22 final size:23
Alignment explanation
Indices: 50730541--50730591 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
50730531 CCCATCGGTT
50730541 AAAACTAGTTATTTTTCCTTTTAA
1 AAAACTAGTTATTTTT-CTTTTAA
*
50730565 AAAATCTAGTTATTTTT-TTTAAA
1 AAAA-CTAGTTATTTTTCTTTTAA
50730588 AAAA
1 AAAA
50730592 GTAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 9 0.36
24 4 0.16
25 12 0.48
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (23 bp):
AAAACTAGTTATTTTTCTTTTAA
Found at i:50730618 original size:9 final size:9
Alignment explanation
Indices: 50730595--50730632 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
50730585 AAAAAAAGTA
50730595 ATATTTTAT
1 ATATTTTAT
50730604 -TATTTTAT
1 ATATTTTAT
50730612 ATATTTTAT
1 ATATTTTAT
50730621 ATATTTTAT
1 ATATTTTAT
50730630 ATA
1 ATA
50730633 AAATTATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATATTTTAT
Found at i:50730848 original size:105 final size:109
Alignment explanation
Indices: 50730738--50730937 Score: 252
Period size: 110 Copynumber: 1.9 Consensus size: 109
50730728 TTTAATATTT
*
50730738 ATATTAATATATTAATTTAATATAAA-AA-CA-TATATTTTAATTTTTT-TA-TTTATATAAATT
1 ATATTAATATATTAATTTAA-A-AAATAATCATTATATTTTAATTTTTTATATTTTATAAAAATT
50730798 -AAT-ATATAAATATTTTTATTGTTTTATTTTTAAAAAAAATTAATA
64 AAATGATAT-AATATTTTTATTGTTTTATTTTTAAAAAAAATTAATA
* * * *
50730843 ATATTAATATATTATTTTAAAAAATAATTATTTTATTTTATTTTTTTAATATTTTATAAAAATTA
1 ATATTAATATATTAATTTAAAAAATAATCATTATATTTTAATTTTTT-ATATTTTATAAAAATTA
* *
50730908 AATGTTATAATATTTTTATTTTTTTATTTT
65 AATGATATAATATTTTTATTGTTTTATTTT
50730938 ATTATATTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
103 3 0.04
104 3 0.04
105 20 0.25
106 14 0.17
108 2 0.03
109 11 0.14
110 24 0.30
111 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (109 bp):
ATATTAATATATTAATTTAAAAAATAATCATTATATTTTAATTTTTTATATTTTATAAAAATTAA
ATGATATAATATTTTTATTGTTTTATTTTTAAAAAAAATTAATA
Found at i:50745786 original size:43 final size:43
Alignment explanation
Indices: 50745733--50745943 Score: 239
Period size: 43 Copynumber: 4.9 Consensus size: 43
50745723 ATTTTTAGAA
* * *
50745733 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
* *
50745776 AAAAACGCCGCTAAAGACC-AGCACCTTTAGCGATGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAG-ACCTTTAGCGACGCTTTTCCC
* *
50745819 ATAAACGCCGCTAAAGACCAAGACCTTTAGC-AGCGATTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGA-CGCTTTTCCC
** * * * * *
50745862 ACAAGTGCCGCTAAAGACCCAGACCTATAGCAACGTTTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
*
50745905 ACAAACGCCGCTATAG-CTCAAGACCTTTAGCGACGCTTT
1 ACAAACGCCGCTAAAGAC-CAAGACCTTTAGCGACGCTTT
50745944 GATTACAAAC
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
42 3 0.02
43 135 0.96
44 3 0.02
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC
Found at i:50746225 original size:15 final size:15
Alignment explanation
Indices: 50746205--50746235 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50746195 AGGGATATGG
50746205 ATCATCTTCATCTTC
1 ATCATCTTCATCTTC
*
50746220 ATCATCTTCTTCTTC
1 ATCATCTTCATCTTC
50746235 A
1 A
50746236 CTTTCAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (15 bp):
ATCATCTTCATCTTC
Found at i:50755266 original size:40 final size:41
Alignment explanation
Indices: 50755221--50755313 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
50755211 TGTTTGGAAG
*
50755221 AAAAACG-CGACTA-TTACTCTTTTTTTGTGGCGTTTTTAAC
1 AAAAACGCCG-CTATTTACTCTTTTTTTGCGGCGTTTTTAAC
* * **
50755261 AAAAACGCCGCTATTTCCTTTTTTTTTGCGGCGTTTTT-TT
1 AAAAACGCCGCTATTTACTCTTTTTTTGCGGCGTTTTTAAC
50755301 AAAAACGCCGCTA
1 AAAAACGCCGCTA
50755314 ACGCTCTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 23 0.50
41 23 0.50
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (41 bp):
AAAAACGCCGCTATTTACTCTTTTTTTGCGGCGTTTTTAAC
Found at i:50755326 original size:41 final size:41
Alignment explanation
Indices: 50755240--50755327 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 41
50755230 ACTATTACTC
* *** *
50755240 TTTTTTTGTGGCGTTTTTAACAAAAACGCCGCTATTTCCTT
1 TTTTTTTGCGGCGTTTTTAACAAAAACGCCGCTAACGCCTA
**
50755281 TTTTTTTGCGGCGTTTTT-TTAAAAACGCCGCTAACGCTCTA
1 TTTTTTTGCGGCGTTTTTAACAAAAACGCCGCTAACGC-CTA
50755322 TTTTTT
1 TTTTTT
50755328 ACAATTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 14 0.36
41 25 0.64
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (41 bp):
TTTTTTTGCGGCGTTTTTAACAAAAACGCCGCTAACGCCTA
Found at i:50755777 original size:14 final size:14
Alignment explanation
Indices: 50755751--50755801 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
50755741 TCATAAAACA
50755751 TAACCCCTAAACCCC
1 TAACCCCT-AACCCC
*
50755766 TAACCCCTAACCTC
1 TAACCCCTAACCCC
*
50755780 TAACTCCTAACCCC
1 TAACCCCTAACCCC
50755794 TAACCCCT
1 TAACCCCT
50755802 CTTTTACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 24 0.75
15 8 0.25
ACGTcount: A:0.29, C:0.51, G:0.00, T:0.20
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:50756310 original size:14 final size:14
Alignment explanation
Indices: 50756265--50756301 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
50756255 ATCCTAAATT
50756265 AACCATATACCTTA
1 AACCATATACCTTA
*
50756279 AACCATATACCCTA
1 AACCATATACCTTA
50756293 AACCATATA
1 AACCATATA
50756302 TATTAAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCTTA
Found at i:50756679 original size:41 final size:41
Alignment explanation
Indices: 50756559--50756750 Score: 223
Period size: 41 Copynumber: 4.7 Consensus size: 41
50756549 AAATATTTTT
* * *
50756559 GCGGCGC-TTTTCTAAAAACGCCACTAAA-AGCCTAAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGA-TCTGAGCATTA
* * *
50756600 GCGGCGC-TTTTCAAAAACGCCACTAAA-AGCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGA-TCTGAGCATTA
*
50756640 GCGGCG-TTTTTGAAAAAGCGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAA-CGCCGCTAAAGATCTGAGCATTA
*
50756681 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
50756722 GCGACGCTTTTTAAAAAACGCCGCTAAAG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG
50756751 CCCCGAAAGG
Statistics
Matches: 137, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
40 41 0.30
41 85 0.62
42 11 0.08
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:50756847 original size:39 final size:40
Alignment explanation
Indices: 50756804--50756913 Score: 179
Period size: 40 Copynumber: 2.8 Consensus size: 40
50756794 AGCGGCGTTT
*
50756804 GCCGCTAATGCTC-ATTTTTAGCGGCGCTTTTCTG-AAAGC
1 GCCGCTAATGCTCGATTTTTAGCGGCG-TTTTATGTAAAGC
*
50756843 GCCGCTAATGCTCGATCTTTAGCGGCGTTTTATGTAAAGC
1 GCCGCTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAGC
50756883 GCCGCTAATGCTCGATTTTTAGCGGCGTTTT
1 GCCGCTAATGCTCGATTTTTAGCGGCGTTTT
50756914 TTGTCCAAAC
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 19 0.29
40 47 0.71
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.35
Consensus pattern (40 bp):
GCCGCTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAGC
Found at i:50759936 original size:26 final size:26
Alignment explanation
Indices: 50759906--50759967 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
50759896 GTGGGCTAGA
*
50759906 AGACTTCATTAATTGAAGGAAGAGGG
1 AGACTCCATTAATTGAAGGAAGAGGG
50759932 AGACTCCATTAATTGAAGGAAGAGGG
1 AGACTCCATTAATTGAAGGAAGAGGG
50759958 AGACTCCATT
1 AGACTCCATT
50759968 TGAGATTGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (26 bp):
AGACTCCATTAATTGAAGGAAGAGGG
Found at i:50761684 original size:23 final size:24
Alignment explanation
Indices: 50761639--50761689 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
50761629 CCCATCGGTT
50761639 AAAAGCTAGTTATTTTTCCTTTTAA
1 AAAAGCTAGTTATTTTT-CTTTTAA
*
50761664 AAAATCTAGTTATTTTT-TTTTAA
1 AAAAGCTAGTTATTTTTCTTTTAA
50761687 AAA
1 AAA
50761690 GTAATGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.36
25 16 0.64
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (24 bp):
AAAAGCTAGTTATTTTTCTTTTAA
Found at i:50763135 original size:47 final size:47
Alignment explanation
Indices: 50763066--50763156 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
50763056 GTATGGAAAC
*
50763066 TGAACTACATAAACAAACTTTAATGTTTCCTATTTTGTTTTTGCTTA
1 TGAACTACAAAAACAAACTTTAATGTTTCCTATTTTGTTTTTGCTTA
50763113 TGAACTACAAAAACAAACTTTAATGTTTCCTATTTTGTTTTTGC
1 TGAACTACAAAAACAAACTTTAATGTTTCCTATTTTGTTTTTGC
50763157 AGAAGTACAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (47 bp):
TGAACTACAAAAACAAACTTTAATGTTTCCTATTTTGTTTTTGCTTA
Found at i:50764554 original size:34 final size:35
Alignment explanation
Indices: 50764510--50764576 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
50764500 CAGTAAAATA
* *
50764510 TTTTCCGTAAAATGATTT-CAGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACAGGAAAATATTTTAC
* *
50764544 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACAGGAAAATATTTT
50764577 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACAGGAAAATATTTTAC
Found at i:50777309 original size:13 final size:14
Alignment explanation
Indices: 50777291--50777324 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
50777281 ATGAGATCAA
*
50777291 AAATATATATA-AC
1 AAATATATAAACAC
50777304 AAATATATAAACAC
1 AAATATATAAACAC
50777318 AAATATA
1 AAATATA
50777325 AATAGATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATATAAACAC
Found at i:50778527 original size:30 final size:30
Alignment explanation
Indices: 50778459--50778527 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
50778449 TAAATAATTC
* *
50778459 ATATTTTTATAAATTTTAAAAAATTAAATT
1 ATATTTTTATAAATTTTAAAAAAATAAAAT
* * *
50778489 AAAATTTTAT-TATTTTAAAAATAATAAAAT
1 ATATTTTTATAAATTTTAAAAA-AATAAAAT
50778519 ATATTTTTA
1 ATATTTTTA
50778528 CTTTTATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
ATATTTTTATAAATTTTAAAAAAATAAAAT
Found at i:50778879 original size:23 final size:22
Alignment explanation
Indices: 50778847--50778906 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
50778837 GGTCCGGCCT
*
50778847 ATTT-TTTTAATAAATATCAAAA
1 ATTTATTTTAA-AAATATAAAAA
50778869 ATTTATTTTAAAAAT-TAAAAA
1 ATTTATTTTAAAAATATAAAAA
**
50778890 AAATATTTTAAAAATAT
1 ATTTATTTTAAAAATAT
50778907 TTTAAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
22 9 0.27
23 6 0.18
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTATTTTAAAAATATAAAAA
Found at i:50778902 original size:11 final size:11
Alignment explanation
Indices: 50778888--50778993 Score: 97
Period size: 11 Copynumber: 10.4 Consensus size: 11
50778878 AAAAATTAAA
50778888 AAAAATATTTT
1 AAAAATATTTT
50778899 AAAAATATTTT
1 AAAAATATTTT
50778910 --AAA-A--TT
1 AAAAATATTTT
50778916 AAAAA-ATTTT
1 AAAAATATTTT
50778926 AAAAAGTATTTT
1 AAAAA-TATTTT
50778938 AAAAATATTTT
1 AAAAATATTTT
*
50778949 --AAA-ATTTA
1 AAAAATATTTT
* *
50778957 AAAAATA-ATA
1 AAAAATATTTT
50778967 AAAAAGTATTTT
1 AAAAA-TATTTT
50778979 AAAAATATTTT
1 AAAAATATTTT
50778990 AAAA
1 AAAA
50778994 TTAAAAAATT
Statistics
Matches: 80, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
6 2 0.03
8 9 0.11
9 6 0.08
10 17 0.21
11 30 0.38
12 16 0.20
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:50778923 original size:39 final size:39
Alignment explanation
Indices: 50778878--50779010 Score: 205
Period size: 39 Copynumber: 3.4 Consensus size: 39
50778868 AATTTATTTT
50778878 AAAAATTAAAAAAAATATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAAAAAATATTTTAAAAATATTTTAAAATTA
** *
50778917 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTTA
1 AAAAATTAAAAAAAATATTTTAAAAATATTTTAAAA-TTA
50778957 AAAAA-TAATAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAA-AAAAAA-TATTTTAAAAATATTTTAAAATTA
50778997 AAAAATTAAAAAAA
1 AAAAATTAAAAAAA
50779011 TAAATATATT
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
39 34 0.40
40 26 0.31
41 24 0.29
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
AAAAATTAAAAAAAATATTTTAAAAATATTTTAAAATTA
Found at i:50778924 original size:16 final size:17
Alignment explanation
Indices: 50778897--50778929 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
50778887 AAAAAATATT
50778897 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
50778914 TTAAAAA-ATTTTAAAA
1 TTAAAAATATTTTAAAA
50778930 AGTATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:50778959 original size:30 final size:31
Alignment explanation
Indices: 50778918--50778982 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
50778908 TTAAAATTAA
* * *
50778918 AAAATTTTAAAAAGTATTTTAAAAA-TATTTT
1 AAAATTTTAAAAAATA-ATAAAAAAGTATTTT
50778949 AAAA-TTTAAAAAATAATAAAAAAGTATTTT
1 AAAATTTTAAAAAATAATAAAAAAGTATTTT
50778979 AAAA
1 AAAA
50778983 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 6 0.20
30 20 0.67
31 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (31 bp):
AAAATTTTAAAAAATAATAAAAAAGTATTTT
Found at i:50786154 original size:162 final size:162
Alignment explanation
Indices: 50785887--50786179 Score: 451
Period size: 162 Copynumber: 1.8 Consensus size: 162
50785877 AGCACCAACA
* * * *
50785887 AAGAGATATTTCAAATTATTGCAGCCTGTAACTTTTACTTCCCTTAGGCATTGAAAGCTTATGTT
1 AAGAGATATTTCAAATCATTGCAGCCTGTAACTTGTACTTCCCTTAAGCATTGAAAGCTTATGAT
** * * *
50785952 TGATACTTGTGGGTCTTGGATTATTTCTTTCAATCCAAAGCACCTTTCTATCTTCAGAGTTTGTA
66 TGATACTTGACGGTCTTGGATTATTTCTTCCAACCCAAAGCACCTCTCTATCTTCAGAGTTTGTA
50786017 ATTGCCCAAGGTTATTAGAAGCAGACATTGGG
131 ATTGCCCAAGGTTATTAGAAGCAGACATTGGG
**
50786049 AAGAGATATTTCAAATCATTGCATTCTGTAACTTGTACTTCCCTTAAGCATTGAAAGCTTATGAT
1 AAGAGATATTTCAAATCATTGCAGCCTGTAACTTGTACTTCCCTTAAGCATTGAAAGCTTATGAT
* * * *
50786114 TGATATTTGACTGTCTTGGATTATTTCTTCCAACCCAAAGCACCTCTCTATCTTTAGCGTTTGTA
66 TGATACTTGACGGTCTTGGATTATTTCTTCCAACCCAAAGCACCTCTCTATCTTCAGAGTTTGTA
50786179 A
131 A
50786180 ACTGGGCGCA
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
162 116 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (162 bp):
AAGAGATATTTCAAATCATTGCAGCCTGTAACTTGTACTTCCCTTAAGCATTGAAAGCTTATGAT
TGATACTTGACGGTCTTGGATTATTTCTTCCAACCCAAAGCACCTCTCTATCTTCAGAGTTTGTA
ATTGCCCAAGGTTATTAGAAGCAGACATTGGG
Done.